Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 24 of 25
Found at i:3834236 original size:21 final size:21
Alignment explanation
Indices: 3834211--3834258 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3834201 TTACAGTAAG
* *
3834211 ATTAATTATTACAATAATAAA
1 ATTAAATATTACAACAATAAA
*
3834232 ATTAAATATTATAACAATAAA
1 ATTAAATATTACAACAATAAA
3834253 ATTAAA
1 ATTAAA
3834259 ATCAATAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAATATTACAACAATAAA
Found at i:3834530 original size:26 final size:28
Alignment explanation
Indices: 3834478--3834530 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
3834468 ATAATTGTCA
3834478 AATAATTACATAAATAATTTATTCAAAAT
1 AATAATTACATAAATAATTTA-TCAAAAT
**
3834507 AATAATTGTATAAAT-ATTTA-CAAA
1 AATAATTACATAAATAATTTATCAAA
3834531 GTTATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
28 5 0.23
29 13 0.59
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (28 bp):
AATAATTACATAAATAATTTATCAAAAT
Found at i:3836874 original size:22 final size:21
Alignment explanation
Indices: 3836849--3836894 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
3836839 ATTTTACTTT
* *
3836849 TAAAATTCATAAATTTTAAATC
1 TAAAATTCAGAAA-TTCAAATC
*
3836871 TAAAATTTAGAAATTCAAATC
1 TAAAATTCAGAAATTCAAATC
3836892 TAA
1 TAA
3836895 TTTGCAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAAATTCAGAAATTCAAATC
Found at i:3838978 original size:3 final size:3
Alignment explanation
Indices: 3838970--3839002 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3838960 TTTTCATCTC
3838970 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
3839003 TAAACCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:3851489 original size:20 final size:20
Alignment explanation
Indices: 3851461--3851512 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3851451 ATAAACGTGT
* **
3851461 AATTAAATAATTATTTTTTA
1 AATTTAATAATTATAATTTA
*
3851481 AATTTAATAATAATAATTTA
1 AATTTAATAATTATAATTTA
3851501 AATTT-ATAATTA
1 AATTTAATAATTA
3851513 CAAATTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTAATAATTATAATTTA
Found at i:3858820 original size:2 final size:2
Alignment explanation
Indices: 3858813--3858848 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3858803 CAAGTTAGAA
* *
3858813 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3858849 GAAAAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3866104 original size:97 final size:95
Alignment explanation
Indices: 3865904--3866270 Score: 416
Period size: 97 Copynumber: 3.8 Consensus size: 95
3865894 CTCAAACTTC
* * * * *
3865904 ATTC-TTCTGAAAGGGTACTTCAACCCCATTTTTAAATTTATCAAAATTTAAATCTTATTTTTTG
1 ATTCTTTC-GAAAGGATACTCCAACCCCGTTTTTAAACTTGTC-AAATTTAAATCTTA-TTTTTG
* * *
3865968 CTTAAATTGTCATCATCGGGCATACTTTAACCCT
63 CTTAAATTATCATCAT-GGGGATACTCTAACCCT
* * * * *
3866002 ATTCTTTCGAGAGGATACTCCAACCCCGTTTTTGAACTTGTGAATACTTAAATCTTTTTTTTGCT
1 ATTCTTTCGAAAGGATACTCCAACCCCGTTTTTAAACTTGTCAA-ATTTAAATCTTATTTTTGCT
*
3866067 TAAATTATCATCAGTGGGGATACTCCAA-CCT
65 TAAATTATCATCA-TGGGGATACTCTAACCCT
*
3866098 CATTCTTTCGAAAGGATACTCCAATCCCGTTTTTAAACTTGTCAAGATTTAAATCTTATTTTTG-
1 -ATTCTTTCGAAAGGATACTCCAACCCCGTTTTTAAACTTGTCAA-ATTTAAATCTTATTTTTGC
* **
3866162 TTAAAATTGTCATCATCAGGATACTCTAACCCT
64 TT-AAATTATCATCATGGGGATACTCTAACCCT
* ** * *
3866195 ATTCTTTTGAGGGGATACTCCAACCCTGTTTTTAAACTTGTCACAATTTAAATCTTATTTTTGCC
1 ATTCTTTCGAAAGGATACTCCAACCCCGTTTTTAAACTTGTCA-AATTTAAATCTTATTTTTGCT
3866260 TAAATTATCAT
65 TAAATTATCAT
3866271 TGTCGAGGAC
Statistics
Matches: 229, Mismatches: 32, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
96 81 0.35
97 104 0.45
98 41 0.18
99 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (95 bp):
ATTCTTTCGAAAGGATACTCCAACCCCGTTTTTAAACTTGTCAAATTTAAATCTTATTTTTGCTT
AAATTATCATCATGGGGATACTCTAACCCT
Found at i:3866248 original size:193 final size:195
Alignment explanation
Indices: 3865889--3866270 Score: 531
Period size: 193 Copynumber: 2.0 Consensus size: 195
3865879 TATTCATCGA
* * * *
3865889 GGATACTCAAACTTCATTCTTCTGAAAGGGTACTTCAACCCCATTTTTAAATTTATCAAAATTTA
1 GGATACTCAAACCTCATTCTTCTGAAAGGATACTCCAACCCCATTTTTAAACTTATCAAAATTTA
* *
3865954 AATCTTATTTTTTGCTTAAATTGTCATCATCGGGCATACTTTAACCCTATTCTTTCGAGAGGATA
66 AATCTTATTTTTTGCTTAAATTGTCATCATCAGGCATACTCTAACCCTATTCTTTCGAGAGGATA
* * * *
3866019 CTCCAACCCCGTTTTTGAACTTGTGAATACTTAAATCTTTTTTTTGCTTAAATTATCATCAGTGG
131 CTCCAACCCCGTTTTTAAACTTGTCAATACTTAAATCTTATTTTTGCCTAAATTATCATCAGTGG
* * * * *
3866084 GGATACTCCAACCTCATTCTT-TCGAAAGGATACTCCAATCCCGTTTTTAAACTTGTCAAGATTT
1 GGATACTCAAACCTCATTCTTCT-GAAAGGATACTCCAACCCCATTTTTAAACTTATCAAAATTT
* *
3866148 AAATCTTA-TTTTTG-TTAAAATTGTCATCATCAGG-ATACTCTAACCCTATTCTTTTGAGGGGA
65 AAATCTTATTTTTTGCTT-AAATTGTCATCATCAGGCATACTCTAACCCTATTCTTTCGAGAGGA
* *
3866210 TACTCCAACCCTGTTTTTAAACTTGTCACA-ATTTAAATCTTATTTTTGCCTAAATTATCAT
129 TACTCCAACCCCGTTTTTAAACTTGTCA-ATACTTAAATCTTATTTTTGCCTAAATTATCAT
3866271 TGTCGAGGAC
Statistics
Matches: 165, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
193 80 0.48
194 24 0.15
195 61 0.37
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (195 bp):
GGATACTCAAACCTCATTCTTCTGAAAGGATACTCCAACCCCATTTTTAAACTTATCAAAATTTA
AATCTTATTTTTTGCTTAAATTGTCATCATCAGGCATACTCTAACCCTATTCTTTCGAGAGGATA
CTCCAACCCCGTTTTTAAACTTGTCAATACTTAAATCTTATTTTTGCCTAAATTATCATCAGTGG
Found at i:3866306 original size:96 final size:95
Alignment explanation
Indices: 3865885--3866310 Score: 359
Period size: 97 Copynumber: 4.4 Consensus size: 95
3865875 ATTTTATTCA
* * * * * *
3865885 TCGAGGATACTCAAACTTCATTC-TTCTGAAAGGG-TACTTCAACCCCATTTTTAAATTTATCAA
1 TCGAGGATACTCCAACCTC-TTCTTTC-G-AAGGGATACTCCAA-CCCGTTTTTAAACTTGTCAA
* *
3865948 AATTTAAATCTTATTTTTTGCTTAAATTGTCATCA-
62 GATTTAAATCTTA-TTTTTGCTTAAATTATCAT-AG
** * * *
3865983 TCG-GGCATACTTTAACCCTATTCTTTCG-AGAGGATACTCCAACCCCGTTTTTGAACTTGTGAA
1 TCGAGG-ATACTCCAA-CCTCTTCTTTCGAAG-GGATACTCCAA-CCCGTTTTTAAACTTGTCAA
* * *
3866046 TACTTAAATCTTTTTTTTGCTTAAATTATCATCAG
62 GATTTAAATCTTATTTTTGCTTAAATTATCAT-AG
* *
3866081 T-GGGGATACTCCAACCTCATTCTTTCGAAAGGATACTCCAATCCCGTTTTTAAACTTGTCAAGA
1 TCGAGGATACTCCAACCTC-TTCTTTCGAAGGGATACTCCAA-CCCGTTTTTAAACTTGTCAAGA
*
3866145 TTTAAATCTTATTTTTG-TTAAAATTGTCATCA-
64 TTTAAATCTTATTTTTGCTT-AAATTATCAT-AG
* * * *
3866177 TC-AGGATACTCTAACCCTATTCTTTTGAGGGGATACTCCAACCCTGTTTTTAAACTTGTCACA-
1 TCGAGGATACTCCAA-CCTCTTCTTTCGAAGGGATACTCCAACCC-GTTTTTAAACTTGTCA-AG
* *
3866240 ATTTAAATCTTATTTTTGCCTAAATTATCATTG
63 ATTTAAATCTTATTTTTGCTTAAATTATCATAG
* * * *
3866273 TCGAGGACATTCCAACCTCTTCCTCCGAAGGGATACTC
1 TCGAGGATACTCCAACCTCTTCTTTCGAAGGGATACTC
3866311 TAGCCTCGCT
Statistics
Matches: 269, Mismatches: 42, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
95 3 0.01
96 100 0.37
97 110 0.41
98 51 0.19
99 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (95 bp):
TCGAGGATACTCCAACCTCTTCTTTCGAAGGGATACTCCAACCCGTTTTTAAACTTGTCAAGATT
TAAATCTTATTTTTGCTTAAATTATCATAG
Found at i:3869912 original size:20 final size:20
Alignment explanation
Indices: 3869889--3869942 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
3869879 AAGTACCTAG
*
3869889 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
* *
3869909 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
3869929 ATGTATCGATACAT
1 ATGTATCGATACAT
3869943 CTAGTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:3876316 original size:16 final size:17
Alignment explanation
Indices: 3876274--3876320 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
3876264 ATTAACTATT
*
3876274 AATAAAAATTATTTTTA
1 AATAATAATTATTTTTA
*
3876291 AA-ATTAAATT-TTTTTA
1 AATAAT-AATTATTTTTA
3876307 AATAATAATTATTT
1 AATAATAATTATTT
3876321 ATCTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATAATTATTTTTA
Found at i:3877042 original size:25 final size:25
Alignment explanation
Indices: 3877014--3877063 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
3877004 AAAAAAATCA
3877014 TAAA-ATAAAATAA-AATAAAATAATT
1 TAAATATAAAA-AATAA-AAAATAATT
*
3877039 TAAATTTAAAAAATAAAAAATAATT
1 TAAATATAAAAAATAAAAAATAATT
3877064 ATTAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAATATAAAAAATAAAAAATAATT
Found at i:3877927 original size:23 final size:27
Alignment explanation
Indices: 3877901--3877955 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
3877891 GAAAGTACCA
3877901 TTTATCT-A-AAT-ATTT-TTAATTTT
1 TTTATCTAACAATAATTTATTAATTTT
*
3877924 TTTATGTAACAATAATTTATTAATTTT
1 TTTATCTAACAATAATTTATTAATTTT
*
3877951 ATTAT
1 TTTAT
