Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 39 of 74
Found at i:8200126 original size:63 final size:65
Alignment explanation
Indices: 8200059--8200192 Score: 141
Period size: 63 Copynumber: 2.1 Consensus size: 65
8200049 ACATTTTGAC
* * * *
8200059 AAATTGTGGATTTCACTAT-AAAAACTTTGAAAATAATTTAGATATAACCACCAAAGCCTT-A-A
1 AAATTGCGGATATCACCATCAAAAA-TTTGAAAATAATTTAGATATAACCACCAAAGACTTGAGA
8200121 A
65 A
* * * * *
8200122 AAATT-CGGATATCACCATCGAAGAATTTTAAAATAATTTGGATGTCACCACCAAAGACTTGAGA
1 AAATTGCGGATATCACCATC-AAAAATTTGAAAATAATTTAGATATAACCACCAAAGACTTGAGA
8200186 A
65 A
8200187 AAATTG
1 AAATTG
8200193 GATATTGCCA
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
62 10 0.18
63 35 0.61
64 5 0.09
65 7 0.12
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (65 bp):
AAATTGCGGATATCACCATCAAAAATTTGAAAATAATTTAGATATAACCACCAAAGACTTGAGAA
Found at i:8200195 original size:31 final size:33
Alignment explanation
Indices: 8200122--8200307 Score: 96
Period size: 33 Copynumber: 5.7 Consensus size: 33
8200112 AAGCCTTAAA
* * * * * *
8200122 AAATTCGGATATCACCATCGAAGAATTTTAAAAT
1 AAATT-GGATGTCACCACCAAAGACTTTGAAAAC
* *
8200156 AATTTGGATGTCACCACCAAAGAC-TTGAGAA-
1 AAATTGGATGTCACCACCAAAGACTTTGAAAAC
* ** *
8200187 AAATTGGATATTGCCACTGAAA-ACTTTGAAAAC
1 AAATTGGATGTCACCAC-CAAAGACTTTGAAAAC
* * *
8200220 AAATTGGATGTCACCACTAAAG--TTTTAAGA-
1 AAATTGGATGTCACCACCAAAGACTTTGAAAAC
* * * ***
8200250 AAATTCAGATATCTCCATTGAAGACTTTGAAAAC
1 AAATT-GGATGTCACCACCAAAGACTTTGAAAAC
* *
8200284 AACTAGGATGTCACCACCAAAGAC
1 AAATTGGATGTCACCACCAAAGAC
8200308 CTAAAAATTT
Statistics
Matches: 110, Mismatches: 34, Indels: 17
0.68 0.21 0.11
Matches are distributed among these distances:
30 5 0.05
31 33 0.30
32 17 0.15
33 48 0.44
34 7 0.06
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (33 bp):
AAATTGGATGTCACCACCAAAGACTTTGAAAAC
Found at i:8200227 original size:64 final size:63
Alignment explanation
Indices: 8200079--8200336 Score: 236
Period size: 64 Copynumber: 4.1 Consensus size: 63
8200069 TTTCACTATA
* * * * * **
8200079 AAAACTTTGAAAATAATTTAGATATAACCACCAAAGCCTTAAAAAATTCGGATATCACCA-TCG
1 AAAACTTTGAAAACAATTTGGATGTCACCACCAAAGACTTAAAAAATTCGGATATTGCCACT-G
* *
8200142 AAGAA-TTTTAAAATAATTTGGATGTCACCACCAAAGACTTGAGAAAAATT-GGATATTGCCACT
1 AA-AACTTTGAAAACAATTTGGATGTCACCACCAAAGACTT-A-AAAAATTCGGATATTGCCACT
8200205 G
63 G
* * ** * *
8200206 AAAACTTTGAAAACAAATTGGATGTCACCACTAAAGTTTTAAGAAAATTCAGATATCT-CCATTG
1 AAAACTTTGAAAACAATTTGGATGTCACCACCAAAGACTTAA-AAAATTCGGATAT-TGCCACTG
* * * * * * *
8200270 AAGACTTTGAAAACAACTAGGATGTCACCACCAAAGACCTAAAAATTTTGGATATTGCCTCTG
1 AAAACTTTGAAAACAATTTGGATGTCACCACCAAAGACTTAAAAAATTCGGATATTGCCACTG
8200333 AAAA
1 AAAA
8200337 TTCAAAATAA
Statistics
Matches: 158, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
62 2 0.01
63 58 0.37
64 89 0.56
65 9 0.06
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (63 bp):
AAAACTTTGAAAACAATTTGGATGTCACCACCAAAGACTTAAAAAATTCGGATATTGCCACTG
Found at i:8200253 original size:128 final size:126
Alignment explanation
Indices: 8200079--8200336 Score: 311
Period size: 127 Copynumber: 2.0 Consensus size: 126
8200069 TTTCACTATA
* * *
8200079 AAAACTTTGAAAATAATTTAGATATAACCACCAAAGCCTTAAAAAATTCGGATATCACCATCGAA
1 AAAACTTTGAAAACAAATTAGATATAACCACCAAAGCCTTAAAAAATTCAGATATCACCATCGAA
* * * * *
8200144 GAATTTTAAAATAATTTGGATGTCACCACCAAAGACTTGAGAAAA-ATTGGATATTGCCACTG
66 GAATTTGAAAACAACTAGGATGTCACCACCAAAGACCT-A-AAAATATTGGATATTGCCACTG
* * * * ** * *
8200206 AAAACTTTGAAAACAAATTGGATGTCACCACTAAAGTTTTAAGAAAATTCAGATATCTCCATTGA
1 AAAACTTTGAAAACAAATTAGATATAACCACCAAAGCCTTAA-AAAATTCAGATATCACCATCGA
* * *
8200271 AGACTTTGAAAACAACTAGGATGTCACCACCAAAGACCTAAAAATTTTGGATATTGCCTCTG
65 AGAATTTGAAAACAACTAGGATGTCACCACCAAAGACCTAAAAATATTGGATATTGCCACTG
8200333 AAAA
1 AAAA
8200337 TTCAAAATAA
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
126 4 0.04
127 54 0.49
128 52 0.47
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (126 bp):
AAAACTTTGAAAACAAATTAGATATAACCACCAAAGCCTTAAAAAATTCAGATATCACCATCGAA
GAATTTGAAAACAACTAGGATGTCACCACCAAAGACCTAAAAATATTGGATATTGCCACTG
Found at i:8202178 original size:13 final size:13
Alignment explanation
Indices: 8202148--8202199 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
8202138 AGAGTACCAA
*
8202148 AAATTATATTCCTT
1 AAATTATATT-TTT
8202162 AAATTATATTTTT
1 AAATTATATTTTT
8202175 AAATT-TATTTTT
1 AAATTATATTTTT
8202187 GAAATTA-ATTTTT
1 -AAATTATATTTTT
8202200 GAAAAAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
12 7 0.20
13 18 0.51
14 10 0.29
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (13 bp):
AAATTATATTTTT
Found at i:8202857 original size:24 final size:24
Alignment explanation
Indices: 8202829--8202875 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
8202819 TATTTCTTTA
8202829 TTTATTAAAATATTATTATTATTG
1 TTTATTAAAATATTATTATTATTG
* *
8202853 TTTATTAATATATTTTTATTATT
1 TTTATTAAAATATTATTATTATT
8202876 TAATAATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTATTAAAATATTATTATTATTG
Found at i:8202882 original size:21 final size:21
Alignment explanation
Indices: 8202825--8202882 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
8202815 TACATATTTC
8202825 TTTATTTATTAA-AATATTATT
1 TTTATTT-TTAATAATATTATT
* *
8202846 ATTATTGTTTATTAATA-TATT
1 TTTATT-TTTAATAATATTATT
8202867 TTTATTATTTAATAAT
1 TTTATT-TTTAATAAT
8202883 TCTCCAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATTTTTAATAATATTATT
Found at i:8202994 original size:16 final size:15
Alignment explanation
Indices: 8202970--8203003 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8202960 TTTAAAATAA
*
8202970 TTATTTTATTATTATT
1 TTATATTATTA-TATT
8202986 TTATATTATTATATT
1 TTATATTATTATATT
8203001 TTA
1 TTA
8203004 AGAGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATATTATTATATT
Found at i:8203334 original size:3 final size:3
Alignment explanation
Indices: 8203326--8203354 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8203316 AAGACAACTT
8203326 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8203355 TTCTAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8206521 original size:144 final size:143
Alignment explanation
Indices: 8206089--8206615 Score: 455
Period size: 144 Copynumber: 3.7 Consensus size: 143
8206079 ATCCTTCAAA
* * * * * * *
8206089 GGTATCTTTGTAATTT-ACCTTTCTCAAAGATG-CTTTTCTGTAAAAACTCTCAGATCAT-ATTT
1 GGTATTTTTGTAATTTGATCTTT-TCAAGGTTGACTTTT-TGCAAAAAGTCTCAAATCATGATTT
* * *
8206151 -AAACACATTTTGATGATTTTTGATGCATTAAAAATCTTAATTGTACCTCAAAAAGTGAGAAA-T
64 GATA-ATATTTT-ATGATTTTTGATGCATTAAAAATCTTAATTGTACCT-TAAAAGTGAGAAATT
8206214 AGCTAAAATACCTTTTAGG
126 A-CTAAAATACCTTTTAGG
* * * *
8206233 AGTACTTTTGTAATTTGATCTTTCCAAAGTTGACTTTTTGCAAAAAGTCTCAAATCATGATTTGA
1 GGTATTTTTGTAATTTGATCTTTTCAAGGTTGACTTTTTGCAAAAAGTCTCAAATCATGATTTGA
* * * *
8206298 TAATATTTTATGATTTTTGATGCATTAAAAATCTTGATTGCACCTTAAAATGTGTGAAAGTACTA
66 TAATATTTTATGATTTTTGATGCATTAAAAATCTTAATTGTACCTTAAAA-GTGAGAAATTACTA
8206363 AAATACCTTTTAGG
130 AAATACCTTTTAGG
* * * * *
8206377 GGTATTTTTATAATTTGACCTTTTCAAGGTTG-GTTTTT-CTTAAAA-TGCTTCATATCAT-ATT
1 GGTATTTTTGTAATTTGATCTTTTCAAGGTTGACTTTTTGC-AAAAAGT-C-TCAAATCATGA-T
* * * * * * *
8206438 TTGATATTATTTTATGATTTTTAATGCATTAAAAACCCTAATTGTACATTGAGAAGTAAGAAATT
62 TTGATAATATTTTATGATTTTTGATGCATTAAAAATCTTAATTGTACCTT-AAAAGTGAGAAATT
*
8206503 TCTAAAATACCTTTTAGG
126 ACTAAAATACCTTTTAGG
* * * ** * * * * *
8206521 GATGTTTTCGTAATTTGATCTTTTCAAGGTT-AGCTTTTCACAAAAACTTTTAGATCATGATTTC
1 GGTATTTTTGTAATTTGATCTTTTCAAGGTTGA-CTTTTTGCAAAAAGTCTCAAATCATGATTTG
* * *
8206585 ATATTATGTTAAT-ATTTTTGGTGCATTAAAA
65 ATAATAT-TTTATGATTTTTGATGCATTAAAA
8206616 TCACAAAACA
Statistics
Matches: 315, Mismatches: 51, Indels: 34
0.79 0.13 0.09
Matches are distributed among these distances:
142 2 0.01
143 15 0.05
144 256 0.81
145 38 0.12
146 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (143 bp):
GGTATTTTTGTAATTTGATCTTTTCAAGGTTGACTTTTTGCAAAAAGTCTCAAATCATGATTTGA
TAATATTTTATGATTTTTGATGCATTAAAAATCTTAATTGTACCTTAAAAGTGAGAAATTACTAA
AATACCTTTTAGG
Found at i:8213278 original size:26 final size:26
Alignment explanation
Indices: 8213217--8213279 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
8213207 ATAGAACTCA
* * *
8213217 TGCACGAAAGATAATGTGTCATCGTG
1 TGCATGAAAGACAATGTGTCATCATG
*
8213243 TGCATAAAAGACAATGTGTCATCATG
1 TGCATGAAAGACAATGTGTCATCATG
**
8213269 TGTGTGAAAGA
1 TGCATGAAAGA
8213280 AAACAACATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (26 bp):
TGCATGAAAGACAATGTGTCATCATG
Found at i:8213485 original size:20 final size:20
Alignment explanation
Indices: 8213443--8213486 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8213433 CAAATTAAGG
*
8213443 AAATCAAAATTAAGATCATT
1 AAATCAAAATTAAGATCAAT
8213463 AAATCAAAATTAAGAAT-AAT
1 AAATCAAAATTAAG-ATCAAT
8213483 AAAT
1 AAAT
8213487 AATTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATCAAAATTAAGATCAAT
Found at i:8216169 original size:20 final size:20
Alignment explanation
Indices: 8216122--8216171 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8216112 AAACATAAAT
*
8216122 AATTTAAAAATAATTAAGTA
1 AATTTAAAAATAATTAAGCA
**
8216142 AAAATAAAAATAAATTAA-CA
1 AATTTAAAAAT-AATTAAGCA
8216162 AATTTAAAAA
1 AATTTAAAAA
8216172 GTTAACAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
AATTTAAAAATAATTAAGCA
Found at i:8219044 original size:15 final size:16
Alignment explanation
Indices: 8219014--8219050 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
8219004 TTAAAATTAA
*
8219014 TTTCATTATCTTTTTT
1 TTTCATAATCTTTTTT
8219030 TTTCATAAT-TTTTTT
1 TTTCATAATCTTTTTT
8219045 TTTCAT
1 TTTCAT
8219051 TTTTCTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCATAATCTTTTTT
Found at i:8223774 original size:14 final size:14
Alignment explanation
Indices: 8223752--8223835 Score: 60
Period size: 14 Copynumber: 5.7 Consensus size: 14
8223742 GTTTAGGGAA
*
