Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 63 of 410
Found at i:17335946 original size:51 final size:52
Alignment explanation
Indices: 17335848--17335956 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
17335838 TGATACAAAT
17335848 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
* * *
17335900 TGATAATGGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
17335951 TGATAA
1 TGATAA
17335957 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 32 0.59
52 22 0.41
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:17337463 original size:26 final size:26
Alignment explanation
Indices: 17337434--17337486 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
17337424 TTTACAGTTT
17337434 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
17337460 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
17337486 T
1 T
17337487 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:17338944 original size:15 final size:15
Alignment explanation
Indices: 17338926--17338959 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17338916 TTAGTTTATG
*
17338926 TTTTCATTGTTTTCT
1 TTTTCATTCTTTTCT
*
17338941 TTTTTATTCTTTTCT
1 TTTTCATTCTTTTCT
17338956 TTTT
1 TTTT
17338960 GTTGTACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCATTCTTTTCT
Found at i:17345338 original size:39 final size:39
Alignment explanation
Indices: 17345294--17345380 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
17345284 CACTCCTCCA
** * *
17345294 CCTTCAACTTCACCACCACCTACAACTTCCGCACCGCCT
1 CCTTCAACAACACCACCACCTACAACTTCAGCACCACCT
* *
17345333 CCTTCAACAACCCCTCCACCTACAACTTCAGCACCACCT
1 CCTTCAACAACACCACCACCTACAACTTCAGCACCACCT
17345372 CCTTCAACA
1 CCTTCAACA
17345381 GCAACGCCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.51, G:0.03, T:0.20
Consensus pattern (39 bp):
CCTTCAACAACACCACCACCTACAACTTCAGCACCACCT
Found at i:17349074 original size:30 final size:30
Alignment explanation
Indices: 17349040--17349108 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
17349030 GAGTATGGTC
17349040 GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
1 GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
17349070 GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
1 GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
17349100 GTGTGGGCC
1 GTGTGGGCC
17349109 CACACAGGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.20
Consensus pattern (30 bp):
GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
Found at i:17349673 original size:6 final size:6
Alignment explanation
Indices: 17349659--17349695 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
17349649 AAATGACTTA
*
17349659 AATCTG AATCCG AATCTG AATCTG AATCTG AATCTG A
1 AATCTG AATCTG AATCTG AATCTG AATCTG AATCTG A
17349696 CTGTGTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (6 bp):
AATCTG
Found at i:17365401 original size:33 final size:34
Alignment explanation
Indices: 17365364--17365473 Score: 88
Period size: 33 Copynumber: 3.3 Consensus size: 34
17365354 ACTGCAATAC
*
17365364 AACACTTCTCCAGGCCCGTATCCACCACAGTA-T
1 AACACTCCTCCAGGCCCGTATCCACCACAGTACT
* **
17365397 AACACTGCC-CCTGAG-CCGTATCCACTGCAGTACT
1 AACACT-CCTCCAG-GCCCGTATCCACCACAGTACT
* *
17365431 --CTACTCCTCCCGGCCCGTATCCACCACAGCACT
1 AAC-ACTCCTCCAGGCCCGTATCCACCACAGTACT
*
17365464 -CCACTCCTCC
1 AACACTCCTCC
17365474 TAGGTTGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
32 4 0.06
33 54 0.87
34 4 0.06
ACGTcount: A:0.22, C:0.45, G:0.13, T:0.20
Consensus pattern (34 bp):
AACACTCCTCCAGGCCCGTATCCACCACAGTACT
Found at i:17369928 original size:27 final size:27
Alignment explanation
Indices: 17369890--17369971 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
17369880 CGTATCTAAT
17369890 AGAGGCTTCACCAGTGCCACCTCTGCC
1 AGAGGCTTCACCAGTGCCACCTCTGCC
17369917 AGAGGCTTCACCAGTGCCACCTCTGCC
1 AGAGGCTTCACCAGTGCCACCTCTGCC
**
17369944 AGAGGCTTCACCAGTGCTGCCTCTGCC
1 AGAGGCTTCACCAGTGCCACCTCTGCC
17369971 A
1 A
17369972 CATCCTCTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.18, C:0.39, G:0.23, T:0.20
Consensus pattern (27 bp):
AGAGGCTTCACCAGTGCCACCTCTGCC
Found at i:17370017 original size:24 final size:24
Alignment explanation
Indices: 17369981--17370040 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
17369971 ACATCCTCTC
* *
17369981 TTTTTGTCGTTTTTTAACAGTAGA
1 TTTTTTTCTTTTTTTAACAGTAGA
17370005 TTTTTTTCTTTTTTTAACAGTAGA
1 TTTTTTTCTTTTTTTAACAGTAGA
*
17370029 TTTTGTT-TTTTT
1 TTTTTTTCTTTTT
17370041 GAACAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.65
Consensus pattern (24 bp):
TTTTTTTCTTTTTTTAACAGTAGA
Found at i:17372747 original size:40 final size:40
Alignment explanation
Indices: 17372662--17372812 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
17372652 AATTGAATGA
* * *
17372662 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
17372702 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
17372743 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
17372782 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17372813 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:17372826 original size:40 final size:40
Alignment explanation
Indices: 17372699--17372828 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
17372689 ATGCTGGAAA
* * * *
17372699 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
17372739 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
17372779 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
17372819 TTATATCCGG
1 TTATATCCGG
17372829 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:17380721 original size:40 final size:40
Alignment explanation
Indices: 17380655--17380805 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
17380645 AAATTGAATG
* * *
17380655 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
17380694 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
17380734 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
17380774 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
17380806 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:17380819 original size:40 final size:40
Alignment explanation
Indices: 17380692--17380821 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
17380682 ATGCTGGAAA
* * * *
17380692 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
17380732 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
17380772 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
17380812 TTATATCCGG
1 TTATATCCGG
17380822 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:17385980 original size:47 final size:46
Alignment explanation
Indices: 17385905--17386118 Score: 174
Period size: 47 Copynumber: 4.6 Consensus size: 46
17385895 GATTTCTTGT
*
17385905 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCACATTAG-GA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCACA-GAGAGA
* *
17385951 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGGCACAGAGA-GA
* * *
17385999 GTGCCAGTGTAAGACATATCTGAGACATGCATC-GGC-CTTGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCAC-AGA-GA-GA
* * * **
17386046 -TAGCCAGTGTAAGACGTGTCTAGGACATGCATC-AGCTA-AGAG-TC
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGGC-ACAGAGAGA
* *
17386090 GTGCTAGTGTAAGACATGTCCGGGACATG
1 GTGCCAGTGTAAGACATGTCTGGGACATG
17386119 AATCAGCATG
Statistics
Matches: 138, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 23 0.17
45 1 0.01
46 27 0.20
47 66 0.48
48 21 0.15
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCACAGAGAGA
Found at i:17386066 original size:94 final size:91
Alignment explanation
Indices: 17385905--17386106 Score: 234
Period size: 94 Copynumber: 2.2 Consensus size: 91
17385895 GATTTCTTGT
* *
17385905 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCACATTAGGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATATCTGAGACATGCATCGGGCACATTAGGAGTGCCAGTGTAAGACCATG
*
17385970 TCTGGGACATGGCATCAGC-ATAGAGATGA
66 TCTAGGACAT-GCATCAGCTA-AGAG-T-A
*
17385999 GTGCCAGTGTAAGACATATCTGAGACATGCATC-GGC-C-TTGATGATGATAGCCAGTGTAAGA-
1 GTGCCAGTGTAAGACATATCTGAGACATGCATCGGGCACATT-AGGA-G-T-GCCAGTGTAAGAC
* *
17386060 CGTGTCTAGGACATGCATCAGCTAAGAGTC
62 CATGTCTAGGACATGCATCAGCTAAGAGTA
*
17386090 GTGCTAGTGTAAGACAT
1 GTGCCAGTGTAAGACAT
17386107 GTCCGGGACA
Statistics
Matches: 96, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
91 18 0.19
92 5 0.05
93 16 0.17
94 45 0.47
95 12 0.12
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATATCTGAGACATGCATCGGGCACATTAGGAGTGCCAGTGTAAGACCATG
TCTAGGACATGCATCAGCTAAGAGTA
Found at i:17386172 original size:141 final size:141
Alignment explanation
Indices: 17385907--17386191 Score: 323
Period size: 141 Copynumber: 2.0 Consensus size: 141
17385897 TTTCTTGTGT
* * *
