Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 218 of 345
Found at i:63264116 original size:39 final size:39
Alignment explanation
Indices: 63263967--63264108 Score: 223
Period size: 39 Copynumber: 3.7 Consensus size: 39
63263957 GAATGTTCGA
63263967 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
63264006 GTGAT-CCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
63264044 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
63264083 GTGATATCCGGGTTAAGTCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGC
63264109 CTTTGTGCGG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 34 0.37
39 58 0.63
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:63270083 original size:20 final size:20
Alignment explanation
Indices: 63270058--63270095 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63270048 CTAAATCGAG
63270058 AACTTAGGAA-ATTTTTACAA
1 AACTTA-GAAGATTTTTACAA
63270078 AACTTAGAAGATTTTTAC
1 AACTTAGAAGATTTTTAC
63270096 CATGTACAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
AACTTAGAAGATTTTTACAA
Found at i:63278057 original size:21 final size:21
Alignment explanation
Indices: 63278031--63278070 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
63278021 GTGGTGCGAT
63278031 AGGCAAGAGCGAGTAGCAACG
1 AGGCAAGAGCGAGTAGCAACG
63278052 AGGCAAGAGCGAGTAGCAA
1 AGGCAAGAGCGAGTAGCAA
63278071 GGTGACAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.38, T:0.05
Consensus pattern (21 bp):
AGGCAAGAGCGAGTAGCAACG
Found at i:63279899 original size:43 final size:41
Alignment explanation
Indices: 63279828--63279991 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 41
63279818 CGGAAAGCTC
* *
63279828 ATACAATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCAA
1 ATACAATGCC-ACGTCCCAGACAG-GGTCTTACACGTAATCAA
* *
63279870 ATATCAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCAA
1 ATA-CAATGCCAC-GTCCCAGACAGGGTCTTACACGTAATCAA
* * * *
63279913 ATACGATAGCAACATCCCAGACATGGTCTTACACGTAAATCATA
1 ATACAAT-GCCACGTCCCAGACAGGGTCTTACACGT-AATCA-A
* *
63279957 AGT-CGATGCCAACGTCCCAGAC-GTGGTCTTGCACG
1 A-TACAATGCC-ACGTCCCAGACAG-GGTCTTACACG
63279992 AAAACACATA
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 27 0.27
43 44 0.44
44 27 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (41 bp):
ATACAATGCCACGTCCCAGACAGGGTCTTACACGTAATCAA
Found at i:63279993 original size:86 final size:85
Alignment explanation
Indices: 63279837--63279994 Score: 187
Period size: 86 Copynumber: 1.8 Consensus size: 85
63279827 CATACAATGC
* * *
63279837 CAACGTCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGTCTTA
1 CAACATCCCAAACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGGGTCTTA
*
63279902 TACGAAATCAAATACGATAG
66 CACGAAATCAAATACGATAG
* * *
63279922 CAACATCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGAC-GTGGT
1 CAACATCCCAAACATGGTCTTACACGT-AATCA-AATATCAATGCC-ACTGTCCCAGACAG-GGT
*
63279984 CTTGCACGAAA
62 CTTACACGAAA
63279995 ACACATATCG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
85 24 0.39
86 33 0.54
87 4 0.07
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (85 bp):
CAACATCCCAAACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGGGTCTTA
CACGAAATCAAATACGATAG
Found at i:63280412 original size:9 final size:9
Alignment explanation
Indices: 63280398--63280434 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
63280388 TTTAGTCCCT
63280398 AATCACAAA
1 AATCACAAA
63280407 AATCACAAA
1 AATCACAAA
63280416 AATCAC-AA
1 AATCACAAA
63280424 AATACACAAA
1 AAT-CACAAA
63280434 A
1 A
63280435 TTTGCTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 5 0.19
9 18 0.69
10 3 0.12
ACGTcount: A:0.68, C:0.22, G:0.00, T:0.11
Consensus pattern (9 bp):
AATCACAAA
Found at i:63284579 original size:30 final size:30
Alignment explanation
Indices: 63284522--63284580 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
63284512 CCTTTTGAAG
* *
63284522 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
63284552 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
63284581 GAAAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:63286981 original size:93 final size:93
Alignment explanation
Indices: 63286869--63287039 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
63286859 GCCCATAAGT
* *
63286869 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
63286934 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
63286962 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
63287027 CGAGTTCGGATGC
66 CGAGTTCGGATGC
63287040 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:63287036 original size:46 final size:46
Alignment explanation
Indices: 63286861--63287036 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
63286851 TGTAACCCGC
* * *
63286861 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
63286907 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
63286957 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
63287000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
63287037 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:63293860 original size:143 final size:141
Alignment explanation
Indices: 63293652--63293946 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
63293642 TGAGTTAAAT
*
63293652 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
63293717 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
63293782 GTGTGCATGAGTA
129 GTGTGCATGAGTA
63293795 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
63293860 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
63293925 GTGCATGAGTA
131 GTGCATGAGTA
63293936 TTCGGCCATGC
1 TTCGGCCATGC
63293947 TATAGAATTT
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 122 0.81
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:63301338 original size:143 final size:141
Alignment explanation
Indices: 63301130--63301424 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
63301120 TGAGTTAAAT
*
63301130 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
63301195 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
63301260 GTGTGCATGAGTA
129 GTGTGCATGAGTA
63301273 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
63301338 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
63301403 GTGCATGAGTA
131 GTGCATGAGTA
63301414 TTCGGCCATGC
1 TTCGGCCATGC
63301425 TATAGAATTT
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 122 0.81
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:63314261 original size:40 final size:40
Alignment explanation
Indices: 63314215--63314439 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
63314205 CTTGCACAAG
* * *
63314215 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
63314255 GCCTTCGGGACTTAGCCCTGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
63314295 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
63314335 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * *
63314375 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
63314416 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
63314440 CATTCGAATA
Statistics
Matches: 157, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 29 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:63320648 original size:50 final size:50
Alignment explanation
Indices: 63320573--63320674 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 50
63320563 CATATCTGTC
* *
63320573 ACCAAAATAGGGTTACGAAGTATTACCATAAAATCATAACATAAAAACAT
1 ACCAAAATAGGGTTAAGAAGCATTACCATAAAATCATAACATAAAAACAT
*
63320623 ACCAAAATAGGGTTATAG-AGCATTACCATAAAATCGTAACATAAAAACAT
1 ACCAAAATAGGGTTA-AGAAGCATTACCATAAAATCATAACATAAAAACAT
63320673 AC
1 AC
63320675 ATTTCCAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.22
Consensus pattern (50 bp):
ACCAAAATAGGGTTAAGAAGCATTACCATAAAATCATAACATAAAAACAT
Found at i:63324899 original size:49 final size:49
Alignment explanation
Indices: 63324829--63325088 Score: 461
Period size: 49 Copynumber: 5.3 Consensus size: 49
63324819 CCCTTCGGGA
*
63324829 CTTATCACAT-T-TATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63324876 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
63324925 CTTATCACATATATACACACTTTCAGATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63324974 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63325023 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63325072 CTTATCACATATATATA
1 CTTATCACATATATATA
63325089 TCTCATACAA
Statistics
Matches: 204, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 10 0.05
48 1 0.00
49 193 0.95
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63331229 original size:2 final size:2
Alignment explanation
Indices: 63331222--63331259 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
63331212 AATCGCTAGC
63331222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63331260 TAATATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63332906 original size:17 final size:17
Alignment explanation
Indices: 63332884--63332926 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
63332874 ATTTCATTTA
**
63332884 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
63332901 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
63332918 AAAT-TCAAT
1 AAATGTCAAT
63332927 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:63334825 original size:39 final size:40
Alignment explanation
Indices: 63334682--63334865 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
63334672 GCTACTCGTT
* *
63334682 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
63334722 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
63334762 CAAATGCCTTCGGGAC-TAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
63334801 C-AATGCCTTC-GGATCTTAGTCCGGATATAATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
63334841 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
63334866 CACATTCGAA
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
37 3 0.02
38 10 0.08
39 37 0.29
40 72 0.56
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:63342838 original size:40 final size:40
Alignment explanation
Indices: 63342801--63342986 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
63342791 GCTACTCGTT
*
63342801 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