8223752 TTTAAGGTTTTGGT
1 TTTAGGGTTTTGGT
* *
8223766 TTTAGGGTTTAAAGGA
1 TTTAGGGTTT--TGGT
* *
8223782 TTTAAGGTTTTGAT
1 TTTAGGGTTTTGGT
8223796 TTTAGGGTTTTGATGT
1 TTTAGGGTTTTG--GT
* * *
8223812 TTTATGGATTTGAT
1 TTTAGGGTTTTGGT
8223826 TTTAGGGTTT
1 TTTAGGGTTT
8223836 AGAGGATTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
14 30 0.58
16 22 0.42
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (14 bp):
TTTAGGGTTTTGGT
Found at i:8223775 original size:30 final size:30
Alignment explanation
Indices: 8223700--8224036 Score: 183
Period size: 30 Copynumber: 11.6 Consensus size: 30
8223690 GTTTTCAAAA
8223700 TTTTGGATTTTAGGG-TTAG-GG-TTTCAA-G
1 TTTT-GATTTTAGGGTTTAGAGGATTT-AAGG
* *
8223728 TTTCAGATTTTGGGGTTTAG-GGAATTTAAGG
1 TTT-TGATTTTAGGGTTTAGAGG-ATTTAAGG
* *
8223759 TTTTGGTTTTAGGGTTTAAAGGATTTAAGG
1 TTTTGATTTTAGGGTTTAGAGGATTTAAGG
* * * *
8223789 TTTTGATTTTAGGGTTTTGATGTTTTATGG
1 TTTTGATTTTAGGGTTTAGAGGATTTAAGG
* *
8223819 ATTTGATTTTAGGGTTTAGAGGATTTAAGA
1 TTTTGATTTTAGGGTTTAGAGGATTTAAGG
* * * *
8223849 TTTTGTTTTTAGGGTTTAAAGGGTTT-GGG
1 TTTTGATTTTAGGGTTTAGAGGATTTAAGG
* * * * *
8223878 ATTTAATTTTAGGGTTT-GGGGAGTT-GGG
1 TTTTGATTTTAGGGTTTAGAGGATTTAAGG
* * *
8223906 ATTTAATTTTAGGGTTTAGAGGGTTT-AGAG
1 TTTTGATTTTAGGGTTTAGAGGATTTAAG-G
* * *
8223936 TTTTG--TTTAAGGTTTGGAGG-TTT-GGG
1 TTTTGATTTTAGGGTTTAGAGGATTTAAGG
* *
8223962 ATTT-AGTTTTAGGGTTT-GAAGG-TTT-GGAG
1 TTTTGA-TTTTAGGGTTTAG-AGGATTTAAG-G
*
8223991 TTTTGATTTTAAGGTTT-GTA-GATTTTAAGG
1 TTTTGATTTTAGGGTTTAG-AGGA-TTTAAGG
*
8224021 -TTTGATTTTAGTGTTT
1 TTTTGATTTTAGGGTTT
8224037 TAATTTTTAG
Statistics
Matches: 244, Mismatches: 48, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
26 4 0.02
27 5 0.02
28 67 0.27
29 57 0.23
30 101 0.41
31 10 0.04
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.49
Consensus pattern (30 bp):
TTTTGATTTTAGGGTTTAGAGGATTTAAGG
Found at i:8223930 original size:57 final size:56
Alignment explanation
Indices: 8223855--8224008 Score: 163
Period size: 56 Copynumber: 2.7 Consensus size: 56
8223845 AAGATTTTGT
* *
8223855 TTTTAGGGTTTAAAGGGTTTGGGATTTAATTTTAGGGTTTGG-GGAGTTGGGATTTAA
1 TTTTAGGGTTTAGAGGGTTTGGGATTT-ATTTTAAGGTTTGGAGG-GTTGGGATTTAA
* * *
8223912 TTTTAGGGTTTAGAGGGTTT-AGAGTTT-TGTTTAAGGTTTGGAGGTTTGGGATTTAG
1 TTTTAGGGTTTAGAGGGTTTGGGA-TTTAT-TTTAAGGTTTGGAGGGTTGGGATTTAA
* *
8223968 TTTTAGGGTTT-GAAGGTTTGGAGTTTTGATTTTAAGGTTTG
1 TTTTAGGGTTTAGAGGGTTTGG-GATTT-ATTTTAAGGTTTG
8224009 TAGATTTTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
55 8 0.10
56 37 0.45
57 36 0.44
58 1 0.01
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (56 bp):
TTTTAGGGTTTAGAGGGTTTGGGATTTATTTTAAGGTTTGGAGGGTTGGGATTTAA
Found at i:8223972 original size:56 final size:56
Alignment explanation
Indices: 8223901--8224008 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
8223891 GTTTGGGGAG
*
8223901 TTGGGATTTAATTTTAGGGTTTAGAGGGTTTAGAGTTTTG-TTTAAGGTTTGGAGGT
1 TTGGGATTTAATTTTAGGGTTT-GAAGGTTTAGAGTTTTGATTTAAGGTTTGGAGGT
* *
8223957 TTGGGATTTAGTTTTAGGGTTTGAAGGTTTGGAGTTTTGATTTTAAGGTTTG
1 TTGGGATTTAATTTTAGGGTTTGAAGGTTTAGAGTTTTGA-TTTAAGGTTTG
8224009 TAGATTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
55 15 0.32
56 21 0.45
57 11 0.23
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (56 bp):
TTGGGATTTAATTTTAGGGTTTGAAGGTTTAGAGTTTTGATTTAAGGTTTGGAGGT
Found at i:8224027 original size:13 final size:14
Alignment explanation
Indices: 8223990--8224043 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
8223980 AAGGTTTGGA
8223990 GTTTTGATTTTAAG
1 GTTTTGATTTTAAG
8224004 GTTTGTAGATTTTAAG
1 GTTT-T-GATTTTAAG
8224020 G-TTTGATTTT-AG
1 GTTTTGATTTTAAG
*
8224032 TGTTTTAATTTT
1 -GTTTTGATTTT
8224044 TAGAAATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 2 0.06
13 7 0.20
14 13 0.37
15 3 0.09
16 10 0.29
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.59
Consensus pattern (14 bp):
GTTTTGATTTTAAG
Found at i:8224083 original size:15 final size:15
Alignment explanation
Indices: 8223988--8224134 Score: 60
Period size: 15 Copynumber: 10.0 Consensus size: 15
8223978 TGAAGGTTTG
8223988 GAGTTTTG-ATTTTA
1 GAGTTTTGAATTTTA
*
8224002 -AGGTTTGTAGATTTTA
1 GAGTTTTG-A-ATTTTA
*
8224018 -AGGTTTG-ATTTTA
1 GAGTTTTGAATTTTA
*
8224031 GTGTTTT-AATTTTTA
1 GAGTTTTGAA-TTTTA
** *
8224046 GAAATTTGAAATTTA
1 GAGTTTTGAATTTTA
*
8224061 -AGGGTTTGAATTTTA
1 GA-GTTTTGAATTTTA
* *
8224076 GAGTTTTGGATTCTA
1 GAGTTTTGAATTTTA
* * *
8224091 GGGATTTAGAAATTTA
1 GAG-TTTTGAATTTTA
8224107 G-GTTTTG-ATTTTA
1 GAGTTTTGAATTTTA
*
8224120 -ATTTTTTGAATTTTA
1 GA-GTTTTGAATTTTA
8224135 AAACGCGAAC
Statistics
Matches: 99, Mismatches: 21, Indels: 25
0.68 0.14 0.17
Matches are distributed among these distances:
13 17 0.17
14 15 0.15
15 42 0.42
16 25 0.25
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (15 bp):
GAGTTTTGAATTTTA
Found at i:8224406 original size:21 final size:21
Alignment explanation
Indices: 8224376--8224416 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8224366 AAAAATATTC
*
8224376 AATTAGTATTGTTATTTTTTA
1 AATTAGTATTATTATTTTTTA
*
8224397 AATTATTATTATTATTTTTT
1 AATTAGTATTATTATTTTTT
8224417 GGCATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (21 bp):
AATTAGTATTATTATTTTTTA
Found at i:8225748 original size:36 final size:36
Alignment explanation
Indices: 8225665--8225756 Score: 112
Period size: 36 Copynumber: 2.6 Consensus size: 36
8225655 TTGACTAGAT
* * *
8225665 AACATCACGAGTCGAAATTAAAGAATCGATCGGGAT
1 AACATCACGAATCGAAATTAAAGAATCGATCAGGAC
** * *
8225701 AACATTGCGAATCAAAATTAAAGAATCGATTAGGAC
1 AACATCACGAATCGAAATTAAAGAATCGATCAGGAC
*
8225737 AACACCACGAATCGAAATTA
1 AACATCACGAATCGAAATTA
8225757 TGCTCGGAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (36 bp):
AACATCACGAATCGAAATTAAAGAATCGATCAGGAC
Found at i:8225971 original size:109 final size:109
Alignment explanation
Indices: 8225764--8226078 Score: 309
Period size: 109 Copynumber: 2.9 Consensus size: 109
8225754 TTATGCTCGG
* * * * * * * *
8225764 AAGTCTTACAAAATCGACTAGGATAATATCGTAAGTAAAAAAATA-AGGAATCGATCGGGACAAC
1 AAGTCTTATAGAATCGACTGGGATAACACCGTAAGTCAAAAAATATA--AATCGATCAGGATAAC
* * * *
8225828 ACCGTGAATCGAAATTATAT--CCGAAGGTTTTAGAAATCATGTCTG-
64 ACTGTGAATC-AAATT-TATGCCCGGAGGTCTTAGAAATCATGCCTGA
* *
8225873 GAGATCTTATAGAATTGACTGGGATAACACCGTAAGTCAAAAAATATAAATCGATCAGGATAACA
1 AAG-TCTTATAGAATCGACTGGGATAACACCGTAAGTCAAAAAATATAAATCGATCAGGATAACA
8225938 CTGTGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCCTGA
65 CTGTGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCCTGA
* * * * * * * *
8225983 AAGTCTTATAGAATCGATTGGAACAACACCGCAAGCCAAAAAATAATGAATCAAT-TGTGATAAC
1 AAGTCTTATAGAATCGACTGGGATAACACCGTAAGTCAAAAAAT-ATAAATCGATCAG-GATAAC
*
8226047 A-TCGCGAATCAAATTTATGCCCGGAGGTCTTA
64 ACT-GTGAATCAAATTTATGCCCGGAGGTCTTA
8226079 CAGAATCGAC
Statistics
Matches: 173, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
107 3 0.02
108 5 0.03
109 84 0.49
110 80 0.46
111 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (109 bp):
AAGTCTTATAGAATCGACTGGGATAACACCGTAAGTCAAAAAATATAAATCGATCAGGATAACAC
TGTGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCCTGA
Found at i:8226163 original size:88 final size:88
Alignment explanation
Indices: 8225975--8226166 Score: 244
Period size: 88 Copynumber: 2.2 Consensus size: 88
8225965 CTTAGAAATC
* * * *
8225975 ATGCCTGAAAGTCTTATAGAATCGATTGGAACAACACCGCAAGCCAAAAAATAATGAATCAATTG
1 ATGCCTGAAGGTCTTACAGAATCGACTGGAACAACACCGCAAGCCAAAAAATAATGAATCAATAG
* *
8226040 TGATAACATCGCGAATCAAATTT
66 TGATAACACCACGAATCAAATTT
* * * *
8226063 ATGCCCGGAGGTCTTACAGAATCGACT-GAGATAACACCGCAAGTCAAAAAATAATGAATCAATC
1 ATGCCTGAAGGTCTTACAGAATCGACTGGA-ACAACACCGCAAGCCAAAAAATAATGAATCAAT-
*
8226127 AG-GATAACACCACGAATTAAATTT
64 AGTGATAACACCACGAATCAAATTT
*
8226151 ATGCTTGAAGGTCTTA
1 ATGCCTGAAGGTCTTA
8226167 GAAATCATGC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 2 0.02
88 85 0.97
89 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (88 bp):
ATGCCTGAAGGTCTTACAGAATCGACTGGAACAACACCGCAAGCCAAAAAATAATGAATCAATAG
TGATAACACCACGAATCAAATTT
Found at i:8226176 original size:22 final size:23
Alignment explanation
Indices: 8226151--8226217 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
8226141 AATTAAATTT
*
8226151 ATGCTTGAAGGTCTTAGA-AATC
1 ATGCTCGAAGGTCTTAGAGAATC
*
8226173 ATGCTCGAAAGTCTT-GAGAATC
1 ATGCTCGAAGGTCTTAGAGAATC
* *
8226195 ATGCTCGGAGGTCTTACAGAATC
1 ATGCTCGAAGGTCTTAGAGAATC
8226218 GATTGGGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 2 0.05
22 30 0.79
23 6 0.16
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (23 bp):
ATGCTCGAAGGTCTTAGAGAATC
Found at i:8226306 original size:132 final size:132
Alignment explanation
Indices: 8226063--8226452 Score: 457
Period size: 132 Copynumber: 3.0 Consensus size: 132
8226053 AATCAAATTT
* * * * *
8226063 ATGCCCGGAGGTCTTACAGAATCGACTGAGATAACACCGCAAGTCAAAAAATAATGAATCAATCA
1 ATGCTCGGAGGTCTTACAGAATCGACTGGGATAACACCACAAGTCAAAAAATAATGAATCGATCG
* * *
8226128 GGATAACACCACGAATTAAATTTATGCTTGAAGGTCTTAGAAATCATGCTCGAAAGTCTT-GAGA
66 GGATAACACCACAAATCAAATTTATGCTAGAAGGTCTTAGAAATCATGCTCGAAAGTCTTAG-GA
8226192 ATC
130 ATC
* *
8226195 ATGCTCGGAGGTCTTACAGAATCGATTGGGATAATACCACAAGTCAAAAAATAATGAATCGATCG
1 ATGCTCGGAGGTCTTACAGAATCGACTGGGATAACACCACAAGTCAAAAAATAATGAATCGATCG
** * * *
8226260 GGATAACACTGCAAATCAAATTTATGCTCAG-AGGTTTTA-AAGATCATGCTCGGAGGTCTTAGG
66 GGATAACACCACAAATCAAATTTATGCT-AGAAGGTCTTAGAA-ATCATGCTCGAAAGTCTTAGG
8226323 AATC
129 AATC
* * * *
8226327 ATG-TCCGGAGGTCTTATAGAATCGACTAGGACAACACCACAAGTTAAAAAATAATGAATCGATC
1 ATGCT-CGGAGGTCTTACAGAATCGACTGGGATAACACCACAAGTCAAAAAATAATGAATCGATC
* *** ** * *
8226391 GGGATAACATCGTGAATTGAATTTATGCCTA-AAGGTCTTAGAAATCATGCTTGAAGGTCTTA
65 GGGATAACACCACAAATCAAATTTATG-CTAGAAGGTCTTAGAAATCATGCTCGAAAGTCTTA
8226453 CAGAATTGAC
Statistics
Matches: 221, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
131 3 0.01
132 212 0.96