17385907 GCCAGTGTAAGACATGTCTGGGACATGCATCGGGCACATTAGGAGTGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGAGCACATGAGGAGTGCCAGTGTAAGACCATGTC
* * * *
17385972 TGGGACATGGCATCAGCATAGAGATGAGTGCCAGTGTAAGACATATCTGAGACATGCATCGGCCT
66 CGGGACATGGAATCAGCATAGAGATGAGAGCCAGTATAAGACATATCTGAGACATGCATCGGCCT
*
17386037 TGATGATGATA
131 CGATGATGATA
* ** *
17386048 GCCAGTGTAAGACGTGTCTAGGACATGCATC-AGCTA-A-GAGTCGTGCTAGTGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGAGC-ACATGAGGAGTGCCAGTGTAAGACCATGT
* * *
17386109 CCGGGACAT-GAATCAGCAT-GTATATACGAGAGCTAGTATAAGACCATGTCTG-GAACATGGCA
65 CCGGGACATGGAATCAGCATAG-AGAT--GAGAGCCAGTATAAGA-CATATCTGAG-ACAT-GCA
17386171 TCGGCCTCGATGATGATA
124 TCGGCCTCGATGATGATA
17386189 GCC
1 GCC
17386192 TGACTGAGAC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
136 1 0.01
137 12 0.10
138 13 0.11
139 29 0.24
140 14 0.11
141 53 0.43
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGAGCACATGAGGAGTGCCAGTGTAAGACCATGTC
CGGGACATGGAATCAGCATAGAGATGAGAGCCAGTATAAGACATATCTGAGACATGCATCGGCCT
CGATGATGATA
Found at i:17386530 original size:11 final size:11
Alignment explanation
Indices: 17386514--17386545 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17386504 TGCTTACTCT
17386514 CTTTCCTTTCC
1 CTTTCCTTTCC
17386525 CTTTCCTTTCC
1 CTTTCCTTTCC
*
17386536 CTTTTCTTTC
1 CTTTCCTTTC
17386546 AGTGCTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (11 bp):
CTTTCCTTTCC
Found at i:17387246 original size:26 final size:26
Alignment explanation
Indices: 17387216--17387267 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17387206 GTTTAAGGGA
17387216 CATAATGCATGTGAACGAGAAGTTTT
1 CATAATGCATGTGAACGAGAAGTTTT
*
17387242 CATAATGCATGTGAACGATAAGTTTT
1 CATAATGCATGTGAACGAGAAGTTTT
17387268 AAGTTAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (26 bp):
CATAATGCATGTGAACGAGAAGTTTT
Found at i:17393721 original size:40 final size:40
Alignment explanation
Indices: 17393676--17393876 Score: 235
Period size: 40 Copynumber: 5.0 Consensus size: 40
17393666 CGGAATTTAT
* * * *
17393676 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
17393716 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
17393756 CCGGATATAA-CAACTCGCACGAATG-CTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
17393795 TCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
17393835 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
17393875 CC
1 CC
17393877 AGGTATCATT
Statistics
Matches: 137, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 33 0.24
40 104 0.76
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:17393800 original size:79 final size:80
Alignment explanation
Indices: 17393676--17393872 Score: 211
Period size: 79 Copynumber: 2.5 Consensus size: 80
17393666 CGGAATTTAT
* * ** *
17393676 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
17393741 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * * *
17393756 CCGGATATAACAACTCGCACGAA-TG-CTTCGGGTCTTAGCTCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
17393819 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
* * * *
17393835 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTA
1 CCGGATATAA-CAACAAGCACAATTGCCTTCGGGTCTTA
17393873 GCCCAGGTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 63 0.64
80 31 0.32
81 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:17401764 original size:40 final size:40
Alignment explanation
Indices: 17401719--17401922 Score: 248
Period size: 40 Copynumber: 5.1 Consensus size: 40
17401709 CGGAATTTAT
* * * *
17401719 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
17401759 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
17401799 CCGGATATAA-CAACTCGCACGAATGCTTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
17401839 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
17401879 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
17401919 CCGG
1 CCGG
17401923 GTATCATTCA
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 140 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:17412162 original size:30 final size:30
Alignment explanation
Indices: 17412126--17412186 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
17412116 CATTTAATAC
*
17412126 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
17412156 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
17412186 A
1 A
17412187 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:17416410 original size:21 final size:21
Alignment explanation
Indices: 17416386--17416427 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17416376 TCATCAGATC
*
17416386 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
17416407 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
17416428 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:17418206 original size:47 final size:47
Alignment explanation
Indices: 17418084--17418213 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 47
17418074 TGTAACCCGC
* * *
17418084 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACAT
* *
17418130 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-GCCT--TTACAT
* *
17418180 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
17418214 ACTCAAATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
46 35 0.48
47 27 0.37
48 5 0.07
49 1 0.01
50 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACAT
Found at i:17420628 original size:46 final size:46
Alignment explanation
Indices: 17420492--17420615 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
17420482 TATATATACA
* * * * *
17420492 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACGTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
17420538 CATCTCATACACATTTTGCATTAGCCACTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
17420584 CATCTCATACACATTTCGCATTAGCCATTCGG
1 CATCTCATACACATTTCGCATTAGCCATTCGG
17420616 GTTCGCCACA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:17420673 original size:47 final size:46
Alignment explanation
Indices: 17420635--17420856 Score: 253
Period size: 47 Copynumber: 4.9 Consensus size: 46
17420625 ATATATACAC
* ** *
17420635 TTCCACGTTCATCACATTGGCCATTCTACCTTATCACATATATGCA
1 TTCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
*
17420681 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 T-TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
* *
17420728 TGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATTC-
1 TTC-CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
** **
17420774 GGCCTTA-TCA-CACA-T----ATTCGGCCTTATCACACATATGCA
1 TTCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
*
17420813 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
1 T-TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
17420857 TCGGCCTTAT
Statistics
Matches: 148, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
38 22 0.15
40 2 0.01
41 3 0.02
42 5 0.03
43 5 0.03
44 3 0.02
45 2 0.01
46 3 0.02
47 103 0.70
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (46 bp):
TTCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
Found at i:17420775 original size:19 final size:19
Alignment explanation
Indices: 17420751--17420875 Score: 126
Period size: 19 Copynumber: 6.1 Consensus size: 19
17420741 CACATTGGCC
17420751 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
17420770 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
17420789 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
* * *
17420808 ATGCATGTTCACATTCATCACATTGGC-C
1 ATTC--G-GC-C-TT-ATCACA----CAT
17420836 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
17420855 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
17420874 AT
1 AT
17420876 GCATGTTCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.01
19 62 0.70
21 1 0.01
22 7 0.08
23 3 0.03
24 3 0.03
25 7 0.08
26 1 0.01
28 3 0.03
29 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:17420781 original size:66 final size:66
Alignment explanation
Indices: 17420704--17420922 Score: 224
Period size: 66 Copynumber: 3.0 Consensus size: 66
17420694 CACATTGGCC
17420704 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
17420769 T
66 T
*
17420770 ATTCGGCCTTATCACACATATTCGGCCTTAT-CACACATATGCATGTTCACATTCATCACATTGG
1 ATTCGGCCTTATCACACATA-T--G-C--ATGCTCACAT-T-CA---TCACA---------TTGG
17420834 CCATTCGGCCTTATCACACAT
46 CCATTCGGCCTTATCACACAT
* *
17420855 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
17420920 T
66 T
17420921 AT
1 AT
17420923 GCATGCTCAC
Statistics
Matches: 128, Mismatches: 4, Indels: 42
0.74 0.02 0.24
Matches are distributed among these distances:
66 46 0.36
67 1 0.01
69 1 0.01
70 1 0.01
71 6 0.05
72 3 0.02
73 2 0.02
75 5 0.04
76 5 0.04
78 2 0.02
79 3 0.02
80 5 0.04
81 1 0.01
82 1 0.01
84 1 0.01
85 45 0.35
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (66 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
