Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 129 of 410
Found at i:38856747 original size:96 final size:96
Alignment explanation
Indices: 38856550--38856967 Score: 389
Period size: 96 Copynumber: 4.4 Consensus size: 96
38856540 ATAAGTTGAC
* * * * *
38856550 GATGCCATGTCCCAGACATGGTCTTATACTGGCTATCATCATC-GAGGCAGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTATACTAGC-A-CAAC-TCTTA-GCCGATG-CATGTCCCAA
*
38856614 ACATGGTCTTACACTAGCTCTCGTATATATACGTGCT
61 ACAT-GTCTTACACTAGCTCTCGTATATATACATGCT
* *
38856651 GATGCCATGTCCCAGACGTAGTCTTATACTAGCACAACTCTTAGCCGATGCATGTCCCAAACATG
1 GATGCCATGTCCCAGACATGGTCTTATACTAGCACAACTCTTAGCCGATGCATGTCCCAAACATG
*
38856716 TATTACACTAGCTCTCGTATATATACATGCT
66 TCTTACACTAGCTCTCGTATATATACATGCT
* *
38856747 GATTCCATGTCCCAGACATGGTCTTATACTACCACAACTCTTAGCCGATGCATGTCCCAAACATG
1 GATGCCATGTCCCAGACATGGTCTTATACTAGCACAACTCTTAGCCGATGCATGTCCCAAACATG
* * * * *
38856812 TCTTACACTGGCTATC--AT-CAT-CGAGGCC
66 TCTTACACTAGCTCTCGTATATATAC-ATGCT
* * * *
38856840 GATG-CATGTCCCAGACAT-GTCTTAGACTAGCAC-TCATCTCAATGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTATACTAGCACAAC-TCT-TA-GCCGATG-CATGTCCCAAA
* * *
38856902 CATGGTCTTACATTGGCTCT-G-ATA-AT--GTGGCT
62 CAT-GTCTTACACTAGCTCTCGTATATATACAT-GCT
* *
38856934 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACA
1 GATGCCATGTCCCAGACATGGTCTTATACTAGCACA
38856968 CAAATAACCT
Statistics
Matches: 274, Mismatches: 32, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
90 1 0.00
91 16 0.06
92 16 0.06
93 15 0.05
94 48 0.18
95 18 0.07
96 104 0.38
97 13 0.05
98 8 0.03
99 4 0.01
100 1 0.00
101 30 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTATACTAGCACAACTCTTAGCCGATGCATGTCCCAAACATG
TCTTACACTAGCTCTCGTATATATACATGCT
Found at i:38856850 original size:47 final size:47
Alignment explanation
Indices: 38856549--38856964 Score: 228
Period size: 47 Copynumber: 8.7 Consensus size: 47
38856539 GATAAGTTGA
*
38856549 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTATCATCATCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGC
* * * * *
38856598 AGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATATACG-TGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC--AT-CAT-CGAGGC
* * * * * *
38856650 TGATGCCATGTCCCAGACGTAGTCTTATACTAGC-A-CAAC-TCTTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATC-GAGGC
* * * * * *
38856696 CGATGCATGTCCCAAACATGTATTACACTAGCTCTCGTATATATAC-ATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATC--AT-CAT-CGAGGC
* * * * * * *
38856746 TGATTCCATGTCCCAGACATGGTCTTATACT-ACCA-CAAC-TCTTA-GC
1 CGA-TGCATGTCCCAGACAT-GTCTTACACTGGCTATCATCATC-GAGGC
*
38856792 CGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGC
* * * *
38856839 CGATGCATGTCCCAGACATGTCTTAGACTAGC-ACTCATC-TCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGAGGC
* * * * *
38856885 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTGATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGC
*
38856933 TGATGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
38856965 ACACAAATAA
Statistics
Matches: 284, Mismatches: 56, Indels: 57
0.72 0.14 0.14
Matches are distributed among these distances:
44 20 0.07
45 30 0.11
46 40 0.14
47 67 0.24
48 22 0.08
49 36 0.13
50 7 0.02
51 18 0.06
52 42 0.15
53 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGC
Found at i:38862235 original size:46 final size:45
Alignment explanation
Indices: 38862185--38862359 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
38862175 TGGTTGAGCA
38862185 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
38862231 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
38862277 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
38862323 CCCGAGCTGGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38862360 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 97 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38862339 original size:92 final size:92
Alignment explanation
Indices: 38862182--38862352 Score: 306
Period size: 92 Copynumber: 1.9 Consensus size: 92
38862172 GGATGGTTGA
* *
38862182 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38862247 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
* *
38862274 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTGGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38862339 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38862353 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:38865860 original size:40 final size:40
Alignment explanation
Indices: 38865815--38865982 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
38865805 CGGAATATAA
38865815 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
38865855 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
38865895 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
38865935 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
38865975 CCGGATAT
1 CCGGATAT
38865983 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38865965 original size:80 final size:80
Alignment explanation
Indices: 38865831--38865980 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
38865821 ATAATCACGT
*
38865831 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
38865895 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
38865911 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
38865974 CCCGGAT
64 CCCGGAT
38865981 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:38867822 original size:21 final size:21
Alignment explanation
Indices: 38867796--38867840 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
38867786 AAAGAAAAAA
38867796 AAAGGTAGAGGCTGAGACTAG
1 AAAGGTAGAGGCTGAGACTAG
38867817 AAAGGTAGAGGCTGAGACTAG
1 AAAGGTAGAGGCTGAGACTAG
38867838 AAA
1 AAA
38867841 TTGGAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.36, T:0.13
Consensus pattern (21 bp):
AAAGGTAGAGGCTGAGACTAG
Found at i:38877363 original size:96 final size:97
Alignment explanation
Indices: 38877164--38877582 Score: 402
Period size: 96 Copynumber: 4.4 Consensus size: 97
38877154 GATAAGTTGA
* * * *
38877164 TGATGCCATGTCCCAGACATGGTCTTATACTGGCTATCATCATC-GAGGCAGATGCCATGTCCCA
1 TGATGCCATGTCCCAGACAT-GTCTTATACTAGC-A-CAACATCTTAGGCCGATGCCATGTCCCA
* * *
38877228 GACATGGTCTTACACGAGCTCTCGTATATATACGAGC
63 GACATAGTCTTACACTAGCTCTCATATATATA-G-GC
38877265 TGATGCCATGTCCCAGACATAGTCTTATACTAGCACAAC-TCTTA-GCCGATG-CATGTCCCAGA
1 TGATGCCATGTCCCAGACAT-GTCTTATACTAGCACAACATCTTAGGCCGATGCCATGTCCCAGA
38877327 CAT-GTCTTACACTAGCTCTCATATATATACGTGC
65 CATAGTCTTACACTAGCTCTCATATATATA-G-GC
*
38877361 TGATGCCGTGTCCCAGACATGGTCTTATACTAGCACAAC-TCTTA-GCCGATG-CATGTCCCAGA
1 TGATGCCATGTCCCAGACAT-GTCTTATACTAGCACAACATCTTAGGCCGATGCCATGTCCCAGA
* * *
38877423 CAT-GTCTTACACTGGCTATCATCAT-T-GAGGC
65 CATAGTCTTACACTAGCTCTCAT-ATATATAGGC
** * * * * * * *
38877454 CAATG-CATGTCCTAGACATGTCTTACACTAGTAC-TCGTCTCAATGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAGACATGTCTTATACTAGCACAACATCT-TAGGCCGATGCCATGTCCCAGA
* *
38877517 CATAGTCTTACATTAGCTCTCATA-ATGT-GGC
65 CATAGTCTTACACTAGCTCTCATATATATAGGC
* * *
38877548 CGATG-CATGTCCCAGACATGTCTTACACTGGCACA
1 TGATGCCATGTCCCAGACATGTCTTATACTAGCACA
38877583 CAAATAACCC
Statistics
Matches: 279, Mismatches: 29, Indels: 26
0.84 0.09 0.08
Matches are distributed among these distances:
90 1 0.00
91 16 0.06
92 13 0.05
93 12 0.04
94 50 0.18
95 17 0.06
96 109 0.39
97 16 0.06
98 8 0.03
99 4 0.01
100 1 0.00
101 32 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (97 bp):
TGATGCCATGTCCCAGACATGTCTTATACTAGCACAACATCTTAGGCCGATGCCATGTCCCAGAC
ATAGTCTTACACTAGCTCTCATATATATAGGC
Found at i:38877471 original size:47 final size:47
Alignment explanation
Indices: 38877165--38877576 Score: 280
Period size: 47 Copynumber: 8.6 Consensus size: 47
38877155 ATAAGTTGAT
* * * *
38877165 GATGCCATGTCCCAGACATGGTCTTATACTGGCTATCATCATCGAGGCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATTGAGGCC
* * *
38877214 GATGCCATGTCCCAGACATGGTCTTACACGAGCTCTCGTAT-ATAT-ACGAGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC--ATCAT-TGA-G-GCC
*
38877266 GATGCCATGTCCCAGACATAGTCTTATACTAGC-A-CAACTC-TT-A-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC-A-TCATTGAGGCC
* * *
38877312 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-ATATATACGTGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCATCAT-T-GA-G-GCC
* *
38877362 GATGCCGTGTCCCAGACATGGTCTTATACTAGC-A-CAACTC-TT-A-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC-A-TCATTGAGGCC
*
38877408 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATTGAGGCC
* * * ** *
38877455 AATGCATGTCCTAGACATGTCTTACACTAG-TACTCGTC-TCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTA-TCATCATTGAGGCC
* * * *
38877501 GATGCCATGTCCCAGACATAGTCTTACATTAGCTCTCAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATTGAGGCC
38877549 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
38877577 GGCACACAAA
Statistics
Matches: 292, Mismatches: 40, Indels: 65
0.74 0.10 0.16
Matches are distributed among these distances:
44 27 0.09
45 33 0.11
46 34 0.12
47 62 0.21
48 21 0.07
49 38 0.13
50 13 0.04
51 18 0.06
52 46 0.16
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATTGAGGCC
Found at i:38882967 original size:9 final size:9
Alignment explanation
Indices: 38882953--38882985 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
38882943 GTTAAATGAA
38882953 TCGAGTTAT
1 TCGAGTTAT
*
38882962 TCGAGTTAA
1 TCGAGTTAT
38882971 TCGAGTTAT
1 TCGAGTTAT
38882980 TCGAGT
1 TCGAGT
38882986 CTACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:38882974 original size:18 final size:18
Alignment explanation
Indices: 38882951--38882985 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38882941 GAGTTAAATG
38882951 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
38882969 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
38882986 CTACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:38883053 original size:9 final size:9
Alignment explanation
Indices: 38883036--38883072 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
38883026 TTAGTTTTTG
38883036 AATTCGAAT
1 AATTCGAAT
*
38883045 AACTCGAAT
1 AATTCGAAT
38883054 AATTCGAAT
1 AATTCGAAT
38883063 AATTCGAAT
1 AATTCGAAT
38883072 A
1 A
38883073 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:38894293 original size:10 final size:10
Alignment explanation
Indices: 38894263--38894296 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
38894253 ATTCATCATA
38894263 AAATTAAAGAT
1 AAATTAAA-AT
38894274 AAACTTAAAAT
1 AAA-TTAAAAT
38894285 AAATTAAAAT
1 AAATTAAAAT
38894295 AA
1 AA
38894297 GATTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 8 0.36