133 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (132 bp):
ATGCTCGGAGGTCTTACAGAATCGACTGGGATAACACCACAAGTCAAAAAATAATGAATCGATCG
GGATAACACCACAAATCAAATTTATGCTAGAAGGTCTTAGAAATCATGCTCGAAAGTCTTAGGAA
TC
Found at i:8226507 original size:110 final size:110
Alignment explanation
Indices: 8226311--8226671 Score: 415
Period size: 110 Copynumber: 3.3 Consensus size: 110
8226301 GATCATGCTC
* * * * * *
8226311 GGAGGTCTTAGGAATCATG-TCCGGAGGTCTTATAGAATCGACTAG-GACAACACCACAAGTTAA
1 GGAGGTCTTAGAAATCATGCT-TGAAGGTCTTACAGAATCGAC-AGAGACAACACCATAAGTCAA
* *
8226374 AAAATAATGAATCGATCGGGATAACATCGTGAATTGAATTTATGCCT
64 AAAATAATGAATCGATCGGGATAACACCGCGAATTGAATTTATGCCT
** * * * * *
8226421 AAAGGTCTTAGAAATCATGCTTGAAGGTCTTACAGAATTGACAGGGACAATATCGTAAGTCAAAA
1 GGAGGTCTTAGAAATCATGCTTGAAGGTCTTACAGAATCGACAGAGACAACACCATAAGTCAAAA
* * *
8226486 AATAATGAATCGATCGAGATAATACCACGAATTGAATTTATGTCC-
66 AATAATGAATCGATCGGGATAACACCGCGAATTGAATTTATG-CCT
* * * **
8226531 GGAGGTATTAAAAATCAAG-TCTGAAGGTCTTACAGAATCGATTGAGACAACACCATAAGTCAAA
1 GGAGGTCTTAGAAATCATGCT-TGAAGGTCTTACAGAATCGACAGAGACAACACCATAAGTCAAA
* *
8226595 AAATAATGAATTGATCGGGATAACACCGCGAATCGAATTTATGCCT
65 AAATAATGAATCGATCGGGATAACACCGCGAATTGAATTTATGCCT
* *
8226641 GGAGGTCTTAGAAATCATGCCTGAAAGTCTT
1 GGAGGTCTTAGAAATCATGCTTGAAGGTCTT
8226672 GAAAATCATG
Statistics
Matches: 206, Mismatches: 39, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
109 5 0.02
110 198 0.96
111 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (110 bp):
GGAGGTCTTAGAAATCATGCTTGAAGGTCTTACAGAATCGACAGAGACAACACCATAAGTCAAAA
AATAATGAATCGATCGGGATAACACCGCGAATTGAATTTATGCCT
Found at i:8226663 original size:22 final size:23
Alignment explanation
Indices: 8226635--8226694 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
8226625 AATCGAATTT
8226635 ATGCCTGGAGGTCTTAG-AAATC
1 ATGCCTGGAGGTCTTAGAAAATC
* *
8226657 ATGCCTGAAAGTCTT-GAAAATC
1 ATGCCTGGAGGTCTTAGAAAATC
*
8226679 ATG-TTCGGAGGTCTTA
1 ATGCCT-GGAGGTCTTA
8226695 TAGAATTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (23 bp):
ATGCCTGGAGGTCTTAGAAAATC
Found at i:8226729 original size:132 final size:131
Alignment explanation
Indices: 8226555--8226920 Score: 468
Period size: 132 Copynumber: 2.8 Consensus size: 131
8226545 TCAAGTCTGA
* * *
8226555 AGGTCTTACAGAATCGATTGAGACAACACCATAAGTCAAAAAATAATGAATTGATCGGGATAACA
1 AGGTCTTACAGAATTGACTGAGACAACACCATAAGTCAAAAAATAATGAATTGATCAGGATAACA
* * * * *
8226620 CCGCGAATCGAATTTATGCCTGGAGGTCTTAGAAATCATG-CCTGAAAGTCTTGAA-AATCATGT
66 CTGCGAATCGAATTTATGCC-GGAGGTCTTAAAAATCATGCCCAG-AAGTCTT-AAGAATAATGC
8226683 TCGG
128 TCGG
* * ** *
8226687 AGGTCTTATAGAATTGACTGAGACAGCACTGTAAGTTAAAAAATAATGAATTGATCAGGATAACA
1 AGGTCTTACAGAATTGACTGAGACAACACCATAAGTCAAAAAATAATGAATTGATCAGGATAACA
*
8226752 CTGCGAATCGAATTTATGTCCGGAGGTCTTAAAAATCATGCCCAGAGGTCTTAAGAATAATGCTC
66 CTGCGAATCGAATTTATG-CCGGAGGTCTTAAAAATCATGCCCAGAAGTCTTAAGAATAATGCTC
8226817 GG
130 GG
* * * * * *
8226819 AGGTCTTACAGAATTGACT-AGGACAACACCACAAGTCGAGAAATAAAGAATCGATCAAGATAAC
1 AGGTCTTACAGAATTGACTGA-GACAACACCATAAGTCAAAAAATAATGAATTGATCAGGATAAC
*
8226883 ACTGCGAATCGAAATTATGCCCGGAGGTCTTAAAAATC
65 ACTGCGAATCGAATTTATG-CCGGAGGTCTTAAAAATC
8226921 TCAAAATCTT
Statistics
Matches: 203, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
131 3 0.01
132 195 0.96
133 5 0.02
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (131 bp):
AGGTCTTACAGAATTGACTGAGACAACACCATAAGTCAAAAAATAATGAATTGATCAGGATAACA
CTGCGAATCGAATTTATGCCGGAGGTCTTAAAAATCATGCCCAGAAGTCTTAAGAATAATGCTCG
G
Found at i:8226802 original size:22 final size:22
Alignment explanation
Indices: 8226774--8226826 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
8226764 TTTATGTCCG
*
8226774 GAGGTCTTAAAAATCATGCCCA
1 GAGGTCTTAAAAATAATGCCCA
* * *
8226796 GAGGTCTTAAGAATAATGCTCG
1 GAGGTCTTAAAAATAATGCCCA
8226818 GAGGTCTTA
1 GAGGTCTTA
8226827 CAGAATTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (22 bp):
GAGGTCTTAAAAATAATGCCCA
Found at i:8227655 original size:41 final size:41
Alignment explanation
Indices: 8227570--8227655 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
8227560 CTTGTTCAAG
* * *
8227570 TGCAAGTGCAAGTGATGCAAATACGAACGTCTTTCTTATGA
1 TGCAAGTGCAAGTGATGCAAATACAAACGTCTTTCTCATAA
* * *
8227611 TGCAGGTGCAAGTGATGCAAATGCAAATGTCCTTT-TCATAA
1 TGCAAGTGCAAGTGATGCAAATACAAACGT-CTTTCTCATAA
8227652 TGCA
1 TGCA
8227656 CAAACAAGCG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (41 bp):
TGCAAGTGCAAGTGATGCAAATACAAACGTCTTTCTCATAA
Found at i:8229127 original size:16 final size:16
Alignment explanation
Indices: 8229095--8229145 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
8229085 CAAAGAAGTC
8229095 TTTTTT-GT-TTTTT-
1 TTTTTTAGTCTTTTTA
8229108 TTTTTTA-TCTTTTTA
1 TTTTTTAGTCTTTTTA
*
8229123 CTTTTTTAGTTTTTTTA
1 -TTTTTTAGTCTTTTTA
8229140 TTTTTT
1 TTTTTT
8229146 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.22
14 5 0.16
16 13 0.41
17 7 0.22
ACGTcount: A:0.08, C:0.04, G:0.04, T:0.84
Consensus pattern (16 bp):
TTTTTTAGTCTTTTTA
Found at i:8229143 original size:7 final size:7
Alignment explanation
Indices: 8229095--8229145 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
8229085 CAAAGAAGTC
*
8229095 TTTTTTG
1 TTTTTTA
8229102 TTTTTT-
1 TTTTTTA
8229108 TTTTTTA
1 TTTTTTA
8229115 TCTTTTTA
1 T-TTTTTA
8229123 CTTTTTTA
1 -TTTTTTA
8229131 GTTTTTTTA
1 --TTTTTTA
8229140 TTTTTT
1 TTTTTT
8229146 TTAATTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.15
7 13 0.33
8 12 0.31
9 8 0.21
ACGTcount: A:0.08, C:0.04, G:0.04, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:8236654 original size:9 final size:9
Alignment explanation
Indices: 8236640--8236673 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
8236630 TTAAAAAATA
8236640 TATTCAATT
1 TATTCAATT
8236649 TATTCAATT
1 TATTCAATT
8236658 TATTCAATT
1 TATTCAATT
8236667 TA-TCAAT
1 TATTCAAT
8236674 CACAATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.20
9 20 0.80
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTCAATT
Found at i:8239126 original size:187 final size:185
Alignment explanation
Indices: 8238905--8239258 Score: 457
Period size: 187 Copynumber: 1.9 Consensus size: 185
8238895 AAAAGAATAC
* *
8238905 AATTACTTTTATTGAAACTTTCATTTAAATTATTCCACTATTTGGGAT-AAATTTAGAAAAAATT
1 AATTACTTTTATTGAAACTTTCATCTAAATTATTCCACCATTTGGG-TCAAATTTAGAAAAAATT
*** *
8238969 TCTCACCTAGGGATTTCT-TAAAAAATTTACCATTTGAAATTTCTAAAAA-TCTTATCCTTGGAT
65 TCTCACCTAAAAATTT-TAT-AAAAATTTACCATTTGAAATTTCTAAAAATTC-CATCCTTGGAT
** *
8239032 AATTTGTATTTAATTCTAAAATTTTATATTTTTTAATTTTTTTGGATTGAAAATAAATATT
127 AATTAATATTT-ATTCCAAAATTTT-TATTTTTTAATTTTTTTGGATTGAAAATAAATATT
* *
8239093 AATTA-TTGTTATTGAAACTTT-GTCTAAATTATTCCACCATTTGGGTCAAATTTAGACAAAATT
1 AATTACTT-TTATTGAAACTTTCATCTAAATTATTCCACCATTTGGGTCAAATTTAGAAAAAATT
* * * *
8239156 TCTTACCTAAAAATTTTATAAAAATTTACCATTTGAAATTTTTATAAATTCCATCGTTGGATAAT
65 TCTCACCTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAAAATTCCATCCTTGGATAAT
* *
8239221 TAATATTTATTCCCAAATTTTTATTTTTTTATTTTTTT
130 TAATATTTATTCCAAAATTTTTATTTTTTAATTTTTTT
8239259 ATTTTTATTT
Statistics
Matches: 145, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
184 16 0.11
185 11 0.08
186 47 0.32
187 53 0.37
188 18 0.12
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (185 bp):
AATTACTTTTATTGAAACTTTCATCTAAATTATTCCACCATTTGGGTCAAATTTAGAAAAAATTT
CTCACCTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAAAATTCCATCCTTGGATAATT
AATATTTATTCCAAAATTTTTATTTTTTAATTTTTTTGGATTGAAAATAAATATT
Found at i:8239251 original size:8 final size:8
Alignment explanation
Indices: 8239238--8239264 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8239228 TATTCCCAAA
8239238 TTTTTATT
1 TTTTTATT
8239246 TTTTTATT
1 TTTTTATT
8239254 TTTTTATT
1 TTTTTATT
8239262 TTT
1 TTT
8239265 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:8239254 original size:14 final size:14
Alignment explanation
Indices: 8239237--8239273 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
8239227 TTATTCCCAA
8239237 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
8239251 ATTTTT-TTATTTTT
1 ATTTTTATT-TTTTT
8239265 A-TTTTATTT
1 ATTTTTATTT
8239274 AATATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:8239584 original size:19 final size:19
Alignment explanation
Indices: 8239555--8239593 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8239545 CCTTCCACTA
8239555 TTTTTCGGTTCTTGCTAGCT
1 TTTTTCGGTTCTTGCT-GCT
8239575 TTTTTC-GTTCTTGCTGCT
1 TTTTTCGGTTCTTGCTGCT
8239593 T
1 T
8239594 AATCTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (19 bp):
TTTTTCGGTTCTTGCTGCT
Found at i:8240187 original size:41 final size:41
Alignment explanation
Indices: 8240066--8240310 Score: 325
Period size: 41 Copynumber: 6.0 Consensus size: 41
8240056 TCTTCTAAAC
* * * *
8240066 AGAGGCAACAAACTTTGAG-AAATAAATGACTCTTTTGAAT
1 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAAT
*
8240106 AGAGGCAACGAACTTT--GAAAATAAACGGCTCCTCTGAAT
1 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAAT
* * * *
8240145 AGAGGTAATGAACTTTGAGAAAATAAATGGCTCATCTAAAT
1 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAAT
* *
8240186 AGAGGCAACAAACTTTTGAAAAAATAAATGGCTCCTCTGAAT
1 AGAGGCAACGAAC-TTTGAGAAAATAAATGGCTCCTCTGAAT
*
8240228 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAAC
1 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAAT
* *
8240269 AGAGGCAACGAACTTTTGAGAAAATAAATAGCTCTTCTGAAT
1 AGAGGCAACGAAC-TTTGAGAAAATAAATGGCTCCTCTGAAT
8240311 GCAACAGACT
Statistics
Matches: 178, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.17
40 15 0.08
41 69 0.39
42 62 0.35
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (41 bp):
AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAAT
Found at i:8240217 original size:42 final size:41
Alignment explanation
Indices: 8240066--8240340 Score: 305
Period size: 41 Copynumber: 6.8 Consensus size: 41
8240056 TCTTCTAAAC
