Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 25 of 121
Found at i:4384063 original size:145 final size:146
Alignment explanation
Indices: 4383901--4384421 Score: 450
Period size: 145 Copynumber: 3.5 Consensus size: 146
4383891 CTAAACCACT
* ** *
4383901 AAACCTTAAAAACAAAACTTCAAACCTCTAAACCCTAAAAACTAAACCCTAAA-CCTACCAAATC
1 AAACCTTAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCC-ACCAAACC
* * * **
4383965 TTAAAATAAAAACCCCAAACCTTCAAACCCTAAAACTAAACTTCAAACCTCCAAACCCTAAAA-T
65 CTAAAATAAAAAACCCAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCCAAACCCTAAAAGT
* *
4384029 TAGACCCTAAA-CTCTCC
130 GAAACCCTAAACCT-TCC
*
4384046 AAACCTTAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCCATCAAACCC
1 AAACCTTAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCCACCAAACCC
* *
4384111 TAAAATAAAAAACCTAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCTAAACCCTAAAAGTG
66 TAAAATAAAAAACCCAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCCAAACCCTAAAAGTG
4384176 AAACCCTAAACCTTCC
131 AAACCCTAAACCTTCC
* * *
4384192 AAACCCTAAAATCAAAATCCCTAAAATCGAAACCCTAAACTTGTAAACCTTAATAA-TAAAACCC
1 AAACCTTAAAATCAAAA-CCC------C-AAA-CCT---C---TAAACCCTAAAAACT-AAACCC
* * * * * * *
4384256 TAAACCCTCCAAATCCTAAAAT-CAAAACCCTAAACCTCCAAATCCTAAAATTAAACCCTAAACC
50 TAAATCCACCAAACCCTAAAATAAAAAACCC-AAACCTCCAAACCCTAAAACTAAACCCCAAACC
* * * * *
4384320 -CTCAGTACCTTAAAA-TCAAAACCCCAAACCTTTC
114 TC-CA-AACCCTAAAAGT-GAAACCCTAAACCTTCC
* * * * * * *
4384354 -AACCTTAAAATCGAAACCCCAAACCTCCAAACCTTAAAATCAAAAACCT-AATCC-CTAAACCC
1 AAACCTTAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCCACCAAACCC
4384416 TAAAAT
66 TAAAAT
4384422 TAGAATCCTA
Statistics
Matches: 310, Mismatches: 42, Indels: 49
0.77 0.10 0.12
Matches are distributed among these distances:
144 12 0.04
145 116 0.37
146 47 0.15
147 5 0.02
149 1 0.00
152 3 0.01
153 4 0.01
154 4 0.01
155 3 0.01
158 1 0.00
160 11 0.04
161 81 0.26
162 22 0.07
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (146 bp):
AAACCTTAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCCACCAAACCC
TAAAATAAAAAACCCAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCCAAACCCTAAAAGTG
AAACCCTAAACCTTCC
Found at i:4384080 original size:15 final size:15
Alignment explanation
Indices: 4383922--4384319 Score: 120
Period size: 14 Copynumber: 27.3 Consensus size: 15
4383912 ACAAAACTTC
4383922 AAACCTCTAAACCCT
1 AAACCTCTAAACCCT
**
4383937 AAA-AACTAAACCCT
1 AAACCTCTAAACCCT
* * *
4383951 AAACCTACCAAATCTT
1 AAACCT-CTAAACCCT
* ** *
4383967 AAA-ATAAAAACCCC
1 AAACCTCTAAACCCT
4383981 AAACCT-TCAAACCCT
1 AAACCTCT-AAACCCT
* *
4383996 AAA--ACTAAA-CTT
1 AAACCTCTAAACCCT
*
4384008 CAAACCTCCAAACCCT
1 -AAACCTCTAAACCCT
* *
4384024 AAA-AT-TAGACCCT
1 AAACCTCTAAACCCT
* *
4384037 AAACTCTCCAAACCTT
1 AAAC-CTCTAAACCCT
* * *
4384053 AAA-ATCAAAACCCC
1 AAACCTCTAAACCCT
4384067 AAACCTCTAAACCCT
1 AAACCTCTAAACCCT
**
4384082 AAA-AACTAAACCCT
1 AAACCTCTAAACCCT
4384096 AAATCCATC-AAACCCT
1 AAA-CC-TCTAAACCCT
* ** *
4384112 AAA-ATAAAAAACCT
1 AAACCTCTAAACCCT
*
4384126 AAACCTCCAAACCCT
1 AAACCTCTAAACCCT
* *
4384141 AAA--ACTAAACCCC
1 AAACCTCTAAACCCT
4384154 AAACCTCTAAACCCT
1 AAACCTCTAAACCCT
** *
4384169 AAAAGT-GAAACCCT
1 AAACCTCTAAACCCT
*
4384183 AAACCTTCCAAACCCT
1 AAACC-TCTAAACCCT
* *
4384199 AAA-ATCAAAATCCCT
1 AAACCTCTAAA-CCCT
* *
4384214 AAA-ATCGAAACCCT
1 AAACCTCTAAACCCT
* * *
4384228 AAACTTGTAAACCTT
1 AAACCTCTAAACCCT
* *
4384243 AATA-AT-AAAACCCT
1 AA-ACCTCTAAACCCT
* *
4384257 AAACCCTCCAAATCCT
1 AAA-CCTCTAAACCCT
* *
4384273 AAA-ATCAAAACCCT
1 AAACCTCTAAACCCT
* *
4384287 AAACCTCCAAATCCT
1 AAACCTCTAAACCCT
*
4384302 AAA-AT-TAAACCCT
1 AAACCTCTAAACCCT
4384315 AAACC
1 AAACC
4384320 CTCAGTACCT
Statistics
Matches: 273, Mismatches: 80, Indels: 61
0.66 0.19 0.15
Matches are distributed among these distances:
12 2 0.01
13 36 0.13
14 94 0.34
15 91 0.33
16 49 0.18
17 1 0.00
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (15 bp):
AAACCTCTAAACCCT
Found at i:4384148 original size:21 final size:22
Alignment explanation
Indices: 4384034--4384171 Score: 88
Period size: 21 Copynumber: 6.3 Consensus size: 22
4384024 AAAATTAGAC
4384034 CCTAAACTCTCCAAACCT-TAAAA
1 CCTAAAC-C-CCAAACCTCTAAAA
* * *
4384057 TCAAAACCCCAAACCTCTAAAC
1 CCTAAACCCCAAACCTCTAAAA
** * *
4384079 CCTAAAAACTAAACC-CTAAAT
1 CCTAAACCCCAAACCTCTAAAA
* * **
4384100 CCATCAAACCCTAAA-ATAAAAAA
1 CC-T-AAACCCCAAACCTCTAAAA
4384123 CCTAAACCTCCAAACC-CTAAAA
1 CCTAAACC-CCAAACCTCTAAAA
*
4384145 -CTAAACCCCAAACCTCTAAAC
1 CCTAAACCCCAAACCTCTAAAA
4384166 CCTAAA
1 CCTAAA
4384172 AGTGAAACCC
Statistics
Matches: 87, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
20 7 0.08
21 32 0.37
22 30 0.34
23 18 0.21
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.16
Consensus pattern (22 bp):
CCTAAACCCCAAACCTCTAAAA
Found at i:4384187 original size:7 final size:7
Alignment explanation
Indices: 4384060--4384171 Score: 64
Period size: 7 Copynumber: 15.4 Consensus size: 7
4384050 CTTAAAATCA
*
4384060 AAACCCC
1 AAACCCT
4384067 AAACCTCT
1 AAACC-CT
4384075 AAACCCT
1 AAACCCT
**
4384082 AAAAACT
1 AAACCCT
4384089 AAACCCT
1 AAACCCT
*
4384096 AAATCCAT
1 AAA-CCCT
4384104 CAAACCCT
1 -AAACCCT
****
4384112 AAAATAA
1 AAACCCT
*
4384119 AAAACCT
1 AAACCCT
*
4384126 AAACCTCC
1 AAACC-CT
4384134 AAACCCT
1 AAACCCT
*
4384141 AAA-ACT
1 AAACCCT
*
4384147 AAACCCC
1 AAACCCT
4384154 AAACCTCT
1 AAACC-CT
4384162 AAACCCT
1 AAACCCT
4384169 AAA
1 AAA
4384172 AGTGAAACCC
Statistics
Matches: 78, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
6 5 0.06
7 46 0.59
8 24 0.31
9 3 0.04
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:4384225 original size:87 final size:85
Alignment explanation
Indices: 4383922--4384230 Score: 333
Period size: 87 Copynumber: 3.5 Consensus size: 85
4383912 ACAAAACTTC
* * * *
4383922 AAACCTCTAAACCCTAAAA-ACTAAACCCTAAACCTACCAAATCTTAAAATAAAAACCCCAAACC
1 AAACCTCCAAACCCTAAAATA--AAACCCTAAACCT-CCAAACCCTAAAATCAAAACCCCAAACC
*
4383986 T-TCAAACCCTAAAACTAAA-CTT
63 TCT-AAACCCTAAAACTAAACCCT
* * *
4384008 CAAACCTCCAAACCCTAAAATTAGACCCTAAACTCTCCAAACCTTAAAATCAAAACCCCAAACCT
1 -AAACCTCCAAACCCTAAAATAAAACCCTAAAC-CTCCAAACCCTAAAATCAAAACCCCAAACCT
4384073 CTAAACCCTAAAAACTAAACCCT
64 CTAAACCCT-AAAACTAAACCCT
* *
4384096 AAATCCAT-CAAACCCTAAAATAAAAAACCTAAACCTCCAAACCCTAAAA-CTAAACCCCAAACC
1 AAA-CC-TCCAAACCCTAAAAT-AAAACCCTAAACCTCCAAACCCTAAAATCAAAACCCCAAACC
*
4384159 TCTAAACCCTAAAAGTGAAACCCT
63 TCTAAACCCTAAAACT-AAACCCT
* *
4384183 AAACCTTCCAAACCCTAAAATCAAAATCCCTAAA-ATCGAAACCCTAAA
1 AAACC-TCCAAACCCTAAAAT-AAAA-CCCTAAACCTCCAAACCCTAAA
4384231 CTTGTAAACC
Statistics
Matches: 194, Mismatches: 17, Indels: 22
0.83 0.07 0.09
Matches are distributed among these distances:
86 52 0.27
87 95 0.49
88 37 0.19
89 10 0.05
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (85 bp):
AAACCTCCAAACCCTAAAATAAAACCCTAAACCTCCAAACCCTAAAATCAAAACCCCAAACCTCT
AAACCCTAAAACTAAACCCT
Found at i:4384254 original size:74 final size:72
Alignment explanation
Indices: 4383989--4384289 Score: 218
Period size: 74 Copynumber: 4.1 Consensus size: 72
4383979 CCAAACCTTC
* ** * * * * *
4383989 AAACCCTAAAACTAAACTTCAAACCTCCAAACCCTAAAA-TTAGACCCTAAACTCTCCAAACCTT
1 AAACCCTAAAACGAAACCCCAAACCTCTAAACCCTAAAAGTAAAACCCTAAACCCTCCAAACCCT
4384053 AAAATCA
66 AAAATCA
* * * * ** * * **
4384060 AAACCCCAAACCTCTAAACCCTAAA-AACTAAACCCTAAATCCA-TCAAACCCTAAA--ATAAAA
1 AAACCCTAAA--ACGAAACCCCAAACCTCTAAACCCTAAA---AGTAAAACCCTAAACCCTCCAA
* * *
4384121 AACCTAAACCTCC
61 ACCCTAAA-ATCA
* * *
4384134 AAACCCTAAAACTAAACCCCAAACCTCTAAACCCTAAAAGTGAAACCCTAAACCTTCCAAACCCT
1 AAACCCTAAAACGAAACCCCAAACCTCTAAACCCTAAAAGTAAAACCCTAAACCCTCCAAACCCT
4384199 AAAATCA
66 AAAATCA
* * * * *
4384206 AAATCCCTAAAATCGAAACCCTAAACTTGTAAACCTTAATAA-TAAAACCCTAAACCCTCCAAAT
1 AAA-CCCTAAAA-CGAAACCCCAAACCTCTAAACCCTAA-AAGTAAAACCCTAAACCCTCCAAAC
4384270 CCTAAAATCA
63 CCTAAAATCA
4384280 AAACCCTAAA
1 AAACCCTAAA
4384290 CCTCCAAATC
Statistics
Matches: 180, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
70 1 0.01
71 20 0.11
72 27 0.15
73 55 0.31
74 64 0.36
75 13 0.07
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.18
Consensus pattern (72 bp):
AAACCCTAAAACGAAACCCCAAACCTCTAAACCCTAAAAGTAAAACCCTAAACCCTCCAAACCCT
AAAATCA
Found at i:4384302 original size:29 final size:30
Alignment explanation
Indices: 4384192--4384404 Score: 178
Period size: 29 Copynumber: 7.3 Consensus size: 30
4384182 TAAACCTTCC
* * * *
4384192 AAACCCTAAA-ATCAAAATCCCTAAAATCG
1 AAACCCTAAACCTCCAAATCCTTAAAATCA
* **
4384221 AAACCCTAAACTTGTAAA-CCTTAATAAT-A
1 AAACCCTAAACCTCCAAATCCTTAA-AATCA
4384250 AAACCCTAAACCCTCCAAATCC-TAAAATCA
1 AAACCCTAAA-CCTCCAAATCCTTAAAATCA
*
4384280 AAACCCTAAACCTCCAAATCC-TAAAAT-T
1 AAACCCTAAACCTCCAAATCCTTAAAATCA
*
4384308 AAACCCTAAACC-CTC-AGTACCTTAAAATCA
1 AAACCCTAAACCTC-CAAAT-CCTTAAAATCA
* * *
4384338 AAACCCCAAACCTTTC-AA-CCTTAAAATCG
1 AAACCCTAAACC-TCCAAATCCTTAAAATCA
*
4384367 AAACCCCAAACCTCCAAA-CCTTAAAATCA
1 AAACCCTAAACCTCCAAATCCTTAAAATCA
*
4384396 AAAACCTAA
1 AAACCCTAA
4384405 TCCCTAAACC
Statistics
Matches: 153, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.02
28 17 0.11
29 92 0.60
30 37 0.24
31 4 0.03
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.19
Consensus pattern (30 bp):
AAACCCTAAACCTCCAAATCCTTAAAATCA
Found at i:4384315 original size:58 final size:60
Alignment explanation
Indices: 4384213--4384434 Score: 194
Period size: 58 Copynumber: 3.8 Consensus size: 60
4384203 TCAAAATCCC
* * ** *
4384213 TAAAATCGAAACCCTAAACTTGTAAACCTTAATAATAAAACCCTAAACCCTCCAAAT-CC-
1 TAAAATCAAAACCCTAAACCTCCAAACCTTAA-AATTAAACCCTAAACCCTCCAAATACCT
*
4384272 TAAAATCAAAACCCTAAACCTCCAAATCC-TAAAATTAAACCCTAAACCCT-C-AGTACCT
1 TAAAATCAAAACCCTAAACCTCCAAA-CCTTAAAATTAAACCCTAAACCCTCCAAATACCT
* * * *
4384330 TAAAATCAAAACCCCAAACCTTTC-AACCTTAAAATCGAAACCCCAAA-CCTCC-AA-ACCT
1 TAAAATCAAAACCCTAAACC-TCCAAACCTTAAAAT-TAAACCCTAAACCCTCCAAATACCT
* * * * *
4384388 TAAAATCAAAAACCTAATCC-CTAAACCCTAAAATTAGAATCCTAAAC
1 TAAAATCAAAACCCTAAACCTCCAAACCTTAAAATTA-AACCCTAAAC
4384435 TTTCCAAACC
Statistics
Matches: 133, Mismatches: 20, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
56 3 0.02
57 22 0.17
58 68 0.51
