Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 254 of 295
Found at i:87462175 original size:9 final size:9
Alignment explanation
Indices: 87462163--87462192 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
87462153 CACGATTCTA
87462163 TCTTAGCTT
1 TCTTAGCTT
*
87462172 TCTTAGCTA
1 TCTTAGCTT
87462181 TCTTAGCTT
1 TCTTAGCTT
87462190 TCT
1 TCT
87462193 CCACTAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.13, C:0.23, G:0.10, T:0.53
Consensus pattern (9 bp):
TCTTAGCTT
Found at i:87474403 original size:43 final size:44
Alignment explanation
Indices: 87474292--87474441 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 44
87474282 AATGCCAACA
* *
87474292 TCCCAGACGTGGTCTTACATGT-AATCAAATATCGACGCCATTG
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGACGCCATTG
* * * *
87474335 TCCCAGACAGGGTCTTACAC-AAAATCAAATAT-GATGTCGA-TG
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGACG-CCATTG
* * **
87474377 TCCTAGACATGGTCTTACACGTAAATCATAAT-TCGATGCCAACG
1 TCCCAGACATGGTCTTACACGTAAATCA-AATATCGACGCCATTG
* **
87474421 TCCCATATGTGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
87474442 AAAACACATA
Statistics
Matches: 86, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 23 0.27
43 38 0.44
44 25 0.29
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATATCGACGCCATTG
Found at i:87487941 original size:43 final size:42
Alignment explanation
Indices: 87487880--87487989 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
87487870 AAATGCCAAC
*
87487880 GTCCCAGACATGGTCTTACATGTAATCAAATATCAAAGCC-ACT
1 GTCCCAGACATGGTCTTACACGTAATCAAATA-CAAAGCCGA-T
* * *
87487923 GTCCCAGACAGGGTCTTACACGAAATCAAATACAATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATACAAAGCCGAT
87487965 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACATGGTCTTACACGTAA
87487990 ATCATAAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATACAAAGCCGAT
Found at i:87487981 original size:42 final size:42
Alignment explanation
Indices: 87487871--87488033 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
87487861 AAGCTCATAA
* *
87487871 AATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATC
1 AATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATA-C
* *
87487914 AAAGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATAC
1 AATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATAC
* *
87487956 AATGCCGATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-C
1 AATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AA-TAC
* * * *
87488000 AATGCCAACATCCCATACGTGGTCTTACTCGAAA
1 AATGCCAACGTCCCAGACATGGTCTTACACGAAA
87488034 AAACATATCG
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.28
43 44 0.43
44 28 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
AATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATAC
Found at i:87498071 original size:9 final size:9
Alignment explanation
Indices: 87498059--87498085 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
87498049 GAAGATGAAG
87498059 AAGGAAAAT
1 AAGGAAAAT
87498068 AAGGAAAAT
1 AAGGAAAAT
87498077 AAGGAAAAT
1 AAGGAAAAT
87498086 GAAACATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (9 bp):
AAGGAAAAT
Found at i:87504105 original size:38 final size:39
Alignment explanation
Indices: 87504063--87504162 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
87504053 ATAGTGATCG
** * * *
87504063 GAAGCCCGAAGTTTAGCTGAAGCACATAAGT-TTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
*
87504101 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
87504140 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
87504163 TCATCAGAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
38 27 0.49
39 28 0.51
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
Found at i:87504149 original size:39 final size:38
Alignment explanation
Indices: 87504061--87504162 Score: 141
Period size: 38 Copynumber: 2.7 Consensus size: 38
87504051 ACATAGTGAT
** * * *
87504061 CGGAAGCCCGAAGTTTAGCTGAAGCACATAAGTTTAAA
1 CGGAAGCCCGAAGGCTAACTGAAGCACACAAGTCTAAA
*
87504099 CAGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAA
1 CGGAAGCCCGAAGGCTAACTGAAGCACACAAGT-CTAAA
87504138 CGGAAGCCCGAAGGCTAACTGAAGC
1 CGGAAGCCCGAAGGCTAACTGAAGC
87504163 TCATCAGAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
38 28 0.50
39 28 0.50
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (38 bp):
CGGAAGCCCGAAGGCTAACTGAAGCACACAAGTCTAAA
Found at i:87507072 original size:48 final size:48
Alignment explanation
Indices: 87507014--87507346 Score: 291
Period size: 48 Copynumber: 6.9 Consensus size: 48
87507004 AGGGTAAATT
* * *
87507014 GCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTTACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAG
* * * * * *
87507062 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATCGAG
* * * * *
87507110 GCCGATACTATGTCCCAGACATGGTCTTACACTGGCTCTA-ATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATCGAG
* ** * * *
87507158 GCCGATGCCATG-CCTCAGACATGGTCTTACACTAGCACACACATCAAT
1 GCCGATGCCATGTCC-CAGACATGGTCTTACACTGGCTTACATATCGAG
* *
87507206 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTACAACATC-A-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTTAC-ATATCGAG
* * * * *
87507255 -CCGATGCCATGTTCCAAACATGGTCTTACACTGGATTTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAG
* * **
87507302 GTCGACGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATC
87507347 ACCTAAATGT
Statistics
Matches: 226, Mismatches: 48, Indels: 22
0.76 0.16 0.07
Matches are distributed among these distances:
45 4 0.02
46 3 0.01
47 3 0.01
48 204 0.90
49 3 0.01
50 4 0.02
51 5 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAG
Found at i:87507276 original size:144 final size:143
Alignment explanation
Indices: 87507014--87507347 Score: 350
Period size: 144 Copynumber: 2.3 Consensus size: 143
87507004 AGGGTAAATT
* * * * ** ** * * *
87507014 GCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTTACATGTCGAGGCCAATGCCATGTCCCA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAATGCCGATGCCATGTCCCA
* * * *
87507079 GACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACTATGTCCCAGACATGGTCTTACACTG
66 GACATGGTCTTACACTAGCTCTC-TCACAATACCGATACCATGTCCCAAACATGGTCTTACACTG
* * *
87507144 GCTCTAATGTTGTG
130 GATCTAATATCGTG
* *
87507158 GCCGATGCCATG-CCTCAGACATGGTCTTACACTAGCACACACATCAATGCCGATGCCATGTCCT
1 GCCGACGCCATGTCC-CAGACATGGTCTTACACTAGCACACACATCAATGCCGATGCCATGTCCC
* * *
87507222 AGACATGGTCTTACACTGGCTCT-T-ACAACATCACCGATGCCATGTTCCAAACATGGTCTTACA
65 AGACATGGTCTTACACTAGCTCTCTCAC-A-AT-ACCGATACCATGTCCCAAACATGGTCTTACA
* *
87507285 CTGGATTTCATATCGTG
127 CTGGATCTAATATCGTG
* * *
87507302 GTCGACGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCA
87507348 CCTAAATGTC
Statistics
Matches: 158, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
141 1 0.01
142 2 0.01
143 4 0.03
144 149 0.94
145 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (143 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAATGCCGATGCCATGTCCCA
GACATGGTCTTACACTAGCTCTCTCACAATACCGATACCATGTCCCAAACATGGTCTTACACTGG
ATCTAATATCGTG
Found at i:87509401 original size:93 final size:93
Alignment explanation
Indices: 87509289--87509460 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
87509279 CGCCCATAAG
*
87509289 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
87509353 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
87509382 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87509447 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
87509461 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:87509455 original size:46 final size:46
Alignment explanation
Indices: 87509282--87509457 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
87509272 TGTAACCCGC
* *
87509282 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
87509328 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
87509378 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
87509421 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
87509458 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87516972 original size:93 final size:93
Alignment explanation
Indices: 87516860--87517031 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
87516850 CGCCCATAAG
*
87516860 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
87516924 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
87516953 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87517018 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
87517032 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:87517026 original size:46 final size:46
Alignment explanation
Indices: 87516853--87517028 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
87516843 TGTAACCCGC
* *
87516853 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
87516899 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
87516949 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