63342841 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
63342881 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
63342921 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
63342962 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63342987 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:63346631 original size:15 final size:16
Alignment explanation
Indices: 63346613--63346654 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
63346603 TCTGAGACAG
63346613 AGAAATCCAAGA-TAA
1 AGAAATCCAAGATTAA
*
63346628 AGAAACTCCAAGATTCA
1 AGAAA-TCCAAGATTAA
63346645 A-AAATCCAAG
1 AGAAATCCAAG
63346655 TTACAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 10 0.42
17 3 0.12
ACGTcount: A:0.55, C:0.19, G:0.12, T:0.14
Consensus pattern (16 bp):
AGAAATCCAAGATTAA
Found at i:63349301 original size:2 final size:2
Alignment explanation
Indices: 63349294--63349321 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63349284 AATCGCTAGC
63349294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63349322 TAATATTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63355061 original size:11 final size:11
Alignment explanation
Indices: 63355047--63355099 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
63355037 ATATATCATA
63355047 GCATATCATGT
1 GCATATCATGT
*
63355058 GCATATCAT-A
1 GCATATCATGT
*
63355068 ACATATCATGT
1 GCATATCATGT
63355079 GCATATCATGT
1 GCATATCATGT
63355090 -CATATCATGT
1 GCATATCATGT
63355100 ATATCAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 18 0.49
11 19 0.51
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
GCATATCATGT
Found at i:63355063 original size:21 final size:21
Alignment explanation
Indices: 63355039--63355099 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
63355029 TATAGAGAAT
63355039 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
63355060 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
63355081 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
63355100 ATATCAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:63355067 original size:5 final size:5
Alignment explanation
Indices: 63355039--63355097 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
63355029 TATAGAGAAT
* * * * *
63355039 ATATC ATAGC ATATC ATGTGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
63355091 ATATC AT
1 ATATC AT
63355098 GTATATCAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 34 0.81
6 8 0.19
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:63355109 original size:10 final size:10
Alignment explanation
Indices: 63355039--63355105 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
63355029 TATAGAGAAT
63355039 ATATCATAG-C
1 ATATCAT-GTC
63355049 ATATCATGTGC
1 ATATCATGT-C
**
63355060 ATATCATAAC
1 ATATCATGTC
63355070 ATATCATGTGC
1 ATATCATGT-C
63355081 ATATCATGTC
1 ATATCATGTC
63355091 ATATCATGT-
1 ATATCATGTC
63355100 ATATCA
1 ATATCA
63355106 ATGTTTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:63364888 original size:57 final size:49
Alignment explanation
Indices: 63364812--63365073 Score: 427
Period size: 49 Copynumber: 5.2 Consensus size: 49
63364802 GTATGAGGTA
*
63364812 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
63364861 TATATATGTGATAAGGCGATCACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAA---G-----GCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
63364918 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
63364967 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
63365016 TATATA-GTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
63365064 TATATATGTG
1 TATATATGTG
63365074 GAATGTGAAA
Statistics
Matches: 202, Mismatches: 2, Indels: 18
0.91 0.01 0.08
Matches are distributed among these distances:
48 47 0.23
49 106 0.52
52 1 0.00
54 1 0.00
57 47 0.23
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:63364929 original size:27 final size:27
Alignment explanation
Indices: 63364896--63364978 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
63364886 CTAATGGCCG
63364896 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
63364923 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
63364946 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
63364972 ATGTGAT
1 ATGTGAT
63364979 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:63365062 original size:97 final size:98
Alignment explanation
Indices: 63364884--63365073 Score: 364
Period size: 97 Copynumber: 1.9 Consensus size: 98
63364874 AGGCGATCAC
*
63364884 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGT
63364949 GATGAATGTGAAAGTGTGTATATATGTGATAAG
66 GATGAATGTGAAAGTGTGTATATATGTGATAAG
63364982 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATA-GTGATAAGGCCTAATGGCCGACGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGT
63365046 GATGAATGTGAAAGTGTGTATATATGTG
66 GATGAATGTGAAAGTGTGTATATATGTG
63365074 GAATGTGAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
97 51 0.56
98 40 0.44
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (98 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGT
GATGAATGTGAAAGTGTGTATATATGTGATAAG
Found at i:63365083 original size:25 final size:25
Alignment explanation
Indices: 63365049--63365098 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
63365039 CCGACGTGAT
*
63365049 GAATGTGAAAGTGTGTATATATGTG
1 GAATGTGAAAGTGTATATATATGTG
63365074 GAATGTGAAAGTGTATATATATGTG
1 GAATGTGAAAGTGTATATATATGTG
63365099 ATAAGGCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (25 bp):
GAATGTGAAAGTGTATATATATGTG
Found at i:63365093 original size:122 final size:121
Alignment explanation
Indices: 63364952--63365194 Score: 416
Period size: 122 Copynumber: 2.0 Consensus size: 121
63364942 CCGATGTGAT
* * *
63364952 GAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTAT
*
63365017 ATATA-GTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTGTATATATGTG
66 ATAAATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAG-GTGTATATATGTG
63365074 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTAT
*
63365139 ATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTG
66 ATAAATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAGGTGTATATATGTG
63365195 ATAGGGCCGA
Statistics
Matches: 115, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
121 13 0.11
122 69 0.60
123 33 0.29
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (121 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTAT
ATAAATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAGGTGTATATATGTG
Found at i:63365116 original size:74 final size:73
Alignment explanation
Indices: 63365001--63365147 Score: 240
Period size: 74 Copynumber: 2.0 Consensus size: 73
63364991 CCGATGTGAT
* * *
63365001 GAATGTGAAAGTGTGTATATAGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTGTA
1 GAATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGACGTGAAGAATGTGAAAGTGTATA
*
63365066 TATATGTG
66 TAAATGTG
*
63365074 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATA-GTGATAAGGCCTAATGGCCGACGTGAAGAATGTGAAAGTGTAT
63365139 ATAAATGTG
65 ATAAATGTG
63365148 ATAAGGCCTA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 20 0.29
74 48 0.71
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (73 bp):
GAATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGACGTGAAGAATGTGAAAGTGTATA
TAAATGTG
Found at i:63365127 original size:49 final size:49
Alignment explanation
Indices: 63365074--63365246 Score: 264
Period size: 49 Copynumber: 3.6 Consensus size: 49
63365064 TATATATGTG
*
63365074 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAA
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
63365123 GAATGTGAAAGTGTATATAAATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * *
63365172 GAATGTG-AAG-GTGTATATATGTGATAGGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
63365219 GAATGTGAAAGTGTATA-A-ATGTGATAAG
1 GAATGTGAAAGTGTATATATATGTGATAAG
63365247 TCCCGAAGGG
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 48 0.42
48 7 0.06
49 58 0.51
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (49 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:63366971 original size:24 final size:24
Alignment explanation
Indices: 63366930--63367000 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
63366920 GCTTTATCAT
**
63366930 ATAACTGGAGGCCTAGCCTCTTTAA
1 ATAACTGGAGGCAAAGCC-CTTTAA
**
63366955 ATAACT-GAGGCAAAGCCCTTTTCG
1 ATAACTGGAGGCAAAGCCC-TTTAA
63366979 ATAAACTGG-GGCAAAGCCCTTT
1 AT-AACTGGAGGCAAAGCCCTTT
63367001 TCACACTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 17 0.44
25 20 0.51
26 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (24 bp):
ATAACTGGAGGCAAAGCCCTTTAA
Found at i:63367066 original size:5 final size:5
Alignment explanation
Indices: 63367049--63367107 Score: 64
Period size: 5 Copynumber: 11.4 Consensus size: 5
63367039 TATAGAGAAT
* * * *
63367049 ATATC ATAGC ATATC ATATGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
63367101 ATATC AT
1 ATATC AT
63367108 GTATATCAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 35 0.80
6 9 0.20
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:63367073 original size:21 final size:21
Alignment explanation
Indices: 63367049--63367107 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
63367039 TATAGAGAAT
63367049 ATATCATAGCATATCATATGC
1 ATATCATAGCATATCATATGC
* *
63367070 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATATGC
63367091 ATATCAT-GTCATATCAT
1 ATATCATAG-CATATCAT
63367108 GTATATCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATATGC
Found at i:63367119 original size:10 final size:10
Alignment explanation
Indices: 63367049--63367115 Score: 66
Period size: 10 Copynumber: 6.6 Consensus size: 10
63367039 TATAGAGAAT
63367049 ATATCATAG-C
1 ATATCAT-GTC
*
63367059 ATATCATATGC
1 ATATCATGT-C
**
63367070 ATATCATAAC
1 ATATCATGTC
63367080 ATATCATGTGC
1 ATATCATGT-C
63367091 ATATCATGTC
1 ATATCATGTC
63367101 ATATCATGT-
1 ATATCATGTC
63367110 ATATCA
1 ATATCA
63367116 ATGTTTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 6 0.12
10 25 0.50
11 19 0.38
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:63370834 original size:43 final size:42
Alignment explanation
