Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 80 of 362
Found at i:25172493 original size:46 final size:45
Alignment explanation
Indices: 25172352--25172493 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 45
25172342 CCCGCCCATA
*
25172352 AGTGAACTCGGACTCAACT-AACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
25172400 --CGAACTC-GACTCAACTCAACGAGTTCGG--G-CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
25172442 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
25172489 AGTGA
1 AGTGA
25172494 CATGTCACTT
Statistics
Matches: 77, Mismatches: 5, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 6 0.08
43 1 0.01
44 1 0.01
45 15 0.19
46 42 0.55
47 1 0.01
48 6 0.08
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:25175426 original size:28 final size:28
Alignment explanation
Indices: 25175363--25175460 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
25175353 ATATTAAGTC
*
25175363 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25175390 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
25175418 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
25175447 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25175461 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25179124 original size:93 final size:93
Alignment explanation
Indices: 25179012--25179182 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
25179002 GCCCATAAGT
* *
25179012 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25179077 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
25179105 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25179170 CGAGTTCGGATGC
66 CGAGCTCGGATGC
25179183 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25179179 original size:46 final size:46
Alignment explanation
Indices: 25179004--25179179 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
25178994 TGTAACCCGC
* *
25179004 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25179050 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
25179096 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25179143 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
25179180 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:25183026 original size:92 final size:93
Alignment explanation
Indices: 25182915--25183084 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
25182905 GCCCATAAGT
* *
25182915 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25182980 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
25183008 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25183072 CGAGTTCGGATGC
66 CGAGCTCGGATGC
25183085 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 67 0.92
93 6 0.08
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25183081 original size:46 final size:46
Alignment explanation
Indices: 25182907--25183081 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
25182897 TGTAACCCGC
* *
25182907 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25182953 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
25182999 ACATCTCTCGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25183045 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
25183082 TGCTCAACCA
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 6 0.06
46 88 0.81
47 6 0.06
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:25183100 original size:46 final size:46
Alignment explanation
Indices: 25182912--25183100 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
25182902 CCCGCCCATA
** * *
25182912 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
25182957 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
25183007 --CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
25183050 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
25183096 AGTGA
1 AGTGA
25183101 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 9 0.08
45 7 0.06
46 81 0.71
47 6 0.05
48 4 0.04
49 1 0.01
50 5 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:25183347 original size:13 final size:13
Alignment explanation
Indices: 25183329--25183357 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25183319 TTAAACAACA
25183329 ATTATGTTACTAC
1 ATTATGTTACTAC
25183342 ATTATGTTACTAC
1 ATTATGTTACTAC
25183355 ATT
1 ATT
25183358 TACACATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (13 bp):
ATTATGTTACTAC
Found at i:25185616 original size:37 final size:37
Alignment explanation
Indices: 25185557--25185665 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
25185547 AGCTTAGATG
* * *
25185557 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25185594 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25185631 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25185666 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25185866 original size:48 final size:48
Alignment explanation
Indices: 25185812--25186398 Score: 835
Period size: 48 Copynumber: 12.1 Consensus size: 48
25185802 ACACATCGCC
* *
25185812 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
25185860 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
25185910 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
25185958 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
25186008 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
25186058 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
25186106 TACATATTTCACATTAGCCATTCGGCTTTACTACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
25186154 TACATATTTCACATTAGCCATTCGGCTTTACCAC--ATACATA-AT-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
25186198 TATATATATTCATA-TAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
25186250 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
25186298 TACATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
25186346 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
25186394 TACAT
1 TACAT
25186399 CAATTTCAGC
Statistics
Matches: 492, Mismatches: 31, Indels: 32
0.89 0.06 0.06
Matches are distributed among these distances:
44 25 0.05
45 6 0.01
46 13 0.03
47 1 0.00
48 267 0.54
49 2 0.00
50 135 0.27
51 4 0.01
52 39 0.08
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:25185965 original size:98 final size:98
Alignment explanation
Indices: 25185815--25186391 Score: 843
Period size: 98 Copynumber: 5.9 Consensus size: 98
25185805 CATCGCCTAC
* * *
25185815 ATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
25185880 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
25185913 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
25185977 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
* * * *
25186011 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
*
25186076 CATTCGGCTTTACCACATATACATATCTC--ATAC
64 CATTCGGCTTTACCACATATACATATCTCATATAT
* *
25186109 ATATTTCACATTAGCCATTCGGCTTTACTACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
25186174 TTCGGCTTTACCAC--ATACATA-AT-ATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* * * * *
25186203 ATA-TTCATA-TAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
*
25186266 GCCATTCGGCTTTACCACATATACATATCTC--ATAC
62 GCCATTCGGCTTTACCACATATACATATCTCATATAT
*
25186301 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
25186366 TTCGGCTTTACCACATATACATATCT
66 TTCGGCTTTACCACATATACATATCT
25186392 TATACATCAA
Statistics
Matches: 430, Mismatches: 33, Indels: 34
0.87 0.07 0.07
Matches are distributed among these distances:
92 29 0.07
93 6 0.01
94 13 0.03
96 111 0.26
97 1 0.00
98 188 0.44
99 5 0.01
100 77 0.18
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:25186079 original size:148 final size:146
Alignment explanation
Indices: 25185812--25186398 Score: 877
Period size: 148 Copynumber: 4.0 Consensus size: 146
25185802 ACACATCGCC
* * *
25185812 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
25185877 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTTAC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAG-CCATTCGGCTTTAC
*
25185941 CACATATGCATATCTCA
130 CACATATACATATCTCA
*
25185958 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
* * *
25186023 AACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCGGCTTTA
64 AGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
25186088 CCACATATACATATCTCA
129 CCACATATACATATCTCA
* *
25186106 TACATATTTCACATTAGCCATTCGGCTTTACTACATATGCATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* * * *
25186171 CCATTCGGCTTTACCAC--ATACATA-AT-ATATATATA-TTCATA-TAACCATTCAGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
25186230 ACATATACATATCTCATATA
131 ACATATACATATCTC----A
* * *
25186250 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
25186315 CCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
*
25186378 ACATATACATATCTTA
131 ACATATACATATCTCA
25186394 TACAT
1 TACAT
25186399 CAATTTCAGC
Statistics
Matches: 398, Mismatches: 30, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
140 31 0.08
141 4 0.01
142 9 0.02
143 1 0.00
144 90 0.23
146 90 0.23
147 6 0.02
148 166 0.42
149 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCA
Found at i:25201679 original size:40 final size:40
Alignment explanation
Indices: 25201628--25201768 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
25201618 AATTCGGATA
* *
25201628 TATATATGGCACTTAATGTGTGATTCAAGAA-AGCTTTGGC
1 TATATATGGCACTTAGTGTGTGATT-AAGAATAGCTTCGGC
**
25201668 TATATATGGCACTTAGTGTGTGATTTGGAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGTGATTAAGAATAGCTTCGGC
* * *
25201708 TATATATGGCACTTAGTGTGCGA-GACCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGTGATTA-AGA-ATAGCTTCGGC
* *
25201749 TATGTAAGGCACTTAGTGTG
1 TATATATGGCACTTAGTGTG
25201769 CAAAAGTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.64
41 29 0.33
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGTGATTAAGAATAGCTTCGGC
Found at i:25201783 original size:41 final size:41
Alignment explanation
Indices: 25201696--25201820 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 41
25201686 TGTGATTTGG
* **
25201696 AATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGACCG-A-
1 AATAGCTTCGGCTATGTATGGCACTTAGTGTGC-A-AAAGTAT
* *
25201737 GATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAAAAGTAT
1 AATAGCTTCGGCTATGTATGGCACTTAGTGTGCAAAAGTAT
* **
25201778 AATAGCTTCAGCTATGTATTACAACTTAGTGTGCAAAA-TAT
1 AATAGCTTCGGCTATGTATGGC-ACTTAGTGTGCAAAAGTAT
25201819 AA
1 AA
25201821 AGTATTCGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 52 0.73
42 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (41 bp):
AATAGCTTCGGCTATGTATGGCACTTAGTGTGCAAAAGTAT
Found at i:25204007 original size:44 final size:43
Alignment explanation
Indices: 25203957--25204158 Score: 196
Period size: 44 Copynumber: 4.7 Consensus size: 43
25203947 ATGTGTTATT
*
25203957 GTGTAAGACCACGTCTGGGACATTGGCACCGATTTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATTT-AGATTTAC
* * **
