Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 32 of 295
Found at i:9530801 original size:37 final size:38
Alignment explanation
Indices: 9530760--9530835 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
9530750 ACAATTCGAC
* * *
9530760 GTGATACTG-TTCTGGCCTTTGGGCATATCACTTTGGT
1 GTGATACTGTTTCTGGCCTTCGGGCATAGCACTTCGGT
* *
9530797 GTGATATTGTTTTTGGCCTTCGGGCATAGCACTTCGGT
1 GTGATACTGTTTCTGGCCTTCGGGCATAGCACTTCGGT
9530835 G
1 G
9530836 CGTTTTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.13, C:0.18, G:0.29, T:0.39
Consensus pattern (38 bp):
GTGATACTGTTTCTGGCCTTCGGGCATAGCACTTCGGT
Found at i:9531843 original size:21 final size:22
Alignment explanation
Indices: 9531819--9531862 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9531809 AATTAAGTTT
*
9531819 AAATTGA-TACAAATTCAAAGA
1 AAATTGAGTACAAAGTCAAAGA
* *
9531840 AAATTTAGTACAAAGTCTAAGA
1 AAATTGAGTACAAAGTCAAAGA
9531862 A
1 A
9531863 TGAGCAATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (22 bp):
AAATTGAGTACAAAGTCAAAGA
Found at i:9535432 original size:12 final size:12
Alignment explanation
Indices: 9535411--9535450 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
9535401 AATAAAAATA
9535411 TTATATTTAATT
1 TTATATTTAATT
9535423 TTAT-TATTAATT
1 TTATAT-TTAATT
9535435 ATTATATTTAATT
1 -TTATATTTAATT
9535448 TTA
1 TTA
9535451 CAAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.04
12 13 0.52
13 10 0.40
14 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATTTAATT
Found at i:9536002 original size:19 final size:19
Alignment explanation
Indices: 9535960--9535996 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9535950 TGAAAAAATA
9535960 TTTTATAGAAAATTATAAT
1 TTTTATAGAAAATTATAAT
9535979 TTTTAT-GAAAATT-TAAT
1 TTTTATAGAAAATTATAAT
9535996 T
1 T
9535997 AATTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTATAGAAAATTATAAT
Found at i:9536019 original size:22 final size:22
Alignment explanation
Indices: 9535992--9536035 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9535982 TATGAAAATT
** *
9535992 TAATTAATTTAAATATTTAAAA
1 TAATTAAAATAAAAATTTAAAA
9536014 TAATTAAAATAAAAATTTAAAA
1 TAATTAAAATAAAAATTTAAAA
9536036 ATTTGACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATTAAAATAAAAATTTAAAA
Found at i:9539015 original size:28 final size:27
Alignment explanation
Indices: 9538945--9539016 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
9538935 ATGGTTTAAC
* *
9538945 ATAAATAACGTAT-AAAAATATTTAGA
1 ATAAATAATGTATAAAAAAAATTTAGA
*
9538971 ATAAATAATATGA-AAAAAGAAATTT-GAA
1 ATAAATAATGT-ATAAAAA-AAATTTAG-A
9538999 ATAAATAATGTATAAAAA
1 ATAAATAATGTATAAAAA
9539017 CTGTCTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 9 0.24
27 7 0.19
28 21 0.57
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.28
Consensus pattern (27 bp):
ATAAATAATGTATAAAAAAAATTTAGA
Found at i:9539080 original size:24 final size:24
Alignment explanation
Indices: 9539053--9539136 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 24
9539043 ATGAATAATC
*
9539053 TAAAATAAATAATATATAAAAGTT
1 TAAAATAAATAATATATAATAGTT
*
9539077 T---A-AAGT-ATATA-AATAGTT
1 TAAAATAAATAATATATAATAGTT
**
9539095 TCAAAATAAATAAGGTATAATAGTT
1 T-AAAATAAATAATATATAATAGTT
*
9539120 TGAAATAAATAATATAT
1 TAAAATAAATAATATAT
9539137 GTAGAATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
18 7 0.16
19 5 0.11
20 3 0.07
21 1 0.02
22 1 0.02
23 3 0.07
24 17 0.38
25 8 0.18
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (24 bp):
TAAAATAAATAATATATAATAGTT
Found at i:9539956 original size:46 final size:46
Alignment explanation
Indices: 9539889--9540163 Score: 451
Period size: 46 Copynumber: 6.0 Consensus size: 46
9539879 GTGTGCTCTC
**
9539889 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
9539935 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
9539981 TGACATGAAAAGAATAAGACCATGGTTGAAAAATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
** *
9540027 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
9540073 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
9540119 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
9540164 ATGACAGGAA
Statistics
Matches: 213, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:9540136 original size:138 final size:138
Alignment explanation
Indices: 9539888--9540163 Score: 534
Period size: 138 Copynumber: 2.0 Consensus size: 138
9539878 AGTGTGCTCT
*
9539888 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
9539953 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAAATACC
66 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAAATACC
9540018 ATGGCAAC
131 ATGGCAAC
9540026 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
*
9540091 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAAATACC
9540156 ATGGCAAC
131 ATGGCAAC
9540164 ATGACAGGAA
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAAATACC
ATGGCAAC
Found at i:9540169 original size:46 final size:46
Alignment explanation
Indices: 9539903--9540211 Score: 429
Period size: 46 Copynumber: 6.6 Consensus size: 46
9539893 ATGAAATGTG
* *
9539903 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
9539949 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * * **
9539995 TAAGACCATGGTTGAAAAATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
9540041 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
9540087 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
9540133 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAGTGAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA---AA-GAA
* * *
9540183 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
9540212 TCATGTCAAA
Statistics
Matches: 239, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
46 209 0.87
49 2 0.01
50 28 0.12
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:9556109 original size:125 final size:124
Alignment explanation
Indices: 9555714--9556125 Score: 371
Period size: 125 Copynumber: 3.2 Consensus size: 124
9555704 TAGAGGTTCA
* * * * * * *
9555714 AGAAATTGTGCCAAATCTTGCTGGGTTTTAATTTTTTCGTTCAACTAAAGTACGTAATATCCTTT
1 AGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTTCATTCGACTAAA-TACGAAATATCCTTT
* * * *
9555779 GGAAATTTCGTCCATGCTTT-TTAAAATTAAAATGAGGTAATATTTCGTATTTGGGGAGTTTG
65 TGTAATTTCATCCATG-TTTCTT-AAATTAAAATGAGGCAATATTTCGTATTT-GGGAGTTTG
* * * * *
9555841 AGAGATCATGCCCAATCGTGTTGGGTTTCAATTTTTTTTTCATTCGACTAAAATATGGAATATCC
1 AGAAATCGTGCCCAATCGTGCTGGGTTTCAA---TTTTTTCATTCGACT-AAATACGAAATAT-C
* * * ** * *
9555906 CTTTTTTTTTAATTTTATCCATGTTTTCTTAAACTAAAGCGATGCAATATTTCGTGTTT-GGAGG
61 C---TTTTGTAATTTCATCCATG-TTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGGA-G
9555970 TTTG
121 TTTG
* *
9555974 AGAGATCGTGCCCAATCGTGCTGGGTTTCGA-TTTTTCATTCGACTAAGATACGAAATATCCTTT
1 AGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTTCATTCGACTAA-ATACGAAATATCCTTT
* * * * *
9556038 TGTCATTTCATCCATGTGTTCTTAAATTAAAATGAGGCAATGTTTCGCATTTGGGAATTCG
65 TGTAATTTCATCCATGT-TTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGGAGTTTG
* *
9556099 ATAAATCGTGCCCAATTGTGCTGGGTT
1 AGAAATCGTGCCCAATCGTGCTGGGTT
9556126 GCGATTTACC
Statistics
Matches: 229, Mismatches: 43, Indels: 28
0.76 0.14 0.09
Matches are distributed among these distances:
124 1 0.00
125 70 0.31
126 3 0.01
127 24 0.10
128 4 0.02
129 23 0.10
130 21 0.09
131 5 0.02
132 3 0.01
133 33 0.14
134 40 0.17
135 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (124 bp):
AGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTTCATTCGACTAAATACGAAATATCCTTTT
GTAATTTCATCCATGTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGGAGTTTG
Found at i:9557427 original size:24 final size:26
Alignment explanation
Indices: 9557376--9557428 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 26
9557366 TTGAAAAATA
9557376 TTTAAATATATTAAATGAATTAAATAAT
1 TTTAAATATA-TAAAT-AATTAAATAAT
*
9557404 TTTAAATATA-AAAT-ATTAATTAAT
1 TTTAAATATATAAATAATTAAATAAT
9557428 T
1 T
9557429 ATATAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 10 0.42
26 4 0.17
28 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTAAATATATAAATAATTAAATAAT
Found at i:9560126 original size:38 final size:39
Alignment explanation
Indices: 9560072--9560160 Score: 110
Period size: 38 Copynumber: 2.3 Consensus size: 39
9560062 GAAATCTTAG
9560072 AATT-TTTTTATATTTTTAATAA-TTTTAAAATTTTTAA
1 AATTATTTTTATATTTTTAATAATTTTTAAAATTTTTAA
* * * *
9560109 AATTATTTTTATTTTTTTCATAATTTTTGAATTTTTTAA
1 AATTATTTTTATATTTTTAATAATTTTTAAAATTTTTAA
9560148 AATGTATATTTTA
1 AAT-TAT-TTTTA
9560161 AATTGTTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
37 4 0.09
38 16 0.36
39 16 0.36
40 3 0.07
41 5 0.11
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (39 bp):
AATTATTTTTATATTTTTAATAATTTTTAAAATTTTTAA
Found at i:9560660 original size:22 final size:21
Alignment explanation
Indices: 9560632--9560675 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
9560622 AAATTTATAG
9560632 AATATATAAATATTAAAAATTA
1 AATATATAAATA-TAAAAATTA
* *
9560654 AATATATTAATATATAAATTA
1 AATATATAAATATAAAAATTA
9560675 A
1 A
9560676 GAAAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATATATAAATATAAAAATTA
Found at i:9568832 original size:27 final size:25
Alignment explanation
Indices: 9568779--9568938 Score: 96
Period size: 25 Copynumber: 6.4 Consensus size: 25
9568769 TTCATATTCG
* *
9568779 GGGAATGCTCATATGAACACATA-AAC
1 GGGAA-GCTCATCTGAGC-CATATAAC
*
9568805 GGGAAGCTCTCTCTCGAGCCATATAAC
1 GGGAAGCTC-ATCT-GAGCCATATAAC
* * *
9568832 GAGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATCTGAGCCATATAAC
** * **
9568857 GGGAAGCTTGTCTGGGCTGTATAAC
1 GGGAAGCTCATCTGAGCCATATAAC
* *
9568882 GAGAAGCTCAT-TAGAGCCATA-ATC
1 GGGAAGCTCATCT-GAGCCATATAAC
*
9568906 AGGAAGCTCATGC-GAGCCA-ATAAC
1 GGGAAGCTCAT-CTGAGCCATATAAC
*
9568930 GGGTAGCTC
1 GGGAAGCTC
9568939 CGAAGAGCTA
Statistics
Matches: 100, Mismatches: 27, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
23 1 0.01
24 27 0.27
25 45 0.45
26 13 0.13
27 14 0.14
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCATCTGAGCCATATAAC
Found at i:9568842 original size:52 final size:50
Alignment explanation
Indices: 9568785--9568892 Score: 119
Period size: 52 Copynumber: 2.1 Consensus size: 50
9568775 TTCGGGGAAT
9568785 GCTCATATGAACACAT-AAACGGGAAGCTCTCTCTCGAGCCATATAACGAGAA
1 GCTCATATGAAC-CATGAAACGGGAAGCT-TCTCT-GAGCCATATAACGAGAA
* * * * * **
9568837 GCTCATGTGAGCCATGTAACGGGAAGCTTGTCTGGGCTGTATAACGAGAA
1 GCTCATATGAACCATGAAACGGGAAGCTTCTCTGAGCCATATAACGAGAA
9568887 GCTCAT
1 GCTCAT
9568893 TAGAGCCATA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 20 0.42
51 7 0.15
52 21 0.44
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (50 bp):
GCTCATATGAACCATGAAACGGGAAGCTTCTCTGAGCCATATAACGAGAA
Found at i:9571881 original size:93 final size:93
Alignment explanation
Indices: 9571708--9572093 Score: 348
Period size: 93 Copynumber: 4.2 Consensus size: 93
9571698 ACATCACTTA
** ** * * ** *
9571708 CTATTAAACTTACCGAGCAGTTTACCTTTTAGGGTGTCTATTTTATAACTTTTGAATTTTGCTAA
1 CTATTAAACTTAGTGAATAGTTTACCTCTTAGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAA
* **
9571773 GCGCCTTGAGTGGCTAGTAGTTCATCTG
66 GCGCCTTAAAAGGCTAGTAGTTCATCTG
* * * *
9571801 CTATTAAACATAGTGAATAGTTTATCTCTTAGAGTGTCTGTTTTATAACTTGTGAATTTTGCTGA
1 CTATTAAACTTAGTGAATAGTTTACCTCTTAGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAA
* *
9571866 GCGTCTTAAAAGGCTAGTAGTTTATCTG