Indices: 63370739--63370843 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
63370729 AGGGTTACTG
* * ***
63370739 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATTTG
1 AGATTACATGTAAGACCATAGCTGGGATATGGCATCGATACA
* * *
63370781 AGACTT-CATGTGACACCATAGCTGGGCTATTGGCATCGATACA
1 AGA-TTACATGTAAGACCATAGCTGGGATA-TGGCATCGATACA
63370824 AGATTACATGTAAGACCATA
1 AGATTACATGTAAGACCATA
63370844 TCAAGGATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
42 23 0.46
43 27 0.54
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATAGCTGGGATATGGCATCGATACA
Found at i:63373947 original size:25 final size:23
Alignment explanation
Indices: 63373921--63373965 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
63373911 TATACTAAAT
* *
63373921 ATATATATTTTTTATTTTTAATC
1 ATATTTATATTTTATTTTTAATC
63373944 ATATTTATATTTTATTTTTAAT
1 ATATTTATATTTTATTTTTAAT
63373966 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTATATTTTATTTTTAATC
Found at i:63373962 original size:29 final size:27
Alignment explanation
Indices: 63373929--63373983 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
63373919 ATATATATAT
* *
63373929 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
63373958 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
63373984 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:63374051 original size:39 final size:40
Alignment explanation
Indices: 63373981--63374073 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 40
63373971 TATAATTAAT
*
63373981 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAAAATTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
* * * * *
63374021 TTTTAATATATTTT-TATTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
*
63374060 TTTTGAATGTATTT
1 TTTT-AATATATTT
63374074 GATTATTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 24 0.53
40 21 0.47
ACGTcount: A:0.24, C:0.01, G:0.10, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
Found at i:63377263 original size:36 final size:36
Alignment explanation
Indices: 63377214--63377327 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
63377204 TAAGACCGAA
**
63377214 TATACAAGGTTCAATATATCATCACATATGGCTGAT
1 TATACAAAATTCAATATATCATCACATATGGCTGAT
** * *
63377250 TATACAAAATTCAATATATCATCACATATAACCGAA
1 TATACAAAATTCAATATATCATCACATATGGCTGAT
63377286 TATAC-AAATTCAATATATCATCACATATGG-TCGAT
1 TATACAAAATTCAATATATCATCACATATGGCT-GAT
63377321 TATACAA
1 TATACAA
63377328 TGTTCATATA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
35 30 0.45
36 36 0.55
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (36 bp):
TATACAAAATTCAATATATCATCACATATGGCTGAT
Found at i:63377337 original size:35 final size:34
Alignment explanation
Indices: 63377214--63377327 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 34
63377204 TAAGACCGAA
*
63377214 TATACAAGGTTCAATATATCATCACATATGGCTGAT
1 TATACAA-ATTCAATATATCATCACATATGGC-GAT
** *
63377250 TATACAAAATTCAATATATCATCACATATAACCGAA
1 TATAC-AAATTCAATATATCATCACATAT-GGCGAT
63377286 TATACAAATTCAATATATCATCACATATGGTCGAT
1 TATACAAATTCAATATATCATCACATATGG-CGAT
63377321 TATACAA
1 TATACAA
63377328 TGTTCATATA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
35 33 0.49
36 32 0.47
37 3 0.04
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (34 bp):
TATACAAATTCAATATATCATCACATATGGCGAT
Found at i:63378142 original size:30 final size:28
Alignment explanation
Indices: 63378085--63378142 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
63378075 TATATTTCAT
* *
63378085 TTATTTTTCATTTTAGCCCTTTAATTTA
1 TTATTTTTCAATTTAGCCCTATAATTTA
*
63378113 TTATTTTTGCAATTTAGTCCTAATAATTTA
1 TTATTTTT-CAATTTAGCCCT-ATAATTTA
63378143 AAATCATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (28 bp):
TTATTTTTCAATTTAGCCCTATAATTTA
Found at i:63382436 original size:49 final size:49
Alignment explanation
Indices: 63382372--63382616 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
63382362 TAGCCAAAGC
* * *
63382372 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
** *
63382421 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
63382471 CATCTGATACATATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
63382522 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
63382571 TATACGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
63382617 TCACAATAGA
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:63382554 original size:101 final size:98
Alignment explanation
Indices: 63382383--63382616 Score: 308
Period size: 100 Copynumber: 2.4 Consensus size: 98
63382373 ATCTGGTACG
* *
63382383 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACT
*
63382448 TAGTACTACACACATGACCTAACCAT-CTGATACA
66 TAGTACTACACACACGACC-AACCATAC-GATACA
* * * *
63382482 TATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCA
** ** *
63382547 CTTAGTACTACACATGCGACCAATTATACGGTACA
64 CTTAGTACTACACACACGACCAACCATACGATACA
*
63382582 CGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
63382617 TCACAATAGA
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 31 0.26
100 43 0.37
101 43 0.37
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACT
TAGTACTACACACACGACCAACCATACGATACA
Found at i:63388472 original size:41 final size:41
Alignment explanation
Indices: 63388415--63388511 Score: 185
Period size: 41 Copynumber: 2.4 Consensus size: 41
63388405 GATACCTAAT
63388415 AGCTTGTGTGAGCAGCACTGTGTAGCTACGTCCTGACTGAC
1 AGCTTGTGTGAGCAGCACTGTGTAGCTACGTCCTGACTGAC
*
63388456 AGCTTGTGTGAGCAGCACTGTGTAGCTACGTCTTGACTGAC
1 AGCTTGTGTGAGCAGCACTGTGTAGCTACGTCCTGACTGAC
63388497 AGCTTGTGTGAGCAG
1 AGCTTGTGTGAGCAG
63388512 GCCCGTGAGC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.28
Consensus pattern (41 bp):
AGCTTGTGTGAGCAGCACTGTGTAGCTACGTCCTGACTGAC
Found at i:63391910 original size:47 final size:47
Alignment explanation
Indices: 63391859--63392200 Score: 378
Period size: 47 Copynumber: 6.9 Consensus size: 47
63391849 TTAGGATTTT
*
63391859 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
63391906 ATGTGATGAATGTGAACCTATATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
63391959 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
63392006 ATGTGTTTGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATATGGCCGAATGGCCA
1 A------T-G----T--GATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
63392066 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
63392113 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * *
63392160 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAA
63392201 ATGCTAATGC
Statistics
Matches: 255, Mismatches: 21, Indels: 38
0.81 0.07 0.12
Matches are distributed among these distances:
47 164 0.64
48 1 0.00
49 1 0.00
52 1 0.00
53 43 0.17
54 2 0.01
58 1 0.00
60 42 0.16
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:63392019 original size:60 final size:60
Alignment explanation
Indices: 63391953--63392070 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 60
63391943 TAAGGCCGAA
63391953 TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGTT
1 TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGTT
* *
63392013 TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATATGGCCGAATGGCCAATGTG
1 TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTG
63392071 ATGAATGTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (60 bp):
TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGTT
Found at i:63392160 original size:154 final size:156
Alignment explanation
Indices: 63391859--63392164 Score: 463
Period size: 154 Copynumber: 1.9 Consensus size: 156
63391849 TTAGGATTTT
63391859 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
* * * *
63391924 TATATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
66 ----TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAG
63391989 ATAAGGCCAAATGGCCAATGTGTTTGGCCA
127 ATAAGGCCAAATGGCCAATGTGTTTGGCCA
* *
63392019 ATGTGATGAATGTGAACATGCGTATGTGTGATATGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
* * * *
63392083 -ATGCGTATGTGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAACATGCATATATGAGATAA
66 TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAA
*
63392147 GGCCGAATGGCCAATGTG
131 GGCCAAATGGCCAATGTG
63392165 ATGAATGTGA
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
154 73 0.54
159 1 0.01
160 61 0.45
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (156 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
TATACATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAA
GGCCAAATGGCCAATGTGTTTGGCCA
Found at i:63392239 original size:46 final size:47
Alignment explanation
Indices: 63392183--63392318 Score: 188
Period size: 46 Copynumber: 3.0 Consensus size: 47
63392173 GAACATGTAT
*
63392183 ATATGTGGTAAGGCCGAAAT-GCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAAATGGCTAATGCGAAATGTGTATGAGATAG
* * *
63392229 ATATGAGGTAAAGCCG-AATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAAATGGCTAATGCGAAATGTGTATGAGATAG
* * *
63392275 ATATGTGGTAAAGCC-AAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCGAAATGGCTAATGCGAAATGTGTATGAGAT
63392319 GTGTATATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 3 0.04
46 76 0.96
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.26
Consensus pattern (47 bp):
ATATGTGGTAAAGCCGAAATGGCTAATGCGAAATGTGTATGAGATAG
Found at i:63397234 original size:47 final size:47
Alignment explanation
Indices: 63397165--63397437 Score: 375
Period size: 49 Copynumber: 5.7 Consensus size: 47
63397155 TTCGGGACTC
* * * * * * *
63397165 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
63397212 ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
**
63397259 ATCATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
63397306 ATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
63397355 ATCACATATGTATACGCTTTCACGTTCATCACATCGGCCATTAGGCCTT
1 ATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
63397404 ATCACATATATACACGCTTTCACATTCATCACAT
1 ATCACATATATACA--CTTTCACATTCATCACAT
63397438 AGAATCTTAA
Statistics
Matches: 207, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
47 96 0.46
49 111 0.54
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:63400184 original size:2 final size:2
Alignment explanation