25204001 GTGTAAGACCATGTCTGAGATGTTGGCATCGATTTAAGATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATTT-AGATTTAC
* * * *
25204045 GTGTAAGACCATGTCTAGGACATTGACATCGTATTT-GATTT-T
1 GTGTAAGACCACGTCTGGGACATTGGCATCG-ATTTAGATTTAC
* * *
25204087 GTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTTGA-TTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TTAGATTTAC
* * *
25204130 ATGTAAGACCACGTCTAGGACATTTGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
25204159 TGTATGAGTT
Statistics
Matches: 130, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 29 0.22
43 30 0.23
44 65 0.50
45 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATTTAGATTTAC
Found at i:25210551 original size:25 final size:25
Alignment explanation
Indices: 25210523--25210573 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
25210513 CCCTTATAAT
* *
25210523 GTGAAAATGACCTTTTTACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
25210548 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
25210573 G
1 G
25210574 GTTATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:25210629 original size:10 final size:10
Alignment explanation
Indices: 25210614--25210653 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
25210604 TGCTTTTGTA
25210614 CATGATATGC
1 CATGATATGC
25210624 CATGATATGC
1 CATGATATGC
25210634 ACATGATATGC
1 -CATGATATGC
25210645 CATGATATG
1 CATGATATG
25210654 TTCACATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:25210638 original size:21 final size:21
Alignment explanation
Indices: 25210613--25210653 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
25210603 CTGCTTTTGT
25210613 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
25210634 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
25210654 TTCACATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:25216612 original size:25 final size:25
Alignment explanation
Indices: 25216562--25216612 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
25216552 CCCTTATAAT
* * *
25216562 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
*
25216587 GTGAAAATGACCATTATACCCTTAG
1 GTGAAAATGACCATTATACCCCTAG
25216612 G
1 G
25216613 GTTATGTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:25216668 original size:10 final size:10
Alignment explanation
Indices: 25216653--25216691 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
25216643 TGCTTTTGTA
25216653 CATGATATGC
1 CATGATATGC
25216663 CATGATATGC
1 CATGATATGC
25216673 ACATGATATGC
1 -CATGATATGC
25216684 CATGATAT
1 CATGATAT
25216692 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:25216677 original size:21 final size:21
Alignment explanation
Indices: 25216652--25216691 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
25216642 CTGCTTTTGT
25216652 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
25216673 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
25216692 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:25225681 original size:56 final size:55
Alignment explanation
Indices: 25225619--25225862 Score: 292
Period size: 56 Copynumber: 4.4 Consensus size: 55
25225609 TCCCAGACAG
*
25225619 GGTCTTACTCGCACACATATATCAAAGTCTA-ATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCAAA-TC-ACATATCGATGCCAACGTATTAAACGT
* * * *
25225675 GATCTTACTCACACATATATATCATAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCA-AATCACATATCGATGCCAACGTATTAAACGT
* * *
25225731 GGTCTTACTCGGACATATATATCGAAATCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATC-AAATCACATATCGATGCCAACGTATTAAACGT
* * * * * * *
25225787 GGTCTTAATTGCACAAATATATCGAAGTCACGTATCAATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATC-AAATCACATATCGATGCCAACGTATTAAACGT
*
25225843 GGTCTTACTTGCACACATAT
1 GGTCTTACTCGCACACATAT
25225863 CGATGCCAAT
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
55 1 0.01
56 160 0.98
57 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATATCAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:25225881 original size:41 final size:41
Alignment explanation
Indices: 25225819--25225903 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
25225809 CGAAGTCACG
*
25225819 TATCAATGCCAATGTATTAAACGTGGTCTTACTTGCACACA
1 TATCAATGCCAATGTATTAAACGTGGTCTTACTCGCACACA
*
25225860 TATCGATGCCAATGTATTAAACGTGGTCTTACTCGCACACA
1 TATCAATGCCAATGTATTAAACGTGGTCTTACTCGCACACA
25225901 TAT
1 TAT
25225904 ATTGATACCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (41 bp):
TATCAATGCCAATGTATTAAACGTGGTCTTACTCGCACACA
Found at i:25227061 original size:13 final size:13
Alignment explanation
Indices: 25227043--25227067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25227033 ACAAACGATA
25227043 AAATTTTCACACG
1 AAATTTTCACACG
25227056 AAATTTTCACAC
1 AAATTTTCACAC
25227068 ATACAATATA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:25237483 original size:119 final size:120
Alignment explanation
Indices: 25237301--25237523 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
25237291 TCCTCGTTCA
*
25237301 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
25237366 TTAGTAAC-TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
* * **
25237421 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
25237483 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGA
25237524 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
Found at i:25237523 original size:40 final size:40
Alignment explanation
Indices: 25237299--25237523 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
25237289 GCTCCTCGTT
* *
25237299 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
25237339 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
25237379 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
25237419 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
25237458 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
25237499 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25237524 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:25245404 original size:40 final size:40
Alignment explanation
Indices: 25245182--25245404 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
25245172 GCTTCTCGTT
* *
25245182 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
25245222 CAAATGCCTTTGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
25245262 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
25245302 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
25245341 CAAA--CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
25245380 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25245405 CATTATTCAC
Statistics
Matches: 153, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
36 2 0.01
37 5 0.03
38 13 0.08
39 31 0.20
40 99 0.65
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:25248095 original size:29 final size:30
Alignment explanation
Indices: 25248023--25248096 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
25248013 GATTATAGAA
25248023 ACTCGCACACATAGTTGCCTACAATTAAAG
1 ACTCGCACACATAGTTGCCTACAATTAAAG
* * *
25248053 ACTCGCACCCCATAG-TGCCT-CAATTCCAAT
1 ACTCGCA-CACATAGTTGCCTACAATT-AAAG
*
25248083 TCTCGCACACATAG
1 ACTCGCACACATAG
25248097 CGCTCGATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 11 0.30
30 20 0.54
31 6 0.16
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.23
Consensus pattern (30 bp):
ACTCGCACACATAGTTGCCTACAATTAAAG
Found at i:25248213 original size:36 final size:37
Alignment explanation
Indices: 25248161--25248232 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
25248151 CTTCGAGGTT
*
25248161 TAGCCTGGATATATCACTAGCACGAATGCT-CTCGGGC
1 TAGCCCGGATATATCACTAGCACGAA-GCTCCTCGGGC
25248198 TAGCCCGG-TATATCACTAGCACGAAGCTCCTCGGG
1 TAGCCCGGATATATCACTAGCACGAAGCTCCTCGGG
25248233 ACTTAGCCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 3 0.09
36 23 0.70
37 7 0.21
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (37 bp):
TAGCCCGGATATATCACTAGCACGAAGCTCCTCGGGC
Found at i:25248367 original size:119 final size:117
Alignment explanation
Indices: 25248179--25248523 Score: 348
Period size: 119 Copynumber: 2.9 Consensus size: 117
25248169 ATATATCACT
* * *** * * * *
25248179 AGCACGAATGCTCTCGGGC-TAGCCCGGTATATCACTAGCACGAA-GCTCCTCGGGACTTAGCCG
1 AGCACGAATGCTCTCGGACTTAGACCAACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCA
25248242 GACAT-AACACCA-CACAAATTGCTCTTCGGGACTTTAGCCGCGGACAT-ACACC-
66 GACATAAACACCAGCACAAA-TGCTCTTC-GGAC-TTAGCC-CGGACATAACACCA
* * *
25248294 AGCACGAATGCTCCTTTGGGACTTAG-CCGGACATAACA-CAGCATGAATGCTCTTCGGGACTTA
1 AGCACGAATGCT-C--TCGGACTTAGACC-AACATAACACCAGCACGAATGCTCTTCGGGACTTA
*
25248357 GCCAGACATAAACACCAGCACGAATGCTCTTCGGACTTAGCCCGGACATAACACCA
62 GCCAGACATAAACACCAGCACAAATGCTCTTCGGACTTAGCCCGGACATAACACCA
*
25248413 AGCACGAATGCTCTCGGACTTAGACCAACATAACACCAGCACGAATGCTCTTCGGGAATTTTAAG
1 AGCACGAATGCTCTCGGACTTAGACCAACATAACACCAGCACGAATGCTCTTCGGG-A-CTT-AG
* * *
25248478 CCCGGACAATGAACACCAGCAC-GATGCTCTTCGGGACTTAGCCCGG
63 -CCAGAC-ATAAACACCAGCACAAATGCTCTTC-GGACTTAGCCCGG
25248524 CTATATAACT
Statistics
Matches: 195, Mismatches: 17, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
115 12 0.06
116 18 0.09
117 28 0.14
118 26 0.13
119 49 0.25
120 17 0.09
121 19 0.10
122 26 0.13
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.19
Consensus pattern (117 bp):
AGCACGAATGCTCTCGGACTTAGACCAACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCA
GACATAAACACCAGCACAAATGCTCTTCGGACTTAGCCCGGACATAACACCA
Found at i:25248387 original size:40 final size:40
Alignment explanation
Indices: 25248160--25248523 Score: 382
Period size: 39 Copynumber: 9.2 Consensus size: 40
25248150 CCTTCGAGGT
* * * *
25248160 TTAGCCTGGATATATCACTAGCACGAATGCTC-TCGGG-C
1 TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGAC
* * * *
25248198 -TAGCCCGG-TATATCACTAGCACGAA-GCTCCTCGGGAC
1 TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGAC
*
25248235 TTAG-CCGGACATAACACCA-CACAAATTGCTCTTCGGGAC
1 TTAGCCCGGACATAACACCAGCACGAA-TGCTCTTCGGGAC
*
25248274 TTTAGCCGCGGACAT-ACACCAGCACGAATGCTCCTTTGGGAC
1 -TTAGCC-CGGACATAACACCAGCACGAATGCT-CTTCGGGAC
*
25248316 TTAG-CCGGACATAACA-CAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGAC
*
25248354 TTAG-CCAGACATAAACACCAGCACGAATGCTCTTC-GGAC
1 TTAGCCCGGACAT-AACACCAGCACGAATGCTCTTCGGGAC
25248393 TTAGCCCGGACATAACACCAAGCACGAATGCTC-TC-GGAC
1 TTAGCCCGGACATAACACC-AGCACGAATGCTCTTCGGGAC
* * *
25248432 TTAGACC-AACATAACACCAGCACGAATGCTCTTCGGGAATT
1 TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGG-A-C
25248473 TTAAGCCCGGACAATGAACACCAGCACG-ATGCTCTTCGGGAC
1 TT-AGCCCGGAC-AT-AACACCAGCACGAATGCTCTTCGGGAC
25248515 TTAGCCCGG
1 TTAGCCCGG
25248524 CTATATAACT
Statistics
Matches: 283, Mismatches: 19, Indels: 45
0.82 0.05 0.13
Matches are distributed among these distances:
35 4 0.01
36 22 0.08
37 30 0.11
38 41 0.14
39 62 0.22
40 45 0.16
41 24 0.08
42 26 0.09
43 3 0.01
44 14 0.05
45 12 0.04
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
TTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGAC
Found at i:25248460 original size:77 final size:78
Alignment explanation
Indices: 25248160--25248521 Score: 361
Period size: 81 Copynumber: 4.6 Consensus size: 78
25248150 CCTTCGAGGT
* * * *** * *
25248160 TTAGCCTGGATATATCACTAGCACGAATGCTC-TCGGG-C-TAGCCCGGTATATCACTAGCACGA
1 TTAGCC-GGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCAACATAACACCAGCACGA
*
25248222 A-GCTCCTCGGGAC
65 ATGCTCTTCGGGAC
* *
25248235 TTAGCCGGACATAACACCA-CACAAATTGCTCTTCGGGACTTTAGCCGCGGACAT-ACACCAGCA
1 TTAGCCGGACATAACACCAGCACGAA-TGCTCTTCGGGAC-TTAGCC-C-AACATAACACCAGCA
*
25248298 CGAATGCTCCTTTGGGAC
62 CGAATGCT-CTTCGGGAC
*
25248316 TTAGCCGGACATAACA-CAGCATGAATGCTCTTCGGGACTTAG-CCAGACATAAACACCAGCACG
1 TTAGCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCA-ACAT-AACACCAGCACG
25248379 AATGCTCTTC-GGAC
64 AATGCTCTTCGGGAC
*
25248393 TTAGCCCGGACATAACACCAAGCACGAATGCTC-TC-GGACTTAGACCAACATAACACCAGCACG
1 TTAG-CCGGACATAACACC-AGCACGAATGCTCTTCGGGACTTAGCCCAACATAACACCAGCACG
*
25248456 AATGCTCTTCGGGAATT
64 AATGCTCTTCGGG-A-C
25248473 TTAAGCCCGGACAATGAACACCAGCACG-ATGCTCTTCGGGACTTAGCCC
1 TT-AG-CCGGAC-AT-AACACCAGCACGAATGCTCTTCGGGACTTAGCCC
25248522 GGCTATATAA
Statistics
Matches: 245, Mismatches: 17, Indels: 42
0.81 0.06 0.14
Matches are distributed among these distances:
73 5 0.02
74 15 0.06
75 11 0.04
76 1 0.00
77 35 0.14
78 35 0.14
79 40 0.16
80 35 0.14
81 42 0.17
82 10 0.04
83 16 0.07
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (78 bp):
TTAGCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCAACATAACACCAGCACGAA
TGCTCTTCGGGAC
Found at i:25250303 original size:46 final size:49
Alignment explanation
Indices: 25250098--25250314 Score: 197
Period size: 46 Copynumber: 4.5 Consensus size: 49
25250088 GCTTAAACCA
* *
25250098 ACATA-ACATATC-CATACATAATTCGCATTAGCCATTC-GCTTTTACC
1 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTTACC
* * *
25250144 ACGTATTATATAT-TC-TACATATTTCACACTAAGCCATTCGGCTTTTTACC
1 ACATA-TACATATCTCATACATATTTCACA-TTAGCCATTCGGC-TTTTACC
* * * * *
25250194 AAACGTATACATATCTTATACATACGTTCAACA-CAGCCATTCGGCCTTT---
1 --ACATATACATATCTCATACATA-TTTC-ACATTAGCCATTCGGCTTTTACC
25250243 ACATATACATATCTCATACATATTTCACATTAG-CATTCGGC-TTTA-C
1 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTTACC
25250289 ACATATACATATCTCATACATATTTC
1 ACATATACATATCTCATACATATTTC
25250315 TCTCATACTA
Statistics
Matches: 142, Mismatches: 14, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
44 3 0.02
45 11 0.08
46 35 0.25
47 31 0.22
48 15 0.11
49 2 0.01
50 7 0.05
51 6 0.04
52 9 0.06
53 17 0.12
54 3 0.02
55 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.35
Consensus pattern (49 bp):
ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTTACC
Found at i:25250330 original size:61 final size:65
Alignment explanation
Indices: 25250254--25250379 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 65
25250244 CATATACATA
25250254 TCTCATACATATTTCACATTAG-CA-TTCGGCTTTA-C-ACATATA-CATATCTC-ATACATATT
1 TCTCATACATATTTCACATTAGCCATTTCGGC-TTAGCAACATATAGCATATC-CAATACATATT
25250313 TC
64 TC
25250315 TCTCATAC-TATTTTCACATTAGCCATTTCGGCTTAGCAAACATATAGCATATCCAATACATATT
1 TCTCATACATA-TTTCACATTAGCCATTTCGGCTTAGC-AACATATAGCATATCCAATACATATT
25250379 T
64 T
25250380 TCACATTAGC
Statistics
Matches: 57, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
60 2 0.04
61 19 0.33
62 5 0.09
63 7 0.12
65 8 0.14
66 16 0.28
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (65 bp):
TCTCATACATATTTCACATTAGCCATTTCGGCTTAGCAACATATAGCATATCCAATACATATTTC
Found at i:25259553 original size:40 final size:39
Alignment explanation
Indices: 25259485--25259614 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 39
25259475 CTAAGCGCCG
25259485 CCGAAGGCATTGGTGCGAGTTACT-AATCCGGGTTAATTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAATTC
* *
25259524 CGCGAAGGCATTGTGCGAGTTACTAAATCCAGGTTAAGTC
1 C-CGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAATTC
*
25259564 CC-AAGGCATTGTGGGCGAGTTACTATAA-CCGGGCT-ATGTC
1 CCGAAGGCATTGT--GCGAGTTACTA-AATCCGGGTTAAT-TC
25259604 CCGAAGGCATT
1 CCGAAGGCATT
25259615 TGAACGAGAG
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
38 10 0.13
39 15 0.19
40 44 0.56
41 10 0.13
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAATTC
Found at i:25261290 original size:42 final size:42
Alignment explanation
Indices: 25261208--25261415 Score: 161
Period size: 44 Copynumber: 4.9 Consensus size: 42
25261198 CGAAAAACTC
* * * ***
25261208 ATACAATGCAAATGTCCTAGACGTGGTCTTACATGTAATCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
*
25261250 ATATCAATGCCACTGTCCCAGACA-GGTCTTACACAAAATCAA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
* * * *
25261292 ATACGATGTCAATGTCCTAGACATGGTCTTACACGTAAATCTTAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACAC-AAAATC--AA
* ** * *
25261337 AT-CGATGCCAACATCTCAGACATGGTCTTACACGTAAATCTCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACAC--AAA-ATCAA
** *
25261381 AT-CGGTGCCAATGTCCCAGACGTGGTCTTACACAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACAA
25261416 TAACACATAT
Statistics
Matches: 134, Mismatches: 25, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
41 16 0.12
42 33 0.25
43 21 0.16
44 56 0.42
45 6 0.04
46 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
Found at i:25261358 original size:44 final size:44
Alignment explanation
Indices: 25261265--25261413 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 44
25261255 AATGCCACTG
* * **
25261265 TCCCAGACA-GGTCTTACAC--AAA-ATCAAATACGATGTCAATG
1 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACA
* *
25261306 TCCTAGACATGGTCTTACACGTAAATCTTAAATCGATGCCAACA
1 TCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACA
* * **
25261350 TCTCAGACATGGTCTTACACGTAAATCTCAAATCGGTGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACA
*
25261394 TCCCAGACGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
25261414 AATAACACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
41 8 0.09
42 10 0.11
44 67 0.74
45 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACA
Found at i:25261407 original size:88 final size:84
Alignment explanation
Indices: 25261208--25261413 Score: 220
Period size: 84 Copynumber: 2.4 Consensus size: 84
25261198 CGAAAAACTC
* * * *
25261208 ATACAATGCAAATGTCCTAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGAC
1 ATACGATGCCAATGTCCTAGACGTGGTCTTACACGTAATCAAATATCAATGCCACTATCCCAGAC
25261273 AGGTCTTACACAAAATCAA
66 AGGTCTTACACAAAATCAA
* * * * *
25261292 ATACGATGTCAATGTCCTAGACATGGTCTTACACGTAAATCTTAA-ATCGATGCCAAC-ATCTCA
1 ATACGATGCCAATGTCCTAGACGTGGTCTTACACGT-AATC-AAATATCAATGCC-ACTATCCCA
*
25261355 GACATGGTCTTACACGTAAATCTCAA
63 GACA-GGTCTTACAC--AAA-ATCAA
* *
25261381 AT-CGGTGCCAATGTCCCAGACGTGGTCTTACAC
1 ATACGATGCCAATGTCCTAGACGTGGTCTTACAC
25261414 AATAACACAT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
84 31 0.31
85 20 0.20
86 14 0.14
88 30 0.30
89 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (84 bp):
ATACGATGCCAATGTCCTAGACGTGGTCTTACACGTAATCAAATATCAATGCCACTATCCCAGAC
AGGTCTTACACAAAATCAA
Found at i:25263629 original size:42 final size:42
Alignment explanation
Indices: 25263552--25263672 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 42
25263542 ATACTTTATA
** * *
25263552 TTTTGCACACTAAGTTGTAATACATAGCTGAAGCTATTATAC-T
1 TTTTGCACACTAAG-TGCCATACATAGCCGAAGCTATTAT-CGG
* *
25263595 TTTTGCACACTAAGTGCCTTACATAGCCGAAGCTA-TCTCGG
1 TTTTGCACACTAAGTGCCATACATAGCCGAAGCTATTATCGG
* * *
25263636 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATT
1 TTTTGCACACTAAGTGCCATACATAGCCGAAGCTATT
25263673 CCAAATCACA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
40 1 0.02
41 33 0.50
42 18 0.27
43 14 0.21
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
TTTTGCACACTAAGTGCCATACATAGCCGAAGCTATTATCGG
Found at i:25263662 original size:41 final size:41
Alignment explanation
Indices: 25263600--25263746 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 41
25263590 ATACTTTTTG
* * * ** *
25263600 CACACTAAGTGCCTTACATAGCCGAAGCTATCTCGGTCTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCCGAATCA
*
25263641 CACACTAAGTGCCATATATAGCCGAAGCTAT-TCCAAATCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCCGAATCA
* * *
25263681 CACACTAAGTGCCATATATAGCCAAAGCTTTCT-TGAATCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCCGAATCA
* *
25263721 CACATTAAGTGCCATATATATCCGAA
1 CACACTAAGTGCCATATATAGCCGAA
25263747 TTGTTGTCAA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 61 0.67
41 30 0.33
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCCGAATCA
Found at i:25278383 original size:27 final size:27
Alignment explanation
Indices: 25278353--25278443 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
25278343 ATTACCAAAG
*
25278353 TACCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
25278380 TACCCTTGATTTACAGAAATACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
25278407 TACCTTCGA-TTGT-GAAATTACTATTT
1 TACCCTCGATTTATAG-AATTACTGTTT
25278433 TACCCTCGATT
1 TACCCTCGATT
25278444 GTGAAATTAC
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
25 1 0.02
26 19 0.37
27 31 0.61
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:25278428 original size:26 final size:26
Alignment explanation
Indices: 25278395--25278455 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
25278385 TTGATTTACA
* *
25278395 GAAA-TACTGTTTTACCTTCGATTGT
1 GAAATTACTATTTTACCCTCGATTGT
25278420 GAAATTACTATTTTACCCTCGATTGT
1 GAAATTACTATTTTACCCTCGATTGT
25278446 GAAATTACTA
1 GAAATTACTA
25278456 AAATACCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (26 bp):
GAAATTACTATTTTACCCTCGATTGT
Found at i:25278502 original size:27 final size:27
Alignment explanation
Indices: 25278472--25278588 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 27
25278462 CCCTATAGGG
25278472 TAAAATTACCAAAATACCCCTAGTTTA
1 TAAAATTACCAAAATACCCCTAGTTTA
* * *
25278499 TAAAATTATCAAAATACCACTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTA
* * * * *
25278526 TGAAATTATCGAAATA-CCCTCAATTTG
1 TAAAATTACCAAAATACCCCT-AGTTTA
25278553 TAAAATTACCAAAATACCCCT-GATTTA
1 TAAAATTACCAAAATACCCCTAG-TTTA
*
25278580 CAAAATTAC
1 TAAAATTAC
25278589 AGAAATATTC
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.04
27 67 0.91
28 4 0.05
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTA
Found at i:25278514 original size:54 final size:53
Alignment explanation
Indices: 25278447--25278573 Score: 123
Period size: 54 Copynumber: 2.3 Consensus size: 53
25278437 CTCGATTGTG
*
25278447 AAATTACTAAAATACCCCTA-TAGGGTAAAATTACCAAAATACCC-CTAGTTTATA
1 AAATTAC-AAAATACCCCTAGT-GGGTAAAATTACCAAAATACCCTC-AATTTATA
* ** * * * *
25278501 AAATTATCAAAATACCACTAGTTTGTGAAATTATCGAAATACCCTCAATTTGTA
1 AAATTA-CAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCTCAATTTATA
25278555 AAATTACCAAAATACCCCT
