Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 119 of 313
Found at i:38407182 original size:11 final size:10
Alignment explanation
Indices: 38407125--38407187 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 10
38407115 AAATTTTAAA
38407125 AAAATATTTT
1 AAAATATTTT
38407135 AAAAATATTTT
1 -AAAATATTTT
38407146 -AAA-A--TT
1 AAAATATTTT
*
38407152 AAAA-AATTT
1 AAAATATTTT
38407161 AAAAGTATTTTT
1 AAAA-TA-TTTT
38407173 AAAATATTTT
1 AAAATATTTT
38407183 AAAAT
1 AAAAT
38407188 TAAAAAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
6 2 0.04
7 4 0.09
8 1 0.02
9 9 0.20
10 9 0.20
11 13 0.29
12 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (10 bp):
AAAATATTTT
Found at i:38407216 original size:11 final size:11
Alignment explanation
Indices: 38407202--38407227 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38407192 AAAATTTAAA
38407202 AAAAGTATTTT
1 AAAAGTATTTT
38407213 AAAAGTATTTT
1 AAAAGTATTTT
38407224 AAAA
1 AAAA
38407228 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:38412027 original size:174 final size:175
Alignment explanation
Indices: 38411726--38412073 Score: 495
Period size: 174 Copynumber: 2.0 Consensus size: 175
38411716 CTTCAAGCAA
* * * *
38411726 GGAACAAAATAAAAGCATAAAGTGACCATACAGAATGTTTCCATTTAAAACGACCATCACAGCAA
1 GGAACAAAACAAAAGCATAAAGTGACCATACAGAATGTTTCCATCTAAAACAACCATCACAGAAA
* *
38411791 ACCGCAGTAACATCATCAGAAAGACTGAATATTTCAAGGCCAATAACCCCAAACAATGTGATGCT
66 AACGCAGTAACATCATAAGAAAGACTGAATATTTCAAGGCCAATAACCCCAAACAATGTGATGCT
* * *
38411856 TACTATATTTTCAACATTGTGGGAGCCCTAAATCCTCACCACAAT
131 TACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAAT
*
38411901 GGAACAAAACAAAAGCATGAATGTGACCATACAGAATGTTTCCA-CTAAAA-AACCATCACAGAA
1 GGAACAAAACAAAAGCAT-AAAGTGACCATACAGAATGTTTCCATCTAAAACAACCATCACAGAA
* * ** **
38411964 AAATGCAGTGACATCATAAGAAAGACTGAATATTTCAAGGCCAA-AATTTCCAAACCGTGTGATG
65 AAACGCAGTAACATCATAAGAAAGACTGAATATTTCAAGGCCAATAA-CCCCAAACAATGTGATG
* *
38412028 CTTACTACAATTTCAACATTGTGGGAACCTTAGATCCTCACCACAA
129 CTTACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAA
38412074 CGGACATGCA
Statistics
Matches: 153, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
173 2 0.01
174 105 0.69
175 22 0.14
176 24 0.16
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (175 bp):
GGAACAAAACAAAAGCATAAAGTGACCATACAGAATGTTTCCATCTAAAACAACCATCACAGAAA
AACGCAGTAACATCATAAGAAAGACTGAATATTTCAAGGCCAATAACCCCAAACAATGTGATGCT
TACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAAT
Found at i:38429623 original size:45 final size:46
Alignment explanation
Indices: 38429548--38429702 Score: 174
Period size: 45 Copynumber: 3.5 Consensus size: 46
38429538 TACACGGTGG
* *
38429548 ATCAGCACATAGC-ACCACCCTTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTACTCAGGTGAA
*
38429592 ATCAGCACATAGCAACCACCTTTATACTCAATGGTAC-CAGGTGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTACTCAGGTGAA
* ** * * * *
38429637 ATCAGCACATAGCCACCACCTTTATTTTCATTAATA-TCGGGTGGA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTACTCAGGTGAA
* *
38429682 ATCAGCACATAGGATCCACCT
1 ATCAGCACATAGCAACCACCT
38429703 ATATTTCCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
44 14 0.15
45 80 0.85
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (46 bp):
ATCAGCACATAGCAACCACCTTTATACTCAATAGTACTCAGGTGAA
Found at i:38435562 original size:44 final size:46
Alignment explanation
Indices: 38435497--38435625 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 46
38435487 ATGCACTAAT
* * *
38435497 GAACAGAGAGCACTAAAGTGCTATA-CAGAGAGCA-CAGATGTGCTA
1 GAACAGAGAGCACTAACGTGCTAAATCAGAGAGCACCA-ACGTGCTA
*
38435542 -AACAGAGAGCACTGACGTGCTAAAATCAGAGAGCACCAACGTGCTA
1 GAACAGAGAGCACTAACGTGCT-AAATCAGAGAGCACCAACGTGCTA
*
38435588 GTAGTCAGAGAGCACTAACGTGCTAATAATCAGAGAGC
1 G-A-ACAGAGAGCACTAACGTGCT-A-AATCAGAGAGC
38435626 GCGCTAAAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
44 19 0.27
45 2 0.03
46 16 0.23
47 2 0.03
48 1 0.01
49 20 0.28
50 11 0.15
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.16
Consensus pattern (46 bp):
GAACAGAGAGCACTAACGTGCTAAATCAGAGAGCACCAACGTGCTA
Found at i:38435601 original size:25 final size:24
Alignment explanation
Indices: 38435500--38435625 Score: 136
Period size: 22 Copynumber: 5.3 Consensus size: 24
38435490 CACTAATGAA
*
38435500 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAACGTGCTATAAT
*
38435522 CAGAGAGCAC-AGATGTGCTA-AA-
1 CAGAGAGCACTA-ACGTGCTATAAT
* *
38435544 CAGAGAGCACTGACGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTATAAT
* *
38435568 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTA-TAAT
38435593 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCT-ATAAT
38435618 CAGAGAGC
1 CAGAGAGC
38435626 GCGCTAAAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 35 0.40
23 2 0.02
24 18 0.20
25 31 0.35
26 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTATAAT
Found at i:38436287 original size:16 final size:16
Alignment explanation
Indices: 38436266--38436302 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
38436256 GTTTTATCTA
38436266 TATAATAATATAATAT
1 TATAATAATATAATAT
38436282 TATAATAATATAATAT
1 TATAATAATATAATAT
*
38436298 AATAA
1 TATAA
38436303 CTTACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:38436302 original size:8 final size:8
Alignment explanation
Indices: 38436265--38436296 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
38436255 TGTTTTATCT
38436265 ATATAATA
1 ATATAATA
38436273 ATATAATA
1 ATATAATA
*
38436281 TTATAATA
1 ATATAATA
38436289 ATATAATA
1 ATATAATA
38436297 TAATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:38438349 original size:25 final size:25
Alignment explanation
Indices: 38438286--38438349 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
38438276 TTTTAATTTA
* *
38438286 ATTAGATTCATTTTATGATAGAATT
1 ATTAAATTCATTTTATGATAAAATT
* *
38438311 ATTTACTATC-TTTT-TGATAAAAATT
1 ATTAAAT-TCATTTTATGAT-AAAATT
38438336 ATTAAATTCATTTT
1 ATTAAATTCATTTT
38438350 CATAATTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
24 6 0.20
25 22 0.73
26 2 0.07
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (25 bp):
ATTAAATTCATTTTATGATAAAATT
Found at i:38440387 original size:19 final size:19
Alignment explanation
Indices: 38440353--38440389 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38440343 TTTAAAATAC
**
38440353 TTTTAAAATATTTTTTTAT
1 TTTTAAAATAAATTTTTAT
38440372 TTTTAAAATAAATTTTTA
1 TTTTAAAATAAATTTTTA
38440390 GTGTTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATAAATTTTTAT
Found at i:38440396 original size:20 final size:19
Alignment explanation
Indices: 38440354--38440396 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
38440344 TTAAAATACT
** *
38440354 TTTAAAATATTTTTTTATT
1 TTTAAAATAAATTTTTATG
38440373 TTTAAAATAAATTTTTAGTG
1 TTTAAAATAAATTTTTA-TG
38440393 TTTA
1 TTTA
38440397 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTAAAATAAATTTTTATG
Found at i:38440671 original size:13 final size:13
Alignment explanation
Indices: 38440653--38440678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38440643 TAACCAGTTT
38440653 GATGAGCATATTC
1 GATGAGCATATTC
38440666 GATGAGCATATTC
1 GATGAGCATATTC
38440679 ACTTCTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GATGAGCATATTC
Found at i:38440701 original size:5 final size:6
Alignment explanation
Indices: 38440684--38440708 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38440674 TATTCACTTC
38440684 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
38440709 CCACTACAAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:38451716 original size:21 final size:22
Alignment explanation
Indices: 38451679--38451719 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38451669 TTTGTTTTGA
38451679 TTTTTAAGTTCTCTTTATTTAC
1 TTTTTAAGTTCTCTTTATTTAC
*
38451701 TTTTTAAGTT-TTTTTATTT
1 TTTTTAAGTTCTCTTTATTT
38451720 GTCCTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTAAGTTCTCTTTATTTAC
Found at i:38451843 original size:35 final size:34
Alignment explanation
Indices: 38451793--38451858 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
38451783 AAATGTTTTA
*
38451793 TTTTTTAATTATAAATATATTTTTTTAAAATTATT
1 TTTTTTAATTATAAATAT-TATTTTTAAAATTATT
*
38451828 TTTTTTAATTTTAAATATTATTTTTAAAATT
1 TTTTTTAATTATAAATATTATTTTTAAAATT
38451859 TTAAATATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 12 0.41
35 17 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (34 bp):
TTTTTTAATTATAAATATTATTTTTAAAATTATT
Found at i:38451858 original size:21 final size:21
Alignment explanation
Indices: 38451815--38451889 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
38451805 AAATATATTT
**
38451815 TTTTAAA-ATTATTTTTTTTAA
1 TTTTAAATATTA-TTTTTAAAA
38451836 TTTTAAATATTATTTTTAAAA
1 TTTTAAATATTATTTTTAAAA
**
38451857 TTTTAAATATGCTTTTTAATAA
1 TTTTAAATATTATTTTTAA-AA
* *
38451879 TATAAAATATT
1 TTTTAAATATT
38451890 TAAAATATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
21 31 0.69
22 14 0.31
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (21 bp):
TTTTAAATATTATTTTTAAAA
Found at i:38451886 original size:22 final size:21
Alignment explanation
Indices: 38451848--38451888 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38451838 TTAAATATTA
