Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 207 of 332
Found at i:68783907 original size:26 final size:26
Alignment explanation
Indices: 68783876--68783927 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
68783866 GCAAAATATG
68783876 TATTTCTACTATTTAATTATTGAATT
1 TATTTCTACTATTTAATTATTGAATT
*
68783902 TATTTCTATTATTTAATTATTGAATT
1 TATTTCTACTATTTAATTATTGAATT
68783928 AAATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTTCTACTATTTAATTATTGAATT
Found at i:68788601 original size:36 final size:36
Alignment explanation
Indices: 68788554--68788626 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
68788544 AAGATTGGGA
68788554 TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
1 TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
*
68788590 TAGAATCCCTTACATTTTTGGAACGTATTTAAGGTG
1 TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
68788626 T
1 T
68788627 TTATTTTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (36 bp):
TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
Found at i:68800098 original size:121 final size:121
Alignment explanation
Indices: 68799959--68800202 Score: 443
Period size: 121 Copynumber: 2.0 Consensus size: 121
68799949 CATCAGCCAC
*
68799959 TAACACATATCCCAAGATGGTTTAATTTCCATTTTGGACCTTTGGTTAATTGCAATTTAAATCCC
1 TAACACATATCCCAAGATGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
* * *
68800024 TAAATCTTTGGCTAATTAAAAACCTATAACGATAAAGTTTTACAATTTAGTCCTTG
66 TAAATCTTTGGCAAATTAAAAACCTATAACAATAAAGTTTTACAATTTAGTCCATG
68800080 TAACACATATCCCAAGATGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
1 TAACACATATCCCAAGATGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
*
68800145 TAAATCTTTGGCAAATTAAAAACCTATAGCAATAAAGTTTTACAATTTAGTCCATG
66 TAAATCTTTGGCAAATTAAAAACCTATAACAATAAAGTTTTACAATTTAGTCCATG
68800201 TA
1 TA
68800203 CCTTAATTAA
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (121 bp):
TAACACATATCCCAAGATGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
TAAATCTTTGGCAAATTAAAAACCTATAACAATAAAGTTTTACAATTTAGTCCATG
Found at i:68808899 original size:117 final size:118
Alignment explanation
Indices: 68808737--68808971 Score: 319
Period size: 117 Copynumber: 2.0 Consensus size: 118
68808727 CACCTGCTAA
* *
68808737 AAAGAATACAAAGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGTCATGGCCAGAT
1 AAAGAATACAAAGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGACATGACCAGAT
** * * * *
68808802 TTGAATCTTGAAATTTCTTTTTACAGCCTATCTAG-CCAAGAATAATTAGCAG
66 TTGAATCCAGAAATTTCTGTTTACAGCCTAACTAGTCCAAAAATAACTAGCAG
* * * * * * *
68808854 AAAGAGTACAGAGATAATAATGATGCATGTAAAAATTCAATACCATACACAAGACATGACTAGAT
1 AAAGAATACAAAGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGACATGACCAGAT
*
68808919 TTGAATCCAGAAATTTCTGTTTACAGCCTAAGTAGTCCAAAAATAACTAGCAG
66 TTGAATCCAGAAATTTCTGTTTACAGCCTAACTAGTCCAAAAATAACTAGCAG
68808972 TGCACAGTGA
Statistics
Matches: 101, Mismatches: 16, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
117 86 0.85
118 15 0.15
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (118 bp):
AAAGAATACAAAGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGACATGACCAGAT
TTGAATCCAGAAATTTCTGTTTACAGCCTAACTAGTCCAAAAATAACTAGCAG
Found at i:68809055 original size:27 final size:27
Alignment explanation
Indices: 68809025--68809078 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
68809015 TTCTTAAAGA
*
68809025 AAATTTATTTTTGACATGAAATGAGTT
1 AAATTTATTTTTAACATGAAATGAGTT
*
68809052 AAATTTATTTTTAACATGAATTGAGTT
1 AAATTTATTTTTAACATGAAATGAGTT
68809079 CTGTTCTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (27 bp):
AAATTTATTTTTAACATGAAATGAGTT
Found at i:68811310 original size:141 final size:141
Alignment explanation
Indices: 68811056--68811341 Score: 572
Period size: 141 Copynumber: 2.0 Consensus size: 141
68811046 TAATAACACA
68811056 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
1 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
68811121 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
66 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
68811186 CCCAAATTGAT
131 CCCAAATTGAT
68811197 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
1 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
68811262 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
66 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
68811327 CCCAAATTGAT
131 CCCAAATTGAT
68811338 AGGA
1 AGGA
68811342 GTTCAAAGCA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 145 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (141 bp):
AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
CCCAAATTGAT
Found at i:68818184 original size:33 final size:33
Alignment explanation
Indices: 68818142--68818209 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
68818132 TTCTTCTTGA
68818142 CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
1 CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
*
68818175 CATTCCAGCTCCTGTCCAGCAACCAACCACTCC
1 CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
68818208 CA
1 CA
68818210 CTCAGTCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.26, C:0.47, G:0.09, T:0.18
Consensus pattern (33 bp):
CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
Found at i:68825120 original size:2 final size:2
Alignment explanation
Indices: 68825113--68825137 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68825103 TCATAAGAAA
68825113 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
68825138 GAAATACCAA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:68826675 original size:20 final size:21
Alignment explanation
Indices: 68826642--68826681 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
68826632 AAGCATGGCT
68826642 GAAAACTGGCTT-CCACTAAG
1 GAAAACTGGCTTCCCACTAAG
* *
68826662 GAAAATTGGGTTCCCACTAA
1 GAAAACTGGCTTCCCACTAA
68826682 TTGAGTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (21 bp):
GAAAACTGGCTTCCCACTAAG
Found at i:68827253 original size:10 final size:10
Alignment explanation
Indices: 68827238--68827262 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68827228 TATCATCAAA
68827238 ATTTTGATAT
1 ATTTTGATAT
68827248 ATTTTGATAT
1 ATTTTGATAT
68827258 ATTTT
1 ATTTT
68827263 AAATGTTTCA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
ATTTTGATAT
Found at i:68838425 original size:30 final size:30
Alignment explanation
Indices: 68838389--68838448 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
68838379 CCCTGTCACA
68838389 ACAACTCAACATGCTCCAAGCCCATAGAGT
1 ACAACTCAACATGCTCCAAGCCCATAGAGT
68838419 ACAACTCAACATGCTCCAAGCCCATAGAGT
1 ACAACTCAACATGCTCCAAGCCCATAGAGT
68838449 CTGCAATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (30 bp):
ACAACTCAACATGCTCCAAGCCCATAGAGT
Found at i:68840878 original size:7 final size:7
Alignment explanation
Indices: 68840869--68841036 Score: 110
Period size: 7 Copynumber: 24.0 Consensus size: 7
68840859 TTCTTTTTAA
*
68840869 CTCAATA
1 CTCAATT
68840876 CTCAATT
1 CTCAATT
* *
68840883 TTCAATC
1 CTCAATT
68840890 CTCAATT
1 CTCAATT
*
68840897 TTCAATT
1 CTCAATT
68840904 CTCAATT
1 CTCAATT
68840911 CTCAATT
1 CTCAATT
*
68840918 CTTAATT
1 CTCAATT
* * *
68840925 TTTAATC
1 CTCAATT
68840932 CTCAATT
1 CTCAATT
*
68840939 TTCAATT
1 CTCAATT
*
68840946 CTCAATC
1 CTCAATT
*
68840953 CACAATT
1 CTCAATT
*
68840960 TTCAATT
1 CTCAATT
68840967 -TCCAATT
1 CT-CAATT
68840974 -TCCAATT
1 CT-CAATT
68840981 -TCCAATT
1 CT-CAATT
* *
68840988 TTCAGTT
1 CTCAATT
68840995 CTCAA-T
1 CTCAATT
68841001 CGTCAATT
1 C-TCAATT
* *
68841009 GTCAATC
1 CTCAATT
68841016 CTCAATT
1 CTCAATT
*
68841023 CTAAATT
1 CTCAATT
*
68841030 CTGAATT
1 CTCAATT
68841037 ATTCTTTAAT
Statistics
Matches: 128, Mismatches: 29, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
6 3 0.02
7 123 0.96
8 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.43
Consensus pattern (7 bp):
CTCAATT
Found at i:68840893 original size:14 final size:14
Alignment explanation
Indices: 68840870--68841036 Score: 122
Period size: 14 Copynumber: 11.9 Consensus size: 14
68840860 TCTTTTTAAC
*
68840870 TCAATACTCAATTT
1 TCAATTCTCAATTT
*
68840884 TCAATCCTCAATTT
1 TCAATTCTCAATTT
*
68840898 TCAATTCTCAATTC
1 TCAATTCTCAATTT
*
68840912 TCAATTCTTAATTT
1 TCAATTCTCAATTT
* *
68840926 TTAATCCTCAATTT
1 TCAATTCTCAATTT
**
68840940 TCAATTCTCAATCC
1 TCAATTCTCAATTT
* *
68840954 ACAATTTTCAATTT
1 TCAATTCTCAATTT
*
68840968 CCAATT-TCCAATTT
1 TCAATTCT-CAATTT
* * * *
68840982 CCAATTTTCAGTTC
1 TCAATTCTCAATTT
*
68840996 TCAA-TCGTCAATTG
1 TCAATTC-TCAATTT
* *
68841010 TCAATCCTCAATTC
1 TCAATTCTCAATTT
* *
68841024 TAAATTCTGAATT
1 TCAATTCTCAATT
68841037 ATTCTTTAAT
Statistics
Matches: 121, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
13 2 0.02
14 117 0.97
15 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.44
Consensus pattern (14 bp):
TCAATTCTCAATTT
Found at i:68840893 original size:21 final size:21
Alignment explanation