12 5 0.23
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:38896154 original size:9 final size:8
Alignment explanation
Indices: 38896131--38896157 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
38896121 TGAGATTTAC
38896131 CAATTTTT
1 CAATTTTT
38896139 CAATTTTT
1 CAATTTTT
38896147 CAATTTTT
1 CAATTTTT
38896155 CAA
1 CAA
38896158 AGGCTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (8 bp):
CAATTTTT
Found at i:38899835 original size:8 final size:8
Alignment explanation
Indices: 38899818--38899849 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
38899808 TACCAAAGTG
*
38899818 GGCCCGTT
1 GGCCCATT
38899826 GGCCCATT
1 GGCCCATT
38899834 GGCCCATT
1 GGCCCATT
38899842 GGCCCATT
1 GGCCCATT
38899850 TTTGGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.09, C:0.38, G:0.28, T:0.25
Consensus pattern (8 bp):
GGCCCATT
Found at i:38904410 original size:89 final size:89
Alignment explanation
Indices: 38904303--38904473 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
38904293 AACATAAATT
* * *
38904303 TACAGTCACTTAGACAACATTAATTGATGTCTAAACAACAATTTTTAAGTTGCATTAATACACCA
1 TACAGTCACTTAGACAACATTAATTGACGCCTAAACAACAATTATTAAGTTGCATTAATACACCA
38904368 AACAACAGTCCTTAAAATAGAAAA
66 AACAACAGTCCTTAAAATAGAAAA
* **
38904392 TACAGTTACTTAGACAACATTAATTGACGCCTAAACAACAATTATTCTGTTGCATTAATACACCA
1 TACAGTCACTTAGACAACATTAATTGACGCCTAAACAACAATTATTAAGTTGCATTAATACACCA
**
38904457 AACAGTAGTCCTTAAAA
66 AACAACAGTCCTTAAAA
38904474 GAACATAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (89 bp):
TACAGTCACTTAGACAACATTAATTGACGCCTAAACAACAATTATTAAGTTGCATTAATACACCA
AACAACAGTCCTTAAAATAGAAAA
Found at i:38922101 original size:33 final size:33
Alignment explanation
Indices: 38922059--38922125 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
38922049 CATCTTGTCT
38922059 AGCTTTGGTATATAGATATTTTTATTTTGTTCA
1 AGCTTTGGTATATAGATATTTTTATTTTGTTCA
38922092 AGCTTTGGTATATAGATATTTTTATTTTGTTCA
1 AGCTTTGGTATATAGATATTTTTATTTTGTTCA
38922125 A
1 A
38922126 TGGCATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (33 bp):
AGCTTTGGTATATAGATATTTTTATTTTGTTCA
Found at i:38925748 original size:43 final size:44
Alignment explanation
Indices: 38925681--38925782 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 44
38925671 TTTTCTTAAA
* * *
38925681 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCTGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-AT-AGATC
38925723 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAG-ATC
38925768 TCACCGGCATTATAG
1 TCACCGGCATTATAG
38925783 TTTGCTAAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 13 0.25
43 16 0.31
44 8 0.15
45 15 0.29
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGATC
Found at i:38926198 original size:43 final size:43
Alignment explanation
Indices: 38926137--38926333 Score: 349
Period size: 43 Copynumber: 4.6 Consensus size: 43
38926127 TGACATTACA
*
38926137 CCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
38926180 CCTGCTAGGCACGAAGGCCCGAATACACATCGCCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
38926223 CTTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
38926266 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
38926309 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
38926334 TAATACCAGC
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 148 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:38926391 original size:38 final size:38
Alignment explanation
Indices: 38926326--38926409 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
38926316 GGCACGAAGG
* * * * *
38926326 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
*
38926364 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
38926402 CCCGAATA
1 CCCGAATA
38926410 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:38931997 original size:46 final size:46
Alignment explanation
Indices: 38931940--38932106 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 46
38931930 ACACACCGTA
38931940 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * * *
38931986 GCCATATCCCAGATATGGTCTTATATGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACA-CGAATCACAT-ATCAC--A---CTGAT
* *
38932039 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
38932085 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
38932107 TTTTGTCAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
46 43 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 27 0.28
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:38934279 original size:45 final size:45
Alignment explanation
Indices: 38934180--38934306 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
38934170 TTTTCTCAAA
* * *
38934180 TCACCGGCATT-TCGCCTGTTAAGCTCG-AGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAAGCTCGAAGGCCCGAATATCATC
* *
38934222 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAAGCTCGAAGGCCCGAATA-TCATC
** *
38934267 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAAGCTCGAAGGCCCGAATA
38934307 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
42 10 0.14
43 13 0.18
44 7 0.10
45 40 0.56
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAAGCTCGAAGGCCCGAATATCATC
Found at i:38934684 original size:43 final size:43
Alignment explanation
Indices: 38934636--38934747 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
38934626 CCGGCATTAC
38934636 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
38934679 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
38934722 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
38934748 TAATACCAGC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:38934814 original size:38 final size:38
Alignment explanation
Indices: 38934740--38934823 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
38934730 GGCACGAAGG
* * *
38934740 CCCGAATATAATACCAGCACTAGGCCTGCAGAATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGAATTTAA
* * *
38934778 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGAATTTAA
38934816 CCCGAATA
1 CCCGAATA
38934824 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGAATTTAA
Found at i:38935385 original size:64 final size:65
Alignment explanation
Indices: 38935284--38935412 Score: 233
Period size: 64 Copynumber: 2.0 Consensus size: 65
38935274 GCATAAGTAC
**
38935284 ATATCACATACCTTAATAATTTACTTTATGGAACGAATCCACATATCGTATTAG-CCATAGTCTT
1 ATATCACATACCTTAATAATTTACTTTACAGAACGAATCCACATATCGTATTAGCCCATAGTCTT
38935348 ATATCACATACCTTAATAATTTACTTTACAGAACGAATCCACATATCGTATTAGCCCATAGTCTT
1 ATATCACATACCTTAATAATTTACTTTACAGAACGAATCCACATATCGTATTAGCCCATAGTCTT
38935413 CTAGCACCAC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 52 0.84
65 10 0.16
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (65 bp):
ATATCACATACCTTAATAATTTACTTTACAGAACGAATCCACATATCGTATTAGCCCATAGTCTT
Found at i:38938333 original size:44 final size:44
Alignment explanation
Indices: 38938268--38938351 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
38938258 TTGATATCTC
* *
38938268 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGATGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATGGA
* * *
38938312 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGA
38938352 CGGTTAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATGGA
Found at i:38938444 original size:54 final size:53
Alignment explanation
Indices: 38938363--38938792 Score: 258
Period size: 54 Copynumber: 8.4 Consensus size: 53
38938353 GGTTAAGGAT
* * *
38938363 ACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAGGGTCCCATGTAGG
1 ACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGGCAAGGATCCCATATAAG
* * *
38938418 A-CATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATCCCATATAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
* * * *
38938470 ACCATGTCAAGACATGGCATCG--GCA-TTGAT----TAAGGA-CTCCATGTAAG
1 ACCATGTCAAGACATGGCATTGATG-AGTTCATAAGGCAAGGATC-CCATATAAG
** * * * *
38938517 ACCACATCAAGATATGGCA-T--TG-G--CACTAAGACAAGGATACCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTCA-TAAGGCAAGGATCCCATATAAG
*** ** ** *
38938565 ACCATGTTTGGAACATGGCATT--TG-G----TAAGATAAGGATATCATGTAAG
1 ACCATGTCAAG-ACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
* * *** *
38938612 ACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGCAAGGATCCCATATAAG
* * *
38938666 ACTATGTCAAGACATGGTATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGGC-AAGGATCCCATATAAG
* * * ** *
38938721 ACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATATCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
38938774 ACCATGTCAAGACATGGCA
1 ACCATGTCAAGACATGGCA
38938793 ATGGTAAGTT
Statistics
Matches: 300, Mismatches: 51, Indels: 50
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 1 0.00
46 12 0.04
47 56 0.19
48 21 0.07
49 8 0.03
50 4 0.01
51 5 0.02
52 26 0.09
53 51 0.17
54 69 0.23
55 42 0.14
56 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (53 bp):
ACCATGTCAAGACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
Found at i:38938567 original size:48 final size:46
Alignment explanation
Indices: 38938446--38938568 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 46
38938436 TTGGTGAGTT
* * **
38938446 CATAAGGCAAGGATCCCATATAAGACCATGTCAAGACATGGCATCGG
1 CATAAGACAAGGAT-CCATGTAAGACCACATCAAGACATGGCATCGG
* * * *
38938493 CAT-TGATTAAGGACTCCATGTAAGACCACATCAAGATATGGCATTGG
1 CATAAGA-CAAGGA-TCCATGTAAGACCACATCAAGACATGGCATCGG
38938540 CACTAAGACAAGGATACCATGTAAGACCA
1 CA-TAAGACAAGGAT-CCATGTAAGACCA
38938569 TGTTTGGAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
46 1 0.02
47 38 0.62
48 20 0.33
49 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (46 bp):
CATAAGACAAGGATCCATGTAAGACCACATCAAGACATGGCATCGG
Found at i:38938737 original size:55 final size:54
Alignment explanation
Indices: 38938596--38938792 Score: 272
Period size: 54 Copynumber: 3.6 Consensus size: 54
38938586 TTGGTAAGAT
*
38938596 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
38938650 AAGGAAATCATGTAAGACTATGTCAAGACATGGTATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
** * *
38938705 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
*
38938758 AAGGATATCATGTAAGACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCA
38938793 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 41 0.33
55 41 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:38938772 original size:162 final size:156
Alignment explanation
Indices: 38938363--38938802 Score: 414
Period size: 162 Copynumber: 2.9 Consensus size: 156
38938353 GGTTAAGGAT
* *
38938363 ACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAGGGTCCCATGTAGGA-CATGCCAA
