Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 27 of 163
Found at i:8567933 original size:15 final size:15
Alignment explanation
Indices: 8567915--8567967 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
8567905 GGCCCCTCAT
8567915 TTTTTATT-TTTTTA
1 TTTTTATTATTTTTA
8567929 TTTTTATTATTTTTA
1 TTTTTATTATTTTTA
** *
8567944 GTAGTTATTATTATTA
1 -TTTTTATTATTTTTA
*
8567960 CTTTTATT
1 TTTTTATT
8567968 GTTATTATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 8 0.26
15 11 0.35
16 12 0.39
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:8570451 original size:14 final size:13
Alignment explanation
Indices: 8570434--8570464 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
8570424 AAAATAATCG
8570434 AAAAAAAACAAAA
1 AAAAAAAACAAAA
8570447 CAAAAAAAACAAAA
1 -AAAAAAAACAAAA
8570461 AAAA
1 AAAA
8570465 TTTATGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:8573259 original size:26 final size:26
Alignment explanation
Indices: 8573205--8573269 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
8573195 TTAAGTTACC
* * *
8573205 TTATTTATTTTATTATTATGATCTGA
1 TTATTAATATTATTATTATAATCTGA
8573231 TTATTAATATTATTATTATAAT-TGCA
1 TTATTAATATTATTATTATAATCTG-A
* *
8573257 TTAGTATTATTAT
1 TTATTAATATTAT
8573270 AGTATTCCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (26 bp):
TTATTAATATTATTATTATAATCTGA
Found at i:8584862 original size:45 final size:45
Alignment explanation
Indices: 8584811--8585262 Score: 349
Period size: 44 Copynumber: 9.9 Consensus size: 45
8584801 AGTGAAACCA
*
8584811 CAAATCTTATCTCCCT-AATGTTGCAGTAGAGCAGATTGAAGATAG
1 CAAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGATAG
* * * *
8584856 CAAATCTTATCTCCCTGAAGTTGCAATTGAGCAGATTGAAGCT-T
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * *
8584900 CAAATCTTATCTTCATGAAGTTGCAGTGGAGTAGATTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * * *
8584945 CGAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGCTACAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG
** * *
8584993 TTACAAATCTTATCTCTATGAAGTTGTAGTGGAGCAGATTGTAGATAG
1 ---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * *
8585041 CGAATCTTATTTCCCTGAAGTTGCAGTGGAACGGATTAAAGCTACAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG
* * * * *
8585089 TTACAAATCTTATCTTCTTGAAGTTGCAGTGGAGTAGGTTG-A-ATAA
1 ---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * *
8585135 CAAATCTTATCTCCCTAAAGCTGCAGAGGAGCAGATTGAA-ACAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * ** * *
8585179 AAAATATTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA-ACAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * *
8585223 CAAATCTTATCTCCCTAAAGTTCCAGTGGAGTAGATTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
8585263 ACTAAATCCT
Statistics
Matches: 319, Mismatches: 73, Indels: 31
0.75 0.17 0.07
Matches are distributed among these distances:
43 31 0.10
44 113 0.35
45 101 0.32
46 3 0.01
47 3 0.01
48 6 0.02
49 1 0.00
50 1 0.00
51 60 0.19
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
Found at i:8585024 original size:51 final size:50
Alignment explanation
Indices: 8584962--8585121 Score: 163
Period size: 51 Copynumber: 3.3 Consensus size: 50
8584952 TATTTCCCTA
*
8584962 AAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCTATG
1 AAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCT-TG
* * * * * *
8585013 AAGTTGTAGTGGAGCAGATT---G-T---AGATAGCGAATCTTATTTCCCTG
1 AAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA-CAAATCTTATCT-CTTG
*
8585058 AAGTTGCAGTGGAACGGATTAAAGCTACAAGTTACAAATCTTATCTTCTTG
1 AAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATC-TCTTG
8585109 AAGTTGCAGTGGA
1 AAGTTGCAGTGGA
8585122 GTAGGTTGAA
Statistics
Matches: 85, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
44 4 0.05
45 29 0.34
46 1 0.01
47 1 0.01
48 2 0.02
49 1 0.01
51 42 0.49
52 5 0.06
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (50 bp):
AAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCTTG
Found at i:8585039 original size:96 final size:95
Alignment explanation
Indices: 8584900--8585252 Score: 384
Period size: 96 Copynumber: 3.8 Consensus size: 95
8584890 ATTGAAGCTT
8584900 CAAATCTTATCT-TCATGAAGTTGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTAAA
1 CAAATCTTATCTCT-ATGAAGTTGCAGTGGAGTAGATTG-AGATAGCGAATCTTATTTCCCTAAA
8584964 GTTGCAGTGGAACAAATTAAAGCTACAAGTTA
64 GTTGCAGTGGAACAAATTAAAGCTACAAGTTA
* * *
8584996 CAAATCTTATCTCTATGAAGTTGTAGTGGAGCAGATTGTAGATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCTATGAAGTTGCAGTGGAGTAGATTG-AGATAGCGAATCTTATTTCCCTAAAG
**
8585061 TTGCAGTGGAACGGATTAAAGCTACAAGTTA
65 TTGCAGTGGAACAAATTAAAGCTACAAGTTA
* * * *
8585092 CAAATCTTATCTTCT-TGAAGTTGCAGTGGAGTAGGTTGA-ATAACAAATCTTATCTCCCTAAAG
1 CAAATCTTATC-TCTATGAAGTTGCAGTGGAGTAGATTGAGATAGCGAATCTTATTTCCCTAAAG
* * * * *
8585155 CTGCAGAGGAGCAGATTGAA---ACAA---A
65 TTGCAGTGGAACAAATTAAAGCTACAAGTTA
* ** * * * * * *
8585180 -AAATATTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAACAACAAATCTTATCTCCCTAAAGT
1 CAAATCTTATCTCTATGAAGTTGCAGTGGAGTAGATTGAGATAGCGAATCTTATTTCCCTAAAGT
*
8585244 TCCAGTGGA
66 TGCAGTGGA
8585253 GTAGATTGAA
Statistics
Matches: 227, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
86 2 0.01
87 31 0.14
88 31 0.14
91 4 0.02
94 35 0.15
95 1 0.00
96 119 0.52
97 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (95 bp):
CAAATCTTATCTCTATGAAGTTGCAGTGGAGTAGATTGAGATAGCGAATCTTATTTCCCTAAAGT
TGCAGTGGAACAAATTAAAGCTACAAGTTA
Found at i:8585263 original size:44 final size:44
Alignment explanation
Indices: 8585091--8585383 Score: 231
Period size: 44 Copynumber: 6.6 Consensus size: 44
8585081 GCTACAAGTT
* * * * *
8585091 ACAAATCTTATCTTCTTGAAGTTGCAGTGGAGTAGGTTG-AATA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAACA
* * *
8585134 ACAAATCTTATCTCCCTAAAGCTGCAGAGGAGCAGATTGAAACA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAACA
* * * *
8585178 AAAAATATTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAACA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAACA
*
8585222 ACAAATCTTATCTCCCTAAAGTTCCAGTGGAGTAGATTGAAAC-
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAACA
* * * * * *
8585265 -TAAATCCTATAC-CTCTGAAGTTGCAGTAG-GTATGATTAAATCTACCA
1 ACAAATCTTAT-CTCCCTAAAGTTGCAGTGGAGTA-GATTGAA---A-CA
* * * *
8585312 TAGCGAATCTTATCTCCCTGAAGTGGCAGTGGAGTAGATT-AAAGCT
1 -A-CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAA-CA
*
8585358 ACGAAT-TTCATCTCCCTAAAGTTGCA
1 ACAAATCTT-ATCTCCCTAAAGTTGCA
8585384 ACGGAACAAA
Statistics
Matches: 199, Mismatches: 37, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
41 3 0.02
42 27 0.14
43 35 0.18
44 98 0.49
45 2 0.01
46 3 0.02
49 3 0.02
50 25 0.13
51 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAACA
Found at i:8587018 original size:28 final size:29
Alignment explanation
Indices: 8586987--8587042 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
8586977 TTTTTCATTA
*
8586987 TTGTTGTTATTATTTTATT-TTTATTTTT
1 TTGTTCTTATTATTTTATTATTTATTTTT
* *
8587015 TTGTTCTTGTTATTTTATTATTTCTTTT
1 TTGTTCTTATTATTTTATTATTTATTTT
8587043 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (29 bp):
TTGTTCTTATTATTTTATTATTTATTTTT
Found at i:8587029 original size:17 final size:15
Alignment explanation
Indices: 8587005--8587052 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
8586995 ATTATTTTAT
8587005 TTTTATTTTTTTGTTC
1 TTTTATTTTTTT-TTC
8587021 TTGTTATTTTATTATTTC
1 TT-TTATTTT-TT-TTTC
8587039 TTTTATTATTTTTT
1 TTTTATT-TTTTTT
8587053 ATATTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.14
17 14 0.50
18 9 0.32
19 1 0.04
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTTTTTC
Found at i:8589018 original size:22 final size:22
Alignment explanation
Indices: 8588990--8589036 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
8588980 TGAAGGGTTG
8588990 CCACAATTTGGAATATCTATTC
1 CCACAATTTGGAATATCTATTC
8589012 CCACAATTTGGAATATCTATTC
1 CCACAATTTGGAATATCTATTC
8589034 CCA
1 CCA
8589037 TCCTTTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.34
Consensus pattern (22 bp):
CCACAATTTGGAATATCTATTC
Found at i:8595654 original size:95 final size:95
Alignment explanation
Indices: 8595550--8595727 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 95
8595540 CCAATTAAAT
* * * * ** * *
8595550 TAATTAAAAAATTTTCAAAATTAGATTA-GTTTTCGTGTTTATTATTTTTTAAGAAAAAATTAAC
1 TAATTAAAAAAATTTAAAAATTAGATTAGGATTTCGAG-TTAAGAGTTTTTAAGAAAAAATTAAA
8595614 TAAATTAGGGTTTAGGGTTACTTAAGTAATA
65 TAAATTAGGGTTTAGGGTTACTTAAGTAATA
* *
8595645 TAATTAAAAAAATTTAAAAATTAGATTAGGATTTCGAGTTAAGGGTTTTTAAGGAAAAATTAAAT
1 TAATTAAAAAAATTTAAAAATTAGATTAGGATTTCGAGTTAAGAGTTTTTAAGAAAAAATTAAAT
*
8595710 ATATTAGGGTTTAGGGTT
66 AAATTAGGGTTTAGGGTT
8595728 TTTTTTATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 64 0.90
96 7 0.10
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (95 bp):
TAATTAAAAAAATTTAAAAATTAGATTAGGATTTCGAGTTAAGAGTTTTTAAGAAAAAATTAAAT
AAATTAGGGTTTAGGGTTACTTAAGTAATA
Found at i:8596155 original size:126 final size:126
Alignment explanation
Indices: 8595930--8596209 Score: 425
Period size: 126 Copynumber: 2.2 Consensus size: 126