* * * * *
8240066 AGAGGCAACAAACTTTG-AGAAATAAATGACTCTTTTGAAT
1 AGAGGCAACGAACTTTGAAAAAATAAATGGCTCCTCTGAAT
*
8240106 AGAGGCAACGAACTTTG--AAAATAAACGGCTCCTCTGAAT
1 AGAGGCAACGAACTTTGAAAAAATAAATGGCTCCTCTGAAT
* * * * *
8240145 AGAGGTAATGAACTTTGAGAAAATAAATGGCTCATCTAAAT
1 AGAGGCAACGAACTTTGAAAAAATAAATGGCTCCTCTGAAT
*
8240186 AGAGGCAACAAACTTTTGAAAAAATAAATGGCTCCTCTGAAT
1 AGAGGCAACGAAC-TTTGAAAAAATAAATGGCTCCTCTGAAT
* *
8240228 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAAC
1 AGAGGCAACGAACTTTGAAAAAATAAATGGCTCCTCTGAAT
* * *
8240269 AGAGGCAACGAACTTTTGAGAAAATAAATAGCTCTTCTGAAT
1 AGAGGCAACGAAC-TTTGAAAAAATAAATGGCTCCTCTGAAT
8240311 ----GCAAC-AGACTTTTGAAAAAATAAATGGCTC
1 AGAGGCAACGA-AC-TTTGAAAAAATAAATGGCTC
8240341 TTTGACAATC
Statistics
Matches: 205, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.00
38 26 0.13
39 32 0.16
40 16 0.08
41 68 0.33
42 62 0.30
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (41 bp):
AGAGGCAACGAACTTTGAAAAAATAAATGGCTCCTCTGAAT
Found at i:8240241 original size:83 final size:82
Alignment explanation
Indices: 8240066--8240310 Score: 334
Period size: 83 Copynumber: 3.0 Consensus size: 82
8240056 TCTTCTAAAC
* * * *
8240066 AGAGGCAACAAACTTTGAG-AAATAAATGACTCTTTTGAATAGAGGCAACGAAC-TTTG-AAAAT
1 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTTGAAAAAT
*
8240128 AAACGGCTCCTCTGAAT
66 AAATGGCTCCTCTGAAT
* * * *
8240145 AGAGGTAATGAACTTTGAGAAAATAAATGGCTCATCTAAATAGAGGCAACAAACTTTTGAAAAAA
1 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTTG-AAAAA
8240210 TAAATGGCTCCTCTGAAT
65 TAAATGGCTCCTCTGAAT
* *
8240228 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAACAGAGGCAACGAACTTTTGAGAAAA
1 AGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTTGA-AAAA
* *
8240293 TAAATAGCTCTTCTGAAT
65 TAAATGGCTCCTCTGAAT
8240311 GCAACAGACT
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 16 0.11
80 29 0.20
81 4 0.03
82 1 0.01
83 94 0.65
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (82 bp):
AGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTTGAAAAAT
AAATGGCTCCTCTGAAT
Found at i:8241364 original size:12 final size:11
Alignment explanation
Indices: 8241347--8241392 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
8241337 GTCATCCTTT
8241347 TTTTTTTTCACA
1 TTTTTTTTCA-A
8241359 TTTTTTTTCAA
1 TTTTTTTTCAA
**
8241370 TTTTTTTCTCTT
1 TTTTTTT-TCAA
8241382 TTTTTTTTCAA
1 TTTTTTTTCAA
8241393 GCATAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:8255984 original size:13 final size:13
Alignment explanation
Indices: 8255966--8255995 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8255956 GTCGATTTTA
8255966 CAATAAAATAAAT
1 CAATAAAATAAAT
8255979 CAATAAAATAAAT
1 CAATAAAATAAAT
8255992 CAAT
1 CAAT
8255996 TAATAGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (13 bp):
CAATAAAATAAAT
Found at i:8256082 original size:43 final size:43
Alignment explanation
Indices: 8256035--8256121 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
8256025 TTTTTATCCA
*
8256035 TCTCGATTAATAAAAT-AATCAATATCAAATGAATTTTCATTTG
1 TCTCGATTAATAAAATAAAT-AATATCAAATAAATTTTCATTTG
* *
8256078 TCTCGATTAATAAAATAAATAATATTAAATAAATTTTTATTTG
1 TCTCGATTAATAAAATAAATAATATCAAATAAATTTTCATTTG
8256121 T
1 T
8256122 TTTTATTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 37 0.93
44 3 0.08
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (43 bp):
TCTCGATTAATAAAATAAATAATATCAAATAAATTTTCATTTG
Found at i:8257086 original size:29 final size:29
Alignment explanation
Indices: 8257023--8257086 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
8257013 GAAGAAAATA
* *
8257023 TTTGCAGCAGCATTGTGGAATATTCAGAT
1 TTTGCACCAGCATTGTGGAATATACAGAT
*
8257052 TCTGCACCAGCATCT-TGGAATATACA-AGT
1 TTTGCACCAGCAT-TGTGGAATATACAGA-T
8257081 TTTGCA
1 TTTGCA
8257087 AAGGCAGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 27 0.93
30 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (29 bp):
TTTGCACCAGCATTGTGGAATATACAGAT
Found at i:8260394 original size:16 final size:16
Alignment explanation
Indices: 8260368--8260433 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
8260358 AATATTTAAC
8260368 AAAACAAAACAAAAAAG
1 AAAA-AAAACAAAAAAG
*
8260385 AAAAAAAACAAAATAG
1 AAAAAAAACAAAAAAG
*
8260401 AAAAAAAAACAAAACCAG
1 -AAAAAAAACAAAA-AAG
* *
8260419 TAAACAAACAAAAAA
1 AAAAAAAACAAAAAA
8260434 AAAGAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
16 12 0.29
17 28 0.67
18 2 0.05
ACGTcount: A:0.80, C:0.12, G:0.05, T:0.03
Consensus pattern (16 bp):
AAAAAAAACAAAAAAG
Found at i:8260405 original size:17 final size:17
Alignment explanation
Indices: 8260368--8260414 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
8260358 AATATTTAAC
*
8260368 AAAACAAAACAAAAAAG
1 AAAAAAAAACAAAAAAG
*
8260385 -AAAAAAAACAAAATAG
1 AAAAAAAAACAAAAAAG
8260401 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
8260415 CCAGTAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAG
Found at i:8260660 original size:17 final size:16
Alignment explanation
Indices: 8260625--8260663 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8260615 CATAAACTTC
8260625 AAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
8260641 AAAAAGAAAAAAAACG-G
1 AAAAA-AAAAAAAA-GAG
8260658 AAAAAA
1 AAAAAA
8260664 TTTTTTCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAG
Found at i:8260796 original size:10 final size:10
Alignment explanation
Indices: 8260783--8260807 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8260773 AACCAACCCA
8260783 AAACAACCAT
1 AAACAACCAT
8260793 AAACAACCAT
1 AAACAACCAT
8260803 AAACA
1 AAACA
8260808 GAACCGCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08
Consensus pattern (10 bp):
AAACAACCAT
Found at i:8261999 original size:16 final size:16
Alignment explanation
Indices: 8261942--8261999 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
8261932 AAACCCTTAA
8261942 AAATCCAAAATCCATT-
1 AAATCCAAAATCC-TTG
* *
8261958 AAATCCAAAACCGCTCG
1 AAATCCAAAATC-CTTG
8261975 AAATCCAAAATCCTTG
1 AAATCCAAAATCCTTG
*
8261991 AAGTCCAAA
1 AAATCCAAA
8262000 GTCCGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 23 0.66
17 12 0.34
ACGTcount: A:0.47, C:0.28, G:0.07, T:0.19
Consensus pattern (16 bp):
AAATCCAAAATCCTTG
Found at i:8262322 original size:141 final size:142
Alignment explanation
Indices: 8262128--8262411 Score: 516
Period size: 141 Copynumber: 2.0 Consensus size: 142
8262118 TCATAATTCA
* *
8262128 TATTAATAATAAAATTAATAAATAAAAAAAGTATAATAAAATTGGGATTTTAAATATAAACAGTC
1 TATTAAAAATAAAATTAATAAAT-AAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTC
8262193 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAAAATCCAACTC
65 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAAAATCCAACTC
8262258 TTAAATTGCATTT
130 TTAAATTGCATTT
*
8262271 TATTAAAAATAAGATTAATAAAT-AAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
1 TATTAAAAATAAAATTAATAAATAAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
*
8262335 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAAAATCCAACTCT
8262400 TAAATTGCATTT
131 TAAATTGCATTT
8262412 CATTTTACAT
Statistics
Matches: 137, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
141 116 0.85
143 21 0.15
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (142 bp):
TATTAAAAATAAAATTAATAAATAAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAAAATCCAACTCT
TAAATTGCATTT
Found at i:8268359 original size:186 final size:188
Alignment explanation
Indices: 8268023--8268362 Score: 467
Period size: 186 Copynumber: 1.8 Consensus size: 188
8268013 AAAAGAATTC
* *
8268023 AATTATTTTTATTGAAACTTTCATCTAAATTATTCTACAATTTGGGACAAATTTAGAGAAAATTC
1 AATTATTGTTATTGAAACTTTCATCTAAATTATTCTACAATTTGGGACAAATTTAGACAAAATTC
* *
8268088 CTCACCTAGAGATTTCTTAAAAAATTTACCATTTGAAATTTCTAAAAATCTTATCCTCGGATAAT
66 CTCACCTAGAGAATTCTTAAAAAATTTACCATTTGAAATTTCTAAAAATCTTATCATCGGATAAT
** *
8268153 TTGTATTTAATTCTAAAATTTTATATTTTTAAATTTTTTTGAATTGAAAATAAATATT
131 TAATATTTAATTCCAAAATTTTATATTTTTAAATTTTTTTGAATTGAAAATAAATATT
* * *
8268211 AATTATTGTTATTGAAACTTT-GTCTAAATTATT-TCACCATTTGGGTCAAATTTAGACAAAATT
1 AATTATTGTTATTGAAACTTTCATCTAAATTATTCT-ACAATTTGGGACAAATTTAGACAAAATT
* * * * *
8268274 TCTCACCTA-AGAATT-TTATAAAAATTTACCATTTGAAATTTTTATAAAT-TTCGTCATTGGAT
65 CCTCACCTAGAGAATTCTTA-AAAAATTTACCATTTGAAATTTCTAAAAATCTT-ATCATCGGAT
8268336 AATTAATATTT-ATTCCCAAAATTTTAT
128 AATTAATATTTAATT-CCAAAATTTTAT
8268363 TTATTTTATT
Statistics
Matches: 133, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
185 8 0.06
186 61 0.46
187 44 0.33
188 20 0.15
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (188 bp):
AATTATTGTTATTGAAACTTTCATCTAAATTATTCTACAATTTGGGACAAATTTAGACAAAATTC
CTCACCTAGAGAATTCTTAAAAAATTTACCATTTGAAATTTCTAAAAATCTTATCATCGGATAAT
TAATATTTAATTCCAAAATTTTATATTTTTAAATTTTTTTGAATTGAAAATAAATATT
Found at i:8268769 original size:73 final size:76
Alignment explanation
Indices: 8268644--8268791 Score: 239
Period size: 73 Copynumber: 2.0 Consensus size: 76
8268634 GTTCCCCTCT
* **
8268644 ACTGTTGCCTTCCACTATTTTTCGGGACTCCTGCTAGCTTTTTCGGTTCTTGCTGCTCAATCTTC
1 ACTGTTGCCTTCCACTATTTTTCGAGACTCCTGCTAGCTTTTTCAATTCTTGCTGCTCAATCTTC
8268709 -TTTTGGTTCC
66 TTTTTGGTTCC
*
8268719 ACTGTTGCCTTCCACTATTTTTC-AG-TTCCTGCTAGCTTTTTCAATTCTTGCTGCTCAATCTTC
1 ACTGTTGCCTTCCACTATTTTTCGAGACTCCTGCTAGCTTTTTCAATTCTTGCTGCTCAATCTTC
8268782 TTTTTGGTTC
66 TTTTTGGTTC
8268792 TTTTTTTTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
73 35 0.51
74 10 0.15
75 23 0.34
ACGTcount: A:0.11, C:0.27, G:0.15, T:0.47
Consensus pattern (76 bp):
ACTGTTGCCTTCCACTATTTTTCGAGACTCCTGCTAGCTTTTTCAATTCTTGCTGCTCAATCTTC
TTTTTGGTTCC
Found at i:8269416 original size:42 final size:41
Alignment explanation
Indices: 8269250--8269531 Score: 374
Period size: 42 Copynumber: 6.9 Consensus size: 41
8269240 AACTCCTCTA
* *
8269250 AATAGAGGCAACAAACTTTGAG-AAATAAATGGCTCCTCTG
1 AATAGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTG
*
8269290 AATAGAGGCAATGAACTTT--GAAAATAAATGGCTTC-TCTG
1 AATAGAGGCAACGAACTTTGAGAAAATAAATGGC-TCATCTG
** *
8269329 AATAGAGGCAATAAACTTTGAGAAAATAAATGGCTCATCTA
1 AATAGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTG
* * *
8269370 AATAGAGGCAACGAACTTTTGAGAAAATAAATGGTTCCTTTG
1 AATAGAGGCAACGAAC-TTTGAGAAAATAAATGGCTCATCTG
* *
8269412 AATAGAGGCAACGAACTTTAAGAAAATAAATGGCTCATCTA
1 AATAGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTG
*
8269453 AATAGAGGCAACGAACTTTTGAGAAAATAAATAGCTCATCTG
1 AATAGAGGCAACGAAC-TTTGAGAAAATAAATGGCTCATCTG
* *
8269495 AATAGAGGCAATGGACTTTTGAGAAAATAAATGGCTC
1 AATAGAGGCAACGAAC-TTTGAGAAAATAAATGGCTC
8269532 TTTAACAATC
Statistics
Matches: 214, Mismatches: 21, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
38 1 0.00
39 33 0.15
40 21 0.10
41 66 0.31
42 93 0.43
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (41 bp):
AATAGAGGCAACGAACTTTGAGAAAATAAATGGCTCATCTG
Found at i:8269430 original size:83 final size:83
Alignment explanation
Indices: 8269243--8269531 Score: 399
Period size: 83 Copynumber: 3.5 Consensus size: 83
8269233 TAAGCAAAAC
* * * *
8269243 TCCTCTAAATAGAGGCAACAAACTTTGAG-AAATAAATGGCTCCTCTGAATAGAGGCAATGAAC-
1 TCCTCTGAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTCATCTAAATAGAGGCAACGAACT
8269306 TTT--GAAAATAAATGGCT
66 TTTGAGAAAATAAATGG-T
*
8269323 T-CTCTGAATAGAGGCAATAAACTTTGAGAAAATAAATGGCTCATCTAAATAGAGGCAACGAACT
1 TCCTCTGAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTCATCTAAATAGAGGCAACGAACT
8269387 TTTGAGAAAATAAATGGT
66 TTTGAGAAAATAAATGGT
* * *
8269405 TCCTTTGAATAGAGGCAACGAACTTTAAGAAAATAAATGGCTCATCTAAATAGAGGCAACGAACT
1 TCCTCTGAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTCATCTAAATAGAGGCAACGAACT
* *
8269470 TTTGAGAAAATAAATAGC
66 TTTGAGAAAATAAATGGT
* ***
8269488 TCATCTGAATAGAGGCAATGGACTTTTGAGAAAATAAATGGCTC
1 TCCTCTGAATAGAGGCAACAAAC-TTTGAGAAAATAAATGGCTC
8269532 TTTAACAATC
Statistics
Matches: 187, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
79 25 0.13
80 32 0.17
81 3 0.02
82 2 0.01
83 106 0.57
84 19 0.10
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.25
Consensus pattern (83 bp):
TCCTCTGAATAGAGGCAACAAACTTTGAGAAAATAAATGGCTCATCTAAATAGAGGCAACGAACT
TTTGAGAAAATAAATGGT
Found at i:8269777 original size:16 final size:16
Alignment explanation
Indices: 8269756--8269788 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8269746 CTTATCTACT
8269756 ATCTTTTCTTGAATGC
1 ATCTTTTCTTGAATGC
8269772 ATCTTTTCTTGAATGC
1 ATCTTTTCTTGAATGC
8269788 A
1 A
8269789 GTATATGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (16 bp):
ATCTTTTCTTGAATGC
Found at i:8270574 original size:11 final size:11
Alignment explanation
Indices: 8270560--8270597 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
8270550 TTTTTTTTTC
8270560 TTTTTTTCACA
1 TTTTTTTCACA
8270571 TTTTTTTCA-A
1 TTTTTTTCACA
*
8270581 TTTTTTTCTC-
1 TTTTTTTCACA
8270591 TTTTTTT
1 TTTTTTT
8270598 TAAGCATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTCACA
Found at i:8281031 original size:16 final size:17
Alignment explanation
Indices: 8281005--8281040 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8280995 AAAAAAGTTA
8281005 ATTATTTATTACTTTTT
1 ATTATTTATTACTTTTT
*
8281022 ATTA-TTATTATTTTTT
1 ATTATTTATTACTTTTT
8281038 ATT
1 ATT
8281041 GAAAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTATTTATTACTTTTT
Found at i:8285275 original size:43 final size:43
Alignment explanation
Indices: 8285187--8285355 Score: 207
Period size: 43 Copynumber: 3.9 Consensus size: 43
8285177 AAATAAATCA
* *
8285187 ATTAATAGAGATAATCAAATAATCAAAT-AAGTTTTTATCTATCTCG
1 ATTAATA-AAATAATC-AAT-ATCAAATGAA-TTTTTATTTATCTCG
* *
8285233 ATTAATAAAATAATCAATATCTAATGAATTTTTATTTGTCTCG
1 ATTAATAAAATAATCAATATCAAATGAATTTTTATTTATCTCG
* *
8285276 ATTAATAAAATAATCAATATCAAATGAATTTATATTTATCTTG
1 ATTAATAAAATAATCAATATCAAATGAATTTTTATTTATCTCG
* *
8285319 ATTAATAAAATAAAT-AATATTAAATAAATTTTTATTT
1 ATTAATAAAAT-AATCAATATCAAATGAATTTTTATTT
8285356 GTTTTTATTC
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
43 88 0.80
44 8 0.07
45 7 0.06
46 7 0.06
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (43 bp):
ATTAATAAAATAATCAATATCAAATGAATTTTTATTTATCTCG
Found at i:8285353 original size:86 final size:89
Alignment explanation
Indices: 8285187--8285357 Score: 228
Period size: 86 Copynumber: 2.0 Consensus size: 89
8285177 AAATAAATCA
* *
8285187 ATTAATAGAGATAATCAAATAATCAAATAAGTTTTTATCTATCTCGATTAATAAAATAATCAATA
1 ATTAATAGAAATAATCAAATAATCAAATAAGTTTATATCTATCTCGATTAATAAAATAATCAATA
*
8285252 TCTAATGAATTTTTATTTGTCTCG
66 TCTAATAAATTTTTATTTGTCTCG
* *
8285276 ATTAATA-AAATAATC-AAT-ATCAAATGAA-TTTATATTTATCTTGATTAATAAAATAAAT-AA
1 ATTAATAGAAATAATCAAATAATCAAAT-AAGTTTATATCTATCTCGATTAATAAAAT-AATCAA
8285336 TAT-TAAATAAATTTTTATTTGT
64 TATCT-AATAAATTTTTATTTGT
8285358 TTTTATTCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
85 1 0.01
86 51 0.69
87 8 0.11
88 7 0.09
89 7 0.09
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (89 bp):
ATTAATAGAAATAATCAAATAATCAAATAAGTTTATATCTATCTCGATTAATAAAATAATCAATA
TCTAATAAATTTTTATTTGTCTCG
Found at i:8286325 original size:29 final size:29
Alignment explanation
Indices: 8286262--8286325 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
8286252 GAAGAAAATA
* *
8286262 TTTGCAGCAGCATTGTGGAATATTCAGAT
1 TTTGCACCAGCATTGTGGAATATACAGAT
*
8286291 TCTGCACCAGCATCT-TGGAATATACA-AGT
1 TTTGCACCAGCAT-TGTGGAATATACAGA-T
8286320 TTTGCA
1 TTTGCA
8286326 AAGGCAGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 27 0.93
30 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (29 bp):
TTTGCACCAGCATTGTGGAATATACAGAT
Found at i:8286495 original size:2 final size:2
Alignment explanation
Indices: 8286488--8286514 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8286478 GTTGTATACG
8286488 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8286515 AAATACTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8287902 original size:39 final size:39
Alignment explanation
Indices: 8287849--8287926 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
8287839 TTAGAAAGAG
8287849 TGATTATTTACTAATTTAATAAAATTTAACATCAAATGA
1 TGATTATTTACTAATTTAATAAAATTTAACATCAAATGA
8287888 TGATTATTTACTAATTTAATAAAATTTAACATCAAATGA
1 TGATTATTTACTAATTTAATAAAATTTAACATCAAATGA
8287927 CAAACATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (39 bp):
TGATTATTTACTAATTTAATAAAATTTAACATCAAATGA
Found at i:8291077 original size:17 final size:16
Alignment explanation
Indices: 8291047--8291081 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
8291037 TCCCTATCTC
8291047 TTTATTTTAATTATAG
1 TTTATTTTAATTATAG
*
8291063 TTTATATTTACTTATAG
1 TTTAT-TTTAATTATAG
8291080 TT
1 TT
8291082 CATCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTATTTTAATTATAG
Found at i:8291886 original size:21 final size:20
Alignment explanation
Indices: 8291844--8291886 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8291834 TGAATTTTTA
*
8291844 GAAAAAGAAAATTTTGATTT
1 GAAAAAGAAAATTTTGAATT
8291864 GAAAAAG-AAATTTGATGAATT
1 GAAAAAGAAAATTT--TGAATT
8291885 GA
1 GA
8291887 TGAATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (20 bp):
GAAAAAGAAAATTTTGAATT
Found at i:8292427 original size:15 final size:15
Alignment explanation
Indices: 8292409--8292449 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
8292399 TTGAACATAA
8292409 TTTTGTTGATGAATT
1 TTTTGTTGATGAATT
8292424 TTTTGTTGATGAATT
1 TTTTGTTGATGAATT
*
8292439 TTTTATTGATG
1 TTTTGTTGATG
8292450 CTTGGTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (15 bp):
TTTTGTTGATGAATT
Found at i:8297855 original size:17 final size:16
Alignment explanation
Indices: 8297825--8297859 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
8297815 TTCCTATCTC
8297825 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
8297841 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
8297858 TT
1 TT
8297860 CATCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:8303449 original size:28 final size:28
Alignment explanation
Indices: 8303416--8303470 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
8303406 AATGTTTTGT
* *
8303416 CATATATTATTATCTTTTTATCTATGTA
1 CATATATTATTATCTTATTATCCATGTA
8303444 CATATATTATTATCTTATTATCCATGT
1 CATATATTATTATCTTATTATCCATGT
8303471 GATTTTGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.55
Consensus pattern (28 bp):
CATATATTATTATCTTATTATCCATGTA
Found at i:8304679 original size:10 final size:10
Alignment explanation
Indices: 8304664--8304693 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8304654 ATTAATTTTT
8304664 TATATTTTAA
1 TATATTTTAA
8304674 TATATTTTAA
1 TATATTTTAA
8304684 T-TATTTTAA
1 TATATTTTAA
8304693 T
1 T
8304694 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:8304688 original size:9 final size:9
Alignment explanation
Indices: 8304655--8304694 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
8304645 GTAAGCTTAA
8304655 TTAATT-TT
1 TTAATTATT
8304663 TT-A-TATT
1 TTAATTATT
8304670 TTAATATATT
1 TTAAT-TATT
8304680 TTAATTATT
1 TTAATTATT
8304689 TTAATT
1 TTAATT
8304695 GATAAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
6 1 0.04
7 5 0.18
8 3 0.11
9 10 0.36
10 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTAATTATT
Found at i:8306006 original size:2 final size:2
Alignment explanation
Indices: 8305982--8306029 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
8305972 TCAAAGTTGA
* * *
8305982 AT AT GT AT AT CT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8306024 AT AT AT
1 AT AT AT
8306030 TTCTCATTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8306432 original size:23 final size:23
Alignment explanation
Indices: 8306392--8306438 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8306382 GTAGGTCACA
* *
8306392 GTTCTGATGGTAGCCTTCTGATG
1 GTTCTGATGATAGCCTTCTAATG
* *
8306415 GTTCTGTTGATAGTCTTCTAATG
