Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 35 of 333
Found at i:9700277 original size:13 final size:13
Alignment explanation
Indices: 9700259--9700287 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9700249 TTTAGTTTAA
9700259 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9700272 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9700285 TTA
1 TTA
9700288 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:9712295 original size:46 final size:43
Alignment explanation
Indices: 9712241--9712417 Score: 140
Period size: 46 Copynumber: 3.9 Consensus size: 43
9712231 ATATTTGGGC
9712241 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GA
* * *** * *
9712285 ATGTCCGAACTGGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGA
* *
9712334 ATCC-AAGCTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAA
1 ATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--GA
* * *
9712379 CACCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9712418 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 65 0.63
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGA
Found at i:9712397 original size:93 final size:93
Alignment explanation
Indices: 9712238--9712409 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 93
9712228 AGGATATTTG
* ** *** *
9712238 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTGGTTGAG
1 GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACACCCGAACTCGTTGAG
9712303 TTGAG-TCTGAGTTCGAGAGATGTAACTA
66 TTGAGTTC-GAGTTCGAGAGATGTAACTA
*
9712331 GGCATCC-AAGCTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACACCCGAGCTCGTTGA
1 GGCATCCGAA-CTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACACCCGAACTCGTTGA
9712395 GTTGAGTTCGAGTTC
65 GTTGAGTTCGAGTTC
9712410 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 2 0.03
93 65 0.94
94 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACACCCGAACTCGTTGAG
TTGAGTTCGAGTTCGAGAGATGTAACTA
Found at i:9729485 original size:21 final size:20
Alignment explanation
Indices: 9729461--9729499 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9729451 TATTGAAACT
*
9729461 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
9729482 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
9729500 TAGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:9730026 original size:3 final size:3
Alignment explanation
Indices: 9730018--9730044 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9730008 ACATTAGAAG
9730018 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9730045 ATTAAAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9730657 original size:17 final size:16
Alignment explanation
Indices: 9730631--9730674 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
9730621 AAAAGGTAAA
9730631 TTTT-TTTTTATATATT
1 TTTTATTTTTATAT-TT
9730647 TTTTATTTTTATATTT
1 TTTTATTTTTATATTT
*
9730663 TTCTATGTTTTA
1 TTTTAT-TTTTA
9730675 AAATATATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTATATTT
Found at i:9730659 original size:15 final size:15
Alignment explanation
Indices: 9730630--9730674 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
9730620 AAAAAGGTAA
*
9730630 ATTTTTT-TTTATAT
1 ATTTTTTATTTTTAT
9730644 ATTTTTTATTTTTAT
1 ATTTTTTATTTTTAT
9730659 ATTTTTCTATGTTTTA
1 ATTTTT-TAT-TTTTA
9730675 AAATATATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.26
15 12 0.44
16 3 0.11
17 5 0.19
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (15 bp):
ATTTTTTATTTTTAT
Found at i:9732160 original size:75 final size:74
Alignment explanation
Indices: 9732009--9732959 Score: 730
Period size: 75 Copynumber: 12.5 Consensus size: 74
9731999 AAATGTGATT
* * * * * *
9732009 CGAGGCTCCACTCACCTCTCGCAATATGAGTTGA-TTTTCGTAA-ACGGAGA-TCAAAATTACCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAA-TACCT
9732071 CAGCGTGTCC
65 CAGCGTGTCC
* * *
9732081 TGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAAATTACCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAGACAGAAATTGAAAATACCT
*
9732146 CAGCGTGTCT
65 CAGCGTGTCC
*
9732156 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTC
* *
9732221 AACGTGTCT
66 AGCGTGTCC
** * * * *
9732230 TAAGGCTCAAATCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATTGAAAATACCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAGACAGAAATTGAAAATACCT
* *
9732295 CAACGTGTCT
65 CAGCGTGTCC
* * * * * * *
9732305 TGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA-ATTTTG-AA-ACAGAAA-TAAAAATTATCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAA-TACCT
9732366 CAGCGTGTCC
65 CAGCGTGTCC
* * *
9732376 CAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAATTAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAGACAGAAATTGAAAATAC
9732441 CTCAGCGTGTCC
63 CTCAGCGTGTCC
* * ** * * * *
9732453 TGAGGCTTAACTCACCTCTCGCAATATGAGTTGA--TTTAAAAAAACAGACA-TAAAAATAGAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAAT---AC
* * **
9732515 TTGAAAGTGACTCAAC
63 CTCAGCGTG--TC--C
* *
9732531 AC-ATGAGC-CAAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG-TAGAATTT
1 -CGA-G-GCTCAA----C---TCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAGAAATT
* *
9732593 GAAAATACCTCGGCGTGCCC
55 GAAAATACCTCAGCGTGTCC
* * * *
9732613 CGAGGCTCAACTCACCTCCCACAACATGAGTTGA-TTTTTGAGAA-ACAGCAATTGAAAATACCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAGAAATTGAAAATACCT
*
9732676 CAGCGTGCCC
65 CAGCGTGTCC
* * *
9732686 CGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTAAAAAAAACTGACATAAAAACAGAAAT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--------TTG----AAAGACAGAAAT
* ** * **
9732751 TGAAAGTGACTCAACACGTGAGC
54 TGAAAATACCTCA--GCGTGTCC
* * * * *
9732774 CAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTCTAAA-AGTAGAATTTGAAAATACC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GAAAGA-CAGAAATTGAAAATACC
* *
9732838 TCGGCGTGCCC
64 TCAGCGTGTCC
* * *
9732849 CGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTTGACAA-ACAGCAATTGAAAATACCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAGAAATTGAAAATACCT
*
9732913 CAGCGTGCCC
65 CAGCGTGTCC
* *
9732923 CGAGGCTCAACTCACCTCCCGCAAAATGAGTTGATTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
9732960 AAAAACAGAC
Statistics
Matches: 715, Mismatches: 107, Indels: 112
0.77 0.11 0.12
Matches are distributed among these distances:
70 5 0.01
71 52 0.07
72 52 0.07
73 64 0.09
74 161 0.23
75 175 0.24
76 9 0.01
77 69 0.10
78 6 0.01
79 3 0.00
80 5 0.01
81 5 0.01
82 4 0.01
83 1 0.00
84 1 0.00
85 2 0.00
86 46 0.06
88 43 0.06
89 12 0.02
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (74 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTC
AGCGTGTCC
Found at i:9732229 original size:74 final size:73
Alignment explanation
Indices: 9732010--9732959 Score: 655
Period size: 74 Copynumber: 12.5 Consensus size: 73
9732000 AATGTGATTC
* * * * * *
9732010 GAGGCTCCACTCACCTCTCGCAATATGAGTTGA-TTTTCGTAAACGGAGA-TCAAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA-TACCTCA
9732073 GCGTGTCCT
65 GCGTGTCCT
* *
9732082 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAA-ACAGAAATTGAAAATACCTC
*
9732147 AGCGTGTCTT
64 AGCGTGTCCT
9732157 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTGAAAATACCTCA
* *
9732222 ACGTGTCTT
65 GCGTGTCCT
* * * * *
9732231 AAGGCTCAAATCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAA-ACAGAAATTGAAAATACCTC
* *
9732296 AACGTGTCTT
64 AGCGTGTCCT
* * * * * *
9732306 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGA-ATTTTG-AAACAGAAA-TAAAAATTATCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA-TACCTCA
*
9732368 GCGTGTCCC
65 GCGTGTCCT
* * *
9732377 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAATTACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAA-ACAGAAATTGAAAATACC
9732442 TCAGCGTGTCCT
62 TCAGCGTGTCCT
* *** * * **
9732454 GAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAACAGACA-TAAAAATAGAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAT---ACCT
* **
9732517 GAAAGTGACTCAACACAT
63 CAGCGTG--T---C-C-T
** *
9732535 GA-GC-CAAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAA
1 GAGGCTCAA----C---TCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAA
* * *
9732598 TACCTCGGCGTGCCCC
58 TACCTCAGCGTGTCCT
* * * *
9732614 GAGGCTCAACTCACCTCCCACAACATGAGTTGA-TTTTTGAGAAACAGCAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATACCTCA
* *
9732678 GCGTGCCCC
65 GCGTGTCCT
* *** * * ** * **
9732687 GAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTAAAAAAAACTGACATAAAAACAGAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGAAAACAGAAATTGAAA-A-TACCT
* **
9732752 GAAAGTGACTCAACACGT
63 CAGCGTG--T---C-C-T
* * * *
9732770 GA-GC-CAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTCTAAAAGTAGAATTTGAAA
1 GAGGCTCAA--CT-----CACCTCTCGCAATATGAGTTGATTTTTT-GAAAA-CAGAAATTGAAA
* * *
9732833 ATACCTCGGCGTGCCCC
57 ATACCTCAGCGTGTCCT
* * *
9732850 GAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTTGACAAACAGCAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATACCTCA
* *
9732915 GCGTGCCCC
65 GCGTGTCCT
* *
9732924 GAGGCTCAACTCACCTCCCGCAAAATGAGTTGATTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
9732960 AAAAACAGAC
Statistics
Matches: 698, Mismatches: 121, Indels: 116
0.75 0.13 0.12
Matches are distributed among these distances:
70 5 0.01
71 52 0.07
72 46 0.07
73 70 0.10
74 171 0.24
75 161 0.23
76 13 0.02
77 52 0.07
78 4 0.01
79 5 0.01
80 10 0.01
81 14 0.02
82 7 0.01
83 5 0.01
86 28 0.04
87 5 0.01
88 38 0.05
89 12 0.02
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGTCCT
Found at i:9732245 original size:149 final size:147
Alignment explanation
Indices: 9732009--9732959 Score: 797
Period size: 149 Copynumber: 6.3 Consensus size: 147
9731999 AAATGTGATT
* * * * * *
9732009 CGAGGCTCCACTCACCTCTCGCAATATGAGTTGA-TTTTCGTAAACGGAGA-TCAAAATTACCTC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA-TACCTC
** *
9732072 AGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTG
65 AGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAGACAGAAATTG
* *
9732137 AAATTACCTCAGCGTGTCT
129 AAAATACCTCAGCGTGTCC
*
9732156 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTGAAAATACCTC
* ** * * * *
9732221 AACGTGTCTTAAGGCTCAAATCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATTG
65 AGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAGACAGAAATTG
* *
9732286 AAAATACCTCAACGTGTCT
129 AAAATACCTCAGCGTGTCC
* * * * * * *
9732305 TGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA-ATTTTG-AAACAGAAA-TAAAAATTATCTC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA-TACCTC
*