Indices: 68840877--68841022 Score: 143
Period size: 21 Copynumber: 7.0 Consensus size: 21
68840867 AACTCAATAC
68840877 TCAATTTTCAATCCTCAATTT
1 TCAATTTTCAATCCTCAATTT
* *
68840898 TCAATTCTCAATTCTCAATTCT
1 TCAATTTTCAATCCTCAATT-T
*
68840920 T-AATTTTTAATCCTCAATTT
1 TCAATTTTCAATCCTCAATTT
* *
68840940 TCAATTCTCAATCCACAATTT
1 TCAATTTTCAATCCTCAATTT
* *
68840961 TCAATTTCCAAT-TTCCAATTT
1 TCAATTTTCAATCCT-CAATTT
* * * **
68840982 CCAATTTTCAGTTCTCAATCG
1 TCAATTTTCAATCCTCAATTT
*
68841003 TCAATTGTCAATCCTCAATT
1 TCAATTTTCAATCCTCAATT
68841023 CTAAATTCTG
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
20 2 0.02
21 93 0.95
22 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.45
Consensus pattern (21 bp):
TCAATTTTCAATCCTCAATTT
Found at i:68842748 original size:42 final size:43
Alignment explanation
Indices: 68842689--68842823 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
68842679 GACATTAGGG
*
68842689 TTATGAG-TTTACGTGTAAGACCATATCTGGGATATGGCATC-A
1 TTATGAGATTT-CGTGTAAGACCATATCTGGGACATGGCATCGA
* *
68842731 TTATGAGATTTCGTGTAAGAACATGTCTGGGACATGGCATCGA
1 TTATGAGATTTCGTGTAAGACCATATCTGGGACATGGCATCGA
* * * *
68842774 -TATGAGA-ATCGTGCAAGACCATAGCTGGG-CTATTGGTATCGA
1 TTATGAGATTTCGTGTAAGACCATATCTGGGAC-A-TGGCATCGA
68842816 -TATGAGAT
1 TTATGAGAT
68842824 CCCATATAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
40 1 0.01
41 18 0.23
42 56 0.71
43 4 0.05
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (43 bp):
TTATGAGATTTCGTGTAAGACCATATCTGGGACATGGCATCGA
Found at i:68845245 original size:33 final size:33
Alignment explanation
Indices: 68845203--68845269 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
68845193 AATTGTATAA
* *
68845203 GATTGACTTGCGAGGGAGACTTGAGGAAGATTG
1 GATTGACTTGCGAGAGAGACTCGAGGAAGATTG
68845236 GATTGACTTGCGAGAGAGACTCGAGGAAGATTG
1 GATTGACTTGCGAGAGAGACTCGAGGAAGATTG
68845269 G
1 G
68845270 CCAACATTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.10, G:0.39, T:0.22
Consensus pattern (33 bp):
GATTGACTTGCGAGAGAGACTCGAGGAAGATTG
Found at i:68846045 original size:25 final size:25
Alignment explanation
Indices: 68846006--68846078 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
68845996 TATTTGTAAT
*
68846006 TTTCCCGAATTGTATACTTTATTTT-
1 TTTCCC-AAATGTATACTTTATTTTA
*
68846031 TCTTCCCAAATGTATACTTTGTTTTA
1 T-TTCCCAAATGTATACTTTATTTTA
* *
68846057 TATCCCAAATGTACAC-TTATTT
1 TTTCCCAAATGTATACTTTATTT
68846079 ACATTCTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.12
25 30 0.73
26 6 0.15
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (25 bp):
TTTCCCAAATGTATACTTTATTTTA
Found at i:68850148 original size:22 final size:21
Alignment explanation
Indices: 68850115--68850159 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
68850105 AAATAAAAAT
68850115 GACCATTTTTTTTGGCTTTTC
1 GACCATTTTTTTTGGCTTTTC
68850136 GACCATTTTTTTTGGCTTTTC
1 GACCATTTTTTTTGGCTTTTC
68850157 GAC
1 GAC
68850160 TTTCCCGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.11, C:0.20, G:0.16, T:0.53
Consensus pattern (21 bp):
GACCATTTTTTTTGGCTTTTC
Found at i:68850767 original size:15 final size:16
Alignment explanation
Indices: 68850737--68850769 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
68850727 AAATGGACTA
68850737 TTTATTATTATTTGGT
1 TTTATTATTATTTGGT
68850753 TTTATTATT-TTTGGT
1 TTTATTATTATTTGGT
68850768 TT
1 TT
68850770 CTGTATGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (16 bp):
TTTATTATTATTTGGT
Found at i:68854241 original size:16 final size:17
Alignment explanation
Indices: 68854209--68854248 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
68854199 ACAAGAAAAC
68854209 ATAAAATATATTAATAG
1 ATAAAATATATTAATAG
68854226 AGTAAAATA-A-TAATAG
1 A-TAAAATATATTAATAG
68854242 ATAAAAT
1 ATAAAAT
68854249 GTGGTCGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.27
16 7 0.32
17 2 0.09
18 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (17 bp):
ATAAAATATATTAATAG
Found at i:68855061 original size:40 final size:40
Alignment explanation
Indices: 68854956--68855061 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
68854946 AGAACGAGCA
68854956 TTAGCGGCGCTTTTT-AAAAACGCCGCTATATGTACACCT
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTATATGTACACCT
* * * ** *
68854995 TTAGCGGCGCTTTGTAGAAAATGCCGCTA-ATGCTTGATCT
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTATATG-TACACCT
**
68855035 TTAGCGGCATTTTTTAAAAAACGCCGC
1 TTAGCGGCGCTTTTTAAAAAACGCCGC
68855062 AAAAAAATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 17 0.31
40 37 0.69
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAAAAAACGCCGCTATATGTACACCT
Found at i:68855415 original size:15 final size:16
Alignment explanation
Indices: 68855395--68855433 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
68855385 TACTATTGTA
68855395 GGGTTTATGG-ATTAT
1 GGGTTTATGGAATTAT
68855410 GGGTTTA-GGAATTAT
1 GGGTTTATGGAATTAT
68855425 -GGTTTATGG
1 GGGTTTATGG
68855434 GTTAAAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (16 bp):
GGGTTTATGGAATTAT
Found at i:68855492 original size:22 final size:22
Alignment explanation
Indices: 68855442--68855493 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
68855432 GGGTTAAAGG
* *
68855442 TTAGGGTTTAAGTTTTAAGGGG
1 TTAGGGTTTAAGATTTAAGGGA
*
68855464 TTGGGGTTTAAGATTT-AGGGA
1 TTAGGGTTTAAGATTTAAGGGA
68855485 TTAAGGGTT
1 TT-AGGGTT
68855494 AAGGGTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (22 bp):
TTAGGGTTTAAGATTTAAGGGA
Found at i:68855539 original size:8 final size:7
Alignment explanation
Indices: 68855393--68855546 Score: 60
Period size: 7 Copynumber: 21.4 Consensus size: 7
68855383 GTTACTATTG
68855393 TAGGGTT
1 TAGGGTT
* *
68855400 TATGGAT
1 TAGGGTT
68855407 TATGGGTT
1 TA-GGGTT
**
68855415 TAGGAAT
1 TAGGGTT
*
68855422 TATGGTT
1 TAGGGTT
68855429 TATGGGTT
1 TA-GGGTT
* *
68855437 AAAGG-T
1 TAGGGTT
68855443 TAGGGTT
1 TAGGGTT
* *
68855450 TAAGTTT
1 TAGGGTT
*
68855457 TAAGGGGT
1 T-AGGGTT
*
68855465 TGGGGTT
1 TAGGGTT
* *
68855472 TAAGATT
1 TAGGGTT
68855479 TAGGGATT
1 TAGGG-TT
*
68855487 AAGGGTT
1 TAGGGTT
*
68855494 AAGGGTT
1 TAGGGTT
* *
68855501 TATGTTT
1 TAGGGTT
*
68855508 TATGGTT
1 TAGGGTT
* *
68855515 TAAGGTC
1 TAGGGTT
68855522 TAGAGG-T
1 TAG-GGTT
68855529 TAGGGATT
1 TAGGG-TT
68855537 TAGGGTT
1 TAGGGTT
68855544 TAG
1 TAG
68855547 ATTAATTAGT
Statistics
Matches: 104, Mismatches: 35, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
6 6 0.06
7 70 0.67
8 28 0.27
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (7 bp):
TAGGGTT
Found at i:68859329 original size:27 final size:27
Alignment explanation
Indices: 68859289--68859454 Score: 181
Period size: 27 Copynumber: 6.1 Consensus size: 27
68859279 AGGAAGCGTC
* *
68859289 CTGGTGGCTATGCCATAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
68859316 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
68859343 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
68859370 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
68859397 CTGGTGGCTCTTCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
68859425 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
68859451 CTGG
1 CTGG
68859455 CAGCCACGCT
Statistics
Matches: 117, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 5 0.04
27 98 0.84
28 14 0.12
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:68859371 original size:54 final size:54
Alignment explanation
Indices: 68859289--68859454 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
68859279 AGGAAGCGTC
* ** *
68859289 CTGGTGGCTATGCCATAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
68859343 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
68859397 CTGGTGGCTCTTCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
68859451 CTGG
1 CTGG
68859455 CAGCCACGCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 86 0.83
55 18 0.17
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:68859445 original size:81 final size:81
Alignment explanation
Indices: 68859289--68859454 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
68859279 AGGAAGCGTC
* *
68859289 CTGGTGGCTATGCCATAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
68859354 GCCACGATTATCTGAT
66 GCCACGATTATCTGAT
* * * *
68859370 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTTCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGACT
* *
68859434 CTGTCAC-ATTATCTGTT
64 CTGCCACGATTATCTGAT
68859451 CTGG
1 CTGG
68859455 CAGCCACGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 58 0.77
82 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
GCCACGATTATCTGAT
Found at i:68863254 original size:83 final size:83
Alignment explanation
Indices: 68863115--68863279 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
68863105 CTTTGTGCTA
68863115 AATTTGTACCACCAGCCTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
1 AATTTGTACCACCAGCCTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
68863180 ATCAAAAATGGGTGCACT