3877956 AAAATGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 1 0.04
25 3 0.12
26 4 0.15
27 12 0.46
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTATCTAACAATAATTTATTAATTTT
Found at i:3877977 original size:20 final size:20
Alignment explanation
Indices: 3877952--3877991 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3877942 ATTAATTTTA
3877952 TTATAAAATGAA-TATCTTAT
1 TTAT-AAATGAATTATCTTAT
*
3877972 TTATAAATTAATTATCTTAT
1 TTATAAATGAATTATCTTAT
3877992 CTTTGAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TTATAAATGAATTATCTTAT
Found at i:3878319 original size:13 final size:13
Alignment explanation
Indices: 3878231--3878319 Score: 57
Period size: 13 Copynumber: 7.2 Consensus size: 13
3878221 CAATTTCATA
*
3878231 AATATAAATATAT
1 AATATAAATATTT
3878244 AATATAAATA-TT
1 AATATAAATATTT
3878256 ATATATATAAT-TTT
1 A-ATATA-AATATTT
* *
3878270 TATGTAAATATTT
1 AATATAAATATTT
* *
3878283 AA-ATATGA-ATCT
1 AATATA-AATATTT
3878295 AATAT--ATA-TT
1 AATATAAATATTT
3878305 AATATAAATATTT
1 AATATAAATATTT
3878318 AA
1 AA
3878320 AAAAAATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
10 7 0.12
11 1 0.02
12 15 0.26
13 30 0.52
14 5 0.09
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (13 bp):
AATATAAATATTT
Found at i:3883743 original size:19 final size:19
Alignment explanation
Indices: 3883721--3883766 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
3883711 TATAAACATA
* *
3883721 TAGATGTAATATATTTTAT
1 TAGATGTAATATATATGAT
*
3883740 TAGA--AAATATATATGAT
1 TAGATGTAATATATATGAT
3883757 TAGATGTAAT
1 TAGATGTAAT
3883767 CTTAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
17 14 0.67
19 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (19 bp):
TAGATGTAATATATATGAT
Found at i:3884621 original size:15 final size:17
Alignment explanation
Indices: 3884603--3884635 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3884593 GTTAAACTTA
3884603 TTATT-ATT-TTTTAAC
1 TTATTGATTCTTTTAAC
3884618 TTATTGATTCTTTTAAC
1 TTATTGATTCTTTTAAC
3884635 T
1 T
3884636 AATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATTGATTCTTTTAAC
Found at i:3885119 original size:18 final size:19
Alignment explanation
Indices: 3885096--3885135 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
3885086 TTGATTTGGT
3885096 TTAAAATAATAT-TTTTGA
1 TTAAAATAATATATTTTGA
*
3885114 TTAAAATAATATATTTTTA
1 TTAAAATAATATATTTTGA
3885133 TTA
1 TTA
3885136 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTAAAATAATATATTTTGA
Found at i:3885129 original size:20 final size:17
Alignment explanation
Indices: 3885096--3885135 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
3885086 TTGATTTGGT
3885096 TTAAAATAATATTTTTGA
1 TTAAAATAATATTTTT-A
3885114 TTAAAATAATATATTTTTA
1 TTAAAAT-A-ATATTTTTA
3885133 TTA
1 TTA
3885136 TTTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAAAATAATATTTTTA
Found at i:3886761 original size:34 final size:34
Alignment explanation
Indices: 3886718--3886868 Score: 223
Period size: 34 Copynumber: 4.4 Consensus size: 34
3886708 ATCTTTTAAA
**
3886718 CATTTAGTCAATGATGGCAAATCACCAAATCACC
1 CATTTAGTCAACAATGGCAAATCACCAAATCACC
3886752 CATTTAGTCAACAATGGCAAA-CTACCAAATCACC
1 CATTTAGTCAACAATGGCAAATC-ACCAAATCACC
* *
3886786 CATTTAGTTAACAATGGCAAACCACCAAATCACC
1 CATTTAGTCAACAATGGCAAATCACCAAATCACC
* *
3886820 CATGTAATCAACAATGGCAAATCACCAAATCACC
1 CATTTAGTCAACAATGGCAAATCACCAAATCACC
*
3886854 CATTTAATCAACAAT
1 CATTTAGTCAACAAT
3886869 TCTCCCACTT
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
33 1 0.01
34 105 0.98
35 1 0.01
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.22
Consensus pattern (34 bp):
CATTTAGTCAACAATGGCAAATCACCAAATCACC
Found at i:3890812 original size:34 final size:34
Alignment explanation
Indices: 3890766--3891015 Score: 383
Period size: 34 Copynumber: 7.4 Consensus size: 34
3890756 TATCTTTTAG
*
3890766 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* * **
3890800 TCATTTAATCAACAATAGCAAACCGTCAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* *
3890834 CCATTTAGTCAACAATGGCAAATCACCAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
*
3890868 CCATTTAATCAACAATGGCAAACCACTAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
*
3890902 CTATTTAATCAACAATGGCAAACCACCAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* *
3890936 CCATTTAGTCAACAATGGCAAACTACCAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
* *
3890970 CAATATAATCAACAATGGCAAACCACCAAATCAC
1 CCATTTAATCAACAATGGCAAACCACCAAATCAC
3891004 CCATTTAATCAA
1 CCATTTAATCAA
3891016 TGGGAACAAA
Statistics
Matches: 191, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 191 1.00
ACGTcount: A:0.44, C:0.29, G:0.07, T:0.20
Consensus pattern (34 bp):
CCATTTAATCAACAATGGCAAACCACCAAATCAC
Found at i:3893958 original size:22 final size:19
Alignment explanation
Indices: 3893933--3893976 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
3893923 TTATTCATTT
3893933 ATTATCACTTAGACTTTGTAAC
1 ATTATCACTT-GA-TTTGT-AC
*
3893955 ATTATCAGTTGATTTGTAC
1 ATTATCACTTGATTTGTAC
3893974 ATT
1 ATT
3893977 TCAAAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 5 0.24
21 2 0.10
22 9 0.43
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (19 bp):
ATTATCACTTGATTTGTAC
Found at i:3897461 original size:19 final size:19
Alignment explanation
Indices: 3897413--3897465 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
3897403 CTGCCAGTTT
*
3897413 CATGTATCGATACAATTAA
1 CATGTATCGATACAATGAA
*
3897432 -GTGTATATCGATACAATGAA
1 CATG--TATCGATACAATGAA
3897452 CATGTATCGATACA
1 CATGTATCGATACA
3897466 TTGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 14 0.50
21 2 0.07
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3897472 original size:13 final size:13
Alignment explanation
Indices: 3897454--3897478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3897444 ACAATGAACA
3897454 TGTATCGATACAT
1 TGTATCGATACAT
3897467 TGTATCGATACA
1 TGTATCGATACA
3897479 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3897495 original size:33 final size:32
Alignment explanation
Indices: 3897437--3897500 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3897427 ATTAAGTGTA
*
3897437 TATCGATACAATGAACATGTATCGATACATTG
1 TATCGATACAAAGAACATGTATCGATACATTG
3897469 TATCGATACAAAGCATA-ATGTATCGATACATT
1 TATCGATACAAAG-A-ACATGTATCGATACATT
3897501 TGGATATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 16 0.55
34 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACATTG
Found at i:3900062 original size:13 final size:13
Alignment explanation
Indices: 3900044--3900081 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3900034 ATAGTAGCTT
*
3900044 TGTATCGATATAA
1 TGTATCGATACAA
3900057 TGTATCGATACAA
1 TGTATCGATACAA
*
3900070 TGTATCAATACA
1 TGTATCGATACA
3900082 TTTACTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3901844 original size:13 final size:13
Alignment explanation
Indices: 3901826--3901852 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3901816 ACGTTATGCT
3901826 TTGTATCGATACA
1 TTGTATCGATACA
3901839 TTGTATCGATACA
1 TTGTATCGATACA
3901852 T
1 T
3901853 GTTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3901947 original size:20 final size:20
Alignment explanation
Indices: 3901922--3901975 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
3901912 CTACCACTGT
*
3901922 TTGTATCAATACATGGT-ACA
1 TTGTATCAATACATGATGA-A
3901942 TTGTATCAATACATGATGAA
1 TTGTATCAATACATGATGAA
*
3901962 TTGTATCGATACAT
1 TTGTATCAATACAT
3901976 TGCTTCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCAATACATGATGAA
Found at i:3908231 original size:21 final size:23
Alignment explanation
Indices: 3908192--3908234 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
3908182 AAACCCTAAC
3908192 ATCTTTTCATCAAAATTCTTCAA
1 ATCTTTTCATCAAAATTCTTCAA
*
3908215 ATCTTTT-A-CAAATTTCTTCA
1 ATCTTTTCATCAAAATTCTTCA
3908235 TTTTCACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (23 bp):
ATCTTTTCATCAAAATTCTTCAA
Found at i:3910657 original size:21 final size:21
Alignment explanation
Indices: 3910631--3910671 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3910621 ATACAGGTTC
3910631 ATTGTATCGATACATAAAACA
1 ATTGTATCGATACATAAAACA
*
3910652 ATTGTATCGATACATGAAAC
1 ATTGTATCGATACATAAAAC
3910672 TGGCAGTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (21 bp):
ATTGTATCGATACATAAAACA
Found at i:3910721 original size:20 final size:20
Alignment explanation
Indices: 3910696--3910749 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