9732367 AGCGTGTCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAAT
65 AGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAGACAGAAAT
*
9732432 TGAAATTACCTCAGCGTGTCC
127 TGAAAATACCTCAGCGTGTCC
* * ** * *
9732453 TGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAACAGACATAAAAATAGAAATTG
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-----------TTTGAAAACAGAAATTG
* * * ** *
9732518 AAAGTGA-CTCAACACATGAGCCAAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGA
55 AAAAT-ACCTC-A-GCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
* * * *
9732582 AAG-TAGAATTTGAAAATACCTCGGCGTGCCC
116 AAGACAGAAATTGAAAATACCTCAGCGTGTCC
* * * *
9732613 CGAGGCTCAACTCACCTCCCACAACATGAGTTGA-TTTTTGAGAAACAGCAATTGAAAATACCTC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATACCTC
* * * *
9732677 AGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTAAAAAAAACTGACATAAA
65 AGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--------TTG----AAA
* * * **
9732742 AACAGAAATTGAAAGTGA-CTCAACACGTGAGC
118 GACAGAAATTGAAAAT-ACCTC-A-GCGTGTCC
* * * * *
9732774 CAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTCTAAAAGTAGAATTTGAAAATACCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GAAAA-CAGAAATTGAAAATACCT
* * * * * *
9732839 CGGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTTGACAA-ACAGCAATT
64 CAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAGAAATT
*
9732903 GAAAATACCTCAGCGTGCCC
128 GAAAATACCTCAGCGTGTCC
* *
9732923 CGAGGCTCAACTCACCTCCCGCAAAATGAGTTGATTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
9732960 AAAAACAGAC
Statistics
Matches: 654, Mismatches: 102, Indels: 94
0.77 0.12 0.11
Matches are distributed among these distances:
145 6 0.01
146 50 0.08
147 69 0.11
148 83 0.13
149 170 0.26
150 10 0.02
151 17 0.03
152 2 0.00
154 2 0.00
155 2 0.00
158 3 0.00
159 16 0.02
160 54 0.08
161 58 0.09
162 14 0.02
163 98 0.15
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (147 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAA
AATACCTCAGCGTGTCC
Found at i:9732700 original size:233 final size:233
Alignment explanation
Indices: 9732083--9733051 Score: 1125
Period size: 233 Copynumber: 4.2 Consensus size: 233
9732073 GCGTGTCCTG
* * * * * *
9732083 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAG-TAGAATTTGAAAATACCTCG
* ** * * * *
9732148 GCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAA
65 GCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGAAA-ACAGCAATTGAA
* * *** * * ** * ***
9732213 AATACCTCAACGTGTCTTAAGGCTCAAATCACTTCTTGCAGTATGAGTTGAATTT------TTTG
129 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTG-ATTTAAAAAAACAG
* * * **
9732272 ----AAAGACAGAAATTGAAAAT-ACCTC-A-ACGTG-TCTTG
193 ACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGC-CA
* * * * * * * * *
9732307 AGGCTCAACTCACTTCTTGCAGTATGAGTTGA--ATTTTGAAA-CAGAA-ATAAAAATTATCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAA-TACCTCG
* * * * *
9732368 GCGTGTCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAATT
65 GCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGA---TTTTTTGAAA-ACAGCAATT
* * * * *
9732433 GAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAC
126 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAAAC
* *
9732498 AGACATAAAAATAGAAATTGAAAGTGACTCAACACATGAGCCA
191 AGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
*
9732541 AGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
9732606 CGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGA-TTTTTGAGAAACAGCAATTGAAA
66 CGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGA-AAACAGCAATTGAAA
*
9732670 ATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTAAAAAAAACTG
130 ATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA-TTT-AAAAAAACAG
9732735 ACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
193 ACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
* *
9732776 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTCTAAAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TGAAAGTAGAATTTGAAAATACCTCG
*
9732841 GCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTTGACAAACAGCAATTGAA
65 GCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGA-AAACAGCAATTGAA
*
9732906 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAAAATGAGTTGATTT--AAAAACAGA
129 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAAACAGA
*
9732969 CATAAAAACCGAAATTGAAAGTGACTCAACACGTGAGCCA
194 CATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
9733009 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
9733052 ACAGAAATGA
Statistics
Matches: 656, Mismatches: 62, Indels: 46
0.86 0.08 0.06
Matches are distributed among these distances:
219 4 0.01
220 49 0.07
222 13 0.02
223 64 0.10
224 30 0.05
228 1 0.00
232 23 0.04
233 150 0.23
234 37 0.06
235 85 0.13
236 77 0.12
237 118 0.18
238 5 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (233 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
CGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTTGAAAACAGCAATTGAAAA
TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTAAAAAAACAGACA
TAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCA
Found at i:9744853 original size:40 final size:40
Alignment explanation
Indices: 9744827--9745008 Score: 294
Period size: 40 Copynumber: 4.5 Consensus size: 40
9744817 ATGGTCGCTA
9744827 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTC
*
9744867 GCACAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
9744907 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
* * * *
9744947 GCACAAATGCCTTCGGGACTTAGCCCAGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
*
9744987 GCACAAATGTCTTCGGGACTTA
1 GCACAAATGCCTTCGGGACTTA
9745009 ACCCCGTTAG
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 132 0.99
41 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
Found at i:9751836 original size:40 final size:40
Alignment explanation
Indices: 9751784--9751913 Score: 190
Period size: 40 Copynumber: 3.2 Consensus size: 40
9751774 CACAAGGCCG
* *
9751784 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATGCCT
* *
9751824 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
* *
9751864 TCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
9751904 TCGGGACTTA
1 TCGGGACTTA
9751914 ACCCCGTTAG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 79 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
Found at i:9753258 original size:28 final size:25
Alignment explanation
Indices: 9753205--9753252 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9753195 CTCCTTTCTT
*
9753205 CTTCCTTTGATTTTTTGGTCAAGGA
1 CTTCCTTTGATTTTTCGGTCAAGGA
9753230 CTTCCTTTGATTTTTCGGTCAAG
1 CTTCCTTTGATTTTTCGGTCAAG
9753253 AAGGACAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.48
Consensus pattern (25 bp):
CTTCCTTTGATTTTTCGGTCAAGGA
Found at i:9755658 original size:21 final size:20
Alignment explanation
Indices: 9755634--9755672 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9755624 TATTGAAACT
*
9755634 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
9755655 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
9755673 TAGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:9756758 original size:34 final size:34
Alignment explanation
Indices: 9756715--9756782 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
9756705 GGCGAAAGAA
*
9756715 AATCCAGCCAGGGGGGCTTGTCACCGGCCGATCG
1 AATCCAGCCAGGGGGGCTTGTCACCAGCCGATCG
9756749 AATCCAGCCAGGGGGGCTTGTCACCAGCCGATCG
1 AATCCAGCCAGGGGGGCTTGTCACCAGCCGATCG
9756783 TCGGTCGCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.19, C:0.32, G:0.34, T:0.15
Consensus pattern (34 bp):
AATCCAGCCAGGGGGGCTTGTCACCAGCCGATCG
Found at i:9756884 original size:22 final size:22
Alignment explanation
Indices: 9756841--9756885 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9756831 AAAGGTAATT
* ** *
9756841 TTTTTATATTTTTTTTATTATA
1 TTTTTATATGTTTTAAAATATA
9756863 TTTTTATATGTTTTAAAATATA
1 TTTTTATATGTTTTAAAATATA
9756885 T
1 T
9756886 ATGTGAGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTATATGTTTTAAAATATA
Found at i:9761743 original size:46 final size:48
Alignment explanation
Indices: 9761693--9761816 Score: 153
Period size: 46 Copynumber: 2.6 Consensus size: 48
9761683 CATGAGTGCC
* * * *
9761693 AGTGTAAGACATGTCTGGGACGTGCATCTGCATTGAGACA-A-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACATACAAGCT
* * *
9761739 AGTGTAAGACATGTCTGGGATATGCATCAGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACATACAAGCT
*
9761787 AGTGTAAGACCTGTCTGGGACATGGCATCA
1 AGTGTAAGACATGTCTGGGACAT-GCATCA
9761817 ACACCGATAG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
46 34 0.52
47 1 0.02
48 25 0.38
49 6 0.09
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACATACAAGCT
Found at i:9761844 original size:49 final size:49
Alignment explanation
Indices: 9761741--9761913 Score: 154
Period size: 49 Copynumber: 3.6 Consensus size: 49
9761731 CAAGAGCTAG
* * * * * * *
9761741 TGTAAGACATGTCTGGGATAT-GCATCAGCCTCGAGATAT-ACAAGCTAG
1 TGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGA-AAGCCAA
*
9761789 TGTAAGACCTGTCTGGGACATGGCATCAACAC-CGATAGATGAGAGCCAA
1 TGTAAGACCTGTCTGGGACATGGCATCAAC-CTCGATAGATGAAAGCCAA
* *** * * *
9761838 TGTAAGAGCTGTCTGGGACATGGCATTGGCCTCGATATATGAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGCCAA
* *
9761887 TGTAAGACCTGTTTGGGACACGGCATC
1 TGTAAGACCTGTCTGGGACATGGCATC
9761914 GACTTTAATA
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 20 0.20
49 79 0.78
50 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGCCAA
Found at i:9781617 original size:46 final size:46
Alignment explanation
Indices: 9781555--9781644 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
9781545 TACAATAGAG
*
9781555 AATATGGAATTAAAGAAATAAACCAGTCACCAAGTATTCAAAGAAT
1 AATATGGAATTAAAGAAATAAACCAATCACCAAGTATTCAAAGAAT
**
9781601 AATATGGAATTAAAGAAATAAATTAATCACCAAGTATTCAAAGA
1 AATATGGAATTAAAGAAATAAACCAATCACCAAGTATTCAAAGA
9781645 TTAAAATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.23
Consensus pattern (46 bp):
AATATGGAATTAAAGAAATAAACCAATCACCAAGTATTCAAAGAAT
Found at i:9782408 original size:67 final size:67
Alignment explanation
Indices: 9782300--9782434 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
9782290 CGTCTTTGGA
9782300 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
1 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
9782365 GC
66 GC
9782367 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
1 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
9782432 GC