8595920 TAATTTAAAG
* * *
8595930 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAGAAAATAAATTTAAGTAGATGTTT
1 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAAATTTAAGTAGACGTTT
* * * *
8595995 CTGAGCAAACAGTGTCGAAAACGCTTTAAGCAGGATGCTTTGTCAACAGAAGTATTGAAAA
66 CTGAGAAAACAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAGAAGTACTGAAAA
* *
8596056 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAAATTTAAGTAGACGTTT
** * *
8596121 CTGAGAAAACAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGTAGAAGTGCTGAAAG
66 CTGAGAAAACAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAGAAGTACTGAAAA
* *
8596182 AAGCTCCCACGTGGACACGCTTTTGCTA
1 AAGCTTCCACGTGGACGCGCTTTTGCTA
8596210 AAGTGGCGCA
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 139 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (126 bp):
AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAAATTTAAGTAGACGTTT
CTGAGAAAACAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAGAAGTACTGAAAA
Found at i:8599804 original size:18 final size:18
Alignment explanation
Indices: 8599777--8599814 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8599767 GAAAATGGAA
* *
8599777 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
8599795 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
8599813 AC
1 AC
8599815 GCACCTAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:8601686 original size:22 final size:22
Alignment explanation
Indices: 8601658--8601743 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
8601648 AAATAGGGAT
8601658 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
* * *
8601680 TTGAGAGCAATTTAAGATTAAATAGGGAT
1 TTGAGAGAAATTT--G----AA-AGGAAA
*
8601709 TTGAGAGAAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
8601731 TTGAGAGGAAATT
1 TTGAGA-GAAATT
8601744 AGAGAAAGGC
Statistics
Matches: 49, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
22 22 0.45
23 7 0.14
24 1 0.02
27 1 0.02
28 2 0.04
29 16 0.33
ACGTcount: A:0.44, C:0.01, G:0.28, T:0.27
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGGAAA
Found at i:8601732 original size:12 final size:12
Alignment explanation
Indices: 8601707--8601748 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 12
8601697 TTAAATAGGG
8601707 ATTTGAGA-GAA
1 ATTTGAGAGGAA
8601718 ATTTGAGAGGAA
1 ATTTGAGAGGAA
8601730 A-TTGAGAGGAA
1 ATTTGAGAGGAA
*
8601741 ATTAGAGA
1 ATTTGAGA
8601749 AAGGCTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:8606693 original size:18 final size:18
Alignment explanation
Indices: 8606660--8606712 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
8606650 AAGCTCGCAA
*
8606660 TTAGGTTGAACTCGCAGTT
1 TTAGG-TGAGCTCGCAGTT
8606679 TTAGGTGAGCTCGCAGTT
1 TTAGGTGAGCTCGCAGTT
* *
8606697 TCAAGTGAGCTCGCAG
1 TTAGGTGAGCTCGCAG
8606713 CTTCGCGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (18 bp):
TTAGGTGAGCTCGCAGTT
Found at i:8609241 original size:26 final size:26
Alignment explanation
Indices: 8609193--8609242 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8609183 TTTAAGTTAA
* *
8609193 CCAAATTAAATTATTTAATTTCAAGT
1 CCAAATTAAAATATTTAAATTCAAGT
8609219 CCAAATTAAAAT-TTTACAATTCAA
1 CCAAATTAAAATATTTA-AATTCAA
8609243 ATAACTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (26 bp):
CCAAATTAAAATATTTAAATTCAAGT
Found at i:8612888 original size:6 final size:6
Alignment explanation
Indices: 8612869--8612926 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
8612859 CAGATGAAGT
* * * *
8612869 AAAAGA AAAGGA AAAAGA AACAGAAA CAAAAGA AAAAGT AAAAGA AGAAGA
1 AAAAGA AAAAGA AAAAGA AA-A-AGA -AAAAGA AAAAGA AAAAGA AAAAGA
8612920 AAAAGA A
1 AAAAGA A
8612927 GAGATTGACA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
6 33 0.80
7 3 0.07
8 3 0.07
9 2 0.05
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:8612904 original size:21 final size:22
Alignment explanation
Indices: 8612874--8612914 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
8612864 GAAGTAAAAG
8612874 AAAAGGAAAAAG-AAACAGAAAC
1 AAAAGGAAAAAGTAAA-AGAAAC
8612896 AAAA-GAAAAAGTAAAAGAA
1 AAAAGGAAAAAGTAAAAGAA
8612915 GAAGAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAGGAAAAAGTAAAAGAAAC
Found at i:8642329 original size:20 final size:19
Alignment explanation
Indices: 8642284--8642332 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
8642274 TAAATACTTG
8642284 ATTTCATTTCACAATTCAC
1 ATTTCATTTCACAATTCAC
* * * *
8642303 ATATCATTTTATCATTTCAT
1 ATTTCATTTCA-CAATTCAC
8642323 ATTTCATTTC
1 ATTTCATTTC
8642333 TTGCCTCATA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCATTTCACAATTCAC
Found at i:8649935 original size:23 final size:24
Alignment explanation
Indices: 8649909--8649955 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
8649899 CATATATATT
*
8649909 ACATAATAAAATAATAAT-AGAAA
1 ACATAATAAAAGAATAATAAGAAA
8649932 ACATAATAAAAGAATAATAAGAAA
1 ACATAATAAAAGAATAATAAGAAA
8649956 GTTGAAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.19
Consensus pattern (24 bp):
ACATAATAAAAGAATAATAAGAAA
Found at i:8652792 original size:104 final size:104
Alignment explanation
Indices: 8652612--8652825 Score: 392
Period size: 104 Copynumber: 2.1 Consensus size: 104
8652602 GATCATTGAT
*
8652612 GTTTTCCAGCTTTCAACCAAACAATCTTCTACTCTATTCTTGTACCACGAACTTCTTCGAGTGTG
1 GTTTTCCAGCTTTCAACCAAAAAATCTTCTACTCTATTCTTGTACCACGAACTTCTTCGAGTGTG
8652677 GACTCGAATCAATTGAATCAAAATATAGAACTAGAAAAA
66 GACTCGAATCAATTGAATCAAAATATAGAACTAGAAAAA
* * *
8652716 GTTTTCCATCTTTCACCCAAAAAATCTTCTACTCTATTCTTGTACCACGAACTTCTTCGATTGTG
1 GTTTTCCAGCTTTCAACCAAAAAATCTTCTACTCTATTCTTGTACCACGAACTTCTTCGAGTGTG
8652781 GACTCGAATCAATTGAATCAAAATATAGAACTAGAAAAA
66 GACTCGAATCAATTGAATCAAAATATAGAACTAGAAAAA
8652820 GTTTTC
1 GTTTTC
8652826 TTTTCTTTTT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.33
Consensus pattern (104 bp):
GTTTTCCAGCTTTCAACCAAAAAATCTTCTACTCTATTCTTGTACCACGAACTTCTTCGAGTGTG
GACTCGAATCAATTGAATCAAAATATAGAACTAGAAAAA
Found at i:8653502 original size:12 final size:13
Alignment explanation
Indices: 8653477--8653507 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
8653467 TGCAAATAAA
8653477 TCATTTCTCATTT
1 TCATTTCTCATTT
8653490 TCATTTC-CATTT
1 TCATTTCTCATTT
8653502 TCATTT
1 TCATTT
8653508 TATGAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (13 bp):
TCATTTCTCATTT
Found at i:8669350 original size:10 final size:10
Alignment explanation
Indices: 8669335--8669368 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8669325 AGTAACTCAC
8669335 ATTTATTTTT
1 ATTTATTTTT
8669345 ATTTATTTTT
1 ATTTATTTTT
*
8669355 ATTTATTTTA
1 ATTTATTTTT
8669365 ATTT
1 ATTT
8669369 TAAATACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:8669614 original size:17 final size:16
Alignment explanation
Indices: 8669587--8669624 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
8669577 AAGCCCCAAC
8669587 AAAAAGAAGAAAGAAAGA
1 AAAAAGAAGAAA-AAA-A
8669605 AAAAAG-AGAAAAAAA
1 AAAAAGAAGAAAAAAA
8669620 AAAAA
1 AAAAA
8669625 ACCAAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 5 0.25
18 6 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAGAAGAAAAAAA
Found at i:8669625 original size:17 final size:18
Alignment explanation
Indices: 8669587--8669625 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8669577 AAGCCCCAAC
* *
8669587 AAAAAGAAGAAAGAAAGA
1 AAAAAGAAGAAAAAAAAA
8669605 AAAAAG-AGAAAAAAAAA
1 AAAAAGAAGAAAAAAAAA
8669622 AAAA
1 AAAA
8669626 CCAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAGAAGAAAAAAAAA
Found at i:8669739 original size:18 final size:18
Alignment explanation
Indices: 8669716--8669751 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8669706 CCGAATGTCG
8669716 TCGTCGTTCACCCCTTTA
1 TCGTCGTTCACCCCTTTA
*
8669734 TCGTCGTTGACCCCTTTA
1 TCGTCGTTCACCCCTTTA
8669752 CTGTTAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.36, G:0.14, T:0.39
Consensus pattern (18 bp):
TCGTCGTTCACCCCTTTA
Found at i:8675412 original size:69 final size:69
Alignment explanation
Indices: 8675228--8675413 Score: 214
Period size: 69 Copynumber: 2.7 Consensus size: 69
8675218 AGTAGTTGTG
* * ** *
8675228 TCATATCAAGGCTCGCAGGCGAAGAGTCGCAGCCTCCAACACAATTAGCGAGAGCAATGCTCTCA
1 TCATATCAAGGCTAGCAGGCGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCCA
8675293 GCTA
66 GCTA
* * * *
8675297 TCATATCAAAGCTTGCAGGTGAAAAGTCGCAGCCTCCAACACAGTTAGC-AGAAGCAAAACTCCC
1 TCATATCAAGGCTAGCAGGCGAAGAGTCGCAGCCTCCAACACAGTTAGCGAG-AGCAAAACTCCC
8675361 AGCTA
65 AGCTA
** * * *
8675366 TTGTATTAAGGCTAGCAGGCGAAGAGT-GTTAGCCTCCAACATAGTTAG
1 TCATATCAAGGCTAGCAGGCGAAGAGTCG-CAGCCTCCAACACAGTTAG
8675414 TGAAAGTTGA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
68 3 0.03
69 95 0.97
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (69 bp):
TCATATCAAGGCTAGCAGGCGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCCA
GCTA
Found at i:8675520 original size:59 final size:59
Alignment explanation
Indices: 8675435--8675548 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
8675425 AAGCCCTAAC
*
8675435 TGTGTTATCTTTCAAAATTTTCTTAAGTATGAAATAGCTCATGGATTAAAATCCCTAGT
1 TGTGTTATCTTTCAAAATTTTCTTAAGTATGAAATAGCTCATAGATTAAAATCCCTAGT
*