1 GTTCTGATGATAGCCTTCTAATG
8306438 G
1 G
8306439 GTGTTTGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.43
Consensus pattern (23 bp):
GTTCTGATGATAGCCTTCTAATG
Found at i:8311955 original size:14 final size:15
Alignment explanation
Indices: 8311930--8311959 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8311920 CTTATCATCA
8311930 TTTAAAATTAATTAT
1 TTTAAAATTAATTAT
8311945 TTTAAAA-TAATTAT
1 TTTAAAATTAATTAT
8311959 T
1 T
8311960 ACATTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAAATTAATTAT
Found at i:8323193 original size:12 final size:12
Alignment explanation
Indices: 8323176--8323200 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8323166 AACCTTCCAT
8323176 AACGCTTGCATC
1 AACGCTTGCATC
8323188 AACGCTTGCATC
1 AACGCTTGCATC
8323200 A
1 A
8323201 TACCAGGATT
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:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
AACGCTTGCATC
Found at i:8329678 original size:2 final size:2
Alignment explanation
Indices: 8329667--8329698 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8329657 AGCTAAGCTC
8329667 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8329699 GAATGTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8330238 original size:2 final size:2
Alignment explanation
Indices: 8330231--8330262 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8330221 GTTAGTAACG
8330231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8330263 TTTACATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8330679 original size:40 final size:40
Alignment explanation
Indices: 8330624--8330700 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
8330614 ACGACGTTGC
8330624 TGAGTAATTTAGGGATAA-AGAAGTTATCGATTAGTTACAT
1 TGAGTAATTTAGGGATAAGA-AAGTTATCGATTAGTTACAT
* *
8330664 TGAGTAATTTAGGGATAAGAAAGTTGTTGATTAGTTA
1 TGAGTAATTTAGGGATAAGAAAGTTATCGATTAGTTA
8330701 TGTATAATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (40 bp):
TGAGTAATTTAGGGATAAGAAAGTTATCGATTAGTTACAT
Found at i:8330842 original size:22 final size:22
Alignment explanation
Indices: 8330816--8330864 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
8330806 AACTTCTCTT
8330816 TCTTTTCTGATCTAATCTTTTC
1 TCTTTTCTGATCTAATCTTTTC
*
8330838 TCTTTTCTGGTCTAATCTTTTC
1 TCTTTTCTGATCTAATCTTTTC
8330860 TCTTT
1 TCTTT
8330865 CCATCACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.10, C:0.22, G:0.06, T:0.61
Consensus pattern (22 bp):
TCTTTTCTGATCTAATCTTTTC
Found at i:8336110 original size:3 final size:3
Alignment explanation
Indices: 8336102--8336128 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8336092 AAATAAAATG
8336102 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8336129 TTACTTTTTG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8340728 original size:123 final size:122
Alignment explanation
Indices: 8340570--8340843 Score: 319
Period size: 123 Copynumber: 2.3 Consensus size: 122
8340560 TACAATTAAA
* *
8340570 ATGTTAATAATAAAAATTAAAAATATATGAAAAGAATTTTTAAATAGATTATATTTT-ATCATC-
1 ATGTTAATAATAAAAATTAAAAATATATGAAAAGAATTTTCAAAGAGATTATATTTTGA-CA-CA
* * * * * * *
8340633 TGTCTAATATTATAGAATGATCATTTTACCCTTTAATGAAAATAAAATAACTTAAATGC
64 TGTCCAACATTATAAAATGATAATTTTAACCTTTAATAAAAACAAAATAACTTAAATGC
* * *
8340692 ATGTTAATAATAAAAATTTAAAAGTATATTAAAAGAATTTTCAAAGAGGTTATATTTTGACACAT
1 ATGTTAATAATAAAAA-TTAAAAATATATGAAAAGAATTTTCAAAGAGATTATATTTTGACACAT
* * *
8340757 GTCCAACATTATAAAATGATAATTTTAAGCTTTAATAAAAACAAAATAACCT--AT-A
65 GTCCAACATTATAAAATGATAATTTTAACCTTTAATAAAAACAAAATAACTTAAATGC
*
8340812 ATGTAAATAATAAAAA-TAAAACA-ATATGAAAA
1 ATGTTAATAATAAAAATTAAAA-ATATATGAAAA
8340844 TAGAAAAAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
118 13 0.10
120 15 0.12
121 2 0.02
122 17 0.13
123 82 0.63
124 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (122 bp):
ATGTTAATAATAAAAATTAAAAATATATGAAAAGAATTTTCAAAGAGATTATATTTTGACACATG
TCCAACATTATAAAATGATAATTTTAACCTTTAATAAAAACAAAATAACTTAAATGC
Found at i:8341129 original size:31 final size:30
Alignment explanation
Indices: 8341060--8341130 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
8341050 GACATCTTTC
8341060 CAACATTATAAAATGACTATTTACCTTTTT
1 CAACATTATAAAATGACTATTTACCTTTTT
* *
8341090 CAAAATTATAAAATGATTAATTTA-CTTGTTT
1 CAACATTATAAAATGACT-ATTTACCTT-TTT
*
8341121 TAACATTATA
1 CAACATTATA
8341131 GAATAATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.54
31 16 0.46
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (30 bp):
CAACATTATAAAATGACTATTTACCTTTTT
Found at i:8342399 original size:2 final size:2
Alignment explanation
Indices: 8342392--8342423 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8342382 TTCGAAAAGC
8342392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8342424 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8367612 original size:26 final size:24
Alignment explanation
Indices: 8367583--8367631 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
8367573 TTTGGTTATG
8367583 TCTAAAAATTAAAATAATCTTATATA
1 TCTAAAAATTAAAA-AAT-TTATATA
* *
8367609 TCTAAAATTTCAAAAATTTATAT
1 TCTAAAAATTAAAAAATTTATAT
8367632 TATATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (24 bp):
TCTAAAAATTAAAAAATTTATATA
Found at i:8368995 original size:11 final size:11
Alignment explanation
Indices: 8368979--8369018 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8368969 AATTTCATAA
8368979 GAGATTTATTT
1 GAGATTTATTT
* *
8368990 GAGATTTGTTA
1 GAGATTTATTT
8369001 GAGATTTATTT
1 GAGATTTATTT
*
8369012 GTGATTT
1 GAGATTT
8369019 GTCAGATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (11 bp):
GAGATTTATTT
Found at i:8369003 original size:22 final size:22
Alignment explanation
Indices: 8368978--8369020 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8368968 AAATTTCATA
8368978 AGAGATTTATTTGAGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
*
8369000 AGAGATTTATTTGTGATTTGT
1 AGAGATTTATTTGAGATTTGT
8369021 CAGATATTGC
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:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:8369147 original size:52 final size:52
Alignment explanation
Indices: 8369045--8369201 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
8369035 TGGACAAGAA
* * * * * *
8369045 GACTTGCAAAAGAAGAATTC-CAAGAGAAAGAGAATTTTTAGTAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAG-GGATTTTTAATAGGCAAGTTT
* *
8369097 GACTTGTAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTTTTAATAGGCAAGTTT
* * * * *
8369149 GACTTACAGGAGAAGAATTCTAAGAAGAGAGGGATTTTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTTTTAATAGGCAAGTTT
8369201 G
1 G
8369202 TATGGTTATA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 81 0.91
53 8 0.09
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTTTTAATAGGCAAGTTT
Found at i:8370337 original size:33 final size:33
Alignment explanation
Indices: 8370284--8370351 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
8370274 CTTTGATCCG
* *
8370284 ACATCTCAGATCAGCTTGATCGTCACAGTTCAC
1 ACATCTCAGATCAGCCTGATCGTCACAATTCAC
* * *
8370317 ACATTTCAGATTAGCCTGATCGTCATAATTCAC
1 ACATCTCAGATCAGCCTGATCGTCACAATTCAC
8370350 AC
1 AC
8370352 CTTTATGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (33 bp):
ACATCTCAGATCAGCCTGATCGTCACAATTCAC
Found at i:8375434 original size:158 final size:159
Alignment explanation
Indices: 8375040--8375514 Score: 748
Period size: 158 Copynumber: 3.0 Consensus size: 159
8375030 TTAAAATTTT
* * * *
8375040 ACCAAGTAGTTAGTTGTTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
8375105 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAG-AAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTC
* *
8375170 GGATTATTTAAAG----AAAAATCAAGATCA
130 -GATTAATTAAAGAAAAAAAAATCAAAATCA
*
8375197 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
8375262 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTC-
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
8375326 ATTAATTAAAGAAAAAAAAATCAAAATCA
131 ATTAATTAAAGAAAAAAAAATCAAAATCA
* * *
8375355 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAAAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
8375420 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTACTTGTAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTC-
8375485 GATTAATTAAAGAAAAAGAAAA--AAAATCA
130 GATTAATTAAAGAAAAA-AAAATCAAAATCA
8375514 A
1 A
8375515 GATCAAAATC
Statistics
Matches: 296, Mismatches: 15, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
154 10 0.03
156 36 0.12
157 87 0.29
158 136 0.46
159 7 0.02
160 16 0.05
161 4 0.01
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (159 bp):
ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
ATTAATTAAAGAAAAAAAAATCAAAATCA
Found at i:8375537 original size:1 final size:1
Alignment explanation
Indices: 8375531--8375571 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
8375521 AATCAAAGTC
***
8375531 AAAAAAAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8375572 TGGAGCGGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.93, C:0.02, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:8375538 original size:16 final size:16
Alignment explanation
Indices: 8375525--8375571 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
8375515 GATCAAAATC
8375525 AAAGTCAAAAAAAAAA
1 AAAGTCAAAAAAAAAA
*
8375541 AAATTCAAAAAAAAAA
1 AAAGTCAAAAAAAAAA
8375557 AAA---AAAAAAAAAA
1 AAAGTCAAAAAAAAAA
8375570 AA
1 AA
8375572 TGGAGCGGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.40
16 18 0.60
ACGTcount: A:0.87, C:0.04, G:0.02, T:0.06
Consensus pattern (16 bp):
AAAGTCAAAAAAAAAA
Found at i:8375608 original size:15 final size:16
Alignment explanation
Indices: 8375577--8375626 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
8375567 AAAAATGGAG
*
8375577 CGGCTCGGATCGCGGCT
1 CGGCTCGGCT-GCGGCT
*
8375594 CGGCTTGG-TGCGGCT
1 CGGCTCGGCTGCGGCT
8375609 CGGCTCGGCT-CGGCT