1 AAATTA-CAAAATACCCCT
25278574 GATTTACAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
54 57 0.95
55 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (53 bp):
AAATTACAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCTCAATTTATA
Found at i:25278745 original size:27 final size:26
Alignment explanation
Indices: 25278715--25278806 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 26
25278705 ACCCCTATTA
*
25278715 GGTAAAAAGACCGTACAACCCCTGTAG
1 GGTAAAATGACCGTA-AACCCCTGTAG
* *
25278742 GGTAAAATGATCGTAAAGCCCCAGTAG
1 GGTAAAATGACCGTAAA-CCCCTGTAG
* * *
25278769 GATAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-ACCCCTGTAG
25278796 GGTAAAATGAC
1 GGTAAAATGAC
25278807 GAATATGCCC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.04
27 50 0.94
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGTAAACCCCTGTAG
Found at i:25278750 original size:54 final size:53
Alignment explanation
Indices: 25278678--25278807 Score: 122
Period size: 54 Copynumber: 2.4 Consensus size: 53
25278668 TTACCAAAAC
* * * *
25278678 ACCCTTGTAGGATGAAATGAC-TAAAATACCCCTATTAGG-TAAAAAGACCGTACA-
1 ACCCCTGTAGGGTAAAATGACGT-AAA-ACCCC-AGTAGGATAAAAAGACCGTA-AT
* **
25278732 ACCCCTGTAGGGTAAAATGATCGTAAAGCCCCAGTAGGATAAAGTGACCGTAAT
1 ACCCCTGTAGGGTAAAATGA-CGTAAAACCCCAGTAGGATAAAAAGACCGTAAT
*
25278786 ACCCCTGTATGGTAAAATGACG
1 ACCCCTGTAGGGTAAAATGACG
25278808 AATATGCCCT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
53 8 0.12
54 51 0.80
55 4 0.06
56 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (53 bp):
ACCCCTGTAGGGTAAAATGACGTAAAACCCCAGTAGGATAAAAAGACCGTAAT
Found at i:25279731 original size:25 final size:26
Alignment explanation
Indices: 25279608--25279756 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
25279598 GAGGAAGTGC
* * *
25279608 AAAAGGGCTTATTCCCTAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
25279634 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
25279660 AAAAGGGCTTATGCCCCAATTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
25279686 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
25279712 AAAAGGTCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
25279737 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25279757 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 32 0.29
26 80 0.71
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:25279966 original size:42 final size:42
Alignment explanation
Indices: 25279907--25279989 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
25279897 CCCCAAATAG
* ** *
25279907 GCTTGCATACATTCATTGGTATTTCATATGATATTGAAATGC
1 GCTTGCATACATCCATTGACATTACATATGATATTGAAATGC
*
25279949 GCTTGCATACATCCATTGACATTACATGTGATATTGAAATG
1 GCTTGCATACATCCATTGACATTACATATGATATTGAAATG
25279990 GGCCTGTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (42 bp):
GCTTGCATACATCCATTGACATTACATATGATATTGAAATGC
Found at i:25280051 original size:31 final size:31
Alignment explanation
Indices: 25280016--25280125 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
25280006 CGTTTACAGT
*
25280016 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
25280047 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
25280078 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25280109 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
25280126 AACTATTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:25282410 original size:27 final size:27
Alignment explanation
Indices: 25282366--25282439 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
25282356 TACAGAAATG
* * *
25282366 CCCTCGACTTGTAAAATTACCAAAGTA
1 CCCTCGATTTATAGAATTACCAAAGTA
*****
25282393 CCCTCGATTTATAGAATTACTGTCTTA
1 CCCTCGATTTATAGAATTACCAAAGTA
*
25282420 CCCTTGATTTATAGAATTAC
1 CCCTCGATTTATAGAATTAC
25282440 TGTTTTACCC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCAAAGTA
Found at i:25282470 original size:26 final size:27
Alignment explanation
Indices: 25282391--25282481 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
25282381 ATTACCAAAG
*
25282391 TACCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTTATAGAATTACTGTTT
*
25282418 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
25282445 TACCCTCGATTT-T-GAAATTACCGTTT
1 TACCCTCGATTTATAG-AATTACTGTTT
*
25282471 TACCCTTGATT
1 TACCCTCGATT
25282482 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
25 1 0.02
26 21 0.36
27 36 0.62
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:25282486 original size:26 final size:25
Alignment explanation
Indices: 25282407--25282493 Score: 102
Period size: 26 Copynumber: 3.3 Consensus size: 25
25282397 CGATTTATAG
* *
25282407 AATTACTGTCTTACCCTTGATTTATA
1 AATTACTGTTTTACCCTTGATTT-GA
*
25282433 GAATTACTGTTTTACCCTCGATTTTGA
1 -AATTACTGTTTTACCCTTGA-TTTGA
*
25282460 AATTACCGTTTTACCCTTGATTGTGA
1 AATTACTGTTTTACCCTTGATT-TGA
25282486 AATTACTG
1 AATTACTG
25282494 AAATACCCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
25 2 0.04
26 28 0.54
27 19 0.37
28 3 0.06
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (25 bp):
AATTACTGTTTTACCCTTGATTTGA
Found at i:25282546 original size:27 final size:27
Alignment explanation
Indices: 25282511--25282718 Score: 143
Period size: 27 Copynumber: 7.6 Consensus size: 27
25282501 CATATAGGGT
*
25282511 AAATTACCAAAATGCCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
**
25282538 AAATTACCAAAATACCATTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
25282565 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
**
25282592 AAATTACCAAAATACCCCT-GATTTACA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * *
25282619 AAATTA-CAGAAATACCCTTGACTTTCTAA
1 AAATTACCA-AAATACCCCT-AGTTTGT-A
** ** * **
25282648 AAATTATGAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
** *
25282675 AAATTACTGAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
25282702 GATTTACCAAAACACCC
1 AAATTACCAAAATACCC
25282719 TTGTAGGATG
Statistics
Matches: 140, Mismatches: 33, Indels: 16
0.74 0.17 0.08
Matches are distributed among these distances:
26 4 0.03
27 109 0.78
28 10 0.07
29 16 0.11
30 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:25282552 original size:53 final size:54
Alignment explanation
Indices: 25282480--25282608 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
25282470 TTACCCTTGA
* ** * *
25282480 TTGTGAAATTACTGAAATACCCATATAG-GGT-AAATTACCAAAATGCCC-CTAGT
1 TTGTAAAATTACCAAAATACCCAT-TAGTGGTAAAATTACCAAAATACCCTC-AAT
* *
25282533 TTGTAAAATTACCAAAATA-CCATTAGTTTGTAAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCCATTAG-TGGTAAAATTACCAAAATACCCTCAAT
25282587 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
25282609 CTGATTTACA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
51 3 0.05
52 4 0.06
53 18 0.28
54 36 0.56
55 3 0.05
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCATTAGTGGTAAAATTACCAAAATACCCTCAAT
Found at i:25282593 original size:54 final size:53
Alignment explanation
Indices: 25282532--25282722 Score: 184
Period size: 54 Copynumber: 3.5 Consensus size: 53
25282522 ATGCCCCTAG
** *
25282532 TTTGTAAAATTACCAAAATACCATTAGTTTGTAAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCATT-GTTTACAAAATTACAGAAATACCCTCAA
** * *
25282586 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCATTG-TTTACAAAATTACAGAAATACCC-TCAA
* ** * * *
25282641 TTTCTAAAAATTATGAAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAG
1 TTTGT-AAAATTACCAAAATACCATT-GTTTACAAAATTACAGAAATACCCTCAA
* * * *
25282696 TTTGTAGATTTACCAAAACACCCTTGT
1 TTTGTAAAATTACCAAAATACCATTGT
25282723 AGGATGAAAT
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
53 3 0.03
54 57 0.51
55 12 0.11
56 38 0.34
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAATACCATTGTTTACAAAATTACAGAAATACCCTCAA
Found at i:25282673 original size:56 final size:55
Alignment explanation
Indices: 25282536--25282693 Score: 183
Period size: 56 Copynumber: 2.9 Consensus size: 55
25282526 CCCTAGTTTG
* ** * *
25282536 TAAAATTACCAAAATACCATTAGTTTGTAAAATTACCGAAATACCC-TCAATTTG
1 TAAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTCAATTTC
** * * *
25282590 TAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTC
1 TAAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTCAATTTC
** *
25282645 TAAAAATTATGAAAATACCATTGGTTTACAAAATTACTGAAATACCCTT
1 T-AAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTT
25282694 AGTTTGTAGA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 39 0.45
55 6 0.07
56 41 0.48
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (55 bp):
TAAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTCAATTTC
Found at i:25282782 original size:27 final size:27
Alignment explanation
Indices: 25282739--25282816 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
25282729 AAATGACTAA
* * *
25282739 AATACCCCTATTA-GGTAAAGTGATCGT
1 AATACCCCT-GTAGGGTAAAGTGACCAT
25282766 AA-AGCCCCTGTAGGGTAAAGTGACCAT
1 AATA-CCCCTGTAGGGTAAAGTGACCAT
* *
25282793 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAGTGAC
25282817 GAATATGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAGTGACCAT
Found at i:25283566 original size:16 final size:16
Alignment explanation
Indices: 25283545--25283575 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25283535 CAAATATGGG
*
25283545 CATGACATTTTGCATA
1 CATGACATGTTGCATA
25283561 CATGACATGTTGCAT
1 CATGACATGTTGCAT
25283576 TGGGTTGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:25283638 original size:26 final size:26
Alignment explanation
Indices: 25283609--25283783 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
25283599 GAGGAAGTGC
25283609 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
25283635 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
25283661 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
25283687 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* ***
25283713 AAAAGGGCTTATGCCCCAGATTATTT
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
25283739 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
25283764 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25283784 ATTAAAGAGG
Statistics
Matches: 133, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
25 29 0.22
26 104 0.78
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:25283743 original size:78 final size:77
Alignment explanation
Indices: 25283609--25283783 Score: 289
Period size: 78 Copynumber: 2.3 Consensus size: 77
25283599 GAGGAAGTGC
*
25283609 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGATTATTGAAAAGGGCTT-TG
25283674 CCCCAGTTTACCA
65 CCCCAGTTTACCA
* *
25283687 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGATTATTTAAAAGGGCTTTGC
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGATTATTGAAAAGGGCTTTGC
* *
25283752 CCTAGTTTACCG
66 CCCAGTTTACCA
25283764 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25283784 ATTAAAGAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 10 0.11
77 23 0.25