66 GCGCCTTAAAAGGCTAGTAGTTCATCTG
** * * * * * *
9571894 CTAGCAAACTTAGTGAGTAATTTACCT-TTTGAAATGTCTGCTTTATAACATATGAA-TTTGTCT
1 CTATTAAACTTAGTGAATAGTTTACCTCTTAG-AGTGTCTGCTTTATAACTTGTGAATTTTG-CT
* * * * * *
9571957 AAGTGCCTTAAGAGGATAGCAATTCATCTA
64 AAGCGCCTTAAAAGGCTAGTAGTTCATCTG
* * * *
9571987 CTATTAAACTTAGTGACTAGTTTACCTCCTA-AGGTGTTTGCTTTATAACTTGTGAATTTTTCTA
1 CTATTAAACTTAGTGAATAGTTTACCTCTTAGA-GTGTCTGCTTTATAACTTGTGAATTTTGCTA
* ** *
9572051 AGTGCCTTAACAA-TTTAGTAGTTCATTTG
65 AGCGCCTTAA-AAGGCTAGTAGTTCATCTG
9572080 CTATTAAACTTAGT
1 CTATTAAACTTAGT
9572094 CACATGATAG
Statistics
Matches: 233, Mismatches: 54, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
92 8 0.03
93 220 0.94
94 5 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (93 bp):
CTATTAAACTTAGTGAATAGTTTACCTCTTAGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAA
GCGCCTTAAAAGGCTAGTAGTTCATCTG
Found at i:9572072 original size:186 final size:186
Alignment explanation
Indices: 9571749--9572093 Score: 417
Period size: 186 Copynumber: 1.9 Consensus size: 186
9571739 GGGTGTCTAT
* * * * * * * *
9571749 TTTATAACTTTTGAATTTTGCTAAGCGCCTTGAGTGGCTAGTAGTTCATCTGCTATTAAACATAG
1 TTTATAACATATGAATTTTGCTAAGCGCCTTAAGAGGATAGCAATTCATCTACTATTAAACATAG
* * * * *
9571814 TGAATAGTTTATCTCTTAGAGTGTCTGTTTTATAACTTGTGAATTTTGCTGAGCGTCTTAAAAGG
66 TGAATAGTTTACCTCTAAGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAAGCGCCTTAAAAGG
*
9571879 CTAGTAGTTTATCTGCTAGCAAACTTAGTGAGTAATTTACCTTTTGAAATGTCTGC
131 CTAGTAGTTCATCTGCTAGCAAACTTAGTGAGTAATTTACCTTTTGAAATGTCTGC
* *
9571935 TTTATAACATATGAA-TTTGTCTAAGTGCCTTAAGAGGATAGCAATTCATCTACTATTAAACTTA
1 TTTATAACATATGAATTTTG-CTAAGCGCCTTAAGAGGATAGCAATTCATCTACTATTAAACATA
* * * *
9571999 GTGACTAGTTTACCTCCTAAG-GTGTTTGCTTTATAACTTGTGAATTTTTCTAAGTGCCTTAACA
65 GTGAATAGTTTACCT-CTAAGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAAGCGCCTTAA-A
** * **
9572063 A-TTTAGTAGTTCATTTGCTATTAAACTTAGT
128 AGGCTAGTAGTTCATCTGCTAGCAAACTTAGT
9572094 CACATGATAG
Statistics
Matches: 131, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
185 4 0.03
186 121 0.92
187 6 0.05
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (186 bp):
TTTATAACATATGAATTTTGCTAAGCGCCTTAAGAGGATAGCAATTCATCTACTATTAAACATAG
TGAATAGTTTACCTCTAAGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAAGCGCCTTAAAAGG
CTAGTAGTTCATCTGCTAGCAAACTTAGTGAGTAATTTACCTTTTGAAATGTCTGC
Found at i:9574149 original size:59 final size:59
Alignment explanation
Indices: 9574075--9574208 Score: 214
Period size: 59 Copynumber: 2.3 Consensus size: 59
9574065 AAATTATGGA
* *
9574075 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGATTTTTAAAATTGGTCAAT
1 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
* * *
9574134 TTTAGTCATTGTACTTAATTTGATCAATTTTGGCCCTTGGACTTTTAAAATTGATCAAT
1 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
*
9574193 TTTAGTCCTTATACTT
1 TTTAGTCATTATACTT
9574209 TTCAAAATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 68 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (59 bp):
TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
Found at i:9574162 original size:28 final size:28
Alignment explanation
Indices: 9574075--9574164 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
9574065 AAATTATGGA
*
9574075 TTTAGTCATTATACTTAATTTGATCAAT
1 TTTAGTCATTGTACTTAATTTGATCAAT
* * * ** * *
9574103 TGTAGCCCTTGGATTTTTAAAATTGGTCAAT
1 TTTAGTCATT-G-TACTT-AATTTGATCAAT
9574134 TTTAGTCATTGTACTTAATTTGATCAAT
1 TTTAGTCATTGTACTTAATTTGATCAAT
9574162 TTT
1 TTT
9574165 GGCCCTTGGA
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
28 20 0.45
29 3 0.07
30 4 0.09
31 17 0.39
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (28 bp):
TTTAGTCATTGTACTTAATTTGATCAAT
Found at i:9574191 original size:31 final size:31
Alignment explanation
Indices: 9574094--9574232 Score: 124
Period size: 31 Copynumber: 4.6 Consensus size: 31
9574084 TATACTTAAT
* *
9574094 TTGATCAATTGTAGCCCTTGGATTTTTAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
* * * * *
9574125 TTGGTCAATTTTAGTCATTGTAC--TT-AAT
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
*
9574153 TTGATCAATTTTGGCCCTTGGACTTTTAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
* **
9574184 TTGATCAATTTTAGTCCTTATACTTTTCAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTT-AAAA
* *
9574216 TTTA-AAATTTTAGCCCT
1 TTGATCAATTTTAGCCCT
9574233 GACCGAAACA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
28 20 0.24
29 2 0.02
30 2 0.02
31 53 0.63
32 7 0.08
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.45
Consensus pattern (31 bp):
TTGATCAATTTTAGCCCTTGGACTTTTAAAA
Found at i:9578023 original size:3 final size:3
Alignment explanation
Indices: 9578015--9578043 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9578005 ACTAAATTCT
9578015 CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
9578044 TCCTCCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:9578485 original size:6 final size:6
Alignment explanation
Indices: 9578474--9578499 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9578464 AGGTGGAGCA
9578474 CCACCT CCACCT CCACCT CCACCT CC
1 CCACCT CCACCT CCACCT CCACCT CC
9578500 TGGAGGCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (6 bp):
CCACCT
Found at i:9578528 original size:36 final size:36
Alignment explanation
Indices: 9578483--9578569 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
9578473 ACCACCTCCA
9578483 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
1 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
*
9578519 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCTAGGC
1 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
9578555 CCTCCACCTCCACCT
1 CCTCCACCTCCACCT
9578570 AGAGCTCCCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.14, C:0.52, G:0.18, T:0.16
Consensus pattern (36 bp):
CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
Found at i:9583688 original size:188 final size:188
Alignment explanation
Indices: 9583371--9583750 Score: 760
Period size: 188 Copynumber: 2.0 Consensus size: 188
9583361 TATAGTGGAA
9583371 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
1 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
9583436 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
66 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
9583501 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
131 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
9583559 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
1 TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
9583624 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
66 TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
9583689 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
131 ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
9583747 TATT
1 TATT
9583751 CGTCTAGAGA
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 192 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (188 bp):
TATTAATAAAAGAATATGGTTAGAAACAATAAATTCCTATTTGAAAGTTCCTTCAGATAATCATC
TTCATCTTACATGGTAGTTCTTTCTGATTGAAACACCATTAGGTCTTATATAATATTCTGATGCA
ATAGAGTGAGCATTTGTTATGGCTTTGTCACCTACACCAAACACTGTCAACTGCTTTT
Found at i:9587370 original size:7 final size:8
Alignment explanation
Indices: 9587350--9587376 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9587340 TATAAACTAT
9587350 TAAAAAGG
1 TAAAAAGG
9587358 TAAAAAGG
1 TAAAAAGG
9587366 TAAAAAGG
1 TAAAAAGG
9587374 TAA
1 TAA
9587377 TTATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (8 bp):
TAAAAAGG
Found at i:9591381 original size:15 final size:15
Alignment explanation
Indices: 9591354--9591387 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9591344 AAATAAAATA
9591354 AAATAAGTAATGTAT
1 AAATAAGTAATGTAT
9591369 GAAATAA-TAATGTAT
1 -AAATAAGTAATGTAT
9591384 AAAT
1 AAAT
9591388 GAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
AAATAAGTAATGTAT
Found at i:9592353 original size:18 final size:18
Alignment explanation
Indices: 9592321--9592355 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9592311 CGTGGATTCG
* *
9592321 AATGAAAAGGGAGAAAAA
1 AATGAAAAAGAAGAAAAA
9592339 AATGAAAAAGAAGAAAA
1 AATGAAAAAGAAGAAAA
9592356 CGGAATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (18 bp):
AATGAAAAAGAAGAAAAA
Found at i:9593298 original size:177 final size:177
Alignment explanation
Indices: 9593081--9593565 Score: 545
Period size: 177 Copynumber: 2.7 Consensus size: 177
9593071 GGAAATATGG
* * *
9593081 CTGGTGACTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCAATCTGCTC
1 CTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCTC
* * *
9593146 CACTATTGCTTAGAGAGATAAGATCTGTAATTTTCAGTCTACTTCC-TTGCTA-TCTTAGGAAGA
66 CACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTAC-TCCGCTGCAACT-TTAGGAAGA
* *
9593209 TAAGACTTGTATCTTCAACCTACTCTC-TTGCTACCTCA-GAGAGATAAGA
129 TAAGACTTGTATCTTCAACCTACTC-CACTGCAACCTCAGGA-AGATAAGA
* * *
9593258 CTGGTGGCTAAAATTTAC-CCTATTGCCGATACATGGAGATAAGATTCACCGTCTTTGATCTG-T
1 CTGGTGGCTAAAATCTACTCC-ATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCT
* * * * *
9593321 CCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGA
65 -CCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTCCGCTGCAACTTTAGGAAGA
* * * *
9593386 TAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAGGAAGATAAGG
129 TAAGACTTGTATCTTCAACCTACTCCACTGCAACCTCAGGAAGATAAGA
* * **
9593435 CTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATT-TGTCGTCTTCGATCTGCT
1 CTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACT-GTCTTCGATCTGCT
* * * * * * * * *
9593499 CTACTACTT-CTTAGGGAGATAAAATCTGCAATTTTCAGTATGCTCCACTGTAACTTCAGGGAGA
65 CCACTA-TTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTCCGCTGCAACTTTAGGAAGA
9593563 TAA
129 TAA
9593566 AGCTGGTGGC
Statistics
Matches: 261, Mismatches: 37, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
176 7 0.03
177 247 0.95
178 7 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (177 bp):
CTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCTC
CACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTCCGCTGCAACTTTAGGAAGATA
AGACTTGTATCTTCAACCTACTCCACTGCAACCTCAGGAAGATAAGA
Found at i:9593387 original size:45 final size:44
Alignment explanation
Indices: 9593332--9593433 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
9593322 CCACTACTGC
** *
9593332 TTAGGGAGATAAGA-TCCGTAATCTTCAGTCTGCTCCGCTGCAACT
1 TTAGGGAGATAAGACT-CGT-ATCTTCAACCTGCTCCACTGCAACT
* *
9593377 TTAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACT
1 TTAGGGAGATAAGACTCGTATCTTCAACCTGCTCCACTGCAACT
* *
9593421 TCAGGAAGATAAG
1 TTAGGGAGATAAG
9593434 GCTGGTGGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.65
45 16 0.33
46 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
TTAGGGAGATAAGACTCGTATCTTCAACCTGCTCCACTGCAACT
Found at i:9593453 original size:44 final size:44
Alignment explanation
Indices: 9593360--9593456 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
9593350 TAATCTTCAG
* * * * * *
9593360 TCTGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTAGCTTAAA
* * *
9593404 CCTGCTCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTAAA
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTAGCTTAAA
9593448 TCTGCTCCA
1 TCTGCTCCA
9593457 TTGCCGATAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTAGCTTAAA
Found at i:9593543 original size:133 final size:133