66 ATCAAAAATGGGTGCACT
*
68863198 AATTTGTACCACCAGCCTTAATGGTCTTTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
1 AATTTGTACCACCAGCCTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
68863263 ATCAAAAATGGGTGCAC
66 ATCAAAAATGGGTGCAC
68863280 CAACAGACTC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (83 bp):
AATTTGTACCACCAGCCTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
ATCAAAAATGGGTGCACT
Found at i:68865180 original size:20 final size:21
Alignment explanation
Indices: 68865127--68865188 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
68865117 CAAATTTCAA
68865127 AAATTAAACATAATATAATATTT
1 AAATTAAA-ATAA-ATAATATTT
* *
68865150 AAAATAGAAATAAATATTATTT
1 AAATTA-AAATAAATAATATTT
68865172 -AATTAAAATAAAATAAT
1 AAATTAAAAT-AAATAAT
68865189 TTTTTAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 10 0.30
22 8 0.24
23 9 0.27
24 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTAAAATAAATAATATTT
Found at i:68865256 original size:43 final size:43
Alignment explanation
Indices: 68865206--68865358 Score: 216
Period size: 43 Copynumber: 3.6 Consensus size: 43
68865196 AAGGTTATGA
*
68865206 TTTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCGTGT
1 TTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGT
* * **
68865249 TTTTTAGCGGTGTTTGTGGAAAAAGCGCTACTAAAGGTCGTGT
1 TTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGT
* * *
68865292 TTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGA
1 TTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGT
**
68865335 CCTTTAGCGGCGTTTGTGGGAAAA
1 TTTTTAGCGGCGTTTGTGGGAAAA
68865359 ACATTTTTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 96 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGT
Found at i:68871862 original size:42 final size:42
Alignment explanation
Indices: 68871754--68871864 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
68871744 TGCCATATAT
* *
68871754 CAGATATGGTCTTATATGTAATCTCGTATCGATGGCAATAGCC
1 CAGATATGGTCTTA-AAGTAATCTCATATCGATGGCAATAGCC
* * * *
68871797 CAGCTATGGTTTTACAA-TAAATCTCATATCGAT-GCTATATCC
1 CAGATATGGTCTTA-AAGT-AATCTCATATCGATGGCAATAGCC
68871839 CAGATATGGTCTTAAACGTAATCTCA
1 CAGATATGGTCTTAAA-GTAATCTCA
68871865 GTAACCCTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.04
42 27 0.48
43 27 0.48
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (42 bp):
CAGATATGGTCTTAAAGTAATCTCATATCGATGGCAATAGCC
Found at i:68876254 original size:27 final size:26
Alignment explanation
Indices: 68876223--68876273 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
68876213 GAATACTTTA
*
68876223 GTTTACCAAATTACTGAAATACCCTTG
1 GTTTACAAAATTACTG-AATACCCTTG
* *
68876250 GTTTAGAAAATTATTGAATACCCT
1 GTTTACAAAATTACTGAATACCCT
68876274 CGATTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (26 bp):
GTTTACAAAATTACTGAATACCCTTG
Found at i:68876296 original size:53 final size:54
Alignment explanation
Indices: 68876230--68876405 Score: 153
Period size: 54 Copynumber: 3.3 Consensus size: 54
68876220 TTAGTTTACC
** ***
68876230 AAATTACTGAAATACCCTTGGTTTAG-AAAATTA-TTGAATACC-CTCGATTAGAA
1 AAATTACCAAAATACCC-TGGTTTAGCAAAATTACCAAAATACCTCT-GATTAGAA
* * * * *
68876283 AAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCTGGTTTAGCAAAATTACCAAAATACCTCTGATTAGAA
* * * * *
68876337 AAATTACCAAAATACCCCTGGTTT-GTAAAATTAACAAAATACCCCTGATTTGTA
1 AAATTACCAAAATA-CCCTGGTTTAGCAAAATTACCAAAATACCTCTGATTAGAA
*
68876391 AAATTACTAAAATAC
1 AAATTACCAAAATAC
68876406 AAATTACTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
52 6 0.06
53 23 0.23
54 64 0.63
55 9 0.09
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCTGGTTTAGCAAAATTACCAAAATACCTCTGATTAGAA
Found at i:68876300 original size:27 final size:28
Alignment explanation
Indices: 68876266--68876405 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 28
68876256 AAAATTATTG
* *
68876266 AATACCCTC-GATTAGAAAAATTACCAA
1 AATACCCTCTGATTTGTAAAATTACCAA
* *
68876293 AATACCCTC-GATTAGCAAAATTACCAA
1 AATACCCTCTGATTTGTAAAATTACCAA
*
68876320 AATA-CCTCTGGTTTGTAAAATTACCAA
1 AATACCCTCTGATTTGTAAAATTACCAA
* *
68876347 AATACCC-CTGGTTTGTAAAATTAACAA
1 AATACCCTCTGATTTGTAAAATTACCAA
*
68876374 AATACCC-CTGATTTGTAAAATTACTAA
1 AATACCCTCTGATTTGTAAAATTACCAA
68876401 AATAC
1 AATAC
68876406 AAATTACTAA
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.04
27 97 0.94
28 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (28 bp):
AATACCCTCTGATTTGTAAAATTACCAA
Found at i:68876411 original size:15 final size:15
Alignment explanation
Indices: 68876391--68876420 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68876381 CTGATTTGTA
68876391 AAATTACTAAAATAC
1 AAATTACTAAAATAC
68876406 AAATTACTAAAATAC
1 AAATTACTAAAATAC
68876421 CCTCGACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTACTAAAATAC
Found at i:68876465 original size:69 final size:69
Alignment explanation
Indices: 68876337--68876465 Score: 161
Period size: 69 Copynumber: 1.9 Consensus size: 69
68876327 CTGGTTTGTA
** * **
68876337 AAATTACCAAAATACCCCTGGTTTGTAAAATTAACAAAATACCCCTGATTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGACTTGTAAAATTAACAAAATACCCCCGATTTACAAAATTACTAAA
68876402 ATAC
66 ATAC
* * * *
68876406 AAATTACTAAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTA
1 AAATTACCAAAATACCCCT-GACTTGTAAAATTAACAAAATACCCCCGATTTACAAAATTA
68876466 TCGTTTTACC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 4 0.08
69 46 0.92
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (69 bp):
AAATTACCAAAATACCCCTGACTTGTAAAATTAACAAAATACCCCCGATTTACAAAATTACTAAA
ATAC
Found at i:68876518 original size:27 final size:27
Alignment explanation
Indices: 68876488--68876626 Score: 188
Period size: 27 Copynumber: 5.1 Consensus size: 27
68876478 CAATTTACAA
*
68876488 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
*
68876515 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
**
68876542 AATTATCGAAACGCCCTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* *
68876569 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* * * *
68876596 AATTATCGAGATACGCTTGTGGGGTAA
1 AATTATCGAAATACCCTTGTAGGGTAG
68876623 AATT
1 AATT
68876627 GCCATTTTGC
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCTTGTAGGGTAG
Found at i:68877058 original size:22 final size:22
Alignment explanation
Indices: 68877006--68877070 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
68876996 GCCAATAATT
* * *
68877006 CTGATTATGGCTTTGCGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
68877028 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
68877050 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
68877071 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:68877296 original size:26 final size:25
Alignment explanation
Indices: 68877236--68877335 Score: 101
Period size: 27 Copynumber: 3.8 Consensus size: 25
68877226 TAAGTGGCTT
* *
68877236 TGCCACATTATCTATTTCTGGTGGCTA
1 TGCCACAATATCTA-TTCTGGT-GCTC
68877263 TGCCACAAATATCTATTCTGGTGCTC
1 TGCCAC-AATATCTATTCTGGTGCTC
* *
68877289 TGCCACAATATCTGTATATGGTGACTC
1 TGCCACAATATCTAT-TCTGGTG-CTC
* *
68877316 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTATTCTGG
68877336 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
25 8 0.12
26 19 0.30
27 30 0.47
28 7 0.11
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (25 bp):
TGCCACAATATCTATTCTGGTGCTC
Found at i:68877311 original size:53 final size:52
Alignment explanation
Indices: 68877236--68877335 Score: 119
Period size: 53 Copynumber: 1.9 Consensus size: 52
68877226 TAAGTGGCTT
* * * *
68877236 TGCCACATTATCTATTTCTGGTGGCTATGCCACAAATATCTATTCTGGTGCTC
1 TGCCACAATATCTATATATGGTGACTATGCCAC-AATATCTATTCTGGTGCTC
* * * *
68877289 TGCCACAATATCTGTATATGGTGACTCTGTCACAATATCTGTTCTGG
1 TGCCACAATATCTATATATGGTGACTATGCCACAATATCTATTCTGG
68877336 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
52 13 0.33
53 26 0.67
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (52 bp):
TGCCACAATATCTATATATGGTGACTATGCCACAATATCTATTCTGGTGCTC
Found at i:68877462 original size:6 final size:6
Alignment explanation
Indices: 68877453--68877550 Score: 58
Period size: 6 Copynumber: 15.8 Consensus size: 6
68877443 TTGCATTCAC
* * * * *
68877453 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATCCTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
68877503 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTA ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCT
68877551 CATTTTTATT
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 5 0.07
6 54 0.76
7 8 0.11
8 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:68877484 original size:25 final size:25
Alignment explanation
Indices: 68877456--68877545 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
68877446 CATTCACATT
68877456 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTAATTCTGTTACCTGATA
* * * * * *
68877481 CTGATCCTGATTCTATCACCTAATT
1 CTGATTCTAATTCTGTTACCTGATA
*
68877506 CTGATTCTGATTCTGATT--CTG-TCA