3910686 CTACCACTAT
*
3910696 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
3910716 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
3910736 TTGTATCGATACAT
1 TTGTATCGATACAT
3910750 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:3916167 original size:20 final size:19
Alignment explanation
Indices: 3916144--3916208 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3916134 CAATTAAGTG
3916144 TGTATCGATACAAAGCATAA
1 TGTATCGATACAAA-CATAA
3916164 TGTATCGAT----AC--AA
1 TGTATCGATACAAACATAA
3916177 TGTATCGATACAAAACATAA
1 TGTATCGATAC-AAACATAA
3916197 TGTATCGATACA
1 TGTATCGATACA
3916209 GTGTATGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
13 11 0.29
15 1 0.03
16 1 0.03
18 2 0.05
19 1 0.03
20 22 0.58
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (19 bp):
TGTATCGATACAAACATAA
Found at i:3916180 original size:13 final size:13
Alignment explanation
Indices: 3916162--3916189 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3916152 TACAAAGCAT
3916162 AATGTATCGATAC
1 AATGTATCGATAC
3916175 AATGTATCGATAC
1 AATGTATCGATAC
3916188 AA
1 AA
3916190 AACATAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3916186 original size:33 final size:33
Alignment explanation
Indices: 3916144--3916236 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
3916134 CAATTAAGTG
3916144 TGTATCGATACAAAGCATAATGTATCGATACAA
1 TGTATCGATACAAAGCATAATGTATCGATACAA
* *
3916177 TGTATCGATACAAAACATAATGTATCGATACAG
1 TGTATCGATACAAAGCATAATGTATCGATACAA
*
3916210 TGTATGGATACAAAGCATAATGTATCG
1 TGTATCGATACAAAGCATAATGTATCG
3916237 GTATATCTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (33 bp):
TGTATCGATACAAAGCATAATGTATCGATACAA
Found at i:3917674 original size:18 final size:18
Alignment explanation
Indices: 3917633--3917678 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3917623 ATAGCATTAT
*
3917633 AAATTAAT-AAGAATACA
1 AAATTAATAAAAAATACA
* *
3917650 AATTTAATAAAAAATATA
1 AAATTAATAAAAAATACA
3917668 AAATTAATAAA
1 AAATTAATAAA
3917679 GATATATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAATTAATAAAAAATACA
Found at i:3917971 original size:26 final size:25
Alignment explanation
Indices: 3917935--3917992 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
3917925 TTATATTTTT
*
3917935 TAATTAATTAATA-TTATTTATTAGTA
1 TAATTAATTAATATTTA-TTAAT-GTA
*
3917961 TAATTACTTAATATTTATTAATGTA
1 TAATTAATTAATATTTATTAATGTA
3917986 TAATTAA
1 TAATTAA
3917993 GAGAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 16 0.57
27 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
TAATTAATTAATATTTATTAATGTA
Found at i:3918511 original size:11 final size:11
Alignment explanation
Indices: 3918495--3918531 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
3918485 TTATTACTTT
3918495 TTATTTATAAA
1 TTATTTATAAA
* *
3918506 TTATTTTTAAT
1 TTATTTATAAA
3918517 TTATTTATAAA
1 TTATTTATAAA
3918528 TTAT
1 TTAT
3918532 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:3921934 original size:67 final size:68
Alignment explanation
Indices: 3921860--3921997 Score: 183
Period size: 70 Copynumber: 2.0 Consensus size: 68
3921850 TCAACCAACT
**
3921860 TTTCTTTTTTTAC-CAAAAA-AATCTGATTCTCATG-TATAATTCATGCATTAGTCTAATCCTTG
1 TTTCTTTTTTT-CTCAAAAAGAATCCAATTCTCA-GATATAATTCATGCATTAGTCTAATCCTTG
3921922 CAGTC
64 CAGTC
* *
3921927 TTTCTTTTTTTCTTTTAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATTCTTG
1 TTTCTTTTTTTC--TCAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
3921992 CAGTC
64 CAGTC
3921997 T
1 T
3921998 GACATTTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
66 1 0.02
67 11 0.18
69 6 0.10
70 44 0.71
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (68 bp):
TTTCTTTTTTTCTCAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCA
GTC
Found at i:3922447 original size:92 final size:91
Alignment explanation
Indices: 3921927--3922692 Score: 790
Period size: 91 Copynumber: 8.5 Consensus size: 91
3921917 CCTTGCAGTC
* ** *
3921927 TTTCTTTTTTTCTTTTAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATTCTTG
1 TTTCTTTTTTTC-TATAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
* *
3921992 CAGTCTGACATTTACAATCAGTTAA--
65 CAGTCTGACATTTACAATCAATCAACT
* * * * * * * *
3922017 --T-TTTTTTTATA-AAAAAGAATCAGATTCTCAAATATAATTCATGTATTAATTTTATCCTTAC
1 TTTCTTTTTTTCTATAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGC
*
3922078 AGTCTGATATTTACAATCAGA-CAACT
66 AGTCTGACATTTACAATCA-ATCAACT
* *
3922104 TTTCTTCTTTTCTATAAAAAGAAT-TCGATTCTCAGATATAATTCATGCATTAGCCTAATCCTTG
1 TTTCTTTTTTTCTATAAAAAGAATCT-GATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
* *
3922168 CAGTTTGACATTTACAATCAGTCAACT
65 CAGTCTGACATTTACAATCAATCAACT
* * **
3922195 TTTCTTTTTTTCTATAAAAAAAAT-TCGATTCTCAGATATAATTCATACATTAGTCTAATTTTTG
1 TTTCTTTTTTTCTATAAAAAGAATCT-GATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
* *
3922259 CAGTCTAACATTTACAATCAGTCAACT
65 CAGTCTGACATTTACAATCAATCAACT
* * * * * *
3922286 GTTC-TTTTTTCTATAAAAAAAAAT-TCGATTCTCAAATATAATTTATGCATTAATCTAATTCTT
1 TTTCTTTTTTTCTAT-AAAAAGAATCT-GATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
*
3922349 GAAGTCTGACATTTACAATCAATCAACT
64 GCAGTCTGACATTTACAATCAATCAACT
* * * * * *
3922377 TTTCTTTTTTTCCATAAAAATGAATCTGATTCTCAAATATAATTAATGCATTAATTTAATCCTTC
1 TTTCTTTTTTTCTATAAAAA-GAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
* *
3922442 CAGTCTGAAATTTACAATCAGTCAACT
65 CAGTCTGACATTTACAATCAATCAACT
* * * * * ** *
3922469 TTTATTTTTTTTTGGGTAAAAAAAATC-AATTC-CTAGATATAATTTTTACATTAGTCTAATCCT
1 TTTCTTTTTTTCT--ATAAAAAGAATCTGATTCTC-AGATATAATTCATGCATTAGTCTAATCCT
* *
3922532 TGAAGTCTAACATTTACAATCAATCAACT
63 TGCAGTCTGACATTTACAATCAATCAACT
* * *
3922561 TTTCTTTTTTTTTCATAAAAAAGAATCTGATTTTCAGATATAATTCATGCATTAGTCTAATCTTT
1 TTTCTTTTTTTCT-AT-AAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
* * * *
3922626 ACAGTTTGACATTTGCAATCAATTAACT
64 GCAGTCTGACATTTACAATCAATCAACT
*
3922654 TTTC--TTTTTCTATAAAAA-AATTTGATTCTCAGATATAAT
1 TTTCTTTTTTTCTATAAAAAGAATCTGATTCTCAGATATAAT
3922693 CATATTTATT
Statistics
Matches: 567, Mismatches: 90, Indels: 40
0.81 0.13 0.06
Matches are distributed among these distances:
85 61 0.11
86 1 0.00
87 7 0.01
88 20 0.04
89 6 0.01
90 20 0.04
91 233 0.41
92 152 0.27
93 60 0.11
94 7 0.01
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (91 bp):
TTTCTTTTTTTCTATAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGC
AGTCTGACATTTACAATCAATCAACT
Found at i:3924503 original size:2 final size:2
Alignment explanation
Indices: 3924496--3924529 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3924486 TACCCCTTTA
3924496 AT 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 AT
3924530 GTTGGGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3926388 original size:24 final size:24
Alignment explanation
Indices: 3926361--3926417 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
3926351 GATCGTAATC
* *
3926361 TAATTTACTAATATGGCTATCTCG
1 TAATTTACCAATATAGCTATCTCG
*
3926385 TAATTTACCAATATAGCTATCTTG
1 TAATTTACCAATATAGCTATCTCG
3926409 TAATTTACC
1 TAATTTACC
3926418 TTTGGTCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.42
Consensus pattern (24 bp):
TAATTTACCAATATAGCTATCTCG
Found at i:3928489 original size:4 final size:4
Alignment explanation
Indices: 3928476--3928510 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
3928466 TATCATATAC
3928476 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTATA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTT
3928511 TAAAAGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:3931538 original size:14 final size:14
Alignment explanation
Indices: 3931518--3931586 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
3931508 ATAAATTATG
3931518 ATAAAAAATAATT-
1 ATAAAAAATAATTA
* *
3931531 ATTAAAAATATTTA
1 ATAAAAAATAATTA
3931545 ATAAAAAATATATGTA
1 ATAAAAAATA-AT-TA
*
3931561 TATATATAAAATAAGTA
1 -ATA-A-AAAATAATTA
*
3931578 ATTAAAAAT
1 ATAAAAAAT
3931587 TATATTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
13 11 0.25
14 14 0.32
15 2 0.05
16 4 0.09
17 5 0.11
18 2 0.05
19 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATAAAAAATAATTA
Found at i:3931603 original size:30 final size:31
Alignment explanation
Indices: 3931563--3931633 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
3931553 TATATGTATA
*
3931563 TATATAAAATAAGT-AATTA-AAAATTATATT
1 TATATTAAATAA-TCAATTAGAAAATTATATT
*
3931593 TATATTAAATAATCATTTATGAAAATTATATT