66 GC
9782434 C
1 C
9782435 ATTCATCATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.19
Consensus pattern (67 bp):
CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
GC
Found at i:9790600 original size:20 final size:20
Alignment explanation
Indices: 9790555--9790602 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9790545 ATTTAGATCA
* *
9790555 AGAAACGAACTAGTCTGTTT
1 AGAAACGGACTAGTCTGTTG
*
9790575 AGAAACGGACTAGTTTGTTG
1 AGAAACGGACTAGTCTGTTG
*
9790595 ATAAACGG
1 AGAAACGG
9790603 GAAAAAGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (20 bp):
AGAAACGGACTAGTCTGTTG
Found at i:9793662 original size:50 final size:50
Alignment explanation
Indices: 9793587--9793687 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
9793577 AACCAGCTCG
9793587 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
1 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
9793637 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
1 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
9793687 A
1 A
9793688 TGCGGGACAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (50 bp):
ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
Found at i:9806501 original size:101 final size:101
Alignment explanation
Indices: 9806318--9806501 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
9806308 ACGTAAATGA
* * *
9806318 GGCATCGACATGTGAATTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATGTGTGATTCCT
1 GGCATCGACATGTGAACTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCA
*
9806383 ATATATGTGAGCGAGTAAGAGCGCATTTAATATTTT
66 ATATATGTGAGCAAGTAAGAGCGCATTTAATATTTT
*
9806419 GGCATCGATATGTG-ACTCCGATATGTGATGTGCAAGTAAG-GCCATGGCATCGATATGTGATTC
1 GGCATCGACATGTGAACTCCGATATGTGATGTGCAAGTAAGAG--ATGGCATCGATATGTGATTC
*
9806482 CAATATATGTGTGCAAGTAA
64 CAATATATGTGAGCAAGTAA
9806502 AACCCTGTCT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
99 1 0.01
100 25 0.33
101 49 0.65
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (101 bp):
GGCATCGACATGTGAACTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCA
ATATATGTGAGCAAGTAAGAGCGCATTTAATATTTT
Found at i:9810619 original size:40 final size:40
Alignment explanation
Indices: 9810573--9810672 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
9810563 TGATTGTATA
*
9810573 TATATATGGCACTTAGTGTGCAATTCGAG-ATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATT-GAGAATAGCTTCAGC
* *
9810613 TTTATATGGCACTTAGTGTGCAATTTAGAATAGCTTCAGC
1 TATATATGGCACTTAGTGTGCAATTGAGAATAGCTTCAGC
9810653 TATATATGGCACTTAGTGTG
1 TATATATGGCACTTAGTGTG
9810673 TGAGACTGAG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.04
40 53 0.96
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAATTGAGAATAGCTTCAGC
Found at i:9814078 original size:10 final size:10
Alignment explanation
Indices: 9814063--9814114 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
9814053 ATTATTAACA
9814063 TAATTAATTT
1 TAATTAATTT
*
9814073 TAATTAAACTTA
1 TAATT-AA-TTT
*
9814085 TAATAAATTT
1 TAATTAATTT
9814095 TAATTAATTT
1 TAATTAATTT
*
9814105 TGATT-ATTT
1 TAATTAATTT
9814114 T
1 T
9814115 CGACAGAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 5 0.14
10 20 0.57
11 4 0.11
12 6 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
TAATTAATTT
Found at i:9814079 original size:27 final size:28
Alignment explanation
Indices: 9814026--9814085 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
9814016 ATATATAAAT
* *
9814026 ATTA-TAAAATAATTATTTTGTACTTAA
1 ATTATTAAAATAATTAATTTGTAATTAA
*
9814053 ATTATTAACATAATTAATTT-TAATTAA
1 ATTATTAAAATAATTAATTTGTAATTAA
9814080 ACTTAT
1 A-TTAT
9814086 AATAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTATTAAAATAATTAATTTGTAATTAA
Found at i:9816960 original size:43 final size:43
Alignment explanation
Indices: 9816876--9817033 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
9816866 TCTAAGATAT
* * * *
9816876 CGTGTAAGACCGTGTCTAGGACA-CAGGCTTCGAT-TGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTA
*
9816919 CGTATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTA
* * ** **
9816961 CGTGTAAGACCCTGTCTTGGACAGAGGCATCGATATTGAAGTA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
* * * *
9817004 CATGTAAGACCACGTTTGGGACGTCGGCAT
1 CGTGTAAGACCATGTCTGGGACATCGGCAT
9817034 TGTACTTGAT
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
42 32 0.36
43 57 0.63
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
Found at i:9816983 original size:42 final size:40
Alignment explanation
Indices: 9816870--9816994 Score: 108
Period size: 42 Copynumber: 3.0 Consensus size: 40
9816860 CATTTGTCTA
* * *
9816870 AGATATCGTGTAAGACCGTGTCTAGGACACAGGCTTCGATT
1 AGATTTCGTGTAAGACCATGTCTAGGACAC-GGCATCGATT
* *
9816911 GAGATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT
1 -AGATTT-CGTGTAAGACCATGTCTAGGACA-CGGCATCG-AT-T
* * *
9816956 -GATTTCGTGTAAGACCCTGTCTTGGACAGAGGCATCGAT
1 AGATTTCGTGTAAGACCATGTCTAGGACA-CGGCATCGAT
9816995 ATTGAAGTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 32 0.46
43 31 0.45
44 3 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
AGATTTCGTGTAAGACCATGTCTAGGACACGGCATCGATT
Found at i:9817044 original size:85 final size:85
Alignment explanation
Indices: 9816875--9817033 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
9816865 GTCTAAGATA
* * * * *
9816875 TCGTGTAAGACCGTGTCTAGGACACAGGCTTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATGTACATATAAGACCACGTCTGGGA
9816940 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * * *
9816960 TCGTGTAAGACCCTGTCTTGGACAGAGGCATCGATATTGA-A-GTACATGTAAGACCACGTTTGG
1 TCGTGTAAGACCCTGTCTAGGACACAGGCATCG--ATTGAGATGTACATATAAGACCACGTCTGG
*
9817023 GACGTCGGCAT
64 GACATCGGCAT
9817034 TGTACTTGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 56 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATGTACATATAAGACCACGTCTGGGA
CATCGGCATCGTATCTGATT
Found at i:9822410 original size:41 final size:41
Alignment explanation
Indices: 9822326--9822473 Score: 201
Period size: 41 Copynumber: 3.6 Consensus size: 41
9822316 GATTCGGATA
* *
9822326 TATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
* *
9822366 TATATATGGCACTTAGTGTGCGAGACCAAGATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
* *
9822407 TATATAAGGCACTTAGTGTGCGAGATTATA-ATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATCA-AGATAGCTTCGGC
*
9822448 TATGTATTGGCACTTAGTGTGCGAGA
1 TATATA-TGGCACTTAGTGTGCGAGA
9822474 ATTTGAGTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 23 0.24
41 53 0.56
42 19 0.20
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
Found at i:9826290 original size:25 final size:25
Alignment explanation
Indices: 9826257--9826304 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9826247 TGGAATGAAT
9826257 ATATACCATATGATAAATTAATTAA
1 ATATACCATATGATAAATTAATTAA
*
9826282 ATATGCCATATGATAAATTAATT
1 ATATACCATATGATAAATTAATT
9826305 CATAGGTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (25 bp):
ATATACCATATGATAAATTAATTAA
Found at i:9827809 original size:27 final size:26
Alignment explanation
Indices: 9827765--9827816 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
9827755 CTCGCTGCAA
*
9827765 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
9827792 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
9827817 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:9836653 original size:12 final size:12
Alignment explanation
Indices: 9836636--9836660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9836626 ACTTATAAGG
9836636 TTAAATATGTAA
1 TTAAATATGTAA
9836648 TTAAATATGTAA
1 TTAAATATGTAA
9836660 T
1 T
9836661 ACATTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAAATATGTAA
Found at i:9840169 original size:27 final size:27
Alignment explanation
Indices: 9840138--9840224 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
9840128 CCCCAAAATA
*
9840138 GGTAAAATAATCATAATACCCCTGTAG
1 GGTAAAATGATCATAATACCCCTGTAG
* *
9840165 GGTAAAATGACCGTAA-AGCCCCTGTAG
1 GGTAAAATGATCATAATA-CCCCTGTAG
* *
9840192 GGTAAAATGATCATAATACCCCTTTAT
1 GGTAAAATGATCATAATACCCCTGTAG
9840219 GGTAAA
1 GGTAAA
9840225 CTGACGATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 49 0.96
28 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (27 bp):
GGTAAAATGATCATAATACCCCTGTAG
Found at i:9851041 original size:28 final size:28
Alignment explanation
Indices: 9851008--9851062 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
9850998 ATTACACACT
* *
9851008 ACTGATACTGCATTGGGCTTAGGCCCAC
1 ACTGATACTGCATAGGGCTAAGGCCCAC
*
9851036 ACTGATACTGTATAGGGCTAAGGCCCA
1 ACTGATACTGCATAGGGCTAAGGCCCA
9851063 GATTATACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (28 bp):
ACTGATACTGCATAGGGCTAAGGCCCAC
Found at i:9852386 original size:45 final size:44
Alignment explanation
Indices: 9852335--9852438 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 44
9852325 CTAATTATGG
* ** *
9852335 GCACTTAATGTGTGAAATCAAGATAGCTTCGGATATATATATTTT
1 GCACTTAGTGTGCAAAATCAAGATAGCTTCGGATATATATA-TAT
* * *
9852380 GCACTTAGCGTGCAAAATCGAGATAGCTTCGGCTATATATATAT
1 GCACTTAGTGTGCAAAATCAAGATAGCTTCGGATATATATATAT
9852424 GCACTTAGTGTGCAA
1 GCACTTAGTGTGCAA
9852439 GATTGATACA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.31
45 35 0.69
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (44 bp):
GCACTTAGTGTGCAAAATCAAGATAGCTTCGGATATATATATAT
Found at i:9852454 original size:44 final size:45
Alignment explanation
Indices: 9852361--9852459 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
9852351 ATCAAGATAG
* * * *
9852361 CTTCGGATATATATATTTTGCACTTAGCGTGCAAAATCGAGATAG
1 CTTCGGCTATATATATTATGCACTTAGCGTGCAAAATCGAGACAA
* * * *
9852406 CTTCGGCTATATATA-TATGCACTTAGTGTGCAAGATTGATACAA
1 CTTCGGCTATATATATTATGCACTTAGCGTGCAAAATCGAGACAA
*
9852450 CTTCGACTAT
1 CTTCGGCTAT
9852460 TTATTTGGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 31 0.69
45 14 0.31
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (45 bp):
CTTCGGCTATATATATTATGCACTTAGCGTGCAAAATCGAGACAA
Found at i:9861277 original size:22 final size:22
Alignment explanation
Indices: 9861249--9861293 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9861239 AAGATTTGGA
9861249 AAACCAAATGGGTTAGTTAGCT
1 AAACCAAATGGGTTAGTTAGCT
9861271 AAACCAAATGGGTTAGTTAGCT
1 AAACCAAATGGGTTAGTTAGCT
9861293 A
1 A
9861294 CGGAGCTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (22 bp):
AAACCAAATGGGTTAGTTAGCT
Found at i:9863152 original size:13 final size:13
Alignment explanation
Indices: 9863130--9863160 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9863120 TTACTTTAGT
9863130 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