1 ACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAA
** * *
38938427 GGCATGGCATTGGTGAGTTCATAAGGCAAGGATCCCATATAAGACCATGTCAAGACATGGCATCG
66 GGCATGGCATTGGTGAGTTCATAAGGCAAGGATATCATGTAAGACCATGTCAAGACATGGCATTG
** * *
38938492 GCA-TTGATTAAGGACTCCATGTAAG
131 TAAGTTGATCAAGGAATCCATGTAAG
** * * * * **
38938517 ACCACATCAAGATATGGCA-T--TG-G-CAC--TAAGAC-AAGGATACCATGTAAGACCATG-TT
1 ACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCA
* ** *
38938573 TGGAACATGGCATT--TG-G----TAAGATAAGGATATCATGTAAGACCATGCCAAGACATGGCA
65 AGG--CATGGCATTGGTGAGTTCATAAGGCAAGGATATCATGTAAGACCATGTCAAGACATGGCA
*
38938631 TTGATAAGTTCTATAAGGCAAGGAAAT-CATGTAAG
128 TTG-TAAGTT-GAT----CAAGG-AATCCATGTAAG
* *
38938666 ACTATGTCAAGACATGGTATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAA
1 ACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAA
*
38938731 GGCATGGCATTGGTGAGTTCATAAGGCAAGGATATCATGTAAGACCATGTCAAGACATGGCAATG
66 GGCATGGCATTGGTGAGTTCATAAGGCAAGGATATCATGTAAGACCATGTCAAGACATGGC-ATT
38938796 GTAAGTT
130 GTAAGTT
38938803 TAAAAAGGAA
Statistics
Matches: 219, Mismatches: 38, Indels: 50
0.71 0.12 0.16
Matches are distributed among these distances:
142 37 0.17
143 1 0.00
144 2 0.01
145 2 0.01
146 4 0.02
147 19 0.09
148 4 0.02
149 37 0.17
150 4 0.02
151 2 0.01
152 2 0.01
153 2 0.01
154 18 0.08
155 9 0.04
156 21 0.10
157 8 0.04
158 1 0.00
162 43 0.20
163 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (156 bp):
ACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAA
GGCATGGCATTGGTGAGTTCATAAGGCAAGGATATCATGTAAGACCATGTCAAGACATGGCATTG
TAAGTTGATCAAGGAATCCATGTAAG
Found at i:38943308 original size:2 final size:2
Alignment explanation
Indices: 38943301--38943325 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38943291 GAGACTAGTC
38943301 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
38943326 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38945360 original size:30 final size:30
Alignment explanation
Indices: 38945326--38945386 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38945316 TCCTTAACTC
38945326 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38945356 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38945386 A
1 A
38945387 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:38947752 original size:2 final size:2
Alignment explanation
Indices: 38947745--38947777 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
38947735 GAGACTAGTC
38947745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38947778 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38949862 original size:93 final size:92
Alignment explanation
Indices: 38949704--38949873 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
38949694 GGATGGTTGA
* *
38949704 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
38949769 GAGTCCGAGTTCGAGAGATGTAACTAG
66 GAGTCCGAGTTCGAGAGATGTAACTAG
* * *
38949796 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
38949861 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
38949874 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 23 0.32
93 49 0.68
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:38949867 original size:46 final size:45
Alignment explanation
Indices: 38949708--38949881 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
38949698 GGTTGAGCAT
* *
38949708 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*** * * * *
38949753 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAACGC
*
38949798 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
38949846 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38949882 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
45 22 0.21
46 49 0.46
47 33 0.31
48 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:38952846 original size:14 final size:15
Alignment explanation
Indices: 38952797--38952846 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
38952787 CGTATCTTGG
*
38952797 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
38952812 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
38952827 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
38952841 TTTCTT
1 TTTCTT
38952847 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38957323 original size:22 final size:22
Alignment explanation
Indices: 38957295--38957339 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38957285 AGTGCACGGG
38957295 TAAGTCTCACGAGCATGTGACA
1 TAAGTCTCACGAGCATGTGACA
38957317 TAAGTCTCACGAGCATGTGACA
1 TAAGTCTCACGAGCATGTGACA
38957339 T
1 T
38957340 GACCGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (22 bp):
TAAGTCTCACGAGCATGTGACA
Found at i:38959591 original size:35 final size:35
Alignment explanation
Indices: 38959552--38959622 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
38959542 ATGAGGAAAA
38959552 ATATGGGTTGTTATACGATTAAAGGAAAACCAGCT
1 ATATGGGTTGTTATACGATTAAAGGAAAACCAGCT
38959587 ATATGGGTTGTTATACGATTAAAGGAAAACCAGCT
1 ATATGGGTTGTTATACGATTAAAGGAAAACCAGCT
38959622 A
1 A
38959623 ACATGAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (35 bp):
ATATGGGTTGTTATACGATTAAAGGAAAACCAGCT
Found at i:38960782 original size:28 final size:28
Alignment explanation
Indices: 38960742--38960798 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
38960732 GAATGGAAAG
38960742 TAAGTAAATGGAATGATTCATAATTTTA
1 TAAGTAAATGGAATGATTCATAATTTTA
38960770 TAAGTAAATGGAATGATTCATAATTTTA
1 TAAGTAAATGGAATGATTCATAATTTTA
38960798 T
1 T
38960799 GAAAAGGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (28 bp):
TAAGTAAATGGAATGATTCATAATTTTA
Found at i:38961172 original size:20 final size:20
Alignment explanation
Indices: 38961149--38961186 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38961139 AACCAATAAC
* *
38961149 TTAGGAAATTTTTGAAAAAA
1 TTAGAAAATTTTTCAAAAAA
38961169 TTAGAAAATTTTTCAAAA
1 TTAGAAAATTTTTCAAAA
38961187 TACAAGGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGAAAATTTTTCAAAAAA
Found at i:38971210 original size:44 final size:44
Alignment explanation
Indices: 38971099--38971198 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 44
38971089 TATGTGATTT
* *
38971099 CGTGTAAGACCACATCTGGGACGTTGGCATCAACTTCTATTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCAACTTCTATTTTA
* *
38971143 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCAACTTCTATTTTA
38971187 CGTGTAAGACCA
1 CGTGTAAGACCA
38971199 TGTTTGAGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCAACTTCTATTTTA
Found at i:38971217 original size:44 final size:44
Alignment explanation
Indices: 38971099--38971218 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
38971089 TATGTGATTT
* * * ** *
38971099 CGTGTAAGACCACATCTGGGACGTTGGCATCAACTTCTATTTTA
1 CGTGTAAGACCACGTCTGAGACATCAGCATCGACTTCTATTTTA
* ** *
38971143 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTA
1 CGTGTAAGACCACGTCTGAGACATCAGCATCGACTTCTATTTTA
* *
38971187 CGTGTAAGACCATGTTTGAGACATCAGCATCG
1 CGTGTAAGACCACGTCTGAGACATCAGCATCG
38971219 TATCTAATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGAGACATCAGCATCGACTTCTATTTTA
Found at i:38971296 original size:62 final size:62
Alignment explanation
Indices: 38971215--38971339 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
38971205 AGACATCAGC
38971215 ATCGTATCTAATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCTATGTTTGATTACATGT
1 ATCGTATCTAATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCTATGTTTGATTACATGT
*
38971277 ATCGTATCTAATTTCATGTAAGACCCTGTCTGGGACAGTGGTATCTATGTTTGATTACATGT
1 ATCGTATCTAATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCTATGTTTGATTACATGT
38971339 A
1 A
38971340 AGACCACATC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (62 bp):
ATCGTATCTAATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCTATGTTTGATTACATGT
Found at i:38975874 original size:59 final size:53
Alignment explanation
Indices: 38975750--38975869 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
38975740 ACTGTTACCA
* * *
38975750 TTACTGTTACTATTTCAGATTTGTTCCAATGAGGTACTCTGTGTACCGTAATG
1 TTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
* *
38975803 TTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTA
1 TTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
*
38975856 CTACTGTTACTGTT
1 TTACTGTTACTGTT
38975870 ACTGTTCCGG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (53 bp):
TTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
Found at i:38976007 original size:18 final size:18
Alignment explanation
Indices: 38975980--38976182 Score: 119
Period size: 18 Copynumber: 11.3 Consensus size: 18
38975970 AAAGGTATAA
* *
38975980 AATAACTGACTATTATTG
1 AATAATTGACTATTACTG
* *
38975998 AATAATTGACTGTTACCG
1 AATAATTGACTATTACTG
* * *
38976016 GATACTTGACTGTTACTG
1 AATAATTGACTATTACTG
* *
38976034 GAT-ATTAGACTATTATTG
1 AATAATT-GACTATTACTG
* *
38976052 AATAATTGACTGTTACCG
1 AATAATTGACTATTACTG
38976070 AATAATTGA-TCATTACTG
1 AATAATTGACT-ATTACTG
* * * *
38976088 AATAACTGATTGTCACTG
1 AATAATTGACTATTACTG
* *
38976106 AATGGA-TGACTGTTACTG
1 AAT-AATTGACTATTACTG
* * *
38976124 AATAACTTAATTGTTACTG
1 AATAA-TTGACTATTACTG
*
38976143 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTATTACTG
*
38976160 AATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
*
38976178 GATAA
1 AATAA
38976183 CCGATCAATT
Statistics
Matches: 146, Mismatches: 29, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
17 18 0.12
18 110 0.75
19 18 0.12
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAATTGACTATTACTG
Found at i:38976159 original size:17 final size:19
Alignment explanation
Indices: 38976116--38976183 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 19
38976106 AATGGATGAC
38976116 TGTTACTGAATAACTTAAT
1 TGTTACTGAATAACTTAAT
* *
38976135 TGTTACTGAATATC-TGAT
1 TGTTACTGAATAACTTAAT
* *
38976153 T-TTACTGAATAA-TTGAC
1 TGTTACTGAATAACTTAAT
*
38976170 TGTTACTGGATAAC
1 TGTTACTGAATAAC
38976184 CGATCAATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 14 0.34
18 14 0.34
19 13 0.32
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (19 bp):
TGTTACTGAATAACTTAAT
Found at i:38976176 original size:54 final size:54
Alignment explanation
Indices: 38975996--38976261 Score: 191
Period size: 54 Copynumber: 4.8 Consensus size: 54
38975986 TGACTATTAT
* * * * *
38975996 TGAATAATTGACTGTTACCGGAT-ACTTGACTGTTACTGGATAT-TAGACTATTAT
1 TGAATAATTGACTGTTACCGAATAACTTGATTGTTACTGAATATCT-GA-TTTTAC
** * *
38976050 TGAATAATTGACTGTTACCGAATAA-TTGATCATTACTGAATAACTGATTGTCAC
1 TGAATAATTGACTGTTACCGAATAACTTGATTGTTACTGAATATCTGATT-TTAC
* * *
38976104 TGAATGGA-TGACTGTTACTGAATAACTTAATTGTTACTGAATATCTGATTTTAC
