Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 21 of 235
Found at i:6318797 original size:27 final size:27
Alignment explanation
Indices: 6318758--6318935 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
6318748 ATTTTGAGCC
* * *
6318758 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
6318785 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
6318812 CGCACACTTAGTGCTACATAGTCAACCT
1 CGCACACTTAGTGCTACATAGTCAA-CT
** * *
6318840 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
6318867 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
6318894 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
6318921 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
6318936 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:6318897 original size:82 final size:81
Alignment explanation
Indices: 6318779--6318934 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
6318769 TGCTATATAA
* *
6318779 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTC-AACCTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAA--TCGC
6318843 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
6318861 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
6318925 CACTTAGTGC
65 CACTTAGTGC
6318935 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 16 0.24
82 48 0.73
83 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:6321915 original size:50 final size:49
Alignment explanation
Indices: 6321788--6321979 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 49
6321778 TATGTAGCCA
* * * * **
6321788 AACTATCTGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACT
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTAACT
*
6321837 AATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCT
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTAA-CT
* * * *
6321887 AACTATCTGATACACGTTGTAGCCTGCACTTAGTACTACACACGTGATCG
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT-AACT
* * * *
6321937 AAGTTAT-TGGGTACGCATAGTAGCCTACACTTAGTACTACACA
1 AA-CTATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACA
6321980 TGCCACCTAG
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
49 40 0.33
50 48 0.40
51 33 0.27
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTAACT
Found at i:6321988 original size:101 final size:99
Alignment explanation
Indices: 6321788--6321988 Score: 242
Period size: 101 Copynumber: 2.0 Consensus size: 99
6321778 TATGTAGCCA
* * * * *
6321788 AACTATCTGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACTAATTATCTGGTACACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAATACTACACACGCGACGAATTATCTGGTACACA
* *
6321853 TAGTAGCCTGCACTTAGTACTACACACGTAACCT
66 TAGTAGCCTACACTTAGTACTACACACGCAACCT
* * * *
6321887 AACTATCTGATACACGTTGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TGGGTAC
1 AACTATCTGATACACATAGTAGCCTGCACTTAATACTACACACGCGA-CGAA-TTATCT-GGTAC
* * *
6321951 GCATAGTAGCCTACACTTAGTACTACACATGCCACCT
63 ACATAGTAGCCTACACTTAGTACTACACACGCAACCT
6321988 A
1 A
6321989 GCTACATACA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
99 40 0.47
100 4 0.05
101 41 0.48
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
AACTATCTGATACACATAGTAGCCTGCACTTAATACTACACACGCGACGAATTATCTGGTACACA
TAGTAGCCTACACTTAGTACTACACACGCAACCT
Found at i:6322829 original size:30 final size:30
Alignment explanation
Indices: 6322793--6322853 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6322783 TCCTTAACTC
*
6322793 AAACTTTGGAAAATTTACAATTTTTCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
6322823 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
6322853 A
1 A
6322854 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:6324256 original size:47 final size:47
Alignment explanation
Indices: 6324185--6324363 Score: 213
Period size: 47 Copynumber: 3.8 Consensus size: 47
6324175 TGGGTGAGGT
6324185 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
* * * ** *
6324232 GTCGATGCCATATCCCAGACATGGTCTTACACTGGCTTACCTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
* *
6324280 GCCGATG-CATGTCCC-GAACAT-GTCTTACACTAGCTC-TCGTCTCAA
1 GCCGATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCAT-ATCTCAA
*
6324325 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
6324364 TCACAATGTG
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 25 0.23
47 63 0.57
48 21 0.19
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
Found at i:6324354 original size:94 final size:92
Alignment explanation
Indices: 6324185--6324410 Score: 278
Period size: 94 Copynumber: 2.4 Consensus size: 92
6324175 TGGGTGAGGT
* *
6324185 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATATCCCAG
1 GCCGATG-CATGTCCCA-ACAT-GTCTTACACTAGCTCATATCTCAAGCCGATGCCATATCCCAG
**
6324250 ACATGGTCTTACACTGGCT-T-ACCTCTCGAG
63 ACATGGTCTTACACTGGCTCTCA-CAAT-GAG
* *
6324280 GCCGATGCATGTCCCGAACATGTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCC-AACATGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATATCCCAG
* *
6324344 ACATGGTCTTACATTGGCTCTCACAATGTG
63 ACATGGTCTTACACTGGCTCTCACAATGAG
6324374 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCA
1 GCCGATGCATGTCCC-AACATGTCTTACACTAGCTCA
6324411 CAAACAAATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
92 1 0.01
93 20 0.17
94 83 0.72
95 11 0.09
96 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAACATGTCTTACACTAGCTCATATCTCAAGCCGATGCCATATCCCAGACA
TGGTCTTACACTGGCTCTCACAATGAG
Found at i:6324385 original size:47 final size:47
Alignment explanation
Indices: 6324183--6324410 Score: 206
Period size: 47 Copynumber: 4.9 Consensus size: 47
6324173 CGTGGGTGAG
*
6324183 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC--ATCACAA
* * * *
6324232 GT--CGATGCCATATCCCAGACATGGTCTTACACTGGCTTACCTCTCGA
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCACAA
* * *
6324279 G-GCCGATG-CATGTCCC-GAACAT-GTCTTACACTAGCTCTCGTCTCAA
1 GTGCCGATGCCATGTCCCAG-ACATGGTCTTACACT-G-GCTCATCACAA
*
6324325 -TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCACAA
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACAA
* *
6324370 TGTGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCA
1 -GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
6324411 CAAACAAATG
Statistics
Matches: 151, Mismatches: 13, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
45 5 0.03
46 40 0.26
47 79 0.52
48 24 0.16
49 3 0.02
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACAA
Found at i:6330358 original size:19 final size:18
Alignment explanation
Indices: 6330334--6330369 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6330324 TTAAATTTAG
*
6330334 TGAATTAATTGAATTATGT
1 TGAATTAAATG-ATTATGT
6330353 TGAATTAAATGATTATG
1 TGAATTAAATGATTATG
6330370 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
TGAATTAAATGATTATGT
Found at i:6330852 original size:63 final size:63
Alignment explanation
Indices: 6330772--6330954 Score: 188
Period size: 66 Copynumber: 2.9 Consensus size: 63
6330762 AGACATTATG
* *
6330772 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
6330835 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
6330900 A
63 A
** * * * * *
6330901 AACTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
6330955 CGAACTATAT
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
62 1 0.01
63 39 0.41
64 5 0.05
65 6 0.06
66 45 0.47
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:6335375 original size:16 final size:18
Alignment explanation
Indices: 6335349--6335382 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
6335339 GGCCAGAATG
6335349 GGCTGTGTGGGCC-CACA
1 GGCTGTGTGGGCCTCACA
6335366 GGCT-TGTGGGCCTCACA
1 GGCTGTGTGGGCCTCACA
6335383 CGGGCAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (18 bp):
GGCTGTGTGGGCCTCACA
Found at i:6337531 original size:39 final size:40
Alignment explanation
Indices: 6337447--6337531 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
6337437 ACTTAATTCA
* * *
6337447 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
6337487 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
6337526 TCAGCA
1 CCAGCA
6337532 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:6337656 original size:45 final size:47
Alignment explanation
Indices: 6337602--6337710 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
6337592 TGCACACTTT
* **
6337602 TCACAATTGGTCATTCGGCCTTATCACAT-T-TTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTACACAT-TCA
*
6337648 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTACACATTCA
6337695 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
6337711 ATCTTAAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 23 0.41
46 6 0.11
47 27 0.48
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTACACATTCA
Found at i:6338186 original size:16 final size:16
Alignment explanation
Indices: 6338162--6338201 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6338152 TTTGGTTCGC
* *
6338162 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
6338178 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
6338194 TGTAATGG
1 TGTAATGG
6338202 GAAAGCTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:6342068 original size:44 final size:45
Alignment explanation
Indices: 6342003--6342093 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6341993 ACCTCTATTC
* * *
6342003 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
6342047 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
6342092 CA
1 CA
6342094 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:6342095 original size:16 final size:16
Alignment explanation
Indices: 6342074--6342142 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
6342064 GATTAGCTAT
6342074 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6342090 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
6342107 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6342123 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6342139 TACA
1 TACA
6342143 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6342116 original size:33 final size:32
Alignment explanation
Indices: 6342074--6342142 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