59 38 0.29
60 2 0.02
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.20
Consensus pattern (60 bp):
TAAAATCAAAACCCTAAACCTCCAAACCTTAAAATTAAACCCTAAACCCTCCAAATACCT
Found at i:4384365 original size:161 final size:161
Alignment explanation
Indices: 4384052--4384365 Score: 377
Period size: 161 Copynumber: 2.0 Consensus size: 161
4384042 CTCCAAACCT
4384052 TAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCCATCAAACCCTAAAAT
1 TAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCCATCAAACCCTAAAAT
*
4384117 AAAAAACCTAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCTAAACCCTAAAAGTGAAACCC
66 AAAAAACCTAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCTAAACCCTAAAAGTAAAACCC
*
4384182 TAAACCTTCCAAACCCTAAAATCAAAATCCC
131 CAAACCTTCCAAACCCTAAAATCAAAATCCC
* * * * * * * *
4384213 TAAAATCGAAACCCTAAACTTGTAAACCTTAATAA-TAAAACCCTAAA-CCCTCCAAATCCTAAA
1 TAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACT-AAACCCTAAATCCAT-CAAACCCTAAA
* * * * * * *
4384276 ATCAAAACCCTAAACCTCCAAATCCTAAAATTAAACCCTAAACC-CTCAGTACCTTAAAA-TCAA
64 ATAAAAAACCTAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCT-A-AACCCTAAAAGT-AA
* *
4384339 AACCCCAAACCTTTC-AACCTTAAAATC
126 AACCCCAAACCTTCCAAACCCTAAAATC
4384366 GAAACCCCAA
Statistics
Matches: 129, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
160 6 0.05
161 101 0.78
162 22 0.17
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.18
Consensus pattern (161 bp):
TAAAATCAAAACCCCAAACCTCTAAACCCTAAAAACTAAACCCTAAATCCATCAAACCCTAAAAT
AAAAAACCTAAACCTCCAAACCCTAAAACTAAACCCCAAACCTCTAAACCCTAAAAGTAAAACCC
CAAACCTTCCAAACCCTAAAATCAAAATCCC
Found at i:4384445 original size:87 final size:88
Alignment explanation
Indices: 4384249--4384447 Score: 203
Period size: 87 Copynumber: 2.3 Consensus size: 88
4384239 CCTTAATAAT
** * * *
4384249 AAAACCCTAAACCCTCCAAATCC-TAAAATCAAAACCCTAAACCTCCAAATCCTAAAATTAAACC
1 AAAACCCTAAACTTTCCAAA-CCTTAAAATCAAAACCCCAAACCTCCAAATCCTAAAATAAAAAC
* *
4384313 CTAAACCCTCAGTACCTTAAAATC
65 CTAAACCCTCAGAACCCTAAAATC
* *
4384337 AAAACCCCAAACCTTT-C-AACCTTAAAATCGAAACCCCAAACCTCCAAA-CCTTAAAATCAAAA
1 AAAACCCTAAA-CTTTCCAAACCTTAAAATCAAAACCCCAAACCTCCAAATCC-TAAAAT-AAAA
* *
4384399 ACCTAATCCCT-A-AACCCTAAAATT
63 ACCTAAACCCTCAGAACCCTAAAATC
* *
4384423 AGAATCCTAAACTTTCCAAACCTTA
1 AAAACCCTAAACTTTCCAAACCTTA
4384448 TGACCAAACC
Statistics
Matches: 91, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
85 4 0.04
86 22 0.24
87 40 0.44
88 23 0.25
89 2 0.02
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (88 bp):
AAAACCCTAAACTTTCCAAACCTTAAAATCAAAACCCCAAACCTCCAAATCCTAAAATAAAAACC
TAAACCCTCAGAACCCTAAAATC
Found at i:4385693 original size:2 final size:2
Alignment explanation
Indices: 4385681--4385712 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4385671 ATCTTACCCC
*
4385681 AT AT TT 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
4385713 TAGAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4389103 original size:25 final size:30
Alignment explanation
Indices: 4389075--4389130 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 30
4389065 GAATTATTGC
4389075 TATATATT-AA-A-TTAAAAG-AAA-ACTT
1 TATATATTCAATATTTAAAAGTAAAGACTT
4389100 TATATATTCAATATTTAAAAGTAAAGACTT
1 TATATATTCAATATTTAAAAGTAAAGACTT
4389130 T
1 T
4389131 TTTTGTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 8 0.31
26 2 0.08
27 1 0.04
28 7 0.27
29 3 0.12
30 5 0.19
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (30 bp):
TATATATTCAATATTTAAAAGTAAAGACTT
Found at i:4389185 original size:161 final size:161
Alignment explanation
Indices: 4388920--4389244 Score: 632
Period size: 161 Copynumber: 2.0 Consensus size: 161
4388910 TAGTTTTAAT
4388920 TTAAATTAAAAGAAAACTTTATATATTCAATATTTAAAAGTAAAGACTTTTTTTGTGATATGTAA
1 TTAAATTAAAAGAAAACTTTATATATTCAATATTTAAAAGTAAAGACTTTTTTTGTGATATGTAA
* *
4388985 TTTTTTTTATATTAAAACGTCTTTCACGAAATTTTTAGTGTATTTTATTTTTTAATTTTTAATTT
66 TTTTTTTTATATTAAAACGTCTTTCACGAAATTTTTAGTGTATTTTATTTTTAAATTTTTAATTA
4389050 TTATTTATTGACTGCGAATTATTGCTATATA
131 TTATTTATTGACTGCGAATTATTGCTATATA
4389081 TTAAATTAAAAGAAAACTTTATATATTCAATATTTAAAAGTAAAGACTTTTTTTGTGATATGTAA
1 TTAAATTAAAAGAAAACTTTATATATTCAATATTTAAAAGTAAAGACTTTTTTTGTGATATGTAA
4389146 TTTTTTTTATATTAAAACGTCTTTCACGAAATTTTTAGTGTATTTTATTTTTAAATTTTTAATTA
66 TTTTTTTTATATTAAAACGTCTTTCACGAAATTTTTAGTGTATTTTATTTTTAAATTTTTAATTA
4389211 TTATTTATTGACTGCGAATTATTGCTATATA
131 TTATTTATTGACTGCGAATTATTGCTATATA
4389242 TTA
1 TTA
4389245 TTTTCATATG
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 162 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (161 bp):
TTAAATTAAAAGAAAACTTTATATATTCAATATTTAAAAGTAAAGACTTTTTTTGTGATATGTAA
TTTTTTTTATATTAAAACGTCTTTCACGAAATTTTTAGTGTATTTTATTTTTAAATTTTTAATTA
TTATTTATTGACTGCGAATTATTGCTATATA
Found at i:4393308 original size:13 final size:14
Alignment explanation
Indices: 4393290--4393323 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
4393280 CACATTTTAT
4393290 TTTTATTTAAA-AA
1 TTTTATTTAAATAA
4393303 TTTTA-TTAAATAA
1 TTTTATTTAAATAA
4393316 TTTTATTT
1 TTTTATTT
4393324 GATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.26
13 12 0.63
14 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTATTTAAATAA
Found at i:4394917 original size:24 final size:23
Alignment explanation
Indices: 4394890--4394936 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4394880 TTTTTTGGTA
*
4394890 TTTTGCATTTTGCATTTTATATTT
1 TTTTGCATTCTGCATTTT-TATTT
* *
4394914 TTTTGTATTCTGTATTTTTATTT
1 TTTTGCATTCTGCATTTTTATTT
4394937 AATTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (23 bp):
TTTTGCATTCTGCATTTTTATTT
Found at i:4395297 original size:49 final size:50
Alignment explanation
Indices: 4395237--4396007 Score: 781
Period size: 50 Copynumber: 15.6 Consensus size: 50
4395227 AAAAACTCTC
* * * *
4395237 CTCAGCAGAGGCTTAATAACTTT-AAAATTTTATCTTGAAAAAGGCTCAT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGGCTCCT
* ** *
4395286 TTCAATAGAGGCTCAATAACTTTAAAAATTCTCATCTTGAAAAAGGCTCCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGGCTCCT
* ** * *
4395337 CTCCA-CAGAGGCTTAACAACTTTAAAAACCTCATCTTGGAAAGGGCTCCT
1 CT-CAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGGCTCCT
* * *
4395387 CTCAGCAGAGGCTTAACAACTTTAAAAATTCTCATTTTG-AAAAGGCTTCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGGCTCCT
* *
4395437 CTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATTTTGAAAAA-GCTTCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGGCTCCT
* * *
4395487 CTCAGCAGAGGCTCAATAACTTT-AAAATTCTTATCTTGAAAAGGGCTCCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGGCTCCT
* * * *
4395537 CTCAACAAAGGCTCAACAACTTTAAAAATCTCAT-TTGAAAAA-GCTTCAT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGGC-TCCT
* *
4395586 CTCAACAGAGGTTCAACAACTTTAAAAATCTT-ATCTTGAAAAA-GCTCCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAAT-TTCATCTTGAAAAAGGCTCCT
* * * *
4395635 CTTAACAGAGGCTCAACAACCTTT-AAAATTTCATCTGGAAAAA-GTTCCT
1 CTCAGCAGAGGCTCAACAA-CTTTAAAAATTTCATCTTGAAAAAGGCTCCT
* * *
4395684 CTCAGCAGAGGCCCAACAACTTTAAAAATTTTCATATT-AAAAAAGCTCCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAA-TTTCATCTTGAAAAAGGCTCCT
* * * * *
4395734 CTCAGCAAAGGCTCAACAAGTTTAAAAATCTCATCTTG-AAAATGCTCTT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGGCTCCT
* * *
4395783 CTCAACAGAGGCTCAACAATTTTAAAAATTCTCATCTTG-AAAA-GCTTCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGGCTCCT
* * * *
4395832 CTCAGCAAAGCCTCAATAACTTT-AAAATTTCAT-TTGAAAAAGGCTTCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGGCTCCT
* * * * **
4395880 CTCAGTAGAGGCTTAATAACTTTAAAAATTCTCATCTGGAAAAAAAC-CCTT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGGCTCC-T
* * * * *
4395931 CTCAGCAAAGGTTCAACAACTTT-AAAATTTCATC-TGAAAAAAGTTTCT
1 CTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGGCTCCT
4395979 CTCAGCAGAGGCTCAACAACTTTAAAAAT
1 CTCAGCAGAGGCTCAACAACTTTAAAAAT
4396008 CTTTATCTGT
Statistics
Matches: 613, Mismatches: 83, Indels: 52
0.82 0.11 0.07
Matches are distributed among these distances:
46 3 0.00
47 8 0.01
48 68 0.11
49 223 0.36
50 227 0.37
51 82 0.13
52 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (50 bp):
CTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGGCTCCT
Found at i:4395607 original size:99 final size:98
Alignment explanation
Indices: 4395237--4396007 Score: 817
Period size: 99 Copynumber: 7.8 Consensus size: 98
4395227 AAAAACTCTC
* * * * * * **
4395237 CTCAGCAGAGGCTTAATAACTTTAAAATTTTATCTTGAAAAAGGC-TCATTTCAATAGAGGCTCA
1 CTCAGCAAAGGCTCAACAACTTTAAAATCTCATCTTGAAAAA-GCTTC-TCTCAGCAGAGGCTCA
*
4395301 ATAACTTTAAAAATTCTCATCTTGAAAAAGGCTCCT
64 ACAACTTTAAAAATTCTCATCTTGAAAAA-GCTCCT
* * * ** * *
4395337 CTCCA-CAGAGGCTTAACAACTTTAAAAACCTCATCTTGGAAAGGGCTCCTCTCAGCAGAGGCTT
1 CT-CAGCAAAGGCTCAACAACTTT-AAAATCTCATCTT-GAAAAAGCTTCTCTCAGCAGAGGCTC
* * *
4395401 AACAACTTTAAAAATTCTCATTTTGAAAAGGCTTCT
63 AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCT
* *
4395437 CTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATTTTGAAAAAGCTTCTCTCAGCAGAGGCTCA
1 CTCAGCAAAGGCTCAACAACTTT-AAAA-TCTCATCTTGAAAAAGCTTCTCTCAGCAGAGGCTCA
* * *
4395502 ATAACTTT-AAAATTCTTATCTTGAAAAGGGCTCCT
64 ACAACTTTAAAAATTCTCATCTTGAAAA-AGCTCCT
* * *
4395537 CTCAACAAAGGCTCAACAACTTTAAAAATCTCAT-TTGAAAAAGCTTCATCTCAACAGAGGTTCA
1 CTCAGCAAAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTTC-TCTCAGCAGAGGCTCA
*
4395601 ACAACTTTAAAAA-TCTTATCTTGAAAAAGCTCCT
64 ACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCT
* * * * * *
4395635 CTTAACAGAGGCTCAACAACCTTTAAAATTTCATCTGGAAAAAG-TTCCTCTCAGCAGAGGCCCA
1 CTCAGCAAAGGCTCAACAA-CTTTAAAATCTCATCTTGAAAAAGCTT-CTCTCAGCAGAGGCTCA
* * *
4395699 ACAACTTTAAAAATTTTCATATTAAAAAAGCTCCT
64 ACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCT
* * *
4395734 CTCAGCAAAGGCTCAACAAGTTTAAAAATCTCATCTTGAAAATGC-TCTTCTCAACAGAGGCTCA
1 CTCAGCAAAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTTC-TCTCAGCAGAGGCTCA
* *
4395798 ACAATTTTAAAAATTCTCATCTTG-AAAAGCTTCT
64 ACAACTTTAAAAATTCTCATCTTGAAAAAGCTCCT
* * * * *
4395832 CTCAGCAAAGCCTCAATAACTTTAAAATTTCAT-TTGAAAAAGGCTTCTCTCAGTAGAGGCTTAA
1 CTCAGCAAAGGCTCAACAACTTTAAAATCTCATCTTGAAAAA-GCTTCTCTCAGCAGAGGCTCAA