1 CTGATTCTAATTCTG-TTACCTGAT-A
68877530 CCTGATTCTAATTCTG
1 -CTGATTCTAATTCTG
68877546 ATTCTCATTT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 46 0.92
26 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (25 bp):
CTGATTCTAATTCTGTTACCTGATA
Found at i:68877548 original size:31 final size:31
Alignment explanation
Indices: 68877481--68877550 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
68877471 TTACCTGATA
* *
68877481 CTGATCCTGATTCTATCACCTAATTCTGATT
1 CTGATTCTGATTCTATCACCTAATTCTAATT
* *
68877512 CTGATTCTGATTCTGTCACCTGATTCTAATT
1 CTGATTCTGATTCTATCACCTAATTCTAATT
68877543 CTGATTCT
1 CTGATTCT
68877551 CATTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.44
Consensus pattern (31 bp):
CTGATTCTGATTCTATCACCTAATTCTAATT
Found at i:68878540 original size:48 final size:47
Alignment explanation
Indices: 68878481--68878614 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 47
68878471 CTCGTACACT
* *
68878481 AAGTGCCAATATCATGGCTCGAAGCCAACTCAATATATCTCACGCCCG
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAATATATCTCAC-ACCG
* * *
68878529 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGA-AGCTCACACCG
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAAT-ATATCTCACACCG
* * * *
68878576 AAGTACGAATATCATGGCTCAAAGCCAAATCAATGTATC
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAATATATC
68878615 CCCTAATGAC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 35 0.48
48 37 0.51
49 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (47 bp):
AAGTGCCAATATCATGGCTCGAAGCCAAATCAATATATCTCACACCG
Found at i:68878601 original size:47 final size:49
Alignment explanation
Indices: 68878488--68878610 Score: 162
Period size: 47 Copynumber: 2.6 Consensus size: 49
68878478 ACTAAGTGCC
* * * * *
68878488 AATATCATGGCTCGAAGCCAACTCAAT-ATATCTCACGCCCGAAGTGCT
1 AATATCATGGCTCGAAGCCAAATCAATGATAGCTCACGACCGAAGTACG
*
68878536 AATATCATGGCCCGAAGCCAAATCAATGA-AGCTCAC-ACCGAAGTACG
1 AATATCATGGCTCGAAGCCAAATCAATGATAGCTCACGACCGAAGTACG
*
68878583 AATATCATGGCTCAAAGCCAAATCAATG
1 AATATCATGGCTCGAAGCCAAATCAATG
68878611 TATCCCCTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 34 0.52
48 31 0.47
49 1 0.02
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (49 bp):
AATATCATGGCTCGAAGCCAAATCAATGATAGCTCACGACCGAAGTACG
Found at i:68880591 original size:21 final size:21
Alignment explanation
Indices: 68880565--68880626 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
68880555 ATGAGAGCTA
68880565 AACGAAAACCTATAAGGGTTG
1 AACGAAAACCTATAAGGGTTG
* * * *
68880586 AACGAAAGCTTGTAAGAGTTG
1 AACGAAAACCTATAAGGGTTG
* *
68880607 AACGGAAACCCATAAGGGTT
1 AACGAAAACCTATAAGGGTT
68880627 AAACAGAAGC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (21 bp):
AACGAAAACCTATAAGGGTTG
Found at i:68880616 original size:42 final size:42
Alignment explanation
Indices: 68880539--68880710 Score: 175
Period size: 42 Copynumber: 4.1 Consensus size: 42
68880529 AAAGCCCGAA
* *
68880539 GGTTGAACAGAAGCTTATGAGAGCTAAACGAAAACCTATAAG
1 GGTTGAACAGAAGCTTATAAGAGCTAAACGAAAACCCATAAG
* * * *
68880581 GGTTGAAC-GAAAGCTTGTAAGAGTTGAACGGAAACCCATAAG
1 GGTTGAACAG-AAGCTTATAAGAGCTAAACGAAAACCCATAAG
* * * *
68880623 GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAAC
1 GGTTGAACAGAAGCTTATAAGAGCTAAACGAAAACCCATAAG
* * * * * * *
68880665 GGTTAAACAAAAGCTCAAAAGAACTAAACGGAAGCCCATAAG
1 GGTTGAACAGAAGCTTATAAGAGCTAAACGAAAACCCATAAG
68880707 GGTT
1 GGTT
68880711 AAACGGAAAC
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 107 0.98
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
GGTTGAACAGAAGCTTATAAGAGCTAAACGAAAACCCATAAG
Found at i:68880695 original size:84 final size:84
Alignment explanation
Indices: 68880539--68880723 Score: 217
Period size: 84 Copynumber: 2.2 Consensus size: 84
68880529 AAAGCCCGAA
* * ** * * * * *** *
68880539 GGTTGAACAGAAGCTTATGAGAGCTAAACGAAAACCTATAAGGGTTGAACGAAAGCTTGTAAGAG
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
* *
68880604 TTGAACGGAAACCCATAAG
66 CTAAACGGAAACCCATAAG
68880623 GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
*
68880688 CTAAACGGAAGCCCATAAG
66 CTAAACGGAAACCCATAAG
* *
68880707 GGTTAAACGGAAACTCA
1 GGTTAAACAGAAGCTCA
68880724 TATGAGTTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (84 bp):
GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
CTAAACGGAAACCCATAAG
Found at i:68880713 original size:21 final size:21
Alignment explanation
Indices: 68880598--68880755 Score: 86
Period size: 21 Copynumber: 7.6 Consensus size: 21
68880588 CGAAAGCTTG
* *
68880598 TAAGAGTTGAACGGAAACCCA
1 TAAGAGTTAAACGGAAGCCCA
* * *
68880619 TAAGGGTTAAACAGAAGCTCA
1 TAAGAGTTAAACGGAAGCCCA
* * * *
68880640 AAAGAGCTAAACGAAAACCCA
1 TAAGAGTTAAACGGAAGCCCA
** *
68880661 TAACG-GTTAAACAAAAGCTCA
1 TAA-GAGTTAAACGGAAGCCCA
* **
68880682 AAAGAACTAAACGGAAGCCCA
1 TAAGAGTTAAACGGAAGCCCA
* * *
68880703 TAAGGGTTAAACGGAAACTCA
1 TAAGAGTTAAACGGAAGCCCA
* * *
68880724 TATGAGTT-AACAGAAGCTCA
1 TAAGAGTTAAACGGAAGCCCA
* *
68880744 TGAGAGATAAAC
1 TAAGAGTTAAAC
68880756 TGAAAGTAAC
Statistics
Matches: 98, Mismatches: 36, Indels: 6
0.70 0.26 0.04
Matches are distributed among these distances:
20 16 0.16
21 81 0.83
22 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (21 bp):
TAAGAGTTAAACGGAAGCCCA
Found at i:68880843 original size:24 final size:24
Alignment explanation
Indices: 68880816--68880861 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
68880806 AGTAATTTGT
68880816 CATCAATTCATCCTTTACATTTTC
1 CATCAATTCATCCTTTACATTTTC
68880840 CATCAATTCATCCTTTACATTT
1 CATCAATTCATCCTTTACATTT
68880862 GTAGTGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (24 bp):
CATCAATTCATCCTTTACATTTTC
Found at i:68882785 original size:37 final size:37
Alignment explanation
Indices: 68882720--68882814 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
68882710 AGTACACAAG
* *
68882720 TAATCCAACC-AAAACAC-CTCAAACGCTCATAGGAGC
1 TAATCCAACCGATAACACGC-CAAACGCTCATAAGAGC
*
68882756 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAACGCTCATAAGAGC
* *
68882793 TAATCCCACTGATAACACGCCA
1 TAATCCAACCGATAACACGCCA
68882815 CGACACTAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
36 10 0.19
37 41 0.79
38 1 0.02
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.16
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAACGCTCATAAGAGC
Found at i:68885257 original size:39 final size:39
Alignment explanation
Indices: 68885214--68885292 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
68885204 ATTCACGGTT
**
68885214 TGTGTTTCTATAATTTGAAATAAGTTATAAATTATTGCA
1 TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
68885253 TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
1 TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
68885292 T
1 T
68885293 TTTGAATTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (39 bp):
TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
Found at i:68896518 original size:39 final size:39
Alignment explanation
Indices: 68896475--68896549 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
68896465 TTGGTATGGA
*
68896475 AGCTTAGCCTAATGCTTGGTATGTTTTTGGTTTGAAAGT
1 AGCTTAGCCTAATGCTTAGTATGTTTTTGGTTTGAAAGT
* *
68896514 AGCTTAGCCTAATTCTTAGTTTGTTTTTGGTTTGAA
1 AGCTTAGCCTAATGCTTAGTATGTTTTTGGTTTGAA
68896550 GCTTGATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.47
Consensus pattern (39 bp):
AGCTTAGCCTAATGCTTAGTATGTTTTTGGTTTGAAAGT
Found at i:68898886 original size:19 final size:19
Alignment explanation
Indices: 68898862--68898917 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
68898852 CGGTCATATG
68898862 ACCCATCCACACGGCCTCA
1 ACCCATCCACACGGCCTCA
68898881 ACCCATCCACACGGCCTCA
1 ACCCATCCACACGGCCTCA
*
68898900 ACCCATCCACAAGGCCTC
1 ACCCATCCACACGGCCTC
68898918 GAAACACGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.27, C:0.52, G:0.11, T:0.11
Consensus pattern (19 bp):
ACCCATCCACACGGCCTCA
Found at i:68902884 original size:24 final size:24
Alignment explanation
Indices: 68902857--68902912 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
68902847 CTCGTAAGAA
*
68902857 CTTACTGTTTTCAGCTCAT-TGGAG
1 CTTACTGTTTTCAACTCATAT-GAG
* *
68902881 CTTACT-ATTTCAACTCGTATGAG
1 CTTACTGTTTTCAACTCATATGAG
68902904 CTTACTGTT
1 CTTACTGTT
68902913 CAGCTTGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (24 bp):
CTTACTGTTTTCAACTCATATGAG
Found at i:68905275 original size:35 final size:35
Alignment explanation
Indices: 68905168--68905275 Score: 101
Period size: 35 Copynumber: 3.1 Consensus size: 35
68905158 GTGTTTCGGT
* ** *
68905168 TGGACTAGCTATTATGAGCATTGGTGTGTTTTAGA
1 TGGACTAGCTCTTGCGAGCATTGGTGTGCTTTAGA
* * * * *
68905203 GGGATTAGCTTTTGTGAGCATTGGTGTGCTTCAGA
1 TGGACTAGCTCTTGCGAGCATTGGTGTGCTTTAGA
* *
68905238 TGGACTGGCTCTTGCGAGCATCTGGTGTG-TTTGGA
1 TGGACTAGCTCTTGCGAGCAT-TGGTGTGCTTTAGA
68905273 TGG
1 TGG
68905276 TTTGTCAATG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
35 52 0.88
36 7 0.12