T
Found at i:17420801 original size:85 final size:85
Alignment explanation
Indices: 17420704--17420875 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
17420694 CACATTGGCC
17420704 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
17420769 TATTCGGCCTTATCACACAT
66 TATTCGGCCTTATCACACAT
*
17420789 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
17420854 TATTCGGCCTTATCACACAT
66 TATTCGGCCTTATCACACAT
17420874 AT
1 AT
17420876 GCATGTTCAC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (85 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
TATTCGGCCTTATCACACAT
Found at i:17420911 original size:47 final size:47
Alignment explanation
Indices: 17420855--17420944 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
17420845 TATCACACAT
*
17420855 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCC
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
*
17420902 ATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATT
17420945 AAAATCCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
Found at i:17428938 original size:47 final size:45
Alignment explanation
Indices: 17428864--17429131 Score: 211
Period size: 47 Copynumber: 5.8 Consensus size: 45
17428854 GATTTCTTGT
* *
17428864 GTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGA
** *
17428910 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CCACAGATGA
* * * *
17428958 GTGCCAGTGTAAGACATGTTTAGGACATGCATCGACCTC-GATGAA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-A
* * *
17429003 GATAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTA-AGAGTCA
1 G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGA-TGA
* ** * * * *
17429050 -TGCTAGTGTAAGACATGTCCAGGACATGCATCAG-CATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA
* * * *
17429093 GAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC
17429132 TCGATGATGA
Statistics
Matches: 175, Mismatches: 34, Indels: 25
0.75 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 45 0.26
45 14 0.08
46 26 0.15
47 60 0.34
48 26 0.15
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA
Found at i:17429025 original size:94 final size:92
Alignment explanation
Indices: 17428864--17429130 Score: 267
Period size: 94 Copynumber: 2.9 Consensus size: 92
17428854 GATTTCTTGT
* * * * *
17428864 GTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGACCACATGAAGAGTGCCAGTGTAAGACCATG
* *
17428929 TCTGGGACATGGCATCGG-TGTAGAGATGA
66 TCTGGGACAT-GCATCGGCT-AAGAG-TCA
* * *
17428958 GTGCCAGTGTAAGACATGTTTAGGACATGCATCGACCTCGATGAAGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATGAAGAGT-GCCAGTGTAAGACCA
17429021 TGTCTGGGACATGCATCGGCTAAGAGTCA
64 TGTCTGGGACATGCATCGGCTAAGAGTCA
* * * * * * * *
17429050 -TGCTAGTGTAAGACATGTCCAGGACATGCATC-AGCATAT-ACGAGAGCTAGTATAAGACCATG
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGACCACATGAAGAGTGCCAGTGTAAGACCATG
*
17429112 TTTGGGACATGGCATCGGC
66 TCTGGGACAT-GCATCGGC
17429131 CTCGATGATG
Statistics
Matches: 145, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
88 13 0.09
89 14 0.10
90 10 0.07
91 29 0.20
92 2 0.01
93 11 0.08
94 49 0.34
95 17 0.12
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTCTAGGACATGCATCGACCACATGAAGAGTGCCAGTGTAAGACCATG
TCTGGGACATGCATCGGCTAAGAGTCA
Found at i:17430025 original size:55 final size:55
Alignment explanation
Indices: 17429943--17430073 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 55
17429933 TTAAAATTTT
* * *
17429943 AAGTCAGT-TTAGTACACGGGTAAGCCACACGGGCGTGTGTCATGG-TCGGGTTTGA
1 AAGTCAGTGTT-GTACACGGGCAAGCCACACGAGCGTGTGCCATGGCT-GGGTTTGA
* * * * *
17429998 AAGTTAGTGTTGTACACGGGCAGGCCACATGAGCGTGTGCCATGGCTGTGTTTTA
1 AAGTCAGTGTTGTACACGGGCAAGCCACACGAGCGTGTGCCATGGCTGGGTTTGA
*
17430053 AAGTCAGTGTTGCACACGGGC
1 AAGTCAGTGTTGTACACGGGC
17430074 TAAGGGCACG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
55 61 0.95
56 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (55 bp):
AAGTCAGTGTTGTACACGGGCAAGCCACACGAGCGTGTGCCATGGCTGGGTTTGA
Found at i:17431333 original size:46 final size:46
Alignment explanation
Indices: 17431016--17431335 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
17431006 TTATCTTTGA
* * * *
17431016 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
17431062 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * **
17431108 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
17431154 CATGTTGTCATGGTATCTCTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
17431200 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
17431246 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
17431292 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
17431336 TTCAGAGAGC
Statistics
Matches: 247, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 243 0.98
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:17433198 original size:11 final size:11
Alignment explanation
Indices: 17433179--17433234 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
17433169 CTTTATATAC
17433179 TAATAAAATAA
1 TAATAAAATAA
*
17433190 TAATCAAATAA
1 TAATAAAATAA
* **
17433201 TAA-AATATCT
1 TAATAAAATAA
* *
17433211 TATTAAAATAT
1 TAATAAAATAA
17433222 TAATAAAATAA
1 TAATAAAATAA
17433233 TA
1 TA
17433235 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
10 5 0.15
11 29 0.85
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:17437280 original size:21 final size:22
Alignment explanation
Indices: 17437255--17437356 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 22
17437245 TTTATCAAAT
17437255 TAAAACCTTAAAACCT-AACCC
1 TAAAACCTTAAAACCTAAACCC
*
17437276 TAAAACCTTAAGAAATCTAAACAACC
1 TAAAACCTT-A-AAACCTAAAC--CC
* *
17437302 TAAAACCATAATAA-CAAAACCC
1 TAAAACCTTAA-AACCTAAACCC
* *
17437324 TAAAACCCTATTAA--TAAACCC
1 TAAAACCTTA-AAACCTAAACCC
17437345 TAAAACCTTAAA
1 TAAAACCTTAAA
17437357 TTTTGTAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 24 0.36
22 14 0.21
23 5 0.08
24 9 0.14
25 3 0.05
26 10 0.15
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAAACCTTAAAACCTAAACCC
Found at i:17437326 original size:22 final size:21
Alignment explanation
Indices: 17437300--17437351 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
17437290 ATCTAAACAA
17437300 CCTAAAACCATAATAACAAAAC
1 CCTAAAACCATAATAA-AAAAC
* * *
17437322 CCTAAAACCCTATTAATAAAC
1 CCTAAAACCATAATAAAAAAC
17437343 CCTAAAACC
1 CCTAAAACC
17437352 TTAAATTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTAAAACCATAATAAAAAAC
Found at i:17437505 original size:29 final size:30
Alignment explanation
Indices: 17437454--17437511 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
17437444 GACCCATTCC
**
17437454 TGTATTTTTTCAAAAAATCGGC-TTATTTT
1 TGTATTTTTTCAAAAAAAAGGCTTTATTTT
*
17437483 TGTATTTTTTTAAAAAAAAGGCTTTATTT
1 TGTATTTTTTCAAAAAAAAGGCTTTATTT
17437512 GGTAATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (30 bp):
TGTATTTTTTCAAAAAAAAGGCTTTATTTT
Found at i:17437883 original size:17 final size:18
Alignment explanation
Indices: 17437861--17437901 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
17437851 TTTAAGTTTA
17437861 TAATTTTT-TATATTATG
1 TAATTTTTATATATTATG
*
17437878 TTATTTTTATATATTATG
1 TAATTTTTATATATTATG
17437896 TAATTT
1 TAATTT
17437902 ATAACATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TAATTTTTATATATTATG
Found at i:17438212 original size:80 final size:78
Alignment explanation
Indices: 17438061--17438217 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 78
17438051 ATTTTTAAAA
* * * * * **
17438061 ATTTTAAAATAATATAGATGAACCTAAAAATGGACTTAATTAGTCTTTTGCAAATATAGATGAAT
1 ATTTTAAAATAATATAAATAAACCTAAAAATAGACTAAATTAGTCTTTTACAAATATAGACAAAT
17438126 TTTGACAAAAATT
66 TTTGACAAAAATT
*
17438139 ATTTTAAAATAATATAAATAAACCT-AAAATAGACTAAATCGTCTA-TCTTTTATAAATATAGAC
1 ATTTTAAAATAATATAAATAAACCTAAAAATAGACTAAA---T-TAGTCTTTTACAAATATAGAC
17438202 AAATTTTGACAAAAAT
62 AAATTTTGACAAAAAT
17438218 CTTTACAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
77 11 0.16
78 23 0.34
80 31 0.46
81 2 0.03
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (78 bp):
ATTTTAAAATAATATAAATAAACCTAAAAATAGACTAAATTAGTCTTTTACAAATATAGACAAAT
TTTGACAAAAATT
Found at i:17444631 original size:2 final size:2
Alignment explanation
Indices: 17444626--17444665 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
17444616 ACAGTCAAAT
17444626 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17444666 AGTCAAGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17454102 original size:16 final size:16
Alignment explanation
Indices: 17454083--17454123 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
17454073 TATTTTTCAC
**
17454083 AATATTTAATGTAAAT
1 AATATTTAAAATAAAT
17454099 AATATTTAAAATAAAT
1 AATATTTAAAATAAAT
17454115 AATAATTTA
1 AAT-ATTTA