8675494 TGTGTTATCTTTTAAAATTTTCTTAAGTATGAAATAGCTCATAGATTAAAATCCC
1 TGTGTTATCTTTCAAAATTTTCTTAAGTATGAAATAGCTCATAGATTAAAATCCC
8675549 CAATTATGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (59 bp):
TGTGTTATCTTTCAAAATTTTCTTAAGTATGAAATAGCTCATAGATTAAAATCCCTAGT
Found at i:8676037 original size:11 final size:11
Alignment explanation
Indices: 8675964--8676039 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
8675954 AGATTAATTA
*
8675964 ATTAATTAATT
1 ATTAATTTATT
*
8675975 ATTAGTTTATT
1 ATTAATTTATT
* * *
8675986 AATATTTTAAT
1 ATTAATTTATT
8675997 -TTAATTT-TT
1 ATTAATTTATT
*
8676006 AAATAATATT-TT
1 -ATTAAT-TTATT
*
8676018 ATTATTTTATT
1 ATTAATTTATT
8676029 ATTAATTTATT
1 ATTAATTTATT
8676040 TAGTATATAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
9 1 0.02
10 7 0.14
11 37 0.76
12 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (11 bp):
ATTAATTTATT
Found at i:8688593 original size:2 final size:2
Alignment explanation
Indices: 8688588--8688624 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8688578 ATATATATAA
8688588 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8688625 AAAGATTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8698098 original size:33 final size:32
Alignment explanation
Indices: 8698056--8698151 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 32
8698046 TTGGAGAAAA
8698056 TAAATTAGGGTTTATGGTTTTTAAAAAATAAAT
1 TAAATTAGGGTTTATGGTTTTT-AAAAATAAAT
*
8698089 TAAATTAGGGTTTATTG-TTTTAAAAA-AAA-
1 TAAATTAGGGTTTATGGTTTTTAAAAATAAAT
*
8698118 TAAATTAAGGTTTA-GGAATTTTTAAAAATAAAT
1 TAAATTAGGGTTTATGG--TTTTTAAAAATAAAT
8698151 T
1 T
8698152 TCTGTTTAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
28 1 0.02
29 13 0.24
30 3 0.05
31 14 0.25
32 7 0.13
33 17 0.31
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.42
Consensus pattern (32 bp):
TAAATTAGGGTTTATGGTTTTTAAAAATAAAT
Found at i:8698477 original size:125 final size:125
Alignment explanation
Indices: 8698246--8698674 Score: 576
Period size: 126 Copynumber: 3.4 Consensus size: 125
8698236 TTTTTGTTCA
* * * *
8698246 GTCAGCAAAAGTATTGACAAAAGCTCCCAGCTGGATGCTATTTTTCTACAGTAATTTCT-AAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
*
8698310 ATAATTTTGAGAATATGGTTCTGAAAAAATAGGGTAAAAAACGCTTCAAGCAAGATGCACT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGGT-AAAAACGCTTCAAGCAAGATGCACT
* *
8698371 GCCAGCAAAAGTACT-AAAAAAGCTCCCAGCTGGACGTTATTTTTCTACAGTAGTTTCTGAAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
* * * * *
8698435 ATAATTTTGAGAAGATGATTCTAAAAAAATAGGGTCAAAAACGCTTCAAACAGGATGCACC
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGGT-AAAAACGCTTCAAGCAAGATGCACT
* * ** * * *
8698496 GTTAGCAAAAGTACTAAAAAAAGCTCCCAAATGGAC-CTTTTTTTTCTATAGTAGTTTTTGAAAA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACGC-TATTTTTCTACAGTAGTTTCTG-AAA
*
8698560 AAATAATTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAACACTTCAAGCAAGATGCACT
64 AAATAATTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAACGCTTCAAGCAAGATGCACT
* ** * *
8698622 GTCAACAAAAGTACTGAAAAAAATTCCCACCTGGACGCTCTTTTTCTACAGTA
1 GTCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTATTTTTCTACAGTA
8698675 CATCCTACTT
Statistics
Matches: 263, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
124 39 0.15
125 85 0.32
126 100 0.38
127 39 0.15
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (125 bp):
GTCAGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGGTAAAAACGCTTCAAGCAAGATGCACT
Found at i:8701902 original size:62 final size:61
Alignment explanation
Indices: 8701821--8702011 Score: 223
Period size: 62 Copynumber: 3.1 Consensus size: 61
8701811 TCTATTGCCT
* *
8701821 TATTAAAAAAAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAA-TTGACTATTAAA-A
1 TATTCAAAACAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTG--TA-TAAATA
*
8701883 TATTCAAAACAACTCCTATTTTATTAAATAGGATC-AAATATAAAAATAATTTGTATAAATA
1 TATTCAAAACAACTTCTATTTTATTAAATAGGA-CAAAATATAAAAATAATTTGTATAAATA
* * * *
8701944 TATTCAAAACAACTTTTATTTTATTAAAT--GA-AACAATATAAAAATAGTTCGTACAAATA
1 TATTCAAAACAACTTCTATTTTATTAAATAGGACAA-AATATAAAAATAATTTGTATAAATA
*
8702003 TATTAAAAA
1 TATTCAAAA
8702012 AATTAATACA
Statistics
Matches: 115, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
58 1 0.01
59 32 0.28
60 4 0.03
61 30 0.26
62 44 0.38
63 4 0.03
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (61 bp):
TATTCAAAACAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTATAAATA
Found at i:8702125 original size:21 final size:21
Alignment explanation
Indices: 8702092--8702135 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8702082 TTGGTTGAGC
*
8702092 TTTCGACGGGGGTTGTGGTTG
1 TTTCGACGAGGGTTGTGGTTG
*
8702113 TTTCGGCGAGGGTTGTGGTTG
1 TTTCGACGAGGGTTGTGGTTG
8702134 TT
1 TT
8702136 CTGGTTGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.09, G:0.45, T:0.41
Consensus pattern (21 bp):
TTTCGACGAGGGTTGTGGTTG
Found at i:8702413 original size:18 final size:18
Alignment explanation
Indices: 8702390--8702425 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8702380 AAAAGAAAAT
8702390 ATATAAGGGTTAGGATAC
1 ATATAAGGGTTAGGATAC
8702408 ATATAAGGGTTAGGATAC
1 ATATAAGGGTTAGGATAC
8702426 GCACCTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (18 bp):
ATATAAGGGTTAGGATAC
Found at i:8704005 original size:30 final size:32
Alignment explanation
Indices: 8703933--8704005 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 32
8703923 GTTGTTATAA
* *
8703933 AAAAATTATAAAATAAATATTAATTAAAATTAC
1 AAAAATT-GAAAATAAATATTAAATAAAATTAC
* *
8703966 ATAAA-TGAAAA-AAATATTAAATAATATT-C
1 AAAAATTGAAAATAAATATTAAATAAAATTAC
8703995 AAAAATTGAAA
1 AAAAATTGAAA
8704006 TTAACCATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
29 5 0.15
30 20 0.59
31 4 0.12
32 1 0.03
33 4 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (32 bp):
AAAAATTGAAAATAAATATTAAATAAAATTAC
Found at i:8704183 original size:21 final size:21
Alignment explanation
Indices: 8704134--8704193 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
8704124 ATTTAGAAAA
*
8704134 AAATTTAAAG-GAAA-TTGTG
1 AAATTTAAAGAGAAATTTGAG
**
8704153 --ATTTAAAGAGAGCTTTGAG
1 AAATTTAAAGAGAAATTTGAG
*
8704172 AAATTTAGAGAGAAATTTGAG
1 AAATTTAAAGAGAAATTTGAG
8704193 A
1 A
8704194 GCTTTTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
17 8 0.26
18 2 0.06
19 4 0.13
21 17 0.55
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (21 bp):
AAATTTAAAGAGAAATTTGAG
Found at i:8705116 original size:16 final size:16
Alignment explanation
Indices: 8705095--8705143 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
8705085 TTTGCTGTAT
*
8705095 TGGAATAGAGGCGTTA
1 TGGAATAGAGGCGTAA
*
8705111 TGGAATAGATGCGTAA
1 TGGAATAGAGGCGTAA
8705127 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
8705143 T
1 T
8705144 AGGTAATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:8705212 original size:44 final size:46
Alignment explanation
Indices: 8705125--8705212 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 46
8705115 ATAGATGCGT
*
8705125 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
8705171 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
8705213 AAAATAGAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 19 0.46
45 3 0.07
46 19 0.46
ACGTcount: A:0.27, C:0.05, G:0.31, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:8705486 original size:121 final size:121
Alignment explanation
Indices: 8705354--8705728 Score: 734
Period size: 121 Copynumber: 3.1 Consensus size: 121
8705344 ATTTAATCAT
8705354 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
8705419 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
8705475 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
8705540 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
8705596 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
8705661 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
8705717 A-TTTAAAATAAT
1 ATTTTAACATAAT
8705729 AAAATTTGAA
Statistics
Matches: 253, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
120 10 0.04
121 243 0.96
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (121 bp):
ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:8705773 original size:20 final size:20
Alignment explanation
Indices: 8705726--8705764 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8705716 AATTTAAAAT
*
8705726 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
8705746 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
8705765 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:8709125 original size:14 final size:14
Alignment explanation
Indices: 8709106--8709132 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8709096 CAGAAATCTA
8709106 GAGAAAAGAAAATG
1 GAGAAAAGAAAATG
8709120 GAGAAAAGAAAAT
1 GAGAAAAGAAAAT
8709133 AAATGTGAGA
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:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (14 bp):
GAGAAAAGAAAATG
Found at i:8709513 original size:14 final size:14
Alignment explanation
Indices: 8709494--8709523 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8709484 TAATAAGGCT
8709494 ATTCGAGAAAGTGA