1 TATATTAAATAATCAATTA-GAAAATTATATT
3931625 TATATTAAA
1 TATATTAAA
3931634 AATAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.42
32 20 0.56
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (31 bp):
TATATTAAATAATCAATTAGAAAATTATATT
Found at i:3931612 original size:17 final size:16
Alignment explanation
Indices: 3931583--3931637 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
3931573 AAGTAATTAA
*
3931583 AAATTATATTTATATT
1 AAATAATATTTATATT
3931599 AAATAATCATTTATGA--
1 AAATAAT-ATTTAT-ATT
*
3931615 AAATTATATTTATATT
1 AAATAATATTTATATT
3931631 AAA-AATA
1 AAATAATA
3931638 AAATAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 1 0.03
15 9 0.28
16 15 0.47
17 6 0.19
18 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
AAATAATATTTATATT
Found at i:3931627 original size:15 final size:14
Alignment explanation
Indices: 3931559--3931628 Score: 52
Period size: 16 Copynumber: 4.7 Consensus size: 14
3931549 AAAATATATG
*
3931559 TATATATATAAAAT
1 TATATTTATAAAAT
* *
3931573 AAGTAATTA-AAAAT
1 TA-TATTTATAAAAT
3931587 TATATTTATATTAAAT
1 TATATTTATA--AAAT
*
3931603 AATCATTTATGAAAAT
1 TAT-ATTTAT-AAAAT
3931619 TATATTTATA
1 TATATTTATA
3931629 TTAAAAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
13 5 0.12
14 9 0.21
15 10 0.23
16 12 0.28
17 6 0.14
18 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (14 bp):
TATATTTATAAAAT
Found at i:3934845 original size:21 final size:21
Alignment explanation
Indices: 3934819--3934860 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3934809 AAAGTAAGCA
3934819 TGAAATAGCTCGATGTATTCT
1 TGAAATAGCTCGATGTATTCT
3934840 TGAAATAGCTCGATGTATTCT
1 TGAAATAGCTCGATGTATTCT
3934861 CCGTCATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
TGAAATAGCTCGATGTATTCT
Found at i:3937114 original size:38 final size:39
Alignment explanation
Indices: 3937019--3937123 Score: 133
Period size: 38 Copynumber: 2.7 Consensus size: 39
3937009 TTGGAATTTT
3937019 CTAGCCACCAGCCAAATCCAAATTGAATTCCCTAGCCAC
1 CTAGCCACCAGCCAAATCCAAATTGAATTCCCTAGCCAC
* * * * *
3937058 C-AGCCATCAACCATATCCAAATTGAATT-CTTAGTCAC
1 CTAGCCACCAGCCAAATCCAAATTGAATTCCCTAGCCAC
* *
3937095 CTAGCAACCAGTCAAATCCAAATTGAATT
1 CTAGCCACCAGCCAAATCCAAATTGAATT
3937124 TGTTAGCAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
37 8 0.15
38 46 0.84
39 1 0.02
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.23
Consensus pattern (39 bp):
CTAGCCACCAGCCAAATCCAAATTGAATTCCCTAGCCAC
Found at i:3937610 original size:15 final size:15
Alignment explanation
Indices: 3937567--3937618 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
3937557 GACCTATTCA
*
3937567 AGTTCGAGCCTTTTGG
1 AGTTCGAG-CTTTTCG
* *
3937583 GGTTTCGATCTTTTCG
1 AG-TTCGAGCTTTTCG
3937599 AGTTCGAGCTTTTTCG
1 AGTTCGAGC-TTTTCG
3937615 AGTT
1 AGTT
3937619 TGGGTTCAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 6 0.21
16 18 0.62
17 5 0.17
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (15 bp):
AGTTCGAGCTTTTCG
Found at i:3937807 original size:20 final size:19
Alignment explanation
Indices: 3937782--3937819 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3937772 TTATTCTTAA
*
3937782 TATATTTATTTATTAAAATC
1 TATATTTATATA-TAAAATC
3937802 TATATTTATATATAAAAT
1 TATATTTATATATAAAAT
3937820 TGATTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTTATATATAAAATC
Found at i:3937850 original size:18 final size:18
Alignment explanation
Indices: 3937806--3937850 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
3937796 AAAATCTATA
*
3937806 TTTATATATAAAATTGAT
1 TTTATATATAAAATTAAT
3937824 TTGT-TATATAAAATTAAT
1 TT-TATATATAAAATTAAT
*
3937842 TTTAAATAT
1 TTTATATAT
3937851 TTATTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTATATATAAAATTAAT
Found at i:3938780 original size:22 final size:22
Alignment explanation
Indices: 3938752--3938795 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3938742 TAAAGTTCAT
*
3938752 GATATAATTTTCTTTTTAATAA
1 GATATAATTTACTTTTTAATAA
3938774 GATATAATTTACTTTTTAATAA
1 GATATAATTTACTTTTTAATAA
3938796 AATACTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (22 bp):
GATATAATTTACTTTTTAATAA
Found at i:3939436 original size:3 final size:3
Alignment explanation
Indices: 3939428--3939461 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3939418 ATTTATTTAT
3939428 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3939462 CAGTTTGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3941915 original size:2 final size:2
Alignment explanation
Indices: 3941908--3941945 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3941898 CAGACTTCAA
3941908 AT AT AT 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 AT AT AT
3941946 CCAATAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3944228 original size:2 final size:2
Alignment explanation
Indices: 3944223--3944261 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3944213 ATATATATAT
3944223 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3944262 TTGATATATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3948359 original size:16 final size:16
Alignment explanation
Indices: 3948319--3948353 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3948309 AGGTTTAAGT
3948319 ATTTCAG-TTTGAGTC
1 ATTTCAGTTTTGAGTC
*
3948334 ATTTCAGTTTTGAGTT
1 ATTTCAGTTTTGAGTC
3948350 ATTT
1 ATTT
3948354 AGGTTTGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (16 bp):
ATTTCAGTTTTGAGTC
Found at i:3948360 original size:15 final size:16
Alignment explanation
Indices: 3948304--3948360 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 16
3948294 TTTTTGGATC
* *
3948304 ATTTTAGGTTTAAG-T
1 ATTTCAGGTTTGAGTT
*
3948319 ATTTCA-GTTTGAGTC
1 ATTTCAGGTTTGAGTT
*
3948334 ATTTCAGTTTTGAGTT
1 ATTTCAGGTTTGAGTT
3948350 ATTT-AGGTTTG
1 ATTTCAGGTTTG
3948361 GGTCAATCGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.18
15 17 0.50
16 11 0.32
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (16 bp):
ATTTCAGGTTTGAGTT
Found at i:3948501 original size:28 final size:28
Alignment explanation
Indices: 3948460--3948514 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
3948450 CAGGTTAATT
*
3948460 GATTTGAGTCAATTAGGTTCAACATCAC
1 GATTTGAGTAAATTAGGTTCAACATCAC
3948488 GATTTGAGTAAATTAGGTTCAACATCA
1 GATTTGAGTAAATTAGGTTCAACATCA
3948515 GGTTTCTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (28 bp):
GATTTGAGTAAATTAGGTTCAACATCAC
Found at i:3948571 original size:15 final size:15
Alignment explanation
Indices: 3948548--3948593 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
3948538 ACGCTAACTA
* *
3948548 TTCGGGTCAATTTGG
1 TTCGAGTCATTTTGG
*
3948563 TTCGAGTCATTTTAGA
1 TTCGAGTCATTTT-GG
3948579 TTCGAGTCATTTTGG
1 TTCGAGTCATTTTGG
3948594 GTTTGGGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (15 bp):
TTCGAGTCATTTTGG
Found at i:3963766 original size:20 final size:20
Alignment explanation
Indices: 3963726--3963779 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
3963716 TTTCACGATT
*
3963726 TGTATCGATACAATTAGTGAA
1 TGTATCGATAC-ATAAGTGAA
3963747 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
3963767 TTTATCGATACAT
1 TGTATCGATACAT
3963780 GTCTCAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:3963853 original size:20 final size:20
Alignment explanation
Indices: 3963828--3963879 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
3963818 GTTGAAAAAT
**
3963828 TGTATCGATACATAAGTAAA
1 TGTATCGATACATAACCAAA
**
3963848 TGTATCGATACATTTCCAAA
1 TGTATCGATACATAACCAAA
3963868 TGTATCGATACA
1 TGTATCGATACA
3963880 ATTTGCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAACCAAA
Found at i:3964945 original size:63 final size:63
Alignment explanation
Indices: 3964840--3964996 Score: 237
Period size: 63 Copynumber: 2.5 Consensus size: 63
3964830 ACACGCTCCT
** *
3964840 ATGTATCGATACAATTTATAATGTATCGATATAATGAGTTTGAAATTCTAGCCGTTGGGCTCA
1 ATGTATCGATACAATTTACCATGTATCGATATAATGAGTTTGAAATTATAGCCGTTGGGCTCA
* *
3964903 ATGTATCGATACAATTTACCATTTATC-ATTATAATGCA-TTTGAAATTATAGCCGTTGGGCTTA
1 ATGTATCGATACAATTTACCATGTATCGA-TATAATG-AGTTTGAAATTATAGCCGTTGGGCTCA
3964966 ATGTATCGATACAATTTACCATGTATCGATA
1 ATGTATCGATACAATTTACCATGTATCGATA
3964997 CAAATCAATT
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
62 1 0.01
63 82 0.96
64 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (63 bp):
ATGTATCGATACAATTTACCATGTATCGATATAATGAGTTTGAAATTATAGCCGTTGGGCTCA
Found at i:3972170 original size:3 final size:3
Alignment explanation