1 CGGCTCGGCTGCGGCT
8375624 CGG
1 CGG
8375627 AGGGGCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 21 0.70
16 2 0.07
17 7 0.23
ACGTcount: A:0.02, C:0.34, G:0.44, T:0.20
Consensus pattern (16 bp):
CGGCTCGGCTGCGGCT
Found at i:8375612 original size:5 final size:5
Alignment explanation
Indices: 8375589--8375626 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
8375579 GCTCGGATCG
*
8375589 CGGCT CGGCT TGG-T GCGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT CGGCT CGG
8375627 AGGGGCTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 27 0.93
6 1 0.03
ACGTcount: A:0.00, C:0.34, G:0.45, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:8375873 original size:19 final size:19
Alignment explanation
Indices: 8375846--8375888 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
8375836 AACGCCGGTA
*
8375846 CGGATTCTGGAAATTTCGC
1 CGGAATCTGGAAATTTCGC
*
8375865 CGGAATCTGGGAATTTCGC
1 CGGAATCTGGAAATTTCGC
8375884 CGGAA
1 CGGAA
8375889 ATTGGCCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (19 bp):
CGGAATCTGGAAATTTCGC
Found at i:8375977 original size:31 final size:31
Alignment explanation
Indices: 8375939--8376011 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
8375929 AAACTGGGTC
* *
8375939 TGTCGCCGGAAACTTCAAAGTTCG-CCGGAAT
1 TGTCGCCGGAAAATTCAAA-ATCGTCCGGAAT
8375970 TGTCGCCGGAAAATTCAAAATCGTCCGGAAT
1 TGTCGCCGGAAAATTCAAAATCGTCCGGAAT
*
8376001 TTTCGCCGGAA
1 TGTCGCCGGAA
8376012 TCTGGAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.08
31 35 0.92
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAATCGTCCGGAAT
Found at i:8376341 original size:12 final size:12
Alignment explanation
Indices: 8376324--8376357 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8376314 CTAGCCCTCC
8376324 AAAATAAAAATT
1 AAAATAAAAATT
8376336 AAAAT-AAAATT
1 AAAATAAAAATT
*
8376347 AAAAAAAAAAT
1 AAAATAAAAAT
8376358 CTAGATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:8376600 original size:17 final size:16
Alignment explanation
Indices: 8376575--8376606 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8376565 CACAAGAGAG
8376575 AAAAAAAAAAATAAAT
1 AAAAAAAAAAATAAAT
8376591 AAAAATAAAAAATAAA
1 AAAAA-AAAAAATAAA
8376607 AAATACGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAAAAAAATAAAT
Found at i:8376603 original size:13 final size:14
Alignment explanation
Indices: 8376577--8376609 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8376567 CAAGAGAGAA
8376577 AAAAAAAAATAAAT
1 AAAAAAAAATAAAT
*
8376591 AAAAATAAA-AAAT
1 AAAAAAAAATAAAT
8376604 AAAAAA
1 AAAAAA
8376610 TACGGGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAAAAATAAAT
Found at i:8376685 original size:16 final size:16
Alignment explanation
Indices: 8376664--8376695 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8376654 CAAATGATCT
8376664 GGGTCAGGCCCAATTG
1 GGGTCAGGCCCAATTG
8376680 GGGTCAGGCCCAATTG
1 GGGTCAGGCCCAATTG
8376696 ATCCGGGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.38, T:0.19
Consensus pattern (16 bp):
GGGTCAGGCCCAATTG
Found at i:8376809 original size:1 final size:1
Alignment explanation
Indices: 8376803--8376828 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8376793 CCGACTCGAC
8376803 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
8376829 AGCTCCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8376887 original size:41 final size:40
Alignment explanation
Indices: 8376830--8377312 Score: 601
Period size: 41 Copynumber: 12.0 Consensus size: 40
8376820 TTTTTTTTTA
** * *
8376830 GCTCCTCTTGACAGAGGCTCTACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGG-TCCACGACTTTGAAAAGTAAATT
* *
8376871 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGATAAATT
1 GCTCCTCTAAACAGAGG-TCCACGACTTTGAAAAG-TAAATT
8376913 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA--AAATT
1 GCTCCTCTAAACAGAGGT-CCACGACTTT-GAAAAGTAAATT
*
8376953 GCTCCTCTAAACAGAGG-CAACGAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGTCCACG-ACTTTGAAAAGTAAATT
* *
8376992 GCTCCTCTAAATAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGT-CCACGACTTTGAAAAGTAAATT
* * *
8377033 GCTCCTCTCAACA-AGGTACACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTCCACGACTTTGAAAAGTAAATT
8377072 GCTCCTCTAAACAGAGGTACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGT-CCACGACTTTGAAAAGTAAATT
*
8377112 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTCCACG-ACTTTGAAAAGTAAATT
*
8377152 GCTCCTCTAAACAGAGG--CACGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGTCCACG-ACTTTGAAAAGTAAATT
*
8377191 GCTCCTCT-AACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-TCCACGACTTTG-AAAAGTAAATT
*
8377232 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-TCCACGACTTTGAAAAGTAAATT
*
8377273 GCTCCTCTAAACAGAGG-CAACGAACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGTCCACG-ACTTT-GAAAAGTAAAT
8377313 ACTCCTAGAC
Statistics
Matches: 401, Mismatches: 21, Indels: 40
0.87 0.05 0.09
Matches are distributed among these distances:
37 3 0.01
38 17 0.04
39 97 0.24
40 101 0.25
41 125 0.31
42 54 0.13
43 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGTCCACGACTTTGAAAAGTAAATT
Found at i:8376963 original size:40 final size:40
Alignment explanation
Indices: 8376851--8377312 Score: 581
Period size: 40 Copynumber: 11.5 Consensus size: 40
8376841 CAGAGGCTCT
*
8376851 ACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
1 ACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG-ACC
8376892 ACGACTTTGGAAAGATAAATTGCTCCTCTAAACAGAGGTACC
1 ACGACTTTGGAAA-ATAAATTGCTCCTCTAAACAGAGG-ACC
*
8376934 ACGACTTTGGAAAA-AAATTGCTCCTCTAAACAGAGG-CA
1 ACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGACC
* *
8376972 ACGAACTTT-GAAAGTAAATTGCTCCTCTAAATAGAGGTACC
1 ACG-ACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG-ACC
* *
8377013 ACGACTTTGGAAAGTAAATTGCTCCTCTCAACA-AGGTA-C
1 ACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG-ACC
*
8377052 ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACC
1 ACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG-ACC
* *
8377093 ACGACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGG-CA
1 ACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGACC
8377131 ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG--C
1 ACG-ACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGACC
*
8377170 ACGAACTTTGAAAAATAAATTGCTCCTCT-AACAGAGGCACC
1 ACG-ACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG-ACC
*
8377211 ACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
1 ACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGG-ACC
*
8377253 ACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG-CA
1 ACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGACC
8377292 ACGAACTTTGGAAAAGTAAAT
1 ACG-ACTTTGGAAAA-TAAAT
8377313 ACTCCTAGAC
Statistics
Matches: 388, Mismatches: 15, Indels: 36
0.88 0.03 0.08
Matches are distributed among these distances:
38 20 0.05
39 95 0.24
40 108 0.28
41 105 0.27
42 60 0.15
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (40 bp):
ACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGACC
Found at i:8377081 original size:80 final size:81
Alignment explanation
Indices: 8376851--8377312 Score: 669
Period size: 80 Copynumber: 5.7 Consensus size: 81
8376841 CAGAGGCTCT
*
8376851 ACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGATAAATTGC
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAG-TAAATTGC
8376915 TCCTCTAAACAGAGGTACC
63 TCCTCTAAACAGAGGTACC
8376934 ACGACTTTGGAAAA--AAATTGCTCCTCTAAACAGAGGCAACGAACTTT-GAAAGTAAATTGCTC
1 ACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATTGCTC
*
8376996 CTCTAAATAGAGGTACC
65 CTCTAAACAGAGGTACC
* * *
8377013 ACGACTTTGGAAAGTAAATTGCTCCTCTCAACA-AGGTACACG-ACTTTGGAAAGTAAATTGCTC
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGAACTTTGGAAAGTAAATTGCTC
8377076 CTCTAAACAGAGGTACC
65 CTCTAAACAGAGGTACC
*
8377093 ACGACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCC
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATTGCTCC
8377157 TCTAAACAGAGG---C
66 TCTAAACAGAGGTACC
* *
8377170 ACGAACTTTGAAAAATAAATTGCTCCTCT-AACAGAGGCACCACG-ACTTTGAAAAAGTAAATTG
1 ACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTTG-GAAAGTAAATTG
*
8377233 CTCCTCTAAACAGAGGCACC
62 CTCCTCTAAACAGAGGTACC
8377253 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAAT
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAGTAAAT
8377313 ACTCCTAGAC
Statistics
Matches: 349, Mismatches: 11, Indels: 39
0.87 0.03 0.10
Matches are distributed among these distances:
77 4 0.01
78 20 0.06
79 91 0.26
80 136 0.39
81 8 0.02
82 63 0.18
83 22 0.06
84 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATTGCTCC
TCTAAACAGAGGTACC
Found at i:8378516 original size:8 final size:8
Alignment explanation
Indices: 8378503--8378533 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
8378493 TTTGGATCTC
8378503 TTTTTTCA
1 TTTTTTCA
8378511 TTTTTTCA
1 TTTTTTCA
*
8378519 TTTTCTCA
1 TTTTTTCA
8378527 TTTTTTC
1 TTTTTTC
8378534 TTCTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:8378552 original size:6 final size:6
Alignment explanation
Indices: 8378528--8378568 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
8378518 ATTTTCTCAT
*
8378528 TTTTTC TTCTTTC --TTTC TTTTTC TTTTTC TTTTTT TTTTTC
1 TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
8378569 ATCATCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:8378565 original size:16 final size:16
Alignment explanation
Indices: 8378511--8378565 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
8378501 TCTTTTTTCA
* **
8378511 TTTTTTCATTTTCTCA
1 TTTTTTCTTTTTCTTT
8378527 TTTTTTCTTCTTTCTTT
1 TTTTTTCTT-TTTCTTT
*
8378544 CTTTTTCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
8378560 TTTTTT
1 TTTTTT
8378566 TTCATCATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:8378565 original size:17 final size:17