Indices: 63400177--63400203 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63400167 CTATTGAGAA
63400177 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
63400204 GAATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:63401365 original size:20 final size:20
Alignment explanation
Indices: 63401342--63401398 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
63401332 AAATTTCAAA
* *
63401342 TTTTTATGATTTTTTATAGG
1 TTTTTATGAATTTTAATAGG
* *
63401362 TTTTTAAGAATTTTAATATG
1 TTTTTATGAATTTTAATAGG
*
63401382 TTTTTATAAAATTTTAA
1 TTTTTAT-GAATTTTAA
63401399 ATATGTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTTATGAATTTTAATAGG
Found at i:63401386 original size:21 final size:22
Alignment explanation
Indices: 63401361--63401407 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
63401351 TTTTTTATAG
*
63401361 GTTTTTA-AGAATTTT-AATAT
1 GTTTTTATAAAATTTTAAATAT
63401381 GTTTTTATAAAATTTTAAATAT
1 GTTTTTATAAAATTTTAAATAT
63401403 GTTTT
1 GTTTT
63401408 ACTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
GTTTTTATAAAATTTTAAATAT
Found at i:63401408 original size:21 final size:21
Alignment explanation
Indices: 63401352--63401408 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
63401342 TTTTTATGAT
* *
63401352 TTTTTATAGGTTTT-TAAGAA
1 TTTTAATATGTTTTATAAGAA
63401372 TTTTAATATGTTTTTATAA-AA
1 TTTTAATATG-TTTTATAAGAA
63401393 TTTTAAATATGTTTTA
1 TTTT-AATATGTTTTA
63401409 CTAATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 8 0.25
21 15 0.47
22 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (21 bp):
TTTTAATATGTTTTATAAGAA
Found at i:63410658 original size:93 final size:93
Alignment explanation
Indices: 63410546--63410715 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
63410536 CCCATAAGCG
* * *
63410546 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
63410611 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
* *
63410639 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
63410704 GAGTTCGGATGC
66 GAGTTCGGATGC
63410716 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:63410712 original size:46 final size:46
Alignment explanation
Indices: 63410537--63410712 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
63410527 TGTAACCCGC
* * * * *
63410537 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
63410583 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
63410633 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
63410676 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
63410713 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
46 61 0.56
47 27 0.25
49 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:63413167 original size:209 final size:207
Alignment explanation
Indices: 63412791--63413418 Score: 696
Period size: 209 Copynumber: 3.0 Consensus size: 207
63412781 ATGGCTCACA
* * * **
63412791 CTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCAGTATTGAACCTG-GAGCCTTAAGATTACAGCTAGGAGCTTGAGC
* * * *
63412856 T-TGCGCTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACAA-TTGAGAG
65 TCT-CGCTAACTATTTTGGAGGTTGTGATATTGAAC-TGCGAGCCTTAAGATTACAACTAG-GAG
*** * * *
63412919 CTTGAGCTCTTGTTAACTA-TTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGC
127 CTTGAGCTCTCACTAACTATTTTTG-A-GATGCGGTATTGAACCTGCGAGCCTTAAGATTACAGC
63412983 TGGGAGCTTGAGCTCTCG
190 TGGGAGCTTGAGCTCTCG
* * * * *
63413001 CTAACTATTTTGTAGGATGCAGTATTGAATCTGCGAGCCTTAAGATTATAGCT-GGAGCTTAAGC
1 CTAACTATTTTGGAGGTTGCAGTATTGAACCTG-GAGCCTTAAGATTACAGCTAGGAGCTTGAGC
* *
63413065 TCTCGTTAACTATTTTGGAGGTTGTGATATTGAATCTACGAGCCTTGAA-ATTACAACTAGGAGC
65 TCTCGCTAACTATTTTGGAGGTTGTGATATTGAA-CTGCGAGCCTT-AAGATTACAACTAGGAGC
* *
63413129 TTGAGCTCTCACTAACTATTTTTGACGCTGCGGTATTGAACCTTG-GAGCCTTAAGATTACAGTT
128 TTGAGCTCTCACTAACTATTTTTGA-GATGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCT
*
63413193 GGGAGCTTGAGCTCTTG
191 GGGAGCTTGAGCTCTCG
* * * * *
63413210 CTAACTATTTTGGAGGTTGTAGTATTGAACCTTGGAACCTTAAGATTACAGTTGGGAGCTTGAGT
1 CTAACTATTTTGGAGGTTGCAGTATTGAACC-TGGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
* * * * * * *
63413275 TCACGCTAACT-TTTTGGAGGCTGCGATTTTGAGCCTGC-ATGCCTTAAGATTATAGCTAGGAGC
65 TCTCGCTAACTATTTTGGAGGTTGTGATATTGA-ACTGCGA-GCCTTAAGATTACAACTAGGAGC
* * * *
63413338 TTGAGCTCTCACTAACTATTTTGGAGGTCGCGGTATTGAATCTGCGAGCCTTAAGATTACAGCTA
128 TTGAGCTCTCACTAACTATTTTTGAGAT-GCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTG
63413403 GGAGCTTGAGCTCTCG
192 GGAGCTTGAGCTCTCG
63413419 TTAATTGTTT
Statistics
Matches: 354, Mismatches: 51, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
208 7 0.02
209 269 0.76
210 78 0.22
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (207 bp):
CTAACTATTTTGGAGGTTGCAGTATTGAACCTGGAGCCTTAAGATTACAGCTAGGAGCTTGAGCT
CTCGCTAACTATTTTGGAGGTTGTGATATTGAACTGCGAGCCTTAAGATTACAACTAGGAGCTTG
AGCTCTCACTAACTATTTTTGAGATGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTGGGAG
CTTGAGCTCTCG
Found at i:63413339 original size:279 final size:279
Alignment explanation
Indices: 63412784--63413417 Score: 841
Period size: 279 Copynumber: 2.3 Consensus size: 279
63412774 TGGGAACATG
* * * * **
63412784 GCTCACACTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAG
1 GCTCTCACTAACTATTTTGGAGGTTGCGGTATTGAATCTGCGAGCCTTAAGATTACAACTAGGAG
* * * * *
63412849 CTTGAGCT-TGCGCTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACAAT
66 CTTGAGCTCT-CACTAACTATTTTTGACGCTGCGGTATTGAACTTGCGAGCCTTAAGATTACAAT
* *
63412913 TGAGAGCTTGAGCTCTTGTTAACTATTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATT
130 TGAGAGCTTGAGCTCTTGCTAACTATTTTGGAGGATGCAGTATTGAACCTGCAAGCCTTAAGATT
* * * *
63412978 ATAGCTGGGAGCTTGAGCTCTCGCTAACTATTTTGTAGGATGCAGTATTGAATCTGCGAGCCTTA
195 ACAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGATGCAGTATTGAACCTGCGAGCCTTA
63413043 AGATTATAGCTGGAGCTTAA
260 AGATTATAGCTGGAGCTTAA
** * * *
63413063 GCTCTCGTTAACTATTTTGGAGGTTGTGATATTGAATCTACGAGCCTTGAA-ATTACAACTAGGA
1 GCTCTCACTAACTATTTTGGAGGTTGCGGTATTGAATCTGCGAGCCTT-AAGATTACAACTAGGA
*
63413127 GCTTGAGCTCTCACTAACTATTTTTGACGCTGCGGTATTGAACCTTG-GAGCCTTAAGATTACAG
65 GCTTGAGCTCTCACTAACTATTTTTGACGCTGCGGTATTGAA-CTTGCGAGCCTTAAGATTACAA
* * * *
63413191 TTGGGAGCTTGAGCTCTTGCTAACTATTTTGGAGGTTGTAGTATTGAACCTTGGAA-CCTTAAGA
129 TTGAGAGCTTGAGCTCTTGCTAACTATTTTGGAGGATGCAGTATTGAACC-TGCAAGCCTTAAGA
* * * * *
63413255 TTACAGTTGGGAGCTTGAGTTCACGCTAACT-TTTTGGAGGCTGC-GATTTTGAGCCTGC-ATGC
193 TTACAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGATGCAG-TATTGAACCTGCGA-GC
*
63413317 CTTAAGATTATAGCTAGGAGCTTGA
256 CTTAAGATTATAGCT-GGAGCTTAA
* *
63413342 GCTCTCACTAACTATTTTGGAGGTCGCGGTATTGAATCTGCGAGCCTTAAGATTACAGCTAGGAG
1 GCTCTCACTAACTATTTTGGAGGTTGCGGTATTGAATCTGCGAGCCTTAAGATTACAACTAGGAG
63413407 CTTGAGCTCTC
66 CTTGAGCTCTC
63413418 GTTAATTGTT
Statistics
Matches: 307, Mismatches: 40, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
277 2 0.01
278 39 0.13
279 255 0.83
280 11 0.04
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (279 bp):
GCTCTCACTAACTATTTTGGAGGTTGCGGTATTGAATCTGCGAGCCTTAAGATTACAACTAGGAG
CTTGAGCTCTCACTAACTATTTTTGACGCTGCGGTATTGAACTTGCGAGCCTTAAGATTACAATT
GAGAGCTTGAGCTCTTGCTAACTATTTTGGAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTA
CAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGAGGATGCAGTATTGAACCTGCGAGCCTTAA
GATTATAGCTGGAGCTTAA
Found at i:63413430 original size:70 final size:70
Alignment explanation
Indices: 63412791--63413418 Score: 669
Period size: 70 Copynumber: 9.0 Consensus size: 70
63412781 ATGGCTCACA
* * * **
63412791 CTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
63412856 T-TGCG
66 TCT-CG
* * * * * *
63412861 CTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACA-ATTGAGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAG-GAGCTTGAG
*
63412925 CTCTTG
65 CTCTCG
* * * * * * *
63412931 TTAACTATTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTGGGAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
63412996 TCTCG
66 TCTCG
* * * * * *
63413001 CTAACTATTTTGTAGGATGCAGTATTGAATCTGCGAGCCTTAAGATTATAGCT-GGAGCTTAAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
63413065 TCTCG
66 TCTCG
* * * * * *
63413070 TTAACTATTTTGGAGGTTGTGATATTGAATCTACGAGCCTTGAA-ATTACAACTAGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTT-AAGATTACAGCTAGGAGCTTGAG
*
63413134 CTCTCA
65 CTCTCG
* * * * *
63413140 CTAACTATTTTTGACGCTGCGGTATTGAACCTTG-GAGCCTTAAGATTACAGTTGGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCTAGGAGCTTGAG
*
63413204 CTCTTG
65 CTCTCG
** * * *
63413210 CTAACTATTTTGGAGGTTGTAGTATTGAACCTTG-GAACCTTAAGATTACAGTTGGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCTAGGAGCTTGAG
* *
63413274 TTCACG
65 CTCTCG
* * * * *
63413280 CTAACT-TTTTGGAGGCTGCGATTTTGAGCCTGC-ATGCCTTAAGATTATAGCTAGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGA-GCCTTAAGATTACAGCTAGGAGCTTGAG
*
63413343 CTCTCA
65 CTCTCG
* *
63413349 CTAACTATTTTGGAGGTCGCGGTATTGAATCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
63413414 TCTCG
66 TCTCG
63413419 TTAATTGTTT
Statistics
Matches: 465, Mismatches: 82, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
68 3 0.01
69 110 0.24
70 347 0.75
71 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (70 bp):
CTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
TCTCG
Found at i:63415921 original size:10 final size:11
Alignment explanation
Indices: 63415905--63415944 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
63415895 TGACCTTTCC
63415905 AAGGTATGGG-
1 AAGGTATGGGA
*
63415915 TAGGTATGGGA
1 AAGGTATGGGA
*
63415926 AAGGTATGGGC
1 AAGGTATGGGA
63415937 AAGGTATG
1 AAGGTATG
63415945 AGGTATATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.30, C:0.03, G:0.45, T:0.23
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:63420012 original size:18 final size:18
Alignment explanation
Indices: 63419989--63420063 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
63419979 CAATCCCAAC
*
63419989 TACTGTATACGTAAACAG
1 TACTGTATACGTAAATAG
*
63420007 TACTGTATATGTAAATAG
1 TACTGTATACGTAAATAG
* *
63420025 TACCGTATACGTGAATAG
1 TACTGTATACGTAAATAG
* * *
63420043 TGCTGTATATGTGAATAG
1 TACTGTATACGTAAATAG
63420061 TAC
1 TAC
63420064 CGTAAACGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (18 bp):
TACTGTATACGTAAATAG