1 TGAAT-AATTGACTGTTACCGAATAACTTGATTGTTACTGAATATCTGATTTTAC
* * * * * * *
38976158 TGAATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTGAATAACTGGTTATTAT
1 TGAATAATTGACTGTTACCGAAT-A---A-C--TTGATTGTTACTGAATATCTGATT-TTAC
* * *
38976220 TGAATAATTTATTGTTACCGAATAAC-TGACTGTTACTGAATA
1 TGAATAATTGACTGTTACCGAATAACTTGATTGTTACTGAATA
38976262 AATAATTGTT
Statistics
Matches: 167, Mismatches: 31, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
53 2 0.01
54 95 0.57
55 24 0.14
57 1 0.01
58 2 0.01
59 1 0.01
61 20 0.12
62 22 0.13
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.38
Consensus pattern (54 bp):
TGAATAATTGACTGTTACCGAATAACTTGATTGTTACTGAATATCTGATTTTAC
Found at i:38976271 original size:18 final size:18
Alignment explanation
Indices: 38976050--38976275 Score: 125
Period size: 18 Copynumber: 12.2 Consensus size: 18
38976040 AGACTATTAT
* *
38976050 TGAATAATTGACTGTTAC
1 TGAATAACTGATTGTTAC
* * **
38976068 CGAATAATTGATCATTAC
1 TGAATAACTGATTGTTAC
*
38976086 TGAATAACTGATTGTCAC
1 TGAATAACTGATTGTTAC
* *
38976104 TGAATGGA-TGACTGTTAC
1 TGAAT-AACTGATTGTTAC
*
38976122 TGAATAACTTAATTGTTAC
1 TGAATAAC-TGATTGTTAC
*
38976141 TGAATATCTGATT-TTAC
1 TGAATAACTGATTGTTAC
* *
38976158 TGAATAATTGACTGTTAC
1 TGAATAACTGATTGTTAC
* *
38976176 TGGATAACCGATCAATTGATCGATAC
1 TGAATAA-C--T-GATTG-T---TAC
* * *
38976202 TGAATAACTGGTTATTAT
1 TGAATAACTGATTGTTAC
* *
38976220 TGAATAATTTATTGTTAC
1 TGAATAACTGATTGTTAC
* *
38976238 CGAATAACTGACTGTTAC
1 TGAATAACTGATTGTTAC
* *
38976256 TGAATAAATAATTGTT-C
1 TGAATAACTGATTGTTAC
38976273 TGA
1 TGA
38976276 TTGTTAATAA
Statistics
Matches: 154, Mismatches: 42, Indels: 25
0.70 0.19 0.11
Matches are distributed among these distances:
17 19 0.12
18 100 0.65
19 16 0.10
21 2 0.01
22 5 0.03
23 2 0.01
25 1 0.01
26 9 0.06
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
TGAATAACTGATTGTTAC
Found at i:38979099 original size:43 final size:44
Alignment explanation
Indices: 38979052--38979154 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 44
38979042 TATCGATTTT
* * *
38979052 TGATTTACGTGTAAGACCTTGTCTAGGACATTGGCCTCG-TATA
1 TGATTTACGTGTAAGACCCTATCTAGGACAGTGGCCTCGATATA
* * * *
38979095 TGATTT-TGTGTAAGACCCTATCTGGGACAGTGGCTTCGATATT
1 TGATTTACGTGTAAGACCCTATCTAGGACAGTGGCCTCGATATA
*
38979138 TGA-TTACATGTAAGACC
1 TGATTTACGTGTAAGACC
38979155 ACGTCTGGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCCTATCTAGGACAGTGGCCTCGATATA
Found at i:38979123 original size:42 final size:43
Alignment explanation
Indices: 38979002--38979164 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
38978992 CATAGGATTC
* * *
38979002 CGATATGTGATTTTGTGTAAGACCAC-GTCTGGGACGTTGGTAT
1 CGATATTTGATTTTGTGTAAGACC-CTGTCTGGGACATTGGCAT
* * * * *
38979045 CGATTTTTGATTTACGTGTAAGACCTTGTCTAGGACATTGGCCT
1 CGATATTTGATTT-TGTGTAAGACCCTGTCTGGGACATTGGCAT
* * * *
38979089 CG-TATATGATTTTGTGTAAGACCCTATCTGGGACAGTGGCTT
1 CGATATTTGATTTTGTGTAAGACCCTGTCTGGGACATTGGCAT
***
38979131 CGATATTTGATTACATGTAAGACCAC-GTCTGGGA
1 CGATATTTGATTTTGTGTAAGACC-CTGTCTGGGA
38979165 TGTTGGCGTT
Statistics
Matches: 95, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 26 0.27
43 43 0.45
44 26 0.27
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTTTGTGTAAGACCCTGTCTGGGACATTGGCAT
Found at i:38985494 original size:43 final size:43
Alignment explanation
Indices: 38985433--38985516 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
38985423 GAGATATGTG
* *
38985433 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGA
*
38985476 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGGTGGATGC
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGC
38985517 TATTCATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.19, C:0.20, G:0.35, T:0.26
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGA
Found at i:38990658 original size:42 final size:42
Alignment explanation
Indices: 38990547--38990710 Score: 213
Period size: 42 Copynumber: 3.9 Consensus size: 42
38990537 TACCGTACCA
* *
38990547 ATGCTATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * *
38990589 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
38990632 ATTCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
38990674 GTGCCATATCCCAGATATGGTCTTACACGTAGTCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCA
38990711 GTAACCCTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 73 0.67
43 36 0.33
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:38994799 original size:93 final size:93
Alignment explanation
Indices: 38994640--38994810 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38994630 GGATGGTTGA
* * * *
38994640 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
38994705 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
38994733 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
38994798 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38994811 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38994813 original size:46 final size:46
Alignment explanation
Indices: 38994644--38994815 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
38994634 GGTTGAGCAT
* * *
38994644 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
38994690 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
38994735 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
38994783 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38994816 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.56
47 26 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:39002947 original size:23 final size:23
Alignment explanation
Indices: 39002913--39002976 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
39002903 AAGAACGAAA
*
39002913 TAAAAATTAAA-CTATAATTACAAT
1 TAAAAA-TAAACCTA-AATTACAAG
*
39002937 TGAAAATAAACCTAAATTACAAG
1 TAAAAATAAACCTAAATTACAAG
*
39002960 TAAAAATAAAACTAAAT
1 TAAAAATAAACCTAAAT
39002977 AGGAAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 27 0.77
24 8 0.23
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (23 bp):
TAAAAATAAACCTAAATTACAAG
Found at i:39005339 original size:29 final size:28
Alignment explanation
Indices: 39005305--39005407 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
39005295 TAATCGATCA
*
39005305 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
39005334 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
39005363 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
39005392 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
39005408 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:39013269 original size:29 final size:28
Alignment explanation
Indices: 39013235--39013337 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
39013225 TAATCGATCA
*
39013235 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
39013264 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
39013293 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
39013322 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
39013338 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:39019173 original size:30 final size:31
Alignment explanation
Indices: 39019125--39019187 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
39019115 TAATAAAGGT
* *
39019125 AAAATTATATTTTGATTCTTCTA-AAATTATA
1 AAAATTATAATTTAATTCTT-TACAAATTATA
39019156 AAAATT-TAATTTAATTCTTTACAAATTATA
1 AAAATTATAATTTAATTCTTTACAAATTATA
39019186 AA
1 AA
39019188 GATATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 21 0.72
31 6 0.21
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (31 bp):
AAAATTATAATTTAATTCTTTACAAATTATA
Found at i:39019655 original size:21 final size:21
Alignment explanation
Indices: 39019629--39019670 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
39019619 GGGAGAAATA
*
39019629 AGAATGACTAGATCAAGCCCT
1 AGAATGACTAAATCAAGCCCT
39019650 AGAATGACTAAATCAAGCCCT
1 AGAATGACTAAATCAAGCCCT
39019671 TCACCATGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (21 bp):
AGAATGACTAAATCAAGCCCT
Found at i:39021994 original size:28 final size:28
Alignment explanation
Indices: 39021962--39022018 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
39021952 ATAATCATTT
39021962 TAATAGGCAATTATGCCAATCTTTCCTC
1 TAATAGGCAATTATGCCAATCTTTCCTC
39021990 TAATAGGCAATTATGCCAATCTTTCCTC
1 TAATAGGCAATTATGCCAATCTTTCCTC
39022018 T
1 T
39022019 TTCTCATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.37
Consensus pattern (28 bp):
TAATAGGCAATTATGCCAATCTTTCCTC
Found at i:39022422 original size:38 final size:37
Alignment explanation
Indices: 39022355--39022426 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
39022345 CTCACAGTAC
* * *
39022355 CGTACCAATGCCATATCCTAGTTATGGTCTTACATCT
1 CGTACCAATGCCATAGCCCAGCTATGGTCTTACATCT
*
39022392 CGTATCAATGCCAATAGCCCAGCTATGGTCTTACA
1 CGTACCAATGCC-ATAGCCCAGCTATGGTCTTACA
39022427 CAAAGTCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 11 0.37
38 19 0.63
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (37 bp):
CGTACCAATGCCATAGCCCAGCTATGGTCTTACATCT
Found at i:39022516 original size:42 final size:42
Alignment explanation
Indices: 39022362--39022518 Score: 162
Period size: 42 Copynumber: 3.8 Consensus size: 42
39022352 TACCGTACCA
* * * *
39022362 ATGCCATATCCTAGTTATGGTCTT--AC--A-TCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * **
39022399 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * *
39022442 ATTCCATATCCCAGATATGGTCTTACATGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
*
39022484 GTGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
39022519 TAGTAACCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
37 5 0.05
38 16 0.16
40 2 0.02
42 64 0.65
43 12 0.12
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:39023724 original size:22 final size:22
Alignment explanation
Indices: 39023695--39023754 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 22
39023685 CCAACCTCGG
39023695 AGCT-GTGTGAGCCCATTTCAC
1 AGCTCGTGTGAGCCCATTTCAC
39023716 AGCTCGTGTGAGTAAGCCCATTTCAC
1 AGCTCGTGT--G--AGCCCATTTCAC
*
39023742 AACTCGTGTGAGC
1 AGCTCGTGTGAGC
39023755 AATAATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 4 0.12
22 7 0.21
24 2 0.06
26 20 0.61
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (22 bp):
AGCTCGTGTGAGCCCATTTCAC
Found at i:39023733 original size:26 final size:26
Alignment explanation
Indices: 39023704--39023753 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
39023694 GAGCTGTGTG
*
39023704 AGCCCATTTCACAGCTCGTGTGAGTA
1 AGCCCATTTCACAACTCGTGTGAGTA
39023730 AGCCCATTTCACAACTCGTGTGAG
1 AGCCCATTTCACAACTCGTGTGAG
39023754 CAATAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (26 bp):