* *
38451848 TTTTTAAAATTTTAAATATGC
1 TTTTTAAAATATAAAATATGC
38451869 TTTTTAATAATATAAAATAT
1 TTTTTAA-AATATAAAATAT
38451889 TTAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTTAAAATATAAAATATGC
Found at i:38451971 original size:9 final size:9
Alignment explanation
Indices: 38451957--38451981 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38451947 TTTTAAATGT
38451957 ATATTTTAA
1 ATATTTTAA
38451966 ATATTTTAA
1 ATATTTTAA
38451975 ATATTTT
1 ATATTTT
38451982 TTATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAA
Found at i:38452101 original size:22 final size:20
Alignment explanation
Indices: 38452075--38452129 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
38452065 AACTTTTTTT
38452075 AAAATATATATTAAAAAAGGTA
1 AAAATATATATTAAAAAA--TA
* * *
38452097 AAAATTTATATTAGAAAATT
1 AAAATATATATTAAAAAATA
38452117 AAAATATATATTA
1 AAAATATATATTA
38452130 TAATTAGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAATATATATTAAAAAATA
Found at i:38455708 original size:16 final size:15
Alignment explanation
Indices: 38455687--38455728 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
38455677 TATCTTTAAA
38455687 AATAATTTAAAAAAGT
1 AATAATTTAAAAAA-T
38455703 AATAATTTAAAAAAT
1 AATAATTTAAAAAAT
*
38455718 TAT-ATTTAAAA
1 AATAATTTAAAA
38455729 TTAAAAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 8 0.32
15 3 0.12
16 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AATAATTTAAAAAAT
Found at i:38455844 original size:24 final size:22
Alignment explanation
Indices: 38455816--38455944 Score: 92
Period size: 21 Copynumber: 6.0 Consensus size: 22
38455806 ATATATTTTA
*
38455816 AATATTTTATAATATTAAAATAAT
1 AATATTTTAAAAT-TTAAAA-AAT
*
38455840 TATA-TTTAAAATTTAAAAAAT
1 AATATTTTAAAATTTAAAAAAT
38455861 AATA-TTT-AAA-TT-AAAAAT
1 AATATTTTAAAATTTAAAAAAT
*
38455879 -ATATATTTAAAATTTAAAATAT
1 AATAT-TTTAAAATTTAAAAAAT
* *
38455901 AATATTATAAACCATTTAAAATAT
1 AATATTTTAAA--ATTTAAAAAAT
* * *
38455925 AA-ATTTCAAATTTTATAAAA
1 AATATTTTAAAATTTAAAAAA
38455945 CCAATAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
17 3 0.03
18 6 0.07
19 5 0.06
20 6 0.07
21 18 0.21
22 16 0.18
23 17 0.20
24 16 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATATTTTAAAATTTAAAAAAT
Found at i:38455855 original size:7 final size:7
Alignment explanation
Indices: 38455843--38455937 Score: 52
Period size: 7 Copynumber: 13.6 Consensus size: 7
38455833 AAATAATTAT
38455843 ATTTAAA
1 ATTTAAA
38455850 ATTTAAA
1 ATTTAAA
** *
38455857 AAATAAT
1 ATTTAAA
38455864 ATTT-AA
1 ATTTAAA
*
38455870 ATTAAAA
1 ATTTAAA
* *
38455877 ATAT-AT
1 ATTTAAA
38455883 ATTTAAA
1 ATTTAAA
38455890 ATTTAAA
1 ATTTAAA
* *
38455897 ATATAAT
1 ATTTAAA
38455904 ATTATAAA
1 ATT-TAAA
38455912 CCATTTAAA
1 --ATTTAAA
*
38455921 ATAT-AA
1 ATTTAAA
*
38455927 ATTTCAA
1 ATTTAAA
38455934 ATTT
1 ATTT
38455938 TATAAAACCA
Statistics
Matches: 64, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
6 13 0.20
7 41 0.64
8 3 0.05
9 4 0.06
10 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTTAAA
Found at i:38455867 original size:21 final size:21
Alignment explanation
Indices: 38455816--38455937 Score: 108
Period size: 22 Copynumber: 5.7 Consensus size: 21
38455806 ATATATTTTA
*
38455816 AATATTTTATAATATTAAAATAAT
1 AATA-TTTAAAAT-TTAAAA-AAT
*
38455840 TATATTTAAAATTTAAAAAAT
1 AATATTTAAAATTTAAAAAAT
38455861 AATATTT-AAA-TT-AAAAAT
1 AATATTTAAAATTTAAAAAAT
*
38455879 ATATATTTAAAATTTAAAATAT
1 A-ATATTTAAAATTTAAAAAAT
*
38455901 AATATTATAAACCATTTAAAATAT
1 AATATT-TAAA--ATTTAAAAAAT
*
38455925 AA-ATTTCAAATTT
1 AATATTTAAAATTT
38455938 TATAAAACCA
Statistics
Matches: 86, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
18 7 0.08
19 8 0.09
20 10 0.12
21 16 0.19
22 19 0.22
23 10 0.12
24 16 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTAAAATTTAAAAAAT
Found at i:38455877 original size:20 final size:21
Alignment explanation
Indices: 38455829--38455911 Score: 89
Period size: 20 Copynumber: 4.0 Consensus size: 21
38455819 ATTTTATAAT
* *
38455829 ATTAAAATAATTATATTTAAA
1 ATTAAAAAAATAATATTTAAA
*
38455850 ATTTAAAAAATAATATTT-AA
1 ATTAAAAAAATAATATTTAAA
*
38455870 ATTAAAAATAT-ATATTTAAA
1 ATTAAAAAAATAATATTTAAA
* *
38455890 ATTTAAAATATAATATTATAAA
1 ATTAAAAAAATAATATT-TAAA
38455912 CCATTTAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
19 6 0.11
20 23 0.43
21 20 0.38
22 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAAAAAAATAATATTTAAA
Found at i:38455918 original size:64 final size:62
Alignment explanation
Indices: 38455817--38455936 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 62
38455807 TATATTTTAA
* *
38455817 ATATTTTATAATATTAAAATAATTATATTTAAAATTTAAAAAATAATATTT-AAATTAAAAAT
1 ATATTTTAAAATATTAAAATAATAATATTTAAAATTTAAAAAATAA-ATTTCAAATTAAAAAT
*
38455879 ATATATTTAAAAT-TTAAAAT-ATAATATTATAAACCATTTAAAATATAAATTTCAAATT
1 ATAT-TTTAAAATATTAAAATAATAATATT-TAAA--ATTTAAAAAATAAATTTCAAATT
38455937 TTATAAAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
61 7 0.14
62 15 0.30
63 11 0.22
64 17 0.34
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (62 bp):
ATATTTTAAAATATTAAAATAATAATATTTAAAATTTAAAAAATAAATTTCAAATTAAAAAT
Found at i:38456350 original size:16 final size:17
Alignment explanation
Indices: 38456319--38456352 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
38456309 TCATATTCTA
38456319 TAAAAAAATAAATTATT
1 TAAAAAAATAAATTATT
*
38456336 TAAATAAAT-AATTATT
1 TAAAAAAATAAATTATT
38456352 T
1 T
38456353 TTTTGGGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAAAAATAAATTATT
Found at i:38462657 original size:29 final size:29
Alignment explanation
Indices: 38462624--38462831 Score: 204
Period size: 29 Copynumber: 7.2 Consensus size: 29
38462614 TGTATACAAC
*
38462624 CCCTA-GAATCATGCGAGCCTATGTGTGAA
1 CCCTAGGAA-CATGCGAGCCTATGTGCGAA
* ** *
38462653 CCCTAGGAACATACGAGCCTACATGTGAA
1 CCCTAGGAACATGCGAGCCTATGTGCGAA
* *
38462682 CCCTAGGTACATGCAAGCCTATGTGCGAA
1 CCCTAGGAACATGCGAGCCTATGTGCGAA
* * * *
38462711 CCCTAGGTACATGCGAACTTATATGCGAA
1 CCCTAGGAACATGCGAGCCTATGTGCGAA
* * * * *
38462740 TCCTAGGAACATGTGAACTTATGTGTGAA
1 CCCTAGGAACATGCGAGCCTATGTGCGAA
**
38462769 CCCTAGGAACATGCGAATCTATGTGCGAA
1 CCCTAGGAACATGCGAGCCTATGTGCGAA
* * *
38462798 CTCTAGGAACATGCGAGCCTA-ATGCGAT
1 CCCTAGGAACATGCGAGCCTATGTGCGAA
38462826 CCCTAG
1 CCCTAG
38462832 TTGCATGTAA
Statistics
Matches: 149, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
28 10 0.07
29 136 0.91
30 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (29 bp):
CCCTAGGAACATGCGAGCCTATGTGCGAA
Found at i:38462695 original size:58 final size:58
Alignment explanation
Indices: 38462624--38462818 Score: 230
Period size: 58 Copynumber: 3.4 Consensus size: 58
38462614 TGTATACAAC
* * * *
38462624 CCCTA-GAATCATGCGAGCCTATGTGTGAACCCTAGGAACATACGAGCCTACATGTGAA
1 CCCTAGGAA-CATGCGAGCCTATGTGTGAACCCTAGGAACATGCGAACCTATATGCGAA
* * * * *
38462682 CCCTAGGTACATGCAAGCCTATGTGCGAACCCTAGGTACATGCGAACTTATATGCGAA
1 CCCTAGGAACATGCGAGCCTATGTGTGAACCCTAGGAACATGCGAACCTATATGCGAA
* * * * * *
38462740 TCCTAGGAACATGTGAACTTATGTGTGAACCCTAGGAACATGCGAATCTATGTGCGAA
1 CCCTAGGAACATGCGAGCCTATGTGTGAACCCTAGGAACATGCGAACCTATATGCGAA
*
38462798 CTCTAGGAACATGCGAGCCTA
1 CCCTAGGAACATGCGAGCCTA
38462819 ATGCGATCCC
Statistics
Matches: 111, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
58 109 0.98
59 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (58 bp):
CCCTAGGAACATGCGAGCCTATGTGTGAACCCTAGGAACATGCGAACCTATATGCGAA
Found at i:38462727 original size:17 final size:17
Alignment explanation
Indices: 38462672--38462728 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
38462662 CATACGAGCC
*
38462672 TACATGTGAACCCTAGG
1 TACATGCGAACCCTAGG
*
38462689 TACATGC-AAGCCTA--
1 TACATGCGAACCCTAGG
*
38462703 T--GTGCGAACCCTAGG
1 TACATGCGAACCCTAGG
38462718 TACATGCGAAC
1 TACATGCGAAC
38462729 TTATATGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
12 3 0.10
13 6 0.20
14 1 0.03
15 1 0.03
16 6 0.20
17 13 0.43
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (17 bp):
TACATGCGAACCCTAGG
Found at i:38462864 original size:34 final size:34
Alignment explanation
Indices: 38462819--38462884 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
38462809 TGCGAGCCTA
* * * *
38462819 ATGCGATCCCTAGTTGCATGTAAGCATATATGCC
1 ATGCGAACCCTAGGTACATGCAAGCATATATGCC
*
38462853 ATGCGAACCCTAGGTACATGCAAGCCTATATG
1 ATGCGAACCCTAGGTACATGCAAGCATATATG
38462885 ATCATGTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (34 bp):
ATGCGAACCCTAGGTACATGCAAGCATATATGCC
Found at i:38469885 original size:24 final size:24
Alignment explanation
Indices: 38469858--38469903 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
38469848 TCTTCTTCGA
* *
38469858 TTCCTATTCACTCCTTTATTTTTT
1 TTCCCATTCACTCATTTATTTTTT
*
38469882 TTCCCATTCATTCATTTATTTT
1 TTCCCATTCACTCATTTATTTT
38469904 CTCTCTCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCCCATTCACTCATTTATTTTTT
Found at i:38481263 original size:2 final size:2
Alignment explanation
Indices: 38481258--38481291 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
38481248 GGAAAAAAAC
38481258 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