Alignment explanation
Indices: 9593406--9593697 Score: 437
Period size: 133 Copynumber: 2.2 Consensus size: 133
9593396 ATCTTGAACC
* * *
9593406 TGCTCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGA-TACATG
1 TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCC-ACTACATG
* * *
9593470 GAGATAAGATTTG-TCGTCTTCGATCTGC-TCTACTACTTCTTAGGGAGATAAAATCTGCAATTT
65 GAGATAAGATTTGCT-GTCTTCGATCTACTTC-ACTACTGCTTAAGGAGATAAAATCTGCAATTT
9593533 TCAGTA
128 TCAGTA
*
9593539 TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATTGCCACTACATGG
1 TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATGG
* *
9593604 AGATAAGATTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCA
66 AGATAAGATTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAAATCTGCAATTTTCA
*
9593669 GTC
131 GTA
*
9593672 TGCTCCACTGTAACTTTAGGGAGATA
1 TGCTCCACTGTAACTTCAGGGAGATA
9593698 CGACTTGTAT
Statistics
Matches: 145, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
132 1 0.01
133 141 0.97
134 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (133 bp):
TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATGG
AGATAAGATTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAAATCTGCAATTTTCA
GTA
Found at i:9593610 original size:177 final size:173
Alignment explanation
Indices: 9593070--9593610 Score: 543
Period size: 177 Copynumber: 3.1 Consensus size: 173
9593060 CTCTATCTCA
* * * *
9593070 AGGAAATATGGCTGGTGACTAAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TTCACTGTC
1 AGGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTAAC-GTC
* * * *
9593134 TTCAATCTGCTCCACTA-TTGCTTAGAGAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTA
65 TTCGATCTGCTCCACTACTT-CTTAGGGAGATAAGATCTGTAATTTTCAGTCTGC-TCCCTG-TA
* * * * * *
9593198 TCTTAGGAAGATAAGACTTGTATCTTCAACCTACTCTCTTGCTACCTC
127 ACTTAGGGAGATAAGACTTGTATCTTAAACCTGCTCTATTGC-AACTC
* * * * *
9593246 AGAGAGATAAGACTGGTGGCTAAAATTTAC-CCTATTGCCGATACATGGAGATAAGATTCACCGT
1 AG-GAGATAAGGCTGGTGGCTAAAATCTGCTCC-ATTGCCGATACATGGAGATAAGATTTAACGT
* * * * *
9593310 CTTTGATCTG-TCCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCAGTCTGCTCCGCTGCA
64 CTTCGATCTGCT-CCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCC-CTGTA
* * *
9593374 ACTTTAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTC
127 AC-TTAGGGAGATAAGACTTGTATCTTAAACCTGCTCTATTGCAAC-TC
* **
9593423 AGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGTCGTC
1 AGG-AGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTAACGTC
* * * *
9593488 TTCGATCTGCTCTACTACTTCTTAGGGAGATAAAATCTGCAATTTTCAGTATGCTCCACTGTAAC
65 TTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCC-CTGTAAC
* ** * *
9593553 TTCAGGGAGATAA-AGCTGGTGGCTTAAATCTGCTCTATTGCCACTAC
129 TT-AGGGAGATAAGA-CTTGTATCTTAAACCTGCTCTATTGCAACT-C
9593600 ATGGAGATAAG
1 A-GGAGATAAG
9593611 ATTTGCTGTC
Statistics
Matches: 299, Mismatches: 51, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
176 17 0.06
177 274 0.92
178 8 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (173 bp):
AGGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTAACGTCT
TCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCCCTGTAACTT
AGGGAGATAAGACTTGTATCTTAAACCTGCTCTATTGCAACTC
Found at i:9593639 original size:310 final size:309
Alignment explanation
Indices: 9593239--9594007 Score: 948
Period size: 310 Copynumber: 2.5 Consensus size: 309
9593229 TACTCTCTTG
* * * * *
9593239 CTACCTCAGAGAGAT-AAGACTGGTGGCTAAAATTTACCCTATTGCCGA-TACATGGAGATAAGA
1 CTACTTCAGGGAGATAAAG-CTGGTGGCTTAAATCT-GCCTATTGCCGACTACATGGAGATAAGA
* * * * *
9593302 TTCACCGTCTTTGATCTGTCCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCAGTCTGCTC
64 TTCGCCGTCTTCGATCTCT-TCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCTC
* *
9593367 CGCTGCAACTTTAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTC-AGGAAGAT
128 CACTGCAACTTTAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGG-AGAT
*
9593431 AAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGTCGTCTTCGATCT
192 AAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCGTCTTCGATCT
* ** *
9593496 GCTCTACTACTT-CTTAGGGAGATAAAATCTGCAATTTTCAGTATGCTCCACT-
257 GCTCCACTA-TTGCTTAGGGAGATAAAATCTGCAATCATCAGCATGCTCCACTA
*
9593548 GTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATTGCC-ACTACATGGAGATAAGA
1 CT-ACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGC-CTATTGCCGACTACATGGAGATAAGA
* * * *
9593612 TTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGTCTGCTC
64 TTCGCCGTCTTCGATCT-CTTCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCTC
* *
9593677 CACTGTAACTTTAGGGAGATACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATA
128 CACTGCAACTTTAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATA
* * *
9593742 AGGCTTGTGGCTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATTTGCCGTCTTCGATCTG
193 AGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCGTCTTCGATCTG
* * * *
9593807 CTCCACTATTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTGTTCTACTA
258 CTCCACTATTGCTTAGGGAGATAAAATCTGCAATCATCAGCATGCTCCACTA
* * * * * * *
9593859 CTGCTT-AGGAAGATAAGGCTAGTGGCTTAAATCTG-C--TTCCCTACTACCTCGGGAAGATAAG
1 CTACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCCTATTGCCGACTACAT--GG-AGATAAG
* * ** *
9593920 ATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGAGAGATAATATCTAAAATCATCAGTCTGCT
63 ATTCGCCGTCTTCGATCT-CTTCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCT
**
9593985 CCACTGCTGC-TTAGGGAGATAAG
127 CCACTGCAACTTTAGGGAGATAAG
9594008 GCTAGTGGTT
Statistics
Matches: 396, Mismatches: 52, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
305 4 0.01
306 6 0.02
307 1 0.00
308 14 0.04
309 100 0.25
310 263 0.66
311 8 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (309 bp):
CTACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCCTATTGCCGACTACATGGAGATAAGATT
CGCCGTCTTCGATCTCTTCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTGCTCCAC
TGCAACTTTAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATAAGG
CTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCGTCTTCGATCTGCTC
CACTATTGCTTAGGGAGATAAAATCTGCAATCATCAGCATGCTCCACTA
Found at i:9593652 original size:177 final size:176
Alignment explanation
Indices: 9593509--9593846 Score: 428
Period size: 177 Copynumber: 1.9 Consensus size: 176
9593499 CTACTACTTC
* ** * * *
9593509 TTAGGGAGATAAAA-TCTGCAATTTTCAGTATGCTCCACTGTAACTTCAGGGAGATAAAGCTGGT
1 TTAGGGAGATAAAACT-TG-AATCTTCAACATACTCCACTGCAACTTCAAGGAGATAAAGCTGGT
* *
9593573 GGCTTAAATCTGC-TCTATTGCCACTACATGGAGATAAGATTTGCTGTCTTCGATCTACTTCACT
64 GGCTTAAATCTGCTTC-ATTGCCACTACATGGAGATAAGATTTGCCGTCTTCGATCTACTCCACT
*
9593637 ACTGCTTAAGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACTGTAACT
128 ACTGCTTAAGGAGATAAGATCTGTAATCTTCAGTCTGCTCCAC-GTAACT
** * * * * *
9593687 TTAGGGAGATACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATAAGGCTTGTGG
1 TTAGGGAGATAAAACTTGAATCTTCAACATACTCCACTGCAACTTCAAGGAGATAAAGCTGGTGG
* * *
9593752 CTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATTTGCCGTCTTCGATCTGCTCCACTATT
66 CTTAAATCTGCTTCATTGCCACTACATGGAGATAAGATTTGCCGTCTTCGATCTACTCCACTACT
* * *
9593817 GCTTAGGGAGATAAGATCTGCAATCATCAG
131 GCTTAAGGAGATAAGATCTGTAATCTTCAG
9593847 CCTGTTCTAC
Statistics
Matches: 136, Mismatches: 22, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
177 119 0.88
178 16 0.12
179 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (176 bp):
TTAGGGAGATAAAACTTGAATCTTCAACATACTCCACTGCAACTTCAAGGAGATAAAGCTGGTGG
CTTAAATCTGCTTCATTGCCACTACATGGAGATAAGATTTGCCGTCTTCGATCTACTCCACTACT
GCTTAAGGAGATAAGATCTGTAATCTTCAGTCTGCTCCACGTAACT
Found at i:9593739 original size:133 final size:133
Alignment explanation
Indices: 9593406--9593743 Score: 360
Period size: 133 Copynumber: 2.5 Consensus size: 133
9593396 ATCTTGAACC
* * * * * * * * *
9593406 TGCTCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGA-TACATG
1 TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTG-CAACTACAAG
* * *
9593470 GAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTTCTTAGGGAGATAAAATCTGCAATTTTC
65 GAGATAAGATTTGTCGTCTTCGATCTACTCTACTACTGCTTAAGGAGATAAAATCTGCAATTTTC
9593535 AGTA
130 AGTA
* * * * * * *
9593539 TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATTGCCACTACATGG
1 TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAAGG
* *
9593604 AGATAAGATTTG-CTGTCTTCGATCTACT-TCACTACTGCTTAAGGAGATAAGATCTGTAATTTT
66 AGATAAGATTTGTC-GTCTTCGATCTACTCT-ACTACTGCTTAAGGAGATAAAATCTGCAATTTT
*
9593667 CAGTC
129 CAGTA
* * * * * *
9593672 TGCTCCACTGTAACTTTAGGGAGAT-ACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAG
1 TGCTCCACTGTAACTTCAGGGAGATAAAG-CTGGTAGCTTAAACCTACTCCACTGCAACTACAAG
9593736 GAGATAAG
65 GAGATAAG
9593744 GCTTGTGGCT
Statistics
Matches: 177, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
132 6 0.03
133 171 0.97
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (133 bp):
TGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAAGG
AGATAAGATTTGTCGTCTTCGATCTACTCTACTACTGCTTAAGGAGATAAAATCTGCAATTTTCA
GTA
Found at i:9593827 original size:44 final size:44
Alignment explanation
Indices: 9593779--9594236 Score: 209
Period size: 44 Copynumber: 10.4 Consensus size: 44
9593769 GCCGCTACAT
** *
9593779 GGAGATAAGATTTGCCGTCTTCGATCTGCTCCACTATTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
* * * * *
9593823 GGAGATAAGATCTGCAATCATC-AGCCTGTTCTACTACTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGA-TCTGCTCCACTACTGCTTAG
* ** * *** ** * * *
9593867 GAAGATAAGGCTAG-TGGCTTAAATCTGCTTCC-CTACTACCTCG
1 GGAGATAAGATTTGCAATCTTCGATCTGC-TCCACTACTGCTTAG
* ** *
9593910 GGAAGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAG
1 GG-AGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
* * * ** * *
9593955 AGAGATAATATCTAAAATCATC-AGTCTGCTCCACTGCTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGA-TCTGCTCCACTACTGCTTAG
** * *** ** * * * *
9593999 GGAGATAAGGCTAGTGGT-TTAAATCTACTTCC-CTACTACCTCG
1 GGAGATAAGATTTGCAATCTTCGATCTGC-TCCACTACTGCTTAG
* * *
9594042 GGAAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTGCTTAG
1 GG-AGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
* * *
9594087 GGAGATAAGATCTGCAATCTTC-AGCCTGCTTCACTACTGCTTAG
1 GGAGATAAGATTTGCAATCTTCGA-TCTGCTCCACTACTGCTTAG
* * * * **
9594131 GGAGATAAGACTAGTAGT-TTAAATCTGCTTTCCTACTAC--CTT-G
1 GGAGATAAGATTTGCAATCTTCGATCTGC--TCC-ACTACTGCTTAG
* * *
9594174 GGAAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAG
1 GG-AGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
*
9594219 GGAGATAAGATCTGCAAT
1 GGAGATAAGATTTGCAAT
9594237 TTTTACCGGT
Statistics
Matches: 290, Mismatches: 102, Indels: 44
0.67 0.23 0.10
Matches are distributed among these distances:
42 5 0.02
43 42 0.14
44 190 0.66
45 48 0.17
46 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
GGAGATAAGATTTGCAATCTTCGATCTGCTCCACTACTGCTTAG
Found at i:9593876 original size:132 final size:130
Alignment explanation
Indices: 9593735--9594236 Score: 668
Period size: 132 Copynumber: 3.8 Consensus size: 130
9593725 GCAACTTCAA
* * * * *
9593735 GGAGATAAGGCTTGTGGCTTAAATCTGCTTCATTGCC-GCTACAT-GG-AGATAAGATTTGCCGT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTC----CCTACTACCTGGGAAGATAAGATTCGCCAT
*
9593797 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTGTTCTACTACTG
62 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTGTTC-ACTACTG
9593862 CTTAG
126 CTTAG
* *
9593867 GAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAGATAAGATTCGCCATCTT
* * * ** * * *
9593932 CGATCTGCTTCACTACTGCTTAGAGAGATAATATCTAAAATCATCAGTCTGCTCCACTGCTGCTT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTG-TTCACTACTGCTT
9593997 AG
129 AG
* *
9593999 GGAGATAAGGCTAGTGGTTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAGATAAGATTCGCCATCTT
* *
9594064 CGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTTCACTACTGCTT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTG-TTCACTACTGCTT
9594129 AG
129 AG
* * * *
9594131 GGAGATAAGACTAGTAGTTTAAATCTGCTTTCCTACTACCTTGGGAAGATAAGATTCGCCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC-TGGGAAGATAAGATTCGCCATCTT
*
9594196 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAAT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
9594237 TTTTACCGGT
Statistics
Matches: 330, Mismatches: 34, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
128 2 0.01
129 5 0.02
131 2 0.01
132 318 0.96
133 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (130 bp):
GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGAAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTGTTCACTACTGCTTAG
Found at i:9605922 original size:23 final size:25
Alignment explanation
Indices: 9605896--9605949 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
9605886 ATAGAAGATA
*
9605896 TATAATTTTATTA-TTTT-AAAAAT
1 TATAATTTTATAATTTTTAAAAAAT
*
9605919 TATATTTTTATAATTTTTAAAAAAT
1 TATAATTTTATAATTTTTAAAAAAT
9605944 TA-AATT
1 TATAATT
9605950 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 11 0.42
24 7 0.27
25 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAATTTTATAATTTTTAAAAAAT
Found at i:9606451 original size:9 final size:9
Alignment explanation
Indices: 9606435--9606486 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
9606425 GGTATTTTTC
9606435 GGTAATTCG
1 GGTAATTCG
*
9606444 GTTAATTCG
1 GGTAATTCG
*
9606453 GTTAATTCG
1 GGTAATTCG
9606462 GGTAATTCG
1 GGTAATTCG
9606471 GGTAATTCG
1 GGTAATTCG
9606480 GGTAATT
1 GGTAATT
9606487 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:9608288 original size:3 final size:3
Alignment explanation
Indices: 9608280--9608305 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9608270 GGGGAGAGAC
9608280 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
9608306 AGAGGGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9613589 original size:11 final size:11
Alignment explanation
Indices: 9613573--9613599 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9613563 TAAGACATTT
9613573 TCAGCTATAAA
1 TCAGCTATAAA
9613584 TCAGCTATAAA
1 TCAGCTATAAA
9613595 TCAGC
1 TCAGC
9613600 ATCCAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (11 bp):
TCAGCTATAAA
Found at i:9623272 original size:39 final size:40
Alignment explanation
Indices: 9623188--9623272 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
9623178 ACTTAATTCA
* * *
9623188 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9623228 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9623267 TCAGCA
1 CCAGCA
9623273 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:9623449 original size:47 final size:46
Alignment explanation
Indices: 9623343--9623498 Score: 181
Period size: 47 Copynumber: 3.3 Consensus size: 46
9623333 TGCACACTTT
* * * *
9623343 TCACAATTGGTCATTCGGCCTTATCACA-TATTCAATTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATACACTTTCACAT-TCA
** * *
9623389 TCACATTAACCATTCGGCCTTATCTCATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
*
9623436 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
9623483 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
9623499 ATCTTAAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
45 19 0.20
46 5 0.05
47 70 0.74
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATACACTTTCACATTCA
Found at i:9634924 original size:62 final size:62
Alignment explanation
Indices: 9634848--9635045 Score: 308
Period size: 62 Copynumber: 3.2 Consensus size: 62
9634838 TAAGTGTCAC
* *
9634848 ATTAGACATTTTATGAAAGTACAAGTATCAAATAATATACAAATTGATAGTTCAAATA-CTAT
1 ATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAAATATC-AT
**
9634910 ATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATCAT
1 ATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAAATATCAT
* **
9634972 ATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAATTTGATAGTTCAGGTATCAT
1 ATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAAATATCAT
*
9635034 ATTAGATATTTT
1 ATTAGACATTTT
9635046 CGAAGTATTA
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
62 128 0.99
63 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (62 bp):
ATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAAATATCAT
Found at i:9635549 original size:18 final size:19
Alignment explanation
Indices: 9635528--9635564 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9635518 AATGTTGGAA
9635528 AAAAATAGA-ATGAAATTT
1 AAAAATAGATATGAAATTT
*
9635546 AAAAATAGATTTGAAATTT
1 AAAAATAGATATGAAATTT
9635565 CAAATATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAAATAGATATGAAATTT
Found at i:9637220 original size:29 final size:30
Alignment explanation
Indices: 9637170--9637226 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
9637160 TTTTCTCCAT
* *
9637170 TAATTTTTGTTCTTTTTTATAT-TTATTGC
1 TAATTTTTGTTATTTTTAATATGTTATTGC
9637199 TAATTTTT-TTATTTTATAATATGTTATT
1 TAATTTTTGTTATTTT-TAATATGTTATT
9637227 AACATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 13 0.54
30 5 0.21
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (30 bp):
TAATTTTTGTTATTTTTAATATGTTATTGC
Found at i:9638628 original size:31 final size:32
Alignment explanation
Indices: 9638574--9638635 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
9638564 ATTAATCAAT
*
9638574 ATGAGTTATCAAATTAAATTAATCAATTTATC
1 ATGAGTTATCAAATTAAAGTAATCAATTTATC
*
9638606 ATGAGTTAT-AAATTGAAGTAATCAATTTAT
1 ATGAGTTATCAAATTAAAGTAATCAATTTAT
9638636 AAGTTTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATCAATTTATC
Found at i:9642379 original size:3 final size:3
Alignment explanation
Indices: 9642371--9642396 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9642361 TTACTTCTTA
9642371 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
9642397 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:9649156 original size:19 final size:19
Alignment explanation
Indices: 9649132--9649169 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9649122 ATTTATATAA
9649132 ATTTAAAAATTAAAAAATT
1 ATTTAAAAATTAAAAAATT
*
9649151 ATTTAAAAATTATAAAATT
1 ATTTAAAAATTAAAAAATT
9649170 CAGTTCAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTAAAAATTAAAAAATT
Found at i:9649548 original size:22 final size:23
Alignment explanation
Indices: 9649510--9649562 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
9649500 TTAGATTTTT
*
9649510 TAAAA-TATATTTTTATATAATA
1 TAAAATTATATTTCTATATAATA
*
9649532 TAAAATTATA-TTCTATATTATA
1 TAAAATTATATTTCTATATAATA
9649554 -AAAATTATA
1 TAAAATTATA
9649563 AATTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
22 15 0.54
23 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAATTATATTTCTATATAATA
Found at i:9652658 original size:340 final size:340
Alignment explanation
Indices: 9652038--9652721 Score: 1350
Period size: 340 Copynumber: 2.0 Consensus size: 340
9652028 TTTAAATGAA
9652038 ATTGTCGGGACATTAAGTGAGTAATTGTTATATGATGATTTAAAAAAGTATTTGTTAATAAATAT
1 ATTGTCGGGACATTAAGTGAGTAATTGTTATATGATGATTTAAAAAAGTATTTGTTAATAAATAT
9652103 ATGTATTATATGGGTTTAAGTTGATTGGTACATGTGTTGGATTATGTGATTGTTAGAATTAAGTG
66 ATGTATTATATGGGTTTAAGTTGATTGGTACATGTGTTGGATTATGTGATTGTTAGAATTAAGTG
*
9652168 ACTCAAATTCTTATTTAAGTAAAATACAGTGGTAAAATAAAATAAAAGAAGAATCCATATAGAAT
131 ACTCAAATCCTTATTTAAGTAAAATACAGTGGTAAAATAAAATAAAAGAAGAATCCATATAGAAT
9652233 TACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAATTCTATCTATTTAAT
196 TACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAATTCTATCTATTTAAT
9652298 ATTGATTAGAATAAGGTGTTTCAGTCTTACTAGAATATGGCTTTACAAGCCTATAAATAGACATA
261 ATTGATTAGAATAAGGTGTTTCAGTCTTACTAGAATATGGCTTTACAAGCCTATAAATAGACATA
9652363 GTTTATTCCTCTTGT
326 GTTTATTCCTCTTGT
9652378 ATTGTCGGGACATTAAGTGAGTAATTGTTATATGATGATTTAAAAAAGTATTTGTTAATAAATAT
1 ATTGTCGGGACATTAAGTGAGTAATTGTTATATGATGATTTAAAAAAGTATTTGTTAATAAATAT
9652443 ATGTATTATATGGGTTTAAGTTGATTGGTACATGTGTTGGATTATGTGATTGTTAGAATTAAGTG
66 ATGTATTATATGGGTTTAAGTTGATTGGTACATGTGTTGGATTATGTGATTGTTAGAATTAAGTG
*
9652508 ACTCGAATCCTTATTTAAGTAAAATACAGTGGTAAAATAAAATAAAAGAAGAATCCATATAGAAT
131 ACTCAAATCCTTATTTAAGTAAAATACAGTGGTAAAATAAAATAAAAGAAGAATCCATATAGAAT
9652573 TACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAATTCTATCTATTTAAT
196 TACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAATTCTATCTATTTAAT
9652638 ATTGATTAGAATAAGGTGTTTCAGTCTTACTAGAATATGGCTTTACAAGCCTATAAATAGACATA
261 ATTGATTAGAATAAGGTGTTTCAGTCTTACTAGAATATGGCTTTACAAGCCTATAAATAGACATA
9652703 GTTTATTCCTCTTGT
326 GTTTATTCCTCTTGT
9652718 ATTG
1 ATTG
9652722 GAATTCGAAT
Statistics
Matches: 342, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
340 342 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (340 bp):
ATTGTCGGGACATTAAGTGAGTAATTGTTATATGATGATTTAAAAAAGTATTTGTTAATAAATAT
ATGTATTATATGGGTTTAAGTTGATTGGTACATGTGTTGGATTATGTGATTGTTAGAATTAAGTG
ACTCAAATCCTTATTTAAGTAAAATACAGTGGTAAAATAAAATAAAAGAAGAATCCATATAGAAT
TACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAATTCTATCTATTTAAT
ATTGATTAGAATAAGGTGTTTCAGTCTTACTAGAATATGGCTTTACAAGCCTATAAATAGACATA
GTTTATTCCTCTTGT
Found at i:9670669 original size:25 final size:25
Alignment explanation
Indices: 9670611--9670659 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9670601 TTTTGACCAA
9670611 ATAACTTCAACACATAATTTGAAGC
1 ATAACTTCAACACATAATTTGAAGC
9670636 ATAACTTCAACACATAATTTGAAG
1 ATAACTTCAACACATAATTTGAAG
9670660 ATGTTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAACTTCAACACATAATTTGAAGC
Found at i:9678631 original size:6 final size:6
Alignment explanation
Indices: 9678610--9678649 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
9678600 GTTTAAAAAC
* *
9678610 TTTTTA TTTATTA TTTTTA TTTTCA TTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
9678650 ATCTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:9681052 original size:43 final size:43
Alignment explanation
Indices: 9680991--9681079 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
9680981 TCAATTTCCA
9680991 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
1 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
9681034 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
1 TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
9681077 TTC
1 TTC
9681080 TTAGATGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.11, C:0.10, G:0.20, T:0.58
Consensus pattern (43 bp):
TTCAGGGGTTTTGGGTTTTCTTTATGTTTTGTATTCATTATTC
Found at i:9695084 original size:13 final size:13
Alignment explanation
Indices: 9695066--9695092 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9695056 AAACCGAAAA
9695066 CTGATTATCTAAC
1 CTGATTATCTAAC
9695079 CTGATTATCTAAC
1 CTGATTATCTAAC
9695092 C
1 C
9695093 GGTTCGACCA
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:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (13 bp):
CTGATTATCTAAC
Found at i:9703474 original size:21 final size:21
Alignment explanation
Indices: 9703450--9703521 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