1 ATTCGAGAAAGTGA
8709508 ATTCGAGAAAGTGA
1 ATTCGAGAAAGTGA
8709522 AT
1 AT
8709524 GAGTTACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (14 bp):
ATTCGAGAAAGTGA
Found at i:8713699 original size:31 final size:31
Alignment explanation
Indices: 8713656--8713717 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
8713646 GACAATTGTT
*
8713656 TGTGGGAATAATTGTCAAGTTTAAACCTTAA
1 TGTGAGAATAATTGTCAAGTTTAAACCTTAA
8713687 TGTGAGAATAATTGTCAAGTTTAAACCTTAA
1 TGTGAGAATAATTGTCAAGTTTAAACCTTAA
8713718 CTTGAATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (31 bp):
TGTGAGAATAATTGTCAAGTTTAAACCTTAA
Found at i:8719417 original size:7 final size:7
Alignment explanation
Indices: 8719407--8719439 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
8719397 TTAGGGCTTA
8719407 GGTTTTG
1 GGTTTTG
8719414 GGTTTTG
1 GGTTTTG
8719421 GGTTTTG
1 GGTTTTG
*
8719428 AGTTTTG
1 GGTTTTG
8719435 GGTTT
1 GGTTT
8719440 GATTAGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.39, T:0.58
Consensus pattern (7 bp):
GGTTTTG
Found at i:8721812 original size:41 final size:42
Alignment explanation
Indices: 8721728--8721839 Score: 95
Period size: 43 Copynumber: 2.6 Consensus size: 42
8721718 CATCAATTTG
* * *
8721728 TGATTTACGTGTAAGATATGTCTGGGACATCGGTATCGTATA
1 TGATTTACGTGTAAGACATGTCTGGGACATCGGCACCGTATA
* *
8721770 TGATTT-CGTGTAAGACCCTGTCTGGGACAGT-GGCACCGATATG
1 TGATTTACGTGTAAGA-CATGTCTGGGACA-TCGGCACCG-TATA
* * *
8721813 TGA-TAACATGTAAGACCATATCTGGGA
1 TGATTTACGTGTAAGA-CATGTCTGGGA
8721840 TATGGCGCTG
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
41 9 0.16
42 23 0.40
43 25 0.44
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
TGATTTACGTGTAAGACATGTCTGGGACATCGGCACCGTATA
Found at i:8730218 original size:16 final size:18
Alignment explanation
Indices: 8730188--8730222 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
8730178 ACAAATACAA
8730188 AAAAAACCCTAAAAGCCC
1 AAAAAACCCTAAAAGCCC
8730206 AAAAAA-CCT-AAAGCCC
1 AAAAAACCCTAAAAGCCC
8730222 A
1 A
8730223 TTTGCCCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.57, C:0.31, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAAAACCCTAAAAGCCC
Found at i:8731565 original size:3 final size:3
Alignment explanation
Indices: 8731559--8731636 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
8731549 TACATTTTTG
* * * *
8731559 TAT TAT T-T CAT TAT TAT TAT CAT TAT TAT ATAG TAT TAT TAAT TGAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT T-AT
* *
8731606 TAT T-T TTT TAT TGT TAT TATT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
8731637 GTATTCACTG
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 3 0.05
3 45 0.78
4 10 0.17
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8731630 original size:13 final size:13
Alignment explanation
Indices: 8731568--8731636 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
8731558 GTATTATTTC
*
8731568 ATTATTA-TTATC
1 ATTATTATTTATT
* *
8731580 ATTATTATATAGT
1 ATTATTATTTATT
* *
8731593 ATTATTAATTGAAT
1 ATTATT-ATTTATT
8731607 ATT-TT-TTTATT
1 ATTATTATTTATT
*
8731618 GTTATTATTTATT
1 ATTATTATTTATT
8731631 ATTATT
1 ATTATT
8731637 GTATTCACTG
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
11 6 0.14
12 9 0.21
13 21 0.49
14 7 0.16
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (13 bp):
ATTATTATTTATT
Found at i:8731638 original size:19 final size:19
Alignment explanation
Indices: 8731559--8731636 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 19
8731549 TACATTTTTG
8731559 TATTATTTCATTATTATTAT
1 TATTATTT-ATTATTATTAT
*
8731579 CATTATTATATAGTATTATTAAT
1 TATTATT-TAT--TATTATT-AT
* *
8731602 TGAATATTT-TT-TTATTGT
1 T-ATTATTTATTATTATTAT
8731620 TATTATTTATTATTATT
1 TATTATTTATTATTATT
8731637 GTATTCACTG
Statistics
Matches: 46, Mismatches: 5, Indels: 15
0.70 0.08 0.23
Matches are distributed among these distances:
17 6 0.13
18 4 0.09
19 10 0.22
20 9 0.20
21 1 0.02
22 8 0.17
23 3 0.07
24 5 0.11
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:8732445 original size:61 final size:61
Alignment explanation
Indices: 8732371--8732490 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
8732361 GGGTTTCAAC
8732371 AACTTCTAATTTATTAAATGAAACAATATAAAAATAATTTATACAAAAATATTCAAAAAAA
1 AACTTCTAATTTATTAAATGAAACAATATAAAAATAATTTATACAAAAATATTCAAAAAAA
* *
8732432 AACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAA
1 AACTTCTAATTTATTAAATGAAACAATATAAAAATAATTTATACAAAAATATTCAAAAA
8732491 TAAATCAATG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.33
Consensus pattern (61 bp):
AACTTCTAATTTATTAAATGAAACAATATAAAAATAATTTATACAAAAATATTCAAAAAAA
Found at i:8732894 original size:18 final size:18
Alignment explanation
Indices: 8732867--8732906 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8732857 TGGAAAAAGT
* *
8732867 ATACATATAAGGATTAGG
1 ATACACATAAGGATTAAG
*
8732885 ATACACATAAGGGTTAAG
1 ATACACATAAGGATTAAG
8732903 ATAC
1 ATAC
8732907 GCACCTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (18 bp):
ATACACATAAGGATTAAG
Found at i:8734506 original size:30 final size:31
Alignment explanation
Indices: 8734447--8734507 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
8734437 AAAATTATAA
*
8734447 AAAAATATTAATTGAATTATAAAAATAAAAT
1 AAAAATATTAAATGAATTATAAAAATAAAAT
*
8734478 AAAAATATTAAAT-AA-TATTAAAAGTAAAAT
1 AAAAATATTAAATGAATTA-TAAAAATAAAAT
8734508 TAACCCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 13 0.48
31 12 0.44
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAATATTAAATGAATTATAAAAATAAAAT
Found at i:8742909 original size:13 final size:13
Alignment explanation
Indices: 8742891--8742947 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
8742881 AATTATAAAA
8742891 ATATAAAAAATAT
1 ATATAAAAAATAT
**
8742904 ATAT-AAGTATAT
1 ATATAAAAAATAT
* * *
8742916 ATTTTAAAATTACT
1 ATATAAAAAATA-T
8742930 ATATAAAAAATAT
1 ATATAAAAAATAT
8742943 ATATA
1 ATATA
8742948 TAAGTAAGCA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
12 9 0.27
13 14 0.42
14 10 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATAAAAAATAT
Found at i:8743079 original size:3 final size:3
Alignment explanation
Indices: 8743071--8743136 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
8743061 ACTCCTATAT
8743071 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
8743119 ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA
8743137 GGACTAAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8744163 original size:20 final size:21
Alignment explanation
Indices: 8744122--8744163 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
8744112 TCTTTTGTGA
*
8744122 TTTGGGCTATTAGGGTTTGTT
1 TTTGGGCTATTAGGGTTGGTT
8744143 TTTGGG-TATT-GGGCTTGGTT
1 TTTGGGCTATTAGGG-TTGGTT
8744163 T
1 T
8744164 AATTGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.07, C:0.05, G:0.36, T:0.52
Consensus pattern (21 bp):
TTTGGGCTATTAGGGTTGGTT
Found at i:8745720 original size:40 final size:40
Alignment explanation
Indices: 8745664--8745758 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
8745654 ACTCTATGTT
*
8745664 TGGTGTGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTC
1 TGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTC
8745704 TGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTC
1 TGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTC
*
8745744 TGGTATGTTT-GGTTG
1 TGGTGTGTTTCGGTTG
8745759 ATCTAACGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
39 5 0.09
40 48 0.91
ACGTcount: A:0.11, C:0.15, G:0.31, T:0.44
Consensus pattern (40 bp):
TGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTC
Found at i:8747229 original size:16 final size:16
Alignment explanation
Indices: 8747208--8747253 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
8747198 TGTATTGGAT
*
8747208 TAGAGGCGTAAT-GAAA
1 TAGAGGTGTAATAG-AA
8747224 TAGAGGTGTAATAGAA
1 TAGAGGTGTAATAGAA
8747240 TAGAGGTGTAATAG
1 TAGAGGTGTAATAG
8747254 CAAATCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.33, T:0.24
Consensus pattern (16 bp):
TAGAGGTGTAATAGAA
Found at i:8747296 original size:45 final size:44
Alignment explanation
Indices: 8747230--8747327 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
8747220 GAAATAGAGG
*
8747230 TGTAATAGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
8747275 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
*
8747319 TGGAATAGA
1 TGTAATAGA
8747328 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 23 0.51
45 22 0.49
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:8747503 original size:26 final size:28
Alignment explanation
Indices: 8747474--8747534 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
8747464 TATGAATTTG
*
8747474 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
8747500 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
8747528 TAAAATT
1 TATAATT
8747535 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:8747532 original size:47 final size:46
Alignment explanation
Indices: 8747481--8747624 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
8747471 TTGTATAATT
8747481 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
8747528 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