87516992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
87517029 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87525411 original size:144 final size:143
Alignment explanation
Indices: 87525146--87525432 Score: 364
Period size: 144 Copynumber: 2.0 Consensus size: 143
87525136 TAGGGTGAAT
* *
87525146 TGCCAATGCCATGTCCCAGACATGGCCTTACACTAGCTTACATGTCGAGGCCAATGCCATGTCCC
1 TGCCAATGCCATGTCCCAGACATGGCCTTACACTAGCTTACA-GACGACGCCAATGCCATGTCCC
* * *
87525211 AGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGTCGTACACT
65 AAACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCCAGAAATGGTCGTACACT
87525276 AGCACACACATCAA
130 AGCACACACATCAA
* *** * *
87525290 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-AC-ATCGTTTATGTCATGTT
1 TGCCAATGCCATGTCCCAGACATGGCCTTACACTAGCT-T-ACAGACGA-CGCCAATGCCATGTC
* * *
87525353 CCAAACATGGTCTTACACTGGCTCTCATATC-ATGGTCGATGCCATGTCCCAGAAATGGTCTTAC
63 CCAAACATGGTCTTACACTAGCTCTCATATCAAT-GCCGATGCCATGTCCCAGAAATGGTCGTAC
* *
87525417 ACTGGCACACATATCA
127 ACTAGCACACACATCA
87525433 CCCAAATGTC
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
143 3 0.02
144 116 0.94
145 1 0.01
146 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (143 bp):
TGCCAATGCCATGTCCCAGACATGGCCTTACACTAGCTTACAGACGACGCCAATGCCATGTCCCA
AACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCCAGAAATGGTCGTACACTA
GCACACACATCAA
Found at i:87525422 original size:48 final size:48
Alignment explanation
Indices: 87525146--87525419 Score: 302
Period size: 48 Copynumber: 5.7 Consensus size: 48
87525136 TAGGGTGAAT
* * *
87525146 TGCCAATGCCATGTCCCAGACATGGCCTTACACTAGCT-TACATGTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATATCAA
* *
87525194 GGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
* * * * *
87525242 TGCCGATGCCATGTCCCAGACATGGTCGTACACTAGCACACACATCAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
* *
87525290 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAAC-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
*** * * * *
87525337 TCGTTTATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-A
1 T-GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
* * *
87525385 TGGTCGATGCCATGTCCCAGAAATGGTCTTACACT
1 T-GCCAATGCCATGTCCCAGACATGGTCTTACACT
87525420 GGCACACATA
Statistics
Matches: 192, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 2 0.01
48 189 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
Found at i:87526829 original size:26 final size:26
Alignment explanation
Indices: 87526799--87526852 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
87526789 CATTCAGGGA
*
87526799 ATTATTTGTAAGGATATAGGTGATTT
1 ATTATTTGTAAGGATATAAGTGATTT
87526825 ATTATTTGTAAGGATATAAGTGATTT
1 ATTATTTGTAAGGATATAAGTGATTT
87526851 AT
1 AT
87526853 AACTCTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (26 bp):
ATTATTTGTAAGGATATAAGTGATTT
Found at i:87531122 original size:30 final size:30
Alignment explanation
Indices: 87531086--87531154 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
87531076 GTCACCACTA
* *
87531086 ACCATTTTCCGTTATAGACGTAACGAAGCT
1 ACCATTTTCCGTTACAAACGTAACGAAGCT
* *
87531116 ACCATTTTCCGTTACAAACTTAACGGAGCT
1 ACCATTTTCCGTTACAAACGTAACGAAGCT
*
87531146 GCCATTTTC
1 ACCATTTTC
87531155 TTTCCCCCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
ACCATTTTCCGTTACAAACGTAACGAAGCT
Found at i:87533932 original size:10 final size:10
Alignment explanation
Indices: 87533919--87533953 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
87533909 ACAATTATTA
87533919 ATATA-ATAT
1 ATATACATAT
87533928 AATATACATAT
1 -ATATACATAT
87533939 ATATACATAT
1 ATATACATAT
87533949 ATATA
1 ATATA
87533954 ACATGTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:87534490 original size:2 final size:2
Alignment explanation
Indices: 87534483--87534507 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87534473 AAGGAGATTA
87534483 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
87534508 TTGGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:87534870 original size:27 final size:27
Alignment explanation
Indices: 87534832--87534890 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
87534822 GGTTCAACAG
*
87534832 ATAATACTTTATAGCAGACTTAATTTA
1 ATAATACATTATAGCAGACTTAATTTA
87534859 ATAATACATTATAGCAGACTTAATTTA
1 ATAATACATTATAGCAGACTTAATTTA
87534886 ATAAT
1 ATAAT
87534891 CCTTACATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (27 bp):
ATAATACATTATAGCAGACTTAATTTA
Found at i:87536745 original size:66 final size:66
Alignment explanation
Indices: 87536639--87536771 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
87536629 CATGCTCAGC
* *
87536639 TGCTAAGGAGAAAACCACAAAGGGATGGTTTATAGACAGTGGCTGCACAAATCAAATGACACCAG
1 TGCTAAGGAGAAAACCACAAAGGGATAGCTTATAGACAGTGGCTGCACAAATCAAATGACACCAG
87536704 A
66 A
** * *
87536705 TGCTAAGGAGAAGGCCACAAAGGGATAGCTTATAGACAGTGGCTGCACAAATCACATGACATCAG
1 TGCTAAGGAGAAAACCACAAAGGGATAGCTTATAGACAGTGGCTGCACAAATCAAATGACACCAG
87536770 A
66 A
87536771 T
1 T
87536772 ATTTCAATCT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (66 bp):
TGCTAAGGAGAAAACCACAAAGGGATAGCTTATAGACAGTGGCTGCACAAATCAAATGACACCAG
A
Found at i:87542070 original size:26 final size:26
Alignment explanation
Indices: 87542041--87542091 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
87542031 ACAGACACTA
*
87542041 TTTGGTAAATGTGTTTATGTGAACAG
1 TTTGGTAAATATGTTTATGTGAACAG
87542067 TTTGGTAAATATGTTTATGTGAACA
1 TTTGGTAAATATGTTTATGTGAACA
87542092 AACTTCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (26 bp):
TTTGGTAAATATGTTTATGTGAACAG
Found at i:87542729 original size:30 final size:30
Alignment explanation
Indices: 87542695--87542754 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
87542685 TATTTTATTA
87542695 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
87542725 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
87542755 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:87545710 original size:12 final size:13
Alignment explanation
Indices: 87545698--87545740 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
87545688 AGTTTGGAAA
*
87545698 TGTTTTTGAAAAT
1 TGTTTTTGAAAAG
*
87545711 TATTTTTGAAAAG
1 TGTTTTTGAAAAG
*
87545724 TG-TTGTGAAAAG
1 TGTTTTTGAAAAG
87545736 TGTTT
1 TGTTT
87545741 AGCATTGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (13 bp):
TGTTTTTGAAAAG
Found at i:87545996 original size:33 final size:35
Alignment explanation
Indices: 87545901--87545997 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
87545891 TTAATATTTT
*
87545901 AATATATAAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
87545936 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
87545969 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
87545998 ATATAATTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:87548697 original size:22 final size:22
Alignment explanation
Indices: 87548669--87548712 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
87548659 GTTCGATGGT
87548669 TTCACAAATTCCAATCTGTGGC
1 TTCACAAATTCCAATCTGTGGC
*
87548691 TTCACAAATTTCAATCTGTGGC
1 TTCACAAATTCCAATCTGTGGC
87548713 AAGTTCGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (22 bp):
TTCACAAATTCCAATCTGTGGC
Found at i:87550182 original size:27 final size:26
Alignment explanation
Indices: 87550133--87550187 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
87550123 TTGAGTATGC
* *
87550133 TACTTATTTTAGTTAAATTTAAAAGA
1 TACTTATTTCAGTAAAATTTAAAAGA
87550159 TACTTATTTCAGTCAAAATTTAAAAGA
1 TACTTATTTCAGT-AAAATTTAAAAGA
87550186 TA
1 TA
87550188 ATCTCCCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (26 bp):
TACTTATTTCAGTAAAATTTAAAAGA
Found at i:87554856 original size:34 final size:34
Alignment explanation
Indices: 87554813--87554881 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
87554803 GCAATTCCTT
*
87554813 AGTAAAAATATATGCTAAATTATCATTAAAACGA
1 AGTAAAAATATATGCTAAATTATCACTAAAACGA
87554847 AGTAAAAATATATGCTAAATTATCACTAAAACGA
1 AGTAAAAATATATGCTAAATTATCACTAAAACGA
87554881 A
1 A
87554882 TTTATTAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.28
Consensus pattern (34 bp):
AGTAAAAATATATGCTAAATTATCACTAAAACGA
Found at i:87559799 original size:22 final size:23
Alignment explanation
Indices: 87559763--87559806 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
87559753 CTATTTTTAT
*
87559763 AAAATCATAAAAAATTGTAAAAA
1 AAAATCATAAAAAATTATAAAAA
*
87559786 AAAATCAT-ACAAATTATAAAA
1 AAAATCATAAAAAATTATAAAA
87559807 TTAATTCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAATCATAAAAAATTATAAAAA
Found at i:87563337 original size:44 final size:42
Alignment explanation
Indices: 87563202--87563359 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
87563192 AGCTCGTACA
* ** * *
87563202 ATGCCAACATCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGATGTGGTCTTACACGAAATCAAATA-CG
* * *** *
87563245 ATGTCACTATCCCAGACAAGGTCTTACATGAAATCAAATACG
1 ATGCCAATATCCCAGATGTGGTCTTACACGAAATCAAATACG
* * *
87563287 ATGCCAATGTCCTAGGTGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATATCCCAGATGTGGTCTTACACG-AAATCA-AA-TACG
87563331 ATGCCAATATCCCAGATGTGGTCTTACAC
1 ATGCCAATATCCCAGATGTGGTCTTACAC
87563360 AAGAACACAT
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 23 0.24
43 41 0.43
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCAATATCCCAGATGTGGTCTTACACGAAATCAAATACG
Found at i:87567291 original size:13 final size:13
Alignment explanation
Indices: 87567273--87567309 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
87567263 ATCCAACCCT
87567273 AAATATAGATACA
1 AAATATAGATACA
87567286 AAATATAGATACA
1 AAATATAGATACA
* *
87567299 ATATACAGATA
1 AAATATAGATA
87567310 TAGAAATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
AAATATAGATACA
Found at i:87571918 original size:56 final size:56
Alignment explanation
Indices: 87571830--87571943 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
87571820 TGAAGAATCC
* *
87571830 TTATAATCAAGGATTGAATCAATCCTAGATAAAGAAACAAATAAAATCTCATCAAA
1 TTATAATCAAGGATTGAATCAATCATAAATAAAGAAACAAATAAAATCTCATCAAA
* * * *
87571886 TTATAATCAAGGTTTGACTCAATCATAAATAAAGAAAGAAATAAAATCTTATCAAA
1 TTATAATCAAGGATTGAATCAATCATAAATAAAGAAACAAATAAAATCTCATCAAA
87571942 TT
1 TT
87571944 TGTCTCAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (56 bp):
TTATAATCAAGGATTGAATCAATCATAAATAAAGAAACAAATAAAATCTCATCAAA
Found at i:87572541 original size:14 final size:15
Alignment explanation
Indices: 87572514--87572546 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
87572504 AAGAGAAGAT
*
87572514 AAAATTGTACAAGGA
1 AAAAATGTACAAGGA
87572529 AAAAATGTA-AAGGA
1 AAAAATGTACAAGGA
87572543 AAAA
1 AAAA
87572547 CAAACTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.15
Consensus pattern (15 bp):
AAAAATGTACAAGGA
Found at i:87572819 original size:45 final size:45
Alignment explanation
Indices: 87572760--87572856 Score: 149
Period size: 45 Copynumber: 2.1 Consensus size: 45
87572750 TATAAAGGAT
* * *
87572760 AAATACAAATTGTCCATCAAAATACAACCATCAGAATGATTCAACA
1 AAATA-AAACTGTCCATCAAAATACAACCATCAAAATGATCCAACA
*
87572806 AAATAAAACTGTCCATCAAAATACATCCATCAAAATGATCCAACA
1 AAATAAAACTGTCCATCAAAATACAACCATCAAAATGATCCAACA
87572851 AAATAA
1 AAATAA
87572857 TACCATCCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 42 0.89
46 5 0.11
ACGTcount: A:0.53, C:0.22, G:0.05, T:0.21
Consensus pattern (45 bp):
AAATAAAACTGTCCATCAAAATACAACCATCAAAATGATCCAACA
Found at i:87572836 original size:14 final size:14
Alignment explanation
Indices: 87572817--87572855 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
87572807 AATAAAACTG
87572817 TCCATCAAAATACA
1 TCCATCAAAATACA
*
87572831 TCCATCAAAAT-GA
1 TCCATCAAAATACA
*
87572844 TCCAACAAAATA
1 TCCATCAAAATA
87572856 ATACCATCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.21
Consensus pattern (14 bp):
TCCATCAAAATACA
Found at i:87572866 original size:45 final size:45
Alignment explanation
Indices: 87572772--87572867 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
87572762 ATACAAATTG
* * **
87572772 TCCATCAAAATACAACCATCAGAATGATTCAACAAAATAAAACTG
1 TCCATCAAAATACAACCATCAAAATGATCCAACAAAATAAAACCA
* *
87572817 TCCATCAAAATACATCCATCAAAATGATCCAACAAAATAATACCA
1 TCCATCAAAATACAACCATCAAAATGATCCAACAAAATAAAACCA
87572862 TCCATC
1 TCCATC
87572868 GTATGTTAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.49, C:0.26, G:0.04, T:0.21
Consensus pattern (45 bp):
TCCATCAAAATACAACCATCAAAATGATCCAACAAAATAAAACCA
Found at i:87578422 original size:40 final size:40
Alignment explanation
Indices: 87578363--87578447 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
87578353 CCTATTTACT
** *
87578363 TGAAGGATGAAACTGTAAAGAATTATACTTAGAAAAATCA
1 TGAAGGATGAAACCATAAAGAATTATAATTAGAAAAATCA
*
87578403 TGAAGGATGAAACCATAAAGAATTATAATTGGAAAAATCA
1 TGAAGGATGAAACCATAAAGAATTATAATTAGAAAAATCA
87578443 TGAAG
1 TGAAG
87578448 AGAAAGATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.24
Consensus pattern (40 bp):
TGAAGGATGAAACCATAAAGAATTATAATTAGAAAAATCA
Found at i:87582477 original size:16 final size:17
Alignment explanation
Indices: 87582441--87582477 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
87582431 AGATGAGGGA
87582441 AAATAACCCATAAAATC
1 AAATAACCCATAAAATC
*
87582458 -AATAACCCA-CAAATC
1 AAATAACCCATAAAATC
87582473 AAATA
1 AAATA
87582478 TTTCACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAACCCATAAAATC
Found at i:87591291 original size:29 final size:29
Alignment explanation
Indices: 87591249--87591306 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
87591239 AATTCTTATG
87591249 ATACAAATGACATGTCATTAGGGATTTCA
1 ATACAAATGACATGTCATTAGGGATTTCA
87591278 ATACAAATGACATGTCATTAGGGATTTCA
1 ATACAAATGACATGTCATTAGGGATTTCA
87591307 TGTTTCTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (29 bp):
ATACAAATGACATGTCATTAGGGATTTCA
Found at i:87596788 original size:98 final size:98
Alignment explanation
Indices: 87596619--87596815 Score: 394
Period size: 98 Copynumber: 2.0 Consensus size: 98
87596609 AAAGTTCCAT
87596619 AGCCATTTGATCCTTTTAACTAATGGAACTCTACCTTTCCACTTTTTACGATTTATTCATTTTTA
1 AGCCATTTGATCCTTTTAACTAATGGAACTCTACCTTTCCACTTTTTACGATTTATTCATTTTTA
87596684 CTTAATAAATCATGCAAACATCAAAATTTCTTC
66 CTTAATAAATCATGCAAACATCAAAATTTCTTC
87596717 AGCCATTTGATCCTTTTAACTAATGGAACTCTACCTTTCCACTTTTTACGATTTATTCATTTTTA
1 AGCCATTTGATCCTTTTAACTAATGGAACTCTACCTTTCCACTTTTTACGATTTATTCATTTTTA
87596782 CTTAATAAATCATGCAAACATCAAAATTTCTTC
66 CTTAATAAATCATGCAAACATCAAAATTTCTTC
87596815 A
1 A
87596816 AGAAATTTTG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (98 bp):
AGCCATTTGATCCTTTTAACTAATGGAACTCTACCTTTCCACTTTTTACGATTTATTCATTTTTA
CTTAATAAATCATGCAAACATCAAAATTTCTTC
Found at i:87608709 original size:23 final size:23
Alignment explanation
Indices: 87608679--87608725 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
87608669 AGTTGAAATA
87608679 ACATTAGATGTACTATCTAGTCT
1 ACATTAGATGTACTATCTAGTCT
87608702 ACATTAGATGTACTATCTAGTCT
1 ACATTAGATGTACTATCTAGTCT
87608725 A
1 A
87608726 TCTGATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (23 bp):
ACATTAGATGTACTATCTAGTCT
Found at i:87613270 original size:25 final size:25
Alignment explanation
Indices: 87613227--87613280 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
87613217 TCATTAGGGA
* * *
87613227 TTACTGATTTTCAGCTCGTGAGAGC
1 TTACTGATTATCAGATCGTAAGAGC
*
87613252 TTACTGATTATCATATCGTAAGAGC
1 TTACTGATTATCAGATCGTAAGAGC
87613277 TTAC
1 TTAC
87613281 CAATTCTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (25 bp):
TTACTGATTATCAGATCGTAAGAGC
Found at i:87617764 original size:16 final size:16
Alignment explanation
Indices: 87617745--87617775 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87617735 CTTCTTCACT
87617745 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
87617761 TACTTACTTACTTAA
1 TACTCACTTACTTAA
87617776 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:87617781 original size:20 final size:20
Alignment explanation
Indices: 87617742--87617781 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
87617732 AAACTTCTTC
* *
87617742 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
87617762 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
87617782 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:87618095 original size:53 final size:54
Alignment explanation
Indices: 87617988--87618221 Score: 225
Period size: 55 Copynumber: 4.4 Consensus size: 54
87617978 CATGACTTTT
* * *
87617988 CATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCATTGCCATGTCTTGA
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGA
* * *
87618037 CATGGTCTTATATGGTATCCTTGCCTTATG-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGA
* * * *
87618090 CATGGTCTTACATGAG-A-CCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATG-GTATCC-TTGCCTTAT-GAAACTTACCAATGCCATGCCTTGA
* * * *
87618145 CATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTGCCATGCATTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCAA-TGCCATGCCTTGA
*
87618200 CATGGTCTTACACGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
87618222 AAACCCTAAT
Statistics
Matches: 149, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 18 0.12
50 1 0.01
52 2 0.01
53 46 0.31
54 11 0.07
55 69 0.46
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGCCTTGA
Found at i:87618166 original size:108 final size:110
Alignment explanation
Indices: 87618014--87618211 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
87618004 ATCCTTTTGA
* * *
87618014 AACTTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
87618077 -TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTTCCTTATAGT
65 TTGCCATGCATTGGCATGGTCTTACATGAGACCTTTTCCTTATAGT
* * *
87618122 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
87618187 TGCCATGCATTGGCATGGTCTTACA
66 TGCCATGCATTGGCATGGTCTTACA
87618212 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 24 0.30
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCATTGGCATGGTCTTACATGAGACCTTTTCCTTATAGT
Found at i:87621707 original size:29 final size:30