9703440 CTAAGAACTA
9703450 TGTGATCTAAACTCATTAAGT
1 TGTGATCTAAACTCATTAAGT
* * ** *
9703471 TGTGGTCT-CACT-AGGAACT
1 TGTGATCTAAACTCATTAAGT
9703490 ATGTGATCTAAACTCATTAAGT
1 -TGTGATCTAAACTCATTAAGT
*
9703512 TGTGGTCTAA
1 TGTGATCTAA
9703522 GTTCATGATA
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.11
20 10 0.27
21 19 0.51
22 4 0.11
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (21 bp):
TGTGATCTAAACTCATTAAGT
Found at i:9703494 original size:41 final size:41
Alignment explanation
Indices: 9703437--9703519 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
9703427 AAGTGACATG
9703437 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
1 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
*
9703478 TCACTAGGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
1 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
9703519 T
1 T
9703520 AAGTTCATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (41 bp):
TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
Found at i:9706076 original size:73 final size:73
Alignment explanation
Indices: 9705990--9706136 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
9705980 TAGGATCATT
* * *
9705990 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTGATGCGGAATTGGAGTTTACCATTAGACA
1 AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
9706055 TGACGAAG
66 TGACGAAG
* *
9706063 AGAATAATATGATTTTCACAAATTTAAGAAATATCTTATGCGGAATTAGAGTTGACCATTAGACT
1 AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
9706128 TGACGAAG
66 TGACGAAG
9706136 A
1 A
9706137 ATGCGAAGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (73 bp):
AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
TGACGAAG
Found at i:9710780 original size:30 final size:30
Alignment explanation
Indices: 9710746--9710809 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
9710736 TACTTATATT
9710746 TTTGGGTAAACTACCAAATAGTCACTTTTG
1 TTTGGGTAAACTACCAAATAGTCACTTTTG
9710776 TTTGGGTAAACTACCAAATAGTCACTTTTG
1 TTTGGGTAAACTACCAAATAGTCACTTTTG
9710806 TTTG
1 TTTG
9710810 ACTCAGGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (30 bp):
TTTGGGTAAACTACCAAATAGTCACTTTTG
Found at i:9710832 original size:31 final size:29
Alignment explanation
Indices: 9710794--9710863 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
9710784 AACTACCAAA
* *
9710794 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
9710825 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
9710854 TAGTCACTTA
1 TAGTCACTTA
9710864 CGTTATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:9714355 original size:40 final size:38
Alignment explanation
Indices: 9714252--9714415 Score: 141
Period size: 35 Copynumber: 4.5 Consensus size: 38
9714242 TCCTCATTGA
** * * *
9714252 AATACCATACCTATATTTTACAACTCGGTATGG--GA-
1 AATACCATACCTACGTTTCAAAACTCAGTATGGATGAT
* * **
9714287 AATGCCATTCCTACGTTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACGTTTCAAAACTCAGTATGGA--TGAT
9714326 AATACCATACCTACGTTTCAAAACTCAGTATGG-T--T
1 AATACCATACCTACGTTTCAAAACTCAGTATGGATGAT
* *
9714361 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
1 AATACCATACCTACGTTTCAAAACTCAGTATGGATGAT
9714399 --T-CCATACCTACGTTTCA
1 AATACCATACCTACGTTTCA
9714416 CACTTTTCCA
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
34 11 0.10
35 61 0.58
36 2 0.02
37 1 0.01
38 3 0.03
39 16 0.15
40 12 0.11
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (38 bp):
AATACCATACCTACGTTTCAAAACTCAGTATGGATGAT
Found at i:9714374 original size:74 final size:74
Alignment explanation
Indices: 9714247--9714415 Score: 179
Period size: 74 Copynumber: 2.4 Consensus size: 74
9714237 GATTTTCCTC
** * * * * * * **
9714247 ATTGA-AATACCATACCTATATTTTACAACTCGGTATGGGAAATGCCATTCCTACGTTT-TTAAC
1 ATTGATAATACCATACCTACGTTTCAAAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
9714310 TCAGTATGG
66 TCAGTATGG
**
9714319 ATTTGATAATACCATACCTACGTTTCAAAACTCAGTATGGTTAATACCATACCTACATTTCACAA
1 A-TTGATAATACCATACCTACGTTTCAAAACTCAGTATGGGAAATACCATACCTACATTTCACAA
9714384 CTCAGTATGG
65 CTCAGTATGG
9714394 A-TGAT--T-CCATACCTACGTTTCA
1 ATTGATAATACCATACCTACGTTTCA
9714416 CACTTTTCCA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
70 16 0.20
71 1 0.01
72 1 0.01
73 8 0.10
74 43 0.52
75 13 0.16
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (74 bp):
ATTGATAATACCATACCTACGTTTCAAAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
TCAGTATGG
Found at i:9715854 original size:26 final size:26
Alignment explanation
Indices: 9715803--9715856 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
9715793 TACATGCTTG
*
9715803 TTAAGTTACATTTATTTTAGTGTTAT
1 TTAAGTTACATTTATTTTAATGTTAT
9715829 TTAAGTATACATATT-TTTTAAT-TTAT
1 TTAAGT-TACAT-TTATTTTAATGTTAT
9715855 TT
1 TT
9715857 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 12 0.48
27 11 0.44
28 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (26 bp):
TTAAGTTACATTTATTTTAATGTTAT
Found at i:9717180 original size:17 final size:17
Alignment explanation
Indices: 9717135--9717195 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 17
9717125 TTATTAATAT
** *
9717135 TTTATTAATTTTAAATA
1 TTTATTAATAATAAAAA
*
9717152 TTT-TTAAAAATAAAAA
1 TTTATTAATAATAAAAA
*
9717168 TTTATTAATAAT-ATAA
1 TTTATTAATAATAAAAA
9717184 TTTATTATATAA
1 TTTATTA-ATAA
9717196 AACTAAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 22 0.61
17 14 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTATTAATAATAAAAA
Found at i:9735696 original size:30 final size:31
Alignment explanation
Indices: 9735622--9735704 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
9735612 GAGAATGTAA
* *
9735622 TGCTCACACAAGCTAACAGTAT-ATTAGGAT
1 TGCTCACACAAGCTGACATTATAATTAGGAT
*
9735652 TGCTCACACAAGCTGACATTATAATT-GGGT
1 TGCTCACACAAGCTGACATTATAATTAGGAT
*
9735682 TGCTCACACAAGCTGTCATTATA
1 TGCTCACACAAGCTGACATTATA
9735705 TTAAAGTTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (31 bp):
TGCTCACACAAGCTGACATTATAATTAGGAT
Found at i:9735931 original size:114 final size:114
Alignment explanation
Indices: 9735731--9735959 Score: 352
Period size: 114 Copynumber: 2.0 Consensus size: 114
9735721 GGGCTAAACC
*
9735731 TACAATACATTTAACTTGAGAATCTGCAACAAATGATGGATCTCATAATAACATATAAATCCCTG
1 TACAATACATTTAACTTGAGAATCTGCAACAAATGATAGATCTCATAATAACATATAAATCCCTG
*
9735796 ATCAAATACGAGTATAACCCTAATGACATGCCATACATATCCTAACCTT
66 ATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCTAACCTT
* * * * * *
9735845 TACAATACATTTAACTTTATAATCTGCAACAAATGCTAGTTCTGATAATAACATGA-AAATCCTT
1 TACAATACATTTAACTTGAGAATCTGCAACAAATGATAGATCTCATAATAACAT-ATAAATCCCT
* *
9735909 GATCAAATATGAGTATAACCCTAATGACATGCCATACACATCCTATCCTT
65 GATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCTAACCTT
9735959 T
1 T
9735960 TACTAAGCTC
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
114 103 0.99
115 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (114 bp):
TACAATACATTTAACTTGAGAATCTGCAACAAATGATAGATCTCATAATAACATATAAATCCCTG
ATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCTAACCTT
Found at i:9739425 original size:19 final size:19
Alignment explanation
Indices: 9739341--9739426 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
9739331 CACTCTCAAT
*
9739341 CATATAAACAGTAATTCATT
1 CATAT-AACAGTAATTCATC
* * * *
9739361 C-GATAATAATAACTCATC
1 CATATAACAGTAATTCATC
* *
9739379 CGTATAAACAGTACTTCATC
1 CATAT-AACAGTAATTCATC
*
9739399 TATATAACAGTAATTCATC
1 CATATAACAGTAATTCATC
*
9739418 CATGTAACA
1 CATATAACA
9739427 CATAGCTTTT
Statistics
Matches: 49, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
18 11 0.22
19 24 0.49
20 14 0.29
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (19 bp):
CATATAACAGTAATTCATC
Found at i:9739651 original size:24 final size:24
Alignment explanation
Indices: 9739620--9739686 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
9739610 AGCTGAAACG
* *
9739620 GTAAGCTCTGATGAGCTGAAAATA
1 GTAAGCTCTTACGAGCTGAAAATA
9739644 GTAAGCTCTTACGAGCTGAAAATA
1 GTAAGCTCTTACGAGCTGAAAATA
9739668 GTAAGCTCTTACGAGCTGA
1 GTAAGCTCTTACGAGCTGA
9739687 TATATCGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTTACGAGCTGAAAATA
Found at i:9742852 original size:8 final size:8
Alignment explanation
Indices: 9742839--9742865 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9742829 GGCTTACACT
9742839 TTATTTTA
1 TTATTTTA
9742847 TTATTTTA
1 TTATTTTA
9742855 TTATTTTA
1 TTATTTTA
9742863 TTA
1 TTA
9742866 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:9746162 original size:13 final size:13
Alignment explanation
Indices: 9746144--9746170 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9746134 TAACTTTCTA
9746144 AAAAATGAAAATG
1 AAAAATGAAAATG
9746157 AAAAATGAAAATG
1 AAAAATGAAAATG
9746170 A
1 A
9746171 CCTGCAAATG
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:9748493 original size:17 final size:17
Alignment explanation
Indices: 9748471--9748545 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 17
9748461 CTTTCTCTCT
9748471 TTTTCTTTTTTATTTTA
1 TTTTCTTTTTTATTTTA
*
9748488 TTTTCTTATTTTGTTCTT-
1 TTTTCTT-TTTTATT-TTA
9748506 TCTATTCTTTTTCTATTTTCA
1 T-T-TTCTTTTT-TATTTT-A
*
9748527 -TTTCTTTATTTGTTTTA
1 TTTTCTTT-TTTATTTTA
9748544 TT
1 TT
9748546 ATTTTATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 17
0.70 0.05 0.26
Matches are distributed among these distances:
17 8 0.17
18 19 0.41
19 11 0.24
20 8 0.17
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTTTATTTTA
Found at i:9748572 original size:13 final size:13
Alignment explanation
Indices: 9748554--9748580 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9748544 TTATTTTATT
9748554 ATAATATAATATA
1 ATAATATAATATA
9748567 ATAATATAATATA
1 ATAATATAATATA
9748580 A
1 A
9748581 CATTTACTTA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:9749562 original size:25 final size:25
Alignment explanation
Indices: 9749512--9749563 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
9749502 TTTGGCTCGA
* *
9749512 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAAAATT
* *
9749537 CATTTATTAGGCAATATCAAAAATT
1 CATTTACTAAGCAATATCAAAAATT
9749562 CA
1 CA
9749564 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAAAATT
Found at i:9764572 original size:24 final size:24
Alignment explanation
Indices: 9764545--9764593 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9764535 GGTTTATTGT
*
9764545 ATTTATCTATTACAATATA-TTAAA
1 ATTTATCT-TTAAAATATATTTAAA
*
9764569 ATTTTTCTTTAAAATATATTTAAA
1 ATTTATCTTTAAAATATATTTAAA
9764593 A
1 A
9764594 AATTGTAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTATCTTTAAAATATATTTAAA
Found at i:9765304 original size:15 final size:15
Alignment explanation
Indices: 9765281--9765310 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9765271 TAAAGGTGGC
9765281 TTTTCTGTTCAAAAG
1 TTTTCTGTTCAAAAG
*
9765296 TTTTTTGTTCAAAAG
1 TTTTCTGTTCAAAAG
9765311 ACAAGGGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (15 bp):
TTTTCTGTTCAAAAG
Found at i:9770535 original size:30 final size:30
Alignment explanation
Indices: 9770499--9770558 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9770489 TCCTGATTAC
9770499 ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
1 ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
*
9770529 ATAGTTTTGGTGAAGTTCCATGGCTTTCTT
1 ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
9770559 GTGGCCTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (30 bp):