6342064 GATTAGCTAT
6342074 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
6342107 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
6342139 TACA
1 TACA
6342143 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:6345555 original size:46 final size:45
Alignment explanation
Indices: 6345507--6345671 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 45
6345497 GTTGAGCATT
*
6345507 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
* * *** * *
6345553 CGAATTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTC
* * *
6345600 CGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
* *
6345646 CGAGCTCGTTGAGTTGAGTTCGAGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTT
6345672 TGCTAATGGG
Statistics
Matches: 92, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 54 0.59
47 28 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTC
Found at i:6345670 original size:93 final size:93
Alignment explanation
Indices: 6345502--6345671 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
6345492 GGATGGTTGA
* * ** *
6345502 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAATTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6345567 TGAGTTCGAGTTCGAGAGATGTAACTAG
66 TGAGTTCGAGTTCGAGAGATGTAACTAG
* * *
6345595 GCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6345660 TGAGTTCGAGTT
66 TGAGTTCGAGTT
6345672 TGCTAATGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTTCGAGTTCGAGAGATGTAACTAG
Found at i:6353069 original size:54 final size:54
Alignment explanation
Indices: 6352994--6353104 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
6352984 TTGCAATTCA
6352994 CAACCACATCATGCGCGGTCAACCAATCCAAACCAAGAATAACATCAAATTCGT
1 CAACCACATCATGCGCGGTCAACCAATCCAAACCAAGAATAACATCAAATTCGT
*
6353048 CAACCGCATCATGCGCGGTCAACCAATCCAAACCAAGAATAACATCAAATTCGT
1 CAACCACATCATGCGCGGTCAACCAATCCAAACCAAGAATAACATCAAATTCGT
6353102 CAA
1 CAA
6353105 ACGGCAAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.32, G:0.12, T:0.16
Consensus pattern (54 bp):
CAACCACATCATGCGCGGTCAACCAATCCAAACCAAGAATAACATCAAATTCGT
Found at i:6359644 original size:29 final size:29
Alignment explanation
Indices: 6359602--6359683 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
6359592 TATATATGTG
*
6359602 AATTATCGAGCACTAAGTGTGCGGAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
6359631 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
6359660 AACTATCGAGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
6359684 TCTCATTGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:6359755 original size:71 final size:71
Alignment explanation
Indices: 6359639--6359939 Score: 593
Period size: 71 Copynumber: 4.2 Consensus size: 71
6359629 AAAATTATCG
*
6359639 AGCACTAAGTGTGCGAAGTAAAACTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
6359704 AATAAT
66 AATAAT
6359710 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
6359775 AATAAT
66 AATAAT
6359781 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
6359846 AATAAT
66 AATAAT
6359852 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
1 AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
6359917 AATAAT
66 AATAAT
6359923 AGCACTAAGTGTGCGAA
1 AGCACTAAGTGTGCGAA
6359940 TATAACAAGT
Statistics
Matches: 229, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 229 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (71 bp):
AGCACTAAGTGTGCGAAGTAAAAGTATCGAGCACTAAGTGTGCGATCTCATTGCATTGCGAGTTA
AATAAT
Found at i:6375331 original size:6 final size:6
Alignment explanation
Indices: 6375320--6375345 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6375310 GGAATACCGA
6375320 CCACGC CCACGC CCACGC CCACGC CC
1 CCACGC CCACGC CCACGC CCACGC CC
6375346 CCTTCTTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.69, G:0.15, T:0.00
Consensus pattern (6 bp):
CCACGC
Found at i:6377135 original size:18 final size:20
Alignment explanation
Indices: 6377080--6377126 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
6377070 ACTTTTTTCT
6377080 TTTTACTTTTCCCT-CAAAAC
1 TTTTAC-TTTCCCTCCAAAAC
6377100 TTTTACTTTCCCTCCAAAA-
1 TTTTACTTTCCCTCCAAAAC
6377119 TTTTACTT
1 TTTTACTT
6377127 CCTCCCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTACTTTCCCTCCAAAAC
Found at i:6377172 original size:74 final size:72
Alignment explanation
Indices: 6377027--6377189 Score: 226
Period size: 74 Copynumber: 2.3 Consensus size: 72
6377017 CACTCATACC
* *
6377027 CTTTTACTTTTCCC-CAAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTTTC
1 CTTTTAC-TTTCCCTCCAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTCTC
6377091 CCTCAAAA
65 CCTCAAAA
* *
6377099 CTTTTACTTTCCCTCCAAAATTTTACTTCCTCCCAAACTCCCAGAACTTTTTTCTTTTTACCTTC
1 CTTTTACTTTCCCTCCAAAATTTAACTT-CTCCCAAAC-CCCAAAACTTTTTTCTTTTTA-CTTC
6377164 TCCC-CAAAA
63 TCCCTCAAAA
6377173 CTTTTAC-TT-CCTCCAAA
1 CTTTTACTTTCCCTCCAAA
6377190 CCCCAAAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
71 6 0.07
72 27 0.33
73 11 0.13
74 32 0.39
75 7 0.08
ACGTcount: A:0.25, C:0.33, G:0.01, T:0.41
Consensus pattern (72 bp):
CTTTTACTTTCCCTCCAAAATTTAACTTCTCCCAAACCCCAAAACTTTTTTCTTTTTACTTCTCC
CTCAAAA
Found at i:6384609 original size:35 final size:35
Alignment explanation
Indices: 6384537--6384764 Score: 244
Period size: 35 Copynumber: 6.6 Consensus size: 35
6384527 ATTGAAATAA
* * * ** *
6384537 CATACCTACATTTCAT-ACTTAGTATGGAAAATAC
1 CATACCTACGTATCATAACTCAGTATGGACGATGC
*
6384571 CATACCTACGTTTCATAACTCAGTATGGACGATGC
1 CATACCTACGTATCATAACTCAGTATGGACGATGC
* * *
6384606 CATACCTACATGTCATAACTCAATATGGACGATGC
1 CATACCTACGTATCATAACTCAGTATGGACGATGC
*
6384641 CATACCTACGTATCATAGCTCAGTATGGACGATGC
1 CATACCTACGTATCATAACTCAGTATGGACGATGC
* ***
6384676 CATACCTACGTATCATAGCTCAGTATGGTTAATGC
1 CATACCTACGTATCATAACTCAGTATGGACGATGC
* * * ** *
6384711 CATACCTACTTATCA-AGCTCGGTATGGTTGATAC
1 CATACCTACGTATCATAACTCAGTATGGACGATGC
*
6384745 CATACCTACGTATAATAACT
1 CATACCTACGTATCATAACT
6384765 TTGCCACGGG
Statistics
Matches: 170, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
34 44 0.26
35 126 0.74
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (35 bp):
CATACCTACGTATCATAACTCAGTATGGACGATGC
Found at i:6388126 original size:47 final size:48
Alignment explanation
Indices: 6388025--6388131 Score: 128
Period size: 47 Copynumber: 2.2 Consensus size: 48
6388015 CATAGTGTAA
* * *
6388025 CTATGGTCTTACACATAACCACATATCACATACCGAAGCCATAGCCTAG
1 CTATGGTCTTAAACAGAACCACATATCACA-ACCGAAGCCATAGCCCAG
* * *
6388074 ATATGGTCTTAAACGGAAGCACATATCAC-ACCGATA-CCATAGCCCAG
1 CTATGGTCTTAAACAGAACCACATATCACAACCGA-AGCCATAGCCCAG
6388121 CTATGGTCTTA
1 CTATGGTCTTA
6388132 TACAAAAATC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 25 0.50
48 1 0.02
49 24 0.48
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (48 bp):
CTATGGTCTTAAACAGAACCACATATCACAACCGAAGCCATAGCCCAG
Found at i:6390055 original size:35 final size:35
Alignment explanation
Indices: 6389986--6390985 Score: 1723
Period size: 35 Copynumber: 28.6 Consensus size: 35
6389976 CATTGAAATA
* ** ** *
6389986 CCATACCTACATTTCAT-ACTTGGTATGGAAAATA
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
* * * ** *
6390020 CCATACCTACGTTTCATAACTCAATATGGAAAATA
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
* * *
6390055 CCATAACTACGTTTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390090 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390125 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390160 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390195 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390230 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390265 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390300 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390335 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390370 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390405 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390440 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390475 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390510 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390545 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390580 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390615 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390650 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390685 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390720 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390755 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390790 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
6390825 CCATACCTACATGTCATAACTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
* * * *
6390860 CCATGCCTACGTATCATAGCTCAGTATGGACGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
* * * *
6390895 CCATACCTACGTATCATAGCTCAGTATGGATGATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
* * * * *
6390930 CCATACCTACGTATCATAGCTCAGTATGGTCAATG
1 CCATACCTACATGTCATAACTCAGTATGGACGATG
* *
6390965 CCATACCTACGTATCATAACT
1 CCATACCTACATGTCATAACT
6390986 TTGTCACGGG
Statistics
Matches: 943, Mismatches: 22, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
34 16 0.02
35 927 0.98
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (35 bp):
CCATACCTACATGTCATAACTCAGTATGGACGATG
Found at i:6391027 original size:12 final size:12
Alignment explanation
Indices: 6391010--6391036 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6391000 CCATGGTCTT
6391010 ATCCGTCAATTC
1 ATCCGTCAATTC
6391022 ATCCGTCAATTC
1 ATCCGTCAATTC
6391034 ATC
1 ATC
6391037 ACTGGCCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.33
Consensus pattern (12 bp):
ATCCGTCAATTC
Found at i:6395666 original size:15 final size:15
Alignment explanation
Indices: 6395646--6395677 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6395636 TCATTCTTAC
*
6395646 CATAGCACCTTATCA
1 CATAGCACCTTACCA
6395661 CATAGCACCTTACCA
1 CATAGCACCTTACCA
6395676 CA
1 CA
6395678 ATCAATCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.38, G:0.06, T:0.22
Consensus pattern (15 bp):