9863142 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
9863155 TTAGTT
1 TTAGTT
9863161 AATAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:9866644 original size:27 final size:28
Alignment explanation
Indices: 9866614--9866675 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
9866604 TCATACATCT
*
9866614 CATAAGGG-C-ATCATAGTCATTTTATCA
1 CATAAGGGACAAT-ATAGTCATTTTACCA
*
9866641 CAT-AGGGACAATATAGTCTTTTTACCA
1 CATAAGGGACAATATAGTCATTTTACCA
*
9866668 CAAAAGGG
1 CATAAGGG
9866676 GGTCTAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 19 0.66
28 6 0.21
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (28 bp):
CATAAGGGACAATATAGTCATTTTACCA
Found at i:9867768 original size:14 final size:15
Alignment explanation
Indices: 9867746--9867775 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9867736 GAATATTAAA
9867746 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
9867761 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
9867775 A
1 A
9867776 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:9874772 original size:18 final size:19
Alignment explanation
Indices: 9874737--9874772 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9874727 ATAATTTTCA
*
9874737 TTTTTTTTCATGTTCAAGT
1 TTTTTTTTCATGTACAAGT
9874756 TTTTTTTTCAT-TACAAG
1 TTTTTTTTCATGTACAAG
9874773 ATTTCTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTTTTCATGTACAAGT
Found at i:9875035 original size:40 final size:40
Alignment explanation
Indices: 9874989--9875099 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
9874979 TTATAGTTGT
* *
9874989 GGCTAAGTCCCGAAGAGCATTCATGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCG
* *
9875029 GGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTACATCTG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCG
* * *
9875069 GGCTAAGTCCTGAAGGGCATTCGTGCCGGTG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
9875100 ATGTGTAATC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTACATCCG
Found at i:9875302 original size:25 final size:25
Alignment explanation
Indices: 9875263--9875317 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
9875253 TGTGTAATAA
9875263 CGAATGAATGTAGGCACTATGTGTG
1 CGAATGAATGTAGGCACTATGTGTG
*
9875288 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATGT-AGGCACTATGTGTG
9875313 CGAAT
1 CGAAT
9875318 TCTTTAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (25 bp):
CGAATGAATGTAGGCACTATGTGTG
Found at i:9878149 original size:27 final size:27
Alignment explanation
Indices: 9878118--9878268 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
9878108 TAAATTGTAC
*
9878118 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
9878145 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
9878171 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
9878199 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
9878227 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
9878254 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9878269 GACTCGATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:9878232 original size:82 final size:81
Alignment explanation
Indices: 9878119--9878268 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
9878109 AAATTGTACA
*
9878119 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
9878183 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
9878200 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
9878265 TGCG
65 TGCG
9878269 GACTCGATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9878259 original size:55 final size:53
Alignment explanation
Indices: 9878118--9878268 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 53
9878108 TAAATTGTAC
* *
9878118 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* ** ** *
9878171 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * * *
9878226 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
9878269 GACTCGATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.47
55 41 0.51
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:9886168 original size:27 final size:27
Alignment explanation
Indices: 9886137--9886287 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
9886127 TAAATTGTAC
*
9886137 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
9886164 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
9886190 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
9886218 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
9886246 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
9886273 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9886288 GACTCGATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:9886251 original size:82 final size:81
Alignment explanation
Indices: 9886138--9886287 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
9886128 AAATTGTACA
*
9886138 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
9886202 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
9886219 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
9886284 TGCG
65 TGCG
9886288 GACTCGATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9886278 original size:55 final size:53
Alignment explanation
Indices: 9886137--9886287 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 53
9886127 TAAATTGTAC
* *
9886137 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* ** ** *
9886190 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * * *
9886245 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
9886288 GACTCGATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.47
55 41 0.51
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:9900781 original size:8 final size:8
Alignment explanation
Indices: 9900768--9900799 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
9900758 TTATGTTTTA
9900768 TATTATAT
1 TATTATAT
9900776 TATTATAT
1 TATTATAT
9900784 TATTATAT
1 TATTATAT
9900792 TATTATAT
1 TATTATAT
9900800 ATATACAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:9900831 original size:14 final size:14
Alignment explanation
Indices: 9900812--9900857 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
9900802 ATACAAAGAA
9900812 AGAAAGAAAAAAAG
1 AGAAAGAAAAAAAG
*
9900826 AGAAAGAAAAAAAC
1 AGAAAGAAAAAAAG
9900840 AGAAGAGAGAAAGAAAG
1 AGAA-AGA-AAA-AAAG
9900857 A
1 A
9900858 AACAGAGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 17 0.63
15 3 0.11
16 3 0.11
17 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAAAG
Found at i:9900850 original size:21 final size:20
Alignment explanation
Indices: 9900808--9900863 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
9900798 ATATATACAA
9900808 AGAAAGAAAGAAA-A-AAAG
1 AGAAAGAAAGAAACAGAAAG
*
9900826 AGAAAGAAAAAAACAGAAGAG
1 AGAAAGAAAGAAACAGAA-AG
9900847 AGAAAGAAAGAAACAGA
1 AGAAAGAAAGAAACAGA
9900864 GAGCAAAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 12 0.36
19 1 0.03
20 2 0.06
21 18 0.55
ACGTcount: A:0.73, C:0.04, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAAAGAAAGAAACAGAAAG
Found at i:9900916 original size:5 final size:4
Alignment explanation
Indices: 9900806--9900915 Score: 64
Period size: 4 Copynumber: 26.8 Consensus size: 4
9900796 ATATATATAC
* * * *
9900806 AAAG AAAG AAAG AAA- AAA- AGAG AAAG AAAA AAAC AGAAG AGAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG
* * * * *
9900853 AAAG AAACAG AGAG CAA- AACG AACAG AGAAG GAAG GAAG AAAG AAAG
1 AAAG -AA-AG AAAG AAAG AAAG AA-AG A-AAG AAAG AAAG AAAG AAAG
9900900 AAAG AAAG AAAAG AAA
1 AAAG AAAG -AAAG AAA
9900916 AAGGGAAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
3 6 0.07
4 60 0.72
5 14 0.17
6 3 0.04
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:9904997 original size:42 final size:43
Alignment explanation
Indices: 9904938--9905021 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 43
9904928 TTTTTGTTGC
*
9904938 CATTTGTTTTTGCATACTTTCTCTA-ATGGCCAAACTGCTTGA
1 CATTTATTTTTGCATACTTTCTCTACATGGCCAAACTGCTTGA
9904980 CATTTATTTTTGCATACTTTCTCTACATGGCCAAACTGCTTG
1 CATTTATTTTTGCATACTTTCTCTACATGGCCAAACTGCTTG
9905022 CAATTTTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 24 0.60
43 16 0.40
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (43 bp):
CATTTATTTTTGCATACTTTCTCTACATGGCCAAACTGCTTGA
Found at i:9905352 original size:75 final size:75
Alignment explanation
Indices: 9905227--9905382 Score: 294
Period size: 75 Copynumber: 2.1 Consensus size: 75
9905217 AACATGTTTT
* *
9905227 TCTTCTCTATTTGCCCTTCTTTGTTCTAGAGTATTGATTGGCTATGAGAGTGAAATGGTTGATAG
1 TCTTCTCTATTTGCCCTTCTTTGTTCTAGAGTATTGATTAGCTATAAGAGTGAAATGGTTGATAG
9905292 ATCCCTTAAG
66 ATCCCTTAAG
9905302 TCTTCTCTATTTGCCCTTCTTTGTTCTAGAGTATTGATTAGCTATAAGAGTGAAATGGTTGATAG
1 TCTTCTCTATTTGCCCTTCTTTGTTCTAGAGTATTGATTAGCTATAAGAGTGAAATGGTTGATAG
9905367 ATCCCTTAAG
66 ATCCCTTAAG
9905377 TCTTCT
1 TCTTCT
9905383 AGTGAGGATA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (75 bp):
TCTTCTCTATTTGCCCTTCTTTGTTCTAGAGTATTGATTAGCTATAAGAGTGAAATGGTTGATAG
ATCCCTTAAG
Found at i:9906755 original size:21 final size:21
Alignment explanation
Indices: 9906717--9906756 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9906707 TTTGTCAAGC
*
9906717 TACTCGAATCAAATATTAAGA
1 TACTCGAATCAAAGATTAAGA
* *
9906738 TACTCGAATTACAGATTAA
1 TACTCGAATCAAAGATTAA
9906757 AATAGAAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (21 bp):
TACTCGAATCAAAGATTAAGA
Found at i:9908323 original size:246 final size:247
Alignment explanation
Indices: 9907888--9908624 Score: 901
Period size: 261 Copynumber: 2.9 Consensus size: 247
9907878 CAGTGTCATG
* * * * * *
9907888 GTTGATAGATGTACCCTTTGTAGCGGTATTAACACCTAGGATGCCATCAATGGCTTTGAGA-TAT
1 GTTGATAGATGTACCCTTTGTAGCGTTATCAACATCTGGGATGCTATCAATGGCCTTGAGATTAT
** * * *
9907952 CTTCCCCTGATGGTG-ATGCATCCATGATACCTTGTTGACGAGACATATTTTGTATTTGTTCACC
66 CTTCCATTGATTGTGAATG--TCCATGATACCTTCTTGACGAGACATATTTTGTATCTGTTCACC
* * * * * *
9908016 ATTTTTTATGCTACTCAAGCTCTTAGCTTCTCCTGCTGAAGTTGATAAGCTAGCGTTGGCTTCAG
129 ATTTTTTATGTTATTCAAGCTGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAG
* ** * *
9908081 CTTCAGCTAAAATTTTGGACTTGTGTTCAGAATCTTCTGGTTTTGATGC-TTT-
194 CTTCGGCTAATCTTTTGGATTTGTGTTCAGAATCTTCTGGCTTTGATGCTTTTA
*
9908133 GTTGATAGATGTACCCTTTGTAGCGTTATCAACATCTGGGATGCTATCAAGGGCCTTGAGATTAT
1 GTTGATAGATGTACCCTTTGTAGCGTTATCAACATCTGGGATGCTATCAATGGCCTTGAGATTAT
* *
9908198 CTTCCATTGATTGTGACATGTCCATGATACCTTCTTGACGAGACATATTTTGCATCTGTTGACCA
66 CTTCCATTGATTGTGA-ATGTCCATGATACCTTCTTGACGAGACATATTTTGTATCTGTTCACCA
* * * * * *
9908263 ATTCTAATGTTATTCAAGCGGTAAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAAC
130 TTTTTTATGTTATTCAAGCTGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAGC
*
9908328 TTCGGCTAATCTTTTGGATTTGTGTTCAGAATCTTTTGGCTTTGATGCTTTTGCA
195 TTCGGCTAATCTTTTGGATTTGTGTTCAGAATCTTCTGGCTTTGATGCTTTT--A
*
9908383 GCAAATTCATGGTCGATAGATGTACCCTTTGTAGCATTATCAACATCTGGGATGCTATCAATGGC
1 G--------T--T-GATAGATGTACCCTTTGTAGCGTTATCAACATCTGGGATGCTATCAATGGC
* * *
9908448 CATGCA-ATTATCTTCCATTGATTGTG-ATGTGCCCATGATACCTTCTTGTCGATACATATTTTG
55 CTTG-AGATTATCTTCCATTGATTGTGAATGT--CCATGATACCTTCTTGACGAGACATATTTTG
*
9908511 TATCTGTTCACCATTTTTTATGTAATTCAAGCTGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAG
117 TATCTGTTCACCATTTTTTATGTTATTCAAGCTGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAG
* * *
9908576 CATTGGCTTCGGCTTTGGCTAATCTTTTGGATTTATGTTCAGAATCTTC
182 CATTGGCTTCAGCTTCGGCTAATCTTTTGGATTTGTGTTCAGAATCTTC
9908625 AATAGATCCT
Statistics
Matches: 421, Mismatches: 50, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
245 54 0.13
246 151 0.36
247 3 0.01
248 3 0.01
250 1 0.00
258 1 0.00
259 4 0.01
260 1 0.00
261 202 0.48
262 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (247 bp):
GTTGATAGATGTACCCTTTGTAGCGTTATCAACATCTGGGATGCTATCAATGGCCTTGAGATTAT
CTTCCATTGATTGTGAATGTCCATGATACCTTCTTGACGAGACATATTTTGTATCTGTTCACCAT
TTTTTATGTTATTCAAGCTGTTAGTTTCTCCTGCTGAAGTTGATAGGCTAGCATTGGCTTCAGCT
TCGGCTAATCTTTTGGATTTGTGTTCAGAATCTTCTGGCTTTGATGCTTTTA
Found at i:9918398 original size:4 final size:4
Alignment explanation
Indices: 9918389--9918513 Score: 124
Period size: 4 Copynumber: 31.2 Consensus size: 4
9918379 TGAACACCCA
9918389 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
* * * * * * * * * * *
9918437 ACAC ACAC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC GCGC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
* * *
9918485 GCGC GCAC ACAC ACAC ACAC ACAC ACAC A
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC A
9918514 TATATATATA
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 117 1.00
ACGTcount: A:0.39, C:0.50, G:0.11, T:0.00
Consensus pattern (4 bp):
ACAC
Found at i:9920478 original size:32 final size:33
Alignment explanation
Indices: 9920426--9920491 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
9920416 AGACAAGTTG
*
9920426 AAGAAGAAAGAAAAAAATGGTTTGTCTTGTTTT
1 AAGAAGAAAGAAAAAAATGGTTTGTCTTATTTT
*
9920459 AAGAAGAAAG-AAAAAATGGTTTGTGTTATTTT
1 AAGAAGAAAGAAAAAAATGGTTTGTCTTATTTT
9920491 A
1 A
9920492 TTTTACTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (33 bp):
AAGAAGAAAGAAAAAAATGGTTTGTCTTATTTT
Found at i:9923539 original size:18 final size:18
Alignment explanation
Indices: 9923513--9923547 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9923503 TTGTAACGTT
*
9923513 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
9923531 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
9923548 CGTCCTAAGT
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:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:9924235 original size:26 final size:26
Alignment explanation
Indices: 9924157--9924286 Score: 167
Period size: 26 Copynumber: 5.1 Consensus size: 26
9924147 GCCTAGCCTC
9924157 TTTCAAT-AACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
*** *
9924181 TTTTGGTAAATTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
*
9924206 TTTCAATAAACTGGGGCATAAGCCAT
1 TTTCAATAAACTGGGGCATAAGCCCT
**
9924232 TTTCGGTAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
*
9924258 TTTCAATAAACTAGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
9924284 TTT
1 TTT
9924287 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
24 4 0.04
25 30 0.34
26 55 0.62
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
TTTCAATAAACTGGGGCATAAGCCCT
Found at i:9924268 original size:52 final size:51
Alignment explanation
Indices: 9924157--9924286 Score: 201
Period size: 52 Copynumber: 2.6 Consensus size: 51
9924147 GCCTAGCCTC
* *
9924157 TTTCAAT-AACTGGGGCA-AAGCCCTTTTTGGTAAATTGGGGCAAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCT
*
9924206 TTTCAATAAACTGGGGCATAAGCCATTTTCGGTAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCT
*
9924258 TTTCAATAAACTAGGGCATAAGCCCTTTT
1 TTTCAATAAACTGGGGCATAAGCCCTTTT
9924287 GCACTTCCTC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 7 0.10
50 10 0.14
51 22 0.30
52 34 0.47
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCT
Found at i:9924361 original size:20 final size:20
Alignment explanation
Indices: 9924336--9924410 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
9924326 TTATGAATTC
*
9924336 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
9924356 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
9924376 GTCATGTACATATCATATCA-
1 ATCATGTGCATATCATA-CAT
9924396 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
9924411 TCCCACGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.80
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:9924385 original size:11 final size:11
Alignment explanation
Indices: 9924351--9924403 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
9924341 GTGCATTTCA
9924351 TACATATCATG
1 TACATATCATG
*
9924362 TGCATATCA--
1 TACATATCATG
*
9924371 TACATGTCATG
1 TACATATCATG
*
9924382 TACATATCATA
1 TACATATCATG
9924393 T-CA-ATCATG
1 TACATATCATG
9924402 TA
1 TA
9924404 TATCATATCC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 13 0.39
10 2 0.06
11 18 0.55
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (11 bp):
TACATATCATG
Found at i:9924466 original size:25 final size:25
Alignment explanation
Indices: 9924438--9924485 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
9924428 ATAATTAAAC
* * *
9924438 CCTAGAGGTATAATAGTCATTTTTA
1 CCTAGAGGCAAAACAGTCATTTTTA
*
9924463 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGAGGCAAAACAGTCATTTT
9924486 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (25 bp):
CCTAGAGGCAAAACAGTCATTTTTA
Found at i:9931998 original size:25 final size:26
Alignment explanation
Indices: 9931970--9932065 Score: 126
Period size: 25 Copynumber: 3.8 Consensus size: 26
9931960 CTCTTTCAAT
9931970 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
9931995 AACTGGGGCA-AATCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* *
9932020 AACTGGGGTATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
9932046 AACTGGGGCATAAG-CCTTTT
1 AACTGGGGCATAAGCCCTTTT
9932066 GCACTTCCTC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 36 0.60
26 24 0.40
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:9932064 original size:51 final size:48
Alignment explanation
Indices: 9931957--9932065 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 48
9931947 CTGGAGGCCT
*
9931957 AGCCTCTTTCAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCT-TTTCAATAACTGGGGCAAAGCCATTTTCGGTAAACTGGGGCAA
* *
9932006 ATCCCTTTTCAATAAACTGGGGTATAAGCCATTTTCGGTAAACTGGGGCATA
1 A-GCCTTTTCAAT-AACTGGGGCA-AAGCCATTTTCGGTAAACTGGGGCA-A
9932058 AGCCTTTT
1 AGCCTTTT
9932066 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
49 8 0.15
50 12 0.23
51 30 0.58
52 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCTTTTCAATAACTGGGGCAAAGCCATTTTCGGTAAACTGGGGCAA
Found at i:9932138 original size:20 final size:20
Alignment explanation
Indices: 9932113--9932187 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
9932103 TTATGAATTC
* *
9932113 ATCATGTGCATTTCATACAT
1 ATCATGTGTATATCATACAT
9932133 ATCATGTGTATATCATACAT
1 ATCATGTGTATATCATACAT
*
9932153 GTCATGTGTATATCATATCA-
1 ATCATGTGTATATCATA-CAT
9932173 ATCA--TGTATATCATA
1 ATCATGTGTATATCATA
9932188 TCCCACGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.22
20 37 0.74
21 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
ATCATGTGTATATCATACAT
Found at i:9954781 original size:14 final size:13
Alignment explanation
Indices: 9954762--9954838 Score: 70
Period size: 14 Copynumber: 5.9 Consensus size: 13
9954752 TCTATTTCAA
9954762 AAAAAAAGAAATAG
1 AAAAAAAGAAA-AG
*
9954776 AAAAAAAGAAAAA
1 AAAAAAAGAAAAG
9954789 AAGAAAAAG-AAA-
1 AA-AAAAAGAAAAG
*
9954801 AAAAAAGGAAATAG
1 AAAAAAAGAAA-AG
*
9954815 AAAAAAGGAAAA-
1 AAAAAAAGAAAAG
*
9954827 AGAAAAAGAAAA
1 AAAAAAAGAAAA
9954839 TGGAGAGAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
11 5 0.09
12 14 0.25
13 8 0.15
14 28 0.51
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:9954782 original size:17 final size:17
Alignment explanation
Indices: 9954760--9954820 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 17
9954750 CTTCTATTTC
9954760 AAAAAAAAAGAAATAGAAAAA
1 AAAAAAAAAGAAATAG----A
*
9954781 AAGAAAAAAAGAAAAAGA
1 AA-AAAAAAAGAAATAGA
*
9954799 AAAAAAAAGGAAATAGA
1 AAAAAAAAAGAAATAGA
9954816 AAAAA
1 AAAAA
9954821 GGAAAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 18 0.50
18 3 0.08
21 2 0.06
22 13 0.36
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAGAAATAGA
Found at i:9954787 original size:6 final size:6
Alignment explanation
Indices: 9954760--9954838 Score: 76
Period size: 6 Copynumber: 13.5 Consensus size: 6
9954750 CTTCTATTTC
* *
9954760 AAAA-A AAAAGA AATAGA AAAA-A AGAA-A AAAAGA AAAAGA AAAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
9954804 AAAGGA AATAGAA AAAAGGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAG-A AAAA-GA AAAAGA AAAAGA AAA
9954839 TGGAGAGAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
5 16 0.26
6 35 0.57
7 9 0.15
8 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:9954790 original size:22 final size:22
Alignment explanation
Indices: 9954762--9954804 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9954752 TCTATTTCAA
*
9954762 AAAAAAAGAAATAGAAAAAAAG
1 AAAAAAAGAAAAAGAAAAAAAG
9954784 AAAAAAAGAAAAAGAAAAAAA
1 AAAAAAAGAAAAAGAAAAAAA
9954805 AAGGAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAAAAAGAAAAAGAAAAAAAG
Found at i:9954813 original size:39 final size:36
Alignment explanation
Indices: 9954760--9954838 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 36
9954750 CTTCTATTTC
9954760 AAAAAAAAAGAAATAGAAAAAAAGAAAAAAAGAAAAAG
1 AAAAAAAAAGAAATAG-AAAAAAG-AAAAAAGAAAAAG
*
9954798 AAAAAAAAAGGAAATAGAAAAAAGGAAAAAGAAAAAG
1 AAAAAAAAA-GAAATAGAAAAAAGAAAAAAGAAAAAG
9954835 AAAA
1 AAAA
9954839 TGGAGAGAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 16 0.41
38 16 0.41
39 7 0.18
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (36 bp):
AAAAAAAAAGAAATAGAAAAAAGAAAAAAGAAAAAG
Found at i:9955805 original size:44 final size:43
Alignment explanation
Indices: 9955753--9955863 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 43
9955743 CAAGATTTGG