38481292 GAGTTTTCAA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38486467 original size:36 final size:35
Alignment explanation
Indices: 38486421--38486524 Score: 93
Period size: 36 Copynumber: 2.9 Consensus size: 35
38486411 CAACGGTGCA
* *
38486421 CATTTTTTACGCTTTATATTGCCAACGGAT-GGTGTG
1 CATTTCTTACG-TTTATATTGCCAACGAATGGGT-TG
* *
38486457 CATTTCTTACGTTTCATATTACCAATGAATGGGTTG
1 CATTTCTTACGTTT-ATATTGCCAACGAATGGGTTG
* * * *
38486493 CATCTCTCACATTTTATATTGCCAATGAATGG
1 CATTTCTTAC-GTTTATATTGCCAACGAATGG
38486525 CTTGAACTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
35 3 0.05
36 48 0.84
37 6 0.11
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (35 bp):
CATTTCTTACGTTTATATTGCCAACGAATGGGTTG
Found at i:38489301 original size:44 final size:44
Alignment explanation
Indices: 38489223--38489313 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
38489213 GTAGGTCAAA
* *
38489223 TAATATCAAAATAACCTACACTAATCAGAATTTAAGTGGGTAAC
1 TAATATCAAAATAACCTACACTAATCAGAATTTAAGTGAGAAAC
* ** *
38489267 TAATATTAAAATAACCTACACTAATTTGAGTTTAAGTGAGAAAC
1 TAATATCAAAATAACCTACACTAATCAGAATTTAAGTGAGAAAC
38489311 TAA
1 TAA
38489314 AAATAGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATCAAAATAACCTACACTAATCAGAATTTAAGTGAGAAAC
Found at i:38493370 original size:19 final size:19
Alignment explanation
Indices: 38493342--38493392 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
38493332 AAGATAGCAT
38493342 ATTAAATTTAATTAATTTG
1 ATTAAATTTAATTAATTTG
* * *
38493361 ATTAATTTTATTTTATTTG
1 ATTAAATTTAATTAATTTG
* *
38493380 ATCAAAATTAATT
1 ATTAAATTTAATT
38493393 TCCCAAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTAAATTTAATTAATTTG
Found at i:38497466 original size:3 final size:3
Alignment explanation
Indices: 38497458--38497484 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38497448 ACATTTGTTA
38497458 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
38497485 GGAATTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:38500935 original size:42 final size:41
Alignment explanation
Indices: 38500877--38501034 Score: 169
Period size: 42 Copynumber: 3.8 Consensus size: 41
38500867 ACCAAAAATT
*
38500877 TATTTTAAAAATTAAAACAAAAATAAAAAAATTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAAAATAAAAAAAGTATTTTAAAAA
**
38500920 TATTTTAAAATTAAAAAAAAA-AATTTAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAATAA-AAAAAGTATTTTAAAAA
* ** * *
38500961 TATTTTTAAAATTTAAAAAATTTTAAAAAAGTATTTTAAAAG
1 TA-TTTTAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAAA
* *
38501003 TATTTTAAAATT--TAAAAAATAAAAAAATTATT
1 TATTTTAAAATTAAAAAAAAATAAAAAAAGTATT
38501035 GTATTCGGGT
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
39 15 0.15
40 2 0.02
41 31 0.32
42 42 0.43
43 7 0.07
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAAA
Found at i:38500938 original size:20 final size:20
Alignment explanation
Indices: 38500915--38500980 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
38500905 AAATTATTTT
38500915 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
* * **
38500935 AAAAAAAATTTAAAGTATT-TT
1 AAAAATATTTTAAA--ATTAAA
38500956 AAAAATATTTTTAAAATTTAAA
1 AAAAATA-TTTTAAAA-TTAAA
38500978 AAA
1 AAA
38500981 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
20 13 0.39
21 8 0.24
22 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAATATTTTAAAATTAAA
Found at i:38500966 original size:11 final size:11
Alignment explanation
Indices: 38500903--38501012 Score: 72
Period size: 11 Copynumber: 10.4 Consensus size: 11
38500893 ACAAAAATAA
38500903 AAAAATTATTTT
1 AAAAA-TATTTT
38500915 AAAAATATTTT
1 AAAAATATTTT
***
38500926 -AAAAT-TAAA
1 AAAAATATTTT
* *
38500935 AAAAAAAATTT
1 AAAAATATTTT
*
38500946 -AAAGTATTTT
1 AAAAATATTTT
38500956 AAAAATATTTT
1 AAAAATATTTT
*
38500967 -TAAA-A-TTT
1 AAAAATATTTT
38500975 AAAAA-ATTTT
1 AAAAATATTTT
38500985 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
38500998 AAAAGTATTTT
1 AAAAATATTTT
38501009 AAAA
1 AAAA
38501013 TTTAAAAAAT
Statistics
Matches: 75, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
8 3 0.04
9 6 0.08
10 22 0.29
11 30 0.40
12 9 0.12
13 5 0.07
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:38504118 original size:24 final size:24
Alignment explanation
Indices: 38504090--38504141 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
38504080 TTTCTAGACG
* *
38504090 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
38504114 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
38504138 ATTT
1 ATTT
38504142 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:38508626 original size:21 final size:21
Alignment explanation
Indices: 38508601--38508641 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38508591 GATTTATACA
38508601 ATAATAATAAAATAATAGCAT
1 ATAATAATAAAATAATAGCAT
* * *
38508622 ATAATAGTGAAATGATAGCA
1 ATAATAATAAAATAATAGCA
38508642 AAATAGTAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (21 bp):
ATAATAATAAAATAATAGCAT
Found at i:38516342 original size:16 final size:17
Alignment explanation
Indices: 38516323--38516356 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
38516313 TGACACCGAA
38516323 TTTTC-TTTTTCTTTTT
1 TTTTCTTTTTTCTTTTT
38516339 TTTTCTTTTTTCTTTTT
1 TTTTCTTTTTTCTTTTT
38516356 T
1 T
38516357 CCCTTAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTCTTTTTTCTTTTT
Found at i:38522360 original size:5 final size:5
Alignment explanation
Indices: 38522352--38522378 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38522342 TTTGCCATCT
38522352 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
38522379 TTTAATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:38538349 original size:40 final size:40
Alignment explanation
Indices: 38538294--38538388 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
38538284 ACGTTAGCGT
38538294 GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
1 GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
* *
38538334 GATTTGCTGATGTGGACACAAATAGCGCCCTTTAGGACGC
1 GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
38538374 GATTTGCTGACGTGG
1 GATTTGCTGACGTGG
38538389 CATGAACAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
GATTTGCTGACGTGGACACAAATAGCGCCCTCTAGGACGC
Found at i:38542049 original size:75 final size:75
Alignment explanation
Indices: 38541923--38542078 Score: 285
Period size: 75 Copynumber: 2.1 Consensus size: 75
38541913 CCTTTAAGGG
*
38541923 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTGGAGGACCTTAGGCGCTCC
1 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
* *
38541988 CGATAAACTC
66 CAAGAAACTC
38541998 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
1 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
38542063 CAAGAAACTC
66 CAAGAAACTC
38542073 CATGAA
1 CATGAA
38542079 CCCCTTTGGG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.19
Consensus pattern (75 bp):
CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
CAAGAAACTC
Found at i:38544991 original size:40 final size:40
Alignment explanation
Indices: 38544901--38544992 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
38544891 AATTTATTTT
38544901 AAAA-ATTAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
1 AAAATATTAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
*
38544940 AAAATAATAAAAAAGTATTTTTAAAAAAA-TTAAAATTAA
1 AAAATATTAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
*
38544979 AACAATTTTAAAAA
1 AA-AATATTAAAAA
38544993 TAAATATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 16 0.33
40 32 0.67
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (40 bp):
AAAATATTAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
Found at i:38546226 original size:15 final size:16
Alignment explanation
Indices: 38546206--38546242 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38546196 ACAAAATCAA
38546206 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
38546221 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
38546237 ATAAAA
1 ATAAAA
38546243 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:38546451 original size:8 final size:8
Alignment explanation
Indices: 38546438--38546485 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
38546428 ACAATATTCA
38546438 TACAAAAT
1 TACAAAAT
38546446 TACAAAAT
1 TACAAAAT
*
38546454 TACAATATT
1 TACAA-AAT
38546463 CATACAAAAT
1 --TACAAAAT
38546473 TACAAAAT
1 TACAAAAT
38546481 TACAA
1 TACAA
38546486 TATTCATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 26 0.74
9 2 0.06
10 2 0.06
11 5 0.14
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (8 bp):
TACAAAAT
Found at i:38546460 original size:27 final size:27
Alignment explanation
Indices: 38546424--38546499 Score: 152
Period size: 27 Copynumber: 2.8 Consensus size: 27
38546414 ATTATAAAAT
38546424 AATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
38546451 AATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
38546478 AATTACAATATTCATACAAAAT
1 AATTACAATATTCATACAAAAT
38546500 ACTAATCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (27 bp):
AATTACAATATTCATACAAAATTACAA
Found at i:38546495 original size:115 final size:108
Alignment explanation
Indices: 38546369--38546701 Score: 469
Period size: 101 Copynumber: 3.1 Consensus size: 108