AGCCCATTTCACAACTCGTGTGAGTA
Found at i:39033037 original size:28 final size:28
Alignment explanation
Indices: 39033000--39033074 Score: 125
Period size: 27 Copynumber: 2.7 Consensus size: 28
39032990 AAACAAAAGT
39033000 ACAAATACCAAAGTAAACTTTTTTTTTTG
1 ACAAA-ACCAAAGTAAACTTTTTTTTTTG
39033029 ACAAAACCAAAGTAAAC-TTTTTTTTTG
1 ACAAAACCAAAGTAAACTTTTTTTTTTG
*
39033056 ACAAAACCAAAGTGAACTT
1 ACAAAACCAAAGTAAACTT
39033075 AATTGTTAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 26 0.59
28 13 0.30
29 5 0.11
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (28 bp):
ACAAAACCAAAGTAAACTTTTTTTTTTG
Found at i:39040664 original size:13 final size:13
Alignment explanation
Indices: 39040646--39040670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39040636 TACTCCTAAA
39040646 GGACACATGGGCT
1 GGACACATGGGCT
39040659 GGACACATGGGC
1 GGACACATGGGC
39040671 GTGTGGTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.40, T:0.12
Consensus pattern (13 bp):
GGACACATGGGCT
Found at i:39045626 original size:29 final size:29
Alignment explanation
Indices: 39045554--39045627 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
39045544 AATGTAACTG
**
39045554 GGCCTAACAAGCCATATAAATGTGATTTA
1 GGCCTAATGAGCCATATAAATGTGATTTA
* *
39045583 GGCCTAATGAACCATATACATGTGATTT-
1 GGCCTAATGAGCCATATAAATGTGATTTA
* *
39045611 GGGCTGAATGGGCCATA
1 GGCCT-AATGAGCCATA
39045628 CGAAAATGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 4 0.11
29 33 0.89
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (29 bp):
GGCCTAATGAGCCATATAAATGTGATTTA
Found at i:39052889 original size:39 final size:40
Alignment explanation
Indices: 39052789--39052969 Score: 172
Period size: 40 Copynumber: 4.5 Consensus size: 40
39052779 TCGAATGATG
* * *
39052789 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
39052829 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
* *
39052869 TCCGGGCTAAG-CCCGAAGGCATTTGTGTAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
39052908 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
39052949 -CCGGGCTTCGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
39052970 ATTGAGCGAG
Statistics
Matches: 114, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
39 32 0.28
40 73 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:39052925 original size:79 final size:80
Alignment explanation
Indices: 39052789--39052968 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 80
39052779 TCGAATGATG
* * *
39052789 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
39052854 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
39052869 TCCGGGCTAAG-CCCGAAGGCATTTGTG-TAAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
* *
39052931 TCGTGCGAGTCACTATAA
64 TCGTGCGAGTTAATA-AA
**
39052949 -CCGGGCTTCGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
39052969 AATTGAGCGA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 28 0.33
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:39055288 original size:21 final size:22
Alignment explanation
Indices: 39055242--39055291 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
39055232 CTGAGCTTTA
*
39055242 ATTTTCAACTTGCTATTTTTCT
1 ATTTTCAACTTGCTATTTTGCT
39055264 ATTTTCAACTTGCTA-TTTGCT
1 ATTTTCAACTTGCTATTTTGCT
39055285 ATTTTCA
1 ATTTTCA
39055292 GTTGCTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.56
Consensus pattern (22 bp):
ATTTTCAACTTGCTATTTTGCT
Found at i:39058748 original size:9 final size:9
Alignment explanation
Indices: 39058736--39058906 Score: 66
Period size: 9 Copynumber: 18.4 Consensus size: 9
39058726 AAATATCAAA
39058736 AAAAATTAT
1 AAAAATTAT
*
39058745 AAAAAATAT
1 AAAAATTAT
*
39058754 AAATATTAT
1 AAAAATTAT
*
39058763 -TAAA-TAT
1 AAAAATTAT
39058770 AGAAAA-TAT
1 A-AAAATTAT
39058779 AAAAAATCTAT
1 -AAAAAT-TAT
* *
39058790 TAAACTCTA-
1 AAAAAT-TAT
*
39058799 ATAAATTAT
1 AAAAATTAT
*
39058808 AAAAATCAT
1 AAAAATTAT
39058817 AAAATATTGA-
1 AAAA-ATT-AT
**
39058827 AAATTTTAT
1 AAAAATTAT
*
39058836 AAAAGTATATT
1 AAAAAT-TA-T
*
39058847 AAAATTCTAT
1 AAAAAT-TAT
*
39058857 AAAAATCAT
1 AAAAATTAT
39058866 AAAAA-TAT
1 AAAAATTAT
*
39058874 TAAAATTGAT
1 AAAAATT-AT
*
39058884 ATAAACTTAT
1 A-AAAATTAT
*
39058894 AAAAGTTAT
1 AAAAATTAT
39058903 AAAA
1 AAAA
39058907 TAAATCAATC
Statistics
Matches: 121, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
7 3 0.02
8 11 0.09
9 64 0.53
10 26 0.21
11 17 0.14
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:39058790 original size:27 final size:25
Alignment explanation
Indices: 39058742--39058823 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
39058732 CAAAAAAAAT
*
39058742 TATAAAAAATATAAATATTATTAAA
1 TATAAAAAATATAAAAATTATTAAA
*
39058767 TATAGAAAATATAAAAAATCTATTAAA
1 TATAAAAAATAT-AAAAAT-TATTAAA
* * * *
39058794 CTCTAATAAATTATAAAAATCATAAAA
1 -TATAA-AAAATATAAAAATTATTAAA
39058821 TAT
1 TAT
39058824 TGAAAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
25 11 0.24
26 7 0.16
27 12 0.27
28 9 0.20
29 6 0.13
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (25 bp):
TATAAAAAATATAAAAATTATTAAA
Found at i:39058852 original size:21 final size:22
Alignment explanation
Indices: 39058820--39058860 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
39058810 AAATCATAAA
*
39058820 ATATTGAAAATTTTATAAAAGT
1 ATATTGAAAATTCTATAAAAGT
39058842 ATATT-AAAATTCTATAAAA
1 ATATTGAAAATTCTATAAAA
39058861 ATCATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
ATATTGAAAATTCTATAAAAGT
Found at i:39058895 original size:28 final size:27
Alignment explanation
Indices: 39058799--39058897 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 27
39058789 TTAAACTCTA
*
39058799 ATAAATTATAAAAATCATAAAATATTGA-
1 ATAAATTATAAAAAT-ATTAAA-ATTGAT
* *
39058827 A-AATTTTATAAAAGTATATTAAAATTCTAT
1 ATAA-ATTATAAAA--ATATTAAAATT-GAT
* *
39058857 AAAAATCATAAAAATATTAAAATTGAT
1 ATAAATTATAAAAATATTAAAATTGAT
39058884 ATAAACTTATAAAA
1 ATAAA-TTATAAAA
39058898 GTTATAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
27 8 0.14
28 30 0.54
29 6 0.11
30 10 0.18
31 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (27 bp):
ATAAATTATAAAAATATTAAAATTGAT
Found at i:39059629 original size:19 final size:20
Alignment explanation
Indices: 39059607--39059645 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
39059597 TAAGTTTTCT
*
39059607 AAAATTTTAAATAT-ATTAA
1 AAAATGTTAAATATAATTAA
*
39059626 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
39059646 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAATGTTAAATATAATTAA
Found at i:39059669 original size:17 final size:17
Alignment explanation
Indices: 39059647--39059685 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
39059637 TATAATTAAT
39059647 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
39059664 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
39059681 CTTAA
1 TTTAA
39059686 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:39059766 original size:17 final size:17
Alignment explanation
Indices: 39059712--39059840 Score: 57
Period size: 17 Copynumber: 7.3 Consensus size: 17
39059702 GTAAAGATAA
*
39059712 AAAAATTCTTAATATATTT
1 AAAAATT-TAAATATA-TT
* *
39059731 AAAATTTTAAA-AAACTT
1 AAAAATTTAAATATA-TT
39059748 AAAAATTTAAATATATT
1 AAAAATTTAAATATATT
*
39059765 AAAAAATGTTAAGTATA--
1 -AAAAAT-TTAAATATATT
** * *
39059782 ACCAATTTTAATATTTT
1 AAAAATTTAAATATATT
* *
39059799 AATATTTTAAATATATTTTT
1 AAAAATTTAAATATA---TT
**
39059819 AAAAAACTAAATATATT
1 AAAAATTTAAATATATT
39059836 AAAAA
1 AAAAA
39059841 AAGCTAAGTA
Statistics
Matches: 81, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
15 6 0.07
16 4 0.05
17 33 0.41
18 11 0.14
19 14 0.17
20 13 0.16
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAAATTTAAATATATT
Found at i:39059822 original size:71 final size:69
Alignment explanation
Indices: 39059601--39059874 Score: 225
Period size: 71 Copynumber: 3.9 Consensus size: 69
39059591 TTTTTTTAAG
* ** *
39059601 TTTTCTAAAATTTTAAATATATTAAAAAATGTTAAGTATAATTAATTTTAAAAGTTTAATATATT
1 TTTT-TAAAAATTTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATAT-TT
39059666 T-AAAA
64 TAAAAA
* * * * * ** *
39059671 -TTTTAATATACTTAATATATATTTTTAATAA-GTAAAG-ATAAAAAAATTCTTAATATATTTAA
1 TTTTTAA-AAATTTAA-ATATA--TTAAAAAATGTTAAGTAT-AACCAATT-TTAAAAT-TTTAA
*
39059733 AATTTTAAAAA
59 TATTTTAAAAA
** *
39059744 -ACTTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAATATTTTAATATTTTA
1 TTTTTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATTTTA
39059808 AATATA
66 AA-A-A
** * * *
39059814 TTTTTAAAAAACTAAATATATTAAAAAAAGCTAAGTACAACCAATTTTAAAATTTTAATAT
1 TTTTTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATAT
39059875 ATTCAATATA
Statistics
Matches: 162, Mismatches: 29, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
68 16 0.10
69 22 0.14
70 19 0.12
71 70 0.43
72 20 0.12
73 15 0.09
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (69 bp):
TTTTTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATTTTA
AAAA
Found at i:39059883 original size:71 final size:71
Alignment explanation
Indices: 39059746--39059895 Score: 219
Period size: 71 Copynumber: 2.1 Consensus size: 71
39059736 TTTAAAAAAC
** * * * * *
39059746 TTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAATATTTTAATATTTTAAAT
1 TTAAAAAACTAAATATATTAAAAAAAGCTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
39059811 ATATTT
66 ATATTT
*
39059817 TTAAAAAACTAAATATATTAAAAAAAGCTAAGTACAACCAATTTTAAAATTTTAATATATTCAAT
1 TTAAAAAACTAAATATATTAAAAAAAGCTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
39059882 ATATTT
66 ATATTT
*
39059888 TTTAAAAA
1 TTAAAAAA
39059896 TATATTTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (71 bp):
TTAAAAAACTAAATATATTAAAAAAAGCTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
ATATTT
Found at i:39060012 original size:17 final size:17
Alignment explanation
Indices: 39059987--39060023 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
39059977 AAAAATTTAG
39059987 AAAAATTTAAATATATT
1 AAAAATTTAAATATATT
* *
39060004 AAAATTTTAAATATGTT
1 AAAAATTTAAATATATT
39060021 AAA
1 AAA
39060024 GAAAATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAAATTTAAATATATT
Found at i:39060063 original size:9 final size:9
Alignment explanation
Indices: 39060046--39060083 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
39060036 TATCATCAAT
39060046 TTTAA-ATA
1 TTTAATATA
39060054 TTTAATATA
1 TTTAATATA
39060063 TTTAATATA
1 TTTAATATA
*
39060072 TTAAAATATA
1 TT-TAATATA
39060082 TT
1 TT
39060084 AAAAATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 5 0.19
9 14 0.52
10 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTAATATA
Found at i:39061775 original size:41 final size:41
Alignment explanation
Indices: 39061730--39061807 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
39061720 ACATATATGC
* **
39061730 TTGAAACATGTCTGTTGAATGTAAGATGAAATTATTAATGT
1 TTGAAACATGTCTATTGAATGTAAGACAAAATTATTAATGT
39061771 TTGAAACATGTCTATTGAATGTAAGACAAAATTATTA
1 TTGAAACATGTCTATTGAATGTAAGACAAAATTATTA
39061808 GTTATACTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (41 bp):
TTGAAACATGTCTATTGAATGTAAGACAAAATTATTAATGT
Found at i:39062238 original size:2 final size:2
Alignment explanation
Indices: 39062231--39062258 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
39062221 TTCTTTATTT
39062231 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
39062259 ATTTAATTGA
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:39075353 original size:47 final size:47
Alignment explanation
Indices: 39075302--39075440 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 47
39075292 TCAGGCGGGG
39075302 AGCAGATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * * ** *
39075349 AGCAGA-T----CCA-AGATGATTTGGC-ATCTC-TGTATCAAGCAGGG
1 AGCAGATTGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACG-TTGA
*
39075390 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
39075437 AGCA
1 AGCA
39075441 AATCCAAGAT
Statistics
Matches: 63, Mismatches: 19, Indels: 20
0.62 0.19 0.20
Matches are distributed among these distances:
39 3 0.05
40 6 0.10
41 18 0.29
42 2 0.03
46 3 0.05
47 22 0.35
48 6 0.10
49 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (47 bp):
AGCAGATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:39075367 original size:41 final size:41
Alignment explanation
Indices: 39075321--39075458 Score: 109
Period size: 41 Copynumber: 3.2 Consensus size: 41
39075311 AAGACATAGC
39075321 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
1 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
* * * * ** * *
39075362 TGATTTGGC-ATCTC-TGTATCAAGCAGGGAGCAGATCGAAGACATAGC
1 TGATTTGGCTTTCACGTGT-TTACG-TTGAAGCAGATC-----CA-AGA
*
39075409 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGA
1 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
39075450 TGATTTGGC
1 TGATTTGGC
39075459 GTCTCTGTAG
Statistics
Matches: 70, Mismatches: 17, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
39 3 0.04
40 6 0.09
41 29 0.41
42 2 0.03
46 2 0.03
47 19 0.27
48 6 0.09
49 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (41 bp):
TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
Found at i:39075415 original size:88 final size:88
Alignment explanation
Indices: 39075266--39075489 Score: 360
Period size: 88 Copynumber: 2.6 Consensus size: 88
39075256 AGCTGAATAT
* * *
39075266 ATCCAAGATGATTTGGCATTTCTGTATCAGGCGGGGAGCAGATTGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
*
39075331 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAA
*
39075354 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
39075419 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTGAAGCAA
* * * *
39075442 ATCCAAGATGATTTGGCGTCTCTGTAGC-GGCAGAGAGCAGATCAAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGA
39075490 TAACAGATTT
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 17 0.13
88 109 0.87
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTACGTTGAAGCAA
Found at i:39075505 original size:44 final size:44
Alignment explanation
Indices: 39075451--39075992 Score: 849
Period size: 44 Copynumber: 12.4 Consensus size: 44
39075441 AATCCAAGAT
* *
39075451 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
39075495 GATTTAGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
39075539 TATTTGGCGTCTCTGTAGCGGCGGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
39075583 GATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
39075627 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
39075671 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
39075711 GATTTGGCATCTCTGTAGCGGAGGAGAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
39075755 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
39075799 GATTTGGCGTCTCTCTAGCAGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
39075843 GATTTGACATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
39075887 GATTTGACGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
39075931 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
39075975 GATTTGGCGTCTCTGTAG
1 GATTTGGCGTCTCTGTAG
39075993 TGGATAACAG
Statistics
Matches: 459, Mismatches: 35, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
40 38 0.08
44 421 0.92
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:39075587 original size:132 final size:132
Alignment explanation
Indices: 39075451--39076498 Score: 1511
Period size: 132 Copynumber: 8.1 Consensus size: 132
39075441 AATCCAAGAT
* *
39075451 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAACAGATTTAGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * *
39075516 TGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAGCGGCGGAGAGCAGGTCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
39075581 CA
131 CA
* * * *
39075583 GATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
39075648 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT--
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
39075711 --
131 CA
* * *
39075711 GATTTGGCATCTCTGTAGCGG-AGGAGAGCAGATTGAAGATAACAGATTTGGCATCTCTGTAGCG
1 GATTTGGCGTCTCTGTAGCGGCA-GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
* *
39075775 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTCTAGCAGCGGAGAGCAGATCGAAGATA
65 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
39075840 ACA
130 ACA
* * * * *
39075843 GATTTGACATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCAGATTTGACGTCTCTATAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
39075908 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
39075973 CA
131 CA
* *
39075975 GATTTGGCGTCTCTGTA---G-TG-GA-TA-A-C--AGAT-------TTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
39076023 CGGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
*
39076088 TA
131 CA
* * *
39076090 GATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACAAATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
39076155 CGGAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
39076220 CA
131 CA
* *
39076222 GATTTGACGTCTCTGTAGCGGC-GAAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCG
1 GATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
* * *
39076282 GCGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCAAAGATA
65 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
39076347 ACA
130 ACA
* *
39076350 GATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * *
39076415 CGGATAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
*
39076480 CG
131 CA
39076482 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
39076499 TTAGACGGGG
Statistics
Matches: 828, Mismatches: 59, Indels: 58
0.88 0.06 0.06
Matches are distributed among these distances:
115 98 0.12
118 1 0.00
119 1 0.00
120 2 0.00
121 2 0.00
122 5 0.01
123 1 0.00
124 1 0.00
125 5 0.01
126 1 0.00
127 2 0.00
128 237 0.29
129 2 0.00
131 1 0.00
132 468 0.57
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.22
Consensus pattern (132 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
CA
Found at i:39076006 original size:27 final size:27
Alignment explanation
Indices: 39075968--39076019 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
39075958 GCAGATCGAA
39075968 GATAACAGATTTGGCGTCTCTGTAGTG
1 GATAACAGATTTGGCGTCTCTGTAGTG
39075995 GATAACAGATTTGGCGTCTCTGTAG
1 GATAACAGATTTGGCGTCTCTGTAG
39076020 CGGCGGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (27 bp):
GATAACAGATTTGGCGTCTCTGTAGTG
Found at i:39076011 original size:71 final size:71
Alignment explanation
Indices: 39075924--39076063 Score: 262
Period size: 71 Copynumber: 2.0 Consensus size: 71
39075914 GCAGATCGAA
39075924 GATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
39075989 GTAGTG
66 GTAGTG
* *
39075995 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCT
1 GATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
39076060 GTAG
66 GTAG
39076064 CGACGGAGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (71 bp):
GATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
GTAGTG
Found at i:39076058 original size:44 final size:44
Alignment explanation
Indices: 39075995--39076498 Score: 818
Period size: 44 Copynumber: 11.5 Consensus size: 44
39075985 CTCTGTAGTG
39075995 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
* *
39076039 GATAACAGATTTGGTGTCTCTGTAGCGACGGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
* *
39076083 GATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
* *
39076127 GATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
*
39076171 GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
* *
39076215 GATAACAGATTTGACGTCTCTGTAGCGGCGAAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
*
39076259 GAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
* * *
39076299 GATAACATATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
*
39076343 GATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
* *
39076387 GATAACAGATTTGGCGTCTCTGTAGCGGCGGATAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
*
39076431 GATAACAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
*
39076475 GATAACGGATTTGGCGTCTCTGTA
1 GATAACAGATTTGGCGTCTCTGTA
39076499 TTAGACGGGG
Statistics
Matches: 424, Mismatches: 32, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
40 37 0.09
44 387 0.91
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
Found at i:39076087 original size:115 final size:115
Alignment explanation
Indices: 39075880--39076107 Score: 411
Period size: 115 Copynumber: 2.0 Consensus size: 115
39075870 GCAGATCGAA
*
39075880 GATAGCAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
1 GATAACAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
39075945 GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTG
66 GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTG
* * *
39075995 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCT
1 GATAACAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
*
39076060 GTAGCGACGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAG
66 GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
39076108 CGGCGGAGAG
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 108 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.24