Found at i:63420049 original size:36 final size:36
Alignment explanation
Indices: 63419993--63420067 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
63419983 CCCAACTACT
63419993 GTATACGTAAACAGTACTGTATATGTAAATAGTACC
1 GTATACGTAAACAGTACTGTATATGTAAATAGTACC
* * * *
63420029 GTATACGTGAATAGTGCTGTATATGTGAATAGTACC
1 GTATACGTAAACAGTACTGTATATGTAAATAGTACC
63420065 GTA
1 GTA
63420068 AACGGTCGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (36 bp):
GTATACGTAAACAGTACTGTATATGTAAATAGTACC
Found at i:63420623 original size:21 final size:22
Alignment explanation
Indices: 63420597--63420638 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
63420587 TGACCTTTCC
*
63420597 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
63420618 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
63420639 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:63420624 original size:11 final size:10
Alignment explanation
Indices: 63420597--63420638 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
63420587 TGACCTTTCC
63420597 AAGGTATGGG
1 AAGGTATGGG
*
63420607 TAGGTATGGG
1 AAGGTATGGG
63420617 AAAGGTATGGG
1 -AAGGTATGGG
63420628 CAAGGTATGGG
1 -AAGGTATGGG
63420639 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:63423704 original size:14 final size:14
Alignment explanation
Indices: 63423685--63423714 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
63423675 TCAAAGAAGT
63423685 AGAATTTGGTATTG
1 AGAATTTGGTATTG
63423699 AGAATTTGGTATTG
1 AGAATTTGGTATTG
63423713 AG
1 AG
63423715 CTGATACCGG
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:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (14 bp):
AGAATTTGGTATTG
Found at i:63427046 original size:46 final size:46
Alignment explanation
Indices: 63426994--63427169 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
63426984 TATTTGGGCA
*
63426994 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
63427040 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
63427085 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
63427133 CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63427170 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 62 0.57
47 28 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:63427149 original size:93 final size:93
Alignment explanation
Indices: 63426990--63427161 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
63426980 AGGATATTTG
* * *
63426990 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAATGCCCAAGCTCGTTGAG
63427055 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
63427083 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCAAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAATGCCCAAGCTCGTTGAG
63427148 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
63427162 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAATGCCCAAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:63437125 original size:29 final size:30
Alignment explanation
Indices: 63437072--63437129 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
63437062 CGGAAGTTTT
63437072 GGCACTAAGTGTGAGATTTAAACTAGCTTG
1 GGCACTAAGTGTGAGATTTAAACTAGCTTG
*
63437102 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGAGATTTAAACTAGCTT
63437130 TGGCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGAGATTTAAACTAGCTTG
Found at i:63440708 original size:31 final size:31
Alignment explanation
Indices: 63440666--63440748 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
63440656 TCAGTCTCGA
63440666 CATA-TACTGGGCCGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
63440696 CATATTACTGGGCCGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
*
63440727 CATATCACT-GGCCGAAGCCTTT
1 CATATTACTGGGCCGAAGCCTTT
63440749 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.33
31 34 0.67
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATTACTGGGCCGAAGCCTTTTCATAAAT
Found at i:63441002 original size:25 final size:24
Alignment explanation
Indices: 63440955--63441037 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
63440945 CTAGAGGCCT
*
63440955 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
63440979 AGCCCATTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* *
63441004 AGCCCTTTTTGGTAAACTGGGGCAT
1 AGCCC-TTTTGATAAACTGGGGCAA
63441029 AGCCCTTTT
1 AGCCCTTTT
63441038 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.02
24 14 0.26
25 38 0.72
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:63441904 original size:27 final size:27
Alignment explanation
Indices: 63441842--63441906 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
63441832 GGGCATATTC
63441842 GTCATTTTACCATACAGGCGTATTACG
1 GTCATTTTACCATACAGGCGTATTACG
* * *
63441869 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGCG-TATTACG
*
63441896 GTCTTTTTACC
1 GTCATTTTACC
63441907 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGCGTATTACG
Found at i:63441989 original size:27 final size:27
Alignment explanation
Indices: 63441959--63442159 Score: 136
Period size: 27 Copynumber: 7.4 Consensus size: 27
63441949 GTAAATCTAC
* *
63441959 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTAT
* ** *
63441986 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCGGTAA-TTTTAT
* * *
63442014 AAAGTCAAGGGTATTT-TGTAATTTTGT
1 AAA-CCAAGGGTATTTCGGTAATTTTAT
* * * *
63442041 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
*** * *
63442068 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * *
63442095 AAACC-AGTGGTATTTTGGCAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTTAT
* * * *
63442122 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTAT
63442149 AAACCAAGGGT
1 AAACCAAGGGT
63442160 GTAACACCCC
Statistics
Matches: 138, Mismatches: 31, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
26 13 0.09
27 103 0.75
28 12 0.09
29 10 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTAT
Found at i:63442153 original size:54 final size:54
Alignment explanation
Indices: 63441956--63442154 Score: 204
Period size: 54 Copynumber: 3.7 Consensus size: 54
63441946 TTTGTAAATC
* * * *
63441956 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTT-TGGTAA-TTT
* * * * *
63442011 TAGAAAGTCAAGGGTATTT-TGTAATTTTGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACT-AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTT
* * *** *
63442065 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGCAATTT
1 TACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTT
* *
63442119 TACAAACTAGGGGTATTTTGGTAATTTTGTAAACCA
1 TACAAACTAAGGGTATTTCGGTAATTTTGTAAACCA
63442155 AGGGTGTAAC
Statistics
Matches: 116, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
53 9 0.08
54 67 0.58
55 30 0.26
56 10 0.09
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
TACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTT
Found at i:63442159 original size:81 final size:81
Alignment explanation
Indices: 63441938--63442159 Score: 189
Period size: 82 Copynumber: 2.7 Consensus size: 81
63441928 TTCATCCTAT
* * * * * * ** * *
63441938 AAGGGTGTTTTGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT
1 AAGGGTATTTTGCAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCG
* *
63442003 ATAATTTTTAGAAAGTC
66 ATAATTTTCACAAAG-C
* ** ** ***
63442020 AAGGGTATTTTGTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
1 AAGGGTATTTTGCAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTC
*
63442084 GGTAA-TTTCACAAA-C
65 GATAATTTTCACAAAGC
*
63442099 CAGTGGTATTTTGGCAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGT
1 AAG-GGTATTTT-GCAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGT
63442160 GTAACACCCC
Statistics
Matches: 108, Mismatches: 28, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
79 3 0.03
80 8 0.07
81 45 0.42
82 52 0.48
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AAGGGTATTTTGCAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCG
ATAATTTTCACAAAGC
Found at i:63443597 original size:29 final size:29
Alignment explanation
Indices: 63443565--63443696 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
63443555 ATAGTGAATC
63443565 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
63443594 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
63443624 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
63443653 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
63443682 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63443697 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:63443706 original size:59 final size:59
Alignment explanation
Indices: 63443565--63443696 Score: 239
Period size: 59 Copynumber: 2.3 Consensus size: 59
63443555 ATAGTGAATC
63443565 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
63443624 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
63443682 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63443697 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 24 0.34
59 47 0.66
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:63451451 original size:29 final size:29
Alignment explanation
Indices: 63451419--63451550 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
63451409 ATAGTGAATC
63451419 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
63451448 CGCACACTTAGTGCTATCTAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
63451478 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
63451507 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
63451536 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63451551 GTACAATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 71 0.72
30 28 0.28
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:63451560 original size:59 final size:59
Alignment explanation
Indices: 63451419--63451550 Score: 230
Period size: 59 Copynumber: 2.3 Consensus size: 59
63451409 ATAGTGAATC
*
63451419 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATCTAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
63451478 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
63451536 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63451551 GTACAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 24 0.34
59 46 0.66
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:63453129 original size:47 final size:47