Alignment explanation
Indices: 87621665--87621755 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 30
87621655 ACATGGCTTG
*
87621665 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
87621693 GAATGTGATTTGGGCCTA-ATGGGTCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
87621722 GAATGAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
87621750 GCATGT
1 GAATGT
87621756 ATGTAGACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 26 0.48
29 27 0.50
30 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:87622109 original size:27 final size:27
Alignment explanation
Indices: 87622050--87622150 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
87622040 ATAATAAAGG
* * * **
87622050 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCGAAATACCCTTGACCTGT
*
87622077 GAAATTACCGAAATACCCTTGACCTGT
1 AAAATTACCGAAATACCCTTGACCTGT
* * *
87622104 ACAATTACCGAAATACCCTCGACTTGT
1 AAAATTACCGAAATACCCTTGACCTGT
* *
87622131 AAAATTATCGAAATGCCCTT
1 AAAATTACCGAAATACCCTT
87622151 AGGGGCTAGA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGACCTGT
Found at i:87624392 original size:94 final size:93
Alignment explanation
Indices: 87624229--87624587 Score: 371
Period size: 94 Copynumber: 3.8 Consensus size: 93
87624219 TTTGTGCGCC
* * * *
87624229 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT-A
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGA
* *
87624293 GGACATGGCATCGGCATCCAGACGAGGGCT
66 -GACATGGCATCGGCATCAAGA-GAGTGCT
*
87624323 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGA
* *
87624388 GACATGGCATCGGCA-CAGAGATGAGTACC
66 GACATGGCATCGGCATCA-AGA-GAGTGCT
* * *
87624417 AGTGTAAGACATGTCTAGGACATGCATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
* *
87624478 CTGGGACA-CGCATCGGC-T-AAGAGTTA-TGCT
62 CTGAGACATGGCATCGGCATCAAGAG--AGTGCT
* *
87624508 AGTGTAAGACATGTTTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCATGTC
*
87624572 TGGGACATGGCATCGG
63 TGAGACATGGCATCGG
87624588 TAATATATCC
Statistics
Matches: 225, Mismatches: 23, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
90 1 0.00
91 32 0.14
92 15 0.07
93 27 0.12
94 133 0.59
95 17 0.08
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGA
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:87624479 original size:141 final size:140
Alignment explanation
Indices: 87624226--87624587 Score: 389
Period size: 141 Copynumber: 2.6 Consensus size: 140
87624216 TGATTTGTGC
* * **
87624226 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
* * *
87624291 TAGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA
66 TAGGACATGGCATCGGCATCCAGACGAGAGCCAGTGTAAGACATGTCTGGGACACGCATCAGCCA
87624356 TACTATGATA
131 TACTATGATA
87624366 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGG-CACAGAGATGAGTA-CCAGTGTAAGA-CA
1 GCCAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCACA-AGATGAG-AGCCAGTGTAAGACCA
* * *
87624428 TGTCTAGGACAT-GCATCGGCCTCGACAGA-GATAGCCAGTGTAAGACGTGTCTGGGACACGCAT
62 TGTCTAGGACATGGCATCGGCATC--CAGACGAGAGCCAGTGTAAGACATGTCTGGGACACGCAT
* ** *
87624491 C-GGC-TAAGA-GTTA
125 CAGCCATACTATGATA
* * * * * * *
87624504 TGCTAGTGTAAGACATGTTTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCAT
1 -GCCAGTGTAAGACATGTCTGAGACATGCATCGGC-CAC-AAGATGAGAGCCAGTGTAAGACCAT
*
87624569 GTCTGGGACATGGCATCGG
63 GTCTAGGACATGGCATCGG
87624588 TAATATATCC
Statistics
Matches: 187, Mismatches: 22, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
137 6 0.03
138 16 0.09
139 33 0.18
140 37 0.20
141 68 0.36
142 26 0.14
143 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
TAGGACATGGCATCGGCATCCAGACGAGAGCCAGTGTAAGACATGTCTGGGACACGCATCAGCCA
TACTATGATA
Found at i:87624527 original size:44 final size:46
Alignment explanation
Indices: 87624226--87624587 Score: 278
Period size: 47 Copynumber: 7.7 Consensus size: 46
87624216 TGATTTGTGC
* * *
87624226 GCCAGTGTAAGACATGTCTGGGACATGCTTCGG-C-CACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACA-GA-GATA
* * **
87624272 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC-CAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACAGA-GATA
* * *
87624320 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTA-TGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAC-AGAGATA
*
87624366 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGG---CACAGAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACAGAGAT-A
*
87624412 GTACCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGACAGAGATA
1 G--CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ACAGAGATA
* * *
87624461 GCCAGTGTAAGACGTGTCTGGGACACGCATCGG-CT-A-AGAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATA
* * * * ** * *
87624504 TGCTAGTGTAAGACATGTTTGGGACATGCATCAGCACGCGTATATGAGA
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCACAGA-GATA
87624553 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
87624588 TAATATATCC
Statistics
Matches: 254, Mismatches: 36, Indels: 48
0.75 0.11 0.14
Matches are distributed among these distances:
43 6 0.02
44 30 0.12
45 5 0.02
46 44 0.17
47 82 0.32
48 52 0.20
49 20 0.08
50 15 0.06
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATA
Found at i:87632172 original size:91 final size:95
Alignment explanation
Indices: 87632000--87632225 Score: 232
Period size: 91 Copynumber: 2.4 Consensus size: 95
87631990 GCCGTACTTT
* *
87632000 GATAGCAAGTGTAAGACCATGTCTGTGACATGGCATCGGTACAGAGATGAGTGCCAGTATAAGAC
1 GATAGCAAGTGTAAGACCATGTCTGGGACATCGCATCGGTACAGAGATGAGTGCCAGTATAAGAC
87632065 ATGTCTGGGACATGCATTGGCCTCGACAGA
66 ATGTCTGGGACATGCATTGGCCTCGACAGA
* * * * *
87632095 GATAGCCAGTGTAAGA-CGTGTCTGGGACA-CGCATCGGCTA-AGAG-T-TGTGCTAGTGTAAGA
1 GATAGCAAGTGTAAGACCATGTCTGGGACATCGCATCGG-TACAGAGATGAGTGCCAGTATAAGA
* ** * *
87632155 CATGTCTGGGATATGCATCAGCATGCGTATATGA
65 CATGTCTGGGACATGCATTGGCCT-CG-ACA-GA
* * *
87632189 G--AGCCAGCGTAAGACCATGTCTGGGACATGGCATCGG
1 GATAGCAAGTGTAAGACCATGTCTGGGACATCGCATCGG
87632226 CAATATATCC
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
91 32 0.29
92 15 0.14
93 25 0.23
94 23 0.21
95 15 0.14
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (95 bp):
GATAGCAAGTGTAAGACCATGTCTGGGACATCGCATCGGTACAGAGATGAGTGCCAGTATAAGAC
ATGTCTGGGACATGCATTGGCCTCGACAGA
Found at i:87632173 original size:44 final size:45
Alignment explanation
Indices: 87632007--87632173 Score: 160
Period size: 47 Copynumber: 3.6 Consensus size: 45
87631997 TTTGATAGCA
* *
87632007 AGTGTAAGACCATGTCTGTGACATGGCATCGG-TACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAGAG-T-TGTGCC
* * * *
87632055 AGTATAAGACATGTCTGGGACATGCATTGGCCTCGACAGAGAT-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CT--ACAGAGTTGTGCC
* * *
87632102 AGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGTGCC
*
87632146 AGTGTAAGACATGTCTGGGATATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
87632174 AGCATGCGTA
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 5 0.05
44 28 0.29
46 8 0.08
47 42 0.43
48 9 0.09
50 6 0.06
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGTGCC
Found at i:87643983 original size:16 final size:16
Alignment explanation
Indices: 87643964--87643994 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87643954 AAGAAGTGAA
87643964 ATAAGCATAAAAATAG
1 ATAAGCATAAAAATAG
*
87643980 ATAAGGATAAAAATA
1 ATAAGCATAAAAATA
87643995 AAGCAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (16 bp):
ATAAGCATAAAAATAG
Found at i:87645665 original size:20 final size:20
Alignment explanation
Indices: 87645614--87645668 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
87645604 AAAGCCACGT
* *
87645614 AGTATCGATATATTTACACA
1 AGTATCGATATTTTTACAAA
*
87645634 AGTGTCGATATTTTTACAAA
1 AGTATCGATATTTTTACAAA
87645654 AGTATCGATATTTTT
1 AGTATCGATATTTTT
87645669 TAGTTGGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
AGTATCGATATTTTTACAAA
Found at i:87653143 original size:32 final size:33
Alignment explanation
Indices: 87653080--87653143 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
87653070 CTATAGGCCA
*
87653080 TACTGTTATCTGAAAAAGGGCTAAGGCCCAGTT
1 TACTGTTATCTGAAAAAGGGCTAAGGACCAGTT
**
87653113 TACTG-TATTCTG-AAAAGGGCTTCGGACCAGT
1 TACTGTTA-TCTGAAAAAGGGCTAAGGACCAGT
87653144 ACCCGCTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAAGGGCTAAGGACCAGTT
Found at i:87660793 original size:13 final size:13
Alignment explanation
Indices: 87660775--87660800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87660765 TTTATTCTGG
87660775 TCTGATATGATAT
1 TCTGATATGATAT
87660788 TCTGATATGATAT
1 TCTGATATGATAT
87660801 ATATGTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TCTGATATGATAT
Found at i:87662575 original size:20 final size:20
Alignment explanation
Indices: 87662550--87662592 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
87662540 ATATGCTTAG
87662550 TAAGTTCGTATAACAGGAAT
1 TAAGTTCGTATAACAGGAAT
87662570 TAAGTTCGTATAACAGGAAT
1 TAAGTTCGTATAACAGGAAT
87662590 TAA
1 TAA
87662593 AACTTACCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (20 bp):