17454124 TGAATAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AATATTTAAAATAAAT
Found at i:17457604 original size:21 final size:21
Alignment explanation
Indices: 17457580--17457619 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17457570 GCCTAGGATG
*
17457580 TGAATTGAATTAAATTGATAA
1 TGAAATGAATTAAATTGATAA
*
17457601 TGAAATGGATTAAATTGAT
1 TGAAATGAATTAAATTGAT
17457620 GTTAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
TGAAATGAATTAAATTGATAA
Found at i:17458124 original size:25 final size:24
Alignment explanation
Indices: 17458096--17458146 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
17458086 ACAAATGCAA
17458096 CTCTTTATAAGCATCTTGATATAGG
1 CTCTTTATAAGCATCTTGATAT-GG
* * *
17458121 CTCTTTTTGAGCTTCTTGATATGG
1 CTCTTTATAAGCATCTTGATATGG
17458145 CT
1 CT
17458147 TGCTTGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (24 bp):
CTCTTTATAAGCATCTTGATATGG
Found at i:17458158 original size:23 final size:25
Alignment explanation
Indices: 17458109--17458158 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 25
17458099 TTTATAAGCA
** *
17458109 TCTTGATATAGGCTCTTTTTGAGCT
1 TCTTGATATAGGCTCTGCTTGAACT
17458134 TCTTGATAT-GGCT-TGCTTGAACT
1 TCTTGATATAGGCTCTGCTTGAACT
17458157 TC
1 TC
17458159 CTGTTATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 9 0.41
24 4 0.18
25 9 0.41
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (25 bp):
TCTTGATATAGGCTCTGCTTGAACT
Found at i:17459002 original size:18 final size:18
Alignment explanation
Indices: 17458979--17459067 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 18
17458969 TCATCAATAT
17458979 TAATCAGTTATTCAGTAA
1 TAATCAGTTATTCAGTAA
* *
17458997 TAATCATTTGTTCAGTAA
1 TAATCAGTTATTCAGTAA
* * *
17459015 CAGTC-GTTTATTCAGTAT
1 TAATCAG-TTATTCAGTAA
* *
17459033 TAGTCAATTATTCAGTAA
1 TAATCAGTTATTCAGTAA
* *
17459051 TAATTAGTTATTTAGTA
1 TAATCAGTTATTCAGTA
17459068 CCTTTATTTA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (18 bp):
TAATCAGTTATTCAGTAA
Found at i:17459049 original size:54 final size:53
Alignment explanation
Indices: 17458951--17459054 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 53
17458941 TGCATCTTTA
* *
17458951 TTGTTCAGTATCAGTCAGTCATCAATATTAATCAGTTATTCAGTAATAATCAT
1 TTGTTCAGTAACAGTCAGTCATCAATATTAATCAATTATTCAGTAATAATCAT
* * *
17459004 TTGTTCAGTAACAGTC-GTTTATTCAGTATTAGTCAATTATTCAGTAATAAT
1 TTGTTCAGTAACAGTCAG-TCA-TCAATATTAATCAATTATTCAGTAATAAT
17459055 TAGTTATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
52 1 0.02
53 17 0.39
54 26 0.59
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (53 bp):
TTGTTCAGTAACAGTCAGTCATCAATATTAATCAATTATTCAGTAATAATCAT
Found at i:17465108 original size:18 final size:18
Alignment explanation
Indices: 17465085--17465180 Score: 84
Period size: 18 Copynumber: 5.3 Consensus size: 18
17465075 CAGTTAGTCA
* *
17465085 TCAGTATTAATCAGTTAT
1 TCAGTAATAATCAATTAT
* *
17465103 TCAGTAATAATCATTTGT
1 TCAGTAATAATCAATTAT
* * * **
17465121 TCAATAACAGTCGTTTAT
1 TCAGTAATAATCAATTAT
** *
17465139 TCAGTAGCAGTCAATTAT
1 TCAGTAATAATCAATTAT
17465157 TCAGTAATAATCAATTAT
1 TCAGTAATAATCAATTAT
17465175 TCAGTA
1 TCAGTA
17465181 CCTTTATTTA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (18 bp):
TCAGTAATAATCAATTAT
Found at i:17466781 original size:14 final size:15
Alignment explanation
Indices: 17466763--17466799 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17466753 AATCAATATA
17466763 AAATAATA-TTA-TT
1 AAATAATATTTACTT
17466776 ATAATAATATTTACTT
1 A-AATAATATTTACTT
17466792 AAATAATA
1 AAATAATA
17466800 AGTAAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.05
14 7 0.33
15 10 0.48
16 3 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATAATATTTACTT
Found at i:17470367 original size:25 final size:25
Alignment explanation
Indices: 17470338--17470385 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17470328 TTATAATATG
* * *
17470338 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17470363 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17470386 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17470436 original size:9 final size:9
Alignment explanation
Indices: 17470424--17470480 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17470414 TTTGATAAAC
17470424 ATGATATGT
1 ATGATATGT
*
17470433 ATGATATGCAC
1 ATGATATG--T
*
17470444 ATGACATGT
1 ATGATATGT
*
17470453 ATGATATGCAC
1 ATGATATG--T
17470464 ATGATATGT
1 ATGATATGT
17470473 ATGATATG
1 ATGATATG
17470481 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:17470447 original size:20 final size:20
Alignment explanation
Indices: 17470422--17470492 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17470412 ATTTTGATAA
17470422 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17470442 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17470462 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17470482 ACATGAGATGT
1 ACATGATATGT
17470493 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17470469 original size:11 final size:11
Alignment explanation
Indices: 17470433--17470487 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17470423 CATGATATGT
17470433 ATGATATGCAC
1 ATGATATGCAC
* *
17470444 ATGACATG--T
1 ATGATATGCAC
17470453 ATGATATGCAC
1 ATGATATGCAC
*
17470464 ATGATATG--T
1 ATGATATGCAC
17470473 ATGATATGCAC
1 ATGATATGCAC
17470484 ATGA
1 ATGA
17470488 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17470570 original size:24 final size:24
Alignment explanation
Indices: 17470538--17470634 Score: 135
Period size: 24 Copynumber: 4.0 Consensus size: 24
17470528 GAGGAAGTGC
17470538 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17470562 AAAAGGGCTTATGCCCCAGTTATTT
1 AAAAGGGCTTATGCCCCAGTTA-TT
17470587 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
17470611 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17470635 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
23 6 0.09
24 30 0.45
25 21 0.31
26 10 0.15
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17470611 original size:49 final size:51
Alignment explanation
Indices: 17470538--17470634 Score: 155
Period size: 49 Copynumber: 1.9 Consensus size: 51
17470528 GAGGAAGTGC
*
17470538 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTATTTA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTTA
17470588 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
17470635 ATGATAAAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
49 23 0.52
50 21 0.48
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTTA
Found at i:17470862 original size:31 final size:31
Alignment explanation
Indices: 17470827--17470890 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17470817 CGGTTACAGT
17470827 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
17470858 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17470889 AA
1 AA
17470891 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17478005 original size:13 final size:13
Alignment explanation
Indices: 17477987--17478013 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17477977 GCTCGACAGG
17477987 GACACGCCCATGT
1 GACACGCCCATGT
17478000 GACACGCCCATGT
1 GACACGCCCATGT
17478013 G
1 G
17478014 CGATTGCTTC
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:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:17486062 original size:27 final size:27
Alignment explanation
Indices: 17485994--17486064 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
17485984 CGACTTGTAA
* *
17485994 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
17486021 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
17486048 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
17486065 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:17486071 original size:27 final size:27
Alignment explanation
Indices: 17486048--17486171 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
17486038 CAATTTACAG
17486048 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
17486075 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
17486102 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
17486129 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
17486156 AATTACTAAAATACCC
1 AATTACCAAAATACCC
17486172 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:17486090 original size:54 final size:53
Alignment explanation
Indices: 17486032--17486171 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
17486022 ATTACCGTTT
17486032 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
17486086 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
17486140 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
17486172 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:17486183 original size:81 final size:81
Alignment explanation