38546359 TAAACACAAT
38546369 AATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATA
1 AATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATA
38546434 TTCATACAAAATTACAAAATTACAATATTCATACAAAATTACAAAATTAC
66 TTCATACAAAATTA-AAAATTACAATATTCATAC---A--A-AAAATTAC
38546484 AATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATA
1 AATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATA
*
38546549 TTCAT-----A--AAAAATTACAATATTTATACAAAAAATTAC
66 TTCATACAAAATTAAAAATTACAATATTCATACAAAAAATTAC
*
38546585 ACTATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATA
1 AATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATA
*
38546650 TTCATACAAAATT----A-T--AATATTCATACAAAAAGTTAC
66 TTCATACAAAATTAAAAATTACAATATTCATACAAAAAATTAC
*
38546686 AATATACATACAAAAT
1 AATATTCATACAAAAT
38546702 TACCCATTGG
Statistics
Matches: 205, Mismatches: 6, Indels: 28
0.86 0.03 0.12
Matches are distributed among these distances:
101 110 0.54
102 1 0.00
103 1 0.00
104 2 0.01
106 1 0.00
107 18 0.09
108 1 0.00
110 1 0.00
115 70 0.34
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (108 bp):
AATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATA
TTCATACAAAATTAAAAATTACAATATTCATACAAAAAATTAC
Found at i:38546522 original size:54 final size:54
Alignment explanation
Indices: 38546424--38546528 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
38546414 ATTATAAAAT
* * **
38546424 AATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAAAATAAAAATATAAATACAAAATTACAA
*
38546478 AATTACAATATTCATACAAAA-TAC-TAATCAAAAACTATAAATACAAAATTA
1 AATTACAATATTCATACAAAATTACAAAAT-AAAAA-TATAAATACAAAATTA
38546529 ATTATAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
52 3 0.07
53 6 0.14
54 35 0.80
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (54 bp):
AATTACAATATTCATACAAAATTACAAAATAAAAATATAAATACAAAATTACAA
Found at i:38546563 original size:19 final size:19
Alignment explanation
Indices: 38546532--38546704 Score: 111
Period size: 19 Copynumber: 8.6 Consensus size: 19
38546522 AAAATTAATT
38546532 ATAAAATAATTACAATATTC
1 ATAAAA-AATTACAATATTC
*
38546552 ATAAAAAATTACAATATTT
1 ATAAAAAATTACAATATTC
*
38546571 ATACAAAAAATTACACTATTC
1 AT--AAAAAATTACAATATTC
* *
38546592 ATACAAAA-TAC--TAATC
1 ATAAAAAATTACAATATTC
* *
38546608 AAAAACTATAAATACAAAATTAATT-
1 ATAAA--A-AATTAC--AA-T-ATTC
38546633 ATAAAATAATTACAATATTC
1 ATAAAA-AATTACAATATTC
* *
38546653 ATACAAAATTATAATATTC
1 ATAAAAAATTACAATATTC
*
38546672 ATACAAAAAGTTACAATATAC
1 ATA-AAAAA-TTACAATATTC
*
38546693 ATACAAAATTAC
1 ATAAAAAATTAC
38546705 CCATTGGCGC
Statistics
Matches: 122, Mismatches: 16, Indels: 31
0.72 0.09 0.18
Matches are distributed among these distances:
16 7 0.06
18 4 0.03
19 43 0.35
20 23 0.19
21 31 0.25
23 7 0.06
25 5 0.04
26 2 0.02
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.31
Consensus pattern (19 bp):
ATAAAAAATTACAATATTC
Found at i:38546752 original size:27 final size:27
Alignment explanation
Indices: 38546709--38546781 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
38546699 AATTACCCAT
*
38546709 TGGCGCCTCCCTGTGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACTTTTAA
*
38546736 TGGCGCCTCCTTATGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACTTTTAA
*
38546763 TGGTGCCTCCCTATGAGGC
1 TGGCGCCTCCCTATGAGGC
38546782 GCCACCCGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.15, C:0.29, G:0.26, T:0.30
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACTTTTAA
Found at i:38548457 original size:20 final size:20
Alignment explanation
Indices: 38548434--38548481 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
38548424 AAAAAAATTT
*
38548434 TAAAAATATATATAAAAACA
1 TAAAAATATATAAAAAAACA
* * *
38548454 TAAATATTTATAAAAAAATA
1 TAAAAATATATAAAAAAACA
*
38548474 TAATAATA
1 TAAAAATA
38548482 AATTTAAATT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAATATATAAAAAAACA
Found at i:38548474 original size:32 final size:31
Alignment explanation
Indices: 38548435--38548513 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
38548425 AAAAAATTTT
38548435 AAAAATATATATAAAAACATAAATATTTATAA
1 AAAAATATATATAAAAACATAAAT-TTTATAA
** *
38548467 AAAAATATA-ATAATAAATTTAAATTTTATAT
1 AAAAATATATATAA-AAACATAAATTTTATAA
* *
38548498 TAATAT-TATATAAAAA
1 AAAAATATATATAAAAA
38548514 AAATCCCCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 5 0.12
31 18 0.45
32 17 0.43
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (31 bp):
AAAAATATATATAAAAACATAAATTTTATAA
Found at i:38549850 original size:9 final size:9
Alignment explanation
Indices: 38549826--38549859 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
38549816 GTTTTCAAAC
*
38549826 TCGAATAAC
1 TCGAATAAT
*
38549835 TCAAATAAT
1 TCGAATAAT
38549844 TCGAATAAT
1 TCGAATAAT
38549853 TCGAATA
1 TCGAATA
38549860 TCAAACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (9 bp):
TCGAATAAT
Found at i:38549980 original size:30 final size:30
Alignment explanation
Indices: 38549918--38549980 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
38549908 ACTTTTCCCT
* *
38549918 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCCTCCCACTTCCCCCC
38549948 CAAAACTTTTACTCTCCTCCC-C-TCCCCTCC
1 CAAAACTTTTACTC-CCTCCCACTTCCCC-CC
38549978 CAA
1 CAA
38549981 CCCCCCAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.14
30 20 0.69
31 5 0.17
ACGTcount: A:0.21, C:0.49, G:0.00, T:0.30
Consensus pattern (30 bp):
CAAAACTTTTACTCCCTCCCACTTCCCCCC
Found at i:38555288 original size:18 final size:18
Alignment explanation
Indices: 38555265--38555301 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
38555255 TTTTTTTTAG
38555265 CTTTGTTGATGTTATATA
1 CTTTGTTGATGTTATATA
38555283 CTTTGTTGATGTTATATA
1 CTTTGTTGATGTTATATA
38555301 C
1 C
38555302 ATGTGGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (18 bp):
CTTTGTTGATGTTATATA
Found at i:38556404 original size:12 final size:12
Alignment explanation
Indices: 38556370--38556404 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
38556360 CGGATAGTAT
38556370 TAATTTTTTATA
1 TAATTTTTTATA
*
38556382 TTATTTGTTTATA
1 TAATTT-TTTATA
38556395 TAATTTTTTA
1 TAATTTTTTA
38556405 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:38556439 original size:18 final size:20
Alignment explanation
Indices: 38556404--38556444 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
38556394 ATAATTTTTT
*
38556404 AAAATATATATAATACATTA
1 AAAATATATATAAAACATTA
38556424 AAAATAT-TA-AAAACATTA
1 AAAATATATATAAAACATTA
38556442 AAA
1 AAA
38556445 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATATATATAAAACATTA
Found at i:38556666 original size:11 final size:11
Alignment explanation
Indices: 38556650--38556680 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
38556640 ACAGAACAAT
38556650 AAAAAATAGTA
1 AAAAAATAGTA
38556661 AAAAAA-AGTA
1 AAAAAATAGTA
38556671 AAAAAATAGT
1 AAAAAATAGT
38556681 TTTTTTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (11 bp):
AAAAAATAGTA
Found at i:38559837 original size:16 final size:18
Alignment explanation
Indices: 38559802--38559840 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
38559792 TCTGTTACTG
38559802 CTTGTTACTTGATACTCT
1 CTTGTTACTTGATACTCT
*
38559820 CTTGTTAC-TG-TTCTCT
1 CTTGTTACTTGATACTCT
38559836 CTTGT
1 CTTGT
38559841 ATAATCTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.10, C:0.23, G:0.13, T:0.54
Consensus pattern (18 bp):
CTTGTTACTTGATACTCT
Found at i:38560248 original size:24 final size:24
Alignment explanation
Indices: 38560221--38560266 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38560211 ATTTGGGAAT
38560221 GGTGGAGGATATGGCGACGGTGAC
1 GGTGGAGGATATGGCGACGGTGAC
* *
38560245 GGTGGTGGATATGGCGGCGGTG
1 GGTGGAGGATATGGCGACGGTG
38560267 GAGGATATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.54, T:0.20
Consensus pattern (24 bp):
GGTGGAGGATATGGCGACGGTGAC
Found at i:38560267 original size:18 final size:18
Alignment explanation
Indices: 38560244--38560303 Score: 111
Period size: 18 Copynumber: 3.3 Consensus size: 18
38560234 GCGACGGTGA
38560244 CGGTGGTGGATATGGCGG
1 CGGTGGTGGATATGGCGG
*
38560262 CGGTGGAGGATATGGCGG
1 CGGTGGTGGATATGGCGG
38560280 CGGTGGTGGATATGGCGG
1 CGGTGGTGGATATGGCGG
38560298 CGGTGG
1 CGGTGG
38560304 CGGTGGTGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.12, C:0.12, G:0.57, T:0.20
Consensus pattern (18 bp):
CGGTGGTGGATATGGCGG
Found at i:38568598 original size:20 final size:20
Alignment explanation
Indices: 38568573--38568626 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
38568563 AATATGTACG
38568573 TATATATATTATAAAATATA
1 TATATATATTATAAAATATA
* *
38568593 TATATAAATTATAAAGTATA
1 TATATATATTATAAAATATA
38568613 -ATATATATATATAA
1 TATATATAT-TATAA
38568627 GTAGGCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TATATATATTATAAAATATA
Found at i:38568637 original size:45 final size:45
Alignment explanation
Indices: 38568497--38568639 Score: 114
Period size: 45 Copynumber: 3.1 Consensus size: 45
38568487 ATACATGTAG
* * * *
38568497 ATATATATAAGTTATAAAATATAA-AAATATGTATAAGTATGTGTAT
1 ATATATATAAATTATAAAATATAATATATATATATAAGTA-G-GAAT
* * *
38568543 ATATATAAGTAAATTATGAAAATAT-GTACGTATATATATTA-TA-AAAT
1 ATATAT-A-TAAATTAT-AAAATATAATA--TATATATATAAGTAGGAAT