TAAGTTCGTATAACAGGAAT
Found at i:87663096 original size:75 final size:75
Alignment explanation
Indices: 87663006--87663154 Score: 264
Period size: 75 Copynumber: 2.0 Consensus size: 75
87662996 AGAGTTTTTA
87663006 CTCTGGAAGCTCATAGAGCCTTTC-AGATATCTCCAAAGAGATAATATCAGGGAGCTTTGGATAA
1 CTCTGGAAGCTCATAGAGCCTTTCAAG-TATCTCCAAAGAGATAATATCAGGGAGCTTTGGATAA
87663070 GGTAACAGAGG
65 GGTAACAGAGG
*
87663081 CTCTGGAAGCTCATAGAGCCTTTCAAGTATCTCCAAAGAGATAATATCAGGGAGCTTTGGATGAG
1 CTCTGGAAGCTCATAGAGCCTTTCAAGTATCTCCAAAGAGATAATATCAGGGAGCTTTGGATAAG
*
87663146 GTAATAGAG
66 GTAACAGAG
87663155 AGTTCAAGCG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 69 0.97
76 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (75 bp):
CTCTGGAAGCTCATAGAGCCTTTCAAGTATCTCCAAAGAGATAATATCAGGGAGCTTTGGATAAG
GTAACAGAGG
Found at i:87665554 original size:22 final size:21
Alignment explanation
Indices: 87665520--87665562 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
87665510 ATATAACAAA
*
87665520 TTATTAATATAATTAATATAAT
1 TTATTAATATAATAAAT-TAAT
* *
87665542 TTATTATTTTAATAAATTAAT
1 TTATTAATATAATAAATTAAT
87665563 ATTTCAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTAATATAATAAATTAAT
Found at i:87666766 original size:19 final size:19
Alignment explanation
Indices: 87666744--87666792 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
87666734 TATTTTATAA
* *
87666744 AAAATAATTTGATCAATTG
1 AAAATAATTTGATAAATAG
*
87666763 AAAATAACTTGATAAATAG
1 AAAATAATTTGATAAATAG
87666782 AAAATAATTTG
1 AAAATAATTTG
87666793 TATTCAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (19 bp):
AAAATAATTTGATAAATAG
Found at i:87666893 original size:73 final size:73
Alignment explanation
Indices: 87666813--87666965 Score: 297
Period size: 73 Copynumber: 2.1 Consensus size: 73
87666803 AAAATAAACC
87666813 TCTTTTTAAAAAATTGATTTACGCTTTTAAAAAACAAAAGACATTTTTTTGAAAATGAGTTCTTT
1 TCTTTTTAAAAAATTGATTTACGCTTTTAAAAAACAAAAGACATTTTTTTGAAAATGAGTTCTTT
87666878 TATGAATA
66 TATGAATA
87666886 TCTTTTTAAAAAATTGATTTACGCTTTTAAAAAACAAAAGACATTTTTTTGAAAATGAGTTCTTT
1 TCTTTTTAAAAAATTGATTTACGCTTTTAAAAAACAAAAGACATTTTTTTGAAAATGAGTTCTTT
87666951 TATGAATA
66 TATGAATA
*
87666959 TTTTTTT
1 TCTTTTT
87666966 TTTATAATTT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 79 1.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (73 bp):
TCTTTTTAAAAAATTGATTTACGCTTTTAAAAAACAAAAGACATTTTTTTGAAAATGAGTTCTTT
TATGAATA
Found at i:87667115 original size:21 final size:20
Alignment explanation
Indices: 87667089--87667128 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
87667079 CAATATTAAA
* *
87667089 TATTAATGTAATTTATTATTT
1 TATTAAAGT-ATTTAATATTT
87667110 TATTAAAGTATTTAATATT
1 TATTAAAGTATTTAATATT
87667129 GTAAGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TATTAAAGTATTTAATATTT
Found at i:87667402 original size:28 final size:28
Alignment explanation
Indices: 87667366--87667421 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
87667356 TATAATTTAA
* *
87667366 ATTAAGTTT-TAATTAGATATTATTTATT
1 ATTAAGTTTAT-ATAAGATATTAATTATT
87667394 ATTAAGTTTATATAAGATATTAATTATT
1 ATTAAGTTTATATAAGATATTAATTATT
87667422 TAAATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (28 bp):
ATTAAGTTTATATAAGATATTAATTATT
Found at i:87667541 original size:14 final size:15
Alignment explanation
Indices: 87667507--87667541 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
87667497 TTGTTTCACT
87667507 AAAAAATAACTTTTA
1 AAAAAATAACTTTTA
*
87667522 AGAAAATAA-TTTTA
1 AAAAAATAACTTTTA
87667536 AAAAAA
1 AAAAAA
87667542 ATATTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAAAATAACTTTTA
Found at i:87667557 original size:14 final size:15
Alignment explanation
Indices: 87667507--87667549 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
87667497 TTGTTTCACT
87667507 AAAAAATAACTTTT-A
1 AAAAAATAA-TTTTAA
*
87667522 AGAAAATAATTTTAA
1 AAAAAATAATTTTAA
87667537 AAAAAAT-ATTTTA
1 AAAAAATAATTTTA
87667550 GACAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAAAATAATTTTAA
Found at i:87675622 original size:20 final size:20
Alignment explanation
Indices: 87675584--87675623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87675574 AAAATTAATC
*
87675584 TTTAATTAAAAATTTTAAAT
1 TTTAATTAAAAATTGTAAAT
87675604 TTTACATTAAAAA-TGTAAAT
1 TTTA-ATTAAAAATTGTAAAT
87675624 AATTATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTAATTAAAAATTGTAAAT
Found at i:87676068 original size:9 final size:9
Alignment explanation
Indices: 87676050--87676081 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
87676040 TTTCTATTAA
*
87676050 ATTATTATT
1 ATTATCATT
87676059 ATTATCATT
1 ATTATCATT
87676068 ATTATCATT
1 ATTATCATT
87676077 ATTAT
1 ATTAT
87676082 TGTCTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTATCATT
Found at i:87681764 original size:21 final size:21
Alignment explanation
Indices: 87681738--87681778 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87681728 ATCTGCTCAA
* *
87681738 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
87681759 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
87681779 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:87685621 original size:14 final size:14
Alignment explanation
Indices: 87685602--87685631 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
87685592 TTGATAAATT
87685602 ACTAAAATGATCAA
1 ACTAAAATGATCAA
87685616 ACTAAAATGATCAA
1 ACTAAAATGATCAA
87685630 AC
1 AC
87685632 AGTCAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.07, T:0.20
Consensus pattern (14 bp):
ACTAAAATGATCAA
Found at i:87692081 original size:106 final size:105
Alignment explanation
Indices: 87691955--87692486 Score: 606
Period size: 106 Copynumber: 5.1 Consensus size: 105
87691945 TTTTAAAAAA
*
87691955 AAAACTCGTATTTTCGGAGAGCAAAAAATGTTTTTTAAAAAAAATTT-AATTTTTTTTGTACTGG
1 AAAACTCGTATTTTCGGAGAGCAAAAAATTTTTTTTAAAAAAAATTTGAATTTTTTTTGTACTGG
* * *
87692019 GTGCCGGCAATTGACAGGCCAGCAACAAAATTTTTTTTTT
66 GTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTT
* * *** * * * *
87692059 AAAAAACTCGTATTTTCAGAGAGTAAAAAA-AAATTTGAAACAAATTTTGAATTTTTTTTGTATT
1 --AAAACTCGTATTTTCGGAGAGCAAAAAATTTTTTTTAAAAAAAATTTGAATTTTTTTTGTACT
* * *
87692123 GGATGCCGGCCATTGACAGGCCAGTACCCGAAA-ATTTTTTTT
64 GGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTTT
* *
87692165 AAAACTCGTATTTTCGGGGAGTAAAAAATTTCTTTTTAAAAAAAATTTTGAATTTTTTTTTGTAC
1 AAAACTCGTATTTTCGGAGAGCAAAAAATTT-TTTTTAAAAAAAA-TTTGAA-TTTTTTTTGTAC
* * *
87692230 TGGGTGTCGGCCATTGACAGGCTAGTACCCAAA-TTTTTTTTT
63 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTT
* **
87692272 AAAACTCGTATTTTCGGAGAG--TAAAA--------AAAAAATTTTTGAATTTTTTTTGTACTGG
1 AAAACTCGTATTTTCGGAGAGCAAAAAATTTTTTTTAAAAAAAATTTGAATTTTTTTTGTACTGG
* * *
87692327 GTGCTGGCCATTAACAGGCTAGCACCCAAATTTTTTTTTTT
66 GTGCCGGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTTT
* * ** *
87692368 AAAATTGGTATTTTCGGAGAGCAAAATTTTTTTTTTAAAAAAAATTTGAATTTTTTTTGTACTTG
1 AAAACTCGTATTTTCGGAGAGCAAAAAATTTTTTTTAAAAAAAATTTGAATTTTTTTTGTACTGG
*
87692433 GTGCCGGCCATTGACAAGCCAGCACCCAAATTTTTTTTTT
66 GTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTT
87692473 AAAACTCGTATTTT
1 AAAACTCGTATTTT
87692487 GTATACCAAT
Statistics
Matches: 358, Mismatches: 50, Indels: 37
0.80 0.11 0.08
Matches are distributed among these distances:
94 41 0.11
95 6 0.02
96 34 0.09
98 2 0.01
104 26 0.07
105 38 0.11
106 133 0.37
107 40 0.11
108 38 0.11
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (105 bp):
AAAACTCGTATTTTCGGAGAGCAAAAAATTTTTTTTAAAAAAAATTTGAATTTTTTTTGTACTGG
GTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTT
Found at i:87692515 original size:106 final size:107
Alignment explanation
Indices: 87692296--87692519 Score: 265
Period size: 106 Copynumber: 2.1 Consensus size: 107
87692286 CGGAGAGTAA
* * *
87692296 AAAAAAAATTTTTGAATTTTTTTTGTACTGGGTGCTGGCCATTAACAGGCTAGCACCCAAATTTT
1 AAAAAAAA-TTTTGAATTTTTTTTGTACTGGGTGCCGGCCATTAACAAGCCAGCACCCAAATTTT
* * * ****
87692361 TTTTTTTAAAATTGGTATTTTCGGAGAGCAAAATTTTTTTTTT
65 TTTTTTTAAAACTCGTATTTTCGGAGACCAAAATACGATTTTT
* *
87692404 AAAAAAAA-TTTGAATTTTTTTTGTACTTGGTGCCGGCCATTGACAAGCCAGCACCCAAA-TTTT
1 AAAAAAAATTTTGAATTTTTTTTGTACTGGGTGCCGGCCATTAACAAGCCAGCACCCAAATTTTT
* *
87692467 TTTTTTAAAACTCGTATTTT-GTATACCAATATGATACGATTTTT
66 TTTTTTAAAACTCGTATTTTCGGAGACCAA-A--ATACGATTTTT
87692511 AAAAAAAAT
1 AAAAAAAAT
87692520 ACTCTGGTGC
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
104 6 0.06
105 23 0.23
106 46 0.47
107 15 0.15
108 8 0.08
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (107 bp):
AAAAAAAATTTTGAATTTTTTTTGTACTGGGTGCCGGCCATTAACAAGCCAGCACCCAAATTTTT
TTTTTTAAAACTCGTATTTTCGGAGACCAAAATACGATTTTT
Found at i:87693943 original size:45 final size:43
Alignment explanation
Indices: 87693870--87693958 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 43
87693860 GTCAAAGTAC
* *
87693870 AAATAATTAATAATAAATATTATATAATTTAGTTAAAATTAATAT
1 AAATAATTAATAATAAATACTATATAATTTAGCT-AAA-TAATAT
* *
87693915 AAATAATTTATAATAAATACTATGTAATTTAGCTAAATAATAT