78 59 0.64
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (77 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGATTATTGAAAAGGGCTTTGC
CCCAGTTTACCA
Found at i:25283993 original size:42 final size:42
Alignment explanation
Indices: 25283928--25284015 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
25283918 TAGTCTCCCC
* * * *
25283928 AAATGGGCTTGCATACATTCATTGATATTTCATATGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
*
25283970 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
25284012 AAAT
1 AAAT
25284016 GGGCCTATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:25284081 original size:31 final size:31
Alignment explanation
Indices: 25284043--25284121 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
25284033 TGTTTACAGT
*
25284043 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
25284074 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
25284105 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
25284122 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:25286167 original size:29 final size:27
Alignment explanation
Indices: 25286149--25286218 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25286139 ATATTAAGTC
25286149 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
25286176 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
25286204 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25286219 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:25286212 original size:28 final size:28
Alignment explanation
Indices: 25286149--25286246 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25286139 ATATTAAGTC
*
25286149 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25286176 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25286204 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25286233 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25286247 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25294314 original size:29 final size:27
Alignment explanation
Indices: 25294296--25294365 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25294286 ATATTAAGTC
25294296 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
25294323 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
25294351 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25294366 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:25294359 original size:28 final size:28
Alignment explanation
Indices: 25294296--25294393 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25294286 ATATTAAGTC
*
25294296 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25294323 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25294351 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25294380 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25294394 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25297964 original size:38 final size:38
Alignment explanation
Indices: 25297921--25298215 Score: 428
Period size: 38 Copynumber: 7.8 Consensus size: 38
25297911 ATCTGGTTAA
25297921 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
* *
25297959 ATCCCGTAGGCTTCGTGCTGGTATTATATCCGTGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
*
25297997 ATCCCACAGGCTTCGTGCTGGTATTATATCCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
* *
25298035 ATCCCGCAGGCTTCATGCTGGTATTATATTCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
* **
25298073 ATCCCGCAGGCTTCGTGCTGGTATTATATCAGGGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
* * * **
25298111 ATCCTGCAGGCTTAGTGCTGGTATTATATCCTGGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
* * **
25298149 ATCCCGCGGGCTTAGTGCTGGTATTATATCCGGGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
*
25298187 ATCCCGCAGGCTTAGTGCTGGTATTATAT
1 ATCCCGCAGGCTTCGTGCTGGTATTATAT
25298216 TCGAGCTTAA
Statistics
Matches: 236, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 236 1.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.36
Consensus pattern (38 bp):
ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTT
Found at i:25300037 original size:27 final size:27
Alignment explanation
Indices: 25300006--25300063 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
25299996 ACAATCATAC
* *
25300006 ATCACATAAGGTCAAAACAGTCATTTT
1 ATCACATAAGGGCAAAACAATCATTTT
* *
25300033 ATCACATAGGGGCATAACAATCATTTT
1 ATCACATAAGGGCAAAACAATCATTTT
25300060 ATCA
1 ATCA
25300064 ATTAGAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (27 bp):
ATCACATAAGGGCAAAACAATCATTTT
Found at i:25300860 original size:20 final size:20
Alignment explanation
Indices: 25300835--25300875 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
25300825 AGCTAGGGTT
25300835 TCAACACTTTGAAGCCTTGA
1 TCAACACTTTGAAGCCTTGA
*
25300855 TCAACACTTTTAAGCCTTGA
1 TCAACACTTTGAAGCCTTGA
25300875 T
1 T
25300876 TGTAAGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (20 bp):
TCAACACTTTGAAGCCTTGA
Found at i:25304949 original size:37 final size:37
Alignment explanation
Indices: 25304891--25305035 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
25304881 GCTCAGACGA
* * * *
25304891 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
25304928 AATCCCCACGCGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25304965 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25305002 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25305036 ATATATTTCC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:25305303 original size:93 final size:93
Alignment explanation
Indices: 25305197--25305612 Score: 414
Period size: 93 Copynumber: 4.3 Consensus size: 93
25305187 CGTACATATC
* * * * * *
25305197 TCACATTAGCCATTTGGCTTTA-C-CACATATCCATCTCATACACGTT-TCGCATTAGCCATTCG
1 TCACATTGGCCATTCGGCCTTATCACACATATCCAT-T--TACACATTATCACATTGGCCATTCG
* * **
25305259 GCCTTACCACATATATTCATGTTCACATTCA
63 GCCTTATCACACATACGCATGTTCACATTCA
* * *
25305290 TCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT-CACATTCATCACATTGGCCATTCGG
1 TCACATTGGCCATTCGGCCTTATCACACATATCCAT-TTACACATT-ATCACATTGGCCATTCGG
25305354 CC-TATCACACATACGCATGTTCACATTCA
64 CCTTATCACACATACGCATGTTCACATTCA
*
25305383 TCACATTGGCCATTCGGCCTTATCACACATA-CGCATGTACACATTCATCACATTGGCCATTCGG
1 TCACATTGGCCATTCGGCCTTATCACACATATC-CATTTACACATT-ATCACATTGGCCATTCGG
*
25305447 CCTTATCACACATACGCATGTACACATTCA
64 CCTTATCACACATACGCATGTTCACATTCA
* **
25305477 TCACATTGGCCATT-GGCCTTATCACGCATATATATATATACAGGTTCACATTCATCACATTGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATCCAT-T-T--A----CACATT-ATCACATTGGC
***
25305541 CATTCGGCCTTATCACACATATATATACGGGTTCACATTCA
57 CATTCGGCCTTATCACACATACGCAT----GTTCACATTCA
25305582 TCACATTGGCCATTCGGCCTTATCACACATA
1 TCACATTGGCCATTCGGCCTTATCACACATA
25305613 CGCATGTTCA
Statistics
Matches: 275, Mismatches: 27, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
92 6 0.02
93 119 0.43
94 58 0.21
95 11 0.04
97 1 0.00
101 41 0.15
105 24 0.09
106 15 0.05
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (93 bp):
TCACATTGGCCATTCGGCCTTATCACACATATCCATTTACACATTATCACATTGGCCATTCGGCC
TTATCACACATACGCATGTTCACATTCA
Found at i:25305308 original size:47 final size:47
Alignment explanation
Indices: 25305246--25305634 Score: 494
Period size: 47 Copynumber: 8.1 Consensus size: 47
25305236 ACACGTTTCG
* * * **
25305246 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
25305293 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25305340 CATTGGCCATTCGGCC-TATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
25305386 CATTGGCCATTCGGCCTTATCACACATACGCATGTACACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
25305433 CATTGGCCATTCGGCCTTATCACACATACGCATGTACACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
25305480 CATTGGCCATT-GGCCTTATCACGCATATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C------ACATACGCATGTTCACATTCATCA
***
25305534 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
25305585 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25305632 CAT
1 CAT
25305635 AAAATCCTAA
Statistics
Matches: 308, Mismatches: 20, Indels: 28
0.87 0.06 0.08
Matches are distributed among these distances:
46 53 0.17
47 169 0.55
48 1 0.00
51 44 0.14
53 1 0.00
54 30 0.10
55 10 0.03
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:25305449 original size:140 final size:142
Alignment explanation
Indices: 25305246--25305634 Score: 505
Period size: 140 Copynumber: 2.7 Consensus size: 142
25305236 ACACGTTTCG
* * * *
25305246 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * * *
25305311 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCC-TATCA-C-ACATACGCATG
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATT-GGCCTTATCACCAACATACACAGG
25305373 TTCACATTCATCA
130 TTCACATTCATCA
** *
25305386 CATTGGCCATTCGGCCTTATCACACATACGCATGTACACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
25305451 ATCACACATACGCATGTACACATTCATCACATTGGCCATTGGCCTTATCACGCATATATATATAT
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTGGCCTTATCAC-C----A-ACATAC
25305516 ACAGGTTCACATTCATCA
125 ACAGGTTCACATTCATCA
*
25305534 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATACAT----GTTCACATTCATCACATTGGCCATTCGG
*
25305599 CCTTATCACACATACGCATGTTCACATCCATCACAT
62 CCTTATCACACATACGCATGTTCACATTCATCACAT
25305635 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
139 4 0.02
140 100 0.46
142 1 0.00
148 50 0.23
152 61 0.28
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGGCCATTGGCCTTATCACCAACATACACAGGT
TCACATTCATCA
Found at i:25305554 original size:101 final size:103
Alignment explanation
Indices: 25305422--25305612 Score: 296
Period size: 101 Copynumber: 1.8 Consensus size: 103
25305412 TACGCATGTA
*
25305422 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT-GTACACATTCATCACATTGG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGGTACACATTCATCACATTGG
*
25305486 CCATT-GGCCTTATCACGCATATATATATATACAGGTT
66 CCATTCGGCCTTATCACACATATATATATATACAGGTT
* * *
25305523 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACAT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT---GGTACACATTCATCACAT
25305588 TGGCCATTCGGCCTTATCACACATA
63 TGGCCATTCGGCCTTATCACACATA
25305613 CGCATGTTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
101 41 0.51
105 24 0.30
106 15 0.19
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (103 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGGTACACATTCATCACATTGG
CCATTCGGCCTTATCACACATATATATATATACAGGTT
Found at i:25305581 original size:51 final size:47
Alignment explanation
Indices: 25305520--25305634 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 47
25305510 ATATATACAG
* *
25305520 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
*
25305567 ACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
1 ----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
*
25305618 GTTCACATCCATCACAT
1 GTTCACATTCATCACAT
25305635 AAAATCCTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