* *
38568590 ATATATATAAATTATAAAGTATAATATATATATATAAGTAGGCAT
1 ATATATATAAATTATAAAATATAATATATATATATAAGTAGGAAT
38568635 ATATA
1 ATATA
38568640 ACAAAATCTA
Statistics
Matches: 76, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
43 10 0.13
44 8 0.11
45 17 0.22
46 7 0.09
47 9 0.12
48 7 0.09
49 8 0.11
50 2 0.03
51 8 0.11
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (45 bp):
ATATATATAAATTATAAAATATAATATATATATATAAGTAGGAAT
Found at i:38568683 original size:3 final size:3
Alignment explanation
Indices: 38568669--38568746 Score: 68
Period size: 3 Copynumber: 24.7 Consensus size: 3
38568659 TAAATGGGTA
* *
38568669 AAT AAA AAT AAT AAT AAGGT AAGT AAT AAT AAT AA- ATAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT A-AT AAT AAT AAT
* *
38568717 GAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
38568747 AAGATGATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 1 0.02
3 51 0.81
4 8 0.13
5 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:38568723 original size:39 final size:34
Alignment explanation
Indices: 38568669--38568789 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 34
38568659 TAAATGGGTA
*
38568669 AATAAAAATAATAATAAGGTAAGTAATAATAATAAAT
1 AATAAAAATGATAATAA--TAA-TAATAATAATAAAT
* *
38568706 ACAATAATAATGATAATAATAATAGTAATAATAAAT
1 --AATAAAAATGATAATAATAATAATAATAATAAAT
*
38568742 AATAAAAGATGATAATACATTAA-AATAATGAAGAAAAT
1 AATAAAA-ATGATAATA-A-TAATAATAAT-AA-TAAAT
38568780 AATAAAAATG
1 AATAAAAATG
38568790 CTAAAAAGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
34 6 0.08
35 9 0.13
36 19 0.27
37 11 0.15
38 11 0.15
39 15 0.21
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (34 bp):
AATAAAAATGATAATAATAATAATAATAATAAAT
Found at i:38570085 original size:21 final size:19
Alignment explanation
Indices: 38570060--38570099 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
38570050 CCGGCCCGAT
38570060 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
38570081 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
38570100 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:38570145 original size:13 final size:13
Alignment explanation
Indices: 38570123--38570152 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
38570113 TAAAGTATTT
*
38570123 TAAAATTAAAAAA
1 TAAAAATAAAAAA
38570136 TAAAAATAAAAAA
1 TAAAAATAAAAAA
38570149 TAAA
1 TAAA
38570153 TATTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:38570885 original size:89 final size:93
Alignment explanation
Indices: 38570770--38570989 Score: 279
Period size: 94 Copynumber: 2.4 Consensus size: 93
38570760 GTAAATTTTT
* *
38570770 AAATAATTA-TTAATATTTTTGCATATTTTCTA-ATTTTTTATAGTTTTGCA-CT-TGT-TTAGA
1 AAAT-ATTATTTAATATTTTTGTATATTTTCTATATTTTTTATAGTTTTACACCTATGTATTAGA
* *
38570830 ATGAAATGGACAAATGTATATCCAGATTC
65 ATGAAATGAACAAATGTATATCCAGATCC
* * * *
38570859 AAATATTATTTAATATTTTTTTATATTTTCTATTTTTTTTATATTTTTACACCTATTTAATTAGA
1 AAATATTATTTAATATTTTTGTATATTTTCTATATTTTTTATAGTTTTACACCTATGT-ATTAGA
* *
38570924 ATGAAATGAAGAAATGTGTATCCAGATCC
65 ATGAAATGAACAAATGTATATCCAGATCC
* *
38570953 AAATATTATTTAATATTTTTGTATGTTTTTTATATTT
1 AAATATTATTTAATATTTTTGTATATTTTCTATATTT
38570990 ATTTTTTGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
88 4 0.04
89 25 0.23
90 15 0.14
91 2 0.02
92 2 0.02
94 63 0.57
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (93 bp):
AAATATTATTTAATATTTTTGTATATTTTCTATATTTTTTATAGTTTTACACCTATGTATTAGAA
TGAAATGAACAAATGTATATCCAGATCC
Found at i:38570886 original size:10 final size:10
Alignment explanation
Indices: 38570861--38570906 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
38570851 CCAGATTCAA
* *
38570861 ATATTATTTA
1 ATATTTTTTT
38570871 ATATTTTTTT
1 ATATTTTTTT
*
38570881 ATA-TTTTCT
1 ATATTTTTTT
38570890 AT-TTTTTTT
1 ATATTTTTTT
38570899 ATATTTTT
1 ATATTTTT
38570907 ACACCTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:38571017 original size:94 final size:93
Alignment explanation
Indices: 38570770--38571029 Score: 264
Period size: 94 Copynumber: 2.8 Consensus size: 93
38570760 GTAAATTTTT
* * *
38570770 AAATAATTA-TTAATATTTTTGCATATTTTCTA----ATTTTTTATAGTTTTGCACTTGTTTAGA
1 AAAT-ATTATTTAATATTTTTGTATATTTTCTATTTTATTTTTTATAGTTCTGTACTTGTTTAGA
* *
38570830 ATGAAATGGACAAATGTATATCCAGATTC
65 ATGAAATGAACAAATGTATATCCAGATCC
* * ** ** * **
38570859 AAATATTATTTAATATTTTTTTATATTTTCTATTTT-TTTTATATTTTTACACCTATTTAATTAG
1 AAATATTATTTAATATTTTTGTATATTTTCTATTTTATTTTTTATAGTT-C-TGTACTTGTTTAG
* *
38570923 AATGAAATGAAGAAATGTGTATCCAGATCC
64 AATGAAATGAACAAATGTATATCCAGATCC
* * *
38570953 AAATATTATTTAATATTTTTGTATGTTTTTTATATTTATTTTTTGTAGTTCTGTACTTGTTTAG-
1 AAATATTATTTAATATTTTTGTATATTTTCTAT-TTTATTTTTTATAGTTCTGTACTTGTTTAGA
38571017 ATGAAATGAACAA
65 ATGAAATGAACAA
38571030 CCATTCATTC
Statistics
Matches: 133, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
88 4 0.03
89 25 0.19
92 9 0.07
93 12 0.09
94 71 0.53
95 4 0.03
96 8 0.06
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (93 bp):
AAATATTATTTAATATTTTTGTATATTTTCTATTTTATTTTTTATAGTTCTGTACTTGTTTAGAA
TGAAATGAACAAATGTATATCCAGATCC
Found at i:38572009 original size:4 final size:4
Alignment explanation
Indices: 38572000--38572036 Score: 65
Period size: 4 Copynumber: 9.0 Consensus size: 4
38571990 CATTTCGCGC
38572000 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTATA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA-A TTAA
38572037 ATTGAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:38586551 original size:1 final size:1
Alignment explanation
Indices: 38586545--38586579 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
38586535 TGCCTAATCC
38586545 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
38586580 GGGGGAGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:38587632 original size:45 final size:45
Alignment explanation
Indices: 38587481--38588071 Score: 601
Period size: 45 Copynumber: 13.3 Consensus size: 45
38587471 GATTGAAGTC
* *** * *
38587481 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * * * *
38587525 AAGATAGCTA-ATCCTATCTTCCTATATTGGTAG-GAAATGGATCG
1 AAGAGAGC-AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
38587569 AAGAG-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
38587613 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
38587658 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
38587703 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
38587748 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*** ***
38587793 AAGAGAGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCG
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * * *
38587837 AAGATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCG
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* *
38587881 AAAATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* ** *** * *
38587925 CAG-GAAGTGGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGAG-AGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * * * * * * *
38587969 AAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAATGGATCC
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * *
38588013 AAGATA-CAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
38588057 AAGAAAGCAGATCTT
1 AAGAGAGCAGATCTT
38588072 ATCCCTGTAT
Statistics
Matches: 460, Mismatches: 74, Indels: 25
0.82 0.13 0.04
Matches are distributed among these distances:
42 1 0.00
43 61 0.13
44 170 0.37
45 228 0.50
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
Found at i:38587938 original size:132 final size:134
Alignment explanation
Indices: 38587481--38588071 Score: 644
Period size: 132 Copynumber: 4.4 Consensus size: 134
38587471 GATTGAAGTC
* *** * * * * *
38587481 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCTA-ATCCTATCT
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGC-AGATCTTGTCT
* * * * * * * *
38587544 TCCTATATTGGTAG-GAAATGGATCGAAGA-GGCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
65 TCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCCATATTGGTAGCGAAGT
38587607 AGATCA
129 AGATCA
*
38587613 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAGAGCAGATCTTGTCTT
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTT
*** * * * * * *
38587678 CCCATATTGGTGGCGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
66 CATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCCATATTGGTAGCGAAGTA
38587743 GATCA
130 GATCA
38587748 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTT
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTT
* * * *
38587813 CATGTATTGGCATGAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGG
66 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCCATATTGGTAGCGAAGTAG
38587877 ATCGA
131 ATC-A
* * **
38587882 AA-ATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAG-GAAGTGGATCTTGTCT
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAG-AGCAGATCTTGTCT
* * * * * *
38587944 TCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAATG
65 TCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCCATATTGGTAGCGAAGTA
*
38588008 GATCC
130 GATCA
* * * * *
38588013 AAGATA-CAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTT
1 AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTT
38588072 ATCCCTGTAT
Statistics
Matches: 403, Mismatches: 48, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
131 3 0.01
132 189 0.47
133 48 0.12
134 53 0.13
135 110 0.27
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (134 bp):
AAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTT
CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCCATATTGGTAGCGAAGTAG
ATCA
Found at i:38588122 original size:132 final size:132
Alignment explanation
Indices: 38587623--38588128 Score: 527
Period size: 132 Copynumber: 3.8 Consensus size: 132
38587613 AAGAGAGCAG
* * ***
38587623 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATATTGG
1 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGG
** * * * * * * * * *
38587688 TGGCGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGAT-CAAAGA
65 CAGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGATAG-GAAATGGATCCAAA-A
* *
38587752 GAGCAG
128 TA-CAA
*
38587758 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGG
1 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGG
* * * *
38587823 CA-TGAAGTAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATA
65 CAGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGATAGGAAATGGATCCAAAATA
*
38587887 CAG
130 CAA
* * **
38587890 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGGAAGTGGATCTTGTCTTCATGTATTGG
1 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGG
* * *
38587955 C-GTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAATGGATCCAAGATA
65 CAGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGATAGGAAATGGATCCAAAATA
38588019 CAA
130 CAA
* * * * *
38588022 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC-CCTGTATTTGA
1 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTCATGTA-TTGG
* * * * * *
38588086 CAGTGGAA-TAGATTGAGGATTGCAGATCTTGCCTTCCTGTATT
65 CAGT-GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
38588129 TGGCAACGAA
Statistics
Matches: 320, Mismatches: 46, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
130 5 0.02
131 4 0.01
132 196 0.61
133 13 0.04
134 41 0.13
135 61 0.19
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTCATGTATTGGC
AGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGATAGGAAATGGATCCAAAATAC
AA
Found at i:38592878 original size:16 final size:16
Alignment explanation
Indices: 38592847--38592877 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38592837 TTTTTCTATA
38592847 ATTTTTATGGATTTTT
1 ATTTTTATGGATTTTT
38592863 ATTTTTAT-GATTTTT
1 ATTTTTATGGATTTTT
38592878 TGCCACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (16 bp):
ATTTTTATGGATTTTT
Found at i:38593015 original size:20 final size:20
Alignment explanation
Indices: 38592982--38593036 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
38592972 TTAAAGGGTC
*
38592982 TTTTTGATGCATTTTATA-AAT
1 TTTTTTATG-ATTTT-TACAAT
38593003 TTTTTTATGATTTTTACAAT
1 TTTTTTATGATTTTTACAAT
*
38593023 TTTTATAT-ATTTTT
1 TTTTTTATGATTTTT
38593037 TTCTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.26
20 15 0.48
21 8 0.26
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTTATGATTTTTACAAT
Found at i:38593016 original size:9 final size:9
Alignment explanation
Indices: 38593004--38593109 Score: 65
Period size: 9 Copynumber: 11.6 Consensus size: 9
38592994 TTTATAAATT
*
38593004 TTTTTATGA
1 TTTTTATAA
*
38593013 TTTTTACAA
1 TTTTTATAA
38593022 TTTTTATATA
1 TTTTTATA-A
*
38593032 TTTTTTTCTAA
1 --TTTTTATAA
*
38593043 TTTTTAATAT
1 TTTTT-ATAA
38593053 TTTTTA-AA
1 TTTTTATAA
* *
38593061 GTTTAATAA
1 TTTTTATAA
*
38593070 TTTTTATAG
1 TTTTTATAA
* *
38593079 CTTTTATTGA
1 TTTTTA-TAA
38593089 TTTTTAT--
1 TTTTTATAA
38593096 TTTTTATAA
1 TTTTTATAA
38593105 TTTTT
1 TTTTT
38593110 TATCATATGT
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
7 7 0.10
8 5 0.07
9 39 0.53
10 14 0.19
11 1 0.01
12 7 0.10
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:38593027 original size:30 final size:30
Alignment explanation
Indices: 38592993--38593060 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
38592983 TTTTGATGCA
*
38592993 TTTTATAAATTTTTTTATGATTTTTACA-AT
1 TTTTATAAATTTTTTTATAATTTTTA-ATAT
* *
38593023 TTTTATATATTTTTTTCTAATTTTTAATAT
1 TTTTATAAATTTTTTTATAATTTTTAATAT
38593053 TTTT-TAAA
1 TTTTATAAA
38593061 GTTTAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTTATAAATTTTTTTATAATTTTTAATAT
Found at i:38593037 original size:20 final size:21
Alignment explanation
Indices: 38593000--38593058 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
38592990 GCATTTTATA
*
38593000 AATTTTTTTATGA-TTTTTAC-
1 AATTTTTATAT-ATTTTTTACT
*
38593020 AATTTTTATATATTTTTTTCT
1 AATTTTTATATATTTTTTACT
38593041 AATTTTTA-ATATTTTTTA
1 AATTTTTATATATTTTTTA
38593059 AAGTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.03
20 25 0.74
21 8 0.24
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (21 bp):
AATTTTTATATATTTTTTACT
Found at i:38594745 original size:26 final size:26
Alignment explanation
Indices: 38594716--38594767 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
38594706 TATAAATAGT
* *
38594716 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAAGATAAATAATATTTA
*
38594742 ATTATCATTAAGATAAATAATATTTA
1 ATTATCATAAAGATAAATAATATTTA
38594768 TCTTAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATCATAAAGATAAATAATATTTA
Found at i:38594940 original size:8 final size:8
Alignment explanation
Indices: 38594929--38594955 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
38594919 TTAAATATAT
38594929 AAATTCTA
1 AAATTCTA
38594937 AAATTCTA
1 AAATTCTA
38594945 AAATTCTA
1 AAATTCTA
38594953 AAA
1 AAA
38594956 AAAATCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATTCTA
Found at i:38606198 original size:21 final size:20
Alignment explanation
Indices: 38606172--38606232 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
38606162 TATGAATTAT
*
38606172 ATATGTATATGTATTTACAAA
1 ATATGTATATGTATATA-AAA
*
38606193 ATATGTATATATATATAAAA
1 ATATGTATATGTATATAAAA
* *
38606213 GTATGATATATGTAAATAAA
1 ATATG-TATATGTATATAAA
38606233 TTATGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
ATATGTATATGTATATAAAA
Found at i:38606223 original size:27 final size:27
Alignment explanation
Indices: 38606193--38606258 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
38606183 TATTTACAAA
38606193 ATATGTATATATA-TAT-AAAAGTATGAT
1 ATATGTATATATATTATGAAAA-TATG-T
* *
38606220 ATATGTAAATAAATTATGAAAATATGT
1 ATATGTATATATATTATGAAAATATGT
38606247 ATATGTATATAT
1 ATATGTATATAT
38606259 TAAAATACGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 22 0.67
28 7 0.21
29 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (27 bp):
ATATGTATATATATTATGAAAATATGT
Found at i:38608133 original size:44 final size:44
Alignment explanation
Indices: 38608085--38608185 Score: 166
Period size: 44 Copynumber: 2.3 Consensus size: 44
38608075 TTTCATTGCC
*
38608085 ACTTCAGGGAAATCAGATTGGTTTATTCAGTCTGCTCCACTGCA
1 ACTTCAGGGAAATCAGATTCGTTTATTCAGTCTGCTCCACTGCA
* * *
38608129 ACTTCAGAGAAATCAGATTCGTTTATTTAGTCTGCTCCATTGCA
1 ACTTCAGGGAAATCAGATTCGTTTATTCAGTCTGCTCCACTGCA
38608173 ACTTCAGGGAAAT
1 ACTTCAGGGAAAT
38608186 ATGACTAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTTCAGGGAAATCAGATTCGTTTATTCAGTCTGCTCCACTGCA
Found at i:38608283 original size:45 final size:45
Alignment explanation
Indices: 38608209--38608692 Score: 531
Period size: 45 Copynumber: 10.8 Consensus size: 45
38608199 ATATGCTCTT
*
38608209 TGCAACTTCAGAGAGATAAGACTTT-CTATCTTCAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTTGCTATCTTCAATCCACTCCAC
* * * *
38608254 TGCAACCTCAGGGAGATAGGATTTGCTATCTTC-AGCCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCC-ACTCCAC
* * * ** **
38608299 TGCAACTTCAAGGAGATAAGACTTGCTATCTTCAGTCTGCTCTGC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
* * *
38608344 TGTAACTTCAGGAAGATAAGACTTGCTATCTTCAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
* * * ** **
38608389 TGCAACTTTAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCTGC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
** *
38608434 TATAACTTCAGGGAGATAAGACTTGCTATCTTCAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
* * ** *
38608479 TGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
* * *
38608524 TGCAACTTCAGGGAGATAAAACTTGTTATCTTCAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
* * * * ** *
38608569 TGTAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
*
38608614 TGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
* * * *
38608659 TGCAACCTCAGGAAGATAGGATTTGCTATTTTCA
1 TGCAACTTCAGGGAGATAAGATTTGCTATCTTCA
38608693 CCAATCTGTT
Statistics
Matches: 355, Mismatches: 81, Indels: 6
0.80 0.18 0.01
Matches are distributed among these distances:
44 6 0.02
45 348 0.98
46 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCCACTCCAC
Found at i:38608318 original size:90 final size:90
Alignment explanation
Indices: 38608209--38608692 Score: 670
Period size: 90 Copynumber: 5.4 Consensus size: 90
38608199 ATATGCTCTT
* * ** * *
38608209 TGCAACTTC-AGAGAGATAAGACTTT-CTATCTTCAATCCACTCCACTGCAACCTCAGGGAGATA
1 TGCAACTTCAAG-GAGATAGGA-TTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATA
* * * *
38608272 GGATTTGCTATCTTC-AGCCTGCTCCAC
64 AGACTTGCTATCTTCAATCC-ACTCCAC
* * * * *
38608299 TGCAACTTCAAGGAGATAAGACTTGCTATCTTCAGTCTGCTCTGCTGTAACTTCAGGAAGATAAG
1 TGCAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
38608364 ACTTGCTATCTTCAATCCACTCCAC
66 ACTTGCTATCTTCAATCCACTCCAC
* * * **
38608389 TGCAACTTTAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCTGCTATAACTTCAGGGAGATAAG
1 TGCAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
38608454 ACTTGCTATCTTCAATCCACTCCAC
66 ACTTGCTATCTTCAATCCACTCCAC
* *
38608479 TGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAA
1 TGCAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
*
38608544 ACTTGTTATCTTCAATCCACTCCAC
66 ACTTGCTATCTTCAATCCACTCCAC
*
38608569 TGTAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
1 TGCAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
38608634 ACTTGCTATCTTCAATCCACTCCAC
66 ACTTGCTATCTTCAATCCACTCCAC
* *
38608659 TGCAACCTC-AGGAAGATAGGATTTGCTATTTTCA
1 TGCAACTTCAAGG-AGATAGGATTTGCTATCTTCA
38608693 CCAATCTGTT
Statistics
Matches: 358, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
89 5 0.01
90 348 0.97
91 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (90 bp):
TGCAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
ACTTGCTATCTTCAATCCACTCCAC
Found at i:38608373 original size:135 final size:135
Alignment explanation
Indices: 38608209--38608692 Score: 630
Period size: 135 Copynumber: 3.6 Consensus size: 135
38608199 ATATGCTCTT
*
38608209 TGCAACTTCA-GAGAGATAAGACTTTCTATCTTCAATCCACTCCACTGCAACCTCAGGGAGATAG
1 TGCAACTTCAGGA-AGATAAGACTTGCTATCTTCAATCCACTCCACTGCAACCTCAGGGAGATAG
*
38608273 GATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCTATCTTCAGTCTG
65 GATTTGCTATCTTCAGCCTGCTCCACTGTAACTTCAAGGAGATAAGACTTGCTATCTTCAGTCTG
*
38608338 CTCTGC
130 CTCCGC
* * *
38608344 TGTAACTTCAGGAAGATAAGACTTGCTATCTTCAATCCACTCCACTGCAACTTTAGGGAGATAGG
1 TGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCCACTCCACTGCAACCTCAGGGAGATAGG
* ** * * * **
38608409 ATTTGCTATCTTCAGTCTGCTCTGCTATAACTTCAGGGAGATAAGACTTGCTATCTTCAATCCAC
66 ATTTGCTATCTTCAGCCTGCTCCACTGTAACTTCAAGGAGATAAGACTTGCTATCTTCAGTCTGC
*
38608474 TCCAC
131 TCCGC
* * * * ** * * **
38608479 TGCAACTTCAGGGAGATAGGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAA
1 TGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCCACTCCACTGCAACCTCAGGGAGATAGG
* * * * * *
38608544 ACTTGTTATCTTCAATCC-ACTCCACTGTAACTTCAAGGAGATAGGATTTGCTATCTTCAGTCTG
66 ATTTGCTATCTTC-AGCCTGCTCCACTGTAACTTCAAGGAGATAAGACTTGCTATCTTCAGTCTG
38608608 CTCCGC
130 CTCCGC
* *
38608614 TGCAACTTCAGGGAGATAAGACTTGCTATCTTCAATCCACTCCACTGCAACCTCAGGAAGATAGG
1 TGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCCACTCCACTGCAACCTCAGGGAGATAGG
*
38608679 ATTTGCTATTTTCA
66 ATTTGCTATCTTCA
38608693 CCAATCTGTT
Statistics
Matches: 293, Mismatches: 54, Indels: 5
0.83 0.15 0.01
Matches are distributed among these distances:
134 1 0.00
135 288 0.98
136 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (135 bp):
TGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCCACTCCACTGCAACCTCAGGGAGATAGG
ATTTGCTATCTTCAGCCTGCTCCACTGTAACTTCAAGGAGATAAGACTTGCTATCTTCAGTCTGC
TCCGC
Found at i:38614305 original size:47 final size:46
Alignment explanation
Indices: 38614236--38614334 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 46
38614226 ACACTAACTT
*
38614236 CAAATTTCGATGAAGTGATGAAGGCTTGA-TATCCAAGGTCTCCCCAA
1 CAAATTTCGATGAAGTGATGAAGGC-CGAGTATCC-AGGTCTCCCCAA
*
38614283 CAAATTTCGATGCAGTGATGAAGGCCGAGTGTATCCAGGTCTCCCCAA
1 CAAATTTCGATGAAGTGATGAAGGCCGA--GTATCCAGGTCTCCCCAA
38614331 CAAA
1 CAAA
38614335 CAGTTATAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
46 2 0.04
47 24 0.51
48 16 0.34
49 5 0.11
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (46 bp):
CAAATTTCGATGAAGTGATGAAGGCCGAGTATCCAGGTCTCCCCAA
Found at i:38618790 original size:103 final size:103
Alignment explanation
Indices: 38618663--38618868 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
38618653 GAGGGCCAAA
*
38618663 GTAGAATTTTTCTAATATTAATTAGCTGAAAATTTTGTTGACTTAGTGGGGGAGATTATTTTGGG
1 GTAGAATTTTTCCAATATTAATTAGCTGAAAATTTTGTTGACTTAGTGGGGGAGATTATTTTGGG
38618728 ATATTTTTTGTCATGGAATATTTATATATTTATATTTT
66 ATATTTTTTGTCATGGAATATTTATATATTTATATTTT
38618766 GTAGAATTTTTCCAATATTAATTAGCTGAAAATTTTGTTGACTTAGTGGGGGAGATTATTTTGGG
1 GTAGAATTTTTCCAATATTAATTAGCTGAAAATTTTGTTGACTTAGTGGGGGAGATTATTTTGGG
* *
38618831 ATATTTTTTGTCATGGAATATTTATATTTTTATTTTTT
66 ATATTTTTTGTCATGGAATATTTATATATTTATATTTT
38618869 CTTGATTTTC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.50
Consensus pattern (103 bp):
GTAGAATTTTTCCAATATTAATTAGCTGAAAATTTTGTTGACTTAGTGGGGGAGATTATTTTGGG
ATATTTTTTGTCATGGAATATTTATATATTTATATTTT
Found at i:38620983 original size:17 final size:16
Alignment explanation
Indices: 38620946--38620998 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
38620936 ACATTCTAGA
38620946 AAATTTATAATAAATTTT
1 AAATTTATAA-AAA-TTT
*
38620964 AAATTTTTAAAAATTAT
1 AAATTTATAAAAATT-T
*
38620981 AAA-TTCTAAAAATTT
1 AAATTTATAAAAATTT
38620996 AAA
1 AAA
38620999 ATAATAGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.12
16 12 0.38
17 7 0.22
18 9 0.28
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTTATAAAAATTT
Found at i:38621022 original size:45 final size:45
Alignment explanation
Indices: 38620920--38621022 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
38620910 TAAATTCCAG
* * ** *
38620920 AAAATTTCAAAAA-TATACATTCTAGAAAATTTATAATAAATTTT
1 AAAATTTCAAAAATTATAAATTCTAGAAAATTTAAAATAAAGATC
* *
38620964 AAATTTTTAAAAATTATAAATTCTA-AAAATTTAAAATAATAGATC
1 AAAATTTCAAAAATTATAAATTCTAGAAAATTTAAAATAA-AGATC
38621009 AAAATTTCAAAAAT
1 AAAATTTCAAAAAT
38621023 AGAAAAATGT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 24 0.50
45 24 0.50
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (45 bp):
AAAATTTCAAAAATTATAAATTCTAGAAAATTTAAAATAAAGATC
Found at i:38624208 original size:14 final size:15
Alignment explanation
Indices: 38624176--38624205 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38624166 AGGATTTTAT
38624176 AGACGATTCATAAAA
1 AGACGATTCATAAAA
38624191 AGACGATTCATAAAA
1 AGACGATTCATAAAA
38624206 GACTTCTCGA
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:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
AGACGATTCATAAAA
Found at i:38630245 original size:17 final size:17
Alignment explanation
Indices: 38630204--38630252 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
38630194 TTATATATGT
*
38630204 ATATGTAT-T-TACAAA
1 ATATGTATATATATAAA
38630219 ATATGTATATATATAAA
1 ATATGTATATATATAAA
*
38630236 AGTATG-ATATATGTAAA
1 A-TATGTATATATATAAA
38630253 TAAATTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 16 0.55
18 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (17 bp):
ATATGTATATATATAAA
Found at i:38630247 original size:25 final size:23
Alignment explanation
Indices: 38630219--38630294 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 23
38630209 TATTTACAAA
38630219 ATATGTATATATATAAAAGTATGAT
1 ATATGTATATATATAAAA-TATG-T
*
38630244 ATATGTAAATAAATTATGAAAATATGT
1 ATATGT--ATATA-TAT-AAAATATGT
*
38630271 ATATGTATATAT-TAAAATACGT
1 ATATGTATATATATAAAATATGT
38630293 AT
1 AT
38630295 GTAAATATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
22 10 0.23
23 1 0.02
24 1 0.02
25 10 0.23
27 11 0.25
28 7 0.16
29 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.39
Consensus pattern (23 bp):
ATATGTATATATATAAAATATGT
Found at i:38632959 original size:16 final size:16
Alignment explanation
Indices: 38632938--38633006 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
38632928 TTTGGTTCGC
38632938 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
38632954 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
38632970 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
38632987 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
38633003 TGTA
1 TGTA
38633007 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:38632984 original size:33 final size:32
Alignment explanation
Indices: 38632938--38633006 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
38632928 TTTGGTTCGC
38632938 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
38632970 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
38633003 TGTA
1 TGTA
38633007 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:38633071 original size:44 final size:45
Alignment explanation
Indices: 38632987--38633077 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
38632977 GGATTAGAGG
* * *
38632987 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
38633032 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
38633076 TG
1 TG
38633078 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:38633263 original size:18 final size:19
Alignment explanation
Indices: 38633242--38633278 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
38633232 TTATTATTAA
38633242 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
38633260 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
38633279 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:38633386 original size:59 final size:58
Alignment explanation