Indices: 17486048--17486200 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
17486038 CAATTTACAG
* **
17486048 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
17486113 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
17486129 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
17486192 AATACCCTT
64 AATACCCTT
17486201 GCGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:17486184 original size:27 final size:27
Alignment explanation
Indices: 17486154--17486215 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
17486144 CATGGTTTGA
*
17486154 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGCAGGGT
* * *
17486181 AAAATTACTGAAATACCCTTGCGGGGT
1 AAAATTACTAAAATACCCCTGCAGGGT
17486208 AAAATTAC
1 AAAATTAC
17486216 CATTTTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGCAGGGT
Found at i:17486184 original size:54 final size:54
Alignment explanation
Indices: 17486048--17486198 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
17486038 CAATTTACAG
* ** * * *
17486048 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
17486102 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
17486156 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
17486199 TTGCGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:17486868 original size:28 final size:28
Alignment explanation
Indices: 17486836--17486894 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17486826 GCGTAGATCA
17486836 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
17486864 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
17486892 CGA
1 CGA
17486895 TATACCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:17489919 original size:23 final size:23
Alignment explanation
Indices: 17489892--17489937 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17489882 TTATAACATT
17489892 TCACAAATATCCAATTCTATTCC
1 TCACAAATATCCAATTCTATTCC
17489915 TCACAAATATCCAATTCTATTCC
1 TCACAAATATCCAATTCTATTCC
17489938 CATGGTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (23 bp):
TCACAAATATCCAATTCTATTCC
Found at i:17495184 original size:43 final size:43
Alignment explanation
Indices: 17495024--17495184 Score: 132
Period size: 43 Copynumber: 3.7 Consensus size: 43
17495014 TATGTGTTAT
* * * * *
17495024 CGTGTAAGACCACGTCTGGGATGTTGGCATGGACT-TATGATTTA
1 CGTGTAAGACCACATATGGGACGTTGGCATTGA-TATTTGA-TTA
* * * * *
17495068 CGTGTAAGACAACGTATGGGACATTGGCA-TCATATTTGATTT
1 CGTGTAAGACCACATATGGGACGTTGGCATTGATATTTGATTA
* * *
17495110 CGTGTAAGACGC-TATCTGGGAC-TGTGACATTGATATTTGATTA
1 CGTGTAAGAC-CACATATGGGACGT-TGGCATTGATATTTGATTA
*
17495153 CATGTAAGACCACATATGGGACGTTGGCATTG
1 CGTGTAAGACCACATATGGGACGTTGGCATTG
17495185 TACAAGCTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 13
0.74 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 40 0.43
44 26 0.28
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACATATGGGACGTTGGCATTGATATTTGATTA
Found at i:17496731 original size:8 final size:8
Alignment explanation
Indices: 17496718--17496778 Score: 52
Period size: 8 Copynumber: 7.2 Consensus size: 8
17496708 AGTAATTGAA
17496718 AATAATAT
1 AATAATAT
17496726 AATAATAT
1 AATAATAT
17496734 ATATAAATAT
1 A-AT-AATAT
17496744 GAAATAATAT
1 --AATAATAT
** *
17496754 AGGAAAAT
1 AATAATAT
17496762 AATAATAT
1 AATAATAT
17496770 AATAA-AT
1 AATAATAT
17496777 AA
1 AA
17496779 GGTTTATATG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.09
8 24 0.56
9 2 0.05
10 10 0.23
11 2 0.05
12 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (8 bp):
AATAATAT
Found at i:17496803 original size:16 final size:17
Alignment explanation
Indices: 17496784--17496817 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17496774 AATAAGGTTT
17496784 ATATGTATA-TAAAATA
1 ATATGTATATTAAAATA
*
17496800 ATATTTATATTAAAATA
1 ATATGTATATTAAAATA
17496817 A
1 A
17496818 AAGTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
ATATGTATATTAAAATA
Found at i:17496831 original size:21 final size:21
Alignment explanation
Indices: 17496792--17496833 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17496782 TTATATGTAT
17496792 ATAAAATAATATTTATATTAAA
1 ATAAAATAATA-TTATATTAAA
17496814 ATAAAAGTAATA-TATATTAA
1 ATAAAA-TAATATTATATTAA
17496834 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAAATAATATTATATTAAA
Found at i:17498878 original size:78 final size:82
Alignment explanation
Indices: 17498796--17499002 Score: 233
Period size: 87 Copynumber: 2.5 Consensus size: 82
17498786 CAATATAGAT
* * *
17498796 ATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACACGTGAA-AG-C-C-AAATCTTTGATTTGC
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACACGTGAACAGACGCTAAATCTTTGATTTGC
* *
17498857 TCCTTGTAAACACAAGG
66 TCCTTGTAAACAAAAGA
* * * **
17498874 ATGCCAAATCATCTTGGATCTGTTTTAGTATAAACATCTGAAGAACAGACCTGCTATGTCTTTGA
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA-C-G-TGAACAGA-C-GCTAAATCTTTGA
*
17498939 TTTGCTTCTTGTAAACAAAAGA
61 TTTGCTCCTTGTAAACAAAAGA
*
17498961 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACACCTGAA
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACACGTGAA
17499003 GGTTAGATCT
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
78 31 0.30
79 1 0.01
80 1 0.01
81 3 0.03
82 2 0.02
84 4 0.04
86 2 0.02
87 61 0.58
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (82 bp):
ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACACGTGAACAGACGCTAAATCTTTGATTTGC
TCCTTGTAAACAAAAGA
Found at i:17498991 original size:87 final size:87
Alignment explanation
Indices: 17498845--17499003 Score: 264
Period size: 87 Copynumber: 1.8 Consensus size: 87
17498835 GAAAGCCAAA
* * * *
17498845 TCTTTGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGTTTTAGTATAAACA
1 TCTTTGATTTGCTCCTTGTAAACAAAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
*
17498910 TCTGAAGAACAGACCTGCTATG
66 CCTGAAGAACAGACCTGCTATG
*
17498932 TCTTTGATTTGCTTCTTGTAAACAAAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTTGATTTGCTCCTTGTAAACAAAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
17498997 CCTGAAG
66 CCTGAAG
17499004 GTTAGATCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (87 bp):
TCTTTGATTTGCTCCTTGTAAACAAAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
CCTGAAGAACAGACCTGCTATG
Found at i:17499062 original size:87 final size:91
Alignment explanation
Indices: 17498971--17499200 Score: 236
Period size: 94 Copynumber: 2.5 Consensus size: 91
17498961 ATGCCAAATC
* *
17498971 ATCTTGGATCTGCTTCAGTATAAACACCTGAAGGTTAGATCTACTATG-T-G-TCTGCTCTCCGT
1 ATCTTGGATCTGCTTCAGTATAAACACCTGAAGGTCAGATCTGCTATGTTCGATCTGCTCTCCGT
* * * *
17499033 CGAATATGGAGACGCCAGATC-TGTT
66 CGAAGATAGAGAAGCCAAATCTTGTT
* * * * * *
17499058 ATCTTGGATCTGCTTTAATGTGA-AAACATCTAAAAGTCAGATCTGTTATGTCTTCGATTTGCTC
1 ATCTTGGATCTGC-TTCA-GT-ATAAACACCTGAAGGTCAGATCTGCTATG--TTCGATCTGCTC
*
17499122 TCCGTCGAAGATAGTGAAGCCAAATCTTGTT
61 TCCGTCGAAGATAGAGAAGCCAAATCTTGTT
* * *
17499153 ATCTTGGATCTGCTTCAGTGTAAACACGTGAAGGCCAGATCTGCTATG
1 ATCTTGGATCTGCTTCAGTATAAACACCTGAAGGTCAGATCTGCTATG
17499201 CTTTGGTCTG
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
87 13 0.12
88 3 0.03
89 23 0.21
90 1 0.01
92 1 0.01
93 24 0.21
94 30 0.27
95 17 0.15
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (91 bp):
ATCTTGGATCTGCTTCAGTATAAACACCTGAAGGTCAGATCTGCTATGTTCGATCTGCTCTCCGT
CGAAGATAGAGAAGCCAAATCTTGTT
Found at i:17513534 original size:46 final size:46
Alignment explanation
Indices: 17513424--17513549 Score: 155
Period size: 48 Copynumber: 2.7 Consensus size: 46
17513414 ATGCCATGTC
* ** * *
17513424 TTTGACATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATA
1 TTTGATATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATA
*
17513470 TATAT-ATTATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA
1 T-T-TGA-TATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATA
*
17513518 TTTGATATGGACTTACATGGCTCATTTCTGTC
1 TTTGATATGGACTTACATGGCTCATTCCTGTC
17513550 CTGTCCTGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
46 27 0.40
47 4 0.06
48 37 0.54
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (46 bp):
TTTGATATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATA
Found at i:17515745 original size:14 final size:16
Alignment explanation
Indices: 17515710--17515746 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
17515700 CAAACGATGC
17515710 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
17515725 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
17515740 -ATGCAAA
1 GATGCAAA
17515747 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:17519713 original size:8 final size:8
Alignment explanation
Indices: 17519700--17519760 Score: 52
Period size: 8 Copynumber: 7.2 Consensus size: 8
17519690 AGTAATTGAA
17519700 AATAATAT
1 AATAATAT
17519708 AATAATAT