47 16 0.27
51 44 0.73
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (47 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
Found at i:25305678 original size:152 final size:146
Alignment explanation
Indices: 25305374--25305655 Score: 347
Period size: 152 Copynumber: 1.9 Consensus size: 146
25305364 ATACGCATGT
*
25305374 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTACACATTCATCACATTGG
1 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTACACATTCATCACATTGG
* ** * * **
25305439 CCATTCGGCCTTATCACACATACGCATGTACACATTCATCACATTGGCCATTGGCCTTATCACGC
66 CCATTCGGCCTTATCACACATACGCATGTACACATCCATCACATT-GAAAAT-GCCTAATCACAA
**
25305504 ATATATATATATACAGGT
129 ATATATATATATACAGCA
* * *
25305522 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACA
1 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT----GTACACATTCATCACA
*
25305587 TTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACA-T-AAAAT-CCTAAATCA
62 TTGGCCATTCGGCCTTATCACACATACGCATGTACACATCCATCACATTGAAAATGCCT-AATCA
25305649 -AAATATA
126 CAAATATA
25305656 AATTTTCATG
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
147 8 0.07
148 46 0.39
149 2 0.02
151 1 0.01
152 60 0.51
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.29
Consensus pattern (146 bp):
TCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTACACATTCATCACATTGG
CCATTCGGCCTTATCACACATACGCATGTACACATCCATCACATTGAAAATGCCTAATCACAAAT
ATATATATATACAGCA
Found at i:25309430 original size:29 final size:30
Alignment explanation
Indices: 25309396--25309469 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
25309386 TGAAGAACTC
** *
25309396 GCACACACAGTGCCTCAATT-ACCGATTTT
1 GCACACACAGTGCCTCAATTAAAAGAATTT
* **
25309425 GCACACATAGTG-CTCGGTTAAAAGAATTT
1 GCACACACAGTGCCTCAATTAAAAGAATTT
25309454 GCACACACAGTGCCTC
1 GCACACACAGTGCCTC
25309470 TAATCATTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 5 0.14
29 28 0.78
30 3 0.08
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (30 bp):
GCACACACAGTGCCTCAATTAAAAGAATTT
Found at i:25309713 original size:40 final size:40
Alignment explanation
Indices: 25309681--25309911 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
25309671 CCAGCATGAT
* * * *
25309681 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
25309721 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25309761 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25309801 TGCTCCTCGGG-CTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25309840 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25309880 TGCTCCTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
25309912 CTCAATTCTC
Statistics
Matches: 176, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 37 0.21
40 139 0.79
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25309850 original size:79 final size:79
Alignment explanation
Indices: 25309681--25309911 Score: 372
Period size: 79 Copynumber: 2.9 Consensus size: 79
25309671 CCAGCATGAT
* * * * * *
25309681 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTC-GGGCTTAGCCCGGATA
25309746 TATCACTAGCACGAA
65 TATCACTAGCACGAA
* *
25309761 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGCTTAGCCCGGATAT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGCTTAGCCCGGATAT
25309826 ATCACTAGCACGAA
66 ATCACTAGCACGAA
25309840 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGG-CTTAGCCCGGATA
25309905 TATCACT
65 TATCACT
25309912 CTCAATTCTC
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 78 0.56
80 62 0.44
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (79 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGCTTAGCCCGGATAT
ATCACTAGCACGAA
Found at i:25309910 original size:119 final size:120
Alignment explanation
Indices: 25309681--25309911 Score: 383
Period size: 119 Copynumber: 1.9 Consensus size: 120
25309671 CCAGCATGAT
* **
25309681 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCCTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
25309746 TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
25309801 TGCTCCTCGGG-CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCCTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
*
25309865 TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACT
66 TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATACATCACT
25309912 CTCAATTCTC
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 93 0.90
120 10 0.10
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (120 bp):
TGCTCCTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:25311271 original size:37 final size:37
Alignment explanation
Indices: 25311180--25311323 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
25311170 GCTCAGATGA
* * * *
25311180 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25311217 AATC-CCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
25311253 AATCTCCACACGTAGTCATCGGATCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
25311290 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25311324 ATATATTTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
36 32 0.32
37 68 0.68
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:25311274 original size:73 final size:74
Alignment explanation
Indices: 25311180--25311323 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 74
25311170 GCTCAGATGA
* * *
25311180 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAAAATC-CCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGATCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
25311244 CCCGGACAT
66 CCCGGACAT
* *
25311253 AATCTCCACACGTAGTCATCGGATCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGATCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
25311318 CCCGGA
66 CCCGGA
25311324 ATATATTTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 36 0.55
74 29 0.45
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (74 bp):
AATCTCCACACGAAGTCATCGGATCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
CCCGGACAT
Found at i:25311594 original size:47 final size:47
Alignment explanation
Indices: 25311532--25312017 Score: 639
Period size: 47 Copynumber: 10.1 Consensus size: 47
25311522 ACACGTTTCG
* * * **
25311532 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
25311579 CATTGGCCATTCGGCCCTATCTCACATACGCATGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25311626 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
25311673 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
25311720 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
25311773 CATTGGCCATTCGGCCTTATCACACATACGAATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
25311820 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
*
25311870 CATTGGCCATTCGGCCTTATCACACACACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
25311917 CATTAGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
25311968 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
25312015 CAT
1 CAT
25312018 AAAATCCTAA
Statistics
Matches: 387, Mismatches: 39, Indels: 26
0.86 0.09 0.06
Matches are distributed among these distances:
47 257 0.66
49 1 0.00
50 43 0.11
51 44 0.11
53 42 0.11
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:25311799 original size:100 final size:97
Alignment explanation
Indices: 25311532--25312017 Score: 743
Period size: 94 Copynumber: 5.0 Consensus size: 97
25311522 ACACGTTTCG
* *
25311532 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCACATTGGCCATTCGG
* * *
25311593 CCCTATCTCACATACGCATGTTCACATTCATTA
65 CCTTATCACACATACGCATGTTCACATTCATCA
***
25311626 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
*
25311688 CTTATCACACATATGCATGTTCACATTCATCA
66 CTTATCACACATACGCATGTTCACATTCATCA
* *
25311720 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACGTTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATATATATAC-GGTTCACATTCATCACATTGGCCATTC
*
25311785 GGCCTTATCACACATACGAATGTTCACATTCATCA
63 GGCCTTATCACACATACGCATGTTCACATTCATCA
25311820 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
*
25311885 CTTATCACACACACGCATGTTCACATTCATCA
66 CTTATCACACATACGCATGTTCACATTCATCA
*
25311917 CATTAGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCACATTGGCCATTCGG
*
25311982 CCTTATCACACATACGCATGTTCACATCCATCA
65 CCTTATCACACATACGCATGTTCACATTCATCA
25312015 CAT
1 CAT
25312018 AAAATCCTAA
Statistics
Matches: 360, Mismatches: 22, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
94 97 0.27
95 1 0.00
96 13 0.04
97 94 0.26
98 75 0.21
100 80 0.22
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (97 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATACGCATGTTCACATTCATCA
Found at i:25312057 original size:244 final size:237
Alignment explanation
Indices: 25311563--25312019 Score: 594
Period size: 244 Copynumber: 1.9 Consensus size: 237
25311553 ACATATATTC
* * *
25311563 ATGTTCACATTCATCACATTGGCCATTCGGCCCTATCTCACATACGCATGTTCACATTCATTACA
1 ATGTTCACATTCATCACATTGGCCATTCGGCCCTATCACACATACACATGTTCACATTCATCACA
* *
25311628 TTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
66 TTGGCCATTCGGCCTTATCACACACACGCATGTTCACATTCATCACATTAGCCATTCGGCCTTAT
* * *
25311693 CACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACA
131 CACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-C--A-ACATACACA
* * ** * ****
25311758 GGTTCACGTTCATCACATTGGCCATTCGGCCTTATCACACATACGA
192 GGTTCACATCCATCACATAAGCCAATCGAAAATATCACACATACGA
* * *
25311804 ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATC
1 ATGTTCACATTCATCACATTGGCCATTCGGCCCTATCACACATACACAT---GTTCACATTCATC
25311869 ACATTGGCCATTCGGCCTTATCACACACACGCATGTTCACATTCATCACATTAGCCATTCGGCCT
63 ACATTGGCCATTCGGCCTTATCACACACACGCATGTTCACATTCATCACATTAGCCATTCGGCCT
*
25311934 TATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCA-C-ACATAC
128 TATCACACATATACAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCAACATAC
* *
25311997 GCATGTTCACATCCATCACATAA
189 ACAGGTTCACATCCATCACATAA
25312020 AATCCTAAAT
Statistics
Matches: 191, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
241 44 0.23
242 21 0.11
244 89 0.47
246 1 0.01
248 36 0.19
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (237 bp):
ATGTTCACATTCATCACATTGGCCATTCGGCCCTATCACACATACACATGTTCACATTCATCACA
TTGGCCATTCGGCCTTATCACACACACGCATGTTCACATTCATCACATTAGCCATTCGGCCTTAT
CACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACCAACATACACAGGTT
CACATCCATCACATAAGCCAATCGAAAATATCACACATACGA
Found at i:25319137 original size:28 final size:28
Alignment explanation
Indices: 25319095--25319197 Score: 107
Period size: 28 Copynumber: 3.7 Consensus size: 28
25319085 TGGCCCCTTT
* * *
25319095 AGGCCCAATCTCATTCATATGGTCCATC
1 AGGCACAATCACATTCATATGGCCCATC
* * *
25319123 GGGTACAATCACATTCATATGGCCCATT
1 AGGCACAATCACATTCATATGGCCCATC
* * *
25319151 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCACAATCACATTCATATGGCCCATC
* *
25319179 AGGCCCAATAACATTCATA