* * *
4395896 TAACTTTAAAAATTCTCATCTGGAAAAAAAC-CCTT
65 CAACTTTAAAAATTCTCATCTTG-AAAAAGCTCC-T
* * *
4395931 CTCAGCAAAGGTTCAACAACTTTAAAATTTCATC-TGAAAAAAGTTTCTCTCAGCAGAGGCTCAA
1 CTCAGCAAAGGCTCAACAACTTTAAAATCTCATCTTG-AAAAAGCTTCTCTCAGCAGAGGCTCAA
4395995 CAACTTTAAAAAT
65 CAACTTTAAAAAT
4396008 CTTTATCTGT
Statistics
Matches: 571, Mismatches: 77, Indels: 47
0.82 0.11 0.07
Matches are distributed among these distances:
96 7 0.01
97 45 0.08
98 109 0.19
99 227 0.40
100 119 0.21
101 59 0.10
102 5 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (98 bp):
CTCAGCAAAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTTCTCTCAGCAGAGGCTCAAC
AACTTTAAAAATTCTCATCTTGAAAAAGCTCCT
Found at i:4409235 original size:17 final size:17
Alignment explanation
Indices: 4409214--4409306 Score: 93
Period size: 17 Copynumber: 5.5 Consensus size: 17
4409204 GACATCACCC
*
4409214 TTTTTTATTTTTTTATC
1 TTTTTTATTTTTTTATA
*
4409231 TTTTTT-TTATTTT-TA
1 TTTTTTATTTTTTTATA
*
4409246 TTTTTTATTTTTTTTGTA
1 TTTTTTA-TTTTTTTATA
*
4409264 TTTTTTATTTTTTTGTA
1 TTTTTTATTTTTTTATA
*
4409281 TTTTGTATTTTTGTT-TA
1 TTTTTTATTTTT-TTATA
*
4409298 ATTTTTATT
1 TTTTTTATT
4409307 ATTGTATTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
15 7 0.11
16 6 0.09
17 42 0.64
18 11 0.17
ACGTcount: A:0.13, C:0.01, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTTTATTTTTTTATA
Found at i:4409237 original size:11 final size:10
Alignment explanation
Indices: 4409214--4409309 Score: 66
Period size: 10 Copynumber: 8.9 Consensus size: 10
4409204 GACATCACCC
4409214 TTTTTTATTT
1 TTTTTTATTT
* *
4409224 TTTTATCTTT
1 TTTTTTATTT
*
4409234 TTTTTATTTTT
1 TTTTT-TATTT
4409245 ATTTTTTATTT
1 -TTTTTTATTT
4409256 TTTTTGTATTT
1 TTTTT-TATTT
*
4409267 TTTATTTTTTT
1 TTT-TTTATTT
4409278 GTATTTTGTATTT
1 -T-TTTT-TATTT
* *
4409291 TTGTTTAATT
1 TTTTTTATTT
*
4409301 TTTATTATT
1 TTTTTTATT
4409310 GTATTTAATA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
10 27 0.40
11 23 0.34
12 11 0.16
13 6 0.09
ACGTcount: A:0.14, C:0.01, G:0.04, T:0.81
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:4409243 original size:24 final size:25
Alignment explanation
Indices: 4409215--4409277 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
4409205 ACATCACCCT
4409215 TTTTTATTTTTTTATCTTTTTTT-TA
1 TTTTTATTTTTTTAT-TTTTTTTGTA
4409240 TTTTTA-TTTTTTATTTTTTTTGTA
1 TTTTTATTTTTTTATTTTTTTTGTA
4409264 TTTTTTATTTTTTT
1 -TTTTTATTTTTTT
4409278 GTATTTTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.20
24 10 0.29
25 12 0.34
26 6 0.17
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.86
Consensus pattern (25 bp):
TTTTTATTTTTTTATTTTTTTTGTA
Found at i:4409249 original size:25 final size:26
Alignment explanation
Indices: 4409215--4409277 Score: 94
Period size: 24 Copynumber: 2.5 Consensus size: 26
4409205 ACATCACCCT
* *
4409215 TTTTTATTTTTTTATCTTTTTTTTA-
1 TTTTTATTTTTTTATTTTTTTTGTAT
4409240 TTTTTA-TTTTTTATTTTTTTTGTAT
1 TTTTTATTTTTTTATTTTTTTTGTAT
4409265 TTTTTATTTTTTT
1 TTTTTATTTTTTT
4409278 GTATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 16 0.47
25 12 0.35
26 6 0.18
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.86
Consensus pattern (26 bp):
TTTTTATTTTTTTATTTTTTTTGTAT
Found at i:4409276 original size:32 final size:32
Alignment explanation
Indices: 4409214--4409275 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
4409204 GACATCACCC
*
4409214 TTTTTTATTTTTTTATCTTTTTTTTATTTTTA
1 TTTTTTATTTTTTTATCTATTTTTTATTTTTA
*
4409246 TTTTTTATTTTTTT-TGTATTTTTTATTTTT
1 TTTTTTATTTTTTTATCTATTTTTTATTTTT
4409276 TTGTATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.85
Consensus pattern (32 bp):
TTTTTTATTTTTTTATCTATTTTTTATTTTTA
Found at i:4409284 original size:24 final size:24
Alignment explanation
Indices: 4409214--4409292 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
4409204 GACATCACCC
* * *
4409214 TTTTTTATTTTTTTATCTTTTTTT
1 TTTTTTATTTTTTTATATTTTGTA
* *
4409238 TATTTTTATTTTTTATTTTTTTTGTA
1 T-TTTTTATTTTTT-TATATTTTGTA
*
4409264 TTTTTTATTTTTTTGTATTTTGTA
1 TTTTTTATTTTTTTATATTTTGTA
4409288 TTTTT
1 TTTTT
4409293 GTTTAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.32
25 24 0.51
26 8 0.17
ACGTcount: A:0.11, C:0.01, G:0.04, T:0.84
Consensus pattern (24 bp):
TTTTTTATTTTTTTATATTTTGTA
Found at i:4409306 original size:24 final size:23
Alignment explanation
Indices: 4409234--4409315 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
4409224 TTTTATCTTT
4409234 TTTTTATTTT-TATTTTTTATT-
1 TTTTTATTTTGTATTTTTTATTA
*
4409255 ---TT-TTTTGTATTTTTTATTT
1 TTTTTATTTTGTATTTTTTATTA
4409274 TTTTGTATTTTGTATTTTTGT-TTAA
1 TTTT-TATTTTGTATTTTT-TATT-A
4409299 TTTTTATTATTGTATTT
1 TTTTTATT-TTGTATTT
4409316 AATAGTATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
17 4 0.08
18 13 0.26
22 1 0.02
23 1 0.02
24 18 0.36
25 13 0.26
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (23 bp):
TTTTTATTTTGTATTTTTTATTA
Found at i:4409475 original size:23 final size:24
Alignment explanation
Indices: 4409448--4409492 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4409438 GAAATCTCAA
*
4409448 TTCAAAACTTTAT-TTAATAAAAT
1 TTCAAAACTGTATCTTAATAAAAT
*
4409471 TTCAAACCTGTATCTTAATAAA
1 TTCAAAACTGTATCTTAATAAA
4409493 GTCAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (24 bp):
TTCAAAACTGTATCTTAATAAAAT
Found at i:4412384 original size:25 final size:25
Alignment explanation
Indices: 4412355--4412404 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4412345 TTTAAAGATT
4412355 CTCATCCTTGGATAATTGTTAAATA
1 CTCATCCTTGGATAATTGTTAAATA
4412380 CTCATCCTTGGATAATTGTTAAATA
1 CTCATCCTTGGATAATTGTTAAATA
4412405 TTTTCAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (25 bp):
CTCATCCTTGGATAATTGTTAAATA
Found at i:4412601 original size:10 final size:10
Alignment explanation
Indices: 4412586--4412631 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
4412576 TTAATTTCAA
4412586 AATTTTTATT
1 AATTTTTATT
*
4412596 AATTTTT-CT
1 AATTTTTATT
*
4412605 ATTTTTTATT
1 AATTTTTATT
4412615 AATTTTT-TT
1 AATTTTTATT
*
4412624 ATTTTTTA
1 AATTTTTA
4412632 AATTGAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
9 15 0.52
10 14 0.48
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
AATTTTTATT
Found at i:4412610 original size:19 final size:19
Alignment explanation
Indices: 4412588--4412631 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
4412578 AATTTCAAAA
4412588 TTTTTATTAATTTTTCTAT
1 TTTTTATTAATTTTTCTAT
*
4412607 TTTTTATTAATTTTTTTAT
1 TTTTTATTAATTTTTCTAT
4412626 TTTTTA
1 TTTTTA
4412632 AATTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTAATTTTTCTAT
Found at i:4412755 original size:26 final size:26
Alignment explanation
Indices: 4412704--4412756 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4412694 ACAAACTTAA
* *
4412704 ATAAAAATTTCTCACCTTGGAATTCT
1 ATAAAAATTTATCACCTTGAAATTCT
*
4412730 ATAAAAATTTATCA-TTTGAAACTTCT
1 ATAAAAATTTATCACCTTGAAA-TTCT
4412756 A
1 A
4412757 AAATTTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (26 bp):
ATAAAAATTTATCACCTTGAAATTCT
Found at i:4412912 original size:18 final size:19
Alignment explanation
Indices: 4412877--4412914 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4412867 AAATAACTAA
* *
4412877 ATAAATAAAAATATAAAAT
1 ATAAATAAAAACAAAAAAT
4412896 ATAAA-AAAAACAAAAAAT
1 ATAAATAAAAACAAAAAAT
4412914 A
1 A
4412915 GACTCGGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (19 bp):
ATAAATAAAAACAAAAAAT
Found at i:4413196 original size:23 final size:23
Alignment explanation
Indices: 4413161--4413205 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4413151 TCCCTCAAAA
* *
4413161 TTTCTCTTCTCTCTCTCTCTCTT
1 TTTCCCTTCTCTCTCCCTCTCTT
*
4413184 TTTCCCTTTTCTCTCCCTCTCT
1 TTTCCCTTCTCTCTCCCTCTCT
4413206 CTCTAGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTCCCTTCTCTCTCCCTCTCTT
Found at i:4413894 original size:21 final size:21
Alignment explanation
Indices: 4413870--4413912 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4413860 ACCAAAGAAA
* *
4413870 TAAAATAATTATAATAAAAAT
1 TAAAATAAATAAAATAAAAAT
*
4413891 TAAATTAAATAAAATAAAAAT
1 TAAAATAAATAAAATAAAAAT
4413912 T
1 T
4413913 GGGCTCACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATAAATAAAATAAAAAT
Found at i:4417291 original size:8 final size:8
Alignment explanation
Indices: 4417278--4417302 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4417268 ATTTCTAATA
4417278 TCAAAGTT
1 TCAAAGTT
4417286 TCAAAGTT
1 TCAAAGTT
4417294 TCAAAGTT
1 TCAAAGTT
4417302 T
1 T
4417303 ATTCTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TCAAAGTT
Found at i:4417503 original size:16 final size:17
Alignment explanation
Indices: 4417484--4417516 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4417474 ATTAATTGAT
4417484 AAAATTTATA-ATTTTG
1 AAAATTTATATATTTTG
4417500 AAAATTTATATATTTTG
1 AAAATTTATATATTTTG
4417517 GTGGTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
AAAATTTATATATTTTG
Found at i:4417538 original size:2 final size:2
Alignment explanation
Indices: 4417533--4417562 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4417523 TATAATTTGC
*
4417533 AT AT AT AT GT 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
4417563 TTAGGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4418629 original size:17 final size:19
Alignment explanation
Indices: 4418607--4418647 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
4418597 TTTTTTCTTA
4418607 TTTATATTATT-ATT-ATT
1 TTTATATTATTAATTAATT
4418624 TTTATATTATTAATTAATT
1 TTTATATTATTAATTAATT
4418643 TTTAT
1 TTTAT
4418648 CTATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATATTATTAATTAATT
Found at i:4419644 original size:13 final size:15
Alignment explanation
Indices: 4419613--4419644 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4419603 GACTGAGTTA
4419613 TTTTTTGTGTGTGTT
1 TTTTTTGTGTGTGTT
4419628 TTTTTTGT-TGT-TT
1 TTTTTTGTGTGTGTT
4419641 TTTT
1 TTTT
4419645 GGCAAAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 3 0.18
15 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (15 bp):
TTTTTTGTGTGTGTT
Found at i:4419932 original size:7 final size:7