Indices: 3972162--3972194 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3972152 AATTTCTTAC
3972162 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
3972195 CCGTCATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:3973888 original size:63 final size:63
Alignment explanation
Indices: 3973752--3973889 Score: 186
Period size: 63 Copynumber: 2.2 Consensus size: 63
3973742 ACGCTCGTAC
* * *
3973752 GTATCGATACAATTCATAATGTATCGATACAATACATTTGAAATTCTAGCCATTGGGCTCAAT
1 GTATCGATACAATTCACAATGTATCAATACAATACATTTGAAATTATAGCCATTGGGCTCAAT
** * * ** *
3973815 GTATTAATACAATTTACCATGTATCAATGTAATGCATTTGAAATTATAGCCATTGGGCTCAAT
1 GTATCGATACAATTCACAATGTATCAATACAATACATTTGAAATTATAGCCATTGGGCTCAAT
3973878 GTATCGATACAA
1 GTATCGATACAA
3973890 ATCAATTATG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (63 bp):
GTATCGATACAATTCACAATGTATCAATACAATACATTTGAAATTATAGCCATTGGGCTCAAT
Found at i:3977283 original size:21 final size:21
Alignment explanation
Indices: 3977230--3977276 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3977220 ATGTCGTGAT
* *
3977230 GGTATCGATACAATTACCATG
1 GGTATCAATACAATTACCATA
*
3977251 GGTATCAATACAATTACCTTA
1 GGTATCAATACAATTACCATA
3977272 GGTAT
1 GGTAT
3977277 TAGTACATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
GGTATCAATACAATTACCATA
Found at i:3978892 original size:68 final size:69
Alignment explanation
Indices: 3978820--3979054 Score: 248
Period size: 69 Copynumber: 3.4 Consensus size: 69
3978810 ATGTTGAAAA
*
3978820 TGTAC-TTAGGGATATGTTGGTTATTTTTATAGTCACTTAAGGTTGCCGAGCTACTCTCATGTCA
1 TGTACTTTAGGGATATGTTGGTCATTTTTATAGTCACTTAAGGTTGCCGAGCTACTCTCATGTCA
3978884 AAGG
66 AAGG
* * ** * * * * *
3978888 TGTACTTTAGGGGTATATTGGTCATTTTTAGGGTC-CATTCAGG-T-CACTAGGATAATTTCATG
1 TGTACTTTAGGGATATGTTGGTCATTTTTATAGTCAC-TTAAGGTTGC-CGA-GCTACTCTCATG
* *
3978950 TTGAAA-A
63 -TCAAAGG
* *
3978957 TGTAC-TTAAGGATATGTTGGTTATTTTTATAGTCACTTAAGGTTGCCGAGCTACTCTCATGTCA
1 TGTACTTTAGGGATATGTTGGTCATTTTTATAGTCACTTAAGGTTGCCGAGCTACTCTCATGTCA
3979021 AAGG
66 AAGG
* *
3979025 TGTACTTTAGGGGTATGTCGGTCATTTTTA
1 TGTACTTTAGGGATATGTTGGTCATTTTTA
3979055 AGGTCCATTA
Statistics
Matches: 128, Mismatches: 29, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
67 5 0.04
68 51 0.40
69 67 0.52
70 5 0.04
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (69 bp):
TGTACTTTAGGGATATGTTGGTCATTTTTATAGTCACTTAAGGTTGCCGAGCTACTCTCATGTCA
AAGG
Found at i:3978949 original size:69 final size:69
Alignment explanation
Indices: 3978874--3979077 Score: 195
Period size: 68 Copynumber: 3.0 Consensus size: 69
3978864 GCCGAGCTAC
* * * *
3978874 TCTCATGTCAAAGGTGTACTTTAGGGGTATATTGGTCATTTTTAGGGTCCATTCAGGTCACTAGG
1 TCTCATGTCAAAGGTGTACTTTAGGGGTATGTTGGTCATTTTTAAGGTCCATTAAGGTCACAAGG
3978939 ATAA
66 ATAA
* * * * * *
3978943 TTTCATGTTGAAA-ATGTAC-TTAAGGATATGTTGGTTATTTTTATA-GT-CACTTAAGGTTGC-
1 TCTCATG-TCAAAGGTGTACTTTAGGGGTATGTTGGTCATTTTTA-AGGTCCA-TTAAGG-T-CA
* * *
3979003 CGA-GCTAC
61 CAAGGATAA
*
3979011 TCTCATGTCAAAGGTGTACTTTAGGGGTATGTCGGTCATTTTTAAGGTCCATTAAGGTCACAAGG
1 TCTCATGTCAAAGGTGTACTTTAGGGGTATGTTGGTCATTTTTAAGGTCCATTAAGGTCACAAGG
3979076 AT
66 AT
3979078 TTTTTATGTT
Statistics
Matches: 103, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
67 7 0.07
68 45 0.44
69 44 0.43
70 7 0.07
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (69 bp):
TCTCATGTCAAAGGTGTACTTTAGGGGTATGTTGGTCATTTTTAAGGTCCATTAAGGTCACAAGG
ATAA
Found at i:3979038 original size:137 final size:137
Alignment explanation
Indices: 3978792--3979108 Score: 528
Period size: 137 Copynumber: 2.3 Consensus size: 137
3978782 ACTCCTTTAG
*
3978792 GGTCACTAGGATAATTTCATGTTGAAAATGTACTTAGGGATATGTTGGTTATTTTTATAGTCACT
1 GGTCACTAGGATAATTTCATGTTGAAAATGTACTTAAGGATATGTTGGTTATTTTTATAGTCACT
* *
3978857 TAAGGTTGCCGAGCTACTCTCATGTCAAAGGTGTACTTTAGGGGTATATTGGTCATTTTTAGGGT
66 TAAGGTTGCCGAGCTACTCTCATGTCAAAGGTGTACTTTAGGGGTATATCGGTCATTTTTAAGGT
*
3978922 CCATTCA
131 CCATTAA
3978929 GGTCACTAGGATAATTTCATGTTGAAAATGTACTTAAGGATATGTTGGTTATTTTTATAGTCACT
1 GGTCACTAGGATAATTTCATGTTGAAAATGTACTTAAGGATATGTTGGTTATTTTTATAGTCACT
*
3978994 TAAGGTTGCCGAGCTACTCTCATGTCAAAGGTGTACTTTAGGGGTATGTCGGTCATTTTTAAGGT
66 TAAGGTTGCCGAGCTACTCTCATGTCAAAGGTGTACTTTAGGGGTATATCGGTCATTTTTAAGGT
3979059 CCATTAA
131 CCATTAA
* * * **
3979066 GGTCACAAGGAT-TTTTTATGTTGAATGTGTACTTTAAGGATAT
1 GGTCACTAGGATAATTTCATGTTGAAAATGTAC-TTAAGGATAT
3979109 TTTAGTCTCT
Statistics
Matches: 169, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
136 16 0.09
137 153 0.91
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (137 bp):
GGTCACTAGGATAATTTCATGTTGAAAATGTACTTAAGGATATGTTGGTTATTTTTATAGTCACT
TAAGGTTGCCGAGCTACTCTCATGTCAAAGGTGTACTTTAGGGGTATATCGGTCATTTTTAAGGT
CCATTAA
Found at i:3984911 original size:21 final size:21
Alignment explanation
Indices: 3984881--3984947 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
3984871 AACATCTTTT
*
3984881 AGTTACTTGCCTTTGTTTGAA
1 AGTTACTTGCCTTTGTTAGAA
* *
3984902 AGTTATTTG-CTTT-TCAGAA
1 AGTTACTTGCCTTTGTTAGAA
* * *
3984921 GGTTACTTGCTTTTGTTGGAA
1 AGTTACTTGCCTTTGTTAGAA
3984942 AGTTAC
1 AGTTAC
3984948 CTGCTATATT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 11 0.31
20 7 0.20
21 17 0.49
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (21 bp):
AGTTACTTGCCTTTGTTAGAA
Found at i:3985251 original size:57 final size:54
Alignment explanation
Indices: 3985171--3985331 Score: 144
Period size: 57 Copynumber: 2.9 Consensus size: 54
3985161 TAATTAACCG
* *
3985171 TTTAATATATAAAACTTTTAATTAAACTTTTACATATAGAATTTTCAATTTAAAAT
1 TTTACTATATAGAA-TTTTAATTAAACTTTTACATATAGAATTTTCAA-TTAAAAT
** * * *
3985227 TTTCACTA-ATAAGAATTTTAAATTAAACTTTTTTTTACATAGAATTTTCAATTAGACT
1 TTT-ACTATAT-AGAATTTT-AATTAAAC--TTTTACATATAGAATTTTCAATTAAAAT
* * * *
3985285 TTTAGTATATAGGATTTTTAATTAAACTTGTACATATAGAACTTTCA
1 TTTACTATATA-GAATTTTAATTAAACTTTTACATATAGAATTTTCA
3985332 CATATGAAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
55 15 0.18
56 9 0.11
57 26 0.31
58 16 0.19
59 18 0.21
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (54 bp):
TTTACTATATAGAATTTTAATTAAACTTTTACATATAGAATTTTCAATTAAAAT
Found at i:3985258 original size:29 final size:27
Alignment explanation
Indices: 3985177--3985325 Score: 104
Period size: 28 Copynumber: 5.3 Consensus size: 27
3985167 ACCGTTTAAT
*
3985177 ATATAAAACTTTT-AATTAAACTTTTAC
1 ATATAGAA-TTTTAAATTAAACTTTTAC
* *
3985204 ATATAGAATTTTCAATTTAAAATTTT-C
1 ATATAGAATTTT-AAATTAAACTTTTAC
**
3985231 ACTAATAAGAATTTTAAATTAAACTTTTTTTT
1 A-T-AT-AGAATTTTAAATTAAAC--TTTTAC
* * * *
3985263 ACATAGAATTTTCAATTAGACTTTTAGT
1 ATATAGAATTTTAAATTAAACTTTTA-C
* * *
3985291 ATATAGGATTTTTAATTAAACTTGTAC
1 ATATAGAATTTTAAATTAAACTTTTAC
3985318 ATATAGAA
1 ATATAGAA
3985326 CTTTCACATA
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
26 4 0.04
27 20 0.21
28 33 0.34
29 24 0.25
30 10 0.10
31 4 0.04
32 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (27 bp):
ATATAGAATTTTAAATTAAACTTTTAC
Found at i:3986203 original size:9 final size:9
Alignment explanation
Indices: 3986175--3986230 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
3986165 TATCATCTTA
3986175 AAAAAAGGAG
1 AAAAAA-GAG
3986185 AAAAATAAGAG
1 -AAAA-AAGAG
*
3986196 AGAAAAGA-
1 AAAAAAGAG
*
3986204 AAAGAAAGAA
1 AAA-AAAGAG
3986214 AAAAAAGAG
1 AAAAAAGAG
3986223 AAAAAAGA
1 AAAAAAGA
3986231 AAAGAAACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 2 0.05
9 22 0.56
10 6 0.15
11 7 0.18
12 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:3986206 original size:5 final size:5
Alignment explanation
Indices: 3986196--3986237 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
3986186 AAAATAAGAG
*
3986196 AGAAA AGAAA AG-AA AGAAA A-AAA AGAGA A-AAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
3986238 CTCTTGCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 11 0.34
5 21 0.66
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:3986212 original size:18 final size:17
Alignment explanation
Indices: 3986191--3986237 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
3986181 GGAGAAAAAT
3986191 AAGAGAGAAAAGAAAAGA
1 AAGA-AGAAAAGAAAAGA
*
3986209 AAGAA-AAAA-AAGAGA
1 AAGAAGAAAAGAAAAGA
*
3986224 AAAAAGAAAAGAAA
1 AAGAAGAAAAGAAA
3986238 CTCTTGCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 9 0.38
16 8 0.33
17 3 0.12
18 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAGAAAAGA
Found at i:3986213 original size:27 final size:27
Alignment explanation