ATAGTTTTGGTGAAGTTCCACGGCTTTCTT
Found at i:9774897 original size:19 final size:21
Alignment explanation
Indices: 9774875--9774915 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
9774865 TTTACTTTCT
*
9774875 TTTTGTATTT-TTT-ACACAA
1 TTTTATATTTATTTAACACAA
9774894 TTTTATATTTATTTAACACAA
1 TTTTATATTTATTTAACACAA
9774915 T
1 T
9774916 CATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTATATTTATTTAACACAA
Found at i:9783247 original size:12 final size:12
Alignment explanation
Indices: 9783230--9783268 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
9783220 CGGCCTGCTC
9783230 ATATTAATTTTT
1 ATATTAATTTTT
9783242 ATATTAATTTTT
1 ATATTAATTTTT
*
9783254 ATA-TAATTTTA
1 ATATTAATTTTT
9783265 ATAT
1 ATAT
9783269 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:9783260 original size:11 final size:11
Alignment explanation
Indices: 9783234--9783269 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
9783224 CTGCTCATAT
9783234 TAATTTTTATA
1 TAATTTTTATA
9783245 TTAATTTTTATA
1 -TAATTTTTATA
*
9783257 TAATTTTAATA
1 TAATTTTTATA
9783268 TA
1 TA
9783270 TATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:9783427 original size:30 final size:30
Alignment explanation
Indices: 9783391--9783453 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
9783381 ACTTCACTAG
* *
9783391 CAAATGTCTCAAAAATAATAACAAAATTAA
1 CAAATGTATCAAAAATAATAAAAAAATTAA
** *
9783421 CAAATGTATTTAAAATTATAAAAAAATTAA
1 CAAATGTATCAAAAATAATAAAAAAATTAA
9783451 CAA
1 CAA
9783454 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTATCAAAAATAATAAAAAAATTAA
Found at i:9786250 original size:23 final size:23
Alignment explanation
Indices: 9786198--9786250 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
9786188 GTTTTATTTC
* *
9786198 TTTTTAATATTTATTAGTTTTTT
1 TTTTTAGTATTTAGTAGTTTTTT
* *
9786221 CTCTTAGTATTTAGTA-TTTTGTT
1 TTTTTAGTATTTAGTAGTTTT-TT
9786244 TTTTTAG
1 TTTTTAG
9786251 CGTGTCTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTTTAGTATTTAGTAGTTTTTT
Found at i:9786549 original size:41 final size:42
Alignment explanation
Indices: 9786492--9786734 Score: 230
Period size: 41 Copynumber: 5.9 Consensus size: 42
9786482 AGCGGCGTTT
* * *
9786492 TTAAAACGCCGAT-AAAAACAGAGCAATAGCGGCGTTTTTTG
1 TTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGTTTTTAG
* * * * *
9786533 TTAAAACGCAGCT-AAAAATAGAGAAATAGCGGTGTTTTTAG
1 TTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGTTTTTAG
* * * * *
9786574 TAAAAATGCCGCTAAAAAATAGAGCATTAGAGGCGCTTTT-G
1 TTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGTTTTTAG
* * * *
9786615 GTAAAACGCCGCTAAAAAAACAGAGCATTAGCAGCGCTTTCAG
1 TTAAAACGCCGCT-AAAAAACAGAGCATTAGCGGCGTTTTTAG
* * *
9786658 -TAAAACACCGCTAAAAAACAGAGCATTA--GGCG-CTTTCG
1 TTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGTTTTTAG
* *
9786696 GTAAAACGCCGCTAAAAAATAGAGCATTAGCGGCGTTTT
1 TTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGTTTT
9786735 AAACGCCGCT
Statistics
Matches: 166, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
38 3 0.02
39 29 0.17
41 76 0.46
42 57 0.34
43 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (42 bp):
TTAAAACGCCGCTAAAAAACAGAGCATTAGCGGCGTTTTTAG
Found at i:9786702 original size:39 final size:39
Alignment explanation
Indices: 9786576--9786757 Score: 203
Period size: 39 Copynumber: 4.6 Consensus size: 39
9786566 GTTTTTAGTA
* * *
9786576 AAAATGCCGCTAAAAAATAGAGCATTAGAGGCGCTTTTGGT
1 AAAACGCCGCTAAAAAACAGAGCATT--AGGCGCTTTCGGT
*
9786617 AAAACGCCGCTAAAAAAACAGAGCATTAGCAGCGCTTTCAGT
1 AAAACGCCGCT-AAAAAACAGAGCATTAG--GCGCTTTCGGT
*
9786659 AAAACACCGCTAAAAAACAGAGCATTAGGCGCTTTCGGT
1 AAAACGCCGCTAAAAAACAGAGCATTAGGCGCTTTCGGT
*
9786698 AAAACGCCGCTAAAAAATAGAGCATTA-GCGGCGTTT---T
1 AAAACGCCGCTAAAAAACAGAGCATTAGGC-GC-TTTCGGT
*
9786735 -AAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAAACAGAGCA
9786758 ATAGTGGAGT
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
36 21 0.17
37 1 0.01
38 2 0.02
39 37 0.29
40 5 0.04
41 27 0.21
42 33 0.26
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (39 bp):
AAAACGCCGCTAAAAAACAGAGCATTAGGCGCTTTCGGT
Found at i:9786782 original size:42 final size:40
Alignment explanation
Indices: 9786481--9786790 Score: 253
Period size: 42 Copynumber: 7.8 Consensus size: 40
9786471 AATAGGGCTC
* *
9786481 TAGCGGCGTTTT--TAAAACGCCGAT-AAAAACAGAGCAA
1 TAGCGGCGTTTTGGTAAAACGCCGCTAAAAAACAGAGCAT
* * * * *
9786518 TAGCGGCGTTTTTTGTTAAAACGCAGCT-AAAAATAGAGAAA
1 TAGCGGCG--TTTTGGTAAAACGCCGCTAAAAAACAGAGCAT
* * * *
9786559 TAGCGGTGTTTTTAGTAAAAATGCCGCTAAAAAATAGAGCAT
1 TAGCGGCG-TTTTGGT-AAAACGCCGCTAAAAAACAGAGCAT
*
9786601 TAGAGGCGCTTTTGGTAAAACGCCGCTAAAAAAACAGAGCAT
1 TAGCGGCG-TTTTGGTAAAACGCCGCT-AAAAAACAGAGCAT
* ** *
9786643 TAGCAGCGCTTTCAGTAAAACACCGCTAAAAAACAGAGCAT
1 TAGCGGCG-TTTTGGTAAAACGCCGCTAAAAAACAGAGCAT
* *
9786684 TA--GGCGCTTTCGGTAAAACGCCGCTAAAAAATAGAGCAT
1 TAGCGGCG-TTTTGGTAAAACGCCGCTAAAAAACAGAGCAT
* *
9786723 TAGCGGCG-TTT--T-AAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTGGTAAAACGCCGCTAAAAAACAGAGCAT
* * *
9786759 TAGTGGAGTTTGTGGTCAAAACGCTGCTAAAA
1 TAGCGGCGTTT-TGGT-AAAACGCCGCTAAAA
9786791 GTCTTATAAC
Statistics
Matches: 225, Mismatches: 33, Indels: 25
0.80 0.12 0.09
Matches are distributed among these distances:
36 27 0.12
37 11 0.05
38 1 0.00
39 41 0.18
40 7 0.03
41 67 0.30
42 71 0.32
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (40 bp):
TAGCGGCGTTTTGGTAAAACGCCGCTAAAAAACAGAGCAT
Found at i:9790031 original size:16 final size:17
Alignment explanation
Indices: 9789981--9790031 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
9789971 ATGGAAATAT
*
9789981 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
9789998 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
9790017 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
9790032 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:9790050 original size:22 final size:21
Alignment explanation
Indices: 9789991--9790033 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
9789981 AATCTTTAAG
9789991 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
9790010 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
9790031 GAT
1 GAT
9790034 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:9799113 original size:95 final size:94
Alignment explanation
Indices: 9798971--9799520 Score: 336
Period size: 89 Copynumber: 6.2 Consensus size: 94
9798961 GTTTACACTG
* * * * * *
9798971 AAGCAGATCCAAGATAACAAGATTTGGCTTTTCTATCTTCGACGGAGAGCAAATCGAAGACATAG
1 AAGCAGATCCAAGATAAC-AGATTTGGCATCTCCATATTCAATGGAGAGCAAATCGAAGACATAG
* *
9799036 CAGATCTGACTTTCGGATGTTCTCACATCA
65 CAGATCTGACTTTCAGATGTTTTCACATCA
*
9799066 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATATTCAAATGGAGAGCAAAT-----ACATAG
1 AAGCAGATCCAAGATAACAGATTTGGCATCTCCATATTC-AATGGAGAGCAAATCGAAGACATAG
* * * *
9799126 CAGATCTAACCTTCAGATGTTTTTAC-T-G
65 CAGATCTGACTTTCAGATGTTTTCACATCA
** * * * *
9799154 AAGCAGATCCAAGAT----GATTTGGCAT-TCTTGTGTTTACTAG-GAGCAAATCGAAGACATAG
1 AAGCAGATCCAAGATAACAGATTTGGCATCTC-CATATTCAATGGAGAGCAAATCGAAGACATAG
*
9799213 CAAATCTGACTTTCAGATGTTTTCACATCA
65 CAGATCTGACTTTCAGATGTTTTCACATCA
* * * * *
9799243 AAGCAGATCCAAGATAACAGATTTGGCGTCTCCATATTCGACGGAGAG----TAG-ACACATAGC
1 AAGCAGATCCAAGATAACAGATTTGGCATCTCCATATTCAATGGAGAGCAAATCGAAGACATAGC
* * *
9799303 AGATCTAACCTTCAGATGTTTAT-AC-T-G
66 AGATCTGACTTTCAGATGTTT-TCACATCA
* * * *
9799330 AAGCAAATCCAAGAT----GATTTGGCA--TCCTTGTGTCTACA-AGA-AGCAAATCGAAGACAT
1 AAGCAGATCCAAGATAACAGATTTGGCATCTCCATAT-TC-A-ATGGAGAGCAAATCGAAGACAT
*
9799387 AACATG-TCTGACCTTT-AGATGTTTTCACATCA
63 AGCA-GATCTGA-CTTTCAGATGTTTTCACATCA
** *
9799419 AAGCAGATCCAAGAT----GATTTGGCAT-TCTTGTGTTTACAA---AGAGCAAATCGAAGACAT
1 AAGCAGATCCAAGATAACAGATTTGGCATCTC-CAT-ATT-CAATGGAGAGCAAATCGAAGACAT
* * * * *
9799476 AGCAGATCTGACCTTCAGGTGATTACAC-T-G
63 AGCAGATCTGACTTTCAGATGTTTTCACATCA
9799506 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
9799521 GATTTTGCAT
Statistics
Matches: 357, Mismatches: 62, Indels: 80
0.72 0.12 0.16
Matches are distributed among these distances:
81 5 0.01
82 12 0.03
83 15 0.04
84 13 0.04
86 3 0.01
87 79 0.22
88 28 0.08
89 100 0.28
90 33 0.09
91 3 0.01
92 2 0.01
93 13 0.04
94 21 0.06
95 30 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (94 bp):
AAGCAGATCCAAGATAACAGATTTGGCATCTCCATATTCAATGGAGAGCAAATCGAAGACATAGC
AGATCTGACTTTCAGATGTTTTCACATCA
Found at i:9799230 original size:87 final size:87
Alignment explanation
Indices: 9799120--9799535 Score: 416
Period size: 89 Copynumber: 4.7 Consensus size: 87
9799110 GAGAGCAAAT
* *
9799120 ACATAGCAGATCTAACCTTCAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTTCACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
9799185 GTTTACTAGGAGCAAATCGAAG
66 GTTTACAAGGAGCAAATCGAAG
* * * *
9799207 ACATAGCAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACAGATTTGGC-G
1 ACATAGCAGATCTGACCTTCAGATGTTTTCAC-T-GAAGCAGATCCAAGAT----GATTTGGCAT
** * * * * *
9799271 TCTCCAT-ATT-CGACGGAG--AGTAG-AC
60 TCT-TGTGTTTAC-AAGGAGCAAATCGAAG
* * *
9799296 ACATAGCAGATCTAACCTTCAGATGTTTAT-ACTGAAGCAAATCCAAGATGATTTGGCATCCTTG
1 ACATAGCAGATCTGACCTTCAGATGTTT-TCACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
* *
9799360 TGTCTACAAGAAGCAAATCGAAG
65 TGTTTACAAGGAGCAAATCGAAG
* * *
9799383 ACATAACATG-TCTGACCTTTAGATGTTTTCACATCAAAGCAGATCCAAGATGATTTGGCATTCT
1 ACATAGCA-GATCTGACCTTCAGATGTTTTCAC-T-GAAGCAGATCCAAGATGATTTGGCATTCT
*
9799447 TGTGTTTACAAAGAGCAAATCGAAG
63 TGTGTTTACAAGGAGCAAATCGAAG
* * * *
9799472 ACATAGCAGATCTGACCTTCAGGTGATTACACTGAAGCAGATCCAAGATGATTTTGCATCTCTT
1 ACATAGCAGATCTGACCTTCAGATGTTTTCACTGAAGCAGATCCAAGATGATTTGGCAT-TCTT
9799536 TATTGTCAGA
Statistics
Matches: 262, Mismatches: 46, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
83 9 0.03
84 7 0.03
85 1 0.00
86 4 0.02
87 92 0.35
88 10 0.04
89 116 0.44
90 4 0.02
91 1 0.00
92 9 0.03
93 9 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (87 bp):
ACATAGCAGATCTGACCTTCAGATGTTTTCACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAGCAAATCGAAG
Found at i:9799379 original size:176 final size:177
Alignment explanation
Indices: 9799018--9799433 Score: 638
Period size: 176 Copynumber: 2.4 Consensus size: 177
9799008 TTCGACGGAG
* * *
9799018 AGCAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
* *
9799083 CAGATCTGGCATCTCCATATTCAAATGGAGAGCAAATACATAGCAGATCTAACCTTCAGATGTTT
66 CAGATCTGGCATCTCCATATTCAAACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTT
* * * * * *
9799148 TTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACTAGG
131 ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
9799195 AGCAAATCGAAGACATAGCAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
* * * * *
9799260 CAGATTTGGCGTCTCCATATTC-GACGGAGAGTAGACACATAGCAGATCTAACCTTCAGATGTTT
66 CAGATCTGGCATCTCCATATTCAAACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTT
9799324 ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
131 ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
* **
9799371 AGCAAATCGAAGACATAACATGTCTGACCTTT-AGATGTTTTCACATCAAAGCAGATCCAAGAT
1 AGCAAATCGAAGACATAGCAAATCTGA-CTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT
9799434 GATTTGGCAT
Statistics
Matches: 219, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
176 133 0.61
177 86 0.39
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (177 bp):
AGCAAATCGAAGACATAGCAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
CAGATCTGGCATCTCCATATTCAAACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTT
ATACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
Found at i:9799478 original size:176 final size:173
Alignment explanation
Indices: 9799018--9799531 Score: 577
Period size: 176 Copynumber: 2.9 Consensus size: 173
9799008 TTCGACGGAG
* * * *
9799018 AGCAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAACAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT--
* * ** * *
9799083 CAGATCTGGCATCTCCATATTCAAATGGAGAGCAAATACATAGCAGATCTAACCTTCAGATGTTT
64 -AGATTTGGCGTCTCCATATTCAAA-GGAGAATAGACACATAGCAGATCTAACCTTCAGATGTTT
* * * * *
9799148 TTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACTAGG
127 ATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
*
9799195 AGCAAATCGAAGACATAGCAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAACAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT--
* * *
9799260 CAGATTTGGCGTCTCCATATTCGACGGAGAGTAGACACATAGCAGATCTAACCTTCAGATGTTTA
64 -AGATTTGGCGTCTCCATATTCAAAGGAGAATAGACACATAGCAGATCTAACCTTCAGATGTTTA
*
9799325 TACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
128 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
**
9799371 AGCAAATCGAAGACATAACATGTCTGACCTTT-AGATGTTTTCACATCAAAGCAGATCCAAGAT-
1 AGCAAATCGAAGACATAACAAATCTGA-CTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATA
* ** * * * * *
9799434 GATTTGGCAT-TCTTGTGTTTACAAA-GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGGTG
65 GATTTGGCGTCTC-CAT-ATT-CAAAGGAG--AATAG-ACACATAGCAGATCTAACCTTCAGATG
* * *
9799497 ATTACACTGAAGCAGATCCAAGATGATTTTGCATC
124 TTTATACTGAAGCAGATCCAAGATGATTTGGCATC
9799532 TCTTTATTGT
Statistics
Matches: 296, Mismatches: 34, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
171 2 0.01
172 10 0.03
173 5 0.02
174 2 0.01
175 3 0.01
176 187 0.63
177 87 0.29
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (173 bp):
AGCAAATCGAAGACATAACAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAG
ATTTGGCGTCTCCATATTCAAAGGAGAATAGACACATAGCAGATCTAACCTTCAGATGTTTATAC
TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
Found at i:9799554 original size:87 final size:86
Alignment explanation
Indices: 9799120--9799559 Score: 333
Period size: 87 Copynumber: 5.0 Consensus size: 86
9799110 GAGAGCAAAT
* **
9799120 ACATAGCAGATCTAACCTTCAGATGTTTTTACTGAAGCAGATCCAAGATGATTTGGCAT-TCTTG
1 ACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTT-
* * *
9799184 TGTT-TACTAGGAGCAAATCGAAG
65 T-TTGT-CAAAGAACAAATCGAAG
* * * * *
9799207 ACATAGCAAATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACAGATTTGGCGT
1 ACATAGCAGATCTGACCTTCAGATGTTTACAC-T-GAAGCAGATCCAAGAT----GATTTGGCAT
** * * * * * * * *
9799272 CTCCATAT-TCGACGGA-GAGTAG-AC
60 CTCTTTTTGTCAAAGAACAAATCGAAG
* * *
9799296 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGATTTGGCATC-C-TT
1 ACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTTT
*
9799359 GTGTCTACAAGAAGCAAATCGAAG
66 TTGTC-A-AAGAA-CAAATCGAAG
* * * *
9799383 ACATAACATG-TCTGACCTTTAGATGTTTTCACATCAAAGCAGATCCAAGATGATTTGGCAT-TC
1 ACATAGCA-GATCTGACCTTCAGATGTTTACAC-T-GAAGCAGATCCAAGATGATTTGGCATCTC
*
9799446 TTGTGTT-TACAAAGAGCAAATCGAAG
63 TT-T-TTGT-CAAAGAACAAATCGAAG
* * *
9799472 ACATAGCAGATCTGACCTTCAGGTGATTACACTGAAGCAGATCCAAGATGATTTTGCATCTCTTT
1 ACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTTT
*
9799537 ATTGTCAGAGAACAAATCGAAG
66 -TTGTCAAAGAACAAATCGAAG
9799559 A
1 A
9799560 AACAGATTTC
Statistics
Matches: 276, Mismatches: 53, Indels: 48
0.73 0.14 0.13
Matches are distributed among these distances:
81 2 0.01
82 3 0.01
83 10 0.04
84 3 0.01
86 3 0.01
87 111 0.40
88 11 0.04
89 103 0.37
90 8 0.03
91 6 0.02
92 4 0.01
93 10 0.04
94 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (86 bp):
ACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTTT
TTGTCAAAGAACAAATCGAAG
Found at i:9799718 original size:88 final size:90
Alignment explanation
Indices: 9799564--9799799 Score: 286
Period size: 88 Copynumber: 2.7 Consensus size: 90
9799554 CGAAGAAACA
* ** * * *
9799564 GATTTCACATCTCCATATTCGACGAAGAGCAGATCGAAGACATAGCAGATCTGACCTTCAGGTGT
1 GATTTGACATCTCTGTATTCTACGGAGAGCAGATCGAAGACATAGCAGATCTGACATTCAGGTGT
*
9799629 TTACGC-T-GAAGCAGATCCAAGAT
66 TTACGCATCAAAGCAGATCCAAGAT
*
9799652 GATTTGACATCTCTGTATTCTACGGAGAGCAGATCGAAGACATAGCAGATCTAACATTC-GGATG
1 GATTTGACATCTCTGTATTCTACGGAGAGCAGATCGAAGACATAGCAGATCTGACATTCAGG-TG
* *
9799716 TTTTCGCATCAAAGTAGATCCAAGAT
65 TTTACGCATCAAAGCAGATCCAAGAT
* * *
9799742 GATTTGGCATC-CTTGTGTT-TACAGG-GAACAGATCGAAGACATAGCAGATCTGACATTC
1 GATTTGACATCTC-TGTATTCTAC-GGAGAGCAGATCGAAGACATAGCAGATCTGACATTC
9799800 CTGTGCTCAC
Statistics
Matches: 129, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
87 2 0.02
88 60 0.47
89 36 0.28
90 31 0.24
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (90 bp):
GATTTGACATCTCTGTATTCTACGGAGAGCAGATCGAAGACATAGCAGATCTGACATTCAGGTGT
TTACGCATCAAAGCAGATCCAAGAT
Found at i:9799895 original size:134 final size:134
Alignment explanation
Indices: 9799742--9800097 Score: 473
Period size: 134 Copynumber: 2.6 Consensus size: 134
9799732 GATCCAAGAT
*
9799742 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
*
9799807 CACAGCGAAGCAGATCAAAGACTTT-AACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGA
66 TACAGCGAAGCAGATCAAAGA-TTTCAACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGA
9799871 TAGCA
130 TAGCA
* *
9799876 GATTTGGCATCCCTGTGTTTACAGGAAACAGATCGAAGACATAGCAAATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
* * * * *
9799941 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATCAAAGATTTCAACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGAT
*
9800006 AGTA
131 AGCA
* ** * ** * * *
9800010 GATTTGGCATCTCCATAT-TCAACGGGGAACAGATTAAAGACATAGCAGATCTGACCTTCATATG
1 GATTTGGCATC-CC-TGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTG
* * *
9800074 TTTACATCGAAGCAGATCCAAGAT
64 CTTACAGCGAAGCAGATCAAAGAT
9800098 GATTTGGCAT
Statistics
Matches: 195, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
133 3 0.02
134 131 0.67
135 59 0.30
136 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
TACAGCGAAGCAGATCAAAGATTTCAACATGACATCCCTATGTTTATAGGGAACAAGTTAAAGAT
AGCA
Found at i:9800018 original size:44 final size:44
Alignment explanation
Indices: 9799742--9800020 Score: 165
Period size: 44 Copynumber: 6.2 Consensus size: 44
9799732 GATCCAAGAT
*
9799742 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAG--ATAGCA
* * * * * * * **
9799788 GATCTGACATTCCTGTGCTCACAGCGAAGCAGATCAAAGACT-TTA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATCGAAGA-TAGCA
** * * * **
9799833 -ACATGACATCCCTATGTTTATAGGGAACA-AGTTAAAGATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGA-TCGAAGATAGCA
*
9799876 GATTTGGCATCCCTGTGTTTACAGGAAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAG--ATAGCA
* * * * * * **
9799922 AATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATCGAAGATAGCA
* * *
9799967 GCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGTA
1 G-ATTTGGCATCCCTGTGTTTACAGGGAACAGA-TCGAAGATAGCA
9800010 GATTTGGCATC
1 GATTTGGCATC
9800021 TCCATATTCA
Statistics
Matches: 172, Mismatches: 48, Indels: 28
0.69 0.19 0.11
Matches are distributed among these distances:
42 4 0.02
43 20 0.12
44 72 0.42
45 7 0.04
46 50 0.29
47 19 0.11
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGATAGCA
Found at i:9800552 original size:16 final size:17
Alignment explanation
Indices: 9800502--9800552 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
9800492 ATGGAAATAT
*
9800502 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
9800519 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
9800538 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
9800553 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:9800571 original size:22 final size:21
Alignment explanation
Indices: 9800512--9800554 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
9800502 AATCTTTAAG
9800512 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
9800531 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
9800552 GAT
1 GAT
9800555 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:9803301 original size:39 final size:38
Alignment explanation
Indices: 9803217--9803456 Score: 275
Period size: 39 Copynumber: 6.1 Consensus size: 38
9803207 CAAATCAAAT
* * *
9803217 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* *
9803257 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* * *
9803296 CACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
* *
9803335 CACCAGCACAAATGCCTTTGAGACTTAGCCCGGATATAA
1 CACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAA
*
9803374 CACCAGCA-AGAATGCCTTCGGGACTTAACCCGGATATAA
1 CACCAGCACA-AA-GCCTTCGGGACTTAGCCCGGATATAA
* * *
9803413 CACCAACACGAATGCCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
9803452 CACCA
1 CACCA
9803457 TTATAAAGTC
Statistics
Matches: 177, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 3 0.02
39 139 0.79
40 34 0.19
41 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (38 bp):
CACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:9803363 original size:78 final size:78
Alignment explanation
Indices: 9803234--9803456 Score: 322
Period size: 78 Copynumber: 2.8 Consensus size: 78
9803224 ACAAAGCATG
* * *
9803234 CGGGACTTTAAGCCCGGATATAATACCAGCACAAA-GCCTGCGGGACTTTAGCCCGGATATAACA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTTCGAGAC-TTAGCCCGGATATAACA
*
9803298 CCAGCACGAATGCCTT
63 CCAGCAAGAATGCCTT
* * *
9803314 TGGGGCTTAGCCCGGATATAACACCAGCACAAATGCCTTTGAGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAACACCA
9803379 GCAAGAATGCCTT
66 GCAAGAATGCCTT
* * *
9803392 CGGGACTTAACCCGGATATAACACCAACACGAATGCCTTCGAGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAACACCA
9803457 TTATAAAGTC
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 115 0.89
79 10 0.08
80 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAACACCA
GCAAGAATGCCTT
Found at i:9803424 original size:117 final size:117
Alignment explanation
Indices: 9803244--9803456 Score: 331
Period size: 117 Copynumber: 1.8 Consensus size: 117
9803234 CGGGACTTTA
* * *
9803244 AGCCCGGATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAACCCGGATATAACACCAACACGAAT
* * *
9803309 GCCTTTGGGGCTTAGCCCGGATATAACACCAGCACAAATGCCTTTGAGACTT
66 GCCTTCGAGACTTAGCCCGGATATAACACCAGCACAAATGCCTTTGAGACTT
*
9803361 AGCCCGGATATAACACCAGCA-AGAATGCCTTCGGGAC-TTAACCCGGATATAACACCAACACGA
1 AGCCCGGATATAACACCAGCACA-AA-GCCTGCGGGACTTTAACCCGGATATAACACCAACACGA
9803424 ATGCCTTCGAGACTTAGCCCGGATATAACACCA
64 ATGCCTTCGAGACTTAGCCCGGATATAACACCA
9803457 TTATAAAGTC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
116 1 0.01
117 76 0.87
118 10 0.11
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (117 bp):
AGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAACCCGGATATAACACCAACACGAAT
GCCTTCGAGACTTAGCCCGGATATAACACCAGCACAAATGCCTTTGAGACTT
Found at i:9803562 original size:28 final size:28
Alignment explanation
Indices: 9803529--9803610 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
9803519 ATTTAATCAT
* *
9803529 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
9803557 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
9803585 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
9803611 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:9808045 original size:176 final size:164