CATAGCACCTTACCA
Found at i:6408267 original size:15 final size:15
Alignment explanation
Indices: 6408247--6408276 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6408237 GAAGAGAAAA
6408247 ATGATAACTTTTTCT
1 ATGATAACTTTTTCT
6408262 ATGATAACTTTTTCT
1 ATGATAACTTTTTCT
6408277 TTTTGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
ATGATAACTTTTTCT
Found at i:6418606 original size:45 final size:45
Alignment explanation
Indices: 6418541--6418667 Score: 191
Period size: 45 Copynumber: 2.8 Consensus size: 45
6418531 TATCAATTCG
* *
6418541 CCAGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATCTCA
1 CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
* *
6418586 CCAGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCT
1 CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
* **
6418631 CCGGCATCGTAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
6418668 ATACCGTACG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
CCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA
Found at i:6421316 original size:39 final size:39
Alignment explanation
Indices: 6421272--6421533 Score: 391
Period size: 39 Copynumber: 6.7 Consensus size: 39
6421262 GACTTTATAA
* *
6421272 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
6421311 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
6421350 TGGTGTTATATCCGGGCCAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
6421389 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTAC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
6421428 TAGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
6421467 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
6421506 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
6421534 CATGCTTTGT
Statistics
Matches: 206, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 185 0.90
40 21 0.10
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:6434791 original size:46 final size:46
Alignment explanation
Indices: 6434738--6434907 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
6434728 TGTGTGTGCT
*
6434738 AGTGTAAGACATGTGTGGGACATGCATCGGCCACATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAAGAGCC
*
6434784 AGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GACAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA-AGAGCC
** *
6434831 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAAGAGCC
*
6434877 AGTGTAAGACATGTCTGGGACATGCACCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
6434908 ACAGATATGT
Statistics
Matches: 108, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
45 12 0.11
46 57 0.53
47 29 0.27
48 10 0.09
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAAGAGCC
Found at i:6436188 original size:12 final size:12
Alignment explanation
Indices: 6436171--6436204 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6436161 CCTACTTCCC
6436171 CTTTACTATTAT
1 CTTTACTATTAT
6436183 CTTTACTATTAT
1 CTTTACTATTAT
*
6436195 TTTTACTATT
1 CTTTACTATT
6436205 TTACAAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTTACTATTAT
Found at i:6438985 original size:17 final size:17
Alignment explanation
Indices: 6438963--6439009 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
6438953 AGGCAACCCA
*
6438963 ATTTTTATTTTTATTTT
1 ATTTTTATTATTATTTT
*
6438980 ATTTTTCTTATTATTTT
1 ATTTTTATTATTATTTT
6438997 ATTATTTATTATT
1 ATT-TTTATTATT
6439010 TTCAGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTATTATTATTTT
Found at i:6439904 original size:99 final size:99
Alignment explanation
Indices: 6439724--6439905 Score: 287
Period size: 99 Copynumber: 1.8 Consensus size: 99
6439714 AATTAATTTC
*
6439724 TAAGAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAA
1 TAAGAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAA
* *
6439789 AGGTTCGATATGTTCCTAGGAATAATAAAAAAAT
66 AGGTACGATATATTCCTAGGAATAATAAAAAAAT
* *
6439823 TAAGAATGTGCTGGGCTGAGTAACCGGGGT-AGGGTGCTTGGGTTGTCATCTCTCTTGGTGTCAA
1 TAAGAATGTGCTGGGCTGAGTAACCGGGGTGA-GGTGCTTGGGTTGTCATCTCTCTTCGCGTCAA
6439887 AAGGTAC-AGTATATTCCTA
65 AAGGTACGA-TATATTCCTA
6439906 AGTAAAAATA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
98 2 0.03
99 74 0.97
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (99 bp):
TAAGAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAA
AGGTACGATATATTCCTAGGAATAATAAAAAAAT
Found at i:6440619 original size:20 final size:20
Alignment explanation
Indices: 6440579--6440626 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6440569 ATTTTAGGAT
6440579 TTTAT-TTTAATTATCTCTA
1 TTTATCTTTAATTATCTCTA
*
6440598 TTTATCTTTAATTA-CATGTA
1 TTTATCTTTAATTATC-TCTA
6440618 TTTATCTTT
1 TTTATCTTT
6440627 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATCTTTAATTATCTCTA
Found at i:6441525 original size:12 final size:12
Alignment explanation
Indices: 6441508--6441541 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6441498 CCTACTTCCC
6441508 CTTTACTATTAT
1 CTTTACTATTAT
6441520 CTTTACTATTAT
1 CTTTACTATTAT
*
6441532 TTTTACTATT
1 CTTTACTATT
6441542 TTACAGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTTACTATTAT
Found at i:6444049 original size:25 final size:24
Alignment explanation
Indices: 6443944--6444063 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
6443934 CTTTACCATT
*
6443944 TAACTGGAGGCCT-AGCCTCTTTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAA
6443969 TAACTGGGGCA-AAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
*
6443992 TAACTAGGGCATAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
*
6444016 TAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTT-TAA
6444041 TAACTGGGGCATAAGCCCTTTTA
1 TAACTGGGGCATAAGCCCTTTTA
6444064 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 17 0.20
24 40 0.46
25 30 0.34
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTAA
Found at i:6444058 original size:49 final size:47
Alignment explanation
Indices: 6443944--6444063 Score: 170
Period size: 49 Copynumber: 2.5 Consensus size: 47
6443934 CTTTACCATT
*
6443944 TAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTAA
* *
6443992 TAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCCCTTT-TAA
6444041 TAACTGGGGCATAAGCCCTTTTA
1 TAACTGGGGCATAAGCCCTTTTA
6444064 CACTTCCTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
47 22 0.34
48 19 0.29
49 24 0.37
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (47 bp):
TAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCCCTTTTAA
Found at i:6444137 original size:20 final size:20
Alignment explanation
Indices: 6444112--6444178 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
6444102 TTATGAATAC
*
6444112 ATCATGTGCGTATCATACAT
1 ATCATGTGCATATCATACAT
6444132 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
6444152 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
6444172 ACCATGT
1 ATCATGT
6444179 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:6456160 original size:84 final size:84
Alignment explanation
Indices: 6455811--6456144 Score: 643
Period size: 84 Copynumber: 4.0 Consensus size: 84
6455801 ATGGGCGTGT
* *
6455811 TGTC-CAGCCGTTTGTCCCCTGCACCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
1 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
6455875 AGCAAGAGACAAGGCCATG
66 AGCAAGAGACAAGGCCATG
6455894 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
1 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
6455959 AGCAAGAGACAAGGCCATG
66 AGCAAGAGACAAGGCCATG
6455978 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
1 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
6456043 AGCAAGAGACAAGGCCATG
66 AGCAAGAGACAAGGCCATG
6456062 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
1 TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
6456127 AGCAAGAGACAAGGCCAT
66 AGCAAGAGACAAGGCCAT
6456145 AAGACACGGG
Statistics
Matches: 248, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
83 4 0.02
84 244 0.98
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (84 bp):
TGTCTCAGCCGTGTGTCCCCTGCATCTAAGTTTTTCAAGTCAGTATGCATGGTAGTAAGCACACG
AGCAAGAGACAAGGCCATG
Found at i:6466971 original size:80 final size:80
Alignment explanation
Indices: 6466838--6467025 Score: 256
Period size: 80 Copynumber: 2.4 Consensus size: 80
6466828 CTAACGGGGT
* * *
6466838 TAAGTCCTGAAGACATTTGTGCTAGTGATTATTTCTGGGCTAAATCCCGAAGGCATTTGTGTGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGATAATTTCTGGGCTAAATCCCGAAGGCATTTGTGCGAG
*
6466903 TTATTA-ATTCCGGGC
66 TTACTATA-TCCGGGC
* * *
6466918 TAAGTCCCGAAGGCATTTGTG-TGAGTTACTAATTTC-GGGCTAAGTCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGACATTTGTGCT-AGTGA-TAATTTCTGGGCTAAATCCCGAAGGCATTTGTGCG
*
6466981 AGTTACTATATCCGGGT
64 AGTTACTATATCCGGGC
6466998 TAAGTCCCGAAGACATTTGTGCTAGTGA
1 TAAGTCCCGAAGACATTTGTGCTAGTGA
6467026 CCATATCCGG
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.01
80 85 0.90
81 8 0.09
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCTAGTGATAATTTCTGGGCTAAATCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:6467019 original size:40 final size:40
Alignment explanation
Indices: 6466838--6467062 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
6466828 CTAACGGGGT
* * * * * * *
6466838 TAAGTCCTGAAGACATTTGTGCTAGTGATTATTTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* * *
6466878 TAAATCCCGAAGGCATTTGTGTGAGTTATTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGC
* *
6466918 TAAGTCCCGAAGGCATTTGTGTGAGTTACTA-ATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGC
*
6466958 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* * * * *
6466998 TAAGTCCCGAAGACATTTGTGCTAGTGACCATATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* * *
6467038 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
6467063 GGTTATATCC
Statistics
Matches: 160, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 9 0.06
40 150 0.94
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
Found at i:6467047 original size:80 final size:80
Alignment explanation
Indices: 6466834--6467062 Score: 252
Period size: 80 Copynumber: 2.9 Consensus size: 80
6466824 AATGCTAACG
* * * *