Consensus pattern (115 bp):
GATAACAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTG
Found at i:39076441 original size:507 final size:504
Alignment explanation
Indices: 39075488--39076498 Score: 1619
Period size: 507 Copynumber: 2.0 Consensus size: 504
39075478 GCAGATCAAA
* *
39075488 GATAACAGATTTAGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCT
1 GATAACAGATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
39075553 GTAGCGGCGGAGAGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCA
66 GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCA
*
39075618 AAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
131 AAGATAACAAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
* * * *
39075683 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGAGGAGAGCAGATTGAA
196 CTGTAGCGGCAGAGAGCAGATCGAAGATGATTTGACATCTCTGTAGCGGAGAAGAGCAGATCGAA
39075748 GATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
261 GAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * *
39075813 CTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTAGCGGCAGAGAGCAGATCG
323 CTAGCAGCGAAGAGCAGATCAAAGATAACAGATTTGACATCTCCGTAGCGGCAGAGAGCAGATCG
* *
39075878 AAGATAGCAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT
388 AAGATAACAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCT
*
39075943 CTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTG
453 CTGTAACGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTG
* *
39075995 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCT
1 GATAACAGATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * *
39076060 GTAGCGACGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCG
66 GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCA
* * *
39076125 AAGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCT
131 AAGATAACAAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
* *
39076190 CTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGAAGAGCAGAT
196 CTGTAGCGGCAGAGAGCAGATCGAAGAT----GATTTGACATCTCTGTAGCGGAGAAGAGCAGAT
*
39076255 CGAAGAT-GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACATATTTGGCGTCTC
257 CGAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* * * * *
39076319 TGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATC
322 TCTAGCAGCGAAGAGCAGATCAAAGATAACAGATTTGACATCTCCGTAGCGGCAGAGAGCAGATC
* * *
39076384 GAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGATAGCAGATCAAAGATAACAGATTTGGCGTC
387 GAAGATAACAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTC
* *
39076449 TCTGTAACGGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTA
452 TCTGTAACGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
39076499 TTAGACGGGG
Statistics
Matches: 463, Mismatches: 37, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
507 428 0.92
511 35 0.08
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.22
Consensus pattern (504 bp):
GATAACAGATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAAAGCAGATCA
AAGATAACAAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCT
CTGTAGCGGCAGAGAGCAGATCGAAGATGATTTGACATCTCTGTAGCGGAGAAGAGCAGATCGAA
GATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTCTA
GCAGCGAAGAGCAGATCAAAGATAACAGATTTGACATCTCCGTAGCGGCAGAGAGCAGATCGAAG
ATAACAGATTTGACGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTG
TAACGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTG
Found at i:39081118 original size:37 final size:37
Alignment explanation
Indices: 39081062--39081145 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
39081052 GGAAGGAAGA
* *
39081062 AAGAAAAAAAAGAGAAGCAGGCTAGAGAGAG-AGGGG
1 AAGAAAAAAAAGAGAAGCAGACTAGAGAAAGAAGGGG
*
39081098 AAGAGAAAAAAAGAGGAGCAGACTAGAGAAAGAAGGGG
1 AAGA-AAAAAAAGAGAAGCAGACTAGAGAAAGAAGGGG
39081136 AAGAAAAAAA
1 AAGAAAAAAA
39081146 TAGAAGAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 4 0.09
37 30 0.70
38 9 0.21
ACGTcount: A:0.58, C:0.05, G:0.35, T:0.02
Consensus pattern (37 bp):
AAGAAAAAAAAGAGAAGCAGACTAGAGAAAGAAGGGG
Found at i:39081164 original size:36 final size:38
Alignment explanation
Indices: 39081093--39081165 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
39081083 CTAGAGAGAG
* * *
39081093 AGGGGAAGAGAAAAAAAGAGGAGCAGACTAGAGAAAGA
1 AGGGGAAGAGAAAAAAAGAAGAGCAGACAAAAGAAAGA
39081131 AGGGGAAGA-AAAAAATAGAAGAG-AGA-AAAAGAAAG
1 AGGGGAAGAGAAAAAA-AGAAGAGCAGACAAAAGAAAG
39081166 GAGGAAGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 7 0.23
37 9 0.29
38 15 0.48
ACGTcount: A:0.60, C:0.03, G:0.34, T:0.03
Consensus pattern (38 bp):
AGGGGAAGAGAAAAAAAGAAGAGCAGACAAAAGAAAGA
Found at i:39081264 original size:32 final size:32
Alignment explanation
Indices: 39081181--39081264 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
39081171 AGGGGAGGAG
* * * *
39081181 AAGAGGGTTGTGTTTGAGATTTGAGAAAAGAAT
1 AAGA-GGTTGTGTTTGGGGTTTGAAAAAAAAAT
* *
39081214 TAG-GGTTGTGTTTAGGGTTTGAAAAAAAAAT
1 AAGAGGTTGTGTTTGGGGTTTGAAAAAAAAAT
*
39081245 AAGAGGTTGTATTTGGGGTT
1 AAGAGGTTGTGTTTGGGGTT
39081265 AGAAGGATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
31 25 0.61
32 14 0.34
33 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.33, T:0.35
Consensus pattern (32 bp):
AAGAGGTTGTGTTTGGGGTTTGAAAAAAAAAT
Found at i:39085430 original size:226 final size:226
Alignment explanation
Indices: 39085029--39085493 Score: 835
Period size: 226 Copynumber: 2.1 Consensus size: 226
39085019 CTCAATTAAG
39085029 TTACAAA--CATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
1 TTACAAACCCATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
39085092 TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
66 TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
*
39085157 AGCAAACAAGTATAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
131 AGCAAACAAGTACAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
39085222 GTGTTAACACATTGCACATGGATAAATAGGT
196 GTGTTAACACATTGCACATGGATAAATAGGT
* ** **
39085253 TTACAAACCCATAACATTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTGGCCTTGTTTA
1 TTACAAACCCATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
*
39085318 TTATAATACCACTTATACTTTTATACCACGGTTATCATCATACTAATTAACTTCAACTTAATTAT
66 TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
*
39085383 AGCAAACAAGTACAACTACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
131 AGCAAACAAGTACAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
*
39085448 GTGTTAACACATTGCATATGGATAAATAGGT
196 GTGTTAACACATTGCACATGGATAAATAGGT
39085479 TTACAAACCCATAAC
1 TTACAAACCCATAAC
39085494 CAATATAAGC
Statistics
Matches: 230, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
224 7 0.03
226 223 0.97
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (226 bp):
TTACAAACCCATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
AGCAAACAAGTACAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
GTGTTAACACATTGCACATGGATAAATAGGT
Found at i:39085588 original size:23 final size:23
Alignment explanation
Indices: 39085562--39085607 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
39085552 GGCCAAACCA
39085562 TTAAACACATAACACAAAGGACT
1 TTAAACACATAACACAAAGGACT
* *
39085585 TTAAACATATAGCACAAAGGACT
1 TTAAACACATAACACAAAGGACT
39085608 AAGTCTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.11, T:0.20
Consensus pattern (23 bp):
TTAAACACATAACACAAAGGACT
Found at i:39086463 original size:14 final size:14
Alignment explanation
Indices: 39086444--39086470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39086434 TATTAAAATA
39086444 ATAATTAAGAACAC
1 ATAATTAAGAACAC
39086458 ATAATTAAGAACA
1 ATAATTAAGAACA
39086471 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:39086639 original size:10 final size:10
Alignment explanation
Indices: 39086624--39086651 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
39086614 CCAAAACTCC
39086624 TGAAGGAAAT
1 TGAAGGAAAT
39086634 TGAAGGAAAT
1 TGAAGGAAAT
39086644 TGAAGGAA
1 TGAAGGAA
39086652 GATTTTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (10 bp):
TGAAGGAAAT
Found at i:39086860 original size:13 final size:13
Alignment explanation
Indices: 39086839--39086891 Score: 97
Period size: 13 Copynumber: 4.1 Consensus size: 13
39086829 GCTCGATAGG
*
39086839 GACATGCCCGTGT
1 GACACGCCCGTGT
39086852 GACACGCCCGTGT
1 GACACGCCCGTGT
39086865 GACACGCCCGTGT
1 GACACGCCCGTGT
39086878 GACACGCCCGTGT
1 GACACGCCCGTGT
39086891 G
1 G
39086892 CGATTTCTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.15, C:0.36, G:0.32, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:39088936 original size:10 final size:10
Alignment explanation
Indices: 39088921--39088948 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
39088911 GTACTTTAAG
39088921 AAGATAAATA
1 AAGATAAATA
39088931 AAGATAAATA
1 AAGATAAATA
39088941 AAGATAAA
1 AAGATAAA
39088949 AGTGAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (10 bp):
AAGATAAATA
Found at i:39094997 original size:40 final size:40
Alignment explanation
Indices: 39094938--39095181 Score: 330
Period size: 40 Copynumber: 6.1 Consensus size: 40
39094928 TGGATGATAA
* * * *
39094938 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
39094978 CCGGGCTTAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39095018 CCGGGCTAAGTCCCAAAGGCATTTGTACTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39095058 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39095098 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
39095138 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
39095178 CCGG
1 CCGG
39095182 TTCAATCCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 179 0.98
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39107120 original size:25 final size:25
Alignment explanation
Indices: 39107066--39107120 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
39107056 TTTGTCTTTT
* *
39107066 TTGAGCTATGAATAGTAAGCTCCTC
1 TTGAGCTATGAACAGTAAGCTCCTA
* *
39107091 CTGAGCTAATGGACAGTAAGCT-CTA
1 TTGAGCT-ATGAACAGTAAGCTCCTA
39107116 TTGAG
1 TTGAG
39107121 TTGAAACGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (25 bp):
TTGAGCTATGAACAGTAAGCTCCTA
Found at i:39108720 original size:91 final size:91
Alignment explanation
Indices: 39108565--39108748 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
39108555 TTTTGATTTA
39108565 TGGTAATAAGGTGTTGAACGTTGTCTTCTTCTAGTTTCATTATGTAATATTGCAATTCTTGCATC
1 TGGTAATAAGGTGTTGAACGTTGTCTTCTTCTAGTTTCATTATGTAATATTGCAATTCTTGCATC
39108630 ATCTTATCAACTTTCTCCTTTTGTGC
66 ATCTTATCAACTTTCTCCTTTTGTGC
39108656 TGGTAATAAGGTGTTGAACGTTGTCTTCTTCTAGTTTCATTATGTAATATTGCAATTCTTGCATC
1 TGGTAATAAGGTGTTGAACGTTGTCTTCTTCTAGTTTCATTATGTAATATTGCAATTCTTGCATC