Alignment explanation
Indices: 63453059--63453231 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
63453049 CCCTTCGGGA
* *
63453059 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
63453106 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
63453153 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
63453200 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
63453232 ATTTCATCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:63453206 original size:22 final size:22
Alignment explanation
Indices: 63453134--63453209 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
63453124 CTTCACATCC
*
63453134 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
63453156 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
63453180 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
63453203 ATCACAT
1 ATCACAT
63453210 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:63455681 original size:40 final size:40
Alignment explanation
Indices: 63455636--63455802 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
63455626 CGGAATATAA
63455636 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
63455676 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
63455716 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
63455756 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
63455795 CCGGATAT
1 CCGGATAT
63455803 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63463664 original size:40 final size:40
Alignment explanation
Indices: 63463619--63463785 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
63463609 CGGAATATAA
63463619 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
63463659 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
63463699 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
63463739 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
63463778 CCGGATAT
1 CCGGATAT
63463786 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63468374 original size:27 final size:27
Alignment explanation
Indices: 63468344--63468500 Score: 233
Period size: 27 Copynumber: 5.8 Consensus size: 27
63468334 GGGTATTTTA
* *
63468344 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
63468371 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
63468398 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
63468425 GTAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
63468452 ATAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
63468479 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
63468501 CTTTGGTAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:63468508 original size:81 final size:81
Alignment explanation
Indices: 63468333--63468525 Score: 251
Period size: 81 Copynumber: 2.4 Consensus size: 81
63468323 CCTGTCACAA
* * * * * * * *
63468333 AGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
1 AGGGTAATTTGGTAATTTTATAAATCGAGGATAAAACGATAATTCTGTAAATCAAGGGTAAAACG
*
63468398 GTAATTCTGTAAATTG
66 GTAATTCTGTAAATCG
** *
63468414 AGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACGATAATTCTGTAAATCAAGGGTAAAACG
1 AGGGTAATTTGGTAATTTTATAAATCGAGGATAAAACGATAATTCTGTAAATCAAGGGTAAAACG
63468479 GTAATTCTGTAAATCG
66 GTAATTCTGTAAATCG
* * *
63468495 AGGGTACTTTGGTAATTTTACAAATTGAGGA
1 AGGGTAATTTGGTAATTTTATAAATCGAGGA
63468526 CATTTTAGTA
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (81 bp):
AGGGTAATTTGGTAATTTTATAAATCGAGGATAAAACGATAATTCTGTAAATCAAGGGTAAAACG
GTAATTCTGTAAATCG
Found at i:63469527 original size:15 final size:15
Alignment explanation
Indices: 63469507--63469544 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
63469497 CCCCCACTCA
63469507 AGGCCCAATACTTCT
1 AGGCCCAATACTTCT
63469522 AGGCCCAATACTTCT
1 AGGCCCAATACTTCT
63469537 AGGCCCAA
1 AGGCCCAA
63469545 ATTCGGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (15 bp):
AGGCCCAATACTTCT
Found at i:63477033 original size:48 final size:46
Alignment explanation
Indices: 63476974--63477089 Score: 119
Period size: 46 Copynumber: 2.5 Consensus size: 46
63476964 CACCATGTCT
* *
63476974 CAAACAAGTCTTACACTAGCT-TGTAT-ATCCCGAGGCCGATGCACGTCC
1 CAAACATGTCTTACACTAGCTCT-TATAAT---GAGCCCGATGCACGTCC
* * *
63477022 CAAACATGTCTTACACTGGCTCTTATAATGTGCCCGATGCATGTCC
1 CAAACATGTCTTACACTAGCTCTTATAATGAGCCCGATGCACGTCC
* *
63477068 CAGACATGTCTTACACTGGCTC
1 CAAACATGTCTTACACTAGCTC
63477090 ACATACCTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
46 35 0.58
48 22 0.37
49 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CAAACATGTCTTACACTAGCTCTTATAATGAGCCCGATGCACGTCC
Found at i:63488335 original size:55 final size:55
Alignment explanation
Indices: 63488168--63488571 Score: 312
Period size: 55 Copynumber: 7.6 Consensus size: 55
63488158 AACTTACCAT
* * *
63488168 TGCCATGT-CTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * **
63488221 TGCCATG-CCTTGGCATGGTCTTAAATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGTCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * * *
63488276 TGCCATGTCTTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATTAA
1 TGCCATGTCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * * **
63488331 TGCCATG-CATTGGCATGGTTTTACATGATATCCTTATC-T-T---AC-CA--AA
1 TGCCATGTCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* ** * * *
63488377 TGCCATATTCC-AAACATGCTCTTACAT-AGTATCCTTGTCTTAT-GAACTCACCAA
1 TGCCAT-GTCCTTGACATGGTCTTACATGA-TATCCTTGCCTTATAGAACTCATCAA
* *
63488431 TGCCATG-CCTTGGCATGGTCTTACATGGGACAT--TTGCCTTATAGTAACTCATCAA
1 TGCCATGTCCTTGACATGGTCTTACAT--GATATCCTTGCCTTATAG-AACTCATCAA
* * * * *
63488486 TGTCATGT-CTTGACATGGTCTTACATGATTTCCTTACCTTGTAGAACTTATCAA
1 TGCCATGTCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
*
63488540 TG-C-TGTGCCTTGGCATGGTCTTACATGATATC
1 TGCCATGT-CCTTGACATGGTCTTACATGATATC
63488572 ATTATTTTAG
Statistics
Matches: 279, Mismatches: 45, Indels: 53
0.74 0.12 0.14
Matches are distributed among these distances:
46 9 0.03
47 20 0.07
48 3 0.01
49 3 0.01
51 2 0.01
52 10 0.04
53 59 0.21
54 68 0.24
55 74 0.27
56 29 0.10
57 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (55 bp):
TGCCATGTCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:63488457 original size:100 final size:104
Alignment explanation
Indices: 63488180--63488567 Score: 331
Period size: 109 Copynumber: 3.7 Consensus size: 104
63488170 CCATGTCTTG
* *
63488180 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
1 ACATGGTCTTACAT-GTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* * ***
63488245 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTTG
65 AT--GA-CTATGCCTTATACTAACTCA-CAATGCCATGTCTCAA
* * ** * *
63488289 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATTAATGCCATGCATTGGCATGGTTTTA
1 ACATGGTCTTACATG-TATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
* *
63488354 CATGA-TAT-CCTTAT-CTTAC-CA-AATGCCATAT-TCCAA
64 CATGACTATGCCTTATACTAACTCACAATGCCATGTCT-CAA
* *
63488390 ACATGCTCTTACATAGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACAT-GTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* * * **
63488455 ATGGGACATTTGCCTTATAGTAACTCATCAATGTCATGTCT-TG
65 AT--GAC-TATGCCTTATACTAACTCA-CAATGCCATGTCTCAA
* * * * * **
63488498 ACATGGTCTTACATGATTTCCTTACCTTGTAGAACTTATCAATGCTGTGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATG-TATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
63488563 CATGA
64 CATGA
63488568 TATCATTATT
Statistics
Matches: 224, Mismatches: 39, Indels: 34
0.75 0.13 0.11
Matches are distributed among these distances:
100 33 0.15
101 34 0.15
102 3 0.01
103 2 0.01
104 5 0.02
105 12 0.05
106 5 0.02
107 5 0.02
108 26 0.12
109 67 0.30
110 32 0.14
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (104 bp):
ACATGGTCTTACATGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACA
TGACTATGCCTTATACTAACTCACAATGCCATGTCTCAA
Found at i:63488613 original size:210 final size:210
Alignment explanation
Indices: 63488180--63488576 Score: 643
Period size: 210 Copynumber: 1.9 Consensus size: 210
63488170 CCATGTCTTG
* *
63488180 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
1 ACATGGTCTTACATAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
*
63488245 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
66 ATGGGACATTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
* * * *
63488310 TTGCCTTATAGAACTTATTAATGCCATGCATTGGCATGGTTTTACATGATATCCTTATCTTACCA
131 TTACCTTATAGAACTTATCAATGCCATGCATTGGCATGGTCTTACATGATATCATTATCTTACCA
*
63488375 AATGCCATATTCCAA
196 AATGCCACATTCCAA
* * *
63488390 ACATGCTCTTACATAGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
*
63488455 ATGGGACATTTGCCTTATAGTAACTCATCAATGTCATGTC-TTGACATGGTCTTACATGATTTCC
66 ATGGGACATTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
* ** *
63488519 TTACCTTGTAGAACTTATCAATGCTGTGCCTTGGCATGGTCTTACATGATATCATTAT
131 TTACCTTATAGAACTTATCAATGCCATGCATTGGCATGGTCTTACATGATATCATTAT
63488577 TTTAGTGCTA
Statistics
Matches: 172, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
209 74 0.43
210 98 0.57
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (210 bp):
ACATGGTCTTACATAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
ATGGGACATTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
TTACCTTATAGAACTTATCAATGCCATGCATTGGCATGGTCTTACATGATATCATTATCTTACCA
AATGCCACATTCCAA
Found at i:63493068 original size:39 final size:40
Alignment explanation
Indices: 63492947--63493139 Score: 196
Period size: 40 Copynumber: 4.8 Consensus size: 40
63492937 GGATATAGCT
* * * * *
63492947 ACTCGCTCAAATTCCTTCTGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
63492987 ACTCGCACAAATGCCTTCGGGACTCAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
63493027 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
63493066 ACTCGCACAAATGCCTTC-GGATCTTAGTCCAG-ATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTA
* *
63493106 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
63493140 TATCATTCGA
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 65 0.51
41 24 0.19
42 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:63497053 original size:26 final size:26
Alignment explanation
Indices: 63497024--63497104 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 26
63497014 GTGATCATGT