6466834 GGGTTAAGTCCTGAAGACATTTGTGCTAGTGATTATTTCTGGGCTAA-ATCCCGAAGGCATTTGT
1 GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTATATCCGGGCTAAGA-CCCGAAGGCATTTGT
* *
6466898 GTGAGTTATTAATTCC
65 GCGAGTTACTAATTCC
* * * * *
6466914 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTA-ATTTCGGGCTAAGTCCCGAAGGCATTTG
1 GGGTTAAGTCCCGAAGACATTTGTGCT-AGTGACTATA-TCCGGGCTAAGACCCGAAGGCATTTG
6466977 TGCGAGTTACT-ATATCC
64 TGCGAGTTACTAAT-TCC
* * * *
6466994 GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACCATATCCGGGTTAAGACCCGACGGC-CTTGTG
1 GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTG
6467058 CGAGT
66 CGAGT
6467063 GGTTATATCC
Statistics
Matches: 123, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
79 13 0.11
80 108 0.88
81 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (80 bp):
GGGTTAAGTCCCGAAGACATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTG
CGAGTTACTAATTCC
Found at i:6472657 original size:30 final size:31
Alignment explanation
Indices: 6472608--6472666 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
6472598 ATTTCCCAGC
6472608 CTAGGGGCAAAATCATAATTCTG-CAAAGGT
1 CTAGGGGCAAAATCATAATTCTGTCAAAGGT
** *
6472638 CTAGGGGCAAAATTGTAATTTTGTCAAAG
1 CTAGGGGCAAAATCATAATTCTGTCAAAG
6472667 TTTGAGTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (31 bp):
CTAGGGGCAAAATCATAATTCTGTCAAAGGT
Found at i:6473890 original size:64 final size:64
Alignment explanation
Indices: 6473789--6474613 Score: 1650
Period size: 64 Copynumber: 12.9 Consensus size: 64
6473779 TCGTCTTCAC
6473789 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6473853 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6473917 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6473981 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474045 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474109 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474173 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474237 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474301 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474365 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474429 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474493 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
6474557 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATA
1 TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATA
6474614 AAACACCAAA
Statistics
Matches: 761, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 761 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (64 bp):
TTAAAACCGAGCAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATATGAGGTT
Found at i:6475875 original size:15 final size:15
Alignment explanation
Indices: 6475826--6475883 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
6475816 AACAAGAAAA
6475826 CAGAATAAAGAAATC
1 CAGAATAAAGAAATC
*
6475841 CA-AGATAGAA-AAACC
1 CAGA-ATA-AAGAAATC
6475856 CAGAATAAAGAAATC
1 CAGAATAAAGAAATC
6475871 CAGAATAAAGAAA
1 CAGAATAAAGAAA
6475884 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 3 0.08
15 31 0.84
16 3 0.08
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.10
Consensus pattern (15 bp):
CAGAATAAAGAAATC
Found at i:6483392 original size:24 final size:23
Alignment explanation
Indices: 6483345--6483389 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6483335 AAATAGTTAT
*
6483345 CTTTTTGAAAACTCGCGTCTTTC
1 CTTTTTGAAAACCCGCGTCTTTC
*
6483368 CTTTTTGAAAACCCGTGTCTTT
1 CTTTTTGAAAACCCGCGTCTTT
6483390 TCCCATTGCT
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:0.18, C:0.24, G:0.13, T:0.44
Consensus pattern (23 bp):
CTTTTTGAAAACCCGCGTCTTTC
Found at i:6489411 original size:46 final size:45
Alignment explanation
Indices: 6489358--6489533 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
6489348 TATTTGGGCA
6489358 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
6489404 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
6489451 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
6489497 CCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6489534 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:6489664 original size:21 final size:21
Alignment explanation
Indices: 6489639--6489682 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6489629 CTACTCAAAT
6489639 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
6489660 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
6489681 GG
1 GG
6489683 GACGTATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.36, T:0.14
Consensus pattern (21 bp):
GGAGGAATACTCGAGATGAAA
Found at i:6492987 original size:42 final size:42
Alignment explanation
Indices: 6492906--6492987 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
6492896 TTTTTTTTTC
* * ** *
6492906 GATGCTATAGTTCAACTATGGTCTTACACATCTTTACATAAT
1 GATGCCATAGTCCAACTATGGTCTTACACATAATCACATAAT
* *
6492948 GATGCCATAGTCCAGCTATGGTCTTACACGTAATCACATA
1 GATGCCATAGTCCAACTATGGTCTTACACATAATCACATA
6492988 TCTCACTGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (42 bp):
GATGCCATAGTCCAACTATGGTCTTACACATAATCACATAAT
Found at i:6493015 original size:47 final size:47
Alignment explanation
Indices: 6492959--6493067 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 47
6492949 ATGCCATAGT
* * * * * **
6492959 CCAGCTATGGTCTTACA-CGTAATCACATATCTCACTGATGTCATATC
1 CCAGATATGGTCTTACATAGT-AGCACATATCACACCGATACCATATC
* *
6493006 CCAGATATGGTCTTATATAGTAGCATATATCACACCGATACCATATC
1 CCAGATATGGTCTTACATAGTAGCACATATCACACCGATACCATATC
6493053 CCAGATATGGTCTTA
1 CCAGATATGGTCTTA
6493068 TACAGAAATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 50 0.96
48 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (47 bp):
CCAGATATGGTCTTACATAGTAGCACATATCACACCGATACCATATC
Found at i:6493091 original size:7 final size:7
Alignment explanation
Indices: 6493079--6493111 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
6493069 ACAGAAATCG
6493079 CTTGTCA
1 CTTGTCA
6493086 CTTGTCA
1 CTTGTCA
6493093 CTTGTCA
1 CTTGTCA
6493100 CTTGTCA
1 CTTGTCA
6493107 CTTGT
1 CTTGT
6493112 AGCCAAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.27, G:0.15, T:0.45
Consensus pattern (7 bp):
CTTGTCA
Found at i:6493145 original size:31 final size:31
Alignment explanation
Indices: 6493117--6494124 Score: 1926
Period size: 31 Copynumber: 32.5 Consensus size: 31
6493107 CTTGTAGCCA
*
6493117 AAGCTACCACTATTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
** * *
6493148 GTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
6493179 GAGCTACCACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
6493210 AAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493241 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
6493272 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493303 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493334 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493365 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493396 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493427 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493458 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493489 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493520 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493551 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493582 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493613 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493644 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493675 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493706 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493737 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493768 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493799 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493830 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493861 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493892 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493923 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493954 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6493985 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6494016 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6494047 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6494078 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
6494109 AAGCTACCACTTTTCA
1 AAGCTACCACTTTTCA
6494125 GTTGTCATTT
Statistics
Matches: 963, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 963 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTG
Found at i:6494208 original size:50 final size:50
Alignment explanation
Indices: 6494102--6494278 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
6494092 CACTGATCAG
* * * *
6494102 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
6494153 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
6494203 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
6494253 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
6494279 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:6505805 original size:27 final size:27
Alignment explanation
Indices: 6505774--6505825 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
6505764 AAGACCCCAG
6505774 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTGTAAAATTACCAAAATACCCCTGA
*
6505801 TTTGTAAAATTACCAAATTACCCCT
1 TTTGTAAAATTACCAAAATACCCCT
6505826 ATAAGGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTGA
Found at i:6505834 original size:27 final size:27
Alignment explanation
Indices: 6505777--6505837 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
6505767 ACCCCAGTTT
**
6505777 GTAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGATAG
*
6505804 GTAAAATTACCAAATTACCCCT-ATAAG
1 GTAAAATTACCAAAATACCCCTGAT-AG
6505831 GTAAAAT
1 GTAAAAT
6505838 GATTGTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGATAG
Found at i:6506433 original size:23 final size:23
Alignment explanation
Indices: 6506406--6506459 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
6506396 ATATATATAC
*