ACGTcount: A:0.17, C:0.12, G:0.34, T:0.37
Consensus pattern (35 bp):
TGGACTAGCTCTTGCGAGCATTGGTGTGCTTTAGA
Found at i:68921196 original size:34 final size:34
Alignment explanation
Indices: 68921153--68921220 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
68921143 CTACTCTTTT
* *
68921153 TTATTCGAGATTAATTTACTTATTTGTTAAGAAC
1 TTATTCGAGATGAATTTACTTAGTTGTTAAGAAC
*
68921187 TTATTCGAGATGAATTTACTTGGTTGTTAAGAAC
1 TTATTCGAGATGAATTTACTTAGTTGTTAAGAAC
68921221 ACATAAGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (34 bp):
TTATTCGAGATGAATTTACTTAGTTGTTAAGAAC
Found at i:68926389 original size:13 final size:13
Alignment explanation
Indices: 68926362--68926436 Score: 78
Period size: 13 Copynumber: 5.8 Consensus size: 13
68926352 ACACTTAAAT
*
68926362 TTTTCTAAAGCAC
1 TTTTCAAAAGCAC
* *
68926375 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
68926388 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* * * *
68926401 TTTTCCACAGTAT
1 TTTTCAAAAGCAC
68926414 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
68926427 TTTTCAAAAG
1 TTTTCAAAAG
68926437 TAATGAAGAA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:68926398 original size:26 final size:26
Alignment explanation
Indices: 68926368--68926438 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
68926358 AAATTTTTCT
*
68926368 AAAGCACTTCTCAAAAGTACTTCTCA
1 AAAGCACTTTTCAAAAGTACTTCTCA
* * * *
68926394 AAAGCACTTTTCCACAGTATTTTTCA
1 AAAGCACTTTTCAAAAGTACTTCTCA
68926420 AAAGCACTTTTCAAAAGTA
1 AAAGCACTTTTCAAAAGTA
68926439 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAGCACTTTTCAAAAGTACTTCTCA
Found at i:68929057 original size:21 final size:21
Alignment explanation
Indices: 68929031--68929073 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
68929021 TTGAAGGATT
*
68929031 TGTAAATCTTTTTAAACATGC
1 TGTAAATCTTCTTAAACATGC
68929052 TGTAAATCTTCTTAAACATGC
1 TGTAAATCTTCTTAAACATGC
68929073 T
1 T
68929074 TTCATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (21 bp):
TGTAAATCTTCTTAAACATGC
Found at i:68932072 original size:18 final size:18
Alignment explanation
Indices: 68932046--68932080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68932036 TCAACATAAT
68932046 CAACATCTAAAAATTCAC
1 CAACATCTAAAAATTCAC
* *
68932064 CAACTTCTAAAATTTCA
1 CAACATCTAAAAATTCA
68932081 ACAAAAATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
CAACATCTAAAAATTCAC
Found at i:68932209 original size:18 final size:17
Alignment explanation
Indices: 68932186--68932230 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
68932176 AAAATCCTAG
*
68932186 TTTTTCCTTTCTTTTTCT
1 TTTTTCCTTT-TTCTTCT
68932204 TTTTTCCCTTTTTCTTCT
1 TTTTT-CCTTTTTCTTCT
68932222 TTCTTTCCT
1 TT-TTTCCT
68932231 CTGTTTCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCCTTTTTCTTCT
Found at i:68942340 original size:20 final size:21
Alignment explanation
Indices: 68942265--68942357 Score: 91
Period size: 20 Copynumber: 4.3 Consensus size: 21
68942255 TTATTATTGG
* * *
68942265 TTTTATAAAATTTGAAATGTA
1 TTTTTTAAAATTTTAAATATA
*
68942286 -TATTTAAAATGTTTTATAATATTA
1 TTTTTTAAAA--TTTTA-AATA-TA
68942310 TTTTTTAAAATTTTAAATATA
1 TTTTTTAAAATTTTAAATATA
68942331 TTTTTT-AAATTTTAAATATAA
1 TTTTTTAAAATTTTAAATAT-A
68942352 TTTTTT
1 TTTTTT
68942358 TAATATTATA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
20 20 0.33
21 15 0.25
22 8 0.13
23 8 0.13
24 2 0.03
25 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTTTAAAATTTTAAATATA
Found at i:68942359 original size:22 final size:21
Alignment explanation
Indices: 68942297--68942369 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 21
68942287 ATTTAAAATG
*
68942297 TTTTATAATATTATTTTTTAAAA
1 TTTTA-AATA-TATTTTTTTAAA
68942320 TTTTAAATATA-TTTTTTAAA
1 TTTTAAATATATTTTTTTAAA
68942340 TTTTAAATATAATTTTTTTAATA
1 TTTTAAATAT-ATTTTTTTAA-A
*
68942363 TTATAAA
1 TTTTAAA
68942370 ACATTTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 18 0.40
21 3 0.07
22 12 0.27
23 12 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAAATATATTTTTTTAAA
Found at i:68944005 original size:30 final size:30
Alignment explanation
Indices: 68943970--68944048 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
68943960 TGGTTACTCT
* *
68943970 GGGTGAAATGAACTCAAACAGCCTATGTCC
1 GGGTGATATGAACTCAAACAGCCCATGTCC
** *
68944000 GGGTGATATGAACTTGAACCGCCCATGTCC
1 GGGTGATATGAACTCAAACAGCCCATGTCC
*
68944030 GGGTGATATTAACTCAAAC
1 GGGTGATATGAACTCAAAC
68944049 TGCTCATATC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (30 bp):
GGGTGATATGAACTCAAACAGCCCATGTCC
Found at i:68945961 original size:26 final size:26
Alignment explanation
Indices: 68945932--68945985 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
68945922 AAAAAAGACT
68945932 TATTTTTATTGAATCGATATCTATAA
1 TATTTTTATTGAATCGATATCTATAA
68945958 TATTTTTATTGAATCGATATCTATAA
1 TATTTTTATTGAATCGATATCTATAA
68945984 TA
1 TA
68945986 ATATATAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (26 bp):
TATTTTTATTGAATCGATATCTATAA
Found at i:68946739 original size:21 final size:23
Alignment explanation
Indices: 68946713--68946760 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
68946703 TGACCAGTTG
*
68946713 TAATATATATTTTTA-AT-TTTT
1 TAATATAAATTTTTATATATTTT
68946734 TAATATAAATTTTTATATATTTT
1 TAATATAAATTTTTATATATTTT
68946757 TAAT
1 TAAT
68946761 TTTTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 14 0.58
22 2 0.08
23 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TAATATAAATTTTTATATATTTT
Found at i:68946766 original size:30 final size:31
Alignment explanation
Indices: 68946716--68946778 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
68946706 CCAGTTGTAA
68946716 TATATATTTTTAATTTTTTAATATAAATTTT
1 TATATATTTTTAATTTTTTAATATAAATTTT
68946747 TATATATTTTTAA-TTTTTAATATAAATTTT
1 TATATATTTTTAATTTTTTAATATAAATTTT
68946777 TA
1 TA
68946779 CTTTTTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TATATATTTTTAATTTTTTAATATAAATTTT
Found at i:68946797 original size:22 final size:22
Alignment explanation
Indices: 68946747--68946798 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 22
68946737 TATAAATTTT
68946747 TATATATTTTTAATTTTTAATA
1 TATATATTTTTAATTTTTAATA
*
68946769 TA-A-ATTTTTACTTTTTAATA
1 TATATATTTTTAATTTTTAATA
68946789 TATATATTTT
1 TATATATTTT
68946799 AAAGAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 18 0.67
21 2 0.07
22 7 0.26
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATATTTTTAATTTTTAATA
Found at i:68946965 original size:15 final size:15
Alignment explanation
Indices: 68946941--68946978 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
68946931 ATCTTTAAAA
68946941 ATAA-TTAAAAAATT
1 ATAATTTAAAAAATT
68946955 ATAATTTAAAAAATT
1 ATAATTTAAAAAATT
68946970 AT-ATTTAAA
1 ATAATTTAAA
68946979 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATTTAAAAAATT
Found at i:68947011 original size:22 final size:21
Alignment explanation
Indices: 68946957--68947033 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
68946947 AAAAAATTAT
*
68946957 AATTTAAAAAATTATATTT-A
1 AATTTATAAAATTATATTTAA
*
68946977 AATTTAAATAAATGTATATTTAA
1 AATTTATA-AAAT-TATATTTAA
* *
68947000 AATTTTTAAAATATACATTTAA
1 AATTTATAAAAT-TATATTTAA
68947022 AATATTATAAAA
1 AAT-TTATAAAA
68947034 CAAATAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.17
21 4 0.08
22 22 0.46
23 14 0.29
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
AATTTATAAAATTATATTTAA
Found at i:68947082 original size:16 final size:16
Alignment explanation
Indices: 68947056--68947142 Score: 71
Period size: 16 Copynumber: 5.7 Consensus size: 16
68947046 TTGACAGGTC
68947056 ATATCTTTAAAAATAAT
1 ATAT-TTTAAAAATAAT
* **
68947073 ATATTTTAAATATTTT
1 ATATTTTAAAAATAAT
68947089 ATATTATT--AAA-AA-
1 ATATT-TTAAAAATAAT
68947102 ATA-TTTAAAAATAAT
1 ATATTTTAAAAATAAT
68947117 A-ATTTTAAAAA-ATAT
1 ATATTTTAAAAATA-AT
68947132 ATATTTTAAAA
1 ATATTTTAAAA
68947143 TTTTAAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
11 2 0.04
12 1 0.02
13 6 0.11
14 4 0.07
15 14 0.25
16 23 0.41
17 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTTTAAAAATAAT
Found at i:68947157 original size:22 final size:24
Alignment explanation
Indices: 68947112--68947164 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
68947102 ATATTTAAAA
*
68947112 ATAATAATTTTAAAAAATATATATT
1 ATAA-AATTTTAAAAAATAGATATT
*
68947137 TTAAAATTTT-AAAAAT-GATATT
1 ATAAAATTTTAAAAAATAGATATT
68947159 ATAAAA
1 ATAAAA
68947165 CATTTCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 10 0.40
23 6 0.24
24 6 0.24
25 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATAAAATTTTAAAAAATAGATATT
Found at i:68947266 original size:24 final size:24
Alignment explanation
Indices: 68947233--68947291 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
68947223 AATAAATGAC
*
68947233 AAAT-AAAAAAAACTTAAAAAG-T
1 AAATAAAAAAAAACTTAAAAAGAA
68947255 AAATAAATAAAAAACTTAAAAAGAA
1 AAATAAA-AAAAAACTTAAAAAGAA
68947280 AAATAAAAAAAA