Alignment explanation
Indices: 4419922--4419973 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
4419912 CATTTTTTTT
4419922 TTTTGTA
1 TTTTGTA
4419929 TTTTGTA
1 TTTTGTA
4419936 -TTT-T-
1 TTTTGTA
*
4419940 TTTGGTA
1 TTTTGTA
4419947 TTTTGTA
1 TTTTGTA
4419954 TTTTTTGTA
1 --TTTTGTA
4419963 TTTTGTA
1 TTTTGTA
4419970 TTTT
1 TTTT
4419974 TGTTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 3 0.08
6 4 0.11
7 24 0.63
9 7 0.18
ACGTcount: A:0.12, C:0.00, G:0.13, T:0.75
Consensus pattern (7 bp):
TTTTGTA
Found at i:4419941 original size:16 final size:16
Alignment explanation
Indices: 4419920--4419974 Score: 92
Period size: 16 Copynumber: 3.3 Consensus size: 16
4419910 CCCATTTTTT
4419920 TTTTTTGTATTTTGTA
1 TTTTTTGTATTTTGTA
4419936 TTTTTTTGGTATTTTGTA
1 -TTTTTT-GTATTTTGTA
4419954 TTTTTTGTATTTTGTA
1 TTTTTTGTATTTTGTA
4419970 TTTTT
1 TTTTT
4419975 GTTTAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
16 15 0.41
17 12 0.32
18 10 0.27
ACGTcount: A:0.11, C:0.00, G:0.13, T:0.76
Consensus pattern (16 bp):
TTTTTTGTATTTTGTA
Found at i:4419941 original size:18 final size:18
Alignment explanation
Indices: 4419918--4419974 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
4419908 CCCCCATTTT
4419918 TTTTTTTTGTATTTTGTA
1 TTTTTTTTGTATTTTGTA
*
4419936 TTTTTTTGGTATTTTGTA
1 TTTTTTTTGTATTTTGTA
4419954 --TTTTTTGTATTTTGTA
1 TTTTTTTTGTATTTTGTA
4419970 TTTTT
1 TTTTT
4419975 GTTTAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 15 0.43
18 20 0.57
ACGTcount: A:0.11, C:0.00, G:0.12, T:0.77
Consensus pattern (18 bp):
TTTTTTTTGTATTTTGTA
Found at i:4419984 original size:34 final size:32
Alignment explanation
Indices: 4419913--4419997 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 32
4419903 GCCATCCCCC
*
4419913 ATTTTTTTTTTTTGTATTTTGTATTTTTTTGGT
1 ATTTTTATTTTTTGTATTTTGTATTTTTTT-GT
4419946 ATTTTGTATTTTTTGTATTTTGTATTTTTGTT-T
1 ATTTT-TATTTTTTGTATTTTGTATTTTT-TTGT
*
4419979 AATTTTTA-TTATTGTATTT
1 -ATTTTTATTTTTTGTATTT
4419998 AATAATATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
32 10 0.21
33 8 0.17
34 27 0.57
35 2 0.04
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (32 bp):
ATTTTTATTTTTTGTATTTTGTATTTTTTTGT
Found at i:4420446 original size:49 final size:50
Alignment explanation
Indices: 4420295--4420696 Score: 402
Period size: 49 Copynumber: 8.2 Consensus size: 50
4420285 GGTTTAACTT
* * * *
4420295 CTTTAAAAATTACATCTTGAAAAAGGCT-ATTTTTAGCAGAGGCTCAACAA
1 CTTTAAAAATTTCATCTTGAAAAAGGCTCA-TCTCAACAGAGGCTCAACAA
* * * * *
4420345 CTTTAAAAATCTCATCTTGAAAAGGGCTCTTCTCAACAAAGGCTCAATAA
1 CTTTAAAAATTTCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCAACAA
* *
4420395 CTTTAAAAATTCGCATCTTG-AAAA-GCTCATCTCAGCAGAGGCTCAACAA
1 CTTTAAAAATT-TCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCAACAA
* * * *
4420444 CTTTAAAAATTCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGTTCAACAA
1 CTTTAAAAATT-TCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCAACAA
* * *
4420495 --TTATAAAATCTCAT-TTGAAAAA-GCT-ACTCTCAGCAGAGGCTCAATAA
1 CTTTA-AAAATTTCATCTTGAAAAAGGCTCA-TCTCAACAGAGGCTCAACAA
* *
4420542 CTTTAAAAATTTTATCTTG-AAAAGGCTTC-TTTCAACAGAGGCTCAACAA
1 CTTTAAAAATTTCATCTTGAAAAAGGC-TCATCTCAACAGAGGCTCAACAA
* * *
4420591 CTTTAAAAA--TCATCTTGAAAAAGGGCTCCTCTCAATAGAAGCTCAACAA
1 CTTTAAAAATTTCATCTTGAAAAA-GGCTCATCTCAACAGAGGCTCAACAA
* *
4420640 CTTTAAAAATTT-AT-TTGGAAAA-GCTCCTCTCAACAGAGGCTCAACAA
1 CTTTAAAAATTTCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCAACAA
*
4420687 TTTTAAAAAT
1 CTTTAAAAAT
4420697 CACATCTGTT
Statistics
Matches: 298, Mismatches: 37, Indels: 37
0.80 0.10 0.10
Matches are distributed among these distances:
47 60 0.20
48 26 0.09
49 116 0.39
50 65 0.22
51 31 0.10
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (50 bp):
CTTTAAAAATTTCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCAACAA
Found at i:4420581 original size:147 final size:146
Alignment explanation
Indices: 4420295--4420696 Score: 476
Period size: 147 Copynumber: 2.7 Consensus size: 146
4420285 GGTTTAACTT
* ** * *
4420295 CTTTAAAAATTACATCTTGAAAAAGGCTATTTTTAGCAGAGGCTCAACAACTTTAAAAATCTCAT
1 CTTTAAAAATTTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
* *
4420360 CTTGAAAAGGGCTCTTCTCAACAAAGGCTCAATAACTTTAAAAATTCGCATCTTGAAAAGCTCAT
66 -TTGAAAA-AGCTC-TCTCAACAGAGGCTCAATAACTTTAAAAATTCGCATCTTGAAAAGCTCAT
*
4420425 CTCAGCAGAGGCTCAACAA
128 CTCAACAGAGGCTCAACAA
* *
4420444 CTTTAAAAATTCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGTTCAACAA--TTATAAAATCTC
1 CTTTAAAAATT-TCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTA-AAAATCTC
* **
4420507 ATTTGAAAAAGCTACTCTCAGCAGAGGCTCAATAACTTTAAAAATT-TTATCTTGAAAAGGCTTC
64 ATTTGAAAAAGCT-CTCTCAACAGAGGCTCAATAACTTTAAAAATTCGCATCTTGAAAA-GC-TC
*
4420571 -TTTCAACAGAGGCTCAACAA
126 ATCTCAACAGAGGCTCAACAA
** * *
4420591 CTTTAAAAA--TCATCTTGAAAAAGGGCTCCTCTCAATAGAAGCTCAACAACTTTAAAAAT-TTA
1 CTTTAAAAATTTCATCTTGAAAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCA
* * *
4420653 TTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAATTTTAAAAAT
65 TTTGAAAAAGCT-CTCTCAACAGAGGCTCAATAACTTTAAAAAT
4420697 CACATCTGTT
Statistics
Matches: 220, Mismatches: 25, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
144 12 0.05
145 63 0.29
146 15 0.07
147 64 0.29
148 13 0.06
149 21 0.10
150 32 0.15
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (146 bp):
CTTTAAAAATTTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
TTGAAAAAGCTCTCTCAACAGAGGCTCAATAACTTTAAAAATTCGCATCTTGAAAAGCTCATCTC
AACAGAGGCTCAACAA
Found at i:4420942 original size:178 final size:178
Alignment explanation
Indices: 4420643--4420994 Score: 650
Period size: 178 Copynumber: 2.0 Consensus size: 178
4420633 TCAACAACTT
* *
4420643 TAAAAATTTATTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAATTTTAAAAATCACATCTGTTC
1 TAAAAATTTATTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAATTTTAAAAATCACATATGTTC
*
4420708 TTTAAATCGAGTTTTCATCTTTGAATAAGTAAATTTTTCTTTTTTTAAATTTTTTTGTTTGATCT
66 TTTAAATCGAGTTTTCATCTTTGAACAAGTAAATTTTTCTTTTTTTAAATTTTTTTGTTTGATCT
*
4420773 TGTTTTTCATTAGGAAATGAAAAGTCTTTGTCCTTATTAAAACTGCTC
131 TGTTTTTCATTAGGAAATGAAAAGTCTTTGTCCTCATTAAAACTGCTC
*
4420821 TAAAAATTTATTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAATTTTAAAAATCTCATATGTTC
1 TAAAAATTTATTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAATTTTAAAAATCACATATGTTC
*
4420886 TTTAAATTGAGTTTTCATCTTTGAACAAGTAAATTTTTCTTTTTTTAAATTTTTTTGTTTGATCT
66 TTTAAATCGAGTTTTCATCTTTGAACAAGTAAATTTTTCTTTTTTTAAATTTTTTTGTTTGATCT
4420951 TGTTTTTCATTAGGAAATGAAAAGTCTTTGTCCTCATTAAAACT
131 TGTTTTTCATTAGGAAATGAAAAGTCTTTGTCCTCATTAAAACT
4420995 ACTCATAGAT
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 168 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (178 bp):
TAAAAATTTATTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAATTTTAAAAATCACATATGTTC
TTTAAATCGAGTTTTCATCTTTGAACAAGTAAATTTTTCTTTTTTTAAATTTTTTTGTTTGATCT
TGTTTTTCATTAGGAAATGAAAAGTCTTTGTCCTCATTAAAACTGCTC
Found at i:4433978 original size:9 final size:9
Alignment explanation
Indices: 4433966--4433990 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4433956 TTTTTTAAAA
4433966 TATTATTTT
1 TATTATTTT
4433975 TATTATTTT
1 TATTATTTT
4433984 TATTATT
1 TATTATT
4433991 ATTTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTATTTT
Found at i:4434341 original size:17 final size:17
Alignment explanation
Indices: 4434299--4434347 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
4434289 TTTCTTACAA
*
4434299 AATAATAGATA-AAAATT
1 AATAATA-ATATAAAAAT
4434316 AATTAATAATATAAAAAT
1 AA-TAATAATATAAAAAT
4434334 AATAATAATATAAA
1 AATAATAATATAAA
4434348 TAAGGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AATAATAATATAAAAAT
Found at i:4435461 original size:18 final size:17
Alignment explanation
Indices: 4435424--4435456 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4435414 TATATACCAC
4435424 CAAAATATATAAATTTT
1 CAAAATATATAAATTTT
4435441 CAAAAT-TATAAATTTT
1 CAAAATATATAAATTTT
4435457 ATCAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
CAAAATATATAAATTTT
Found at i:4435650 original size:8 final size:8
Alignment explanation
Indices: 4435639--4435663 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4435629 TTAAAAGAAT
4435639 AAACTTTG
1 AAACTTTG
4435647 AAACTTTG
1 AAACTTTG
4435655 AAACTTTG
1 AAACTTTG
4435663 A
1 A
4435664 TATTAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (8 bp):
AAACTTTG
Found at i:4436416 original size:13 final size:15
Alignment explanation
Indices: 4436385--4436416 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4436375 GACTGAGTTA
4436385 TTTTTTGTGTGTGTT
1 TTTTTTGTGTGTGTT
4436400 TTTTTTGT-TGT-TT
1 TTTTTTGTGTGTGTT
4436413 TTTT
1 TTTT
4436417 GGCAGAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 3 0.18
15 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (15 bp):
TTTTTTGTGTGTGTT
Found at i:4436717 original size:18 final size:18
Alignment explanation
Indices: 4436690--4436752 Score: 87
Period size: 18 Copynumber: 3.7 Consensus size: 18
4436680 CCCTCATTTT
4436690 TTTTGT-TTTTTTTTGTA
1 TTTTGTATTTTTTTTGTA
*
4436707 TTTTGTATTTTTTTGGTA
1 TTTTGTATTTTTTTTGTA
*
4436725 -TTT-TATATTTTTTGTA
1 TTTTGTATTTTTTTTGTA
4436741 TTTTGTATTTTT
1 TTTTGTATTTTT
4436753 GTTTAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
16 11 0.28
17 12 0.31
18 16 0.41
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (18 bp):
TTTTGTATTTTTTTTGTA
Found at i:4436719 original size:16 final size:16
Alignment explanation
Indices: 4436698--4436752 Score: 83
Period size: 16 Copynumber: 3.3 Consensus size: 16
4436688 TTTTTTGTTT
4436698 TTTTTTGTATTTTGTA
1 TTTTTTGTATTTTGTA
*
4436714 TTTTTTTGGTATTTTATA
1 -TTTTTT-GTATTTTGTA
4436732 TTTTTTGTATTTTGTA
1 TTTTTTGTATTTTGTA
4436748 TTTTT
1 TTTTT
4436753 GTTTAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 14 0.40
17 12 0.34
18 9 0.26
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (16 bp):
TTTTTTGTATTTTGTA
Found at i:4436728 original size:27 final size:27
Alignment explanation
Indices: 4436687--4436744 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
4436677 CATCCCTCAT