1 AATAATAT
17519716 ATATAAATAT
1 A-AT-AATAT
17519726 GAAATAATAT
1 --AATAATAT
** *
17519736 AGGAAAAT
1 AATAATAT
17519744 AATAATAT
1 AATAATAT
17519752 AATAA-AT
1 AATAATAT
17519759 AA
1 AA
17519761 GGTTTATATG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.09
8 24 0.56
9 2 0.05
10 10 0.23
11 2 0.05
12 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (8 bp):
AATAATAT
Found at i:17519783 original size:23 final size:24
Alignment explanation
Indices: 17519748--17519792 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
17519738 GAAAATAATA
*
17519748 ATATAATAAATAAGGTTTATATGT
1 ATATAATAAATAAGATTTATATGT
*
17519772 ATATAA-AAATAATATTTATAT
1 ATATAATAAATAAGATTTATAT
17519793 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (24 bp):
ATATAATAAATAAGATTTATATGT
Found at i:17519786 original size:17 final size:17
Alignment explanation
Indices: 17519766--17519800 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17519756 AATAAGGTTT
17519766 ATATGTATATAAAAATA
1 ATATGTATATAAAAATA
* *
17519783 ATATTTATATTAAAATA
1 ATATGTATATAAAAATA
17519800 A
1 A
17519801 AAGTAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
ATATGTATATAAAAATA
Found at i:17519814 original size:21 final size:22
Alignment explanation
Indices: 17519774--17519816 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
17519764 TTATATGTAT
17519774 ATAAAAATAATATTTATATTAAA
1 ATAAAAATAATA-TTATATTAAA
*
17519797 ATAAAAGTAATA-TATATTAA
1 ATAAAAATAATATTATATTAA
17519817 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAAAAATAATATTATATTAAA
Found at i:17526716 original size:28 final size:27
Alignment explanation
Indices: 17526653--17526722 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
17526643 ATAGTGAGTC
*
17526653 CGCACACTTAGAGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
17526680 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
17526708 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17526723 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:17534531 original size:28 final size:27
Alignment explanation
Indices: 17534468--17534537 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
17534458 ATAGTGAGTC
17534468 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
17534495 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
17534523 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17534538 GTACAAATTT
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:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:17539070 original size:43 final size:42
Alignment explanation
Indices: 17538968--17539084 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
17538958 TGTGTTATCG
***
17538968 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
* *
17539010 TGTATGACC-CTGCCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTACA
* *
17539053 TGTAAGACCACGTCTGGGA-GTGGGCATTGTAT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTAT
17539085 GAGCTTTCCG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
41 5 0.08
42 30 0.49
43 25 0.41
44 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:17550442 original size:13 final size:13
Alignment explanation
Indices: 17550424--17550463 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
17550414 GAAGTAATCG
17550424 CACACGGGCGTGT
1 CACACGGGCGTGT
17550437 CACACGGGCGTGT
1 CACACGGGCGTGT
17550450 CACACGGGCGTGT
1 CACACGGGCGTGT
17550463 C
1 C
17550464 CCTGCCGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:17552311 original size:42 final size:42
Alignment explanation
Indices: 17552262--17552412 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 42
17552252 TCGAGGCCTG
17552262 TGTCCTAGAC-TGGGTCTTACACGAAATCAGATACGATGCCAA
1 TGTCCTAGACAT-GGTCTTACACGAAATCAGATACGATGCCAA
* *
17552304 TGTCCTAGACATGGTCTTATACATC-AATATCA-AT-CGAGGCCTA
1 TGTCCTAGACATGGTC-T-TACA-CGAA-ATCAGATACGATGCCAA
* ** * *
17552347 TGTCCCAGACACAGTCTTACATGAAATCAGATACGATGCCGA
1 TGTCCTAGACATGGTCTTACACGAAATCAGATACGATGCCAA
* *
17552389 TGTCCTAAACATGGTCTTATACGA
1 TGTCCTAGACATGGTCTTACACGA
17552413 TGTCTCAGAC
Statistics
Matches: 87, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
40 4 0.05
41 8 0.09
42 40 0.46
43 22 0.25
44 8 0.09
45 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
TGTCCTAGACATGGTCTTACACGAAATCAGATACGATGCCAA
Found at i:17552373 original size:85 final size:85
Alignment explanation
Indices: 17552251--17552410 Score: 248
Period size: 85 Copynumber: 1.9 Consensus size: 85
17552241 GTAACTCAAT
* * *** *
17552251 ATCGAGGCCTGTGTCCTAGACTGGGTCTTACACGAAATCAGATACGATGCCAATGTCCTAGACAT
1 ATCGAGGCCTATGTCCCAGACACAGTCTTACACGAAATCAGATACGATGCCAATGTCCTAAACAT
17552316 GGTCTTATACATCAATATCA
66 GGTCTTATACATCAATATCA
* *
17552336 ATCGAGGCCTATGTCCCAGACACAGTCTTACATGAAATCAGATACGATGCCGATGTCCTAAACAT
1 ATCGAGGCCTATGTCCCAGACACAGTCTTACACGAAATCAGATACGATGCCAATGTCCTAAACAT
17552401 GGTCTTATAC
66 GGTCTTATAC
17552411 GATGTCTCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (85 bp):
ATCGAGGCCTATGTCCCAGACACAGTCTTACACGAAATCAGATACGATGCCAATGTCCTAAACAT
GGTCTTATACATCAATATCA
Found at i:17559723 original size:42 final size:42
Alignment explanation
Indices: 17559533--17559730 Score: 134
Period size: 42 Copynumber: 4.7 Consensus size: 42
17559523 AAGTACAATT
* * * * *
17559533 CCGACGTCCCGAACGTGGTCTTACATGTAACTC-AATATCGATG
1 CCGATGTCCCAAACATGGTCTTACACG-AAATCAAATAT-GATG
** * * *
17559576 CCTCTGTCCCAGACAAGGTCTTACACGAAATCAAATACGATG
1 CCGATGTCCCAAACATGGTCTTACACGAAATCAAATATGATG
* * * * * *
17559618 CCGATGTTCCATACATGGTCATATACGTAAATCTCAATCA--AGG
1 CCGATGTCCCAAACATGGTCTTACACG-AAATC-AAAT-ATGATG
* * *
17559661 CCTG-TGTCCTAGACACGGTCTTACACGAAATCAAATATGATG
1 CC-GATGTCCCAAACATGGTCTTACACGAAATCAAATATGATG
*
17559703 CCGATGTCCCAAACATGGTCTTATACGA
1 CCGATGTCCCAAACATGGTCTTACACGA
17559731 TGTCTCAGAC
Statistics
Matches: 116, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
40 1 0.01
41 4 0.03
42 57 0.49
43 49 0.42
44 4 0.03
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
CCGATGTCCCAAACATGGTCTTACACGAAATCAAATATGATG
Found at i:17561494 original size:16 final size:16
Alignment explanation
Indices: 17561473--17561515 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
17561463 TTTCAGAAGA
*
17561473 ATAAAGAATACAAAAC
1 ATAAAGAAAACAAAAC
17561489 ATAAAGAAAACAAAAC
1 ATAAAGAAAACAAAAC
17561505 ATAAAGAAAAC
1 ATAAAGAAAAC
17561516 CCAAAACTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.72, C:0.12, G:0.07, T:0.09
Consensus pattern (16 bp):
ATAAAGAAAACAAAAC
Found at i:17563133 original size:17 final size:17
Alignment explanation
Indices: 17563108--17563141 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17563098 TTTAATTCAA
*
17563108 GATATATCAATCAAAAT
1 GATAAATCAATCAAAAT
*
17563125 GATAAATCAATTAAAAT
1 GATAAATCAATCAAAAT
17563142 TTATCCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (17 bp):
GATAAATCAATCAAAAT
Found at i:17565758 original size:15 final size:15
Alignment explanation
Indices: 17565738--17565767 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17565728 AAACTCATAG
17565738 GCATCTTCTGGTGTT
1 GCATCTTCTGGTGTT
17565753 GCATCTTCTGGTGTT
1 GCATCTTCTGGTGTT
17565768 TTATTGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.27, T:0.47
Consensus pattern (15 bp):
GCATCTTCTGGTGTT
Found at i:17567656 original size:27 final size:28
Alignment explanation
Indices: 17567623--17567692 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
17567613 ATAGTGATTC
17567623 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
17567650 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
17567678 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17567693 GTACCAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17569541 original size:28 final size:29
Alignment explanation
Indices: 17569495--17569577 Score: 132
Period size: 28 Copynumber: 2.9 Consensus size: 29
17569485 GCCATATTTT
**
17569495 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
*
17569524 TTTCCA-CACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
17569552 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
17569578 TCTCGACACC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.51
29 24 0.49
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:17577540 original size:29 final size:29
Alignment explanation
Indices: 17577505--17577641 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
17577495 CTACTCGATT
* *
17577505 TCGCACACTTAGTGCCACGTAATTT-AAGC
1 TCGCACACTTAGTGCCA-ATAATTTCCAGC
** **
17577534 TCGCACACACAGTGCCATATTTTTTTCCAGC
1 TCGCACACTTAGTGCCA-A-TAATTTCCAGC
*
17577565 TTGCACACTTAGTGCCAA-ATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
17577594 ACGCACACTTAGTGCC-ATATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
17577623 ACGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