39108721 ATCTTATCAACTTTCTCCTTTTGTGC
66 ATCTTATCAACTTTCTCCTTTTGTGC
39108747 TG
1 TG
39108749 AAGTTATTAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.46
Consensus pattern (91 bp):
TGGTAATAAGGTGTTGAACGTTGTCTTCTTCTAGTTTCATTATGTAATATTGCAATTCTTGCATC
ATCTTATCAACTTTCTCCTTTTGTGC
Found at i:39109102 original size:23 final size:25
Alignment explanation
Indices: 39109072--39109120 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
39109062 CACAATAAAC
*
39109072 AAAAT-AAATTAAA-AAAATATATA
1 AAAATAAAAATAAACAAAATATATA
*
39109095 AAAATAAAAATAAACAAACTATATA
1 AAAATAAAAATAAACAAAATATATA
39109120 A
1 A
39109121 TACTAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 7 0.32
25 10 0.45
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAATAAAAATAAACAAAATATATA
Found at i:39109324 original size:27 final size:27
Alignment explanation
Indices: 39109285--39109341 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
39109275 AAATTTAATA
*
39109285 CACTGGTGTCGCCTACCAGATAAGGC-T
1 CACTGGTGCCGCCTACCAGAT-AGGCAT
*
39109312 CACTGGTGCCGCCTATCAGATAGGCAT
1 CACTGGTGCCGCCTACCAGATAGGCAT
39109339 CAC
1 CAC
39109342 ACTCCTGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.21
Consensus pattern (27 bp):
CACTGGTGCCGCCTACCAGATAGGCAT
Found at i:39109669 original size:13 final size:13
Alignment explanation
Indices: 39109651--39109676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39109641 ATTTTGTGAT
39109651 TGGTTATTTAAGA
1 TGGTTATTTAAGA
39109664 TGGTTATTTAAGA
1 TGGTTATTTAAGA
39109677 AAATTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGGTTATTTAAGA
Found at i:39109793 original size:91 final size:91
Alignment explanation
Indices: 39109689--39109872 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 91
39109679 ATTTTTATTT
*
39109689 ATAATTTTAATTTTTATGATGGAAATATCAATCACTATTTATAATTTCAATTTGTTACAATAATT
1 ATAATTATAATTTTTATGATGGAAATATCAATCACTATTTATAATTTCAATTTGTTACAATAATT
39109754 TTTATAAAAAAAACTTAATTAATAAA
66 TTTATAAAAAAAACTTAATTAATAAA
39109780 ATAATTATAATTTTTATGATGGAAATATCAATCACTATTTATAATTTCAATTTGTTACAATAATT
1 ATAATTATAATTTTTATGATGGAAATATCAATCACTATTTATAATTTCAATTTGTTACAATAATT
39109845 TTTATAAAAAAAACTTAATTAATAAA
66 TTTATAAAAAAAACTTAATTAATAAA
39109871 AT
1 AT
39109873 CCGTCAGACA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (91 bp):
ATAATTATAATTTTTATGATGGAAATATCAATCACTATTTATAATTTCAATTTGTTACAATAATT
TTTATAAAAAAAACTTAATTAATAAA
Found at i:39110309 original size:10 final size:11
Alignment explanation
Indices: 39110290--39110319 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39110280 TAGTCCAATT
39110290 TAATTTTTTTA
1 TAATTTTTTTA
*
39110301 TGATTTTTTTA
1 TAATTTTTTTA
39110312 TAATTTTT
1 TAATTTTT
39110320 ATAAGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TAATTTTTTTA
Found at i:39111175 original size:41 final size:40
Alignment explanation
Indices: 39111075--39111183 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 40
39111065 CCGATTTTAC
*
39111075 GAAAACGCTTCCAACTGGAAGCGTTTTTAGCTAATTTGCA
1 GAAAACGCTTCCAACTGGAAGCGCTTTTAGCTAATTTGCA
* * ** * *
39111115 AAAAAGCGATTCCGGCTGGAAGTGCTTTTAGCGT-ATTTGTA
1 GAAAA-CGCTTCCAACTGGAAGCGCTTTTAGC-TAATTTGCA
39111156 GGAAAACGCTTCCAACTGGAAGCGCTTT
1 -GAAAACGCTTCCAACTGGAAGCGCTTT
39111184 CACCACATAA
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
40 4 0.07
41 45 0.83
42 5 0.09
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (40 bp):
GAAAACGCTTCCAACTGGAAGCGCTTTTAGCTAATTTGCA
Found at i:39114228 original size:49 final size:49
Alignment explanation
Indices: 39114106--39114450 Score: 503
Period size: 49 Copynumber: 7.1 Consensus size: 49
39114096 GTACGTAAAA
*
39114106 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATATATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG--AA-A-ATGTAT
*
39114159 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
39114208 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TAT
*
39114259 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
39114308 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTGTAA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
39114347 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
39114396 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
39114445 ATATAT
1 ATATAT
39114451 ATGTGGTAAA
Statistics
Matches: 271, Mismatches: 9, Indels: 28
0.88 0.03 0.09
Matches are distributed among these distances:
39 30 0.11
41 4 0.01
42 4 0.01
46 4 0.01
47 4 0.01
49 135 0.50
50 1 0.00
51 50 0.18
53 39 0.14
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:39114291 original size:100 final size:100
Alignment explanation
Indices: 39114106--39114470 Score: 547
Period size: 100 Copynumber: 3.8 Consensus size: 100
39114096 GTACGTAAAA
*
39114106 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATATATATATATATGTGATA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-ATGTATATATATATGTGATA
*
39114171 AGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
64 AGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
39114208 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
*
39114273 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 GCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
39114308 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTGTA-A-ATATATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
39114361 GCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
66 GCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * * *
39114396 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGGTAAA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
*
39114461 GCCGAATGGC
66 GCCTAATGGC
39114471 TAATGTGAAT
Statistics
Matches: 242, Mismatches: 9, Indels: 26
0.87 0.03 0.09
Matches are distributed among these distances:
88 57 0.24
89 1 0.00
90 20 0.08
91 1 0.00
92 4 0.02
93 3 0.01
95 3 0.01
96 4 0.02
97 1 0.00
98 20 0.08
99 1 0.00
100 84 0.35
101 3 0.01
102 40 0.17
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (100 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:39114330 original size:39 final size:39
Alignment explanation
Indices: 39114286--39114364 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
39114276 TAATGGCCGA
*
39114286 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TGTGATGAATGTGAAAGTGTAAATATATGTGATAAGGCC
39114325 TGTGATGAATGTGAAAGTGTAAATATATGTGATAAGGCC
1 TGTGATGAATGTGAAAGTGTAAATATATGTGATAAGGCC
39114364 T
1 T
39114365 AATGGCCGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (39 bp):
TGTGATGAATGTGAAAGTGTAAATATATGTGATAAGGCC
Found at i:39114359 original size:139 final size:137
Alignment explanation
Indices: 39114187--39114450 Score: 483
Period size: 139 Copynumber: 1.9 Consensus size: 137
39114177 AATGGCCGAC
*
39114187 GTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAA
1 GTGATGAATGTGAAAATGTAAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAA
*
39114252 TGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
66 TG--TATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTG
39114317 ATAAGGCCT
129 ATAAGGCCT
*
39114326 GTGATGAATGTGAAAGTGTAAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAA
1 GTGATGAATGTGAAAATGTAAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAA
39114391 TGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
66 TGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
39114451 ATGTGGTAAA
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
137 57 0.47
139 65 0.53
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (137 bp):
GTGATGAATGTGAAAATGTAAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAA
TGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCT
Found at i:39114368 original size:88 final size:90
Alignment explanation
Indices: 39114235--39114413 Score: 326
Period size: 88 Copynumber: 2.0 Consensus size: 90
39114225 TAATGGCCGA
39114235 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
39114300 AAGTGTATATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
*
39114325 TGTGATGAATGTGAAAGTGTA-A-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
39114388 AAATGTATATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
39114413 T
1 T
39114414 AATGGCCGAC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
88 66 0.76
89 1 0.01
90 20 0.23
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.32
Consensus pattern (90 bp):
TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAATGTATATATATGTGATAAGGCC
Found at i:39114574 original size:37 final size:36
Alignment explanation
Indices: 39114519--39114605 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
39114509 AACTTGGAAA
39114519 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
39114557 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
39114594 TATGTCCGGGTA
1 TATGTCCGGGTA
39114606 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:39119818 original size:64 final size:64
Alignment explanation
Indices: 39119717--39119839 Score: 219
Period size: 64 Copynumber: 1.9 Consensus size: 64
39119707 TCCTGATTGA
* *
39119717 TAGTGATCCTGCATGTGTTGCGGACATACCGTAGCTCTTTGTAAGCGTCCTGTTATATGATCGG
1 TAGTGATCCTGCATGTGTTGCGGACATACCGTAGCTCTTTATAAGCATCCTGTTATATGATCGG
*
39119781 TAGTGATCCTGCATGTGTTGCGGACATACCGTAGCTCTTTATGAGCATCCTGTTATATG
1 TAGTGATCCTGCATGTGTTGCGGACATACCGTAGCTCTTTATAAGCATCCTGTTATATG
39119840 GATCTCTGGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (64 bp):
TAGTGATCCTGCATGTGTTGCGGACATACCGTAGCTCTTTATAAGCATCCTGTTATATGATCGG
Found at i:39122792 original size:47 final size:47
Alignment explanation
Indices: 39122733--39122854 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
39122723 GCATTGGCAC
39122733 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
* *
39122780 TAAGACAAGGATACCATGTAAGACCATGTTTGGAGCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
* * *
39122827 TAAGATAAGGATATCATATAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
39122855 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
Found at i:39122962 original size:55 final size:54
Alignment explanation
Indices: 39122833--39123029 Score: 238
Period size: 54 Copynumber: 3.6 Consensus size: 54
39122823 TTGGTAAGAT
* * * *
39122833 AAGGATATCATATAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
39122887 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* *
39122943 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCTATAAGGC
* *
39122995 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
39123030 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 42 0.34
55 41 0.33
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Done.