* * * *
4436687 TTTTTTTGTTTTTTTTTGTATTTTGTA
1 TTTTTTTGGTATTTTATATATTTTGTA
*
4436714 TTTTTTTGGTATTTTATATTTTTTGTA
1 TTTTTTTGGTATTTTATATATTTTGTA
4436741 TTTT
1 TTTT
4436745 GTATTTTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (27 bp):
TTTTTTTGGTATTTTATATATTTTGTA
Found at i:4436762 original size:34 final size:32
Alignment explanation
Indices: 4436698--4436775 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 32
4436688 TTTTTTGTTT
4436698 TTTTTTGTATTTTGTATTTTTTTGGTATTTTATA
1 TTTTTTGTATTTTGTATTTTTTT-GTATTTT-TA
4436732 TTTTTTGTATTTTGTATTTTTGTT-TAATTTTTA
1 TTTTTTGTATTTTGTATTTTT-TTGT-ATTTTTA
*
4436765 -TTATTGTATTT
1 TTTTTTGTATTT
4436776 AATAATATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
32 10 0.24
33 3 0.07
34 26 0.63
35 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (32 bp):
TTTTTTGTATTTTGTATTTTTTTGTATTTTTA
Found at i:4437225 original size:49 final size:50
Alignment explanation
Indices: 4437072--4437531 Score: 400
Period size: 49 Copynumber: 9.4 Consensus size: 50
4437062 GGTTTAACTT
* * * *
4437072 CTTTAAAAATT-ACATCTTGAAAAAAGG-TCTTTTTAGCAGAGGCTCAACAA
1 CTTTAAAAATTCTCATCTTG--AAAAGGCTCATCTCAGCAGAGGCTCAACAA
* * * * *
4437122 CTTTAAAAA-TCTCATCTTGAAAAGGGCTCTTCTCAACAAAGCCTCAATAA
1 CTTTAAAAATTCTCATCTTGAAAA-GGCTCATCTCAGCAGAGGCTCAACAA
* *
4437172 CTTTAAAAATTCGCATCTTGAAAA-GCTCATCTCAGCAGAGGTTCAACAA
1 CTTTAAAAATTCTCATCTTGAAAAGGCTCATCTCAGCAGAGGCTCAACAA
* *
4437221 CTTTAAAAATTCTCATTTTGAAAAAGGCTCATCTCAGCAGAGGTTCAACAA
1 CTTTAAAAATTCTCATCTTG-AAAAGGCTCATCTCAGCAGAGGCTCAACAA
* *
4437272 --TTATAAAA-TCTCAT-TTGAAAAAGCT-ACTCTCAGCAGAGGCTGAACAA
1 CTTTA-AAAATTCTCATCTTGAAAAGGCTCA-TCTCAGCAGAGGCTCAACAA
* * * *
4437319 CTTTAAAAATTCGCATCTTGAAAAGGGCTCATCTTAGTAAAGGCTCAACAA
1 CTTTAAAAATTCTCATCTTGAAAA-GGCTCATCTCAGCAGAGGCTCAACAA
* * *
4437370 CTTTAAAAATT-TTATCTTGAAAAGGCTTC-TTTCAACAGAGGCTCAACAA
1 CTTTAAAAATTCTCATCTTGAAAAGGC-TCATCTCAGCAGAGGCTCAACAA
* ** * *
4437419 CTTTAAAAA---TCATCTTGAAAAAGGGCTCCTCTCAATAAAAGCTCAACAA
1 CTTTAAAAATTCTCATCTTG-AAAA-GGCTCATCTCAGCAGAGGCTCAACAA
* * * *
4437468 CTTTAAAAATT-T--TTTTGGAAAA-GCTCCTCTCAACAAAGGCTCAACAA
1 CTTTAAAAATTCTCATCTT-GAAAAGGCTCATCTCAGCAGAGGCTCAACAA
*
4437515 TTTTAAAAA-TCTCATCT
1 CTTTAAAAATTCTCATCT
4437532 GTTCTTTAAA
Statistics
Matches: 344, Mismatches: 42, Indels: 49
0.79 0.10 0.11
Matches are distributed among these distances:
46 2 0.01
47 64 0.19
48 17 0.05
49 121 0.35
50 70 0.20
51 69 0.20
52 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (50 bp):
CTTTAAAAATTCTCATCTTGAAAAGGCTCATCTCAGCAGAGGCTCAACAA
Found at i:4437225 original size:149 final size:146
Alignment explanation
Indices: 4437040--4437478 Score: 480
Period size: 149 Copynumber: 3.0 Consensus size: 146
4437030 TTTTAAAATA
* * ** *
4437040 TGAAAAGACTCCTCTTAGTAGAGGTTTAACTTCTTTAAAAATTACATCTTGAAAAAAGGTCTTTT
1 TGAAAAG-CTCATCTTAGTAGAGGTTCAACAACTTTAAAAATTTCATCTTG-AAAAAGGTCTTTT
*
4437105 TAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTCTTCTCAACAAAGCCTCAAT
64 TAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTC-TCTCAACAAAG-CTCAAC
4437170 AACTTTAAAAATTCGCATCT
127 AACTTTAAAAATTCGCATCT
* * * * *
4437190 TGAAAAGCTCATCTCAGCAGAGGTTCAACAACTTTAAAAATTCTCATTTTGAAAAAGGCTCATCT
1 TGAAAAGCTCATCTTAGTAGAGGTTCAACAACTTTAAAAATT-TCATCTTGAAAAAGG-TCTTTT
* * * * * *
4437255 CAGCAGAGGTTCAACAA--TTATAAAATCTCAT-TTGAAAA-AGCTACTCTCAGCAGAGGCTGAA
64 TAGCAGAGGCTCAACAACTTTA-AAAATCTCATCTTGAAAAGGGCT-CTCTCAACA-AAGCTCAA
4437316 CAACTTTAAAAATTCGCATCT
126 CAACTTTAAAAATTCGCATCT
* * *
4437337 TGAAAAGGGCTCATCTTAGTAAAGGCTCAACAACTTTAAAAATTTTATCTTG-AAAAGG-CTTCT
1 TGAAAA--GCTCATCTTAGTAGAGGTTCAACAACTTTAAAAATTTCATCTTGAAAAAGGTCTT-T
* *
4437400 TTCAACAGAGGCTCAACAACTTTAAAAA--TCATCTTGAAAAAGGGCTCCTCTCAATAAAAGCTC
63 TT-AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG-AAAAGGGCT-CTCTCAA-CAAAGCTC
4437463 AACAACTTTAAAAATT
124 AACAACTTTAAAAATT
4437479 TTTTTGGAAA
Statistics
Matches: 240, Mismatches: 34, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
145 2 0.01
146 5 0.02
147 63 0.26
148 27 0.11
149 110 0.46
150 33 0.14
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (146 bp):
TGAAAAGCTCATCTTAGTAGAGGTTCAACAACTTTAAAAATTTCATCTTGAAAAAGGTCTTTTTA
GCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTCTCTCAACAAAGCTCAACAACT
TTAAAAATTCGCATCT
Found at i:4437322 original size:98 final size:98
Alignment explanation
Indices: 4437072--4437531 Score: 452
Period size: 98 Copynumber: 4.7 Consensus size: 98
4437062 GGTTTAACTT
* * *
4437072 CTTTAAAAAT-TACATCTTGAAAAAAGGTCTTTTTAGCAGAGGCTCAACAACTTTAAAAATCTCA
1 CTTTAAAAATCT-CATCTTG-AAAAAGCTC-TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCA
* * * * *
4437136 TCTTGAAAAGGGCTCTTCTCAACAAAGCCTCAATAA
63 TCTTGAAAAAGGCTCATCTCAGCAAAGGCTCAACAA
* *
4437172 CTTTAAAAATTCGCATCTTG-AAAAGCTCATCTCAGCAGAGGTTCAACAACTTTAAAAATTCTCA
1 CTTTAAAAA-TCTCATCTTGAAAAAGCTC-TCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCA
* * *
4437236 TTTTGAAAAAGGCTCATCTCAGCAGAGGTTCAACAA
63 TCTTGAAAAAGGCTCATCTCAGCAAAGGCTCAACAA
* *
4437272 --TTATAAAATCTCAT-TTGAAAAAGCTACTCTCAGCAGAGGCTGAACAACTTTAAAAATTCGCA
1 CTTTA-AAAATCTCATCTTGAAAAAGCT-CTCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCA
* * *
4437334 TCTTGAAAAGGGCTCATCTTAGTAAAGGCTCAACAA
63 TCTTGAAAAAGGCTCATCTCAGCAAAGGCTCAACAA
* * * * *
4437370 CTTTAAAAATTTTATCTTGAAAAGGCTTCTTTCAACAGAGGCTCAACAACTTTAAAAA--TCATC
1 CTTTAAAAATCTCATCTTGAAAAAGC-TCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* ** *
4437433 TTGAAAAAGGGCTCCTCTCAATAAAAGCTCAACAA
65 TTGAAAAA-GGCTCATCTCAGCAAAGGCTCAACAA
* * * * * *
4437468 CTTTAAAAAT-T-TTTTTGGAAAAGCTCCTCTCAACAAAGGCTCAACAATTTTAAAAATCTCATC
1 CTTTAAAAATCTCATCTTGAAAAAGCT-CTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
4437531 T
65 T
4437532 GTTCTTTAAA
Statistics
Matches: 303, Mismatches: 43, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
95 1 0.00
96 36 0.12
97 15 0.05
98 115 0.38
99 46 0.15
100 81 0.27
101 9 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (98 bp):
CTTTAAAAATCTCATCTTGAAAAAGCTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
TGAAAAAGGCTCATCTCAGCAAAGGCTCAACAA
Found at i:4449602 original size:12 final size:12
Alignment explanation
Indices: 4449551--4449603 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
4449541 TTCTTTTTCC
4449551 TTATTTA-TATT
1 TTATTTATTATT
* *
4449562 ATTATTTTTTATA
1 -TTATTTATTATT
*
4449575 TTATTAATTAATT
1 TTATTTATT-ATT
4449588 TTATTTATTATT
1 TTATTTATTATT
4449600 TTAT
1 TTAT
4449604 AAGAAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 20 0.61
13 13 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTTATTATT
Found at i:4449843 original size:14 final size:12
Alignment explanation
Indices: 4449813--4449858 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
4449803 TATAAAAACT
4449813 TTTATTATATAA
1 TTTATTATATAA
4449825 TTTATTATAT-A
1 TTTATTATATAA
4449836 TTTATTAT-TAA
1 TTTATTATATAA
4449847 -TTATTATTATAA
1 TTTATTA-TATAA
4449859 AACAACCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.23
11 11 0.35
12 13 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTATTATATAA
Found at i:4449933 original size:21 final size:21
Alignment explanation
Indices: 4449909--4449975 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
4449899 AAATATTAAG
4449909 AATAATAATTAAAATAACAA-A
1 AATAATAATTAAAATAA-AATA
*
4449930 AATAATATTTAAAA-AAAATA
1 AATAATAATTAAAATAAAATA
4449950 AA-AA-AATTCAAAATAAAAATA
1 AATAATAATT-AAAAT-AAAATA
4449971 AATAA
1 AATAA
4449976 AGATTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 3 0.08
19 8 0.21
20 5 0.13
21 21 0.54
22 2 0.05
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (21 bp):
AATAATAATTAAAATAAAATA
Found at i:4451590 original size:16 final size:16
Alignment explanation
Indices: 4451571--4451625 Score: 83
Period size: 16 Copynumber: 3.3 Consensus size: 16
4451561 TTGTTCTTTT
*
4451571 TTTTTTGTATTTTGTA
1 TTTTTTGTATTTTATA
4451587 TTTTTTTGGTATTTTATA
1 -TTTTTT-GTATTTTATA
4451605 TTTTTTGTATTTTATA
1 TTTTTTGTATTTTATA
4451621 TTTTT
1 TTTTT
4451626 GTTTAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 15 0.42
17 12 0.33
18 9 0.25
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (16 bp):
TTTTTTGTATTTTATA
Found at i:4451590 original size:18 final size:17
Alignment explanation
Indices: 4451569--4451639 Score: 74
Period size: 18 Copynumber: 4.1 Consensus size: 17
4451559 TTTTGTTCTT
4451569 TTTTTTTTGTATTTTGTA
1 TTTTTTTTGTATTTT-TA
*
4451587 TTTTTTTGGTA-TTTTA
1 TTTTTTTTGTATTTTTA
*
4451603 TATTTTTTGTATTTTATA
1 TTTTTTTTGTATTTT-TA
*
4451621 TTTTTGTTT-AATTTTTA
1 TTTTT-TTTGTATTTTTA
4451638 TT
1 TT
4451640 ATTGTATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.24
17 10 0.22
18 21 0.47
19 3 0.07
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTTTTTTGTATTTTTA
Found at i:4451623 original size:41 final size:41
Alignment explanation
Indices: 4451546--4451624 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
4451536 CCATCCCTCC
* * * * *
4451546 TTTTTTTGGTTTTTTTTGTTCTTTTTTTTTTGTATTTTGTA
1 TTTTTTTGGTATTTTATATTCTTTTTATTTTATATTTTGTA
4451587 TTTTTTTGGTATTTTATATT-TTTTGTATTTTATATTTT
1 TTTTTTTGGTATTTTATATTCTTTT-TATTTTATATTTT
4451625 TGTTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 4 0.12
41 28 0.88
ACGTcount: A:0.10, C:0.01, G:0.10, T:0.78
Consensus pattern (41 bp):
TTTTTTTGGTATTTTATATTCTTTTTATTTTATATTTTGTA
Found at i:4451635 original size:34 final size:32
Alignment explanation
Indices: 4451556--4451648 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 32
4451546 TTTTTTTGGT
*
4451556 TTTTTTTGT-TCTTTT-TTTTTTGTATTTTGTA
1 TTTTTTTGTAT-TTTTATTTTTTGTATTTTATA
4451587 TTTTTTTGGTATTTTATATTTTTTGTATTTTATA
1 TTTTTTT-GTATTTT-TATTTTTTGTATTTTATA
*
4451621 TTTTTGTT-TAATTTTTA-TTATTGTATTT
1 TTTTT-TTGT-ATTTTTATTTTTTGTATTT
4451649 AATAATAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
31 7 0.13
32 15 0.28
33 5 0.09
34 25 0.46
35 2 0.04
ACGTcount: A:0.14, C:0.01, G:0.09, T:0.76
Consensus pattern (32 bp):
TTTTTTTGTATTTTTATTTTTTGTATTTTATA
Found at i:4454513 original size:34 final size:33
Alignment explanation
Indices: 4454475--4454582 Score: 119
Period size: 34 Copynumber: 3.2 Consensus size: 33