6506406 TAGCAGCTTTGTTGCGTTACTAT
1 TAGCAGCTTTGTTACGTTACTAT
6506429 TAGCAGCTTTGTTACGTTACTAT
1 TAGCAGCTTTGTTACGTTACTAT
*
6506452 TAGTAGCT
1 TAGCAGCT
6506460 ACGCTGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (23 bp):
TAGCAGCTTTGTTACGTTACTAT
Found at i:6519319 original size:23 final size:23
Alignment explanation
Indices: 6519292--6519339 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
6519282 ATACTAGTAA
*
6519292 CTTTGCTACGTTACTATTAGCAG
1 CTTTGCTACATTACTATTAGCAG
*
6519315 CTTTGCTGCATTACTATTAGCAG
1 CTTTGCTACATTACTATTAGCAG
6519338 CT
1 CT
6519340 ACGCTACGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (23 bp):
CTTTGCTACATTACTATTAGCAG
Found at i:6520418 original size:16 final size:16
Alignment explanation
Indices: 6520397--6520435 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
6520387 TAAGTGACAT
6520397 TATGATTATGATTGAC
1 TATGATTATGATTGAC
6520413 TATGATTATGATTGAC
1 TATGATTATGATTGAC
6520429 TATGATT
1 TATGATT
6520436 GTGGATAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (16 bp):
TATGATTATGATTGAC
Found at i:6528871 original size:245 final size:245
Alignment explanation
Indices: 6528441--6528920 Score: 960
Period size: 245 Copynumber: 2.0 Consensus size: 245
6528431 TTGATTGATG
6528441 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
1 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
6528506 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
66 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
6528571 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
131 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
6528636 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
196 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
6528686 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
1 TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
6528751 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
66 ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
6528816 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
131 GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
6528881 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTT
196 TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTT
6528921 TGATTTACTT
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 235 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (245 bp):
TATCAGCTCAATTTATAGTGGTGGAGATTTGATTTTCAAGCAAGCCTATGGCAATAGCTTTTCAT
ATTGACTAATGAGTGCTTTAATTGATGTCCTTAAACACCTTTAGTGATTTGAGTGAATCTTTAGT
GAGGATGTTAAACTCTGTGATATTTTGATCAAAGGTAATCACTTAGATAAGGGGAGACACCTATG
TTTTCGTGATAAAATACTCAACTTGGAATGTTTGAAACTTGGAATGTTTT
Found at i:6537699 original size:23 final size:22
Alignment explanation
Indices: 6537659--6537731 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
6537649 AAGTTTTATT
6537659 GAGCTGAACAGTAAGCTCTTTC
1 GAGCTGAACAGTAAGCTCTTTC
* **
6537681 GAGCTGAATCGGTAAGCTCCGAT-
1 GAGCTGAA-CAGTAAGCT-CTTTC
*
6537704 GAGCTGAAACAGTAAGCTCTTAC
1 GAGCTG-AACAGTAAGCTCTTTC
6537727 GAGCT
1 GAGCT
6537732 ATGGTGAGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 9 0.22
23 27 0.68
24 4 0.10
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTTTC
Found at i:6539340 original size:29 final size:29
Alignment explanation
Indices: 6539279--6539368 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
6539269 CACATACCTG
*
6539279 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
6539307 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
** *
6539336 TATATGTTCCATTAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
6539365 TATA
1 TATA
6539369 GTCATGCTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:6543572 original size:86 final size:86
Alignment explanation
Indices: 6543462--6543628 Score: 325
Period size: 86 Copynumber: 1.9 Consensus size: 86
6543452 CAAAAAAAAA
6543462 GTGTGTAGTTGTTTCCCCCCCCATTGCCGTGACCTAAAGAAAAGAAAGGAGAAAATTTTTGTTCA
1 GTGTGTAGTTGTTTCCCCCCCCATTGCCGTGACCTAAAGAAAAGAAAGGAGAAAATTTTTGTTCA
6543527 TCCTTTCTCATCTTCAAATGT
66 TCCTTTCTCATCTTCAAATGT
*
6543548 GTGTGTAGTTGTTTCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAAGGAGAAAATTTTTGTTCA
1 GTGTGTAGTTGTTTCCCCCCCCATTGCCGTGACCTAAAGAAAAGAAAGGAGAAAATTTTTGTTCA
6543613 TCCTTTCTCATCTTCA
66 TCCTTTCTCATCTTCA
6543629 TTTAGCCGAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (86 bp):
GTGTGTAGTTGTTTCCCCCCCCATTGCCGTGACCTAAAGAAAAGAAAGGAGAAAATTTTTGTTCA
TCCTTTCTCATCTTCAAATGT
Found at i:6544830 original size:40 final size:39
Alignment explanation
Indices: 6544801--6544969 Score: 216
Period size: 39 Copynumber: 4.3 Consensus size: 39
6544791 ACTAAGATCT
*
6544801 GAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
6544840 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
* * *
6544879 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCC
* * * *
6544919 GAAGGCATTTTTGTGA-ATTACT-ATAACCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCC
6544959 GAAGGCATTTG
1 GAAGGCATTTG
6544970 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 72 0.63
40 43 0.37
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
Found at i:6544846 original size:39 final size:39
Alignment explanation
Indices: 6544801--6544928 Score: 220
Period size: 39 Copynumber: 3.3 Consensus size: 39
6544791 ACTAAGATCT
6544801 GAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGCCC
*
6544840 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGCCC
* *
6544879 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAG-CCC
6544919 GAAGGCATTT
1 GAAGGCATTT
6544929 TTGTGAATTA
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
39 71 0.85
40 13 0.15
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGCCC
Found at i:6544901 original size:78 final size:80
Alignment explanation
Indices: 6544746--6544969 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 80
6544736 TTGAATGATG
* * * * * * *
6544746 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
6544809 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
6544826 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
6544887 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* * *
6544904 TCCGGGTTAAGTCCCGAAGGCATTTTTGTGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
6544969 G
66 G
6544970 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
78 37 0.30
79 53 0.43
80 33 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:6544991 original size:79 final size:78
Alignment explanation
Indices: 6544801--6544992 Score: 196
Period size: 79 Copynumber: 2.4 Consensus size: 78
6544791 ACTAAGATCT
** *
6544801 GAAGGCATTTGTGCGAGAT-ACTAATTCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 GAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
6544865 TCCGGGCTAAGCCC
65 ACCGGGCTAAGCCC
** * * *
6544879 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTTTGTGA-ATTACT-A
1 GAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAA
*
6544942 TAACCGGGCTATGTCCC
64 T-ACCGGGCTAAG-CCC
*
6544959 GAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 GAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
6544993 ATTCTGAAGG
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.36
79 37 0.37
80 25 0.25
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (78 bp):
GAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAATA
CCGGGCTAAGCCC
Found at i:6552462 original size:40 final size:40
Alignment explanation
Indices: 6552378--6552602 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
6552368 TTGAATGATG
* * * *
6552378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
6552418 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
6552458 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6552497 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6552537 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
6552578 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
6552603 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:6552624 original size:119 final size:119
Alignment explanation
Indices: 6552378--6552635 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
6552368 TTGAATGATG
* *
6552378 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
6552443 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
6552497 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
6552560 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
6552617 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
6552636 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 83 0.70
120 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:6555763 original size:56 final size:56
Alignment explanation
Indices: 6555703--6555827 Score: 162
Period size: 56 Copynumber: 2.2 Consensus size: 56
6555693 TCTTACTCAT
* * *
6555703 ACACATATATCGGAGTTACATATCGATGCCAACGCATTAAACGTGGTATTATTCA-C
1 ACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACGTGGTATTACT-AGC
* * * * *
6555759 ACACATATATAGAAGTCACATATCGATGCTAACGTATTAAATGTGGTCTTACTAGC
1 ACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACGTGGTATTACTAGC
6555815 ACACATATATCGA
1 ACACATATATCGA
6555828 TGCCATGGTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 1 0.02
56 58 0.98
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (56 bp):
ACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACGTGGTATTACTAGC
Found at i:6560112 original size:14 final size:13
Alignment explanation
Indices: 6560089--6560120 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
6560079 AGAATATCAA
6560089 AACAATAATTAAG
1 AACAATAATTAAG
6560102 AACACATAATTAAG
1 AACA-ATAATTAAG
6560116 AACAA
1 AACAA
6560121 GTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:6563039 original size:40 final size:40
Alignment explanation
Indices: 6562962--6563098 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
6562952 AACCAAGCAT
6562962 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
6563001 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * *
6563041 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
6563081 CTTCGGGTCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
6563099 TTATCATCCG