8747572 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
8747619 TAAAAT
1 TAAAAT
8747625 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:8747545 original size:91 final size:91
Alignment explanation
Indices: 8747449--8747656 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
8747439 TAATTATAAC
* * * * *
8747449 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
8747514 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
* *
8747540 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
8747605 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
8747631 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
8747657 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 86 0.81
92 19 0.18
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:8747616 original size:44 final size:43
Alignment explanation
Indices: 8747430--8747616 Score: 119
Period size: 44 Copynumber: 4.1 Consensus size: 43
8747420 GATTTAATAA
* * * *
8747430 AATTTAAAATAATTATAACTAATAAAT-TATATTTTATGAATTTGTAT
1 AATTTAAAATAA-T-TAA-TATTAAATATA-ATTTAAT-AATATATAT
* *
8747477 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
** * * * * *
8747521 AATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTATAC
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATATAT
8747568 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
8747612 AATTT
1 AATTT
8747617 CATAAAATTC
Statistics
Matches: 107, Mismatches: 22, Indels: 25
0.69 0.14 0.16
Matches are distributed among these distances:
43 6 0.06
44 45 0.42
45 11 0.10
46 8 0.07
47 34 0.32
48 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAT
Found at i:8747631 original size:47 final size:47
Alignment explanation
Indices: 8747499--8747637 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
8747489 TTATTATTAC
* *
8747499 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
8747546 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
8747590 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
8747637 A
1 A
8747638 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:8748939 original size:27 final size:28
Alignment explanation
Indices: 8748909--8748975 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
8748899 GATTGCATCC
*
8748909 TTCAGATACATGACTGTA-TATGTA-A-CT
1 TTCACATACATGA--GTAGTATGTATACCT
*
8748936 TTCATATACAT-AGTAGTATGTATACCT
1 TTCACATACATGAGTAGTATGTATACCT
8748963 TTCACATACATGA
1 TTCACATACATGA
8748976 ACAGTGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 3 0.09
25 6 0.18
26 2 0.06
27 22 0.65
28 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (28 bp):
TTCACATACATGAGTAGTATGTATACCT
Found at i:8757125 original size:71 final size:68
Alignment explanation
Indices: 8757025--8757208 Score: 189
Period size: 63 Copynumber: 2.7 Consensus size: 68
8757015 ACTTAAAACC
* * * *
8757025 GAATGCATATACAATTTGAAACATGAATAGCCGAATGTGTATATACATATATGCTTAACAAATAT
1 GAATGTATATACACTTT-AAACATGAATAGCCGAATG-ATATATACATATA--CATAACAAATAT
* * *
8757090 TATCATA
62 AATAACA
*
8757097 GAATGTATATACACTTTAAACATGAATAGCCGAATGCT-TATAC----ACATAACAAATATAATA
1 GAATGTATATACACTTTAAACATGAATAGCCGAATGATATATACATATACATAACAAATATAATA
*
8757157 ACC
66 ACA
**
8757160 GAATGTATATACACTTTAAACATGAATAGCTAAATGCATATATACATAT
1 GAATGTATATACACTTTAAACATGAATAGCCGAATG-ATATATACATAT
8757209 GCCTAGCAAC
Statistics
Matches: 95, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
63 48 0.51
64 1 0.01
65 6 0.06
69 5 0.05
70 1 0.01
71 19 0.20
72 15 0.16
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (68 bp):
GAATGTATATACACTTTAAACATGAATAGCCGAATGATATATACATATACATAACAAATATAATA
ACA
Found at i:8757132 original size:31 final size:31
Alignment explanation
Indices: 8757097--8757189 Score: 109
Period size: 32 Copynumber: 3.0 Consensus size: 31
8757087 TATTATCATA
8757097 GAATGTATATACACTTTAAACATGAATAGCC
1 GAATGTATATACACTTTAAACATGAATAGCC
* * * *
8757128 GAATGCT-TATACAC-ATAACAAATATAATAACC
1 GAATG-TATATACACTTTAA-ACAT-GAATAGCC
8757160 GAATGTATATACACTTTAAACATGAATAGC
1 GAATGTATATACACTTTAAACATGAATAGC
8757190 TAAATGCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
30 3 0.06
31 21 0.43
32 22 0.45
33 3 0.06
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (31 bp):
GAATGTATATACACTTTAAACATGAATAGCC
Found at i:8757204 original size:33 final size:32
Alignment explanation
Indices: 8757097--8757205 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 32
8757087 TATTATCATA
8757097 GAATG-TATATACACTTTAAACATGAATAGCC
1 GAATGCTATATACACTTTAAACATGAATAGCC
* * * *
8757128 GAATGCT-TATACAC-ATAACAAATATAATAACC
1 GAATGCTATATACACTTTAA-ACAT-GAATAGCC
*
8757160 GAATG-TATATACACTTTAAACATGAATAGCT
1 GAATGCTATATACACTTTAAACATGAATAGCC
*
8757191 AAATGCATATATACA
1 GAATGC-TATATACA
8757206 TATGCCTAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
30 3 0.05
31 25 0.41
32 22 0.36
33 11 0.18
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (32 bp):
GAATGCTATATACACTTTAAACATGAATAGCC
Found at i:8757622 original size:8 final size:8
Alignment explanation
Indices: 8757609--8757640 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
8757599 TATGTTGTTA
8757609 TATTATAT
1 TATTATAT
*
8757617 TATTATAA
1 TATTATAT
8757625 TATTATAT
1 TATTATAT
8757633 TATTATAT
1 TATTATAT
8757641 ATATAAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:8757629 original size:16 final size:17
Alignment explanation
Indices: 8757607--8757644 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
8757597 AGTATGTTGT
8757607 TATATTATATTATTATA
1 TATATTATATTATTATA
8757624 -ATATTATATTATTATA
1 TATATTATATTATTATA
8757640 TATAT
1 TATAT
8757645 AAAGCAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTATATTATTATA
Found at i:8758841 original size:40 final size:41
Alignment explanation
Indices: 8758758--8758865 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 41
8758748 GTGAGACTGA
* * * *
8758758 TACTGAACTGAATTATGAAA-TACTGAATGTTGTATTTGAG
1 TACTGAATTGAATTGTGAAATTACTGAATATTGTATATGAG
*
8758798 TACTGAATTGAATTGTGAAATTACTGAATATTGT-TATGTG
1 TACTGAATTGAATTGTGAAATTACTGAATATTGTATATGAG
* * *
8758838 TACTGCATTGAACTGTGATATTACTGAA
1 TACTGAATTGAATTGTGAAATTACTGAA
8758866 GTAATGAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 47 0.80
41 12 0.20
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (41 bp):
TACTGAATTGAATTGTGAAATTACTGAATATTGTATATGAG
Found at i:8759110 original size:45 final size:45
Alignment explanation
Indices: 8759055--8759159 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 45
8759045 ATATGCCGAC
* *
8759055 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTGT
**
8759100 TACCT-TTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGT
1 TA-CTGTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTGT
8759145 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
8759160 TGCTACCGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
44 2 0.04
45 50 0.93
46 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTGT
Found at i:8759150 original size:6 final size:6
Alignment explanation
Indices: 8759139--8759182 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
8759129 GTGTGTTGAA
* *
8759139 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
8759183 TAGGTGCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:8760235 original size:41 final size:41
Alignment explanation
Indices: 8760179--8760282 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
8760169 TGATTCAGTA
* * * * * *
8760179 CACCGGCTTTTAGCCTGCTAGACTTATAGTCCGAATTGTTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCCGAAATATTT
8760220 CACCGGCATTAAGCCTGCTAGACATAAAGTCCGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCCGAAATATTT
* *
8760261 CACCGGCATCAAACCTGCTAGA
1 CACCGGCATTAAGCCTGCTAGA
8760283 TGTGAAGTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCCGAAATATTT
Found at i:8762834 original size:11 final size:11
Alignment explanation
Indices: 8762818--8762843 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8762808 GGCCAAGACA
8762818 TCTTCAATTTC
1 TCTTCAATTTC
8762829 TCTTCAATTTC
1 TCTTCAATTTC
8762840 TCTT
1 TCTT
8762844 TTTACCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (11 bp):
TCTTCAATTTC
Found at i:8770767 original size:117 final size:117
Alignment explanation
Indices: 8770561--8770795 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
8770551 TAGTTATAAC
8770561 ATACACAACTATTGCTAAAAGAACCGTTAATAAAGTTTAATGTAGCTATTCAATTAAAAGAGATC
1 ATACACAACTATTGCTAAAAGAACCGTTAATAAAGTTTAATGTAGCTATTCAATTAAAAGAGATC
* *
8770626 TTGAAATATGGGATCAATATAAAATCTCGAAGTGAAATTAACAAAAAAAAAA
66 TTGAAATATGGGATCAATATAAAATCTCGAAGTGAAAATAAAAAAAAAAAAA
8770678 ATACACAACTATTGCTAAAAGAACCGTTAATAAAGTTTAATGTAGCTATTCAATTAAAAGAGATC
1 ATACACAACTATTGCTAAAAGAACCGTTAATAAAGTTTAATGTAGCTATTCAATTAAAAGAGATC
8770743 TTGAAATATGGGATCAATATAAAATCTCGAAGTGAAAATAAAAAAAAAAAAA
66 TTGAAATATGGGATCAATATAAAATCTCGAAGTGAAAATAAAAAAAAAAAAA
8770795 A
1 A
8770796 AAAAAAACAA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.26
Consensus pattern (117 bp):
ATACACAACTATTGCTAAAAGAACCGTTAATAAAGTTTAATGTAGCTATTCAATTAAAAGAGATC
TTGAAATATGGGATCAATATAAAATCTCGAAGTGAAAATAAAAAAAAAAAAA