4454465 TTTTTTAAAC
*
4454475 AAGTTTTAGAAAATGAATTTTTGAAAAATCTTAA
1 AAGTTTTAGAAAATAAATTTTT-AAAAATCTTAA
*
4454509 AAGTTTTCA-AAAATAAACTTTTAAAAATTCTTAA
1 AAGTTTT-AGAAAATAAATTTTTAAAAA-TCTTAA
** * *
4454543 AAACTTTCGAAAATAAATTTTTTAAAATTCTTAA
1 AAGTTTTAGAAAATAAA-TTTTTAAAAATCTTAA
4454577 AAGTTT
1 AAGTTT
4454583 CATGAATTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
33 5 0.08
34 47 0.77
35 9 0.15
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (33 bp):
AAGTTTTAGAAAATAAATTTTTAAAAATCTTAA
Found at i:4454603 original size:68 final size:67
Alignment explanation
Indices: 4454483--4454655 Score: 172
Period size: 68 Copynumber: 2.6 Consensus size: 67
4454473 ACAAGTTTTA
* *
4454483 GAAAATGAATTTTTGAAAAATCTTAAAAGTTTTCAAAAATAAACTTTTAAAAA-TTCTTAAAAAC
1 GAAAATAAATTTTTGAAAATTCTTAAAAG-TTTCAAAAATAAACTTTTAAAAAGTT-TTAAAAAC
4454547 TTTC
64 TTTC
* * * * **
4454551 GAAAATAAATTTTTTAAAATTCTTAAAAGTTTCATGAATTCAA-TTTTAAAAAAGTTTTAAAATT
1 GAAAATAAATTTTTGAAAATTCTTAAAAGTTTCA-AAAATAAACTTTT-AAAAAGTTTTAAAAAC
*
4454615 TTTT
64 TTTC
** *
4454619 GAAAATTTATTTTTGAAAATT-TTGAAATGTTTCAAAA
1 GAAAATAAATTTTTGAAAATTCTT-AAAAGTTTCAAAA
4454656 TATTTTAACA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
67 13 0.15
68 72 0.83
69 2 0.02
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (67 bp):
GAAAATAAATTTTTGAAAATTCTTAAAAGTTTCAAAAATAAACTTTTAAAAAGTTTTAAAAACTT
TC
Found at i:4454633 original size:14 final size:14
Alignment explanation
Indices: 4454614--4454640 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4454604 GTTTTAAAAT
4454614 TTTTTGAAAATTTA
1 TTTTTGAAAATTTA
4454628 TTTTTGAAAATTT
1 TTTTTGAAAATTT
4454641 TGAAATGTTT
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:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTTTGAAAATTTA
Found at i:4462539 original size:21 final size:22
Alignment explanation
Indices: 4462515--4462558 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4462505 TTTATTGTAA
*
4462515 ATTTATTGTTATA-TATTACTT
1 ATTTATTATTATATTATTACTT
4462536 ATTTATTATTATATTTATTACTT
1 ATTTATTATTATA-TTATTACTT
4462559 TAACTTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTATTATTATATTATTACTT
Found at i:4471977 original size:20 final size:20
Alignment explanation
Indices: 4471935--4471999 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
4471925 ATATATTTAT
*
4471935 CTTAAAAA-ATTAA-AAAAA
1 CTTAAAAATAATAATAAAAA
* *
4471953 TTTAAACATAATAATAAAAA
1 CTTAAAAATAATAATAAAAA
4471973 CTTAAAAATAATAATAAAAA
1 CTTAAAAATAATAATAAAAA
4471993 CTTAAAA
1 CTTAAAA
4472000 TTATAAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.15
19 4 0.10
20 30 0.75
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (20 bp):
CTTAAAAATAATAATAAAAA
Found at i:4473043 original size:3 final size:3
Alignment explanation
Indices: 4473037--4473077 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4473027 GGGAAAAAAT
*
4473037 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4473078 TGATATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4473327 original size:48 final size:47
Alignment explanation
Indices: 4473256--4473348 Score: 114
Period size: 48 Copynumber: 2.0 Consensus size: 47
4473246 TTAAAAATTT
* * *
4473256 AAAAGGCTCCTCTAAGTAGAGGCTTAACGACTTTTAAAAATAAAAAAA
1 AAAAGGCTCCTCTAAGCAAAGGCTTAACAAC-TTTAAAAATAAAAAAA
* * * *
4473304 AAAATGCTCTTCTAAGCAAAGGCTTAATAACTTTAAAATTAAAAA
1 AAAAGGCTCCTCTAAGCAAAGGCTTAACAACTTTAAAAATAAAAA
4473349 TTCCATCTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 13 0.34
48 25 0.66
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (47 bp):
AAAAGGCTCCTCTAAGCAAAGGCTTAACAACTTTAAAAATAAAAAAA
Found at i:4473538 original size:49 final size:49
Alignment explanation
Indices: 4473369--4473543 Score: 183
Period size: 49 Copynumber: 3.6 Consensus size: 49
4473359 AAAAAGTTTA
**
4473369 TCTAAGTAGAGGCTCAATAACTTTAAAATTTTCAACTTGAAAAAGCTCC
1 TCTAAGTAGAAACTCAATAACTTTAAAATTTTCAACTTGAAAAAGCTCC
* * * * * * * *
4473418 TTTAAGCA-AAGTCTTAATGACTTTAAAAATTTT-ATCTTGGAAAAGCTCT
1 TCTAAGTAGAA-ACTCAATAACTTT-AAAATTTTCAACTTGAAAAAGCTCC
** *
4473467 TCTAAGTAGAGGCTCTATAACTTTAAAATTTTCAACTTGAAAAAGCTCC
1 TCTAAGTAGAAACTCAATAACTTTAAAATTTTCAACTTGAAAAAGCTCC
* *
4473516 TCTAAATAGAAACTCAACAACTTTAAAA
1 TCTAAGTAGAAACTCAATAACTTTAAAA
4473544 AAAATTAATT
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
48 9 0.09
49 80 0.82
50 9 0.09
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (49 bp):
TCTAAGTAGAAACTCAATAACTTTAAAATTTTCAACTTGAAAAAGCTCC
Found at i:4474133 original size:42 final size:42
Alignment explanation
Indices: 4474074--4474157 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4474064 TTTATAGGAT
4474074 AGACAAGGATAGCAAATGATATAAAGGAATGGATATATTATC
1 AGACAAGGATAGCAAATGATATAAAGGAATGGATATATTATC
4474116 AGACAAGGATAGCAAATGATATAAAGGAATGGATATATTATC
1 AGACAAGGATAGCAAATGATATAAAGGAATGGATATATTATC
4474158 TTTATTTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (42 bp):
AGACAAGGATAGCAAATGATATAAAGGAATGGATATATTATC
Found at i:4474443 original size:11 final size:11
Alignment explanation
Indices: 4474427--4474470 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
4474417 CTTAAATATA
4474427 TCTTTTTTTTT
1 TCTTTTTTTTT
4474438 TCTTTTTTTTT
1 TCTTTTTTTTT
*
4474449 TCTTTTTTTTC
1 TCTTTTTTTTT
4474460 TCTTTTTTTTT
1 TCTTTTTTTTT
4474471 CAAACAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:4474456 original size:20 final size:21
Alignment explanation
Indices: 4474431--4474471 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
4474421 AATATATCTT
4474431 TTTTTTTTCT-TTTTTTTTTC
1 TTTTTTTTCTCTTTTTTTTTC
4474451 TTTTTTTTCTCTTTTTTTTTC
1 TTTTTTTTCTCTTTTTTTTTC
4474472 AAACAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTTTTTCTCTTTTTTTTTC
Found at i:4485631 original size:11 final size:11
Alignment explanation
Indices: 4485617--4485658 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
4485607 CATTTTACTA
4485617 ATTTTTTTATT
1 ATTTTTTTATT
*
4485628 A--TTTATATT
1 ATTTTTTTATT
*
4485637 ATTTTTTTACT
1 ATTTTTTTATT
4485648 ATTTTTTTATT
1 ATTTTTTTATT
4485659 TTTAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.32
11 17 0.68
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTTTTATT
Found at i:4485641 original size:19 final size:19
Alignment explanation
Indices: 4485604--4485661 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
4485594 ATTTTTTTCC
*
4485604 TTAC-ATTTTACTAATTTTT
1 TTACTATTTTA-TTATTTTT
*
4485623 TTATTATTTATATTATTTTT
1 TTACTATTT-TATTATTTTT
*
4485643 TTACTATTTTTTTATTTTT
1 TTACTATTTTATTATTTTT
4485662 AATTTAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.36
20 19 0.58
21 2 0.06
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTACTATTTTATTATTTTT
Found at i:4485661 original size:20 final size:20
Alignment explanation
Indices: 4485617--4485661 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4485607 CATTTTACTA
*
4485617 ATTTTTTTATTATTTATATT
1 ATTTTTTTACTATTTATATT
*
4485637 ATTTTTTTACTATTT-TTTT
1 ATTTTTTTACTATTTATATT
4485656 ATTTTT
1 ATTTTT
4485662 AATTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
ATTTTTTTACTATTTATATT
Found at i:4485684 original size:3 final size:3
Alignment explanation
Indices: 4485678--4485728 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
4485668 AAAAAAATCA
* *
4485678 ATT ATT ATT ATT ATT ATT CATT CATT ATT AATT TTT AGT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT -ATT -ATT ATT -ATT ATT ATT ATT ATT ATT
4485725 ATT A
1 ATT A
4485729 CTTTTTTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 29 0.71
4 10 0.24
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:4489154 original size:2 final size:2
Alignment explanation
Indices: 4489147--4489171 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4489137 TAATTAATTG
4489147 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 A
4489172 CAGTCCGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4489354 original size:3 final size:3
Alignment explanation
Indices: 4489340--4489385 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
4489330 ATTTCCAGTT
* ** *
4489340 TAA TAT TAA TAA TAA TTT TAA TAA TAA TAT TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4489386 TAAAAAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:4489360 original size:12 final size:12
Alignment explanation
Indices: 4489340--4489385 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
4489330 ATTTCCAGTT
4489340 TAATATTAATAA
1 TAATATTAATAA
*
4489352 TAATTTTAATAA
1 TAATATTAATAA
4489364 TAATATTAATAA
1 TAATATTAATAA
*
4489376 TAATAATAAT
1 TAATATTAAT
4489386 TAAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:4490052 original size:25 final size:25
Alignment explanation
Indices: 4490024--4490072 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4490014 AGAATTCTGG
4490024 AGGAGAAAGAAAGAAA-G-AAGAGAGA
1 AGGAGAAA-AAA-AAATGAAAGAGAGA
4490049 AGGAGAAAAAAAAATGAAAGAGAG
1 AGGAGAAAAAAAAATGAAAGAGAG
4490073 GGGGTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 4 0.18
25 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (25 bp):
AGGAGAAAAAAAAATGAAAGAGAGA
Found at i:4490318 original size:2 final size:2
Alignment explanation
Indices: 4490311--4490341 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4490301 TTGCTCAAAT
4490311 TA TA 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 T
4490342 CTATTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4502014 original size:46 final size:46
Alignment explanation
Indices: 4501891--4502216 Score: 357
Period size: 46 Copynumber: 6.9 Consensus size: 46
4501881 AAAAATGGAT
* * * * *
4501891 GAGAATTCTAAAGTTGTTGAGTCTCTACTAAGAGGAGCTTTTCCAAGA
1 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-A-A
**
4501939 TGAGAGATTTTTTACGGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
1 -GAGA-A--TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* ** *
4501989 GATAATTTTAAAGTTGTTGAGCCTCTATTGAGATGAGCTTTTTCAA
1 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * *
4502035 GAGAATTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCTTTTCCAAGA
1 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-A-A