17577642 CTCGACACCA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 64 0.72
30 7 0.08
31 17 0.19
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCCAATAATTTCCAGC
Found at i:17577581 original size:60 final size:58
Alignment explanation
Indices: 17577506--17577640 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 58
17577496 TACTCGATTT
** * * *
17577506 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATATTTTTTTCCAGCT
1 CGCACACTTAGTGCCAAAT-ATTTCAAGCACGCACACACAGTGCCATA--TATTTCCAGCA
* * **
17577566 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
17577624 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
17577641 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 25 0.39
59 4 0.06
60 35 0.55
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:17578988 original size:12 final size:12
Alignment explanation
Indices: 17578971--17579004 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17578961 AGGATGAGCA
*
17578971 TTCTTTTTTTTT
1 TTCTTTTCTTTT
17578983 TTCTTTTCTTTT
1 TTCTTTTCTTTT
17578995 TTC-TTTCTTT
1 TTCTTTTCTTT
17579005 ACTAACATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTCTTTTCTTTT
Found at i:17579513 original size:12 final size:12
Alignment explanation
Indices: 17579496--17579521 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17579486 CGGGCATACT
17579496 TATGTATATATA
1 TATGTATATATA
17579508 TATGTATATATA
1 TATGTATATATA
17579520 TA
1 TA
17579522 CACTTCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:17586970 original size:27 final size:28
Alignment explanation
Indices: 17586937--17587006 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
17586927 ATAGTGATTC
17586937 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
17586964 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
17586992 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17587007 GTACCAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17587492 original size:2 final size:2
Alignment explanation
Indices: 17587485--17587528 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
17587475 CATACTTATG
*
17587485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17587527 TA
1 TA
17587529 CACTTCCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17589688 original size:41 final size:41
Alignment explanation
Indices: 17589620--17589956 Score: 435
Period size: 41 Copynumber: 8.2 Consensus size: 41
17589610 GCAAAAATTG
* * * *
17589620 TAAAAGACAGAGCAATAGCGGCGTTTTTGTTAACACGCCGC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * * *
17589661 TAAAAAT-AGAGTAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAAGTCAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGC
* *
17589702 TAAAAATCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
** ** * *
17589743 TAAAAGTTGGAGCAATAGCGGCGCTTCAGATAAAACGCCAC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
*
17589784 TAAAAGT-AGGAGCAATAGCGGCGCTTTTGGTAAAACGCCAC
1 TAAAAGTCA-GAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
*
17589825 TAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
17589866 TAACAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCAC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * *
17589907 TAAAAGTCGGAGTAATAGCGGCGCTTTTGATAAAACGCCGC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
17589948 TAAAAGTCA
1 TAAAAGTCA
17589957 TATAACCCCT
Statistics
Matches: 263, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
40 14 0.05
41 236 0.90
42 13 0.05
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (41 bp):
TAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:17589839 original size:123 final size:123
Alignment explanation
Indices: 17589620--17589955 Score: 485
Period size: 123 Copynumber: 2.7 Consensus size: 123
17589610 GCAAAAATTG
* * * * * *
17589620 TAAAAGACAGAGCAATAGCGGCGTTTTTGTTAACACGCCGCTAAAAATA-GAGTAATAGCGGCGT
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGATAAAACGCCACTAAAAGTAGGAGTAATAGCGGCG-
* * *
17589684 TTTTTGTTAAAACGCCGCTAAAAATCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
65 CTTTTGATAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
** ** *
17589743 TAAAAGTTGGAGCAATAGCGGCGCTTCAGATAAAACGCCACTAAAAGTAGGAGCAATAGCGGCGC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGATAAAACGCCACTAAAAGTAGGAGTAATAGCGGCGC
* *
17589808 TTTTGGTAAAACGCCACTAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
66 TTTTGATAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * *
17589866 TAACAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAGTCGGAGTAATAGCGGCGC
1 TAAAAGTCAGAGCAATAGCGGCGCTTTTGATAAAACGCCACTAAAAGTAGGAGTAATAGCGGCGC
17589931 TTTTGATAAAACGCCGCTAAAAGTC
66 TTTTGATAAAACGCCGCTAAAAGTC
17589956 ATATAACCCC
Statistics
Matches: 187, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
123 174 0.93
124 13 0.07
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (123 bp):
TAAAAGTCAGAGCAATAGCGGCGCTTTTGATAAAACGCCACTAAAAGTAGGAGTAATAGCGGCGC
TTTTGATAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:17590040 original size:23 final size:22
Alignment explanation
Indices: 17590013--17590058 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
17590003 TCTATAACCC
17590013 CTAAAATA-CTAAACCCTTAAACT
1 CTAAAA-ACCTAAACCC-TAAACT
17590036 CTAAAAACTCTAAACCCTAAACT
1 CTAAAAAC-CTAAACCCTAAACT
17590059 ATAACTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 1 0.05
23 12 0.57
24 8 0.38
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (22 bp):
CTAAAAACCTAAACCCTAAACT
Found at i:17590070 original size:53 final size:55
Alignment explanation
Indices: 17589968--17590081 Score: 133
Period size: 53 Copynumber: 2.1 Consensus size: 55
17589958 ATAACCCCTA
* * *
17589968 AAACCCTTAAACCCTAAAAAAATCATGAACACTAATCTATAACCCCTAAAATACT
1 AAACCCTTAAACCCTAAAAAAATCATAAACACTAAACTATAACCCCTAAAACACT
* * * ** *
17590023 AAACCCTTAAACTCT-AAAAACTC-TAAACCCTAAACTATAACTTCTAAAACCCT
1 AAACCCTTAAACCCTAAAAAAATCATAAACACTAAACTATAACCCCTAAAACACT
17590076 AAACCC
1 AAACCC
17590082 CAAAAAACAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 29 0.58
54 7 0.14
55 14 0.28
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (55 bp):
AAACCCTTAAACCCTAAAAAAATCATAAACACTAAACTATAACCCCTAAAACACT
Found at i:17590253 original size:15 final size:15
Alignment explanation
Indices: 17590209--17590259 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
17590199 CGGTTTAATA
*
17590209 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
17590223 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
17590238 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
17590253 TTAATGG
1 TTTATGG
17590260 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:17590847 original size:7 final size:7
Alignment explanation
Indices: 17590837--17590915 Score: 65
Period size: 7 Copynumber: 11.3 Consensus size: 7
17590827 CATTAAATCG
17590837 AAATAAA
1 AAATAAA
17590844 AAAT--A
1 AAATAAA
*
17590849 AACTCAAA
1 AAAT-AAA
*
17590857 AATTAAA
1 AAATAAA
*
17590864 AATTAAA
1 AAATAAA
17590871 AAATTAAA
1 AAA-TAAA
*
17590879 AAAT-TA
1 AAATAAA
*
17590885 AAATTAA
1 AAATAAA
17590892 AAATAAA
1 AAATAAA
17590899 AAATAAAA
1 AAAT-AAA
17590907 AAATAAA
1 AAATAAA
17590914 AA
1 AA
17590916 CTTAAAAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.07
6 5 0.08
7 33 0.55
8 18 0.30
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATAAA
Found at i:17590871 original size:6 final size:7
Alignment explanation
Indices: 17590854--17590925 Score: 83
Period size: 7 Copynumber: 10.0 Consensus size: 7
17590844 AAATAAACTC
17590854 AAAAATT
1 AAAAATT
17590861 AAAAATT
1 AAAAATT
17590868 AAAAAATT
1 -AAAAATT
17590876 AAAAAATT
1 -AAAAATT
17590884 -AAAATT
1 AAAAATT
*
17590890 AAAAATA
1 AAAAATT
*
17590897 AAAAATA
1 AAAAATT
*
17590904 AAAAAAT
1 AAAAATT
17590911 AAAAACTT
1 AAAAA-TT
17590919 AAAAATT
1 AAAAATT
17590926 TAATATTTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.10
7 31 0.53
8 21 0.36
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:17590872 original size:8 final size:8
Alignment explanation
Indices: 17590854--17590928 Score: 81
Period size: 8 Copynumber: 10.1 Consensus size: 8
17590844 AAATAAACTC
17590854 AAAAATT-
1 AAAAATTA
17590861 AAAAATTA
1 AAAAATTA
17590869 AAAAATTA
1 AAAAATTA
17590877 AAAAATT-
1 AAAAATTA
17590884 -AAAATT-
1 AAAAATTA
17590890 AAAAA-TA
1 AAAAATTA
17590897 AAAAA-TA
1 AAAAATTA
*
17590904 AAAAAATA
1 AAAAATTA
*
17590912 AAAACTTA
1 AAAAATTA
*
17590920 AAAATTTA
1 AAAAATTA
17590928 A
1 A
17590929 TATTTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
6 7 0.11
7 23 0.38
8 31 0.51
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAATTA
Found at i:17590888 original size:29 final size:29
Alignment explanation
Indices: 17590854--17590925 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