1 AAATAAAAAAAA
68947292 TGAAAAAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 4 0.12
23 2 0.06
24 20 0.61
25 7 0.21
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.15
Consensus pattern (24 bp):
AAATAAAAAAAAACTTAAAAAGAA
Found at i:68951138 original size:8 final size:9
Alignment explanation
Indices: 68951120--68951149 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
68951110 AAAAGTCTCC
68951120 AATTAAAAA
1 AATTAAAAA
68951129 AATTAAAAA
1 AATTAAAAA
68951138 AATTAAAAA
1 AATTAAAAA
68951147 AAT
1 AAT
68951150 CAATTAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATTAAAAA
Found at i:68952932 original size:22 final size:22
Alignment explanation
Indices: 68952904--68952963 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
68952894 AATAGTTGGG
*
68952904 CAGCTTGGGGAAGAGAAATCAA
1 CAGCTTGGGAAAGAGAAATCAA
68952926 CAGCTTGGGAAAGAGAAATCAA
1 CAGCTTGGGAAAGAGAAATCAA
68952948 CAGCTTGGGAAA-AGAA
1 CAGCTTGGGAAAGAGAA
68952964 GCATCAGCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 4 0.11
22 33 0.89
ACGTcount: A:0.43, C:0.13, G:0.30, T:0.13
Consensus pattern (22 bp):
CAGCTTGGGAAAGAGAAATCAA
Found at i:68957498 original size:47 final size:49
Alignment explanation
Indices: 68957378--68957555 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 49
68957368 TGTAACCCGC
* * * *
68957378 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTG---TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
68957424 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
68957473 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
68957516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
68957556 TCAACCATCC
Statistics
Matches: 112, Mismatches: 7, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 34 0.30
46 33 0.29
47 30 0.27
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:68957555 original size:93 final size:92
Alignment explanation
Indices: 68957386--68957555 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
68957376 GCCCATAAGT
***
68957386 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
68957451 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
68957478 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
68957543 CGAGTTCGGATGC
65 CGAGTTCGGATGC
68957556 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 38 0.52
93 35 0.48
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68959955 original size:15 final size:15
Alignment explanation
Indices: 68959933--68959980 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
68959923 AAGAAACCGA
68959933 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
68959948 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
68959962 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
68959978 ATA
1 ATA
68959981 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:68959965 original size:30 final size:28
Alignment explanation
Indices: 68959924--68959980 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
68959914 AAAGATAACA
*
68959924 AGAAACCGAATAAAGAAATCCAAGATAG
1 AGAAACCGAATAAAGAAACCCAAGATAG
68959952 AGAAATCCAGAATAAAGAAACCCAAGATA
1 AGAAA-CC-GAATAAAGAAACCCAAGATA
68959981 CGATACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 2 0.08
30 19 0.73
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (28 bp):
AGAAACCGAATAAAGAAACCCAAGATAG
Found at i:68963089 original size:93 final size:93
Alignment explanation
Indices: 68962930--68963100 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
68962920 GCCCATAAGT
*** *
68962930 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68962995 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
68963023 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68963088 CGAGTTCGGATGC
66 CGAGTTCGGATGC
68963101 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68963097 original size:46 final size:46
Alignment explanation
Indices: 68962922--68963097 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
68962912 TGTAACCCGC
* ***
68962922 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
68962968 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
68963018 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
68963061 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
68963098 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:68975456 original size:103 final size:99
Alignment explanation
Indices: 68975278--68975465 Score: 223
Period size: 103 Copynumber: 1.9 Consensus size: 99
68975268 TTTTCTTTGC
** * ** **
68975278 GCCATAGTTCAACTATGGTCTTACACTTATATTGCCATGGCCCTGCCATGGTCTTACATTCATTG
1 GCCATAGCCCAACTATGGTCTTAAACTTATATTGCCATGGCCCAACCATGGTCTTACATTCAAGG
*
68975343 TACCATAACCCAGTTATGGTATTATCATCAGGAT
66 TACCATAACCCAATTATGGTATTATCATCAGGAT
* *
68975377 GCCATAGCCCAACTATGGTCTTAAACATATATATACTGCCATGGTCCAACCATGGTCTTACGTTC
1 GCCATAGCCCAACTATGGTCTTAAAC-T-TATAT--TGCCATGGCCCAACCATGGTCTTACATTC
** *
68975442 AAGGTGTCTTAACCCAATTATGGT
62 AAGGTACCATAACCCAATTATGGT
68975466 CTTTTTGTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
99 23 0.32
100 1 0.01
101 5 0.07
103 43 0.60
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (99 bp):
GCCATAGCCCAACTATGGTCTTAAACTTATATTGCCATGGCCCAACCATGGTCTTACATTCAAGG
TACCATAACCCAATTATGGTATTATCATCAGGAT
Found at i:68977155 original size:50 final size:47
Alignment explanation
Indices: 68977097--68977206 Score: 141
Period size: 46 Copynumber: 2.3 Consensus size: 47
68977087 CTGTATCAAC
68977097 CTCACACACTAAGTTCCAATATACAAATATATAGCTGAAGCTATCTCGAT
1 CTCACACACTAAGTTCCAA-AT--AAATATATAGCTGAAGCTATCTCGAT
* * * *
68977147 CTCGCACACTAAG-TGCAAATATATATATAGCTGAAGCTATCTTGAT
1 CTCACACACTAAGTTCCAAATAAATATATAGCTGAAGCTATCTCGAT
*
68977193 TTCACACACTAAGT
1 CTCACACACTAAGT
68977207 GCACATAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 35 0.66
48 2 0.04
49 4 0.08
50 12 0.23
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (47 bp):
CTCACACACTAAGTTCCAAATAAATATATAGCTGAAGCTATCTCGAT
Found at i:68977167 original size:42 final size:42
Alignment explanation
Indices: 68977120--68977223 Score: 120
Period size: 46 Copynumber: 2.4 Consensus size: 42
68977110 TTCCAATATA
*
68977120 CAAATATATAGCTGAAGCTATCTCGATCTCGCACACTAAGTG
1 CAAATATATAGCTGAAGCTATCTCGATCTCACACACTAAGTG
* *
68977162 CAAATATATATATAGCTGAAGCTATCTTGATTTCACACACTAAGTG
1 C--A-A-ATATATAGCTGAAGCTATCTCGATCTCACACACTAAGTG
*
68977208 CACATA-ATTAGCTGAA
1 CAAATATA-TAGCTGAA
68977224 TCATCGTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
41 1 0.02
42 12 0.23
44 2 0.04
45 1 0.02
46 37 0.70
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (42 bp):
CAAATATATAGCTGAAGCTATCTCGATCTCACACACTAAGTG
Found at i:68977734 original size:21 final size:20
Alignment explanation
Indices: 68977710--68977750 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
68977700 ACTTGTATAA
68977710 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACA-TCAAAAT
*
68977731 CTATCATTAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
68977751 ACTCATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:68982027 original size:17 final size:18
Alignment explanation
Indices: 68981998--68982040 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
68981988 TAGAATAGCC
68981998 AAAGGGAAGAAAG-AAAG
1 AAAGGGAAGAAAGAAAAG
68982015 AAAGGAGAA-AAAGAAAAG
1 AAAGG-GAAGAAAGAAAAG
*
68982033 AAAAGGAA
1 AAAGGGAA
68982041 AAATTAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGGGAAGAAAGAAAAG
Found at i:68983350 original size:18 final size:18
Alignment explanation
Indices: 68983327--68983406 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
68983317 TGAATAAAGG
*
68983327 TACTGAATGACTGACTGT
1 TACTGAATAACTGACTGT
* *
68983345 TACTGAATAATTGATTGT
1 TACTGAATAACTGACTGT
* * *
68983363 TACTGAATAAATGATTGC
1 TACTGAATAACTGACTGT
* * * *
68983381 TACTAAAAAATTGATTGT
1 TACTGAATAACTGACTGT
68983399 TACTGAAT
1 TACTGAAT
68983407 GATATTGATT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:68983367 original size:36 final size:36
Alignment explanation
Indices: 68983327--68983408 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
68983317 TGAATAAAGG
* * * *
68983327 TACTGAATGACTGACTGTTACTGAATAATTGATTGT
1 TACTGAATGAATGACTGCTACTAAAAAATTGATTGT
* *
68983363 TACTGAATAAATGATTGCTACTAAAAAATTGATTGT
1 TACTGAATGAATGACTGCTACTAAAAAATTGATTGT
68983399 TACTGAATGA
1 TACTGAATGA
68983409 TATTGATTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (36 bp):
TACTGAATGAATGACTGCTACTAAAAAATTGATTGT
Found at i:68983433 original size:28 final size:28
Alignment explanation
Indices: 68983389--68983442 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
68983379 GCTACTAAAA
* **
68983389 AATTGATTGTTACTGAATGATATTGATT
1 AATTGATTGGTACTGAAAAATATTGATT
*
68983417 AATTGATTGGTATTGAAAAATATTGA
1 AATTGATTGGTACTGAAAAATATTGA
68983443 CTGATATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.43
Consensus pattern (28 bp):
AATTGATTGGTACTGAAAAATATTGATT
Found at i:68984313 original size:21 final size:21