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 69 0.83
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:6571188 original size:40 final size:40
Alignment explanation
Indices: 6571111--6571247 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
6571101 ACCCAAGCAT
6571111 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
6571150 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * *
6571190 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
6571230 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
6571248 TTATCATCCG
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 12 0.15
40 68 0.83
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:6572957 original size:70 final size:70
Alignment explanation
Indices: 6572870--6573011 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
6572860 CCCATCATTT
6572870 TTATAACATGCATTAATAGGCCACTTTACATTTGCCTAGCACATTTCTCAATTTTCTCACATAAG
1 TTATAACATGCATTAATAGGCCACTTTACATTTGCCTAGCACATTTCTCAATTTTCTCACATAAG
6572935 TCCTA
66 TCCTA
* *
6572940 TTATAACATGCATTAATAGGCCACTTTACATTTGCCTAGCACATTTTTTAATTTTCTCACATAAG
1 TTATAACATGCATTAATAGGCCACTTTACATTTGCCTAGCACATTTCTCAATTTTCTCACATAAG
6573005 TCCTA
66 TCCTA
6573010 TT
1 TT
6573012 TAATAAAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (70 bp):
TTATAACATGCATTAATAGGCCACTTTACATTTGCCTAGCACATTTCTCAATTTTCTCACATAAG
TCCTA
Found at i:6587250 original size:16 final size:15
Alignment explanation
Indices: 6587229--6587272 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
6587219 TAAAATAATC
*
6587229 TAAATAAAAAAATGAA
1 TAAATAAAAAAAAG-A
*
6587245 TTAATAAGAAAAAAGA
1 TAAATAA-AAAAAAGA
6587261 TAAATAAAAAAA
1 TAAATAAAAAAA
6587273 GAAATGGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 13 0.54
17 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (15 bp):
TAAATAAAAAAAAGA
Found at i:6588318 original size:24 final size:24
Alignment explanation
Indices: 6588264--6588424 Score: 135
Period size: 24 Copynumber: 6.6 Consensus size: 24
6588254 TAAATATACG
* *
6588264 TGGCACTAAGTGTGTGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
*
6588289 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
6588313 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
6588337 TGTCAATACGAGTGTGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* * * *
6588364 -GGCATTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
6588387 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
6588411 TAGCACTATGTGTG
1 TGGCACTATGTGTG
6588425 TGAAATTGAT
Statistics
Matches: 104, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.01
24 70 0.67
25 16 0.15
26 15 0.14
27 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:6588426 original size:74 final size:75
Alignment explanation
Indices: 6588272--6588411 Score: 187
Period size: 74 Copynumber: 1.9 Consensus size: 75
6588262 CGTGGCACTA
* *
6588272 AGTGTGTGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTATGTGTGCTGATTTGAA
1 AGTGTGTGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTAAGTGTGCGGATTTGAA
6588337 TGTCAATACG
66 TGTCAATACG
* * * *
6588347 AGTGTGTGGATTTCT-AA-GGCATTATGTGTGCGG-GTTAGCATGGCACTAAGTGTGCGGATTTG
1 AGTGTGTGGATTT-TGAATGGCACTATGTGTGCGGAATT-GAATAGCACTAAGTGTGCGGATTTG
6588409 AAT
64 AAT
6588412 AGCACTATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 2 0.04
74 39 0.68
75 15 0.26
76 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.34
Consensus pattern (75 bp):
AGTGTGTGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTAAGTGTGCGGATTTGAA
TGTCAATACG
Found at i:6604343 original size:23 final size:23
Alignment explanation
Indices: 6604212--6604346 Score: 107
Period size: 23 Copynumber: 5.7 Consensus size: 23
6604202 GACATGGTCG
6604212 GTAAGCTCTTCATGAGCTGATAAACA
1 GTAAGCTCTT-ATGAGCTG--AAACA
* *
6604238 GTAAGGTC-TATTGAGCTGAAAAGA
1 GTAAGCTCTTA-TGAGCTG-AAACA
6604262 GTAAGCTC-TATTGAGCTG-AACA
1 GTAAGCTCTTA-TGAGCTGAAACA
* * *
6604284 GTAAGCT-TTTTCGAGCTGAATCG
1 GTAAGCTCTTAT-GAGCTGAAACA
** *
6604307 GTAAGCTCCAATGAGTTGAAACA
1 GTAAGCTCTTATGAGCTGAAACA
6604330 GTAAGCTCTTATGAGCT
1 GTAAGCTCTTATGAGCT
6604347 ATGGTGAGTC
Statistics
Matches: 87, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
21 1 0.01
22 17 0.20
23 31 0.36
24 23 0.26
25 8 0.09
26 7 0.08
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (23 bp):
GTAAGCTCTTATGAGCTGAAACA
Found at i:6604346 original size:46 final size:47
Alignment explanation
Indices: 6604223--6604346 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 47
6604213 TAAGCTCTTC
* *
6604223 ATGAGCTGATAAACAGTAAGGTC-TATTGAGCTGAAAAGAGTAAGCTCTA
1 ATGAGCTG--AAACAGTAAGCTCTTA-TGAGCTGAAAAGAGTAAGCTCCA
* * **
6604272 TTGAGCTG-AACAGTAAGCT-TTTTCGAGCTGAATCG-GTAAGCTCCA
1 ATGAGCTGAAACAGTAAGCTCTTAT-GAGCTGAAAAGAGTAAGCTCCA
*
6604317 ATGAGTTGAAACAGTAAGCTCTTATGAGCT
1 ATGAGCTGAAACAGTAAGCTCTTATGAGCT
6604347 ATGGTGAGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 16 0.26
46 36 0.58
47 3 0.05
49 7 0.11
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (47 bp):
ATGAGCTGAAACAGTAAGCTCTTATGAGCTGAAAAGAGTAAGCTCCA
Found at i:6615432 original size:27 final size:26
Alignment explanation
Indices: 6615393--6615497 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
6615383 GGAAGCGTAC
*
6615393 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTGATT
6615420 TGGTGGCTCTGCCACATATATCT-ATT
1 TGGTGGCTCTGCCACAT-TATCTGATT
* *
6615446 CTGGTGGCTCTACCACGATTATCTGTATC
1 -TGGTGGCTCTGCCAC-ATTATCTG-ATT
* *
6615475 TGGTGACTCTGTCACATTATCTG
1 TGGTGGCTCTGCCACATTATCTG
6615498 TTCTGGCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.07
27 46 0.69
28 14 0.21
29 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATT
Found at i:6615496 original size:54 final size:54
Alignment explanation
Indices: 6615392--6615503 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
6615382 AGGAAGCGTA
* * *
6615392 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
6615446 CTGGTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATACCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
6615500 CTGG
1 CTGG
6615504 CAGCCATACT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:6621857 original size:39 final size:40
Alignment explanation
Indices: 6621653--6621875 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
6621643 TTGAATGCTG
* * * * * *
6621653 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
6621693 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
6621733 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
6621773 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
6621813 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
6621852 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
6621876 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:6621895 original size:79 final size:80
Alignment explanation
Indices: 6621728--6621910 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
6621718 GTGCGAGATA
* * *
6621728 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
6621793 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
6621808 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
6621872 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
6621887 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
6621911 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:6624183 original size:47 final size:47
Alignment explanation
Indices: 6624120--6625500 Score: 2456
Period size: 47 Copynumber: 29.4 Consensus size: 47
6624110 CCCTTCGGGA
* * *
6624120 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* * * * * *
6624167 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* * *
6624214 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* *
6624261 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* * * * *
6624308 CTTATCACATGTACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* *
6624355 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* * *
6624402 CTTATCACATGTACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
*
6624449 CTTACCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* *
6624496 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCAGTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
* *
6624543 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624590 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624637 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624684 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624731 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624778 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624825 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624872 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624919 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6624966 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625013 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625060 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625107 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625154 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625201 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625248 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625295 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625342 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
6625389 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
** * *
6625436 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
*
6625483 CTTATCACATATACACAC
1 CTTATCACATATATACAC
6625501 CTTGTACATC
Statistics
Matches: 1286, Mismatches: 48, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 1286 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCAGTCGGC
Found at i:6628659 original size:42 final size:42
Alignment explanation
Indices: 6628608--6628689 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
6628598 AGACTTGTAC
* *
6628608 TGGTGGCCTGGACTTAAACGAGAAGTAGCGGAGTTTGTAGAT
1 TGGTGGCCTGGACTTAAACGAGAAGTAACGGAGTTGGTAGAT
* *
6628650 TGGTGGCCTGGACTTAAGCGAGAGGTAACGGAGTTGGTAG
1 TGGTGGCCTGGACTTAAACGAGAAGTAACGGAGTTGGTAG
6628690 GGAAATGTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.24