63497024 GTGTAGTACTAAGTGCAGGCCACTAC
1 GTGTAGTACTAAGTGCAGGCCACTAC
* * * * *
63497050 GTGTAGCA-GATG-GTTAGGCCAC-AT
1 GTGTAGTACTAAGTG-CAGGCCACTAC
* *
63497074 GTGTAGTACTAAGTGCAGGCTATTAC
1 GTGTAGTACTAAGTGCAGGCCACTAC
63497100 GTGTA
1 GTGTA
63497105 CCGGATAATT
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
24 9 0.23
25 16 0.41
26 14 0.36
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCCACTAC
Found at i:63497143 original size:49 final size:49
Alignment explanation
Indices: 63496965--63497196 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
63496955 TCTATTGTGA
* * * * *
63496965 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
* ** * * * **
63497016 GATCATGTGTGTAGTACTAAGTGCAGGCCACTACGTGTAGCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
63497065 AGGCCACATGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
63497115 GGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
63497164 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
63497197 TGCGTACTAG
Statistics
Matches: 152, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 77 0.51
50 40 0.26
51 35 0.23
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:63500109 original size:51 final size:49
Alignment explanation
Indices: 63500034--63500171 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 49
63500024 TGAGGTTGCA
* * *
63500034 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGAAG-CTACTATGCGTACCAG-AAACTGAGATCACG
* * ** *** *
63500085 TGTGTAGTACTAAGTGTAAGCTACTACGTGTATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTG-AAGCTACTATGCGTACCAGAAACTGAGATCACG
63500135 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTG-AAGCTACTATGCGTACCAGA
63500172 TAGCTTCGGC
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
50 41 0.59
51 27 0.39
52 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGAAGCTACTATGCGTACCAGAAACTGAGATCACG
Found at i:63501089 original size:16 final size:16
Alignment explanation
Indices: 63501068--63501099 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
63501058 GTGGCATGTA
63501068 TAGGAAGTTGGTTTGT
1 TAGGAAGTTGGTTTGT
63501084 TAGGAAGTTGGTTTGT
1 TAGGAAGTTGGTTTGT
63501100 GATATGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (16 bp):
TAGGAAGTTGGTTTGT
Found at i:63508977 original size:29 final size:29
Alignment explanation
Indices: 63508935--63509068 Score: 223
Period size: 29 Copynumber: 4.5 Consensus size: 29
63508925 AAAATTGTAC
63508935 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
63508964 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
63508993 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
63509023 AGCACTAAGTGTGCGAGCTGAAAATATATAT
1 AGCACTAAGTGTGCGAACTG-AAA-ATATAT
63509054 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
63509069 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
29 52 0.51
30 25 0.25
31 23 0.23
32 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:63509031 original size:59 final size:60
Alignment explanation
Indices: 63508935--63509068 Score: 227
Period size: 59 Copynumber: 2.2 Consensus size: 60
63508925 AAAATTGTAC
63508935 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTG-AAA-ATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAT
* *
63508993 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATATAT
63509054 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
63509069 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
58 23 0.32
59 24 0.34
60 3 0.04
61 21 0.30
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (60 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAT
Found at i:63509080 original size:88 final size:89
Alignment explanation
Indices: 63508905--63509068 Score: 249
Period size: 88 Copynumber: 1.8 Consensus size: 89
63508895 GACAAGATTG
* * *
63508905 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
63508970 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
63508994 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATATAGCA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTG-AAA-ATATATAGCA
63509058 CTAAGTGTGCG
64 CTAAGTGTGCG
63509069 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
88 28 0.42
89 18 0.27
90 21 0.31
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:63510518 original size:27 final size:27
Alignment explanation
Indices: 63510488--63510613 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
63510478 CTTGGTTTAC
63510488 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
63510515 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
63510542 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
**
63510569 AAAATTACCAAAATACCCCT-GATTTAC
1 AAAATTACCAAAATACCCCTAG-TTTGT
63510596 AAAATTA-CAGAAATACCC
1 AAAATTACCA-AAATACCC
63510614 TTGACTTTCT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
26 5 0.06
27 74 0.89
28 4 0.05
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:63510568 original size:54 final size:54
Alignment explanation
Indices: 63510480--63510670 Score: 215
Period size: 54 Copynumber: 3.5 Consensus size: 54
63510470 GTTACACCCT
* *
63510480 TGGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCAC
1 TGGTTTACAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCAC
*** *
63510534 TGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCC
1 TGGTTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCAC
* * * * * *
63510588 TGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCAC
1 TGGTTTACAAAATTACCGAAATACCC-TCAATTTGT-AAAATTACCA-AAATACCAC
*
63510644 TGGTTTACAAAATTACTGAAATACCCT
1 TGGTTTACAAAATTACCGAAATACCCT
63510671 TGGTTTGTAG
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
54 67 0.58
55 9 0.08
56 39 0.34
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
TGGTTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCAC
Found at i:63510664 original size:27 final size:26
Alignment explanation
Indices: 63510475--63510676 Score: 127
Period size: 27 Copynumber: 7.4 Consensus size: 26
63510465 GGGGTGTTAC
*
63510475 ACCCTTGGTTTACAAAATTACCAAAAT
1 ACCC-TGGTTTACAAAATTACCGAAAT
* ** *
63510502 ACCCCTAGTTTGTAAAATTACCAAAAT
1 A-CCCTGGTTTACAAAATTACCGAAAT
***
63510529 ACCACTGGTTTGTGAAATTACCGAAAT
1 ACC-CTGGTTTACAAAATTACCGAAAT
** ** *
63510556 ACCCTCAATTTGTAAAATTACCAAAAT
1 ACCCT-GGTTTACAAAATTACCGAAAT
* *
63510583 ACCCCTGATTTACAAAATTACAGAAAT
1 A-CCCTGGTTTACAAAATTACCGAAAT
* **
63510610 ACCCTTGACTTT-CTAAAAATTATAGAAAT
1 ACCC-TG-GTTTAC--AAAATTACCGAAAT
*
63510639 ACCACTGGTTTACAAAATTACTGAAAT
1 ACC-CTGGTTTACAAAATTACCGAAAT
63510666 ACCCTTGGTTT
1 ACCC-TGGTTT
63510677 GTAGATTTAC
Statistics
Matches: 144, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
26 8 0.06
27 103 0.72
28 13 0.09
29 19 0.13
30 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
ACCCTGGTTTACAAAATTACCGAAAT
Found at i:63510794 original size:27 final size:27
Alignment explanation
Indices: 63510730--63510794 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
63510720 ACCCCTAATA
*
63510730 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
63510757 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
63510784 GGTAAAATGAC
1 GGTAAAATGAC
63510795 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:63511633 original size:25 final size:25
Alignment explanation
Indices: 63511600--63511669 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
63511590 AGGAAGTGCT
*
63511600 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
63511625 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
63511650 AAATGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
63511670 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:63511671 original size:24 final size:24
Alignment explanation
Indices: 63511600--63511682 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
63511590 AGGAAGTGCT
* *
63511600 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
63511624 AAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
63511649 AAAATGGGCTTTGCCCCAG-TTATT
1 AAAA-GGGCTTTGCCCCAGTTTATC
63511673 AAAAGAGGCT
1 AAAAG-GGCT
63511683 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 1 0.02
24 16 0.30
25 36 0.68
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:63511941 original size:31 final size:30
Alignment explanation
Indices: 63511889--63511971 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 30
63511879 CGCTTACAGT
63511889 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
63511919 AAAGGCTTCGGCCCAGTAATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
63511950 AAAGGCTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
63511972 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGATTTATGA
Found at i:63512019 original size:29 final size:28
Alignment explanation
Indices: 63511985--63512039 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
63511975 AGACTGAATT
* *
63511985 AGGGCTTAGGCCCATACTGCTACTGTTTA
1 AGGGCTAAGGCCCAGACTG-TACTGTTTA
63512014 AGGGCTAAGGCCCAGACTGTACTGTT
1 AGGGCTAAGGCCCAGACTGTACTGTT
63512040 ACTGAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGACTGTACTGTTTA
Found at i:63512059 original size:33 final size:33
Alignment explanation
Indices: 63511977--63512070 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
63511967 ATATGTCGAG
*
63511977 ACTGAATTAGGGCTTAGGCCCATACTGCTACTGTT
1 ACTGAA-TAGGGCTTAGGCCCAGACTG-TACTGTT
*
63512012 --T--A-AGGGCTAAGGCCCAGACTGTACTGTT
1 ACTGAATAGGGCTTAGGCCCAGACTGTACTGTT
* *
63512040 ACTGAATAGGGCTTTGGCCCAGATTGTACTG
1 ACTGAATAGGGCTTAGGCCCAGACTGTACTG
63512071 ACACTGTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.14
29 17 0.35
30 1 0.02
31 1 0.02
32 1 0.02
33 22 0.45
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (33 bp):
ACTGAATAGGGCTTAGGCCCAGACTGTACTGTT
Found at i:63518425 original size:16 final size:17
Alignment explanation
Indices: 63518392--63518425 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
63518382 GTATAAGGAA
*
63518392 ATTTTGTGTAATTTGGG
1 ATTTTGTGTAATTAGGG
63518409 ATTTTGT-TAATTAGGG
1 ATTTTGTGTAATTAGGG
63518425 A
1 A
63518426 CTAAAATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
ATTTTGTGTAATTAGGG
Found at i:63518903 original size:42 final size:43
Alignment explanation
Indices: 63518787--63518926 Score: 135