Alignment explanation
Indices: 68984287--68984334 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
68984277 CAACATAGCT
*
68984287 GTGTGACCTAGCGATATCGCC
1 GTGTGACCTAGCGACATCGCC
* * *
68984308 GTGTGATCTAGTGACATGGCC
1 GTGTGACCTAGCGACATCGCC
68984329 GTGTGA
1 GTGTGA
68984335 GTCACACACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (21 bp):
GTGTGACCTAGCGACATCGCC
Found at i:68987871 original size:13 final size:13
Alignment explanation
Indices: 68987853--68987877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68987843 AATAACATTT
68987853 ATATAAACTCAAC
1 ATATAAACTCAAC
68987866 ATATAAACTCAA
1 ATATAAACTCAA
68987878 ATTAAGCCAA
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:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATAAACTCAAC
Found at i:68988202 original size:50 final size:47
Alignment explanation
Indices: 68988136--68988249 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 47
68988126 AGTTGTATCA
*
68988136 ATCTTGCACACTAAGTGCCAATATAAATATATATAGCTAAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCAA-AT--ATATATATAGCTAAAGCTATCTCG
* * *
68988186 ATCTCGCACACCAAGTG-CAAATATATATATAGCTGAAGCTATCTTG
1 ATCTCGCACACTAAGTGCCAAATATATATATAGCTAAAGCTATCTCG
* *
68988232 ATTTCGTACACTAAGTGC
1 ATCTCGCACACTAAGTGC
68988250 ACATAATTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
46 36 0.64
48 2 0.04
49 3 0.05
50 15 0.27
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (47 bp):
ATCTCGCACACTAAGTGCCAAATATATATATAGCTAAAGCTATCTCG
Found at i:68988786 original size:20 final size:21
Alignment explanation
Indices: 68988748--68988788 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
68988738 CTTGTATAAC
68988748 TATCATCAAACATTCAAAATA
1 TATCATCAAACATTCAAAATA
*
68988769 TATCATTAAACA-TCAAAATA
1 TATCATCAAACATTCAAAATA
68988789 CTCATGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCATCAAACATTCAAAATA
Found at i:68995928 original size:53 final size:53
Alignment explanation
Indices: 68995848--68995951 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
68995838 ATACTCAGAT
68995848 TTTGACTTGGAATAGATCAATATATCATCGATAAACACAACCAAAAATCTAAA
1 TTTGACTTGGAATAGATCAATATATCATCGATAAACACAACCAAAAATCTAAA
68995901 TTTGACTTGGAATAGATCAATATATCATCGATAAACACAACCAAAAATCTA
1 TTTGACTTGGAATAGATCAATATATCATCGATAAACACAACCAAAAATCTA
68995952 TCCAAATAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (53 bp):
TTTGACTTGGAATAGATCAATATATCATCGATAAACACAACCAAAAATCTAAA
Found at i:68999152 original size:25 final size:26
Alignment explanation
Indices: 68999124--68999174 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
68999114 CATTTATGCT
* *
68999124 CTTTCGAGC-CATGATCAGTAAGCTC
1 CTTTCAAGCTCATGAACAGTAAGCTC
*
68999149 CTTTCAAGCTGATGAACAGTAAGCTC
1 CTTTCAAGCTCATGAACAGTAAGCTC
68999175 ATACGAGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (26 bp):
CTTTCAAGCTCATGAACAGTAAGCTC
Found at i:68999197 original size:23 final size:23
Alignment explanation
Indices: 68999167--68999256 Score: 85
Period size: 23 Copynumber: 3.8 Consensus size: 23
68999157 CTGATGAACA
68999167 GTAAGCTCATACGAGCTGAAATG
1 GTAAGCTCATACGAGCTGAAATG
* *
68999190 GTAAGCTCCA-ATGAGATGAAA-G
1 GTAAGCT-CATACGAGCTGAAATG
* *
68999212 AGTAAGCTCTTACGAGCTAATATATTG
1 -GTAAGCTCATACGAGCTGA-A-A-TG
68999239 GTAAGCTCATACGAGCTG
1 GTAAGCTCATACGAGCTG
68999257 TGGTGAGTCC
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
22 2 0.04
23 29 0.56
24 3 0.06
25 1 0.02
26 16 0.31
27 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (23 bp):
GTAAGCTCATACGAGCTGAAATG
Found at i:69000582 original size:19 final size:21
Alignment explanation
Indices: 69000544--69000584 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
69000534 TGTTTTTGTA
*
69000544 TAGCTTCCTCATGTTCCCATG
1 TAGCTTCCTCATGATCCCATG
69000565 TAGCTTCCTC-T-ATCCCATG
1 TAGCTTCCTCATGATCCCATG
69000584 T
1 T
69000585 TTATGCCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.15, C:0.34, G:0.12, T:0.39
Consensus pattern (21 bp):
TAGCTTCCTCATGATCCCATG
Found at i:69003567 original size:17 final size:18
Alignment explanation
Indices: 69003539--69003572 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
69003529 TTTGACTCAG
*
69003539 TTTTTGATGATTTTTGCA
1 TTTTTGATGATTGTTGCA
69003557 TTTTTGA-GATTGTTGC
1 TTTTTGATGATTGTTGC
69003573 TTCTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.06, G:0.21, T:0.59
Consensus pattern (18 bp):
TTTTTGATGATTGTTGCA
Found at i:69011528 original size:22 final size:23
Alignment explanation
Indices: 69011500--69011553 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
69011490 AGCTAAAAAG
69011500 GTAAGCTCTAT-CGAGCAG-AACA
1 GTAAGCTCTATAC-AGCAGAAACA
*
69011522 GTAAGCTC-ATACAGCTGAAACA
1 GTAAGCTCTATACAGCAGAAACA
69011544 GTAAGCTCTA
1 GTAAGCTCTA
69011554 ATGAGCTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.21
22 21 0.75
23 1 0.04
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (23 bp):
GTAAGCTCTATACAGCAGAAACA
Found at i:69022525 original size:34 final size:34
Alignment explanation
Indices: 69022482--69022551 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
69022472 GTACCAGTGA
*
69022482 TGACGTCAAGAGCATCTCTGTCTTCTCGGCGACG
1 TGACGTCAAGAGCATCTCTGTCCTCTCGGCGACG
*
69022516 TGACGTCAAGAGCATCTCTGTCCTCTCTGCGACG
1 TGACGTCAAGAGCATCTCTGTCCTCTCGGCGACG
69022550 TG
1 TG
69022552 TAGCATGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.26, T:0.27
Consensus pattern (34 bp):
TGACGTCAAGAGCATCTCTGTCCTCTCGGCGACG
Found at i:69026374 original size:33 final size:32
Alignment explanation
Indices: 69026337--69026413 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
69026327 TGGCCTTGCC
* * *
69026337 ATGGTCTTACATTCATTG-TGCTATAACCCAGTT
1 ATGGTCTTACA-TCA-GGATGCCATAACCCAGCT
*
69026370 ATGGTCTTATCATCAGGATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGGATGCCATAACCCAGCT
69026403 ATGGTCTTACA
1 ATGGTCTTACA
69026414 CATATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 3 0.08
33 33 0.87
34 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACATCAGGATGCCATAACCCAGCT
Found at i:69044406 original size:33 final size:33
Alignment explanation
Indices: 69044364--69044430 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
69044354 ATATTAAAAT
69044364 TCAATAGAGATTGAACTTTTATAATTTAGTCTA
1 TCAATAGAGATTGAACTTTTATAATTTAGTCTA
69044397 TCAATAGAGATTGAACTTTTATAATTTAGTCTA
1 TCAATAGAGATTGAACTTTTATAATTTAGTCTA
69044430 T
1 T
69044431 GAACTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (33 bp):
TCAATAGAGATTGAACTTTTATAATTTAGTCTA
Found at i:69045112 original size:24 final size:24
Alignment explanation
Indices: 69045085--69045134 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
69045075 TTCGTGGTAA
69045085 TTATGGTGAGTATTTGATACCCTT
1 TTATGGTGAGTATTTGATACCCTT
69045109 TTATGGTGAGTATTTGATACCCTT
1 TTATGGTGAGTATTTGATACCCTT
69045133 TT
1 TT
69045135 TTTAGTCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (24 bp):
TTATGGTGAGTATTTGATACCCTT
Found at i:69052862 original size:30 final size:31
Alignment explanation
Indices: 69052814--69052894 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
69052804 GCCCGTGTAG
* *
69052814 GTGCCTGTGTGGGTCCACACGCCC-ATATGGC
1 GTGCCCGTGT-GGCCCACACGCCCAATATGGC
* *
69052845 GTGCCGGTGTGGCCCACACGCCCAATTTGGC
1 GTGCCCGTGTGGCCCACACGCCCAATATGGC
*
69052876 ATAGCCCGTGTGGCCCACA
1 GT-GCCCGTGTGGCCCACA
69052895 AGGCCACACC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 12 0.28
31 16 0.37
32 15 0.35
ACGTcount: A:0.15, C:0.35, G:0.31, T:0.20
Consensus pattern (31 bp):
GTGCCCGTGTGGCCCACACGCCCAATATGGC
Found at i:69052892 original size:32 final size:30
Alignment explanation
Indices: 69052828--69052894 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 30
69052818 CTGTGTGGGT
* *
69052828 CCACACGCCCATATGGCGTGCCGGTGTGGC
1 CCACACGCCCATATGGCATGCCCGTGTGGC
*
69052858 CCACACGCCCAATTTGGCATAGCCCGTGTGGC
1 CCACACGCCC-ATATGGCAT-GCCCGTGTGGC
69052890 CCACA
1 CCACA
69052895 AGGCCACACC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 10 0.31
31 7 0.22
32 15 0.47
ACGTcount: A:0.18, C:0.39, G:0.27, T:0.16
Consensus pattern (30 bp):
CCACACGCCCATATGGCATGCCCGTGTGGC
Found at i:69058273 original size:17 final size:17
Alignment explanation
Indices: 69058251--69058285 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69058241 ATAATAAACA
69058251 ACTTATAATTTTAAGTT
1 ACTTATAATTTTAAGTT
69058268 ACTTATAATTTTAAGTT
1 ACTTATAATTTTAAGTT
69058285 A
1 A
69058286 TTCTCCGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (17 bp):
ACTTATAATTTTAAGTT
Found at i:69062355 original size:3 final size:3
Alignment explanation
Indices: 69062341--69062393 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
69062331 GAGAGAAAGG
* * *
69062341 AGA AGG AGA AGA AGA AGA AAA AGA AGA AGA CCGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA
69062387 AGA AGA A
1 AGA AGA A
69062394 AAAAAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 41 0.95