9955753 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAG-ATCTGA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGCA--TGA
* * * * * * ** *
9955797 CATTCCTGTGCTTACAGCGAAGTAGATCGAAGTTTTCAGCATGT
1 CATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGCATGA
9955841 CATCCCTGTGTTTATAGGGAACA
1 CATCCCTGTGTTTATAGGGAACA
9955864 AGTTGAACAT
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
43 1 0.02
44 36 0.71
45 13 0.25
46 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGCATGA
Found at i:9956007 original size:119 final size:119
Alignment explanation
Indices: 9955870--9956976 Score: 1885
Period size: 119 Copynumber: 9.3 Consensus size: 119
9955860 AACAAGTTGA
* *
9955870 ACATAGAAGATTTAACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
*
9955935 GAAACAGATCCAAGATGATTTAGTATTCTTGTGTTTACAAGGAACAAATCGAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
*
9955989 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGTAGATCTAGCTTTCAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
9956054 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
*
9956108 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTGAAC-TTCAGATGTTTATAC
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCT-AGCTTTCAGATGTTTATAC
*
9956172 TGAAACAGATCCAAGATGATTTGGTTTTCTTGTGTTTACAAGGAACAAATCGAGG
65 TGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
*
9956227 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTTAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
* *
9956292 GAAACAGATCCAAGATGTTTTGGTATTCTTGTGTTTACAAGGAACAAATCCAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
*
9956346 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTTAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
* *
9956411 GAAACAGATCCAAGATGTTTTGGTATTCTTGTGTTTACAAGGAACAAATCCAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
*
9956465 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTTAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
9956530 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
*
9956584 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAAACTTT-AGATGTTTATAC
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCT-AGCTTTCAGATGTTTATAC
* *
9956648 TGAAGCAGATCTAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
65 TGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* *
9956703 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
9956768 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* * * * *
9956822 ACATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGATCTAACCTTCAGAAGTTTATA
1 ACATAGCAGATTTGACTCTCAGATGTTCTCA-A-ATATAGCAGATCTAGCTTTCAGATGTTTATA
* ** * *
9956887 CTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCAAGG
64 CTGAA-ACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* *
9956944 ACATAGTAGATTTGACTCTCATATGTTCTCAAA
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAA
9956977 CAGACTCCAG
Statistics
Matches: 951, Mismatches: 30, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
118 7 0.01
119 826 0.87
120 9 0.01
121 34 0.04
122 75 0.08
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (119 bp):
ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATGTTTATACT
GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
Found at i:9957649 original size:18 final size:18
Alignment explanation
Indices: 9957582--9957725 Score: 211
Period size: 18 Copynumber: 7.9 Consensus size: 18
9957572 ATAATCTTCA
*
9957582 ATGATATGCAATTTTAGAT
1 ATGAT-TGCAATCTTAGAT
9957601 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
9957620 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
9957637 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
9957655 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
9957673 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
9957690 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
9957708 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
9957726 AGATATGATT
Statistics
Matches: 116, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
17 32 0.28
18 51 0.44
19 33 0.28
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:9957652 original size:35 final size:37
Alignment explanation
Indices: 9957582--9957725 Score: 215
Period size: 35 Copynumber: 4.0 Consensus size: 37
9957572 ATAATCTTCA
* *
9957582 ATGATATGCAATTTTAGATATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGAT
* *
9957620 ATGA-TACAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATACAATCTTAGAT
9957655 ATGATTGCAATCTTAGATATG--ATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATACAATCTTAGAT
9957690 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
9957726 AGATATGATT
Statistics
Matches: 98, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
35 50 0.51
36 31 0.32
37 13 0.13
38 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (37 bp):
ATGATTGCAATCTTAGATATGATATACAATCTTAGAT
Found at i:9957669 original size:53 final size:54
Alignment explanation
Indices: 9957582--9957725 Score: 254
Period size: 53 Copynumber: 2.7 Consensus size: 54
9957572 ATAATCTTCA
*
9957582 ATGATATGCAATTTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
9957637 ATGATTGCAATCTTAGATATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
*
9957690 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
9957726 AGATATGATT
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
53 53 0.62
54 28 0.33
55 5 0.06
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:9958256 original size:15 final size:16
Alignment explanation
Indices: 9958206--9958271 Score: 73
Period size: 16 Copynumber: 3.9 Consensus size: 16
9958196 TCTAAACCAA
9958206 TATATAATATATTTTT
1 TATATAATATATTTTT
9958222 TATATAAT-TATTATTCT
1 TATATAATATATT-TT-T
9958239 TATA-AATATATTTTT
1 TATATAATATATTTTT
9958254 TATTATATATTATATTTT
1 TA-TATA-A-TATATTTT
9958272 AAATTTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
15 7 0.16
16 17 0.40
17 10 0.23
18 1 0.02
19 8 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATAATATATTTTT
Found at i:9958296 original size:26 final size:26
Alignment explanation
Indices: 9958248--9958297 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9958238 TTATAAATAT
* * * *
9958248 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
9958274 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
9958298 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:9963653 original size:9 final size:9
Alignment explanation
Indices: 9963639--9963681 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
9963629 CCGAATTCAA
9963639 TGAAAGGAT
1 TGAAAGGAT
9963648 TGAAAGGAT
1 TGAAAGGAT
9963657 TGAAAGGAT
1 TGAAAGGAT
* *
9963666 GGAAAGAAT
1 TGAAAGGAT
*
9963675 TCAAAGG
1 TGAAAGG
9963682 GAATTACAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.47, C:0.02, G:0.33, T:0.19
Consensus pattern (9 bp):
TGAAAGGAT
Found at i:9970515 original size:26 final size:24
Alignment explanation
Indices: 9970482--9970555 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 24
9970472 TTCATTCAAC
*
9970482 TATA-AAAATATTAAAATTTCAATTT
1 TATAGAAAATATTAAAATTT-AA-AT
* * *
9970507 TTTAGAAAAAATAAAAAATTTAAAT
1 TATAGAAAATAT-TAAAATTTAAAT
*
9970532 TATAGAAAATGTTAAAATTATAAA
1 TATAGAAAATATTAAAATT-TAAA
9970556 AATATAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
24 6 0.16
25 17 0.45
26 8 0.21
27 7 0.18
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (24 bp):
TATAGAAAATATTAAAATTTAAAT
Found at i:9970546 original size:17 final size:16
Alignment explanation
Indices: 9970520--9970558 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
9970510 AGAAAAAATA
9970520 AAAAATTT-AAATTAT
1 AAAAATTTAAAATTAT
9970535 AGAAAATGTTAAAATTAT
1 A-AAAAT-TTAAAATTAT
9970553 AAAAAT
1 AAAAAT
9970559 ATAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 5 0.24
17 7 0.33
18 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAAATTTAAAATTAT
Found at i:9970674 original size:20 final size:20
Alignment explanation
Indices: 9970637--9970679 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9970627 ACTTAAACAT
** *
9970637 TTAAAAATAATTATAATAAA
1 TTAAAAATAAAAAAAATAAA
*
9970657 TTAAAAATAAAAAAAATAGA
1 TTAAAAATAAAAAAAATAAA
9970677 TTA
1 TTA
9970680 TGGTAGTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
TTAAAAATAAAAAAAATAAA
Found at i:9970709 original size:24 final size:26
Alignment explanation
Indices: 9970667--9970722 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
9970657 TTAAAAATAA
* *
9970667 AAAAAATAGATTATGGTAGTT-TTTT
1 AAAAAATAGATTATCGTAGTTATATT
*
9970692 AAAAAGTAGATTA-CGTAGTTATATT
1 AAAAAATAGATTATCGTAGTTATATT
9970717 AAAAAA
1 AAAAAA
9970723 ATGTGATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (26 bp):
AAAAAATAGATTATCGTAGTTATATT
Found at i:9971674 original size:89 final size:90
Alignment explanation
Indices: 9971483--9971674 Score: 244
Period size: 89 Copynumber: 2.1 Consensus size: 90
9971473 ATTCTCAATT
* * * *
9971483 TTTTTAAAAAAAAGTAATTAAGTCCCTGATTTTTTTTTACACTCATTTAGGTACTTAAACTTTCA
1 TTTTT-AAAAAAAGTAATAAAGGCCCTGACTTTTTTTTACACTCATTTAGGCACTTAAACTTTCA
* * *
9971548 AAATGCATCAAAAAGGCCGTCAAACA
65 AAATACATCAAAAAGACCCTCAAACA
* * *
9971574 TTTTTAGAAAAAGTAATAAAGGCCCT-ACTTTTTTTTACACTCATTTGGGCACTTGAACTTTCAA
1 TTTTTAAAAAAAGTAATAAAGGCCCTGACTTTTTTTTACACTCATTTAGGCACTTAAACTTTCAA
* *
9971638 AATATATCAAAAAGACCCTCAAGC-
66 AATACATCAAAAAGACCCTCAAACA
9971662 TTTTTCAAAAAAA
1 TTTTT-AAAAAAA
9971675 AAAGCAATTA
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
88 5 0.06
89 59 0.68
90 18 0.21
91 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (90 bp):
TTTTTAAAAAAAGTAATAAAGGCCCTGACTTTTTTTTACACTCATTTAGGCACTTAAACTTTCAA
AATACATCAAAAAGACCCTCAAACA
Found at i:9971873 original size:46 final size:45
Alignment explanation
Indices: 9971771--9971882 Score: 100
Period size: 46 Copynumber: 2.4 Consensus size: 45
9971761 TAAAAAATTC
* * *
9971771 AAATATTAAAAATTAGGAAAAAATTTAAAAATAATAAAAAAATAAAG
1 AAATATAAAAAATTA--TAAAAATGTAAAAATAATAAAAAAATAAAG
* * ** * *
9971818 AATTGTAAAATTTTATAAAAATGTAAAAA-AACTATAAAATATATAG
1 AAATATAAAAAATTATAAAAATGTAAAAATAA-TA-AAAAAATAAAG
9971864 AAATATAAAAAATTATAAA
1 AAATATAAAAAATTATAAA
9971883 TTTTTATAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
44 2 0.04
45 14 0.28
46 24 0.48
47 10 0.20
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (45 bp):
AAATATAAAAAATTATAAAAATGTAAAAATAATAAAAAAATAAAG
Found at i:9971890 original size:28 final size:27
Alignment explanation
Indices: 9971804--9971892 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 27
9971794 TTTAAAAATA
* * *
9971804 ATAAAAAAATAAAGAATTGTAAAATTTT
1 ATAAAAATATAAAAAATTAT-AAATTTT