Alignment explanation
Indices: 8378527--8378590 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 17
8378517 CATTTTCTCA
8378527 TTTTTTCTTCTTTCTTT
1 TTTTTTCTTCTTTCTTT
*
8378544 CTTTTTCTT-TTTCTTT
1 TTTTTTCTTCTTTCTTT
*
8378560 TTTTTT-TTCATCATCTTT
1 TTTTTTCTTC-T-TTCTTT
8378578 TTTTTTCATTCTT
1 TTTTTTC-TTCTT
8378591 CCCCTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 2 0.05
16 12 0.32
17 9 0.24
18 11 0.29
19 1 0.03
20 3 0.08
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTCTTCTTTCTTT
Found at i:8378980 original size:1 final size:1
Alignment explanation
Indices: 8378974--8378999 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8378964 CCTTTTGTGG
8378974 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
8379000 CAAAAATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8382623 original size:161 final size:161
Alignment explanation
Indices: 8382231--8382710 Score: 783
Period size: 156 Copynumber: 3.0 Consensus size: 161
8382221 TTAAAATTTT
* * * *
8382231 ACCAAGTAGTTAGTTGTTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
8382296 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
* *
8382361 GATTATTTAAAG-----AAAAATCAAGATCA
131 GATTAATTAAAGAAAAAAAAAATCAAAATCA
*
8382387 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
8382452 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
8382517 GATTAATTAAAGAAAAAAAAAATCAAAATCA
131 GATTAATTAAAGAAAAAAAAAATCAAAATCA
* *
8382548 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
8382613 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
*
8382678 GGATTAATTAAAGAAAAAAGAAAA-AAAAATCA
130 GGATTAATTAAAGAAAAAA-AAAATCAAAATCA
8382710 A
1 A
8382711 GATCAAAATC
Statistics
Matches: 302, Mismatches: 15, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
156 135 0.45
161 114 0.38
162 49 0.16
163 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (161 bp):
ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
GATTAATTAAAGAAAAAAAAAATCAAAATCA
Found at i:8382725 original size:1 final size:1
Alignment explanation
Indices: 8382721--8382752 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
8382711 GATCAAAATC
8382721 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8382753 CCTGGAGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8383048 original size:19 final size:19
Alignment explanation
Indices: 8383024--8383068 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
8383014 GAACGCCGGT
*
8383024 GCCGGATTCTGGAAATTTC
1 GCCGGAATCTGGAAATTTC
*
8383043 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAATTTC
8383062 GCCGGAA
1 GCCGGAA
8383069 ATTGGCCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (19 bp):
GCCGGAATCTGGAAATTTC
Found at i:8383168 original size:31 final size:31
Alignment explanation
Indices: 8383130--8383202 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
8383120 AAACTGGGTC
*
8383130 TGTCGCCGGAAACTTC-AAAGTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
8383161 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
8383192 TTTCGCCGGAA
1 TGTCGCCGGAA
8383203 TCTGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:8383535 original size:12 final size:12
Alignment explanation
Indices: 8383518--8383550 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8383508 CTAGCCCTCC
8383518 AAAATAAAAATT
1 AAAATAAAAATT
8383530 AAAAT-AAAATT
1 AAAATAAAAATT
8383541 AAAA-AAAAAT
1 AAAATAAAAAT
8383551 CTAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:8383900 original size:20 final size:20
Alignment explanation
Indices: 8383845--8383903 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
8383835 CCATTTGGGG
* *
8383845 CAGGCCCAAATGATCTGGGT
1 CAGGCCCAATTGATCCGGGT
8383865 CAGGCCCAATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
8383885 CAGGCCCAATTGATCCGGG
1 CAGGCCCAATTGATCCGGG
8383904 CCCGGACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGCCCAATTGATCCGGGT
Found at i:8400438 original size:242 final size:245
Alignment explanation
Indices: 8400137--8400605 Score: 872
Period size: 242 Copynumber: 1.9 Consensus size: 245
8400127 AATAGATATC
8400137 TATTTTTTAGGAAAAAATTAGAAAAAAAAAACATTTCATTTTTTCTTACTATTTTAAATACAGTT
1 TATTTTTTAGGAAAAAATTA-AAAAAAAAAACATTTCATTTTTTCTTACTATTTTAAATACAGTT
*
8400202 TAAAAACAAAAAGTAAGAAAATAAAAATTAAAAGTTCTAGTATTTTTTTCACAATCATTAAATTT
65 TAAAAACAAAAAGTAAGAAAATAAAAATTAAAAGTTCTAGTATTTTTTCCACAATCATTAAATTT
8400267 TCAATTATTCAACATTAATCTAC-AAAAAAAAAAAAATCACCACTCCATACTATAATACTCATGA
130 TCAATTATTCAACATTAATCTACAAAAAAAAAAAAAATCACCACTCCATACTATAATACTCATGA
8400331 AATTCAAAACCCAAAACTAAACCCTATAAATAAAAAACGTTTCATTTTTTT
195 AATTCAAAACCCAAAACTAAACCCTATAAATAAAAAACGTTTCATTTTTTT
8400382 TATTTTTTAGGAAAAAATT-AAAAAAAAAACATTTCA-TTTTTCTTACTATTTTAAATACAGTTT
1 TATTTTTTAGGAAAAAATTAAAAAAAAAAACATTTCATTTTTTCTTACTATTTTAAATACAGTTT
*
8400445 AAAAATAAAAAGTAAGAAAATAAAAATTAAAAGTTCTAGTATTTTTTCCACAATCATTAAATTTT
66 AAAAACAAAAAGTAAGAAAATAAAAATTAAAAGTTCTAGTATTTTTTCCACAATCATTAAATTTT
*
8400510 CAATTATTCAATATTAATCTACAAAAAAAAAAAAAAATCACCACTCCATACTATAATACTCATGA
131 CAATTATTCAACATTAATCTAC-AAAAAAAAAAAAAATCACCACTCCATACTATAATACTCATGA
8400575 AATTCAAAACCCAAAACTAAACCCTATAAAT
195 AATTCAAAACCCAAAACTAAACCCTATAAAT
8400606 TTTTGTTTGT
Statistics
Matches: 219, Mismatches: 3, Indels: 5
0.96 0.01 0.02
Matches are distributed among these distances:
242 111 0.51
243 17 0.08
244 72 0.33
245 19 0.09
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (245 bp):
TATTTTTTAGGAAAAAATTAAAAAAAAAAACATTTCATTTTTTCTTACTATTTTAAATACAGTTT
AAAAACAAAAAGTAAGAAAATAAAAATTAAAAGTTCTAGTATTTTTTCCACAATCATTAAATTTT
CAATTATTCAACATTAATCTACAAAAAAAAAAAAAATCACCACTCCATACTATAATACTCATGAA
ATTCAAAACCCAAAACTAAACCCTATAAATAAAAAACGTTTCATTTTTTT
Found at i:8402129 original size:22 final size:22
Alignment explanation
Indices: 8402105--8402319 Score: 100
Period size: 22 Copynumber: 9.8 Consensus size: 22
8402095 TATCATTATG
* *
8402105 TTATCAATGATTTACTACTAAG
1 TTATCAATAATTTACTACTAAA
* *
8402127 TTATTAATAATTTATTACTAAA
1 TTATCAATAATTTACTACTAAA
* * * * *
8402149 ATAACATTAATTTACAACTAAT
1 TTATCAATAATTTACTACTAAA
* *
8402171 TTATAAATGATTTA-TCACTAAA
1 TTATCAATAATTTACT-ACTAAA
* * * *
8402193 TTATAAATGATTTACCATTAAA
1 TTATCAATAATTTACTACTAAA
**
8402215 TTATTGATAATTTA-TCACTAAA
1 TTATCAATAATTTACT-ACTAAA
* *
8402237 TTA-CTAAAAATTTATTA-TAAA
1 TTATC-AATAATTTACTACTAAA
* *
8402258 GTTAT-AACTGATTTACTACTAAG
1 -TTATCAA-TAATTTACTACTAAA
* * *
8402281 TTATCGATTATTTATTAC-AAA
1 TTATCAATAATTTACTACTAAA
* *
8402302 CTTATCAATTATTAACTA
1 -TTATCAATAATTTACTA
8402320 ATTTATTGCT
Statistics
Matches: 143, Mismatches: 39, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
21 8 0.06
22 130 0.91
23 5 0.03
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (22 bp):
TTATCAATAATTTACTACTAAA
Found at i:8402169 original size:44 final size:43
Alignment explanation
Indices: 8402114--8402250 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 43
8402104 GTTATCAATG
* * *
8402114 ATTTACTACTAAGTTATTAATAATTTATTACTAAA-ATAACATTA
1 ATTTACAACTAAATTATTAATAATTTATCACTAAATATAA-A-TA
* * * *
8402158 ATTTACAACTAATTTATAAATGATTTATCACTAAATTATAAATG
1 ATTTACAACTAAATTATTAATAATTTATCACTAAA-TATAAATA
* * *
8402202 ATTTACCATTAAATTATTGATAATTTATCACTAAATTACTAAA-A
1 ATTTACAACTAAATTATTAATAATTTATCACTAAA-TA-TAAATA
8402246 ATTTA
1 ATTTA
8402251 TTATAAAGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
44 68 0.88
45 5 0.06
46 4 0.05
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (43 bp):
ATTTACAACTAAATTATTAATAATTTATCACTAAATATAAATA
Found at i:8402344 original size:22 final size:22
Alignment explanation
Indices: 8402316--8402374 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
8402306 TCAATTATTA
**
8402316 ACTAATTTATTGCTAAATTATC
1 ACTAATTTATAACTAAATTATC
* *
8402338 TCTAATTTACAACTAAATTATC
1 ACTAATTTATAACTAAATTATC
8402360 ACTAATTTATAACTA
1 ACTAATTTATAACTA
8402375 TGTTATTAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (22 bp):
ACTAATTTATAACTAAATTATC
Found at i:8402374 original size:11 final size:11
Alignment explanation
Indices: 8402314--8402374 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
8402304 TATCAATTAT
8402314 TAACTAATTTA
1 TAACTAATTTA
** *
8402325 TTGCTAAATTA
1 TAACTAATTTA
**
8402336 TCTCTAATTTA
1 TAACTAATTTA
* *
8402347 CAACTAAATTA
1 TAACTAATTTA
*
8402358 TCACTAATTTA
1 TAACTAATTTA
8402369 TAACTA
1 TAACTA
8402375 TGTTATTAGT
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.43
Consensus pattern (11 bp):
TAACTAATTTA
Found at i:8403069 original size:22 final size:22
Alignment explanation
Indices: 8403020--8403070 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8403010 TTAAAGCAAA
*
8403020 ATTGATTTACTGTTAAGTTATC
1 ATTGATTTACTGTTAAGATATC
* *
8403042 ATTGATTTATTTTTAAGATAT-
1 ATTGATTTACTGTTAAGATATC
8403063 ATATGATT
1 AT-TGATT
8403071 AACTACTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (22 bp):
ATTGATTTACTGTTAAGATATC
Found at i:8403465 original size:22 final size:22
Alignment explanation
Indices: 8403396--8403579 Score: 92
Period size: 22 Copynumber: 8.4 Consensus size: 22
8403386 TACTATTATG
* * *
8403396 TTATTAATCATTTATTACTAAG
1 TTATCAATAATTTATTACTAAA
* * *
8403418 CTACCAATAATTTACTACTAAA
1 TTATCAATAATTTATTACTAAA
*
8403440 TTATCAATAATTTATTAC-ATAT
1 TTATCAATAATTTATTACTA-AA
* * *
8403462 TTATAAATGATTTA-TCCTTAAA
1 TTATCAATAATTTATTAC-TAAA
* * * *
8403484 TTATGAATTATTTATCACTAAG
1 TTATCAATAATTTATTACTAAA
*
8403506 TTA-CTGATAATTTATTA-TAAA
1 TTATC-AATAATTTATTACTAAA
* * *
8403527 GTTAT-AACTTATTTATTATTAAT
1 -TTATCAA-TAATTTATTACTAAA
* *
8403550 TTATGAATGATTTATTA-TAAAA
1 TTATCAATAATTTATTACT-AAA
8403572 TTATCAAT
1 TTATCAAT
8403580 GATTAACTAA
Statistics
Matches: 121, Mismatches: 30, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
21 8 0.07
22 106 0.88
23 7 0.06
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (22 bp):
TTATCAATAATTTATTACTAAA
Done.