* * *
4502083 TGAGAATTTTAAAGTTATTGAGCTTCTGTTGAGAGGAGCTTTTTCAA
1 -GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * *
4502130 GAAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGA-TTTTTTCAA
1 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* **
4502175 GAGAATTTTAAAGTTGTTGAGCTTCTATTGAGAGGAGCTTTT
1 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
4502217 CAAAAATAAT
Statistics
Matches: 236, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
45 39 0.17
46 112 0.47
47 2 0.01
48 3 0.01
49 45 0.19
50 2 0.01
51 1 0.00
52 32 0.14
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (46 bp):
GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
Found at i:4502137 original size:95 final size:95
Alignment explanation
Indices: 4501888--4502216 Score: 386
Period size: 95 Copynumber: 3.5 Consensus size: 95
4501878 TTTAAAAATG
* * * *
4501888 GATGAGAATTCTAAAGTTGTTGAG-TCTCTACTAAGAGGAGCTTTTCCAAGATGAGAGATTTTTT
1 GATGAGAATTTTAAAGTTGTTGAGCT-TCTATTGAGAGGAGCTTTTTCAAGA--A-A-A--TTTT
***
4501952 ACGGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
59 AAAATTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * *
4501989 GAT---AATTTTAAAGTTGTTGAGCCTCTATTGAGATGAGCTTTTTCAAGAGAATTTTAAAATTG
1 GATGAGAATTTTAAAGTTGTTGAGCTTCTATTGAGAGGAGCTTTTTCAAGAAAATTTTAAAATTG
* *
4502051 TTGAGCCTCTGCTGAGATGAGCTTTTCCAA
66 TTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
* * * *
4502081 GATGAGAATTTTAAAGTTATTGAGCTTCTGTTGAGAGGAGCTTTTTCAAGAAAATTTTAAAGTTA
1 GATGAGAATTTTAAAGTTGTTGAGCTTCTATTGAGAGGAGCTTTTTCAAGAAAATTTTAAAATTG
*
4502146 TTGAGCCTCTGCTGAGAGGA-TTTTTTC-A
66 TTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
4502174 -A-GAGAATTTTAAAGTTGTTGAGCTTCTATTGAGAGGAGCTTTT
1 GATGAGAATTTTAAAGTTGTTGAGCTTCTATTGAGAGGAGCTTTT
4502217 CAAAAATAAT
Statistics
Matches: 200, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
91 40 0.20
92 40 0.20
93 1 0.00
94 6 0.03
95 72 0.36
98 38 0.19
101 3 0.01
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (95 bp):
GATGAGAATTTTAAAGTTGTTGAGCTTCTATTGAGAGGAGCTTTTTCAAGAAAATTTTAAAATTG
TTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
Found at i:4502150 original size:141 final size:142
Alignment explanation
Indices: 4501891--4502217 Score: 451
Period size: 141 Copynumber: 2.3 Consensus size: 142
4501881 AAAAATGGAT
* * * **
4501891 GAGAATTCTAAAGTTGTTGAGTCTCTACTAAGAGGAGCTTTTCCAAGATGAGAGATTTTTTACGG
1 GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGAGA-TTTTTAAAG
* * * *
4501956 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAATTTTAAAGTTGTTGAGCCTCTATTGAG
65 TTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAAATTTTAAAGTTATTGAGCCTCTACTGAG
*
4502021 ATGAGCTTTTTCAA
130 AGGA-CTTTTTCAA
* * *
4502035 GAGAATTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCTTTTCCAAGATGAGA-A-TTTTAAAGT
1 GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGAGATTTTTAAAGT
* * *
4502098 TATTGAGCTTCTGTTGAGAGGAGCTTTTTCAAGAAAATTTTAAAGTTATTGAGCCTCTGCTGAGA
66 TATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAAATTTTAAAGTTATTGAGCCTCTACTGAGA
*
4502163 GGATTTTTTCAA
131 GGACTTTTTCAA
* *
4502175 GAGAATTTTAAAGTTGTTGAGCTTCTATTGAGAGGAGCTTTTC
1 GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTC
4502218 AAAAATAATA
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
140 46 0.29
141 67 0.42
143 1 0.01
144 47 0.29
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (142 bp):
GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGAGATTTTTAAAGT
TATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAAATTTTAAAGTTATTGAGCCTCTACTGAGA
GGACTTTTTCAA
Found at i:4502236 original size:10 final size:10
Alignment explanation
Indices: 4502221--4502245 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4502211 GCTTTTCAAA
4502221 AATAATAAAT
1 AATAATAAAT
4502231 AATAATAAAT
1 AATAATAAAT
4502241 AATAA
1 AATAA
4502246 ATAACAAAAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAATAAAT
Found at i:4502604 original size:23 final size:22
Alignment explanation
Indices: 4502576--4502619 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
4502566 CTTCGCCACC
4502576 CCTACAACCACACTCTACAGACA
1 CCTACAACCACAC-CTACAGACA
*
4502599 CCTACAGCCACACCTACAGAC
1 CCTACAACCACACCTACAGAC
4502620 TCTTAGACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.45, G:0.07, T:0.11
Consensus pattern (22 bp):
CCTACAACCACACCTACAGACA
Found at i:4502613 original size:12 final size:12
Alignment explanation
Indices: 4502570--4502617 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
4502560 TATGACCTTC
*
4502570 GCCACCCCTACA
1 GCCACACCTACA
*
4502582 ACCACACTCTACA
1 GCCACAC-CTACA
4502595 G--ACACCTACA
1 GCCACACCTACA
4502605 GCCACACCTACA
1 GCCACACCTACA
4502617 G
1 G
4502618 ACTCTTAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 6 0.20
11 4 0.13
12 15 0.50
13 5 0.17
ACGTcount: A:0.33, C:0.48, G:0.08, T:0.10
Consensus pattern (12 bp):
GCCACACCTACA
Found at i:4503922 original size:11 final size:12
Alignment explanation
Indices: 4503906--4503934 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4503896 CAAAATTAAA
4503906 AATAAAA-AATT
1 AATAAAACAATT
4503917 AATAAAACAATT
1 AATAAAACAATT
4503929 AATAAA
1 AATAAA
4503935 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAAACAATT
Found at i:4506819 original size:34 final size:33
Alignment explanation
Indices: 4506774--4506868 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 33
4506764 TTTAATTATT
*
4506774 TTTTAACAAGTTTTAGAAAATGAATTTTTAAAAAA
1 TTTTAA-AAGTTTT-GAAAATAAATTTTTAAAAAA
* * * *
4506809 TTTTGAAAGTTTTTGAAAATAAATATTTAGAAAT
1 TTTTAAAAG-TTTTGAAAATAAATTTTTAAAAAA
4506843 TTTTAAAAGTTTTGAAAATAAATTTT
1 TTTTAAAAGTTTTGAAAATAAATTTT
4506869 GTCAAATTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 16 0.31
34 27 0.52
35 9 0.17
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.44
Consensus pattern (33 bp):
TTTTAAAAGTTTTGAAAATAAATTTTTAAAAAA
Found at i:4506856 original size:33 final size:32
Alignment explanation
Indices: 4506773--4506888 Score: 117
Period size: 33 Copynumber: 3.4 Consensus size: 32
4506763 ATTTAATTAT
* *
4506773 TTTTTAACAAGTTTTAGAAAATGAATTTTTAAAAA
1 TTTTTAA-AAGTTTT-GAAAAT-AAATTTTAGAAA
* *
4506808 ATTTTGAAAGTTTTTGAAAATAAATATTTAGAAA
1 TTTTTAAAAG-TTTTGAAAATAAAT-TTTAGAAA
4506842 TTTTTAAAAGTTTTGAAAATAAATTTT-GTCAAA
1 TTTTTAAAAGTTTTGAAAATAAATTTTAG--AAA
*
4506875 TTCTTAAAAGTTTT
1 TTTTTAAAAGTTTT
4506889 ATGAAATCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
31 1 0.01
32 3 0.04
33 33 0.47
34 24 0.34
35 9 0.13
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (32 bp):
TTTTTAAAAGTTTTGAAAATAAATTTTAGAAA
Found at i:4507249 original size:33 final size:32
Alignment explanation
Indices: 4507177--4507251 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
4507167 AATACGATTC
*
4507177 AAAACTTTTAAAAATAAATTTTCAAAACATTTT
1 AAAAGTTTTAAAAATAAATTTTCAAAACA-TTT
* *
4507210 AAAAGTTTTCAAAAATAAATTTTTGAAATC-TTT
1 AAAAGTTTT-AAAAATAAA-TTTTCAAAACATTT
4507243 AAAAGTTTT
1 AAAAGTTTT
4507252 TAAAGATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 20 0.54
34 9 0.24
35 8 0.22
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (32 bp):
AAAAGTTTTAAAAATAAATTTTCAAAACATTT
Found at i:4515634 original size:31 final size:31
Alignment explanation
Indices: 4515596--4515661 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
4515586 ATAGAAGGAA
4515596 AATCCAAGCAAACAATCTAGTGATTTGAATC
1 AATCCAAGCAAACAATCTAGTGATTTGAATC
4515627 AATCCAAGCAAACAATCTAGTGATTTGAATC
1 AATCCAAGCAAACAATCTAGTGATTTGAATC
4515658 AATC
1 AATC
4515662 ACACAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (31 bp):
AATCCAAGCAAACAATCTAGTGATTTGAATC
Found at i:4520759 original size:14 final size:15
Alignment explanation
Indices: 4520742--4520775 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4520732 ATGTTTTTAT
4520742 TAAAAA-TAAATTAA
1 TAAAAATTAAATTAA
4520756 TAAAAATTTAAATTAA
1 TAAAAA-TTAAATTAA
4520772 TAAA
1 TAAA
4520776 TTAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
16 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAATTAAATTAA
Found at i:4520849 original size:28 final size:28
Alignment explanation
Indices: 4520825--4520886 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
4520815 TTTAAATTTG
4520825 ATTAATATTTATTTAATAATAAAATTAT
1 ATTAATATTTATTTAATAATAAAATTAT
* *
4520853 ATTAATATTT-TTTATTAA-AAAAATAT
1 ATTAATATTTATTTAATAATAAAATTAT
4520879 ATTTAATA
1 A-TTAATA
4520887 AATATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.26
27 13 0.42
28 10 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTAATATTTATTTAATAATAAAATTAT
Found at i:4520881 original size:13 final size:13
Alignment explanation
Indices: 4520865--4520902 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4520855 TAATATTTTT
4520865 TATTAAAAAAATA
1 TATTAAAAAAATA
* *
4520878 TATTTAATAAATA
1 TATTAAAAAAATA
4520891 TATTAAAAAAAT
1 TATTAAAAAAAT
4520903 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATTAAAAAAATA
Found at i:4528466 original size:15 final size:13
Alignment explanation
Indices: 4528441--4528505 Score: 60
Period size: 13 Copynumber: 4.7 Consensus size: 13
4528431 CCCAGTTTCC
4528441 TTATTTTTATTTT
1 TTATTTTTATTTT
4528454 TTATTGGTTTATTATT
1 TTATT--TTTATT-TT
*
4528470 CTTAATTTTATTTT
1 -TTATTTTTATTTT
*
4528484 TTATTTATT-TATT
1 TTATTT-TTATTTT
4528497 TTATTTTTA
1 TTATTTTTA
4528506 GGAGATAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.05
13 19 0.44
14 4 0.09
15 12 0.28
16 2 0.05
17 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:4528495 original size:30 final size:30
Alignment explanation
Indices: 4528440--4528496 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4528430 GCCCAGTTTC
* *
4528440 CTTATTTTTATTTTTTATTGGTTTATTATT
1 CTTAATTTTATTTTTTATTGATTTATTATT
*
4528470 CTTAATTTTATTTTTTATTTATTTATT
1 CTTAATTTTATTTTTTATTGATTTATT
4528497 TTATTTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (30 bp):
CTTAATTTTATTTTTTATTGATTTATTATT
Found at i:4529548 original size:9 final size:9
Alignment explanation
Indices: 4529503--4529547 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
4529493 TATATGTTTT
4529503 AAACA-AAA