Indices: 3986183--3986237 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
3986173 TAAAAAAAGG
* *
3986183 AGAAAAATAAGAGAGAAAAGAAAAGAA
1 AGAAAAAAAAGAGAAAAAAGAAAAGAA
3986210 AGAAAAAAAAGAGAAAAAAGAAAAGAA
1 AGAAAAAAAAGAGAAAAAAGAAAAGAA
3986237 A
1 A
3986238 CTCTTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (27 bp):
AGAAAAAAAAGAGAAAAAAGAAAAGAA
Found at i:3986789 original size:146 final size:143
Alignment explanation
Indices: 3986491--3986827 Score: 435
Period size: 146 Copynumber: 2.3 Consensus size: 143
3986481 TCTTCTAATG
* * *
3986491 TTCTTGTTTATTTACT-TTAAATTTCATTATTTAAAGTTTGATGATCCTAAGTTAAGCTTAGGGA
1 TTCTTGTTTA-TTA-TGTTAAATTTCATTACTTAAAGCTTGATGATCATAAGTTAAGCTTAGGGA
* * *
3986555 TGTTTAAGCTTAGGTTGTAAAAACCAATTTTGAGGCCAAACTTTGAGTTATCATATTGTTTAAAT
64 TGTTTAAGCCTAGGTTGTAAAAACCAATTTTGAGGCCAAACTTTGAGTTATCATATTATTGAAAT
* *
3986620 TATATTTATGTTTAT
129 TATATTAATGCTTAT
* *
3986635 TTCTTTGTTTATTATGTCTAAATTTCATAACTTAAAGCTTGATGATCATAAGTTGAGCTTAAGGG
1 TTC-TTGTTTATTATGT-TAAATTTCATTACTTAAAGCTTGATGATCATAAGTTAAGCTT-AGGG
* * * *
3986700 ATGTTTGAGCCTAGGTTGTAAAATACCAATTTTGAGGTCGAACTTTGAG-TATCATGTTATTGAA
63 ATGTTTAAGCCTAGGTTGTAAAA-ACCAATTTTGAGGCCAAACTTTGAGTTATCATATTATTGAA
*
3986764 ATTATGTTAATGCTTATT
127 ATTATATTAATGCTTA-T
* *
3986782 TTCTTGTTTATTATGTTTGAATTCCATTACTTAAAGCTTGATGATC
1 TTCTTGTTTATTATG-TTAAATTTCATTACTTAAAGCTTGATGATC
3986828 CTATGTCTTT
Statistics
Matches: 168, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
143 1 0.01
144 7 0.04
145 44 0.26
146 88 0.52
147 28 0.17
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (143 bp):
TTCTTGTTTATTATGTTAAATTTCATTACTTAAAGCTTGATGATCATAAGTTAAGCTTAGGGATG
TTTAAGCCTAGGTTGTAAAAACCAATTTTGAGGCCAAACTTTGAGTTATCATATTATTGAAATTA
TATTAATGCTTAT
Found at i:3988377 original size:20 final size:20
Alignment explanation
Indices: 3988352--3988405 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
3988342 GTTTGAGATA
3988352 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
*
3988372 ATGTATCAATACAATGTGCC
1 ATGTATCGATACAATGTGCC
3988392 ATGTATCGATACAA
1 ATGTATCGATACAA
3988406 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:3988491 original size:32 final size:33
Alignment explanation
Indices: 3988455--3988519 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
3988445 ACAATTGTGC
3988455 ATGTATCGATACAA-TGAT-CATGTATCCATACA
1 ATGTATCGATACAATTG-TGCATGTATCCATACA
3988487 ATGTATCGATACAATTGTGCATGTATCCATACA
1 ATGTATCGATACAATTGTGCATGTATCCATACA
3988520 GTTTCATGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAATTGTGCATGTATCCATACA
Found at i:3988513 original size:20 final size:18
Alignment explanation
Indices: 3988442--3988490 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
3988432 TTCATATTTT
3988442 GATACAATTGTGCATGTATC
1 GATACAA-TGT-CATGTATC
3988462 GATACAATGATCATGTATC
1 GATACAATG-TCATGTATC
*
3988481 CATACAATGT
1 GATACAATGT
3988491 ATCGATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
GATACAATGTCATGTATC
Found at i:3991085 original size:13 final size:13
Alignment explanation
Indices: 3991067--3991106 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
3991057 ATAGTAACCC
*
3991067 ATGTATCAATACA
1 ATGTATCGATACA
3991080 ATGTATCGATACA
1 ATGTATCGATACA
*
3991093 ATTTATCGATACA
1 ATGTATCGATACA
3991106 A
1 A
3991107 AGAACATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3991176 original size:18 final size:19
Alignment explanation
Indices: 3991140--3991177 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
3991130 GGTTTTTTCA
3991140 AATGTATCGATACATATTTT
1 AATGTATCGATA-ATATTTT
3991160 AATGTATCGAT-ATATTTT
1 AATGTATCGATAATATTTT
3991178 GAAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (19 bp):
AATGTATCGATAATATTTT
Found at i:3992546 original size:16 final size:16
Alignment explanation
Indices: 3992525--3992555 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3992515 CAACATTTCC
*
3992525 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
3992541 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
3992556 GAAAGCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:3995692 original size:15 final size:15
Alignment explanation
Indices: 3995672--3995704 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3995662 CTTTATCGTT
3995672 ATCATTATCATCATC
1 ATCATTATCATCATC
*
3995687 ATCATTATCTTCATC
1 ATCATTATCATCATC
3995702 ATC
1 ATC
3995705 TTTGATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCATTATCATCATC
Found at i:3997354 original size:20 final size:20
Alignment explanation
Indices: 3997329--3997403 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
3997319 CTGCCAGTTT
*
3997329 CATGTATCAATACAATTGTG
1 CATGTATCGATACAATTGTG
*
3997349 CATGTATTGATACAATTGTG
1 CATGTATCGATACAATTGTG
3997369 CATGTATCGATACAA-TGAT-
1 CATGTATCGATACAATTG-TG
*
3997388 CATGTATCTATACAAT
1 CATGTATCGATACAAT
3997404 GTATCAATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.33
20 33 0.67
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACAATTGTG
Found at i:3999672 original size:24 final size:23
Alignment explanation
Indices: 3999619--3999674 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
3999609 AATATTTTTA
* *
3999619 TTTAAAATTAATTAAAAAAATAT
1 TTTAATATTAATTAAAAAAACAT
* * *
3999642 ATAAATATTAATATAAAATAACAT
1 TTTAATATTAAT-TAAAAAAACAT
3999666 TTTAATATT
1 TTTAATATT
3999675 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAATATTAATTAAAAAAACAT
Found at i:4000781 original size:16 final size:16
Alignment explanation
Indices: 4000760--4000816 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
4000750 AGCTTTAATA
4000760 CTTTTAGATTTAAATT
1 CTTTTAGATTTAAATT
*
4000776 CTTTTAGATTCAAATAT
1 CTTTTAGATTTAAAT-T
*
4000793 -TTTTAAATTTAAA-T
1 CTTTTAGATTTAAATT
4000807 CATTTTAGAT
1 C-TTTTAGAT
4000817 ATGAGTTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (16 bp):
CTTTTAGATTTAAATT
Found at i:4000797 original size:32 final size:32
Alignment explanation
Indices: 4000756--4000816 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4000746 TTCAAGCTTT
*
4000756 AATACTTTTAGATTTAAATTC-TTTTAGATTCA
1 AATACTTTTAAATTTAAA-TCATTTTAGATTCA
*
4000788 AATATTTTTAAATTTAAATCATTTTAGAT
1 AATACTTTTAAATTTAAATCATTTTAGAT
4000817 ATGAGTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (32 bp):
AATACTTTTAAATTTAAATCATTTTAGATTCA
Found at i:4001247 original size:22 final size:22
Alignment explanation
Indices: 4001222--4001264 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4001212 ATTATATCGT
4001222 AATTCATATTAT-TTTATTTATA
1 AATT-ATATTATATTTATTTATA
*
4001244 AATTATATTTTATTTATTTAT
1 AATTATATTATATTTATTTAT
4001265 GATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTATATTATATTTATTTATA
Found at i:4001457 original size:23 final size:24
Alignment explanation
Indices: 4001412--4001467 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
4001402 AATTAGATTT
**
4001412 TATTAATTTTTAGTTATTTTTAAAA
1 TATTAATTTTTA-TTATGATTAAAA
*
4001437 TATTAATTTTT-TTATGATTAAAT
1 TATTAATTTTTATTATGATTAAAA
4001460 TATATAAT
1 TAT-TAAT
4001468 AAATATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.44
24 4 0.15
25 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTAATTTTTATTATGATTAAAA
Found at i:4003334 original size:2 final size:2
Alignment explanation
Indices: 4003327--4003365 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4003317 CCACTTAGAC
4003327 TA TA TA TA TA TA TA TA TA TA -A 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 TA TA
4003366 CTTACCACCT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4003352 original size:17 final size:17
Alignment explanation
Indices: 4003330--4003363 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4003320 CTTAGACTAT
4003330 ATATATATATATATATA
1 ATATATATATATATATA
4003347 ATATATATATATATATA
1 ATATATATATATATATA
4003364 TACTTACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:4008644 original size:17 final size:17
Alignment explanation
Indices: 4008605--4008647 Score: 79
Period size: 16 Copynumber: 2.6 Consensus size: 17
4008595 ATTAGAAATA
4008605 AAAATACCTACCCCATC
1 AAAATACCTACCCCATC
4008622 -AAATACCTACCCCATC
1 AAAATACCTACCCCATC
4008638 AAAATACCTA
1 AAAATACCTA
4008648 ACTCTATCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATACCTACCCCATC
Found at i:4014975 original size:78 final size:76
Alignment explanation
Indices: 4014723--4015028 Score: 221
Period size: 78 Copynumber: 4.0 Consensus size: 76
4014713 TCTCACATGA
* * * * ** *