Found at i:8780054 original size:19 final size:20
Alignment explanation
Indices: 8780014--8780062 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
8780004 ACATAATTTA
*
8780014 TATTTTAAAAAAATATTAAT
1 TATTATAAAAAAATATTAAT
*
8780034 TATTATAAAAAAATCTT-AT
1 TATTATAAAAAAATATTAAT
*
8780053 TATGATAAAA
1 TATTATAAAA
8780063 TAATTTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TATTATAAAAAAATATTAAT
Found at i:8794753 original size:207 final size:207
Alignment explanation
Indices: 8794476--8795294 Score: 777
Period size: 207 Copynumber: 4.0 Consensus size: 207
8794466 TTGAACTCAA
* * * * * * * * *
8794476 GCTAACTGTGTTGGAGGCTGCGACTATTCATCAGTGAGTCTTAATGTGGCAGCT-AGGAGCTTTG
1 GCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGA-GAGCTTTG
* *
8794540 CTCTCGCTAATTGTGTTGGAGGCTACAACTCTTCA-CTTGCGAGCCTTAATGTGACAGCTGGGAG
65 CTCTCGCTAATTGTGTTGAAGGCTGCAACTCTTCACCTT-CGAGCCTTAATGTGACAGCTGGGAG
* * * *
8794604 CTTTGCTCTTATTAACTGTGTTGGAGACTGCGACTCTTCACTTGTGAGCCTTAATGTGATAGTTG
129 CTTTACTCTTATTAACTGTGTTGGAGACTGCGACTCTTCACCTGCGAGCCTTAATGTGACAGTTG
8794669 GGAGCTTTACTATC
194 GGAGCTTTACTATC
* * * *
8794683 ACTAACTGTGTTAGAGGCTGCAGCTCTTCACCTGCGAGTCTTAGTATGACAGCTGAGAGCTTTGC
1 GCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGC
* *
8794748 TCTCGCTAACTT-TCTT-AGAGGCTGCAACTCTTCACCTGT-GAGTCTTAATGTGACAGCTGGGA
66 TCTCGCTAA-TTGTGTTGA-AGGCTGCAACTCTTCACCT-TCGAGCCTTAATGTGACAGCTGGGA
* ** * ** * * *
8794810 GCTTTACTCTTATTAACTGTGTTGAAGGTTGATGTTTTTTTATCTGCGAGCCTTAATGTGACAGT
128 GCTTTACTCTTATTAACTGTGTTGGAGACTG-CGACTCTTCACCTGCGAGCCTTAATGTGACAGT
*
8794875 TGGGAGCTTTACTCTC
192 TGGGAGCTTTACTATC
* * * * * * * * *
8794891 GCTAATTGTGTTAGAGGATGTGGCTCTTCACCTACAAACCTTAATATGACAGTTGGGAGCTCTGC
1 GCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGC
* * * * ** *** * *
8794956 TTTCACTAATTGCGTTGAAGGTTGCGGCTCTTCACCTTCGATTTTTTATGTGGCAGCTGGGAGCT
66 TCTCGCTAATTGTGTTGAAGGCTGCAACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCT
* * * * * * *
8795021 TTGCTTTTGTTAACTGTGTTAGAGATTGTGACTCTTCACCTGCGAACCTTAATGTGACAGTTGGG
131 TTACTCTTATTAACTGTGTTGGAGACTGCGACTCTTCACCTGCGAGCCTTAATGTGACAGTTGGG
* *
8795086 AGCTTTGCTGTC
196 AGCTTTACTATC
* * * * * * * * *
8795098 GCTAATTATGTT-GAAGGTTACGGCTCTTCACCTTCGACCCTTAATGTGACAGTTGGGAGCTTTG
1 GCTAACTGTGTTAG-AGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTG
* * * *** * * * *
8795162 CTCTCGCTCATTGTGTTGAATGTTGTGGCTCTTCACCTTCGAGCCATAATGTGACAACTAGAAGC
65 CTCTCGCTAATTGTGTTGAAGGCTGCAACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGC
* * * * *
8795227 TTTACTCTTGTTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAGTATGATAGTTGG
130 TTTACTCTTATTAACTGTGTTGGAGACTGCGACTCTTCACCTGCGAGCCTTAATGTGACAGTTGG
8795292 GAG
195 GAG
8795295 ATAGGAATTT
Statistics
Matches: 501, Mismatches: 101, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
206 1 0.00
207 333 0.66
208 165 0.33
209 2 0.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (207 bp):
GCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGC
TCTCGCTAATTGTGTTGAAGGCTGCAACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCT
TTACTCTTATTAACTGTGTTGGAGACTGCGACTCTTCACCTGCGAGCCTTAATGTGACAGTTGGG
AGCTTTACTATC
Found at i:8795267 original size:69 final size:69
Alignment explanation
Indices: 8794476--8795278 Score: 599
Period size: 69 Copynumber: 11.6 Consensus size: 69
8794466 TTGAACTCAA
* ** * * *
8794476 GCTAACTGTGTTGGAGGCTGCGACTATTCATCAGT-GAGTCTTAATGTGGCAGCTAGGAGCTTTG
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCA-CCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTG
8794540 CTCTC
65 CTCTC
* * *
8794545 GCTAATTGTGTTGGAGGCTACAACTCTTCA-CTTGCGAGCCTTAATGTGACAGCTGGGAGCTTTG
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTT-CGAGCCTTAATGTGACAGCTGGGAGCTTTG
*
8794609 CTCTT
65 CTCTC
** * * * * *
8794614 ATTAACTGTGTTGGAGACTGCGACTCTTCA-CTTGTGAGCCTTAATGTGATAGTTGGGAGCTTTA
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTT-CGAGCCTTAATGTGACAGCTGGGAGCTTTG
*
8794678 CTATC
65 CTCTC
* * * * * * *
8794683 ACTAACTGTGTTAGAGGCTGC-AGCTCTTCACCTGCGAGTCTTAGTATGACAGCTGAGAGCTTTG
1 GCTAACTGTGTTGGAGGCTGCGA-CTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTG
8794747 CTCTC
65 CTCTC
* * * * * *
8794752 GCTAACTTTCTTAGAGGCTGCAACTCTTCACCTGT-GAGTCTTAATGTGACAGCTGGGAGCTTTA
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCT-TCGAGCCTTAATGTGACAGCTGGGAGCTTTG
*
8794816 CTCTT
65 CTCTC
** * * * ** * * * * * *
8794821 ATTAACTGTGTTGAAGGTTGATGTTTTTTTATCTGCGAGCCTTAATGTGACAGTTGGGAGCTTTA
1 GCTAACTGTGTTGGAGGCTG-CGACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTG
8794886 CTCTC
65 CTCTC
* * * * * * * * * * *
8794891 GCTAATTGTGTTAGAGGATGTGGCTCTTCACCTACAAACCTTAATATGACAGTTGGGAGCTCTGC
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTGC
*
8794956 TTTC
66 TCTC
* * * * * * *** * *
8794960 ACTAATTGCGTTGAAGGTTGCGGCTCTTCACCTTCGATTTTTTATGTGGCAGCTGGGAGCTTTGC
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTGC
* *
8795025 TTTT
66 TCTC
* * ** * * * *
8795029 GTTAACTGTGTTAGAGATTGTGACTCTTCACCTGCGAACCTTAATGTGACAGTTGGGAGCTTTGC
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTGC
*
8795094 TGTC
66 TCTC
* * * * * * * *
8795098 GCTAATTATGTTGAAGGTTACGGCTCTTCACCTTCGACCCTTAATGTGACAGTTGGGAGCTTTGC
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTGC
8795163 TCTC
66 TCTC
* * * * * * * * * * * *
8795167 GCTCATTGTGTTGAATGTTGTGGCTCTTCACCTTCGAGCCATAATGTGACAACTAGAAGCTTTAC
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTGC
*
8795232 TCTT
66 TCTC
* *
8795236 GTTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTA
1 GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTTCGAGCCTTA
8795279 GTATGATAGT
Statistics
Matches: 576, Mismatches: 150, Indels: 16
0.78 0.20 0.02
Matches are distributed among these distances:
67 1 0.00
68 1 0.00
69 520 0.90
70 54 0.09
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (69 bp):
GCTAACTGTGTTGGAGGCTGCGACTCTTCACCTTCGAGCCTTAATGTGACAGCTGGGAGCTTTGC
TCTC
Found at i:8804694 original size:27 final size:27
Alignment explanation
Indices: 8804651--8804702 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
8804641 AGATGTTTAG
*
8804651 CAAATGGTCCGGATAAACGACCAACAA
1 CAAATGGTCCGGATAAACAACCAACAA
8804678 CAAATGGTCCAGG-TAAACAACCAAC
1 CAAATGGTCC-GGATAAACAACCAAC
8804703 TCCGCTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.44, C:0.27, G:0.17, T:0.12
Consensus pattern (27 bp):
CAAATGGTCCGGATAAACAACCAACAA
Found at i:8807560 original size:20 final size:20
Alignment explanation
Indices: 8807535--8807573 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8807525 GTTTTTACAT
8807535 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
8807555 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
8807574 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:8810315 original size:11 final size:11
Alignment explanation
Indices: 8810301--8810334 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8810291 TCAAGGATAG
*
8810301 GGGAAGGGGAA
1 GGGAAAGGGAA
8810312 GGGAAAGGGAA
1 GGGAAAGGGAA
*
8810323 AGGAAAGGGAA
1 GGGAAAGGGAA
8810334 G
1 G
8810335 ATCGGTGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
GGGAAAGGGAA
Found at i:8816009 original size:39 final size:41
Alignment explanation
Indices: 8815964--8816065 Score: 100
Period size: 44 Copynumber: 2.4 Consensus size: 41
8815954 TTTCCTTATG
*
8815964 CTATTACACTTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACACTTCTATTCCATTCAACCAAACAAAAGAATTAC
* *
8816004 C-ATTACGCCTCTATTCAATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTA---CAC--TTCTATTCCATTCAACCAAACAAAAGAATTAC
* *
8816049 CTATTACGCCTCTATTC
1 CTATTACACTTCTATTC
8816066 TATTACACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
39 4 0.08
40 1 0.02
41 6 0.12
42 2 0.04
43 2 0.04
44 26 0.53
45 4 0.08
46 4 0.08
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACACTTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:8816044 original size:44 final size:46
Alignment explanation
Indices: 8815977--8816065 Score: 155
Period size: 44 Copynumber: 2.0 Consensus size: 46
8815967 TTACACTTCT
*
8815977 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCA
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCA
8816021 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTC
8816066 TATTACACCT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 23 0.55
45 4 0.10
46 15 0.36
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.27
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCA
Found at i:8816070 original size:16 final size:16
Alignment explanation
Indices: 8816049--8816088 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8816039 AAAGAATTAC
*
8816049 CTATTACGCCTCTATT
1 CTATTACACCTCTATT
*
8816065 CTATTACACCTTTATT
1 CTATTACACCTCTATT
*
8816081 CCATTACA
1 CTATTACA
8816089 GCAAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.25, C:0.30, G:0.03, T:0.42
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:8824531 original size:15 final size:15
Alignment explanation
Indices: 8824511--8824540 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8824501 TTTCAAATTG
8824511 GTGTTCAAGACTTGT
1 GTGTTCAAGACTTGT