Period size: 42 Copynumber: 3.3 Consensus size: 43
63518777 ACATAGGATT
* * * * *
63518787 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATTTGACTTCGTGTAAGACCATGTTTGGGACAG-TGACA
* *
63518830 TCGAT-TTGAGATTTACGTGTAAGACCATGTTTGGGACA-TCGACA
1 TCGATATT-TGACTT-CGTGTAAGACCATGTTTGGGACAGT-GACA
* *
63518874 TC-ATATTTGACTTCGTGTAAGACCCTGTTTGGGACAGTGGCA
1 TCGATATTTGACTTCGTGTAAGACCATGTTTGGGACAGTGACA
63518916 TCGATATTTGA
1 TCGATATTTGA
63518927 TTACATGTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
42 28 0.35
43 26 0.32
44 27 0.33
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATTTGACTTCGTGTAAGACCATGTTTGGGACAGTGACA
Found at i:63528274 original size:25 final size:24
Alignment explanation
Indices: 63528228--63528274 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
63528218 ACCAATTCTT
**
63528228 AGCTTGAGGAGCTTACTGTTATGC
1 AGCTTGAGGAGCTTACCATTATGC
*
63528252 AGCTTGCATGAGCTTACCATTAT
1 AGCTTG-AGGAGCTTACCATTAT
63528275 TTTGCTAGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (24 bp):
AGCTTGAGGAGCTTACCATTATGC
Found at i:63531538 original size:45 final size:45
Alignment explanation
Indices: 63531438--63531564 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 45
63531428 TTTTCTCAAA
* * * * *
63531438 TCACCAGCATT-TCGCCTGTTAGGCTCG-AGGCTCG-ATATTAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAGT
63531480 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTA-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAGT
** * *
63531524 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
63531565 ATCAAGTCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 10 0.14
43 14 0.19
44 7 0.10
45 41 0.57
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAGT
Found at i:63531942 original size:43 final size:43
Alignment explanation
Indices: 63531881--63532177 Score: 495
Period size: 43 Copynumber: 6.9 Consensus size: 43
63531871 ACATATTATT
* * *
63531881 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
63531924 TCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
63531967 TCACCGGCACGAAGCTTGCTAGGTACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
63532010 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
63532053 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
63532096 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
63532139 TCACCGGCACTAGGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
63532178 ATACCAGCAC
Statistics
Matches: 238, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 238 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:63538741 original size:49 final size:49
Alignment explanation
Indices: 63538639--63538792 Score: 145
Period size: 49 Copynumber: 3.2 Consensus size: 49
63538629 GGTGTGTTAG
* *
63538639 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATTGACACAGATAAGTGAGAGCCAA
* ** *
63538688 TGTAAGACCTGTCTGGGACATGGCATTGAC-CTTGATGTGTG-GAAGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATTGACAC-AGATAAGTGAG-AGCCAA
* * * ** *
63538737 TGTAAGACCTGTCTAGGAAATGACATTGACTGAGAT--GTGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATTGACACAGATAAGTGAGAGCCAA
*
63538784 TATAAGACC
1 TGTAAGACC
63538793 ATGTTTGGAA
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
47 15 0.17
48 3 0.03
49 69 0.79
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATTGACACAGATAAGTGAGAGCCAA
Found at i:63540558 original size:6 final size:6
Alignment explanation
Indices: 63540547--63540657 Score: 77
Period size: 6 Copynumber: 17.8 Consensus size: 6
63540537 TATCAAAGCT
* *
63540547 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
63540596 AGTATC AGGTAA-C AGAATC A-AAGTC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAA-TC AGAATC AGAATC A-G-AATC AGAATC
*
63540646 AAAAATC AGAAT
1 -AGAATC AGAAT
63540658 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
5 7 0.08
6 58 0.70
7 15 0.18
8 3 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:63540583 original size:31 final size:31
Alignment explanation
Indices: 63540547--63540657 Score: 161
Period size: 31 Copynumber: 3.5 Consensus size: 31
63540537 TATCAAAGCT
* * *
63540547 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
63540578 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
63540609 AGAATCA-AAGTCAGAATCAGTATCAGGTAAC
1 AGAATCAGAA-TCAGAATCAGTATCAGGTAAC
*
63540640 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
63540658 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.03
31 62 0.84
32 8 0.11
33 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:63540613 original size:19 final size:19
Alignment explanation
Indices: 63540589--63540646 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
63540579 GAATCAGAAT
63540589 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
63540608 CAGAATCA--A--A-GT--
1 CAGAATCAGTATCAGGTAA
63540620 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
63540639 CAGAATCA
1 CAGAATCA
63540647 AAAATCAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
12 8 0.25
14 3 0.09
15 1 0.03
16 1 0.03
17 3 0.09
19 16 0.50
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:63541095 original size:27 final size:27
Alignment explanation
Indices: 63541065--63541341 Score: 367
Period size: 27 Copynumber: 10.3 Consensus size: 27
63541055 GGGGCAAAAT
* * *
63541065 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
63541092 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
63541119 AGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63541146 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
63541173 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
63541200 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63541227 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63541254 AGTAATTCTACCCTAC-AGGTGTATCTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
63541281 AGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
63541308 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
63541335 GGTAATT
1 GGTAATT
63541342 TCACAAATCA
Statistics
Matches: 221, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 216 0.98
28 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:63541357 original size:27 final size:27
Alignment explanation
Indices: 63541323--63541558 Score: 121
Period size: 27 Copynumber: 8.7 Consensus size: 27
63541313 TTCTACCCTA
* *
63541323 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* *
63541350 CAATGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * *** *
63541377 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * ***
63541404 CGAGGGTATTTTGGTGATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
** * *
63541431 CAAGGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
** * * **
63541458 TGAGGGTATTTCGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * * * * *
63541485 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
** * * **
63541512 CGGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* *
63541539 CGAGGGAATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
63541559 GGTAAACTAA
Statistics
Matches: 167, Mismatches: 42, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 167 1.00
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTCACAAAC
Found at i:63541384 original size:54 final size:54
Alignment explanation
Indices: 63541326--63541536 Score: 219
Period size: 54 Copynumber: 3.9 Consensus size: 54
63541316 TACCCTACAA
* * * *
63541326 GGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAG
* ** * ** *
63541380 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTGATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAG
* * **
63541434 GGGTATTTCAGTAATTTTATAAA-CTGAGGGTATTTCGGTAATTTTACAAGTC-G
1 GGGTATTTCGGTAATTTTATAAATC-GAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
63541487 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAA
1 -GGGTATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAA
63541537 GTCGAGGGAA
Statistics
Matches: 126, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
53 1 0.01
54 124 0.98
55 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:63541387 original size:81 final size:80
Alignment explanation
Indices: 63541065--63541372 Score: 318
Period size: 81 Copynumber: 3.8 Consensus size: 80
63541055 GGGGCAAAAT
* * * * * * *
63541065 GGTAATTTTACCCCACAAGGGTATCTCGGTAA-TTCTACCCTACAGGGGTATTTCAGT-ATTTCT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTTC-ACCCT-CAAGGGTATTTCGGTAATTT-T
*
63541128 ACCCTACAGGGGTATTTC
63 ACCCTACAAGGGTATTTC
* * * *
63541146 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTTCACCCT-CAAGGGTATTTCGGTAATTTTAC
*
63541211 CCTATAAGGGTATTTC
65 CCTACAAGGGTATTTC
* * *
63541227 GGTAATTCTACCCTACAGGGGTATTTTAGTAA-TTCTACCCT-ACAGGTGTATCTCAGTAATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTTC-ACCCTCA-AGG-GTATTTCGGTAATTTT
63541290 ACCCTACAAGGGTATTTC
63 ACCCTACAAGGGTATTTC
* * ** * *
63541308 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTTCAC-CCTCAAGGGTATTTCGGTAATTTTAC
63541373 AAACCAGGGG
Statistics
Matches: 191, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.01
80 4 0.02
81 174 0.91
82 11 0.06
83 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTTCACCCTCAAGGGTATTTCGGTAATTTTACC
CTACAAGGGTATTTC
Found at i:63541410 original size:81 final size:80
Alignment explanation
Indices: 63541325--63541558 Score: 236
Period size: 81 Copynumber: 2.9 Consensus size: 80
63541315 CTACCCTACA
* * * *
63541325 AGGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACGA-GGGTATTTTG
**
63541390 GTAATTTTA-TTGATCG
65 GTAATTTTACAAG-TCG
* * * * ** * *
63541406 AGGGTATTTTGGTGATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAACTGAGGGTATTTCG
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAAC-GAGGGTATTTTG
63541471 GTAATTTTACAAGTCG
65 GTAATTTTACAAGTCG
* * ** * * *
63541487 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGAATTTTG
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAA-ACGAGGGTATTTTG
63541552 GTAATTT
65 GTAATTT
63541559 GGTAAACTAA
Statistics
Matches: 122, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
81 119 0.98
82 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGTATTTTGG
TAATTTTACAAGTCG
Done.