4014723 CCCTAATGGACATGTATT-GACACAAAGATTCCTACATAATCCTA-GACTCAATTTTAAGATACT
1 CCCTAATGGACATGT-TTCGACACAAAGGTTCCCACATGACCCTAGGACTTGATTTTAAGGTACT
*
4014786 ATT-CTTGAAATA-
65 ATTAC--AAAATAT
* ** * * * *
4014798 CACTTAATGGACATGTTTTAATACAAAGGTTCCCACATGACCCTAAGGAC-TCAGCTTTAAGGTT
1 C-CCTAATGGACATGTTTCGACACAAAGGTTCCCACATGACCCT-AGGACTTGA-TTTTAAGGTA
4014862 CTATTATCAAAATAT
63 CTATTA-CAAAATAT
** * * * *
4014877 CTTTAATGGATAAGTATCGACACAAAGGTTCCCACATGACTCTAGGAGCTTGATTTTAAGGTACT
1 CCCTAATGGACATGTTTCGACACAAAGGTTCCCACATGACCCTAGGA-CTTGATTTTAAGGTACT
4014942 ATTACAGAAATAT
65 ATTACA-AAATAT
* ** ** *
4014955 CCCTAATAGACATGTTTCGACGTGAAA-GTTTTCACATGACCCTA-GACTTGGTTTTAAGGTACT
1 CCCTAATGGACATGTTTCGAC-ACAAAGGTTCCCACATGACCCTAGGACTTGATTTTAAGGTACT
4015018 ATTACCAAAAT
65 ATTA-CAAAAT
4015029 GATTTTAAAG
Statistics
Matches: 182, Mismatches: 36, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
75 3 0.02
76 56 0.31
77 12 0.07
78 104 0.57
79 6 0.03
80 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (76 bp):
CCCTAATGGACATGTTTCGACACAAAGGTTCCCACATGACCCTAGGACTTGATTTTAAGGTACTA
TTACAAAATAT
Found at i:4015046 original size:76 final size:78
Alignment explanation
Indices: 4014909--4015060 Score: 179
Period size: 76 Copynumber: 2.0 Consensus size: 78
4014899 CAAAGGTTCC
* *
4014909 CACATGACTCTAGGAGCTTGATTTTAAGGTACTATTACAGAAATATCCCTAATAGACATGTTTCG
1 CACATGACCCTAGGAGCTTGATTTTAAGGTACTATTACAGAAATATCCCTAATAGAAATGTTTCG
*
4014974 ACGTGAAAGTTTT
66 ACATGAAAGTTTT
* **
4014987 CACATGACCCTA-GA-CTTGGTTTTAAGGTACTATTACCA-AAATGAT-TTTAA-AGGAAATGTT
1 CACATGACCCTAGGAGCTTGATTTTAAGGTACTATTA-CAGAAAT-ATCCCTAATA-GAAATGTT
*
4015047 TTGACATGAAAGTT
63 TCGACATGAAAGTT
4015061 CCTATATGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
75 1 0.02
76 46 0.72
77 6 0.09
78 11 0.17
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (78 bp):
CACATGACCCTAGGAGCTTGATTTTAAGGTACTATTACAGAAATATCCCTAATAGAAATGTTTCG
ACATGAAAGTTTT
Found at i:4015113 original size:29 final size:28
Alignment explanation
Indices: 4015051--4015114 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
4015041 AATGTTTTGA
*
4015051 CATGAAAGTTCCTATATGATCCTAAAAT
1 CATGAAAATTCCTATATGATCCTAAAAT
*
4015079 AATGAAAATTCCTATCATGA-CCTAAAAT
1 CATGAAAATTCCTAT-ATGATCCTAAAAT
4015107 GCATGAAA
1 -CATGAAA
4015115 CTTACATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (28 bp):
CATGAAAATTCCTATATGATCCTAAAAT
Found at i:4015123 original size:28 final size:29
Alignment explanation
Indices: 4015052--4015124 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 29
4015042 ATGTTTTGAC
* *
4015052 ATGAAAGTTCCTAT-ATGATCCTAAAATA
1 ATGAAAATTACTATCATGATCCTAAAATA
* *
4015080 ATGAAAATTCCTATCATGA-CCTAAAATGC
1 ATGAAAATTACTATCATGATCCTAAAAT-A
*
4015109 ATGAAACTTAC-ATCAT
1 ATGAAAATTACTATCAT
4015125 AGTCCTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 26 0.67
29 13 0.33
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (29 bp):
ATGAAAATTACTATCATGATCCTAAAATA
Found at i:4015203 original size:58 final size:59
Alignment explanation
Indices: 4015095--4015237 Score: 157
Period size: 58 Copynumber: 2.5 Consensus size: 59
4015085 AATTCCTATC
* * * * *
4015095 ATGA-CCTAAAATGCATGAAACTTACATCATAGTCCTTATAACATAAAAAAT-TTCTAA
1 ATGACCCTAAAATGCATGAAAATTGCATAATAGGCCCTATAACATAAAAAATGTTCTAA
* ** *
4015152 AT-ACTCTTAAAATGCATGAAAATTGCATAATAGGCCCTATAACATGGAAAATGTTTTAA
1 ATGAC-CCTAAAATGCATGAAAATTGCATAATAGGCCCTATAACATAAAAAATGTTCTAA
* *
4015211 ATGACCCTAAAATGTATGAGAATTGCA
1 ATGACCCTAAAATGCATGAAAATTGCA
4015238 AAATGGTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
56 1 0.01
57 2 0.03
58 39 0.56
59 26 0.37
60 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (59 bp):
ATGACCCTAAAATGCATGAAAATTGCATAATAGGCCCTATAACATAAAAAATGTTCTAA
Found at i:4018249 original size:122 final size:124
Alignment explanation
Indices: 4018104--4018346 Score: 328
Period size: 122 Copynumber: 2.0 Consensus size: 124
4018094 ATTAAATGTT
* * *
4018104 ACATTTTAAAGATGATTATATGAAAAAATTGAATTAAGATTTAAAAATGTTTTTAAGCCAATTTT
1 ACATTTTAAAGATAATTATATGAAAAAATTGAATTAAGATTCAAAAATGTTTTTAAGCCAATTCT
* * * * *
4018169 AACTAAAAGATAAAGCAAACACTAACTATTTTCAACA-ATATGGTAAAATATAGATATC
66 AACCAAAAGATAAAGCAAACAATAACCATTCTCAACATATATGATAAAATATAGATATC
* * * *
4018227 ACATTTTAAA-ATAATTATATGAAACAATTGAGTTAAGGTTCAAAAATTTTTTTAAGCCAATTCT
1 ACATTTTAAAGATAATTATATGAAAAAATTGAATTAAGATTCAAAAATGTTTTTAAGCCAATTCT
* * * *
4018291 AACCAATAGATAGAGCAAAGAATGACCATTCTCAACATATATGATAAAATATAGAT
66 AACCAAAAGATAAAGCAAACAATAACCATTCTCAACATATATGATAAAATATAGAT
4018347 CCTCCCACAA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
122 76 0.74
123 27 0.26
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (124 bp):
ACATTTTAAAGATAATTATATGAAAAAATTGAATTAAGATTCAAAAATGTTTTTAAGCCAATTCT
AACCAAAAGATAAAGCAAACAATAACCATTCTCAACATATATGATAAAATATAGATATC
Found at i:4019139 original size:17 final size:17
Alignment explanation
Indices: 4019117--4019155 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4019107 AGGGTTGTCC
4019117 ACAAAGCATAATGTATA
1 ACAAAGCATAATGTATA
4019134 ACAAAGCATAATGTATA
1 ACAAAGCATAATGTATA
4019151 ACAAA
1 ACAAA
4019156 ATCCTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (17 bp):
ACAAAGCATAATGTATA
Found at i:4021659 original size:23 final size:23
Alignment explanation
Indices: 4021588--4021647 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
4021578 TCAAGGCAGG
* *
4021588 TAATTATTATTTAATAATAAAAT
1 TAATTTTTATTTAATAATAAAAA
4021611 TAATTTTTATTTAATAATAAAAA
1 TAATTTTTATTTAATAATAAAAA
4021634 TAATTTTTATTTAA
1 TAATTTTTATTTAA
4021648 GTTTAATCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATTTTTATTTAATAATAAAAA
Found at i:4022805 original size:61 final size:62
Alignment explanation
Indices: 4022658--4022813 Score: 183
Period size: 62 Copynumber: 2.5 Consensus size: 62
4022648 ATTGTAGTTA
* * * * * *
4022658 AAATTGATAATTAATAGTTTAATTGATGAATTTGTATACGTAACTAACTCAAATTCTATTTG
1 AAATTGGTGATTAGTAGATTAATTGATGAATTTGTATACGTAACAAACACAAATTCTATTTG
* *
4022720 AAATTGGTGATTAGTAGATTAATTGATGAATTTGTATAGGTAA-AAACACTAATTCTAATTT-
1 AAATTGGTGATTAGTAGATTAATTGATGAATTTGTATACGTAACAAACACAAATTCT-ATTTG
* *
4022781 AAATTGGTGATTTGTA-ATTCAATTGATAAATTT
1 AAATTGGTGATTAGTAGATT-AATTGATGAATTT
4022814 TATTATGTAG
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
60 3 0.04
61 37 0.45
62 42 0.51
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (62 bp):
AAATTGGTGATTAGTAGATTAATTGATGAATTTGTATACGTAACAAACACAAATTCTATTTG
Found at i:4022980 original size:61 final size:61
Alignment explanation
Indices: 4022625--4022991 Score: 186
Period size: 61 Copynumber: 6.0 Consensus size: 61
4022615 TTAGTACATC
* * * * * **
4022625 AATTTGCATATAT-AGTTACACTAATTGTAGTTAAAATTGATAATTAATAGTTTAATTGATG
1 AATTTACATATATAAG-TACACTAATTATAGTTGAAATTGATGATTAGTAGTCCAATTGATG
** ** * * * * *
4022686 AATTTGTATACGTAACTA-ACTCAAATTCTATTTGAAATTGGTGATTAGTAGAT-TAATTGATG
1 AATTTACATATATAAGTACACT--AATTATAGTTGAAATTGATGATTAGTAG-TCCAATTGATG
** ** ** * * * * * * * *
4022748 AATTTGTATAGGTAAAAACACTAATTCTAATTTAAATTGGTGATTTGTAATTCAATTGATA
1 AATTTACATATATAAGTACACTAATTATAGTTGAAATTGATGATTAGTAGTCCAATTGATG
* * * * ** * * * * * *
4022809 AATTTTA-TTATGTAGGCACACTAATTCCACTTTAAATT-TTAATTAGTAGTCCAATTGTTA
1 AA-TTTACATATATAAGTACACTAATTATAGTTGAAATTGATGATTAGTAGTCCAATTGATG
* *
4022869 AATTTACATATATAATTACACTAATTATAGTTGAAATTGATGATTAGTAGTCTAATTGATG
1 AATTTACATATATAAGTACACTAATTATAGTTGAAATTGATGATTAGTAGTCCAATTGATG
* * * * * * * *
4022930 AATTTATATGTATAAGTACACTTATTTTATTTTAAATTGGTGGTTAGTAGTCCAATTGATG
1 AATTTACATATATAAGTACACTAATTATAGTTGAAATTGATGATTAGTAGTCCAATTGATG
4022991 A
1 A
4022992 GTTTGTGTTT
Statistics
Matches: 240, Mismatches: 57, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
59 4 0.02
60 44 0.18
61 138 0.57
62 50 0.21
63 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (61 bp):
AATTTACATATATAAGTACACTAATTATAGTTGAAATTGATGATTAGTAGTCCAATTGATG
Found at i:4023162 original size:61 final size:61
Alignment explanation
Indices: 4022902--4023237 Score: 196
Period size: 61 Copynumber: 5.6 Consensus size: 61
4022892 ATTATAGTTG
* * * * * * *
4022902 AAATTGATGATTAGTAGTCTAATTGATGAATTTATATGTATAAG-TACACTT-ATT-TTATTTT
1 AAATTGGTCATTAGTAGTCTAATTGATGAATTTGTATATGT-AGTTATA-TTAATTCTTA-TTC
** * * * *
4022963 AAATTGGTGGTTAGTAGTCCAATTGATGAGTTTGTGT-T-TA--TA-ATTAATTC-TACTTT
1 AAATTGGTCATTAGTAGTCTAATTGATGAATTTGTATATGTAGTTATATTAATTCTTA-TTC
* * * * *
4023019 AAATTGAT-AGTT-GATAGTCCAAATGATGAATTTGTATATATAGTTACATTAATTCTTATTC