4 2 0.05
ACGTcount: A:0.64, C:0.04, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:69062376 original size:22 final size:22
Alignment explanation
Indices: 69062351--69062392 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
69062341 AGAAGGAGAA
69062351 GAAGAAGAAAAAGAAGAAGACC
1 GAAGAAGAAAAAGAAGAAGACC
*
69062373 GAAGAAGAAGAAGAAGAAGA
1 GAAGAAGAAAAAGAAGAAGA
69062393 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (22 bp):
GAAGAAGAAAAAGAAGAAGACC
Found at i:69062572 original size:16 final size:18
Alignment explanation
Indices: 69062536--69062572 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
69062526 TAGTGTTTTG
*
69062536 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
69062554 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
69062570 TAT
1 TAT
69062573 GGGATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:69062670 original size:107 final size:105
Alignment explanation
Indices: 69062553--69063159 Score: 495
Period size: 113 Copynumber: 5.7 Consensus size: 105
69062543 TTATAGTTAT
* * *
69062553 TTATTTTGTTAATAATTTATGGGATTAGGTTACAAATTGTTAGTGTTTAGTTGTTTAGGGTATTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTACAAATTGTTAGTGTTTAGTGGTTTAGTGTATTG
* *
69062618 TGATTTTTTAGTAATTTATTTTTTTTAAAAATAATTTTATAG
64 TGATTTTTTAGTAATGTATTTTTTTAAAAAATAATTTTATAG
* *
69062660 TTATTTTGTTAGTAATTTATGATAAGGTTATAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGG-T-TACAAATTGTTAGTGTTTAGTGGTTTAGTGTATT-
** * *
69062725 GTGTATTGTGGTTTTTTAAAT-AATATATTTTAAAAAATAATTTTATAG
63 GTG-ATT-T--TTTAGT-AATGTAT-TTTTTTAAAAAATAATTTTATAG
* * * ** *
69062773 CTATTTTATTAGTAATTTATGATTAGGCTACATAAATTGCAAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTAC--AAATTGTTAGTGTTTAGTGGTTTAGTGTATTG
69062838 TGATTTTTTAGTAATGTA--TTTTT----AA-AA----A-A-
64 TGATTTTTTAGTAATGTATTTTTTTAAAAAATAATTTTATAG
69062867 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTAC--AAATTGTTAGTGTTTAGTGGTTTA--G---T-
* **
69062932 GAGTATTGTGATTTTTTTAGTAATAATATGTTTTAAAAAATAATAATTTTATAG
58 --GTATTGTGA-TTTTTTAGTAAT-GTAT-TTTTTTAAAA-AATAATTTTATAG
* * * * *
69062986 CTATTTTATTTGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATTAGG-T-TACAAATTGTTAGTGTTTAGTGGTTTAGTGTATTG
**
69063051 TGATTTTTTAGTAATGTA--TTTAAAAAAAATAAATTTT-TAG
64 TGATTTTTTAGTAATGTATTTTTTTAAAAAAT-AATTTTATAG
* * *
69063091 TTATTTTGTGTTAATAATTTATGATTA---T--AAATTGTTAGTGTTTA-TAGTTTAGTGTTTTG
1 TTA-TTT-TGTTAGTAATTTATGATTAGGTTACAAATTGTTAGTGTTTAGTGGTTTAGTGTATTG
69063150 TGATTTTTTA
64 TGATTTTTTA
69063160 ATGTAACTTT
Statistics
Matches: 414, Mismatches: 44, Indels: 92
0.75 0.08 0.17
Matches are distributed among these distances:
94 52 0.13
95 1 0.00
96 2 0.00
99 23 0.06
100 18 0.04
101 2 0.00
102 9 0.02
103 12 0.03
104 2 0.00
105 18 0.04
106 19 0.05
107 72 0.17
108 8 0.02
109 5 0.01
110 14 0.03
111 13 0.03
112 10 0.02
113 79 0.19
114 1 0.00
117 2 0.00
118 1 0.00
119 48 0.12
120 1 0.00
121 2 0.00
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (105 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTACAAATTGTTAGTGTTTAGTGGTTTAGTGTATTGTG
ATTTTTTAGTAATGTATTTTTTTAAAAAATAATTTTATAG
Found at i:69063043 original size:213 final size:207
Alignment explanation
Indices: 69062660--69063080 Score: 671
Period size: 213 Copynumber: 2.0 Consensus size: 207
69062650 AATTTTATAG
*
69062660 TTATTTTGTTAGTAATTTATGATAAGGTTATAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATAAGGTTACAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
*
69062725 GTGTATTGTGGTTTTTTAAATAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATT
66 GAGTATTGTGGTTTTTTAAATAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATT
69062790 TATGATTAGGCTACATAAATTGCAAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGT
131 TATGATTAGGCTACATAAATTGCAAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGT
**
69062855 ATTTTTAAAAAA
196 ATTTAAAAAAAA
* *
69062867 TTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAGTAATTTATGATAAGGTTACAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
* * *
69062932 GAGTATTGTGATTTTTTTAGTAATAATATGTTTTAAAAAATAATAATTTTATAGCTATTTTATTT
66 GAGTATTGTG-GTTTTTTA--AATAATATATTTT--AAAA-AATAATTTTATAGCTATTTTATTA
* * **
69062997 GTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAG
125 GTAATTTATGATTAGGCTACATAAATTGCAAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAG
69063062 TAATGTATTTAAAAAAAA
190 TAATGTATTTAAAAAAAA
69063080 T
1 T
69063081 AAATTTTTAG
Statistics
Matches: 195, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
207 71 0.36
208 7 0.04
210 12 0.06
212 4 0.02
213 101 0.52
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.50
Consensus pattern (207 bp):
TTATTTTGTTAGTAATTTATGATAAGGTTACAAAAATTGTTAGTGTTTAGTGGTTTAGTGTATTA
GAGTATTGTGGTTTTTTAAATAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATT
TATGATTAGGCTACATAAATTGCAAGTGTTTAGTGGTTTAGTGTATTATGATTTTTTAGTAATGT
ATTTAAAAAAAA
Found at i:69063187 original size:15 final size:16
Alignment explanation
Indices: 69063158--69063189 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
69063148 TGTGATTTTT
69063158 TAATGTAACTTTTATA
1 TAATGTAACTTTTATA
69063174 TAATGTAA-TTTTATA
1 TAATGTAACTTTTATA
69063189 T
1 T
69063190 TATTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TAATGTAACTTTTATA
Found at i:69065313 original size:33 final size:33
Alignment explanation
Indices: 69065258--69065323 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
69065248 TCCTCTAAAG
* *
69065258 CCGTATCCACCACCGTACTCTACTCCTCCTGGC
1 CCGTATCCACCACCATACTCTACTCCCCCTGGC
** *
69065291 CCGTATCCACCGTCATATTCTACTCCCCCTGGC
1 CCGTATCCACCACCATACTCTACTCCCCCTGGC
69065324 TCAAGTTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.15, C:0.47, G:0.12, T:0.26
Consensus pattern (33 bp):
CCGTATCCACCACCATACTCTACTCCCCCTGGC
Found at i:69069025 original size:27 final size:26
Alignment explanation
Indices: 69068943--69069029 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
69068933 TATGGGCCCC
*
69068943 ACTAGTCGCGGCTACCAAGAAGGCTCA
1 ACTAGTCGCGCCTACC-AGAAGGCTCA
* * *
69068970 ACAAGTCGCACCTACCATGAAGGCACA
1 ACTAGTCGCGCCTACCA-GAAGGCTCA
* *
69068997 ACTAGTCGCGCCTGCCAGATAGACTCA
1 ACTAGTCGCGCCTACCAGA-AGGCTCA
69069024 ACTAGT
1 ACTAGT
69069030 TGAGCTTGTC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.06
27 46 0.94
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (26 bp):
ACTAGTCGCGCCTACCAGAAGGCTCA
Found at i:69074884 original size:18 final size:18
Alignment explanation
Indices: 69074857--69074903 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
69074847 GCCCATACCT
* *
69074857 GACACAAGTCACGGCCAC
1 GACACTAGTCACGCCCAC
*
69074875 GACACTAGTCGCGCCCAC
1 GACACTAGTCACGCCCAC
*
69074893 GACTCTAGTCA
1 GACACTAGTCA
69074904 AGATAGAGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.38, G:0.21, T:0.13
Consensus pattern (18 bp):
GACACTAGTCACGCCCAC
Found at i:69079327 original size:31 final size:31
Alignment explanation
Indices: 69079292--69079399 Score: 198
Period size: 31 Copynumber: 3.5 Consensus size: 31
69079282 GCATATACTA
69079292 GGCCGAAGCCTTTACATTATTCATACCACTG
1 GGCCGAAGCCTTTACATTATTCATACCACTG
69079323 GGCCGAAGCCTTTACATTATTCATACCACTG
1 GGCCGAAGCCTTTACATTATTCATACCACTG
* *
69079354 GGCCGAAGCCTTTTCATTATTCATATCACTG
1 GGCCGAAGCCTTTACATTATTCATACCACTG
69079385 GGCCGAAGCCTTTAC
1 GGCCGAAGCCTTTAC
69079400 TGTAAACGGT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (31 bp):
GGCCGAAGCCTTTACATTATTCATACCACTG
Found at i:69079668 original size:25 final size:25
Alignment explanation
Indices: 69079618--69079686 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
69079608 CTCTTGTAAT
*
69079618 AACTGGGGCAAA-CCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
69079642 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
69079667 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
69079687 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 12 0.29
25 29 0.71
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:69079756 original size:11 final size:11
Alignment explanation
Indices: 69079719--69079777 Score: 79
Period size: 11 Copynumber: 5.6 Consensus size: 11
69079709 ACCCAACCCA
69079719 TGCATAT-ATG
1 TGCATATCATG
**
69079729 TATATATCATG
1 TGCATATCATG
69079740 -GCATATCATG
1 TGCATATCATG
69079750 TGCATATCATG
1 TGCATATCATG
69079761 TGCATATCATG
1 TGCATATCATG
69079772 -GCATAT
1 TGCATAT
69079778 TAAGTACAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 19 0.44
11 24 0.56
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (11 bp):
TGCATATCATG
Found at i:69079756 original size:21 final size:21
Alignment explanation
Indices: 69079732--69079777 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
69079722 ATATATGTAT
69079732 ATATCATG-GCATATCATGTGC
1 ATATCATGTGCATATCATG-GC
69079753 ATATCATGTGCATATCATGGC
1 ATATCATGTGCATATCATGGC
69079774 ATAT
1 ATAT
69079778 TAAGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCATATCATGGC
Done.