* * * *
9971832 ATAAAAATGTAAAAAAACTATAAAATAT
1 ATAAAAATAT-AAAAAATTATAAATTTT
*
9971860 ATAGAAATATAAAAAATTATAAATTTTT
1 ATAAAAATATAAAAAATTATAAA-TTTT
9971888 ATAAA
1 ATAAA
9971893 GTTGTAAGAA
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
27 12 0.26
28 27 0.59
29 7 0.15
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
ATAAAAATATAAAAAATTATAAATTTT
Found at i:9972126 original size:19 final size:20
Alignment explanation
Indices: 9972064--9972134 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 20
9972054 CTTTTTTATG
* *
9972064 ATTTTTTTATAAAATTTTAC
1 ATTTTTATAAAAAATTTTAC
* ** *
9972084 AATTTT-TAAAATTTTTTATG
1 ATTTTTATAAAAAATTTTA-C
9972104 ATTTTTATAAAAAATTTTA-
1 ATTTTTATAAAAAATTTTAC
9972123 ATTTTTAATAAA
1 ATTTTT-ATAAA
9972135 TTCTAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 15 0.38
20 15 0.38
21 10 0.25
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
ATTTTTATAAAAAATTTTAC
Found at i:9972136 original size:40 final size:39
Alignment explanation
Indices: 9972055--9972130 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 39
9972045 TAATCGTTAC
* *
9972055 TTTTTTATGATTTTTTTATAAAATTTTACAATTTTTAAAA
1 TTTTTTATGATTTTTATAAAAAATTTTA-AATTTTTAAAA
9972095 TTTTTTATGATTTTTATAAAAAATTTT-AATTTTTAA
1 TTTTTTATGATTTTTATAAAAAATTTTAAATTTTTAA
9972131 TAAATTCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 9 0.26
40 25 0.74
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.61
Consensus pattern (39 bp):
TTTTTTATGATTTTTATAAAAAATTTTAAATTTTTAAAA
Found at i:9979072 original size:30 final size:29
Alignment explanation
Indices: 9979016--9979073 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
9979006 CTCTTTTTTT
*
9979016 ATATTATTTTTTTTGGTTTTTTAAAATAAA
1 ATATTATTTTTTTT-GTTTTTAAAAATAAA
9979046 ATATTATTTTTTATT-TTTATTAAAAATA
1 ATATTATTTTTT-TTGTTT-TTAAAAATA
9979074 TTTAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 20 0.80
31 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
ATATTATTTTTTTTGTTTTTAAAAATAAA
Found at i:9979424 original size:17 final size:18
Alignment explanation
Indices: 9979399--9979436 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9979389 GAAAAGAGAG
*
9979399 AAAGGAGAAGAAAAAA-A
1 AAAGAAGAAGAAAAAATA
9979416 AAAGAAGAAGAAAAAATA
1 AAAGAAGAAGAAAAAATA
9979434 AAA
1 AAA
9979437 AGGTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAGAAGAAGAAAAAATA
Found at i:9979676 original size:60 final size:60
Alignment explanation
Indices: 9979593--9979718 Score: 209
Period size: 60 Copynumber: 2.1 Consensus size: 60
9979583 TTTTTTTGTT
* *
9979593 TGTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATT-ATGTTATAAATTTTTG
1 TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAT-TTATAAATTATTG
*
9979653 TGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAATTTATAAATTATTG
1 TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAATTTATAAATTATTG
9979713 TGTTTA
1 TGTTTA
9979719 GTTTAGTATT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 59 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (60 bp):
TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAATTTATAAATTATTG
Found at i:9980523 original size:3 final size:3
Alignment explanation
Indices: 9980515--9980542 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9980505 GTTCTTTGAT
9980515 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9980543 CACATATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9982292 original size:33 final size:33
Alignment explanation
Indices: 9982255--9982337 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
9982245 ACTTCGCTCT
9982255 TTCCGGCCAGTATCTACCACCGTACTCCACTCC
1 TTCCGGCCAGTATCTACCACCGTACTCCACTCC
* * * ** *
9982288 TTCCGGTCTGTATCCACCGTCGTACTCTACTCC
1 TTCCGGCCAGTATCTACCACCGTACTCCACTCC
*
9982321 TCCCGGCCCA-TATCTAC
1 TTCCGG-CCAGTATCTAC
9982338 TGTCGTAATG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 38 0.97
34 1 0.03
ACGTcount: A:0.16, C:0.43, G:0.13, T:0.28
Consensus pattern (33 bp):
TTCCGGCCAGTATCTACCACCGTACTCCACTCC
Found at i:9982391 original size:19 final size:19
Alignment explanation
Indices: 9982342--9982391 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
9982332 ATCTACTGTC
*
9982342 GTAATGACTTTGTATTTAT
1 GTAATAACTTTGTATTTAT
* *
9982361 ATAGTCAACTTTGTATTTAT
1 GTAAT-AACTTTGTATTTAT
9982381 GTAATAACTTT
1 GTAATAACTTT
9982392 TTTGCCATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (19 bp):
GTAATAACTTTGTATTTAT
Found at i:9985514 original size:19 final size:20
Alignment explanation
Indices: 9985478--9985518 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
9985468 ATGTATACAT
9985478 TATGTAAATATCATATTATG
1 TATGTAAATATCATATTATG
*
9985498 TATGTATATAT-ATATTATG
1 TATGTAAATATCATATTATG
9985517 TA
1 TA
9985519 CATTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (20 bp):
TATGTAAATATCATATTATG
Found at i:9985740 original size:24 final size:22
Alignment explanation
Indices: 9985705--9985748 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 22
9985695 TCTAATATAG
9985705 ATATATATTGTA-TATATTTTAC
1 ATATATATTGTACT-TATTTTAC
9985727 ATATATATTATGTACTTATTTT
1 ATATATA-T-TGTACTTATTTT
9985749 TAATGTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 10 0.53
25 1 0.05
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATATATATTGTACTTATTTTAC
Found at i:9989616 original size:4 final size:4
Alignment explanation
Indices: 9989607--9989637 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
9989597 ACATTTATGT
9989607 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
9989638 GCATATCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTC
Found at i:9993469 original size:24 final size:24
Alignment explanation
Indices: 9993419--9993472 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
9993409 AATCGAATTT
*
9993419 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
9993443 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
9993467 GCACAC
1 GCACAC
9993473 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:10001055 original size:14 final size:15
Alignment explanation
Indices: 10001022--10001053 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10001012 TGCTGAGGTA
10001022 TTTTC-AATTTCTGT
1 TTTTCAAATTTCTGT
10001036 TTTTCAAATTTCTGT
1 TTTTCAAATTTCTGT
10001051 TTT
1 TTT
10001054 CAGAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.66
Consensus pattern (15 bp):
TTTTCAAATTTCTGT
Found at i:10001066 original size:89 final size:87
Alignment explanation
Indices: 10000962--10001469 Score: 432
Period size: 87 Copynumber: 5.9 Consensus size: 87
10000952 TATCTCTGTC
*
10000962 TTTC-AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCCACGTGCTGAGGTATTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CAC--GCTGAGGTATTT
*
10001025 TCAATTTCTGTTTTTCAAATTTCTGT
62 TCAATTTCTGTTTTTCAAATTTATGT
* * * * *
10001051 TTTCAGAAAA-CAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCA
* *
10001115 ATTTATGCTTTTC-AATTTATGT
65 ATTTCTGTTTTTCAAATTTATGT
*
10001137 GTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATGTT
1 -TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGCACGCTGAGGTATTTT
* * *
10001202 CAGTTTTTGTTTTT-TAATTTATG-
63 CAATTTCTGTTTTTCAAATTTATGT
*
10001225 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTC
* *
10001290 AATTTTTGTTTTTCAAA---A--A
64 AATTTCTGTTTTTCAAATTTATGT
** * * * * * * * *
10001309 AATC---AACTCATATTGCGAGA--G-GTGAGTTGAGCTT----C-AAGACACGCTGAAGTATTT
1 TTTCAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAG-TTGAGCCTCAGGCACGCTGAGGTATTT
* *
10001363 TCAAATTCTATTTTTC-AATTTATGTT
62 TCAATTTCTGTTTTTCAAATTTATG-T
* *
10001389 TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCA
*
10001454 ATTTCTGTTTGTCAAA
65 ATTTCTGTTTTTCAAA
10001470 AAATCAACTC
Statistics
Matches: 335, Mismatches: 50, Indels: 68
0.74 0.11 0.15
Matches are distributed among these distances:
74 2 0.01
75 27 0.08
76 2 0.01
77 2 0.01
80 17 0.05
81 6 0.02
82 6 0.02
83 15 0.04
84 2 0.01
85 1 0.00
86 11 0.03
87 103 0.31
88 34 0.10
89 103 0.31
90 3 0.01
91 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAA
TTTCTGTTTTTCAAATTTATGT
Found at i:10001143 original size:14 final size:14
Alignment explanation
Indices: 10001109--10001135 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10001099 TGTTGAGGTA
10001109 TTTTCAATTTATGC
1 TTTTCAATTTATGC
10001123 TTTTCAATTTATG
1 TTTTCAATTTATG
10001136 TGTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:10001269 original size:87 final size:87
Alignment explanation
Indices: 10000966--10001468 Score: 588
Period size: 89 Copynumber: 5.9 Consensus size: 87
10000956 TCTGTCTTTC
* *
10000966 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCCACGTGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAAT
*
10001030 TTCTGTTTTTCAAATTTCTGTTTTC-A
63 TTCTGTTTTTC-AATTTATG-TTTCAA
* * * * * *
10001056 GAAAA-CAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
10001120 TGCTTTTCAATTTATGTGTTTCAA
66 TGTTTTTCAATTTA--TGTTTCAA
* * * *
10001144 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATGTTCAGTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
10001209 TGTTTTTTAATTTATGTTTCAA
66 TGTTTTTCAATTTATGTTTCAA
*
10001231 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTCAA----
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
10001292 ---TTTT---TGT-T-TTTCAA
66 TGTTTTTCAATTTATGTTTCAA
* * * *
10001306 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAGACACGCTGAAGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
10001371 TATTTTTCAATTTATGTTTTTC-A
66 TGTTTTTCAATTTATG--TTTCAA
* *
10001394 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
10001459 TGTTTGTCAA
66 TGTTTTTCAA
10001469 AAAATCAACT
Statistics
Matches: 355, Mismatches: 39, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
75 63 0.18
76 1 0.00
77 2 0.01
80 4 0.01
82 4 0.01
85 2 0.01
86 6 0.02
87 94 0.26
88 75 0.21
89 100 0.28
90 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTATGTTTCAA
Found at i:10001443 original size:88 final size:89
Alignment explanation
Indices: 10001285--10001468 Score: 280
Period size: 88 Copynumber: 2.1 Consensus size: 89
10001275 CGCTGAGGTA
* *
10001285 TTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAGACA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
10001350 CGCTGAAGTATTTTCAAATTCTAT
66 CGCTGAAGTATTTTCAAATTCTAT
* *
10001374 TTTTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
10001438 TGCTGAGGTATTTTCAATTTCTGT
66 CGCTGAAGTATTTTCAAATTCTAT
*
10001462 TTGTCAA
1 TTTTCAA
10001469 AAAATCAACT
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 68 0.79