1 AAACATAAA
4529511 AAA-ATAAA
1 AAACATAAA
4529519 AAACATAAA
1 AAACATAAA
*
4529528 AAGCAT-AA
1 AAACATAAA
*
4529536 AAATATAAA
1 AAACATAAA
4529545 AAA
1 AAA
4529548 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.03
8 15 0.48
9 15 0.48
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (9 bp):
AAACATAAA
Found at i:4529642 original size:18 final size:18
Alignment explanation
Indices: 4529619--4529678 Score: 111
Period size: 18 Copynumber: 3.3 Consensus size: 18
4529609 TTTTAAGGAA
*
4529619 TCTCTAGGTGAGAAATTT
1 TCTCTATGTGAGAAATTT
4529637 TCTCTATGTGAGAAATTT
1 TCTCTATGTGAGAAATTT
4529655 TCTCTATGTGAGAAATTT
1 TCTCTATGTGAGAAATTT
4529673 TCTCTA
1 TCTCTA
4529679 AATTTGACCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (18 bp):
TCTCTATGTGAGAAATTT
Found at i:4533534 original size:80 final size:81
Alignment explanation
Indices: 4533444--4533596 Score: 175
Period size: 80 Copynumber: 1.9 Consensus size: 81
4533434 TCAAAGTCGC
* * * * * *
4533444 GGTGCGTCTGTTTAGAA-AAGTAATTTACTTTTCAAAATTGTAGTGCCTCTGTTTATAGGAG-CA
1 GGTGCGTCTGTGTA-AAGAAGTAATTTACTTTTCAAAATTATAGAGCCTCTGATTAGAGAAGCCA
4533507 TTTATTTTTGAAGTCAT
65 TTTATTTTTGAAGTCAT
* * * * * *
4533524 GGTGCTTCTGTGTAAAGAATTTATTTATTTTTTAAAATTATTGAGCCTCTGATTAGAGAAGCCAT
1 GGTGCGTCTGTGTAAAGAAGTAATTTACTTTTCAAAATTATAGAGCCTCTGATTAGAGAAGCCAT
4533589 TTATTTTT
66 TTATTTTT
4533597 CAAAGCCATT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
79 2 0.03
80 46 0.78
81 11 0.19
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.44
Consensus pattern (81 bp):
GGTGCGTCTGTGTAAAGAAGTAATTTACTTTTCAAAATTATAGAGCCTCTGATTAGAGAAGCCAT
TTATTTTTGAAGTCAT
Found at i:4533693 original size:41 final size:40
Alignment explanation
Indices: 4533546--4533810 Score: 216
Period size: 41 Copynumber: 6.4 Consensus size: 40
4533536 TAAAGAATTT
* * *
4533546 ATTTATTTTTTAAAATT-ATTGAGCCTCTGATT-AGAGAAGCC
1 ATTTATTTTTCAAAGTTCATT--GCCTCT-ATTCAGAGGAGCC
*
4533587 ATTTATTTTTCAAAG-CCATTGAACCTCTGATT-AGAGGAGCC
1 ATTTATTTTTCAAAGTTCATTG--CCTCT-ATTCAGAGGAGCC
**
4533628 ATTTA-TTTTCTAAAGTTTTGTTGCCTCTATTCAGAGGAGCC
1 ATTTATTTTTC-AAAG-TTCATTGCCTCTATTCAGAGGAGCC
* * * * *
4533669 ATTTGATTTTTAAAAGTTCATTGCCTCTATTTAAAGGAACA
1 ATTT-ATTTTTCAAAGTTCATTGCCTCTATTCAGAGGAGCC
* * *
4533710 ATTTATTTTCTCAAAGTTCGTTGCCTCTATTCAAAGAAGCC
1 ATTTATTTT-TCAAAGTTCATTGCCTCTATTCAGAGGAGCC
* * * *
4533751 ATTTATTTTTTAAAGTTTTGATTGCCTCTATTCAGGGGAGCT
1 ATTTATTTTTCAAAG--TTCATTGCCTCTATTCAGAGGAGCC
4533793 ATTTTATTTTTCAAAGTT
1 A-TTTATTTTTCAAAGTT
4533811 TTGTTGCCTT
Statistics
Matches: 183, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 18 0.10
41 119 0.65
42 25 0.14
43 20 0.11
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (40 bp):
ATTTATTTTTCAAAGTTCATTGCCTCTATTCAGAGGAGCC
Found at i:4534528 original size:20 final size:19
Alignment explanation
Indices: 4534483--4534520 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4534473 GAATCCGATG
*
4534483 AAATTTTTTGACGAATTTT
1 AAATTTTTCGACGAATTTT
*
4534502 AAATTTTTCGACGAGTTTT
1 AAATTTTTCGACGAATTTT
4534521 TGAATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (19 bp):
AAATTTTTCGACGAATTTT
Found at i:4534571 original size:7 final size:7
Alignment explanation
Indices: 4534518--4534556 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
4534508 TTCGACGAGT
4534518 TTTTGAA
1 TTTTGAA
4534525 TTTTGAA
1 TTTTGAA
4534532 TTTTGAA
1 TTTTGAA
4534539 TTTTGAA
1 TTTTGAA
4534546 TTTTGAA
1 TTTTGAA
4534553 TTTT
1 TTTT
4534557 TTGGTGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (7 bp):
TTTTGAA
Found at i:4541663 original size:22 final size:23
Alignment explanation
Indices: 4541611--4541664 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
4541601 TTTATATAAT
*
4541611 TATTTTTAAAATATAATATTTAA
1 TATTTTTAAAATATAAAATTTAA
**
4541634 TAAATTTAAAAT-TAAAATTTAA
1 TATTTTTAAAATATAAAATTTAA
4541656 TATTTTTAA
1 TATTTTTAA
4541665 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTTTAAAATATAAAATTTAA
Found at i:4543381 original size:24 final size:25
Alignment explanation
Indices: 4543365--4543410 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4543355 AAAAATAAAG
4543365 ATTTT-AGATA-TTCAAAAAAAATA
1 ATTTTGAGATATTTCAAAAAAAATA
4543388 ATTTTGAGATATTTCAAAAAAAA
1 ATTTTGAGATATTTCAAAAAAAA
4543411 AAAAAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 11 0.52
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (25 bp):
ATTTTGAGATATTTCAAAAAAAATA
Found at i:4543568 original size:2 final size:2
Alignment explanation
Indices: 4543561--4543590 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4543551 CTTACATTAG
*
4543561 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4543591 TTTTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4543846 original size:16 final size:16
Alignment explanation
Indices: 4543807--4543849 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
4543797 TAAAAATAAA
4543807 TTAAAAATAATAAATT
1 TTAAAAATAATAAATT
** * *
4543823 TTTTAAATATTAACTT
1 TTAAAAATAATAAATT
4543839 TTAAAAATAAT
1 TTAAAAATAAT
4543850 TACATAAACT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAAATAATAAATT
Found at i:4553889 original size:36 final size:36
Alignment explanation
Indices: 4553849--4553921 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
4553839 ATGACAAGGC
4553849 AATGTATAGAGAACATATATAAATACATACATACAT
1 AATGTATAGAGAACATATATAAATACATACATACAT
4553885 AATGTATAGAGAACATATATAAATACATACATACAT
1 AATGTATAGAGAACATATATAAATACATACATACAT
4553921 A
1 A
4553922 CATACATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.27
Consensus pattern (36 bp):
AATGTATAGAGAACATATATAAATACATACATACAT
Found at i:4553900 original size:20 final size:20
Alignment explanation
Indices: 4553849--4553906 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
4553839 ATGACAAGGC
4553849 AATGTATAGAGAACATATAT
1 AATGTATAGAGAACATATAT
* * *
4553869 AA---ATACA-TACATACAT
1 AATGTATAGAGAACATATAT
4553885 AATGTATAGAGAACATATAT
1 AATGTATAGAGAACATATAT
4553905 AA
1 AA
4553907 ATACATACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 9 0.32
17 4 0.14
19 4 0.14
20 11 0.39
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (20 bp):
AATGTATAGAGAACATATAT
Found at i:4553941 original size:36 final size:36
Alignment explanation
Indices: 4553854--4553929 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
4553844 AAGGCAATGT
**
4553854 ATAGAGAACATATATAAATACATACATACATAATGT
1 ATAGAGAACATATATAAATACATACATACATAATAC
4553890 ATAGAGAACATATATAAATACATACATACATACATAC
1 ATAGAGAACATATATAAATACATACATACATA-ATAC
4553927 ATA
1 ATA
4553930 TATACATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (36 bp):
ATAGAGAACATATATAAATACATACATACATAATAC
Found at i:4553950 original size:4 final size:4
Alignment explanation
Indices: 4553861--4553937 Score: 57
Period size: 4 Copynumber: 19.2 Consensus size: 4
4553851 TGTATAGAGA
* * ** * * * *
4553861 ACAT ATAT AAAT ACAT ACAT ACAT A-AT GTAT AGAGA ACAT ATAT AAAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT
*
4553909 ACAT ACAT ACAT ACAT ACAT ATAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
4553938 TATATATATA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
3 2 0.04
4 53 0.93
5 2 0.04
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (4 bp):
ACAT
Found at i:4553950 original size:8 final size:8
Alignment explanation
Indices: 4553907--4553949 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
4553897 ACATATATAA
*
4553907 ATACATAC
1 ATACATAT
*
4553915 ATACATAC
1 ATACATAT
4553923 ATACATAT
1 ATACATAT
4553931 ATACATAT
1 ATACATAT
*
4553939 ATATATAT
1 ATACATAT
4553947 ATA
1 ATA
4553950 TGTGAGACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (8 bp):
ATACATAT
Found at i:4560023 original size:18 final size:18
Alignment explanation
Indices: 4560000--4560037 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
4559990 CATGAAATGC
4560000 TTCATGTTTTCTTTT-CTG
1 TTCATG-TTTCTTTTCCTG
4560018 TTCATGTTTCTTTTCCTG
1 TTCATGTTTCTTTTCCTG
4560036 TT
1 TT
4560038 TGTTGGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.05, C:0.18, G:0.11, T:0.66
Consensus pattern (18 bp):
TTCATGTTTCTTTTCCTG
Found at i:4560610 original size:12 final size:12
Alignment explanation
Indices: 4560575--4560610 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4560565 AATTGATTTC
*
4560575 AATAAAATTAAA
1 AATAAAATTAAT
*
4560587 AATAAAAATAAT
1 AATAAAATTAAT
4560599 AATAAAATTAAT
1 AATAAAATTAAT
4560611 TACTATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAAAATTAAT
Found at i:4569516 original size:2 final size:2
Alignment explanation
Indices: 4569509--4569544 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4569499 TTCTTTCTAT
4569509 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4569545 AAATCTCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4582074 original size:21 final size:22
Alignment explanation
Indices: 4582049--4582097 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4582039 ACATATTTTG
* *
4582049 ATTATTAAT-TTTGATTTTATC
1 ATTATTAATACTTAATTTTATC
*
4582070 ATTA-TAATACTTAATTTTATT
1 ATTATTAATACTTAATTTTATC
4582091 ATTATTA
1 ATTATTA
4582098 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 17 0.74
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTATTAATACTTAATTTTATC
Found at i:4582100 original size:9 final size:8
Alignment explanation
Indices: 4582083--4582115 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
4582073 ATAATACTTA
4582083 ATTTTATT
1 ATTTTATT
4582091 ATTATTATT
1 ATT-TTATT
4582100 ATTTT-TT
1 ATTTTATT
4582107 ATTTTATT
1 ATTTTATT
4582115 A
1 A
4582116 AAATTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 8 0.35
9 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:4583020 original size:18 final size:19
Alignment explanation
Indices: 4582992--4583032 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
4582982 ATCAGAAAAA
*
4582992 AAAAAAGGAAAAAAAACCC
1 AAAAAAGGAAAAAAAAACC
4583011 AAAAAA-GAAAAAAAAACC
1 AAAAAAGGAAAAAAAAACC
4583029 AAAA
1 AAAA
4583033 TTTTCATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.80, C:0.12, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAGGAAAAAAAAACC
Done.