17590844 AAATAAACTC
*
17590854 AAAAATTAAAAATTAAAAAATTAAAAAAT
1 AAAAATTAAAAATTAAAAAATAAAAAAAT
*
17590883 TAAAATTAAAAA-TAAAAAATAAAAAAAT
1 AAAAATTAAAAATTAAAAAATAAAAAAAT
17590911 AAAAACTTAAAAATT
1 AAAAA-TTAAAAATT
17590926 TAATATTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.50
29 18 0.47
30 1 0.03
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (29 bp):
AAAAATTAAAAATTAAAAAATAAAAAAAT
Found at i:17590899 original size:35 final size:36
Alignment explanation
Indices: 17590837--17590922 Score: 113
Period size: 35 Copynumber: 2.4 Consensus size: 36
17590827 CATTAAATCG
* *
17590837 AAATAAAAAA-TAAACTCAAAAATTAAAAATTAAAA
1 AAATAAAAAATTAAAATCAAAAATTAAAAAATAAAA
* *
17590872 AATTAAAAAATTAAAATTAAAAA-TAAAAAATAAAA
1 AAATAAAAAATTAAAATCAAAAATTAAAAAATAAAA
*
17590907 AAATAAAAACTTAAAA
1 AAATAAAAAATTAAAA
17590923 ATTTAATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
35 34 0.77
36 10 0.23
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (36 bp):
AAATAAAAAATTAAAATCAAAAATTAAAAAATAAAA
Found at i:17591020 original size:18 final size:16
Alignment explanation
Indices: 17590999--17591036 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
17590989 TCCAAAAGAG
17590999 AAAAATAAAAAATATGTT
1 AAAAATAAAAAA-AT-TT
17591017 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
17591033 AAAA
1 AAAA
17591037 TTAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:17596120 original size:19 final size:19
Alignment explanation
Indices: 17596098--17596138 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17596088 TTTATTGATA
17596098 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
17596116 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
17596135 TTTT
1 TTTT
17596139 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:17609501 original size:27 final size:27
Alignment explanation
Indices: 17609421--17609508 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
17609411 CTAGACTCCT
* *
17609421 TTATGTGATAAAATGACTATTTTGCCT
1 TTATGTGGTAAAATGACTATTTTGCCC
* *
17609448 TTATATGGTAAGATGACTATTTTGCCC
1 TTATGTGGTAAAATGACTATTTTGCCC
*
17609475 TTATGTGGTAAAATGACTGTTTTGCCC
1 TTATGTGGTAAAATGACTATTTTGCCC
*
17609502 CTATGTG
1 TTATGTG
17609509 ATATATGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (27 bp):
TTATGTGGTAAAATGACTATTTTGCCC
Found at i:17613235 original size:36 final size:36
Alignment explanation
Indices: 17613188--17613267 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
17613178 CCCCTAAGTG
17613188 TACCTTCCAATCTCACCGCCTTTTATCTCATTCTCT
1 TACCTTCCAATCTCACCGCCTTTTATCTCATTCTCT
*
17613224 TACCTTCCAATCTCACTGCCTTTTATCTCATTCTCT
1 TACCTTCCAATCTCACCGCCTTTTATCTCATTCTCT
17613260 TACCTTCC
1 TACCTTCC
17613268 TTATCTCTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.16, C:0.39, G:0.03, T:0.42
Consensus pattern (36 bp):
TACCTTCCAATCTCACCGCCTTTTATCTCATTCTCT
Found at i:17619973 original size:20 final size:20
Alignment explanation
Indices: 17619948--17619987 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17619938 ACTTACCCTT
17619948 AGGTCTTAAGTTTGAAACCC
1 AGGTCTTAAGTTTGAAACCC
17619968 AGGTCTTAAGTTTGAAACCC
1 AGGTCTTAAGTTTGAAACCC
17619988 TTGTGCACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
AGGTCTTAAGTTTGAAACCC
Found at i:17621296 original size:21 final size:21
Alignment explanation
Indices: 17621272--17621347 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
17621262 AAAATAGGGC
17621272 ACACGCCAGTGTGGAAGGGTA
1 ACACGCCAGTGTGGAAGGGTA
* *
17621293 ACACACCCGTGTGGAAGGGTA
1 ACACGCCAGTGTGGAAGGGTA
*
17621314 ACACACCCA-TGTGGAAGGGTA
1 ACAC-GCCAGTGTGGAAGGGTA
* *
17621335 ATACGCCCGTGTG
1 ACACGCCAGTGTG
17621348 ATCATTTCGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.33, T:0.16
Consensus pattern (21 bp):
ACACGCCAGTGTGGAAGGGTA
Found at i:17622529 original size:47 final size:48
Alignment explanation
Indices: 17622459--17622683 Score: 168
Period size: 47 Copynumber: 4.8 Consensus size: 48
17622449 TAAGGTGCCA
*
17622459 ATGCCATGTCCCAGATATAGTCTTACACTGGCTCAT-ATCTC-AAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCGAAGTCG
* * * * *
17622506 ATGCCATGTCCCAGACATGGTCTTATATTGACT-ATCATGTCGTAG-CTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCGAAGTC-G
* ** *
17622554 ATG-CATGTCCCAGACATGTCTTACACTGGCTTA-CGCCTCGAAGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCGAAGTCG
* * * * *
17622600 ATG-CATATCCTAGACATGTCTCACACTAGAC-C-TCGTCTC-AATGTCG
1 ATGCCATGTCCCAGACATGTCTTACACT-GGCTCATCATCTCGAA-GTCG
17622646 ATGCCATGTCCC-GCACATGGTCTTACACTGGCTC-TCAT
1 ATGCCATGTCCCAG-ACAT-GTCTTACACTGGCTCATCAT
17622684 AATATGGCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
45 2 0.01
46 56 0.40
47 63 0.45
48 19 0.14
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCGAAGTCG
Found at i:17628917 original size:21 final size:21
Alignment explanation
Indices: 17628893--17628947 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
17628883 AAAATAGGGC
17628893 ACACGCCAGTGTGGAAGGGTA
1 ACACGCCAGTGTGGAAGGGTA
*
17628914 ACACACCCA-TGTGGAAGGGTA
1 ACAC-GCCAGTGTGGAAGGGTA
*
17628935 ACACGCCCGTGTG
1 ACACGCCAGTGTG
17628948 ATCATTTCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 24 0.83
22 3 0.10
ACGTcount: A:0.27, C:0.25, G:0.33, T:0.15
Consensus pattern (21 bp):
ACACGCCAGTGTGGAAGGGTA
Found at i:17630161 original size:47 final size:44
Alignment explanation
Indices: 17630063--17630224 Score: 139
Period size: 47 Copynumber: 3.5 Consensus size: 44
17630053 GTGCCAATGT
* * * *
17630063 CATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAG-TCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-ATATGTCGAGCT-GATG
*
17630109 CCATGTCCCAGACATGGTCTTACACTGACTATCATGTCGTAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTAT-ATGTCG-AGCTGATG
* * * *
17630157 CATGTCCCATACATATCTTACACTGGCT-TATGCCGAGGCTGATT
1 CATGTCCCAGACATGTCTTACACTGGCTATATGTCGA-GCTGATG
* *
17630201 CATGTCCCAAACATGTCTCACACT
1 CATGTCCCAGACATGTCTTACACT
17630225 AGCCCTCATC
Statistics
Matches: 98, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.33
45 1 0.01
46 14 0.14
47 44 0.45
48 5 0.05
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTATATGTCGAGCTGATG
Found at i:17630205 original size:44 final size:46
Alignment explanation
Indices: 17630110--17630224 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 46
17630100 AAGTCAATGC
* *
17630110 CATGTCCCAGACATGGTCTTACACTGACTATCATGTCGTAGCTGATG
1 CATGTCCCAAACAT-GTCTTACACTGACTATCATGCCGTAGCTGATG
* * * *
17630157 CATGTCCCATACATATCTTACACTGGCT-T-ATGCCG-AGGCTGATT
1 CATGTCCCAAACATGTCTTACACTGACTATCATGCCGTA-GCTGATG
*
17630201 CATGTCCCAAACATGTCTCACACT
1 CATGTCCCAAACATGTCTTACACT
17630225 AGCCCTCATC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 1 0.02
44 32 0.54
45 1 0.02
46 12 0.20
47 13 0.22
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTGACTATCATGCCGTAGCTGATG
Found at i:17633427 original size:40 final size:40
Alignment explanation
Indices: 17633361--17633511 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
17633351 AAATTGAATG
* * *
17633361 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
17633400 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
17633440 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
17633480 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
17633512 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:17633525 original size:40 final size:40
Alignment explanation
Indices: 17633398--17633527 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
17633388 ATGCTGGAAA
* * *
17633398 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
17633438 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
17633478 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
17633518 TTATATCCGG
1 TTATATCCGG
17633528 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:17646356 original size:41 final size:41
Alignment explanation
Indices: 17646311--17646428 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
17646301 TGAAAGATAA
17646311 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
17646352 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17646382 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17646423 ATGTAG
1 ATGTAG
17646429 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:17646367 original size:71 final size:71
Alignment explanation
Indices: 17646279--17646442 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17646269 GAGATGTATC
17646279 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17646344 AGGACA
66 AGGACA
17646350 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17646415 AGGACA
66 AGGACA
17646421 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
17646443 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Done.