89 18 0.21
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (89 bp):
TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAAGTATTTTCAAATTCTAT
Found at i:10001473 original size:162 final size:162
Alignment explanation
Indices: 10001123--10001629 Score: 793
Period size: 162 Copynumber: 3.1 Consensus size: 162
10001113 CAATTTATGC
* *
10001123 TTTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
10001188 CGCTGAGGTATGTTCAGTTTTTGTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAG
66 CGCTGAGGTATGTTCAGTTTTTGTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAG
*
10001253 AGGTGAGTTGAACCTCAGGACACGCTGAGGTA
131 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * * *
10001285 TTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* * ** * * * *
10001350 CGCTGAAGTATTTTCAAATTCTATTTTTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGTG
66 CGCTGAGGTATGTTCAGTTTTTGTTTTTTAATTTATG--TTTCAAAAAAATCAACTCATATTGCG
*
10001414 AGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA
129 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* *
10001448 TTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
*
10001512 CGCTGAGGTATGTTCAGTTTTTGTTTTTTAATTTATGTTCCAAAAAAATCAACTCATATTGCGAG
66 CGCTGAGGTATGTTCAGTTTTTGTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAG
*
10001577 AGGTGAGTTGAGCCTCAGGACACACTGAGGTA
131 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
10001609 TTTTCAAATTCTGTTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
10001630 TTTATGTTTT
Statistics
Matches: 307, Mismatches: 34, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
160 3 0.01
161 69 0.22
162 162 0.53
163 69 0.22
164 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (162 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
CGCTGAGGTATGTTCAGTTTTTGTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
Found at i:10001493 original size:74 final size:74
Alignment explanation
Indices: 10001374--10001537 Score: 256
Period size: 74 Copynumber: 2.2 Consensus size: 74
10001364 CAAATTCTAT
* * *
10001374 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAT
1 TTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
10001439 GCTGAGGTA
66 GCTGAGGTA
* *
10001448 TTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
10001513 GCTGAGGTA
66 GCTGAGGTA
* * *
10001522 TGTTCAGTTTTTGTTT
1 TTTTCAATTTATGTTT
10001538 TTTAATTTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 82 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (74 bp):
TTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:10001568 original size:87 final size:89
Alignment explanation
Indices: 10001448--10001727 Score: 341
Period size: 87 Copynumber: 3.1 Consensus size: 89
10001438 TGCTGAGGTA
* ** * *
10001448 TTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTATGTTTCACAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
10001512 CGCTGAGGTATGTTCAGTTTTTGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
10001536 TTTTTAATTTATG-TTC-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTATGTTTCACAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
10001599 CACTGAGGTATTTTCAAATTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
10001623 TTTTCAATTTATGTTTTTCAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTATG--TTTC------A-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
10001688 TTCAGGACACGCTGAGGTATTTTCAATTTCTGT
57 CTCAGGACACGCTGAGGTATTTTCAATTTCTGT
*
10001721 TTGTCAA
1 TTTTCAA
10001728 AAAATCAACT
Statistics
Matches: 165, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
86 1 0.01
87 76 0.46
88 11 0.07
90 3 0.02
98 74 0.45
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (89 bp):
TTTTCAATTTATGTTTCACAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:10001628 original size:14 final size:14
Alignment explanation
Indices: 10001609--10001644 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10001599 CACTGAGGTA
*
10001609 TTTTCAAATTCTGT
1 TTTTCAAATTATGT
*
10001623 TTTTCAATTTATGT
1 TTTTCAAATTATGT
10001637 TTTTCAAA
1 TTTTCAAA
10001645 AAAATCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTATGT
Found at i:10001733 original size:74 final size:74
Alignment explanation
Indices: 10001652--10001790 Score: 235
Period size: 74 Copynumber: 1.9 Consensus size: 74
10001642 AAAAAAATCA
* *
10001652 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC-AGGACACGCTGAGGTATTTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAG-CACGCTGAGGTATTTTCAATT
10001716 TCTGTTTGTC
65 TCTGTTTGTC
*
10001726 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAGCACGCTGATGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAGCACGCTGAGGTATTTTCAATTT
10001791 GAGCCTTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 59 0.97
75 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAGCACGCTGAGGTATTTTCAATTT
CTGTTTGTC
Found at i:10001752 original size:259 final size:249
Alignment explanation
Indices: 10001303--10001850 Score: 781
Period size: 259 Copynumber: 2.2 Consensus size: 249
10001293 TTTTGTTTTT
* *
10001303 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAGACACGCTGAAGTATTTTCAAA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAAGTATTTTCAAA
*
10001368 TTCTATTTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA
66 TTCTATTTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
10001433 GGACATGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGAGAGAGGTGAGT
131 GGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGAGAGAGGTGAGT
** * ** **
10001498 TGAGCCTCAGGGCACGCTGAGGTATGTTCAGTTTTTGTTTTTTAATTTATGTTC
196 TGAGCCTCAAAGCACGCTGAGGTATGTTCAATTTGAGCCTTTTAATTTATGTTC
* *
10001552 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAAA
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAAGTATTTTCAAA
*
10001617 TTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAG
66 TTCTATTTTTCAATTTATG-TTTT--------TC-AAAAAATCAACTCATATTGCGAGAGGTGAG
* *
10001682 TTGAGCTTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCG
121 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGAG
* * * *
10001747 AGAGGTGAGTTGAGCCTCAAAGCACGCTGATGTATTTTCAATTTGAGCCTTTTAATTTCTGTTT
186 AGAGGTGAGTTGAGCCTCAAAGCACGCTGAGGTATGTTCAATTTGAGCCTTTTAATTTATGTTC
*** * *
10001811 TTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCT
1 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10001851 TTTAATTTCT
Statistics
Matches: 264, Mismatches: 25, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
249 79 0.30
250 4 0.02
258 2 0.01
259 179 0.68
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (249 bp):
CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAAGTATTTTCAAA
TTCTATTTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGAGAGAGGTGAGT
TGAGCCTCAAAGCACGCTGAGGTATGTTCAATTTGAGCCTTTTAATTTATGTTC
Found at i:10001853 original size:54 final size:54
Alignment explanation
Indices: 10001789--10002121 Score: 567
Period size: 54 Copynumber: 6.1 Consensus size: 54
10001779 TATTTTCAAT
*
10001789 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAAGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
* *
10001843 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
*
10001897 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAAGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
*
10001951 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
* *
10002005 TTGAGCCTTTTAATTTTTGTTTTTCAAAAAAAATCAACTCATATTGCGGGAAGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAAGTGAG
*
10002062 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
10002116 TTGAGC
1 TTGAGC
10002122 TCAGGATCAC
Statistics
Matches: 262, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
54 211 0.81
57 51 0.19
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (54 bp):
TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
Found at i:10003038 original size:13 final size:13
Alignment explanation
Indices: 10003020--10003044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10003010 ATTATCTTTA
10003020 GTTTATTTTTTTT
1 GTTTATTTTTTTT
10003033 GTTTATTTTTTT
1 GTTTATTTTTTT
10003045 ATAAATACGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
GTTTATTTTTTTT
Found at i:10003735 original size:22 final size:22
Alignment explanation
Indices: 10003683--10003745 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
10003673 TTACTTTTTC
*
10003683 TCATTATTTTAATTTTA-TACTA
1 TCATTATTAT-ATTTTATTACTA
10003705 T-ATGCTATTATATTTTATTACTA
1 TCAT--TATTATATTTTATTACTA
*
10003728 TCATTATTAT-GTTTATTA
1 TCATTATTATATTTTATTA
10003746 TTTATTAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 9 0.26
22 13 0.37
23 11 0.31
24 2 0.06
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (22 bp):
TCATTATTATATTTTATTACTA
Found at i:10004390 original size:17 final size:18
Alignment explanation
Indices: 10004368--10004410 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
10004358 TTATATTATG
*
10004368 TATATTAT-TTTTTTTAC
1 TATATTATGTTTTTATAC
10004385 TATATTATGTTTTTATAC
1 TATATTATGTTTTTATAC
10004403 -ATATTATG
1 TATATTATG
10004411 CATGTACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (18 bp):
TATATTATGTTTTTATAC
Found at i:10004431 original size:23 final size:23
Alignment explanation
Indices: 10004394--10004459 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
10004384 CTATATTATG
10004394 TTTTTATACATATTATGCATGTACA
1 TTTTT-TA-ATATTATGCATGTACA
** *
10004419 TTTTTTAATATTATATATGTATA
1 TTTTTTAATATTATGCATGTACA
10004442 TATTTTTAATATGTATGC
1 T-TTTTTAATAT-TATGC
10004460 GTATATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 14 0.41
24 12 0.35
25 8 0.24
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (23 bp):
TTTTTTAATATTATGCATGTACA
Found at i:10004534 original size:16 final size:15
Alignment explanation
Indices: 10004508--10004546 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10004498 TTCTAGTATG
*
10004508 TATACATTATGTAAA
1 TATATATTATGTAAA
*
10004523 TATCATATTATGTATA
1 TAT-ATATTATGTAAA
10004539 TATATATT
1 TATATATT
10004547 TATATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (15 bp):
TATATATTATGTAAA
Found at i:10004549 original size:16 final size:16
Alignment explanation
Indices: 10004513--10004555 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
10004503 GTATGTATAC
*
10004513 ATTATGTAAATATCAT
1 ATTATGTATATATCAT
10004529 ATTATGTATATAT-AT
1 ATTATGTATATATCAT
*
10004544 ATT-TATATATAT
1 ATTATGTATATAT
10004556 TATGTACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 12 0.48
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTATGTATATATCAT
Done.