8824526 GTGTTCAAGACTTGT
1 GTGTTCAAGACTTGT
8824541 TCTGTTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
GTGTTCAAGACTTGT
Found at i:8826723 original size:34 final size:35
Alignment explanation
Indices: 8826665--8826731 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8826655 CAAACACCAG
*
8826665 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAAGAAATCATTTTACAGAAAAGT
*
8826700 AAAATATTTTCC-AGAAATCATTTTACGGAAAA
1 AAAATATTTTCCAAGAAATCATTTTACAGAAAA
8826732 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAAGAAATCATTTTACAGAAAAGT
Found at i:8827053 original size:31 final size:30
Alignment explanation
Indices: 8826985--8827072 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
8826975 CTAAAAAAGC
* * *
8826985 TTAAGTACCAAATT-AGAAACAAGTGCTGAAT
1 TTAAGTACCAATTTAAGAAA-AATTG-TCAAT
8827016 TT-AGTACCAATTTAAGAAAAATTGTCAAGT
1 TTAAGTACCAATTTAAGAAAAATTGTCAA-T
* *
8827046 TTAAGTACCGAATTGAAAAAAAATTGT
1 TTAAGTACC-AATTTAAGAAAAATTGT
8827073 AGGTACCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.06
30 17 0.35
31 13 0.27
32 15 0.31
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (30 bp):
TTAAGTACCAATTTAAGAAAAATTGTCAAT
Found at i:8864982 original size:19 final size:19
Alignment explanation
Indices: 8864958--8865011 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
8864948 TAAATATATT
8864958 AATATATTATTTAATTAT-A
1 AATATATTATTT-ATTATAA
8864977 AATATATTA--TATTATAA
1 AATATATTATTTATTATAA
8864994 AATATATTATTATATTAT
1 AATATATTATT-TATTAT
8865012 GTAAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.16
17 11 0.35
19 9 0.29
20 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATATTATTTATTATAA
Found at i:8864984 original size:16 final size:18
Alignment explanation
Indices: 8864965--8865011 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
8864955 ATTAATATAT
8864965 TATTTA-ATTAT-AAATA
1 TATTTATATTATAAAATA
8864981 TA-TTATATTATAAAATA
1 TATTTATATTATAAAATA
8864998 TATTATTATATTAT
1 TA-T-TTATATTAT
8865012 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 7 0.27
17 7 0.27
20 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTATATTATAAAATA
Found at i:8864996 original size:17 final size:16
Alignment explanation
Indices: 8864948--8865003 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 16
8864938 TTTTATGTTT
8864948 TAAATATATTA-A-TA
1 TAAATATATTATATTA
*
8864962 T-ATTAT-TTA-ATTA
1 TAAATATATTATATTA
8864975 TAAATATATTATATTA
1 TAAATATATTATATTA
8864991 TAAAATATATTAT
1 T-AAATATATTAT
8865004 TATATTATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 4 0.11
13 7 0.20
14 5 0.14
15 3 0.09
16 5 0.14
17 11 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATATATTATATTA
Found at i:8865145 original size:14 final size:14
Alignment explanation
Indices: 8865122--8865152 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8865112 AAGTAAAAGA
8865122 ATTATATTATTATT
1 ATTATATTATTATT
*
8865136 ATTATGTTATTATT
1 ATTATATTATTATT
8865150 ATT
1 ATT
8865153 TAAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:8865232 original size:27 final size:26
Alignment explanation
Indices: 8865202--8865254 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
8865192 ATAGGCAAAC
* *
8865202 GAAACAGAGAAAGGAAAGAAGGAAAAA
1 GAAACAAAGAAAAGAAA-AAGGAAAAA
* *
8865229 GAAAGAAAGAAAAGAAACAGGAAAAA
1 GAAACAAAGAAAAGAAAAAGGAAAAA
8865255 TGGGGTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.70, C:0.04, G:0.26, T:0.00
Consensus pattern (26 bp):
GAAACAAAGAAAAGAAAAAGGAAAAA
Found at i:8866100 original size:41 final size:41
Alignment explanation
Indices: 8866055--8866136 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
8866045 AAGTATGGAT
*
8866055 ATGTA-TGAGCATTTAATGGTATATTGATT-GAAAAGTGGAAA
1 ATGTATTG-GCATTGAATGGTATATTGATTAG-AAAGTGGAAA
* *
8866096 ATGTATTGGTATTGAATTGTATATTGATTAGAAAGTGGAAA
1 ATGTATTGGCATTGAATGGTATATTGATTAGAAAGTGGAAA
8866137 GTGAATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 33 0.92
42 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.24, T:0.37
Consensus pattern (41 bp):
ATGTATTGGCATTGAATGGTATATTGATTAGAAAGTGGAAA
Found at i:8866156 original size:41 final size:41
Alignment explanation
Indices: 8866073--8866156 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
8866063 GCATTTAATG
* *
8866073 GTATATTGATTGAAAAGTGGAAAATGTATTGGTATTGAATT
1 GTATATTGATTGAAAAGTGGAAAATGAATTGGAATTGAATT
* * *
8866114 GTATATTGATT-AGAAAGTGGAAAGTGAATTTGAATTGCATT
1 GTATATTGATTGA-AAAGTGGAAAATGAATTGGAATTGAATT
8866155 GT
1 GT
8866157 GATTGAATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (41 bp):
GTATATTGATTGAAAAGTGGAAAATGAATTGGAATTGAATT
Found at i:8866160 original size:36 final size:33
Alignment explanation
Indices: 8866107--8866177 Score: 81
Period size: 36 Copynumber: 2.1 Consensus size: 33
8866097 TGTATTGGTA
* *
8866107 TTGAATTGTATATTGATTAGAAAGTGGAAAGTGAAT
1 TTGAATTGCATATTGATT-G-AA-TCGAAAGTGAAT
8866143 TTGAATTGCAT-TGTGATTGAATCGAAAGTGAAT
1 TTGAATTGCATAT-TGATTGAATCGAAAGTGAAT
8866176 TT
1 TT
8866178 AAAATAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 13 0.41
34 2 0.06
35 2 0.06
36 15 0.47
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (33 bp):
TTGAATTGCATATTGATTGAATCGAAAGTGAAT
Found at i:8880657 original size:12 final size:12
Alignment explanation
Indices: 8880640--8880664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8880630 ACTCAAACTC
8880640 CTCCCTCCATTG
1 CTCCCTCCATTG
8880652 CTCCCTCCATTG
1 CTCCCTCCATTG
8880664 C
1 C
8880665 CTCATCTAAC
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:0.08, C:0.52, G:0.08, T:0.32
Consensus pattern (12 bp):
CTCCCTCCATTG
Found at i:8881101 original size:7 final size:7
Alignment explanation
Indices: 8881089--8881122 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
8881079 TAGAAGGGTA
8881089 TTTTCAG
1 TTTTCAG
8881096 TTTTCAG
1 TTTTCAG
8881103 TTTTCAG
1 TTTTCAG
8881110 TTTTCAG
1 TTTTCAG
8881117 TTTTCA
1 TTTTCA
8881123 CTTCAAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (7 bp):
TTTTCAG
Found at i:8882625 original size:2 final size:2
Alignment explanation
Indices: 8882618--8882648 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8882608 GGATTTTCTT
8882618 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8882649 CCCCACTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8896428 original size:141 final size:142
Alignment explanation
Indices: 8896174--8896456 Score: 559
Period size: 141 Copynumber: 2.0 Consensus size: 142
8896164 TAATTTGTGA
8896174 TTTTCTTTTGGTTTTTTAAAAGATAAATCGGTTTTATTTATTTTATTCATCATTTATATGTATTT
1 TTTTCTTTTGGTTTTTTAAAAGATAAATCGGTTTTATTTATTTTATTCATCATTTATATGTATTT
8896239 TAAAGATGAAAATTTTAAACTCTAGAAATAAAACATATTTAATGAAAAAAATTATTTATTTTATT
66 TAAAGATGAAAATTTTAAACTCTAGAAATAAAACATATTTAATGAAAAAAATTATTTATTTTATT
8896304 A-ATATGGATAT
131 ATATATGGATAT
8896315 TTTTCTTTTGGTTTTTTAAAAGATAAATCGGTTTTATTTATTTTATTCATCATTTATATGTATTT
1 TTTTCTTTTGGTTTTTTAAAAGATAAATCGGTTTTATTTATTTTATTCATCATTTATATGTATTT
8896380 TAAAGATGAAAATTTTAAACTCTAGAAATAAAACATATTTAATGAAAAAAATTATTTATTTTATT
66 TAAAGATGAAAATTTTAAACTCTAGAAATAAAACATATTTAATGAAAAAAATTATTTATTTTATT
8896445 ATATATGGATAT
131 ATATATGGATAT
8896457 AATTAATAAT
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 131 0.93
142 10 0.07
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.48
Consensus pattern (142 bp):
TTTTCTTTTGGTTTTTTAAAAGATAAATCGGTTTTATTTATTTTATTCATCATTTATATGTATTT
TAAAGATGAAAATTTTAAACTCTAGAAATAAAACATATTTAATGAAAAAAATTATTTATTTTATT
ATATATGGATAT
Found at i:8897099 original size:26 final size:24
Alignment explanation
Indices: 8897033--8897099 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
8897023 TCTTAAAAAT
* *
8897033 ATTT-AATATTTTTAAATATTAAC
1 ATTTAAATATTTTTAATTATTAAA
* *
8897056 ATTTTAATGTTTTATAATTAATTAAA
1 ATTTAAATATTTT-TAATT-ATTAAA
8897082 ATTTAAAATATTTTTAAT
1 ATTT-AAATATTTTTAAT
8897100 ATCCAAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 4 0.11
24 7 0.20
25 4 0.11
26 13 0.37
27 7 0.20
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (24 bp):
ATTTAAATATTTTTAATTATTAAA
Found at i:8900117 original size:20 final size:20
Alignment explanation
Indices: 8900081--8900118 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8900071 ATATGATATT
**
8900081 AAGGAACAAAAGTAAAAAGA
1 AAGGAACAAAAAAAAAAAGA
8900101 AAGGAACAAAAAAAAAAA
1 AAGGAACAAAAAAAAAAA
8900119 AAAAAGGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (20 bp):
AAGGAACAAAAAAAAAAAGA
Found at i:8900119 original size:22 final size:22
Alignment explanation
Indices: 8900094--8900135 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
8900084 GAACAAAAGT
*
8900094 AAAAAGAAAGG-AACAAAAAAA
1 AAAAAAAAAGGCAACAAAAAAA
*
8900115 AAAAAAAAAGGCAACATAAAA
1 AAAAAAAAAGGCAACAAAAAA
8900136 TTTTTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.79, C:0.07, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAGGCAACAAAAAAA
Found at i:8913132 original size:4 final size:4
Alignment explanation
Indices: 8913108--8913162 Score: 83
Period size: 4 Copynumber: 13.8 Consensus size: 4
8913098 AATATATGTA
* *
8913108 TATG TATA TATG TATG AATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