Consensus pattern (42 bp):
TGGTGGCCTGGACTTAAACGAGAAGTAACGGAGTTGGTAGAT
Found at i:6631736 original size:27 final size:26
Alignment explanation
Indices: 6631696--6631807 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
6631686 AGGAAGCGTC
*
6631696 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTTTGCCAC-ATTATCTGAT
*
6631723 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTTTGCCACAT-TATCTGAT
*
6631750 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTTTGCCAC-ATTATCTG-AT
* * *
6631778 CTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTTTGCCACATTATCTGAT
6631804 CTGG
1 CTGG
6631808 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTTTGCCACATTATCTGAT
Found at i:6631800 original size:54 final size:54
Alignment explanation
Indices: 6631696--6631807 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
6631686 AGGAAGCGTC
*
6631696 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTTTGCCACATATATCTGTT
* * *
6631750 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTTTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTTTGCCACATATATCTGTT
6631804 CTGG
1 CTGG
6631808 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTTTGCCACATATATCTGTT
Found at i:6632974 original size:43 final size:43
Alignment explanation
Indices: 6632921--6633091 Score: 193
Period size: 43 Copynumber: 4.0 Consensus size: 43
6632911 ACATAGGATT
* * *
6632921 TCGATATGTGATTTCATGTAAGATCACATATGGGACATTGGCA
1 TCGATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCA
* * *
6632964 TCGATTTGTGATTTACATGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCA
* * * * *
6633008 TTG-TATATGAGTTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCA
* *
6633050 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 TCGATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGC
6633092 CTTGTACGAG
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 26 0.25
43 50 0.49
44 27 0.26
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCA
Found at i:6643197 original size:43 final size:42
Alignment explanation
Indices: 6643142--6643310 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 42
6643132 ACATAGGATT
*
6643142 TCGATATTTGATTTCATGTAAGATCACATCTGGGACATTGGCA
1 TCGATATGTGATTTCATGTAAGA-CACATCTGGGACATTGGCA
* * * *
6643185 TCGATTTGTGATTTACGTGTAAGAC-CATGTGGGACATTGCCA
1 TCGATATGTGATTT-CATGTAAGACACATCTGGGACATTGGCA
* * * * * * *
6643227 TTG-TATATGAGTTCATGTAAGACCCTGTCTGGGTCAGTGGCA
1 TCGATATGTGATTTCATGTAAGACAC-ATCTGGGACATTGGCA
* * * * *
6643269 CCGATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGC
1 TCGATATGTGATTTCATGTAAGA-CACATCTGGGACATTGGC
6643311 GTTGTACGAG
Statistics
Matches: 96, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
40 9 0.09
41 8 0.08
42 29 0.30
43 40 0.42
44 10 0.10
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTTCATGTAAGACACATCTGGGACATTGGCA
Found at i:6643207 original size:44 final size:41
Alignment explanation
Indices: 6643142--6643294 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 41
6643132 ACATAGGATT
6643142 TCGATATTTGATTTCATGTAAGATCACATCTGGGACATTGGCA
1 TCGATATTTGATTTCATGTAAGA-C-CATCTGGGACATTGGCA
* * *
6643185 TCGAT-TTGTGATTTACGTGTAAGACCATGTGGGACATTGCCA
1 TCGATATT-TGATTT-CATGTAAGACCATCTGGGACATTGGCA
* * * * * *
6643227 TTG-TATATGAGTTCATGTAAGACCCTGTCTGGGTCAGTGGCA
1 TCGATATTTGATTTCATGTAAGA-CC-ATCTGGGACATTGGCA
* * *
6643269 CCGATATGTGATTACATGTAAGACCA
1 TCGATATTTGATTTCATGTAAGACCA
6643295 CGTTTGGGAC
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
40 8 0.09
41 8 0.09
42 34 0.40
43 28 0.33
44 8 0.09
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
TCGATATTTGATTTCATGTAAGACCATCTGGGACATTGGCA
Found at i:6664827 original size:2 final size:2
Alignment explanation
Indices: 6664820--6664847 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6664810 CATATTCGGC
6664820 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6664848 AGCCCATTCG
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):
TA
Found at i:6665630 original size:27 final size:27
Alignment explanation
Indices: 6665599--6665776 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6665589 TAAATTGTAC
6665599 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6665626 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6665652 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
6665680 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6665708 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6665735 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
6665762 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6665777 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6665713 original size:82 final size:81
Alignment explanation
Indices: 6665600--6665755 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6665590 AAATTGTACA
* *
6665600 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6665664 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6665681 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6665746 TGCGAGTTGA
65 TGCGAATTGA
6665756 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6665767 original size:82 final size:81
Alignment explanation
Indices: 6665596--6665776 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
6665586 GATTAAATTG
* *
6665596 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6665661 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
6665677 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
6665741 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
6665759 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6665777 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6673693 original size:27 final size:27
Alignment explanation
Indices: 6673662--6673839 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6673652 TAAATTGTAC
6673662 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6673689 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6673715 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
6673743 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6673771 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6673798 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
6673825 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6673840 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6673776 original size:82 final size:81
Alignment explanation
Indices: 6673663--6673818 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6673653 AAATTGTACA
* *
6673663 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6673727 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6673744 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6673809 TGCGAGTTGA
65 TGCGAATTGA
6673819 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6673830 original size:82 final size:81
Alignment explanation
Indices: 6673659--6673839 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
6673649 GATTAAATTG
* *
6673659 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6673724 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
6673740 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
6673804 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
6673822 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6673840 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6682151 original size:40 final size:41
Alignment explanation
Indices: 6682085--6682185 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
6682075 GTGTAAACAA
* * ** *
6682085 GGGCACGTATGT-CAATT-AGGGGTACCGAAGTACTGATAG
1 GGGCACGTATGTGCAATTCAGAGGTACCGAAGGACAAATAC
6682124 GGGCACGTATGTGCAATTCA-AGGTACCGAAGGACAAATAC
1 GGGCACGTATGTGCAATTCAGAGGTACCGAAGGACAAATAC
* *
6682164 GAGCACATATGTGCAATTCAGA
1 GGGCACGTATGTGCAATTCAGA
6682186 AGTATAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 12 0.23
40 38 0.73
41 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
GGGCACGTATGTGCAATTCAGAGGTACCGAAGGACAAATAC
Found at i:6689485 original size:49 final size:51
Alignment explanation
Indices: 6689339--6689486 Score: 183
Period size: 51 Copynumber: 2.9 Consensus size: 51
6689329 TCTATTGTGA
* *
6689339 GGTCACATGTGTAGTACTAAGTGCATGCTACTATGTGTACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
* * * * **
6689390 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAA-TT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
* * *
6689439 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATAAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAC
6689487 CTTGTCTACA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
49 38 0.47
50 2 0.03
51 40 0.50
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
Found at i:6696367 original size:27 final size:27
Alignment explanation
Indices: 6696337--6696392 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6696327 ATATTTCGAG
6696337 ATAGGGTTCATGTATGAAATTTGACCC
1 ATAGGGTTCATGTATGAAATTTGACCC
6696364 ATAGGGTTCATGTATGAAATTTGACCC
1 ATAGGGTTCATGTATGAAATTTGACCC
6696391 AT
1 AT
6696393 GTGGGACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (27 bp):
ATAGGGTTCATGTATGAAATTTGACCC
Found at i:6696402 original size:27 final size:27
Alignment explanation
Indices: 6696345--6696403 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
6696335 AGATAGGGTT
**
6696345 CATGTATGAAATTTGACCCATAGGGTT
1 CATGTATGAAATTTGACCCATAGGGGA
6696372 CATGTATGAAATTTGACCCAT-GTGGGA
1 CATGTATGAAATTTGACCCATAG-GGGA
6696399 CATGT
1 CATGT
6696404 TTGTATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (27 bp):
CATGTATGAAATTTGACCCATAGGGGA
Found at i:6701317 original size:27 final size:27
Alignment explanation
Indices: 6701282--6701453 Score: 236
Period size: 27 Copynumber: 6.4 Consensus size: 27
6701272 AGGGGCTTTT
*
6701282 CAATCATTTTACCACATAAAGGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* *
6701309 CAGTTATTTTACCACATAAGGGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
**
6701336 CAATCATTTTACCACATAAAAGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* *
6701363 CAATCATTTTACAACATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* * *
6701390 CAGTCATGTTACCACATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
6701417 CAATCATTTTACCACATAAGGGAAAAA
1 CAATCATTTTACCACATAAGGGAAAAA
* *
6701444 TAGTCATTTT
1 CAATCATTTT
6701454 GATCAATCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (27 bp):
CAATCATTTTACCACATAAGGGAAAAA
Found at i:6703582 original size:59 final size:59
Alignment explanation
Indices: 6703514--6703631 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
6703504 TCTAAATACG
* *
6703514 ATCGGAAGATTTTGTTCATTAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAAC
1 ATCGGAAGATTTGGTTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAAC
6703573 ATCGGAAGATTTGGTTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAAC
1 ATCGGAAGATTTGGTTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAAC
6703632 GGCATAACAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (59 bp):
ATCGGAAGATTTGGTTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAAC
Found at i:6703650 original size:59 final size:59
Alignment explanation
Indices: 6703528--6703650 Score: 147
Period size: 59 Copynumber: 2.1 Consensus size: 59
6703518 GAAGATTTTG
* * * * *****
6703528 TTCATTAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAACATCGGAAGATTTGG
1 TTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAACAGCAGAACAGGAAA
* *
6703587 TTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAACGGCATAACAGGAAA
1 TTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAACAGCAGAACAGGAAA
6703646 TTCAT
1 TTCAT
6703651 AATTCCCGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (59 bp):
TTCATCAGGTCTATAAAAACTGCAGGAGCATTTGTTAATCCAAACAGCAGAACAGGAAA
Found at i:6705095 original size:5 final size:5
Alignment explanation
Indices: 6705085--6705109 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6705075 CAAGCTATAC
6705085 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
6705110 ACTAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:6707266 original size:30 final size:29
Alignment explanation
Indices: 6707223--6707286 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
6707213 CAAGTAGCCG
6707223 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
6707252 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
6707282 AAGCT
1 AAGCT
6707287 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:6718432 original size:112 final size:112
Alignment explanation
Indices: 6718229--6718434 Score: 297
Period size: 112 Copynumber: 1.8 Consensus size: 112
6718219 AGAATATGTG
*
6718229 GCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
1 GCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
* * *
6718294 TTTGATTCCGATATATGTGTGCGAGTAAGTCCACATTTAATACGTTT
66 TGTGATTCCAATATATGTGTACGAGTAAGTCCACATTTAATACGTTT
* * *
6718341 GCATCGATATGTGA-TTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGTATCGAT
1 GCATCGATATGTGACTT-CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGAT
* * * *
6718405 ATGTGATTCTAATATGTGTTTATGAGTAAG
65 ATGTGATTCCAATATATGTGTACGAGTAAG
6718435 ACCCTATCTG
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
111 2 0.02
112 80 0.98
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (112 bp):
GCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
TGTGATTCCAATATATGTGTACGAGTAAGTCCACATTTAATACGTTT
Found at i:6718434 original size:56 final size:56
Alignment explanation
Indices: 6718227--6718413 Score: 295
Period size: 56 Copynumber: 3.3 Consensus size: 56
6718217 GAAGAATATG
* *
6718227 TGGCATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGA-TTCCGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* *
6718283 TGGCATCGATATTTGATTCCGATATATGTGTGCGAGTAAGTCCACATTTAATACGT
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* *
6718339 TTGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
*
6718395 TGGTATCGATATGTGATTC
1 TGGCATCGATATGTGATTC
6718414 TAATATGTGT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
55 2 0.02
56 118 0.98
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
Found at i:6718458 original size:112 final size:111
Alignment explanation
Indices: 6718229--6718468 Score: 270
Period size: 112 Copynumber: 2.1 Consensus size: 111
6718219 AGAATATGTG
*
6718229 GCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
1 GCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
* * * * * *
6718294 TTTGATTCCGATATATGTGTGCGAGTAAGTCCACATTTAATACGTTT
66 TGTGATTCCAATATATGTGTACGAGTAAGACCACATCTAAGACG-TT
* * *
6718341 GCATCGATATGTGA-TTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGTATCGAT
1 GCATCGATATGTGACTT-CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGAT
* * * * **
6718405 ATGTGATTCTAATATGTGTTTATGAGTAAGACC-CTATCTGGGACAG-T
65 ATGTGATTCCAATATATGTGTACGAGTAAGACCAC-ATCTAAGAC-GTT
6718452 GACATCGATATGTGACT
1 G-CATCGATATGTGACT
6718469 ACATGTCAGA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
111 5 0.05
112 100 0.93
113 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (111 bp):
GCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATA
TGTGATTCCAATATATGTGTACGAGTAAGACCACATCTAAGACGTT
Found at i:6723215 original size:26 final size:26
Alignment explanation
Indices: 6723186--6723238 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6723176 AAAAGACCTT
6723186 ATCTAAGAGTAAATTTTTCGTAATTA
1 ATCTAAGAGTAAATTTTTCGTAATTA
6723212 ATCTAAGAGTAAATTTTTCGTAATTA
1 ATCTAAGAGTAAATTTTTCGTAATTA
6723238 A
1 A
6723239 GCGGAGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (26 bp):
ATCTAAGAGTAAATTTTTCGTAATTA
Found at i:6731733 original size:40 final size:40
Alignment explanation
Indices: 6731688--6731871 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
6731678 TCTCCTCGTT
*
6731688 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
6731728 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
6731768 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
6731807 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
6731848 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
6731872 ACATCATTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 75 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:6731791 original size:79 final size:81
Alignment explanation
Indices: 6731688--6731872 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
6731678 TCTCCTCGTT
* *
6731688 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
6731751 GGATTTAGTAAC-TCGCA
64 GAATATAGTAACTTAGCA
* **
6731768 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
* *
6731832 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
6731848 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6731873 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTAACTTAGCA
Found at i:6739577 original size:27 final size:26
Alignment explanation
Indices: 6739556--6739635 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
6739546 CAAATTATTG
*
6739556 AAATACCCTCGACTTGTAAAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
* *
6739582 AAAGTACCCCCGATTTATAAAATTACCC
1 AAA-TACCCTCGATTTGTAAAATTA-CC
*
6739610 AAATATCCTCGATTTGTAAAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
6739636 GAAAAAGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.11
27 36 0.78
28 5 0.11
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATACCCTCGATTTGTAAAATTACC
Found at i:6739675 original size:27 final size:27
Alignment explanation
Indices: 6739645--6739733 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
6739635 CGAAAAAGAT
*
6739645 AGAATTACCATTTTACTCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
6739672 AGAATTATCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
6739699 AGAATTACCATTTGACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
6739726 AAAATTAC
1 AGAATTAC
6739734 TGAAATACCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:6739787 original size:27 final size:27
Alignment explanation
Indices: 6739754--6739827 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
6739744 TTGGCTTACA
*
6739754 AAATTACCAAAATACCCCTGGTTTAT-
1 AAATTACCAAAATACCCCTGATTTATG
* *
6739780 AAATTTACCAAAATACCCCTAATTTGTG
1 AAA-TTACCAAAATACCCCTGATTTATG
6739808 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
6739828 TAGGGTAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 36 0.86
28 3 0.07
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTATG
Found at i:6739839 original size:27 final size:27
Alignment explanation
Indices: 6739809--6740005 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
6739799 TAATTTGTGA
6739809 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
6739836 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
6739863 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
** *
6739890 AATTACTGAAATACCCCTGTATGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
6739917 AATTATCGAAATACCCTTGTGGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
6739944 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * * *
6739971 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
6739998 AATTACCA
1 AATTACCA
6740006 TTTTGCCCTA
Statistics
Matches: 144, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:6739846 original size:54 final size:53
Alignment explanation
Indices: 6739784--6740003 Score: 185
Period size: 54 Copynumber: 4.1 Consensus size: 53
6739774 GTTTATAAAT
*
6739784 TTACCAAAATACCCCTAATTT-GT-GAAATTACCAAAATACCCCTGTAGGGTAGAA
1 TTACTAAAATACCCCT--TTTGGTAG-AATTACCAAAATACCCCTGTAGGGTAGAA
** * *
6739838 TTA-TCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCTCTGTAGGGTAGAA
1 TTACT-AAAATACCCCT-TTTGGTAGAATTACCAAAATACCCCTGTAGGGTAGAA
* * * * * *
6739892 TTACTGAAATACCCCTGTATGGTAGAATTATCGAAATACCCTTGTGGGGTAGAA
1 TTACTAAAATACCCCT-TTTGGTAGAATTACCAAAATACCCCTGTAGGGTAGAA
** * * * * * *
6739946 TTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATACCCTTGTGGGGTAAAA
1 TTACTAAAATACCCCT-TTTGGTAGAATTACCAAAATACCCCTGTAGGGTAGAA
6740000 TTAC
1 TTAC
6740004 CATTTTGCCC
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 141 0.98
55 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (53 bp):
TTACTAAAATACCCCTTTTGGTAGAATTACCAAAATACCCCTGTAGGGTAGAA
Done.