1 AAATTGGTCA-TTAG-TAGTCTAATTGATGAATTTGTATATGTAGTTATATTAATTCTTATTC
* * * * *
4023080 AAATTAGTGATTTA-CAATCTAATTGATGAATTTGTATATGTACTTATATTAATTCTTATTC
1 AAATTGGTCA-TTAGTAGTCTAATTGATGAATTTGTATATGTAGTTATATTAATTCTTATTC
* * * * * * *
4023141 AAATTGGTTATAAGTAGTCTAATTGATAAAGTT-TATTGTGTAGTTATACTAATTC-TACTC
1 AAATTGGTCATTAGTAGTCTAATTGATGAATTTGTA-TATGTAGTTATATTAATTCTTATTC
* * *
4023201 TAAATTGGTCATTAGTACTCTAACTGATTAATTTGTA
1 -AAATTGGTCATTAGTAGTCTAATTGATGAATTTGTA
4023238 CATACAATTA
Statistics
Matches: 219, Mismatches: 40, Indels: 31
0.76 0.14 0.11
Matches are distributed among these distances:
55 3 0.01
56 38 0.17
57 3 0.01
58 3 0.01
59 1 0.00
60 11 0.05
61 153 0.70
62 7 0.03
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (61 bp):
AAATTGGTCATTAGTAGTCTAATTGATGAATTTGTATATGTAGTTATATTAATTCTTATTC
Found at i:4024700 original size:17 final size:17
Alignment explanation
Indices: 4024678--4024739 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
4024668 ATAATTTTTT
4024678 TTATTTTTATATTATAA
1 TTATTTTTATATTATAA
4024695 TTA-TTTT-TATTATAA
1 TTATTTTTATATTATAA
4024710 TATATATTTTA-ATATATTAA
1 T-TAT-TTTTATAT-TA-TAA
*
4024730 TAATTTTTAT
1 TTATTTTTAT
4024740 TATAATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
15 9 0.24
16 6 0.16
17 3 0.08
18 11 0.30
19 4 0.11
20 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTTTTATATTATAA
Found at i:4024712 original size:23 final size:23
Alignment explanation
Indices: 4024668--4024712 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4024658 ATAATAAAAA
* * *
4024668 ATAATTTTTTTTATTTTTATATT
1 ATAATTATTTTTATTATAATATT
4024691 ATAATTATTTTTATTATAATAT
1 ATAATTATTTTTATTATAATAT
4024713 ATATTTTAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATAATTATTTTTATTATAATATT
Found at i:4024717 original size:18 final size:17
Alignment explanation
Indices: 4024679--4024745 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
4024669 TAATTTTTTT
*
4024679 TATTTTTA-TATTATAA
1 TATTTTTATTATAATAA
4024695 TTATTTTTATTATAAT-A
1 -TATTTTTATTATAATAA
* *
4024712 TATATTTTAATATATTAA
1 TAT-TTTTATTATAATAA
4024730 TAATTTTTATTATAAT
1 T-ATTTTTATTATAAT
4024746 TTTTAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
16 3 0.07
17 19 0.46
18 17 0.41
19 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTTATTATAATAA
Found at i:4024736 original size:35 final size:35
Alignment explanation
Indices: 4024679--4024745 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
4024669 TAATTTTTTT
* *
4024679 TATTTTTATATTATAATTATTTTTATTATAATATA
1 TATTTTAATATTATAATAATTTTTATTATAATATA
4024714 TATTTTAATA-TATTAATAATTTTTATTATAAT
1 TATTTTAATATTA-TAATAATTTTTATTATAAT
4024746 TTTTAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.07
35 27 0.93
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (35 bp):
TATTTTAATATTATAATAATTTTTATTATAATATA
Found at i:4024746 original size:12 final size:12
Alignment explanation
Indices: 4024697--4024758 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
4024687 TATTATAATT
4024697 ATTTTTATTATA
1 ATTTTTATTATA
* * *
4024709 ATATATATTTTA
1 ATTTTTATTATA
*
4024721 A--TATATTAATA
1 ATTTTTATT-ATA
4024732 ATTTTTATTATA
1 ATTTTTATTATA
*
4024744 ATTTTTAATATA
1 ATTTTTATTATA
4024756 ATT
1 ATT
4024759 AAATTTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 6 0.15
11 3 0.07
12 27 0.66
13 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTTATTATA
Found at i:4024768 original size:6 final size:6
Alignment explanation
Indices: 4024757--4024781 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4024747 TTTAATATAA
4024757 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
4024782 CAGCTTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:4024900 original size:20 final size:21
Alignment explanation
Indices: 4024861--4024907 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
4024851 ATATATTTAA
*
4024861 AATTAAATAAAAATATTATTT
1 AATTAAATAAAAATATTATTC
*
4024882 AATTAAATAAATA-ATTATTC
1 AATTAAATAAAAATATTATTC
4024902 AATTAA
1 AATTAA
4024908 TTTTAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAAATAAAAATATTATTC
Found at i:4024998 original size:19 final size:19
Alignment explanation
Indices: 4024974--4025026 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
4024964 AAAAATCTAA
4024974 TTTATATATTTTTATTATT
1 TTTATATATTTTTATTATT
*
4024993 TTTATAT-TATATTA-TATT
1 TTTATATAT-TTTTATTATT
4025011 TTTAT-TA-TTTTATTAT
1 TTTATATATTTTTATTAT
4025027 AATATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 10 0.34
19 11 0.38
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATATATTTTTATTATT
Found at i:4025007 original size:16 final size:15
Alignment explanation
Indices: 4024986--4025024 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4024976 TATATATTTT
4024986 TATTATTTTTATATTA
1 TATTATTTTT-TATTA
4025002 TATTATATTTTTATTA
1 TATTAT-TTTTTATTA
*
4025018 TTTTATT
1 TATTATT
4025025 ATAATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.76
17 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTATTTTTTATTA
Found at i:4025010 original size:27 final size:30
Alignment explanation
Indices: 4024978--4025040 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 30
4024968 ATCTAATTTA
*
4024978 TATATTTTTATTA-TTT-TTATATTAT-AT
1 TATATTTTTATTATTTTATTATAATATAAT
4025005 TATATTTTTATTATTTTATTATAATATAAT
1 TATATTTTTATTATTTTATTATAATATAAT
4025035 TATATT
1 TATATT
4025041 ACGTATCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 13 0.41
28 3 0.09
29 8 0.25
30 8 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
TATATTTTTATTATTTTATTATAATATAAT
Found at i:4025245 original size:23 final size:24
Alignment explanation
Indices: 4025209--4025253 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
4025199 TTTATTAAAA
4025209 TAATTATATTAAA-TAATATATTTT
1 TAATTATATTAAATTAAT-TATTTT
4025233 TAATT-TATTAAATTAATTATT
1 TAATTATATTAAATTAATTATT
4025254 AATTGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATTATATTAAATTAATTATTTT
Found at i:4025254 original size:12 final size:13
Alignment explanation
Indices: 4025199--4025255 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 13
4025189 AATTAACTAT
*
4025199 TTTATTAAAATAA
1 TTTATTAAATTAA
4025212 TTATATTAAA-TAA
1 TT-TATTAAATTAA
* *
4025225 TATATT--TTTAA
1 TTTATTAAATTAA
4025236 TTTATTAAATTAA
1 TTTATTAAATTAA
4025249 -TTATTAA
1 TTTATTAA
4025256 TTGTTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
11 8 0.22
12 11 0.31
13 10 0.28
14 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTATTAAATTAA
Found at i:4025257 original size:20 final size:23
Alignment explanation
Indices: 4025209--4025257 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 23
4025199 TTTATTAAAA
*
4025209 TAATTATATTAAATAATATATTTT
1 TAATTATATTAAAT-ATATATTAT
4025233 TAATT-TATTAAAT-TA-ATTAT
1 TAATTATATTAAATATATATTAT
4025253 TAATT
1 TAATT
4025258 GTTATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
23 8 0.33
24 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTATATTAAATATATATTAT
Found at i:4025334 original size:25 final size:24
Alignment explanation
Indices: 4025283--4025340 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
4025273 AAAATAATTA
**
4025283 TAAATAAATATTTAATTAATTTTT
1 TAAATAAATATTTAATTAATTCGT
* *
4025307 TAAATTAATACTTTAATTTATTCGT
1 TAAATAAATA-TTTAATTAATTCGT
*
4025332 TAAACAAAT
1 TAAATAAAT
4025341 TCTTAAAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (24 bp):
TAAATAAATATTTAATTAATTCGT
Found at i:4025534 original size:15 final size:14
Alignment explanation
Indices: 4025504--4025537 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4025494 TAATTAAATT
4025504 AAATTCAAATTTTA
1 AAATTCAAATTTTA
*
4025518 AAATTTAAATATTTA
1 AAATTCAAAT-TTTA
4025533 AAATT
1 AAATT
4025538 ACAACATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTCAAATTTTA
Found at i:4025903 original size:9 final size:9
Alignment explanation
Indices: 4025891--4025921 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
4025881 TTTTATATAA
4025891 TAAATTTTT
1 TAAATTTTT
4025900 TAAATTTTT
1 TAAATTTTT
4025909 TAAATTTTT
1 TAAATTTTT
4025918 TAAA
1 TAAA
4025922 ATATTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TAAATTTTT
Found at i:4026566 original size:3 final size:3
Alignment explanation
Indices: 4026558--4026587 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4026548 TGCTAATTAA
4026558 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4026588 TATTTTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.