Alignment explanation
Indices: 9807811--9808181 Score: 474
Period size: 176 Copynumber: 2.2 Consensus size: 164
9807801 CGACGAGAAG
* * * *
9807811 CAAATCGAAGATATAGCAGATTTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAACAGATCCAAGATAACA
*
9807876 GATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGATG-TTTATA
66 GATCTAGCATCTCCATTTCGAC---G-G-A--TA-ATAG-A--TCTAACCTTCAGATGATTT-TA
* * *
9807940 CTGAAGCAGATCCAAGATGATTTAGGCATTCTTGTGTTTACAAGGAA
119 CTCAAGCAGATCCAAGATGATTT-GGCATCCTTGTGTTCACAAGGAA
* * *
9807987 CAAATTGAAGACATAGCAAATTTGACTTTCAGATGTTCTCATACCAAAACAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAACAGATCCAAGATAACA
* *
9808052 GATCTAGCATTTCCATTTCGACGGATAGTAGATCTAACCTTCAGATGATTTTACTCAAGCAGATC
66 GATCTAGCATCTCCATTTCGACGGATAATAGATCTAACCTTCAGATGATTTTACTCAAGCAGATC
*
9808117 CAAGATGATTTGGCATCCTTGTGTTCACAAGGAG
131 CAAGATGATTTGGCATCCTTGTGTTCACAAGGAA
* *
9808151 CAAATCGAAGACACAGCAGATTTGGCTTTCA
1 CAAATCGAAGACATAGCAGATTTGACTTTCA
9808182 TGTGTTGACA
Statistics
Matches: 176, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
164 47 0.27
165 39 0.22
166 3 0.02
167 1 0.01
168 3 0.02
169 2 0.01
171 1 0.01
172 1 0.01
173 1 0.01
176 78 0.44
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (164 bp):
CAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAACAGATCCAAGATAACA
GATCTAGCATCTCCATTTCGACGGATAATAGATCTAACCTTCAGATGATTTTACTCAAGCAGATC
CAAGATGATTTGGCATCCTTGTGTTCACAAGGAA
Found at i:9809387 original size:23 final size:23
Alignment explanation
Indices: 9809334--9809428 Score: 86
Period size: 23 Copynumber: 4.1 Consensus size: 23
9809324 CCTATATCTA
**
9809334 TATTATATT-TTATTACATAATATT
1 TATTATATTATT-TTACATTTTA-T
*
9809358 TATTATACTATTTTACATTTTAT
1 TATTATATTATTTTACATTTTAT
* *
9809381 TATTATATTATTTTACACTTTAA
1 TATTATATTATTTTACATTTTAT
* *
9809404 TA-TATGTTATTTTATATTATTAT
1 TATTATATTATTTTACATT-TTAT
9809427 TA
1 TA
9809429 CATCATATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
22 13 0.22
23 28 0.47
24 16 0.27
25 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (23 bp):
TATTATATTATTTTACATTTTAT
Found at i:9813767 original size:53 final size:53
Alignment explanation
Indices: 9813686--9813836 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
9813676 CTTACACGGT
* *
9813686 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
9813741 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
9813794 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
9813837 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:9821281 original size:53 final size:53
Alignment explanation
Indices: 9821224--9821343 Score: 177
Period size: 53 Copynumber: 2.3 Consensus size: 53
9821214 TATCCCAGAC
* *
9821224 ATGGTCTTATACGGAATCACATTATCACATTATACGGATGCCACAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCACAGCCCAGCT
* * * *
9821277 ATGGTCTTATACGGAGTCACATTATCACATTGCACCGATGCCATAGCTCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCACAGCCCAGCT
*
9821330 ATGGTCTTAAACGG
1 ATGGTCTTATACGG
9821344 GCGCACTTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (53 bp):
ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCACAGCCCAGCT
Found at i:9823026 original size:28 final size:33
Alignment explanation
Indices: 9822967--9823026 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 33
9822957 CATTAAATTT
9822967 AATATTTAATTACATATATTATTCATTTTTATG
1 AATATTTAATTACATATATTATTCATTTTTATG
9823000 AATATTT-ATTA-A-ATATTA-T-ATTTTTAT
1 AATATTTAATTACATATATTATTCATTTTTAT
9823027 TTTTATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 8 0.30
29 1 0.04
30 6 0.22
31 1 0.04
32 4 0.15
33 7 0.26
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (33 bp):
AATATTTAATTACATATATTATTCATTTTTATG
Found at i:9823667 original size:21 final size:22
Alignment explanation
Indices: 9823621--9823673 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
9823611 AGAAAACCAT
*
9823621 TTTATGTGTTAAATGCTGAAAA
1 TTTAGGTGTTAAATGCTGAAAA
*
9823643 TTTAGGTGTTAAATGCTG-CAA
1 TTTAGGTGTTAAATGCTGAAAA
9823664 TTTATGGTGT
1 TTTA-GGTGT
9823674 CTGAAAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (22 bp):
TTTAGGTGTTAAATGCTGAAAA
Found at i:9834353 original size:14 final size:16
Alignment explanation
Indices: 9834323--9834359 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9834313 TAATGAAATA
9834323 CAAAAAAATTATTTTAT
1 CAAAAAAATTA-TTTAT
9834340 -AAAAAAATTA-TTAT
1 CAAAAAAATTATTTAT
9834354 CAAAAA
1 CAAAAA
9834360 CCTAAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
CAAAAAAATTATTTAT
Found at i:9835457 original size:23 final size:22
Alignment explanation
Indices: 9835418--9835460 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9835408 TTAAGAGTGA
*
9835418 TGAAAGAAAAATGAAAATGAAT
1 TGAAAGAAAAATAAAAATGAAT
*
9835440 TGAAATAAAAATTAAAAATGA
1 TGAAAGAAAAA-TAAAAATGA
9835461 GTTAGCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.21
Consensus pattern (22 bp):
TGAAAGAAAAATAAAAATGAAT
Found at i:9839904 original size:22 final size:22
Alignment explanation
Indices: 9839878--9839920 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9839868 TTATTTAATT
*
9839878 ATAATTCAATAAACCTTAAATA
1 ATAATTCAAAAAACCTTAAATA
*
9839900 ATAATTCAAAAAATCTTAAAT
1 ATAATTCAAAAAACCTTAAAT
9839921 TAATTCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAATTCAAAAAACCTTAAATA
Found at i:9842775 original size:26 final size:26
Alignment explanation
Indices: 9842746--9842855 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
9842736 TGGTACAAAT
9842746 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
9842772 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
9842798 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
9842824 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
9842850 TGATAA
1 TGATAA
9842856 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:9844512 original size:27 final size:27
Alignment explanation
Indices: 9844470--9844609 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 27
9844460 GAGGAAGCGT
* *
9844470 TCTGGTGGCTATGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
9844497 TCTAGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
9844524 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
9844551 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * * *
9844579 TCTTGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
9844605 TCTGG
1 TCTGG
9844610 CAGCCATGCT
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.04
27 79 0.81
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:9844559 original size:54 final size:55
Alignment explanation
Indices: 9844470--9844609 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 55
9844460 GAGGAAGCGT
* * ** *
9844470 TCTGGTGGCTATGCCACAAATATCTAATCTAGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
9844524 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
9844579 TCTTGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
9844610 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 58 0.77
55 17 0.23
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:9851669 original size:42 final size:43
Alignment explanation
Indices: 9851566--9851670 Score: 140
Period size: 42 Copynumber: 2.4 Consensus size: 43
9851556 AGCTTTATTG
*
9851566 ATCAGGCACTTTATATGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA-TTCAGGCACCTCGTGTGTCGT
* **
9851610 ATCAGGCACCTCGTGTGTCGTA-TCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
* *
9851652 TTTAGGCACTTTATGTGTC
1 ATCAGGCACTTTATGTGTC
9851671 ATATACTGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 34 0.65
44 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (43 bp):
ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
Found at i:9851670 original size:21 final size:21
Alignment explanation
Indices: 9851581--9851660 Score: 124
Period size: 21 Copynumber: 3.7 Consensus size: 21
9851571 GCACTTTATA
9851581 TGTCGTATTTCAGGCACCTCGTG
1 TGTCGTA--TCAGGCACCTCGTG
9851604 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
9851625 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
* *
9851646 TGTCGTTTTAGGCAC
1 TGTCGTATCAGGCAC
9851661 TTTATGTGTC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
21 48 0.87
23 7 0.13
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.33
Consensus pattern (21 bp):
TGTCGTATCAGGCACCTCGTG
Found at i:9854282 original size:50 final size:50
Alignment explanation
Indices: 9854219--9854319 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
9854209 GATTAACATA
*
9854219 TACAGCCCATGTGGAGAGGATAACTCTTATACTTATTAATTGATAACGAC
1 TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
9854269 TACAGTCCC-TGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
1 TACAG-CCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
9854319 T
1 T
9854320 GTATACACTT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 46 0.94
51 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (50 bp):
TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
Found at i:9854612 original size:42 final size:42
Alignment explanation
Indices: 9854553--9854682 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
9854543 GAGGCAAAAG
*
9854553 TAGGTTTTCTATTGTCGACAATAGAGCAACGACGACAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
*
9854595 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGATAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
* * *
9854637 TAGGTTTTCTACTGTCGACAATAGAGTAACAACAACAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
9854679 TAGG
1 TAGG
9854683 GCGGCCACGA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (42 bp):
TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
Found at i:9860293 original size:30 final size:30
Alignment explanation
Indices: 9860257--9860336 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
9860247 GACTTGGTCA
*
9860257 ACAATCATCAACTACAATTGGGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
* *
9860287 ACAATCAGCAACTACGATTGTGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
9860317 AC-ATGCAGCAACTACAATTG
1 ACAAT-CAGCAACTACAATTG
9860337 CAAATGTCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 2 0.04
30 43 0.96
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (30 bp):
ACAATCAGCAACTACAATTGGGATATTCTT
Found at i:9861630 original size:22 final size:22
Alignment explanation
Indices: 9861573--9861639 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
9861563 TCTGGAGTTA
**
9861573 AATTGTGTATTTTTATTATAGT
1 AATTGTGTATTTTTATTATTTT
9861595 AAGTATGT-TA-TTTTATTATTTT
1 AA-T-TGTGTATTTTTATTATTTT
9861617 AATTGTGTATTTTTTATTATTTT
1 AATTGTGTA-TTTTTATTATTTT
9861640 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.08
21 3 0.08
22 14 0.37
23 15 0.39
24 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.64
Consensus pattern (22 bp):
AATTGTGTATTTTTATTATTTT
Found at i:9861635 original size:23 final size:23
Alignment explanation
Indices: 9861573--9861639 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
9861563 TCTGGAGTTA
**
9861573 AATTGTGTA-TTTTTATTATAGT
1 AATTGTGTATTTTTTATTATTTT
* * *
9861595 AAGTATGT-TATTTTATTATTTT
1 AATTGTGTATTTTTTATTATTTT
9861617 AATTGTGTATTTTTTATTATTTT
1 AATTGTGTATTTTTTATTATTTT
9861640 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 22 0.63
23 13 0.37
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.64
Consensus pattern (23 bp):
AATTGTGTATTTTTTATTATTTT
Done.