1 AAATAATTAATAATAAATACTATATAATTTAGCTAAATAATAT
87693958 A
1 A
87693959 TCAAATTATC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 7 0.17
44 3 0.08
45 30 0.75
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.40
Consensus pattern (43 bp):
AAATAATTAATAATAAATACTATATAATTTAGCTAAATAATAT
Found at i:87694750 original size:19 final size:19
Alignment explanation
Indices: 87694726--87694762 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
87694716 CCCCACATTG
*
87694726 ATTTTTGACCCAATTATTA
1 ATTTTTAACCCAATTATTA
*
87694745 ATTTTTAACTCAATTATT
1 ATTTTTAACCCAATTATT
87694763 GCTTGATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTTTAACCCAATTATTA
Found at i:87695419 original size:5 final size:5
Alignment explanation
Indices: 87695409--87695437 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
87695399 ATTTTTTGAC
87695409 TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
87695438 AAAAATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (5 bp):
TCGAT
Found at i:87695725 original size:51 final size:52
Alignment explanation
Indices: 87695632--87695742 Score: 125
Period size: 51 Copynumber: 2.1 Consensus size: 52
87695622 TTTTGTTTTT
* * *
87695632 TGGGTGTTGAGAAACTGATGGCCGGCACATTTGTACCCGA-TTTAAAAAAAA
1 TGGGTGTTGAGAAACTGATGGCCAGCACACTTATACCCGATTTTAAAAAAAA
* * * * *
87695683 TGGGTGTTGGGACACTGATGGCTAGCACCCTTATACCTGATTTTTAAAAAAAA
1 TGGGTGTTGAGAAACTGATGGCCAGCACACTTATACCCGA-TTTTAAAAAAAA
*
87695736 TTGGTGT
1 TGGGTGT
87695743 GCTGGAATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 32 0.65
53 17 0.35
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (52 bp):
TGGGTGTTGAGAAACTGATGGCCAGCACACTTATACCCGATTTTAAAAAAAA
Found at i:87698118 original size:20 final size:20
Alignment explanation
Indices: 87698085--87698122 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87698075 AATTATAAAT
87698085 TAATAACAAAATTTCTAATA
1 TAATAACAAAATTTCTAATA
* *
87698105 TAATATCAAGATTTCTAA
1 TAATAACAAAATTTCTAA
87698123 CGAGATACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (20 bp):
TAATAACAAAATTTCTAATA
Found at i:87698755 original size:15 final size:15
Alignment explanation
Indices: 87698705--87698756 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
87698695 TATGTCTCAG
87698705 TTTACATTTTAGTCA
1 TTTACATTTTAGTCA
* **
87698720 TTT--ATGTTAGAAA
1 TTTACATTTTAGTCA
87698733 TGTTACATTTTAGTCA
1 T-TTACATTTTAGTCA
87698749 TTTACATT
1 TTTACATT
87698757 ATTATGTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 10 0.36
16 8 0.29
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (15 bp):
TTTACATTTTAGTCA
Found at i:87698796 original size:31 final size:31
Alignment explanation
Indices: 87698737--87698797 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
87698727 TAGAAATGTT
* * *
87698737 ACATTTTAGTCATTTACATTATTATGTTGTA
1 ACATTTTAGTCACTGACATTAATATGTTGTA
87698768 ACATTTTAGTCACTGAGCATTAAT-TGTTGT
1 ACATTTTAGTCACTGA-CATTAATATGTTGT
87698798 TAACGGTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (31 bp):
ACATTTTAGTCACTGACATTAATATGTTGTA
Found at i:87700584 original size:16 final size:16
Alignment explanation
Indices: 87700543--87700584 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
87700533 TAATTGACAA
*
87700543 TTTAAATATATTTTAT
1 TTTATATATATTTTAT
* *
87700559 TCTATTTATATTTTAT
1 TTTATATATATTTTAT
87700575 TTTATATATA
1 TTTATATATA
87700585 AATGTTAGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATATATATTTTAT
Found at i:87701087 original size:23 final size:23
Alignment explanation
Indices: 87701047--87701113 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
87701037 AAATGGAGGG
*
87701047 AGAAGCAAAAGAGAATAAAAAAAAA
1 AGAA-CAAAAAAG-ATAAAAAAAAA
***
87701072 CAGAA-AAAAAAGATAAAGTTAAA
1 -AGAACAAAAAAGATAAAAAAAAA
87701095 AGAACAAAAAAGA-AAAAAA
1 AGAACAAAAAAGATAAAAAA
87701114 TTAAATTGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
22 7 0.21
23 16 0.48
24 6 0.18
26 4 0.12
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.06
Consensus pattern (23 bp):
AGAACAAAAAAGATAAAAAAAAA
Found at i:87701616 original size:20 final size:19
Alignment explanation
Indices: 87701555--87701619 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
87701545 GACAATACAG
** *
87701555 ATTTTTAATTAATACTAAA
1 ATTTTTAACCAATACCAAA
* * *
87701574 AATTTTAACGAATACCAAT
1 ATTTTTAACCAATACCAAA
*
87701593 ATTTTTAACTCAATATCAAA
1 ATTTTTAAC-CAATACCAAA
87701613 ATTTTTA
1 ATTTTTA
87701620 TGGTGATACC
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTTTTAACCAATACCAAA
Found at i:87703576 original size:22 final size:22
Alignment explanation
Indices: 87703551--87703594 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
87703541 TAGTCATATA
87703551 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
87703573 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
87703595 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:87703654 original size:16 final size:17
Alignment explanation
Indices: 87703618--87703654 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
87703608 AATTTTATTT
*
87703618 TAATAATAAATTTTAAA
1 TAATAATAAATTGTAAA
87703635 -AATAAT-AATTGTAAA
1 TAATAATAAATTGTAAA
87703650 TAATA
1 TAATA
87703655 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTGTAAA
Found at i:87703707 original size:15 final size:15
Alignment explanation
Indices: 87703687--87703744 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
87703677 ATTCAATATT
87703687 AATATTTTAATAATA
1 AATATTTTAATAATA
*
87703702 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
87703721 AATATATTAATAATA
1 AATATTTTAATAATA
*
87703736 AATGTTTTA
1 AATATTTTA
87703745 TAGTATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:87706464 original size:34 final size:34
Alignment explanation
Indices: 87706418--87706486 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
87706408 TTTTTTAGTA
87706418 AATTAGCCGCTATAATTTACCCAAAAATGTATTT
1 AATTAGCCGCTATAATTTACCCAAAAATGTATTT
*
87706452 AATTAGCTGCTATAATTTACCCAAAAATGTATTT
1 AATTAGCCGCTATAATTTACCCAAAAATGTATTT
87706486 A
1 A
87706487 CTTTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (34 bp):
AATTAGCCGCTATAATTTACCCAAAAATGTATTT
Found at i:87706862 original size:58 final size:58
Alignment explanation
Indices: 87706783--87706908 Score: 166
Period size: 58 Copynumber: 2.2 Consensus size: 58
87706773 TTTTAATAAG
* * *
87706783 ATTATTATTAAAAATAATTTAATAAAAATAATA-AATAATTTAAGCATA-TTTTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATATAA-AATTGAAGAAAATTTTTAACATA
* * *
87706841 ATTATTATTAAATATAATTTAATAAAATAATATAAAATTGAATAAAATTTTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATATAAAATTGAAGAAAATTTTTAACATA
87706899 ATTATTATTA
1 ATTATTATTA
87706909 TATGAATTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
57 17 0.28
58 43 0.72
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATATAAAATTGAAGAAAATTTTTAACATA
Found at i:87706944 original size:58 final size:57
Alignment explanation
Indices: 87706783--87706945 Score: 127
Period size: 58 Copynumber: 2.8 Consensus size: 57
87706773 TTTTAATAAG
* ** ** *
87706783 ATTATTATTAAAAATAATTTAATAAAAATAATA-AATAATTTAAGCATA-TTTTAACATA
1 ATTATTATT-AATATAATTTAA-AAAAATAATATAA-AATACAATAAAATTTTTAACATA
* ** *
87706841 ATTATTATTAAATATAATTTAATAAAATAATATAAAATTGAATAAAATTTTTAATATA
1 ATTATTATT-AATATAATTTAAAAAAATAATATAAAATACAATAAAATTTTTAACATA
* *
87706899 ATTATTATT-ATATGAA-TTAAAAAATCATAATATATAATACTATAAAA
1 ATTATTATTAATAT-AATTTAAAAAA--ATAATATAAAATACAATAAAA
87706946 ATAATATATA
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
56 11 0.12
57 19 0.22
58 58 0.66
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (57 bp):
ATTATTATTAATATAATTTAAAAAAATAATATAAAATACAATAAAATTTTTAACATA
Found at i:87719989 original size:46 final size:44
Alignment explanation
Indices: 87719781--87719995 Score: 157
Period size: 46 Copynumber: 4.7 Consensus size: 44
87719771 ATGTTGATTC
* * *
87719781 CATGTCCCAGACATGGTCTTACACTGGCACATCTCATAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATCTAATGGCCGATG
* * * * *
87719826 CATGTCCTAGACATGTCTTGCACTGGCTTACGTTTCGA-GGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-T-CATCT-AATGGCCGATG
* * * * *
87719872 GATGTCCCAGACATGTCTTACGCTAGCACTCGTCTCAAT-GCTGATG
1 CATGTCCCAGACATGTCTTACACT-G-GCTCATCT-AATGGCCGATG
* *
87719918 CCATGTTCCAAACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCATC-TAA--TGGCCGATG
*
87719966 CATGTCCCAGACATGTCTTACACTAGCTCA
1 CATGTCCCAGACATGTCTTACACTGGCTCA
87719996 CACAAGTGAC
Statistics
Matches: 133, Mismatches: 24, Indels: 24
0.73 0.13 0.13
Matches are distributed among these distances:
44 12 0.09
45 17 0.13
46 60 0.45
47 28 0.21
48 16 0.12
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATCTAATGGCCGATG
Found at i:87728355 original size:40 final size:40
Alignment explanation
Indices: 87728304--87728498 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
87728294 AGATATAGCT
* *
87728304 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
*