8913156 TACG TAT
1 TATG TAT
8913163 TCGTCCCTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:8913276 original size:4 final size:4
Alignment explanation
Indices: 8913252--8913306 Score: 83
Period size: 4 Copynumber: 13.8 Consensus size: 4
8913242 AATATATGTA
* *
8913252 TATG TATA TATG TATG AATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
8913300 TACG TAT
1 TATG TAT
8913307 TCGTCCCTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:8913312 original size:144 final size:144
Alignment explanation
Indices: 8913052--8913329 Score: 556
Period size: 144 Copynumber: 1.9 Consensus size: 144
8913042 ATTTGAATTC
8913052 CTCAAAACACCTCAGGACTTGCACTAGGAATCGATCCACCAAATATAATATATGTATATGTATAT
1 CTCAAAACACCTCAGGACTTGCACTAGGAATCGATCCACCAAATATAATATATGTATATGTATAT
8913117 ATGTATGAATGTATGTATGTATGTATGTATGTATGTATGTACGTATTCGTCCCTACTGGCAAAGG
66 ATGTATGAATGTATGTATGTATGTATGTATGTATGTATGTACGTATTCGTCCCTACTGGCAAAGG
8913182 CAAACATATTCCCA
131 CAAACATATTCCCA
8913196 CTCAAAACACCTCAGGACTTGCACTAGGAATCGATCCACCAAATATAATATATGTATATGTATAT
1 CTCAAAACACCTCAGGACTTGCACTAGGAATCGATCCACCAAATATAATATATGTATATGTATAT
8913261 ATGTATGAATGTATGTATGTATGTATGTATGTATGTATGTACGTATTCGTCCCTACTGGCAAAGG
66 ATGTATGAATGTATGTATGTATGTATGTATGTATGTATGTACGTATTCGTCCCTACTGGCAAAGG
8913326 CAAA
131 CAAA
8913330 GAATCATATT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 134 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (144 bp):
CTCAAAACACCTCAGGACTTGCACTAGGAATCGATCCACCAAATATAATATATGTATATGTATAT
ATGTATGAATGTATGTATGTATGTATGTATGTATGTATGTACGTATTCGTCCCTACTGGCAAAGG
CAAACATATTCCCA
Found at i:8915002 original size:118 final size:118
Alignment explanation
Indices: 8914808--8915044 Score: 422
Period size: 118 Copynumber: 2.0 Consensus size: 118
8914798 TTAAGAGATT
* ***
8914808 ACTTGCAAGTCAAGTTAAATAAAAATATATTTTCTTTCTTTTAGTATTTGTATTTATTAGTATAA
1 ACTTGCAAGTCAAGTTAAACAAAAATATATTTTCTTTCTAGAAGTATTTGTATTTATTAGTATAA
8914873 TATATTTAGCATTTATTAGTATAGTTTATTTGACTTATTAATTTAGCCTATAA
66 TATATTTAGCATTTATTAGTATAGTTTATTTGACTTATTAATTTAGCCTATAA
8914926 ACTTGCAAGTCAAGTTAAACAAAAATATATTTTCTTTCTAGAAG-ATTTAGTATTTATTAGTATA
1 ACTTGCAAGTCAAGTTAAACAAAAATATATTTTCTTTCTAGAAGTATTT-GTATTTATTAGTATA
8914990 ATATATTTAGCATTTATTAGTATAGTTTATTTGACTTATTAATTTAGCCTATAA
65 ATATATTTAGCATTTATTAGTATAGTTTATTTGACTTATTAATTTAGCCTATAA
8915044 A
1 A
8915045 TAGGCTCTTT
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
117 4 0.04
118 110 0.96
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (118 bp):
ACTTGCAAGTCAAGTTAAACAAAAATATATTTTCTTTCTAGAAGTATTTGTATTTATTAGTATAA
TATATTTAGCATTTATTAGTATAGTTTATTTGACTTATTAATTTAGCCTATAA
Found at i:8918313 original size:14 final size:15
Alignment explanation
Indices: 8918237--8918313 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
8918227 GATTGCCAGT
*
8918237 AAAAT-ATTTTCTGT
1 AAAATGATTTTCTGG
*
8918251 AAAATGA-TTTCGGG
1 AAAATGATTTTCTGG
*
8918265 AAAATGTTATACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
8918285 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
8918300 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
8918314 TGTTTGATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
14 24 0.49
15 12 0.24
16 1 0.02
18 1 0.02
20 11 0.22
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:8920902 original size:61 final size:60
Alignment explanation
Indices: 8920805--8920923 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 60
8920795 GAAAGGCACC
8920805 TTTGGTGCCGCCTTTCCATTACCCTCCTTCAACCTTTTTTTTTGTATTATTTTGGTAAATA
1 TTTGGTGCCGCCTTTCCATTACCCTCCTTCAACC-TTTTTTTTGTATTATTTTGGTAAATA
*
8920866 TTTGGTGCCGCCTTTCCATTACCCTCCTTCAGCCTTTTTTTTGTATTATTTTGGTAAA
1 TTTGGTGCCGCCTTTCCATTACCCTCCTTCAACCTTTTTTTTGTATTATTTTGGTAAA
8920924 AAAAAAAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 24 0.42
61 33 0.58
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.49
Consensus pattern (60 bp):
TTTGGTGCCGCCTTTCCATTACCCTCCTTCAACCTTTTTTTTGTATTATTTTGGTAAATA
Found at i:8921016 original size:42 final size:44
Alignment explanation
Indices: 8920948--8921034 Score: 160
Period size: 42 Copynumber: 2.0 Consensus size: 44
8920938 ATATTATTTT
8920948 GGTATTTTTTTTATTTCTTTTAGTATTATTTTAGTAAAAATCCC
1 GGTATTTTTTTTATTTCTTTTAGTATTATTTTAGTAAAAATCCC
8920992 GGTA-TTTTTTTATTTCTTTT-GTATTATTTTAGTAAAAATCCC
1 GGTATTTTTTTTATTTCTTTTAGTATTATTTTAGTAAAAATCCC
8921034 G
1 G
8921035 AAAAGGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 23 0.53
43 16 0.37
44 4 0.09
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.56
Consensus pattern (44 bp):
GGTATTTTTTTTATTTCTTTTAGTATTATTTTAGTAAAAATCCC
Found at i:8924317 original size:43 final size:43
Alignment explanation
Indices: 8924256--8924343 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
8924246 AACATTCAAA
*
8924256 CCCTTAATATTGCTTGATCGATGCTGTAATAAAGTGGTTGATT
1 CCCTTAATATTGCTTGATCAATGCTGTAATAAAGTGGTTGATT
8924299 CCCTTAATATTGCTTGATCAATGCTGTAATAAAGTGGTTGATT
1 CCCTTAATATTGCTTGATCAATGCTGTAATAAAGTGGTTGATT
8924342 CC
1 CC
8924344 TTTGTAATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (43 bp):
CCCTTAATATTGCTTGATCAATGCTGTAATAAAGTGGTTGATT
Found at i:8924913 original size:17 final size:18
Alignment explanation
Indices: 8924866--8924913 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
8924856 AATTCAAGAG
*
8924866 AAAATTCTAATAATGTAAT
1 AAAATTCTAAAAATG-AAT
8924885 AAAATATC-AAAAATG-AT
1 AAAAT-TCTAAAAATGAAT
8924902 AAAATTCTAAAA
1 AAAATTCTAAAA
8924914 TACAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
19 11 0.42
20 2 0.08
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAATTCTAAAAATGAAT
Found at i:8930319 original size:15 final size:16
Alignment explanation
Indices: 8930289--8930319 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8930279 GAAGTATTTG
8930289 GGATTTCATGTTAGGT
1 GGATTTCATGTTAGGT
8930305 GGATTTCAT-TTAGGT
1 GGATTTCATGTTAGGT
8930320 TAAAATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (16 bp):
GGATTTCATGTTAGGT
Found at i:8930558 original size:19 final size:20
Alignment explanation
Indices: 8930527--8930567 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
8930517 CTAAAAAATA
8930527 TTGTTCTAATGAACTTGAAT
1 TTGTTCTAATGAACTTGAAT
8930547 TTGTTC-AATGAACTTGAAT
1 TTGTTCTAATGAACTTGAAT
8930566 TT
1 TT
8930568 AAGAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
TTGTTCTAATGAACTTGAAT
Found at i:8930800 original size:126 final size:126
Alignment explanation
Indices: 8930640--8930880 Score: 358
Period size: 126 Copynumber: 1.9 Consensus size: 126
8930630 AACTAAATTC
* *
8930640 TTAGGAATAAAAGCACATGAATTAAATTCTAAATTTACGAAAAG-TACATAAACTTACTACATAT
1 TTAGGAATAAAAGCACATAAACTAAATTCTAAATTTACG-AAAGCTACATAAACTTACTACATAT
*
8930704 TTTAACCTTTCATTTATATCTGTACATGATTGTCCATAATATATAATCTATTTAAAAATATT
65 TTTAACCTTTCATTTATATCTGTACATGATTGTCCATAATATATAACCTATTTAAAAATATT
* * * *
8930766 TTAGGAATAAAAGTATATAAACTAAATTCTAAATTTATGAAAGCTACATAAATTTACTACATATT
1 TTAGGAATAAAAGCACATAAACTAAATTCTAAATTTACGAAAGCTACATAAACTTACTACATATT
* * * * *
8930831 TTAACCTTTTATTTATATTTGTTCATGCTTGTCCATAATCTATAACCTAT
66 TTAACCTTTCATTTATATCTGTACATGATTGTCCATAATATATAACCTAT
8930881 ATCGTTATTC
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 4 0.04
126 98 0.96
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (126 bp):
TTAGGAATAAAAGCACATAAACTAAATTCTAAATTTACGAAAGCTACATAAACTTACTACATATT
TTAACCTTTCATTTATATCTGTACATGATTGTCCATAATATATAACCTATTTAAAAATATT
Found at i:8933673 original size:12 final size:12
Alignment explanation
Indices: 8933656--8933681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8933646 TTAAAATTTA
8933656 AACATTTTAATT
1 AACATTTTAATT
8933668 AACATTTTAATT
1 AACATTTTAATT
8933680 AA
1 AA
8933682 AAATAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
AACATTTTAATT
Found at i:8937370 original size:21 final size:22
Alignment explanation
Indices: 8937332--8937373 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
8937322 AACAAGTACC
8937332 AAAGGAAAGGAAAAAAAAGCAT
1 AAAGGAAAGGAAAAAAAAGCAT
*
8937354 AAAGGAAA-GAAACAAAAGCA
1 AAAGGAAAGGAAAAAAAAGCA
8937374 ACATGCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAGGAAAGGAAAAAAAAGCAT
Found at i:8947776 original size:27 final size:29
Alignment explanation
Indices: 8947746--8947799 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
8947736 TTTTACTTGA
*
8947746 TTTTAATATAA-ATATTT-TTTAATATAT
1 TTTTAAGATAATATATTTCTTTAATATAT
* *
8947773 TTTTCAGATAATTTATTTCTTTAATAT
1 TTTTAAGATAATATATTTCTTTAATAT
8947800 TGTGAGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.41
28 5 0.23
29 8 0.36
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTAAGATAATATATTTCTTTAATATAT
Found at i:8947885 original size:16 final size:16
Alignment explanation
Indices: 8947860--8947912 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
8947850 TTGGTTCACC
*
8947860 GTAATGGAATAGAGCT
1 GTAATTGAATAGAGCT
*
8947876 GTAATTGAATAGAGTT
1 GTAATTGAATAGAGCT
*
8947892 GTAA-TGTAATAAAGCT
1 GTAATTG-AATAGAGCT
8947908 GTAAT
1 GTAAT
8947913 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 2 0.06
16 29 0.94
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (16 bp):
GTAATTGAATAGAGCT
Done.