1 AGGCACAATCACATTCATA
25319198 GTCATGCAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
AGGCACAATCACATTCATATGGCCCATC
Found at i:25319193 original size:56 final size:57
Alignment explanation
Indices: 25319078--25319197 Score: 143
Period size: 56 Copynumber: 2.1 Consensus size: 57
25319068 ATCCATACTT
* * * * * * *
25319078 ATTCATTTGGCCCCTTTAGGCCCAATCTCATTCATATGGTCCATCGGGTACAATCAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCACAATAAC
* * *
25319135 ATTCATATGG-CCCATTAGGCCCAATCACTTTCATATGGCCCGTCAGGCCCAATAAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCACAATAAC
25319191 ATTCATA
1 ATTCATA
25319198 GTCATGCAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
56 44 0.83
57 9 0.17
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (57 bp):
ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCACAATAAC
Found at i:25324920 original size:46 final size:44
Alignment explanation
Indices: 25324816--25325037 Score: 176
Period size: 46 Copynumber: 4.8 Consensus size: 44
25324806 ATGAGATTTG
* *
25324816 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
* * * * *
25324862 CGAGGGCTAGTGTAAGACATGTTTGGGACAAGCATCGGCCTCGAGA
1 --TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
* * *
25324908 TGTTAGCCAGTGTCAGACATGTCTGGGACATGCGTC-GACTACGAGA
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA
* * * * *
25324954 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGGTTACA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCG--AGA
* * * *
25325000 TGTGTCAATGTAAGACCTGTCTGGGACACGGCATCGGC
1 TGTGCCAGTGTAAGACATGTCTGGGACA-TGCATCGGC
25325038 ACAGATGGAC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
44 30 0.22
45 6 0.04
46 72 0.52
47 19 0.14
48 12 0.09
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
Found at i:25331620 original size:15 final size:15
Alignment explanation
Indices: 25331600--25331638 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
25331590 CGCAGCCTCT
25331600 TGTACCTCTTCCACG
1 TGTACCTCTTCCACG
25331615 TGTACCTCTTCCACG
1 TGTACCTCTTCCACG
*
25331630 AGTACCTCT
1 TGTACCTCT
25331639 GGTGCTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.38, G:0.13, T:0.33
Consensus pattern (15 bp):
TGTACCTCTTCCACG
Found at i:25333039 original size:27 final size:27
Alignment explanation
Indices: 25333009--25333060 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
25332999 ATTATACATT
25333009 ACATAAAGGCAAAACAATCATTTTAAC
1 ACATAAAGGCAAAACAATCATTTTAAC
** * *
25333036 ACATATGGGCATAACAGTCATTTTA
1 ACATAAAGGCAAAACAATCATTTTA
25333061 TCAATTAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (27 bp):
ACATAAAGGCAAAACAATCATTTTAAC
Found at i:25345958 original size:13 final size:13
Alignment explanation
Indices: 25345940--25345966 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25345930 GCTCGACAGG
25345940 GACACGCCCGTGT
1 GACACGCCCGTGT
25345953 GACACGCCCGTGT
1 GACACGCCCGTGT
25345966 G
1 G
25345967 CTATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:25353478 original size:19 final size:19
Alignment explanation
Indices: 25353454--25353490 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25353444 TTGGGATTGG
25353454 AATGACTTACTCATTGGCA
1 AATGACTTACTCATTGGCA
*
25353473 AATGACTTACTCCTTGGC
1 AATGACTTACTCATTGGC
25353491 CTCTTTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (19 bp):
AATGACTTACTCATTGGCA
Found at i:25358851 original size:47 final size:47
Alignment explanation
Indices: 25358797--25358926 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
25358787 ACAATCGATA
* * *
25358797 AGTACCTATACCATGCCCCATAGCCAAATCAAGGTAACTTATCCCAG
1 AGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCCCAG
* * * *
25358844 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCCCAG
*
25358891 AATACCTATACCATGACCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGACCCGTAGCCAAATCAAGGTA
25358927 TTATGCGTAC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.22
Consensus pattern (47 bp):
AGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCCCAG
Found at i:25373602 original size:43 final size:43
Alignment explanation
Indices: 25373554--25373652 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
25373544 CGGACGTGGC
* **
25373554 CTTACATGTAATTCAG-TATCGATGCCTCTATCCCAGACAGGGT
1 CTTACATGTAAATCAGATA-CGATGCCAATATCCCAGACAGGGT
* * *
25373597 CTTACATG-AAATCAGATACGATGTCAATGTCCCAGACATGGT
1 CTTACATGTAAATCAGATACGATGCCAATATCCCAGACAGGGT
*
25373639 CTTATATGTAAATC
1 CTTACATGTAAATC
25373653 TCCATCGAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.68
43 15 0.32
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (43 bp):
CTTACATGTAAATCAGATACGATGCCAATATCCCAGACAGGGT
Found at i:25383285 original size:27 final size:27
Alignment explanation
Indices: 25383231--25383285 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
25383221 TGTCATGTGA
* * *
25383231 AATTGAATGGCAAATTATTGTTATATG
1 AATTGAATGGCAAATTACTATTACATG
**
25383258 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
25383285 A
1 A
25383286 GTTGTATGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:25383613 original size:49 final size:49
Alignment explanation
Indices: 25383534--25383778 Score: 294
Period size: 49 Copynumber: 4.9 Consensus size: 49
25383524 TCTATTGTAA
*
25383534 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
25383583 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA--TT
* * * ***
25383634 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTATCAGACGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACCAGATAATT
* * *
25383683 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * **
25383733 GGTCACATGTGTAGTACAAAGTGTAGGCTACTATGCATACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
25383779 GCCTTGGCTA
Statistics
Matches: 164, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 84 0.51
50 41 0.25
51 38 0.23
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:25383724 original size:101 final size:98
Alignment explanation
Indices: 25383536--25383776 Score: 304
Period size: 101 Copynumber: 2.4 Consensus size: 98
25383526 TATTGTAAGG
* *
25383536 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACAATTGGTCACATGTGTAGTACT
* *
25383601 AAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA--TTGA
* ** *
25383636 TCACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTATCAGACGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACCAGACAATT-GGTCACATGTGTAGTA
* *
25383700 CTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
64 CTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * * **
25383735 TCACATGTGTAGTACAAAGTGTAGGCTACTATGCATACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
25383777 TAGCCTTGGC
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 1 0.01
99 37 0.30
100 41 0.34
101 43 0.35
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:25383808 original size:150 final size:150
Alignment explanation
Indices: 25383533--25383809 Score: 396
Period size: 150 Copynumber: 1.8 Consensus size: 150
25383523 ATCTATTGTA
* *
25383533 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGT
* * * * * * *
25383598 ACTAAGTGCAGGCTACTATGCGTACCTGATAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACAAAGTGCAGGCTACTATGCATACCAGATAACTTGGATCAAGTGTGTAGAAATAAGTGCAGGCT
25383663 ACTACTTGTATCAGACGGTT
131 ACTACTTGTATCAGACGGTT
*
25383683 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGT
* * * *
25383748 ACAAAGTGTAGGCTACTATGCATACCAGATAGCCTTGGCTACAAGTGTG-A-AAATATGTGCAG
66 ACAAAGTGCAGGCTACTATGCATACCAGATA-ACTTGGAT-CAAGTGTGTAGAAATAAGTGCAG
25383810 ACAACTAAGT
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 98 0.88
151 6 0.05
152 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGT
ACAAAGTGCAGGCTACTATGCATACCAGATAACTTGGATCAAGTGTGTAGAAATAAGTGCAGGCT
ACTACTTGTATCAGACGGTT
Found at i:25386921 original size:15 final size:15
Alignment explanation
Indices: 25386903--25386951 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
25386893 CTTGGGTTTT
25386903 TTTATTTTGGATTTC
1 TTTATTTTGGATTTC
* *
25386918 TTTATTCTGGGTTTC
1 TTTATTTTGGATTTC
* *
25386933 TCTATCTTGGATTTC
1 TTTATTTTGGATTTC
25386948 TTTA
1 TTTA
25386952 CTCGGTTTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.61
Consensus pattern (15 bp):
TTTATTTTGGATTTC
Found at i:25386929 original size:30 final size:30
Alignment explanation
Indices: 25386895--25386951 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
25386885 TATTGTATCT
* * *
25386895 TGGGTTTTTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
25386925 TGGGTTTCTCTATCTTGGATTTCTTTA
1 TGGGTTTCTCTATCTTGGATTTCTTTA
25386952 CTCGGTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.11, C:0.11, G:0.18, T:0.61
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:25387968 original size:31 final size:31
Alignment explanation
Indices: 25387923--25387982 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
25387913 TAAATGTCTG
* * *
25387923 ACAAGTTCTGTAAATCATATCGGTATTCCTA
1 ACAAGATCTATAAATCATACCGGTATTCCTA
25387954 ACAAGATCTATAAATCATACCGGTATTCC
1 ACAAGATCTATAAATCATACCGGTATTCC
25387983 ATAAATTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.32
Consensus pattern (31 bp):
ACAAGATCTATAAATCATACCGGTATTCCTA
Found at i:25388876 original size:27 final size:27
Alignment explanation
Indices: 25388835--25388888 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
25388825 TGTCAGGTGA
* *
25388835 AATTGAATGGAAAATTATTGTTACATG
1 AATTGAATGGAAAATTACTATTACATG
**
25388862 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGAAAATTACTATTACATG
25388889 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGAAAATTACTATTACATG
Found at i:25389311 original size:50 final size:49
Alignment explanation
Indices: 25389138--25389369 Score: 207
Period size: 49 Copynumber: 4.7 Consensus size: 49
25389128 TCTATTGTGA
* * * * *
25389138 GGTCACGTGTGTAGTACTAAGTGTAGGCTATTACGTGTACC-GAAAAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAG-ATAATT
* * * * * * *
25389187 GGTCGCATGTGTAGTACTAAGTGTAGGCTATTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATAA-TT
* * * **
25389237 CGATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTAT-CAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGT-TCCAGATAATT
** * *
25389287 AGGTCATGTGTGTAGTCCTAAGTGCAGGCTACTACGTGTTCCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATAATT
*
25389337 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
25389370 TGCGTGCCAG
Statistics
Matches: 149, Mismatches: 29, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
49 70 0.47
50 45 0.30
51 34 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATAATT
Found at i:25391304 original size:42 final size:43
Alignment explanation
Indices: 25391227--25391363 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
25391217 TCTCGGACGT
* ** *
25391227 GGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCTAGACAG
1 GGTCTTACATGTAAATCAGTATCGATGCCGATGTCCCAGACAG
*
25391270 GGTCTTACATG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAAATCAG-TATCGATGCCGATGTCCCAGACAG
* * *** * * *
25391312 GGTCTTATACGTAAATCTCAATTGAGGCCTG-TGTCCCAGACAC
1 GGTCTTACATGTAAATCAGTATCGATGCC-GATGTCCCAGACAG
25391355 GGTCTTACA
1 GGTCTTACA
25391364 CAATATCTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 33 0.43
43 43 0.56
44 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGTATCGATGCCGATGTCCCAGACAG
Found at i:25398779 original size:19 final size:19
Alignment explanation
Indices: 25398716--25398802 Score: 77
Period size: 19 Copynumber: 4.5 Consensus size: 19
25398706 AATTTCTTTC
**
25398716 TAAAAATTATTGAAAAACAA
1 TAAAAATTATT-AAAAATTA
* *
25398736 TAAAAAGTTATTAAATATCA
1 TAAAAA-TTATTAAAAATTA
*
25398756 T-AAAATTTTTAAAAATTA
1 TAAAAATTATTAAAAATTA
* *
25398774 TAAAAACTATTAAATATTA
1 TAAAAATTATTAAAAATTA
25398793 TAAAATATTA
1 TAAAA-ATTA
25398803 CTAATATGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
18 11 0.20
19 23 0.43
20 15 0.28
21 5 0.09
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAAATTATTAAAAATTA
Found at i:25398843 original size:29 final size:28
Alignment explanation
Indices: 25398747--25398854 Score: 71
Period size: 29 Copynumber: 3.7 Consensus size: 28
25398737 AAAAAGTTAT
*
25398747 TAAATATCATAAAATTTTTAAAA-ATTATAA
1 TAAATATTATAAAA--TTTAAAATATTA-AA
* *
25398777 -AAACTATTA-AATATTATAAAATATT-AC
1 TAAA-TATTATAAAATT-TAAAATATTAAA
*
25398804 TAATATGTTATAAAATTTGAAAATATTAAA
1 TAA-ATATTATAAAATTT-AAAATATTAAA
*
25398834 TAAATATTATCAAAAATTAAA
1 TAAATATTAT-AAAATTTAAA
25398855 TAATAAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
27 3 0.05
28 12 0.20
29 32 0.52
30 14 0.23
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (28 bp):
TAAATATTATAAAATTTAAAATATTAAA
Found at i:25399366 original size:8 final size:9
Alignment explanation
Indices: 25399346--25399370 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25399336 ATTGTTGTGC
25399346 TTTTATAAT
1 TTTTATAAT
25399355 TTTTATAAT
1 TTTTATAAT
25399364 TTTTATA
1 TTTTATA
25399371 TAATCCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:25403012 original size:27 final size:27
Alignment explanation
Indices: 25402981--25403157 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
25402971 TAAATTGTAC
*
25402981 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25403008 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
25403034 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
25403062 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25403089 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25403116 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
25403143 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25403158 GACTAATATA
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:25403042 original size:54 final size:55
Alignment explanation
Indices: 25402981--25403157 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
25402971 TAAATTGTAC
* **
25402981 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
25403036 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
25403089 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
25403143 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25403158 GACTAATATA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:25403121 original size:81 final size:81
Alignment explanation
Indices: 25402982--25403136 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
25402972 AAATTGTACA
* * *
25402982 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
25403047 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
25403063 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
*
25403127 TGCGAGTTGA
65 TGCGAATTGA
25403137 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25403148 original size:81 final size:81
Alignment explanation
Indices: 25402978--25403157 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
25402968 GATTAAATTG
* * *
25402978 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25403043 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25403059 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
25403123 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
25403140 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25403158 GACTAATATA
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25411023 original size:27 final size:27
Alignment explanation
Indices: 25410992--25411169 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
25410982 TAAATTGTAC
*
25410992 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25411019 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
25411045 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
25411073 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
25411100 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
25411128 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
25411155 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25411170 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:25411053 original size:54 final size:55
Alignment explanation
Indices: 25410992--25411169 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
25410982 TAAATTGTAC
* **
25410992 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
25411047 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
25411100 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
25411155 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25411170 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:25413160 original size:24 final size:24
Alignment explanation
Indices: 25413132--25413179 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
25413122 TAAATTGAAT
25413132 AGAGTGATAATTAAATAAGTTAAA
1 AGAGTGATAATTAAATAAGTTAAA
25413156 AGAGTGATAATTAAATAAGTTAAA
1 AGAGTGATAATTAAATAAGTTAAA
25413180 TTTGATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (24 bp):
AGAGTGATAATTAAATAAGTTAAA
Found at i:25421052 original size:40 final size:40
Alignment explanation
Indices: 25420975--25421192 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
25420965 AAACCAAGTA
* * *
25420975 CCTTCGGGATTTAG-CTGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
25421014 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25421054 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25421094 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
25421134 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
25421174 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25421193 TTATCATCCG
Statistics
Matches: 165, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 147 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25424591 original size:49 final size:50
Alignment explanation
Indices: 25424501--25424746 Score: 237
Period size: 49 Copynumber: 4.9 Consensus size: 50
25424491 ATCTATTGTG
* * *
25424501 AGGTCACGTGTGCAGTACTTAGTGCAGGCTACTATGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
25424551 -GGTCGCATGTGTAGTACTAAGCGCAGGCTGCTATGCGTACCCA-ATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAA-TT
* * * * * * * **
25424601 CGATCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * * *
25424651 AGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGACAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
25424701 -GGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
25424747 GCCTTGTCTG
Statistics
Matches: 156, Mismatches: 36, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
49 74 0.47
50 49 0.31
51 33 0.21
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:25429334 original size:54 final size:54
Alignment explanation
Indices: 25429252--25429365 Score: 228
Period size: 54 Copynumber: 2.1 Consensus size: 54
25429242 TAGATCAAGG
25429252 AAATTGAGATTTGGGCTTAAATCGGGAAAATACAAGGTTATGGACTAGAATGGT
1 AAATTGAGATTTGGGCTTAAATCGGGAAAATACAAGGTTATGGACTAGAATGGT
25429306 AAATTGAGATTTGGGCTTAAATCGGGAAAATACAAGGTTATGGACTAGAATGGT
1 AAATTGAGATTTGGGCTTAAATCGGGAAAATACAAGGTTATGGACTAGAATGGT
25429360 AAATTG
1 AAATTG
25429366 TCATTTCTGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (54 bp):
AAATTGAGATTTGGGCTTAAATCGGGAAAATACAAGGTTATGGACTAGAATGGT
Found at i:25429782 original size:101 final size:98
Alignment explanation
Indices: 25429588--25429815 Score: 287
Period size: 101 Copynumber: 2.3 Consensus size: 98
25429578 TATTGTGAGG
* **
25429588 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGAATAATTGGTAACATGTGTAGTACT
25429653 AAGTGCAGGCTACTATGCGTACCCGATAACTTTGA
66 AAGTGCAGGCTACTATGCGTACCCGATAA--TTGA
* * **
25429688 TCACGTGTGTAGTACTAAGTGTAGGCTACCACGTGTA-TGAGATGGTTAGGTAACATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGA-ATAATT-GGTAACATGTGTAGTA
* * * *
25429752 CTAAGTGTAGGCTACTATGTGTACCGGATAATTGG
64 CTAAGTGCAGGCTACTATGCGTACCCGATAATTGA
* **
25429787 TCGCAAGTGTAGTACTAAGTGCAGGCTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTAC
25429816 TATGCGTACC
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 30 0.27
100 39 0.35
101 42 0.38
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGAATAATTGGTAACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAATTGA
Found at i:25429818 original size:49 final size:49
Alignment explanation
Indices: 25429586--25429830 Score: 267
Period size: 49 Copynumber: 4.9 Consensus size: 49
25429576 TCTATTGTGA
* * *
25429586 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
25429635 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA--TT
* * * * * * **
25429686 GATCACGTGTGTAGTACTAAGTGTAGGCTACCACGTGTA-TGAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCG-GATAATT
* *
25429735 AGGTAACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * *
25429785 GGTCGCAAGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
25429831 GCCTTGTCTA
Statistics
Matches: 160, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 83 0.52
50 39 0.24
51 38 0.24
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:25432295 original size:27 final size:27
Alignment explanation
Indices: 25432247--25432446 Score: 242
Period size: 27 Copynumber: 7.5 Consensus size: 27
25432237 AGAGCGTGTG
* *
25432247 GGGTAGAATTATCGTAATACCCCTGTA
1 GGGTAGAATTACCGAAATACCCCTGTA
*
25432274 GGGTAGAATTACCGAAA-AACCCTGTA
1 GGGTAGAATTACCGAAATACCCCTGTA
* **
25432300 GAGTAGAATTACTAAAATACCCCTGTA
1 GGGTAGAATTACCGAAATACCCCTGTA
*
25432327 GGGTAGAATTACCTAAATACCCCTGTA
1 GGGTAGAATTACCGAAATACCCCTGTA
* *
25432354 GGGTAGAATTTCTGAAATACCCCTGTA
1 GGGTAGAATTACCGAAATACCCCTGTA
* **
25432381 GAGTAGAATTACTAAAATACCCCTGTA
1 GGGTAGAATTACCGAAATACCCCTGTA
* * * *
25432408 GGGTGGAATTACCGAGATA-CCTTGTG
1 GGGTAGAATTACCGAAATACCCCTGTA
25432434 GGGTAGAATTACC
1 GGGTAGAATTACC
25432447 ATTTTGCCCT
Statistics
Matches: 148, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
26 39 0.26
27 109 0.74
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GGGTAGAATTACCGAAATACCCCTGTA
Done.