87728344 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
*
87728384 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* * * * *
87728424 ACTCGCACAATTGCCTTCGGG-CTTAGCCCAG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAATA
* *
87728463 ACTAGCACAAATGCCTCCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
87728499 CATCCGAATT
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 30 0.22
40 105 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
Found at i:87731567 original size:51 final size:51
Alignment explanation
Indices: 87731512--87731611 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
87731502 CTACCACATA
*
87731512 ACATGTAA-CACATCCATAATGAATTCAGACCTCTCAACGAGCA-CGGATGTT
1 ACATG-AATCACATCCATAATGAACTCAGACCTCTCAACGAG-ATCGGATGTT
* * *
87731563 ACATGAATCGCATCCATTATGAACTCGGACCTCTCAACGAGATCGGATG
1 ACATGAATCACATCCATAATGAACTCAGACCTCTCAACGAGATCGGATG
87731612 CTCGTATCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 3 0.07
51 40 0.93
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCAGACCTCTCAACGAGATCGGATGTT
Found at i:87731635 original size:43 final size:43
Alignment explanation
Indices: 87731574--87731655 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
87731564 CATGAATCGC
*
87731574 ATCCATTATGAACTCGGACCTCTCAACGAGATCGGATGCTCGT
1 ATCCATAATGAACTCGGACCTCTCAACGAGATCGGATGCTCGT
* * * *
87731617 ATCCATAATGGACTCGGACCTCTTAACGAGCTTGGATGC
1 ATCCATAATGAACTCGGACCTCTCAACGAGATCGGATGC
87731656 CACATATCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (43 bp):
ATCCATAATGAACTCGGACCTCTCAACGAGATCGGATGCTCGT
Found at i:87739605 original size:43 final size:42
Alignment explanation
Indices: 87739543--87739629 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 42
87739533 CATGAATTGT
* *
87739543 ATCCATTATGAACTTAGACCTCTCAACAAGCTCGGATGCTCAC
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC-CAC
* *
87739586 ATCCATAATGAACTCAGACCTCTCAACGAGCTTGGATGCCAC
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCCAC
87739628 AT
1 AT
87739630 ATCTCACGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (42 bp):
ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCCAC
Found at i:87746434 original size:58 final size:56
Alignment explanation
Indices: 87746295--87746434 Score: 135
Period size: 57 Copynumber: 2.4 Consensus size: 56
87746285 ATTATTAACA
*
87746295 ATCCAGGCTAAATCCTTTATATAACGTATGCTCAGAGCAGCTCAATTAAGATTACC
1 ATCCAGGCTAAATCCTTTCTATAACGTATGCTCAGAGCAGCTCAATTAAGATTACC
* * * *
87746351 AGTCCAGGCTAAACCCTAATC-ATAACGTATGCTC-GAG-AGGT-ATTATATCAGGATTACCC
1 A-TCCAGGCTAAATCCT-TTCTATAACGTATGCTCAGAGCAGCTCA--AT-T-AAGATTA-CC
*
87746410 ATCCGGGCTAAATCCTTTCTATAAC
1 ATCCAGGCTAAATCCTTTCTATAAC
87746435 AAGGTCAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
54 1 0.01
55 3 0.04
56 6 0.09
57 30 0.44
58 25 0.37
59 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (56 bp):
ATCCAGGCTAAATCCTTTCTATAACGTATGCTCAGAGCAGCTCAATTAAGATTACC
Found at i:87750593 original size:30 final size:30
Alignment explanation
Indices: 87750559--87750619 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87750549 TCCTTAACTC
87750559 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
87750589 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
87750619 A
1 A
87750620 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:87755061 original size:30 final size:30
Alignment explanation
Indices: 87755027--87755087 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87755017 CCTTAAACTC
87755027 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
87755057 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
87755087 A
1 A
87755088 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:87758731 original size:17 final size:17
Alignment explanation
Indices: 87758711--87758769 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
87758701 TAAATAATAT
87758711 AAAATTATAAAATTTAA
1 AAAATTATAAAATTTAA
*
87758728 AAAATTA-AAAAATTAA
1 AAAATTATAAAATTTAA
** *
87758744 AATCTTATAAAAATTCAA
1 AAAATTAT-AAAATTTAA
87758762 AAAATTAT
1 AAAATTAT
87758770 TTAAATAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 13 0.39
17 7 0.21
18 13 0.39
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAATTTAA
Found at i:87758887 original size:14 final size:14
Alignment explanation
Indices: 87758868--87758896 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
87758858 GATTGTTAAG
87758868 AAAATTATTTTGCA
1 AAAATTATTTTGCA
87758882 AAAATTATTTTGCA
1 AAAATTATTTTGCA
87758896 A
1 A
87758897 CATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
AAAATTATTTTGCA
Found at i:87759259 original size:24 final size:24
Alignment explanation
Indices: 87759244--87759295 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87759234 AATCAAAGTC
87759244 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
87759268 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
87759292 AAAT
1 AAAT
87759296 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:87761730 original size:21 final size:22
Alignment explanation
Indices: 87761697--87761737 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
87761687 TTTATTCATA
87761697 ATTCACAAACCAAA-ACATAAC
1 ATTCACAAACCAAAGACATAAC
* *
87761718 ATTCATAAGCCAAAGACATA
1 ATTCACAAACCAAAGACATA
87761738 CAAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.24, G:0.05, T:0.17
Consensus pattern (22 bp):
ATTCACAAACCAAAGACATAAC
Found at i:87762586 original size:43 final size:44
Alignment explanation
Indices: 87762484--87762587 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 44
87762474 GTCCTTGACG
* *
87762484 TGGTCTTACATGT-AATCAAATATCGATGCCACTGTCCCAGACA
1 TGGTCTTACACGTAAATCAAATATCGATGCCACTGTCCCAAACA
*
87762527 GGGTCTTACACG-AAATCAAATA-CGATGCCGA-TGTCCCAAACA
1 TGGTCTTACACGTAAATCAAATATCGATGCC-ACTGTCCCAAACA
87762569 TGGTCTTACACGTAAATCA
1 TGGTCTTACACGTAAATCA
87762588 TAAGTCGATG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
TGGTCTTACACGTAAATCAAATATCGATGCCACTGTCCCAAACA
Found at i:87763091 original size:44 final size:42
Alignment explanation
Indices: 87762988--87763115 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 42
87762978 AGATAGATGT
* * * *
87762988 AATCAAATATCGATGCCATTGTCCTC-GATAGGGTTTTACATGA
1 AATCAAA-ATCGATGCCAATGTCC-CAGATATGGTCTTACACGA
87763031 AATCAAAATACGATGCCAATGTCCCAGATATGGTCTTACACGTA
1 AATCAAAAT-CGATGCCAATGTCCCAGATATGGTCTTACACG-A
* * * *
87763075 AATCATAAGTCGATGCCAACGTCCCAAATGTGGTCTTACAC
1 AATCA-AAATCGATGCCAATGTCCCAGATATGGTCTTACAC
87763116 AAAAACACAT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 3 0.04
43 33 0.45
44 34 0.47
45 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
AATCAAAATCGATGCCAATGTCCCAGATATGGTCTTACACGA
Found at i:87763528 original size:21 final size:21
Alignment explanation
Indices: 87763478--87763528 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
87763468 TTAGGGAATT
*
87763478 TTACAAA-TTAGCCCTCACAT
1 TTACAAATTTAGCCCTCACAC
* *
87763498 TTTCATATTTAGTCCCTCA-AC
1 TTACAAATTTAG-CCCTCACAC
87763519 TTACAAATTT
1 TTACAAATTT
87763529 CACATTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 5 0.21
21 13 0.54
22 6 0.25
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.39
Consensus pattern (21 bp):
TTACAAATTTAGCCCTCACAC
Found at i:87766639 original size:30 final size:29
Alignment explanation
Indices: 87766605--87766663 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
87766595 ATTTAATACG
87766605 AACTTTGAAAAAATTACACTTTTGCCCCTA
1 AACTTTG-AAAAATTACACTTTTGCCCCTA
* *
87766635 AACTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGAAAAATTACACTTTTGCCCCTA
87766664 GACTCGGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (29 bp):
AACTTTGAAAAATTACACTTTTGCCCCTA
Found at i:87773213 original size:43 final size:44
Alignment explanation
Indices: 87773111--87773214 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 44
87773101 GTCCTTGATG
*
87773111 TGGTCTTACATGT-AATCAAATATCAATGCCACTATCCCAGACA
1 TGGTCTTACATGTAAATCAAATATCAATGCCACTATCCCAAACA
* * * *
87773154 GGGTCTTACATG-AAATCAAATA-CGATTCCGA-TGTCCCAAACA
1 TGGTCTTACATGTAAATCAAATATCAATGCC-ACTATCCCAAACA
*
87773196 TGGTCTTACACGTAAATCA
1 TGGTCTTACATGTAAATCA
87773215 TAAGTCGATG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 24 0.47
43 27 0.53
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (44 bp):
TGGTCTTACATGTAAATCAAATATCAATGCCACTATCCCAAACA
Found at i:87777608 original size:16 final size:16
Alignment explanation
Indices: 87777558--87777609 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
87777548 TATTTACTTA
* *
87777558 AATATTAAATTATTTT
1 AATATTATATTATATT
87777574 AATAATTATTAATTAATATT
1 AAT-ATTA-T-ATT-ATATT
87777594 AATATTATATTATATT
1 AATATTATATTATATT
87777610 GTGAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 8 0.27
17 7 0.23
18 1 0.03
19 7 0.23
20 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATATTATATTATATT
Found at i:87778649 original size:15 final size:15
Alignment explanation
Indices: 87778626--87778680 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
87778616 ATGAATTTAC
*
87778626 TGAATTTATATTGAT
1 TGAAATTATATTGAT
*
87778641 TGAAATTATTTTGAT
1 TGAAATTATATTGAT
*
87778656 TGAAATTATATTAAT
1 TGAAATTATATTGAT
87778671 TG-AATTATAT
1 TGAAATTATAT
87778681 AATATATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 8 0.22
15 28 0.78
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (15 bp):
TGAAATTATATTGAT
Found at i:87788851 original size:19 final size:20
Alignment explanation
Indices: 87788827--87788868 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
87788817 ATGAAACGAG
87788827 AAATTGA-AT-TGAGAATTGA
1 AAATTGAGATATGAG-ATTGA
87788846 AAATTGAGATATGAGATTGA
1 AAATTGAGATATGAGATTGA
87788866 AAA
1 AAA
87788869 CATGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (20 bp):
AAATTGAGATATGAGATTGA
Found at i:87798856 original size:40 final size:40
Alignment explanation
Indices: 87798738--87798874 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
87798728 CGGATGATAA
* * * *
87798738 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
87798778 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
87798818 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
87798858 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
87798875 ATACTTGGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 15 0.19
40 63 0.78
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:87805652 original size:24 final size:24
Alignment explanation
Indices: 87805637--87805688 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87805627 AATCAAAGTC
87805637 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
87805661 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
87805685 AAAT
1 AAAT
87805689 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:87806781 original size:3 final size:3
Alignment explanation
Indices: 87806775--87806799 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
87806765 GAGGAGGAGG
87806775 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
87806800 ATGGACATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87808029 original size:14 final size:15
Alignment explanation
Indices: 87808010--87808040 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
87808000 TTTTTCAATA
87808010 TTTTATTTAA-AATT
1 TTTTATTTAATAATT
87808024 TTTTATTTAATAATT
1 TTTTATTTAATAATT
87808039 TT
1 TT
87808041 AAATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTATTTAATAATT
Found at i:87812154 original size:83 final size:83
Alignment explanation
Indices: 87812037--87812336 Score: 290
Period size: 83 Copynumber: 3.7 Consensus size: 83
87812027 AGCACGTGAA
* * ** *
87812037 AGCCAAATCAGCTACGT-CTCCGATTT-TCTCCTTGTAAGTACAAGGATGCCAAACCATCTT-AG
1 AGCCAAATCTGCTACGTCCT-CGATTTGT-TTCTTGTAAACACAAGAATGCCAAACCATCTTGA-
87812099 GACTGTTTGAGAACA-CTGGAG
63 GACTGTTTGAGAACATCT-GAG
* * **
87812120 AGCCAAATCTGCTACGTCCTTGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGAGTT
1 AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAACCATCTTGAGAC
87812185 TGTTTGAGAACATCTGAG
66 TGTTTGAGAACATCTGAG
* * *
87812203 AGTCC-AATCTGCTATGTCCTCGATTTG----TT-T-----CAAGAATGCCAAATCATCTTGAGT
1 AG-CCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAACCATCTTGAGA
*
87812257 TTGTTTGAGAACATCTGAG
65 CTGTTTGAGAACATCTGAG
* * *
87812276 AGTCC-AATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 AG-CCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAACCATCTTG
87812337 GATCTGCTTC
Statistics
Matches: 190, Mismatches: 12, Indels: 30
0.82 0.05 0.13
Matches are distributed among these distances:
73 70 0.37
77 2 0.01
78 2 0.01
79 2 0.01
83 106 0.56
84 8 0.04
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (83 bp):
AGCCAAATCTGCTACGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAACCATCTTGAGAC
TGTTTGAGAACATCTGAG
Found at i:87812247 original size:73 final size:73
Alignment explanation
Indices: 87812160--87812306 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
87812150 CTTGTAAACA
87812160 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
87812225 ATTTGTTT
66 ATTTGTTT
87812233 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
87812298 ATTTGTTT
66 ATTTGTTT
87812306 C
1 C
87812307 TTGTAAACAC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (73 bp):
CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCG
ATTTGTTT
Found at i:87813092 original size:119 final size:119
Alignment explanation
Indices: 87812262--87813063 Score: 1451
Period size: 119 Copynumber: 6.7 Consensus size: 119
87812252 TGAGTTTGTT
* * *
87812262 TGAGAACATCTGAGAGTCCAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
87812327 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
87812381 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
*
87812446 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
87812500 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
*
87812565 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * *
87812619 TGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGGTTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
* *
87812684 AATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCAATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
*
87812738 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
*
87812803 AATCATCTTGAATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
*
87812857 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
87812922 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
*
87812976 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
*
87813041 AATTATCTTGGATCTGCTTCAGT
66 AATCATCTTGGATCTGCTTCAGT
87813064 CTAATTGTAT
Statistics
Matches: 654, Mismatches: 29, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 654 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (119 bp):
TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
Found at i:87813911 original size:8 final size:8
Alignment explanation
Indices: 87813898--87813957 Score: 50
Period size: 8 Copynumber: 7.0 Consensus size: 8
87813888 TGGCCTCTCC
87813898 ATTTTTTT
1 ATTTTTTT
87813906 ATTTTTTTTT
1 A--TTTTTTT
87813916 ATTTTTTT
1 ATTTTTTT
87813924 ATTTTTATT
1 ATTTTT-TT
87813933 -TTTTTCTCT
1 ATTTTT-T-T
*
87813942 ATTTTTCT
1 ATTTTTTT
*
87813950 CTTTTTTT
1 ATTTTTTT
87813958 TTTGAAACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 27 0.63
9 3 0.07
10 13 0.30
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:87813928 original size:24 final size:26
Alignment explanation
Indices: 87813901--87813960 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 26
87813891 CCTCTCCATT
*
87813901 TTTTTATTTTTTT-T-TATTTTTTTA
1 TTTTTATTTTTTTCTCTATTTTTCTA
*
87813925 TTTTTATTTTTTTCTCTATTTTTCTC
1 TTTTTATTTTTTTCTCTATTTTTCTA
87813951 TTTTT-TTTTT
1 TTTTTATTTTT
87813961 GAAACATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 13 0.41
25 6 0.19
26 13 0.41
ACGTcount: A:0.08, C:0.07, G:0.00, T:0.85
Consensus pattern (26 bp):
TTTTTATTTTTTTCTCTATTTTTCTA
Found at i:87813930 original size:14 final size:14
Alignment explanation
Indices: 87813898--87813937 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
87813888 TGGCCTCTCC
*
87813898 ATTTTT-TTATTTT
1 ATTTTTATTTTTTT
87813911 -TTTTTATTTTTTT
1 ATTTTTATTTTTTT
87813924 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
87813938 CTCTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 13 0.54
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:87814121 original size:68 final size:68
Alignment explanation
Indices: 87814041--87814176 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
87814031 CTGAGTCTGA
87814041 ATTCACTGGATTGGGTAAACTTTTCCCATCCATTTCCGCCAAGATCAATGCACCACCGGAGAAAG
1 ATTCACTGGATTGGGTAAACTTTTCCCATCCATTTCCGCCAAGATCAATGCACCACCGGAGAAAG
87814106 CTT
66 CTT
87814109 ATTCACTGGATTGGGTAAACTTTTCCCATCCATTTCCGCCAAGATCAATGCACCACCGGAGAAAG
1 ATTCACTGGATTGGGTAAACTTTTCCCATCCATTTCCGCCAAGATCAATGCACCACCGGAGAAAG
87814174 CTT
66 CTT
87814177 TCTTCACGAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (68 bp):
ATTCACTGGATTGGGTAAACTTTTCCCATCCATTTCCGCCAAGATCAATGCACCACCGGAGAAAG
CTT
Found at i:87819098 original size:92 final size:91
Alignment explanation
Indices: 87818919--87819103 Score: 343
Period size: 92 Copynumber: 2.0 Consensus size: 91
87818909 TTAGAAATTC
87818919 CTTAGCCTATTCCTCTCTTACCGGTTCATTAATGGGTATTTCAGTTTTTTCCTTTTCTCAACATC
1 CTTAGCCTATTCCTCTCTTACCGGTTCATTAATGGGTATTTCAGTTTTTTCCTTTTCTCAACATC
87818984 AATATCTTTTGTTTTTGTGGGCTCCA
66 AATATCTTTTGTTTTTGTGGGCTCCA
* *
87819010 CTTAGCCTCTTCCTCTCTTACCGGTTCATTGATGGGTATTTCAGTCTTTTTCCTTTTCTCAACAT
1 CTTAGCCTATTCCTCTCTTACCGGTTCATTAATGGGTATTTCAGT-TTTTTCCTTTTCTCAACAT
87819075 CAATATCTTTTGTTTTTGTGGGCTCCA
65 CAATATCTTTTGTTTTTGTGGGCTCCA
87819102 CT
1 CT
87819104 CTGATACCCC
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 43 0.47
92 48 0.53
ACGTcount: A:0.15, C:0.24, G:0.14, T:0.47
Consensus pattern (91 bp):
CTTAGCCTATTCCTCTCTTACCGGTTCATTAATGGGTATTTCAGTTTTTTCCTTTTCTCAACATC
AATATCTTTTGTTTTTGTGGGCTCCA
Done.