Indices: 38633320--38633505 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
38633310 CTCAAATCAT
* *
38633320 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
38633379 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
38633439 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
38633499 AATATAT
1 AATATAT
38633506 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:38633443 original size:120 final size:120
Alignment explanation
Indices: 38633222--38633511 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
38633212 TTAATCATAT
38633222 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
38633287 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
38633344 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
38633408 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
38633464 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
38633512 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:38636574 original size:18 final size:18
Alignment explanation
Indices: 38636551--38636585 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38636541 GTTTCAGACG
38636551 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
38636569 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
38636586 GACGGCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:38652343 original size:13 final size:12
Alignment explanation
Indices: 38652319--38652351 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
38652309 GAAGTGAAAG
38652319 AATAAT-AAATA
1 AATAATAAAATA
38652330 AATATATAAAATA
1 AATA-ATAAAATA
38652343 AATAATAAA
1 AATAATAAA
38652352 TAACATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 7 0.35
13 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:38653516 original size:19 final size:18
Alignment explanation
Indices: 38653492--38653534 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
38653482 AAATCTTTGA
38653492 TTTTTTTTTGTATTCAAT
1 TTTTTTTTTGTATTCAAT
*
38653510 CTTTTTTTTTGTATTCGAT
1 -TTTTTTTTTGTATTCAAT
38653529 TTTTTT
1 TTTTTT
38653535 CTCAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTGTATTCAAT
Found at i:38655229 original size:16 final size:17
Alignment explanation
Indices: 38655217--38655284 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 17
38655207 ATAAAAATGG
38655217 TAAAAATTTAAAATGTA
1 TAAAAATTTAAAATGTA
* *
38655234 TAAAAATTTTATAATATTTG
1 TAAAAA-TTTA-AA-ATGTA
38655254 TAAAAATTATAAGAATGATA
1 TAAAAATT-TAA-AATG-TA
38655274 TAATAAATTTA
1 TAA-AAATTTA
38655285 TTTGAAATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.15
18 4 0.10
19 7 0.17
20 18 0.45
21 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (17 bp):
TAAAAATTTAAAATGTA
Found at i:38660171 original size:40 final size:40
Alignment explanation
Indices: 38660114--38660278 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
38660104 TTGGGTGGAA
* * *
38660114 AAATGAATATTTGAAATGGTTATATGAATTTATTATATGG
1 AAATAAATATATGAAATGGTTATATGAATTGATTATATGG
* * * *
38660154 AAACATATACACGAAATGGTTATATGAATTGATTATATGG
1 AAATAAATATATGAAATGGTTATATGAATTGATTATATGG
* * * *
38660194 AAATAGATATATGGAATGATTATATGAATTGATTGTATGG
1 AAATAAATATATGAAATGGTTATATGAATTGATTATATGG
* * **
38660234 AAATAAATATATGAAATGTTTATATGATTTGGCTATATGG
1 AAATAAATATATGAAATGGTTATATGAATTGATTATATGG
38660274 AAATA
1 AAATA
38660279 GCTATATGGG
Statistics
Matches: 104, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (40 bp):
AAATAAATATATGAAATGGTTATATGAATTGATTATATGG
Found at i:38660191 original size:13 final size:13
Alignment explanation
Indices: 38660173--38660260 Score: 63
Period size: 13 Copynumber: 6.6 Consensus size: 13
38660163 CACGAAATGG
38660173 TTATATGAATTGA
1 TTATATGAATTGA
*
38660186 TTATATGGAAATAGA
1 TTATAT-G-AATTGA
38660201 -TATATGGAA-TGA
1 TTATAT-GAATTGA
38660213 TTATATGAATTGA
1 TTATATGAATTGA
* * *
38660226 TTGTATGGAAATAA
1 TTATAT-GAATTGA
* * *
38660240 ATATATGAAATGT
1 TTATATGAATTGA
38660253 TTATATGA
1 TTATATGA
38660261 TTTGGCTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
12 5 0.08
13 33 0.55
14 17 0.28
15 5 0.08
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (13 bp):
TTATATGAATTGA
Found at i:38660196 original size:27 final size:26
Alignment explanation
Indices: 38660166--38660260 Score: 75
Period size: 27 Copynumber: 3.6 Consensus size: 26
38660156 ACATATACAC
38660166 GAAATGGTTATATGAATTGATTATAT
1 GAAATGGTTATATGAATTGATTATAT
* *
38660192 GGAAATAGATATATGGAA-TGATTATAT
1 -GAAATGGTTATAT-GAATTGATTATAT
* * * * * *
38660219 GAATTGATTGTATGGAAATAAATATAT
1 GAAATGGTTATAT-GAATTGATTATAT
*
38660246 GAAATGTTTATATGA
1 GAAATGGTTATATGA
38660261 TTTGGCTATA
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
26 14 0.26
27 37 0.69
28 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (26 bp):
GAAATGGTTATATGAATTGATTATAT
Found at i:38660432 original size:13 final size:13
Alignment explanation
Indices: 38660405--38660590 Score: 101
Period size: 13 Copynumber: 14.0 Consensus size: 13
38660395 TCGGGTGGAA
* *
38660405 AAATGAATATTTG
1 AAATGATTATATG
*
38660418 AAATGGTTATATG
1 AAATGATTATATG
*
38660431 AATTGATTATATGG
1 AAATGATTATAT-G
* *
38660445 AAA-CATATATACG
1 AAATGAT-TATATG
38660458 AAATGATTATATGG
1 AAATGATTATAT-G
38660472 AAATAGA-TATATG
1 AAAT-GATTATATG
* * *
38660485 GAATGGTTATGTG
1 AAATGATTATATG
* *
38660498 AATTGATTGTATGG
1 AAATGATTATAT-G
* *
38660512 AAATAAATATATG
1 AAATGATTATATG
*
38660525 AAATGTTTATATG
1 AAATGATTATATG
* **
38660538 -ATTCGGCTATATGG
1 AAAT-GATTATAT-G
38660552 AAAT-AGTTATATG
1 AAATGA-TTATATG
*
38660565 AAATGTTTATATG
1 AAATGATTATATG
*
38660578 AAATGTTTATATG
1 AAATGATTATATG
38660591 GATATAAATA
Statistics
Matches: 129, Mismatches: 32, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
12 3 0.02
13 88 0.68
14 34 0.26
15 4 0.03
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:38660455 original size:27 final size:27
Alignment explanation
Indices: 38660425--38660494 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
38660415 TTGAAATGGT
* *
38660425 TATATGAATTGATTATATGGAAACATA
1 TATATGAAATGATTATATGGAAACAGA
* *
38660452 TATACGAAATGATTATATGGAAATAGA
1 TATATGAAATGATTATATGGAAACAGA
* *
38660479 TATATGGAATGGTTAT
1 TATATGAAATGATTAT
38660495 GTGAATTGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.36
Consensus pattern (27 bp):
TATATGAAATGATTATATGGAAACAGA
Found at i:38660505 original size:40 final size:40
Alignment explanation
Indices: 38660452--38660601 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 40
38660442 TGGAAACATA
* * * * *
38660452 TATACGAAATGATTATATGGAAATAGATATATGGAATGGT
1 TATATGAATTGATTATATGGAAATAAATATATGAAATGTT
* *
38660492 TATGTGAATTGATTGTATGGAAATAAATATATGAAATGTT
1 TATATGAATTGATTATATGGAAATAAATATATGAAATGTT
** **
38660532 TATATG-ATTCGGCTATATGGAAATAGTTATATGAAATGTT
1 TATATGAATT-GATTATATGGAAATAAATATATGAAATGTT
* * *
38660572 TATATGAAATGTTTATATGGATATAAATAT
1 TATATGAATTGATTATATGGAAATAAATAT
38660602 GTAAAAAGTG
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 84 0.94
41 2 0.02
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (40 bp):
TATATGAATTGATTATATGGAAATAAATATATGAAATGTT
Found at i:38660561 original size:67 final size:68
Alignment explanation
Indices: 38660417--38660577 Score: 184
Period size: 67 Copynumber: 2.4 Consensus size: 68
38660407 ATGAATATTT
*
38660417 GAAATGGTTATATGAATTGATTATATGGAAACATATATACGAAATGATTATATGGAAATAGATAT
1 GAAATGGTTATATGAATTGATTATATGGAAACAAATATACGAAATGATTATATGGAAATAGATAT
38660482 ATG
66 ATG
* * * * * * * *
38660485 G-AATGGTTATGTGAATTGATTGTATGGAAATAAATATATGAAATGTTTATAT-G-ATTCGGCTA
1 GAAATGGTTATATGAATTGATTATATGGAAACAAATATACGAAATGATTATATGGAAAT-AGATA
38660547 TATG
65 TATG
* * *
38660551 GAAATAGTTATATGAAATGTTTATATG
1 GAAATGGTTATATGAATTGATTATATG
38660578 AAATGTTTAT
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
65 2 0.03
66 9 0.12
67 65 0.84
68 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.37
Consensus pattern (68 bp):
GAAATGGTTATATGAATTGATTATATGGAAACAAATATACGAAATGATTATATGGAAATAGATAT
ATG
Found at i:38661771 original size:25 final size:25
Alignment explanation
Indices: 38661743--38661847 Score: 113
Period size: 25 Copynumber: 4.2 Consensus size: 25
38661733 CAGCTTTTAA
* *
38661743 GAGCTTCCCAATATTTAGCTCGCAT
1 GAGCTTCCCGATATTCAGCTCGCAT
**
38661768 GAGCTTCCCGAT-TTCAGCTCTTAT
1 GAGCTTCCCGATATTCAGCTCGCAT
*
38661792 GAGCTTCCCGATATACAGCTCGCAT
1 GAGCTTCCCGATATTCAGCTCGCAT
* * * * *
38661817 GATCTTCCTGTTATTTAGCTCACAT
1 GAGCTTCCCGATATTCAGCTCGCAT
38661842 GAGCTT
1 GAGCTT
38661848 TCTGTTATAT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
24 21 0.32
25 44 0.68
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGATATTCAGCTCGCAT
Found at i:38661793 original size:24 final size:25
Alignment explanation
Indices: 38661733--38661812 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
38661723 GAACACACCA
* * *
38661733 CAGCTTTTAAGAGCTTCCCAATATT
1 CAGCTCTTATGAGCTTCCCGATATT
* **
38661758 TAGCTCGCATGAGCTTCCCGAT-TT
1 CAGCTCTTATGAGCTTCCCGATATT
*
38661782 CAGCTCTTATGAGCTTCCCGATATA
1 CAGCTCTTATGAGCTTCCCGATATT
38661807 CAGCTC
1 CAGCTC
38661813 GCATGATCTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
24 21 0.48
25 23 0.52
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (25 bp):
CAGCTCTTATGAGCTTCCCGATATT
Found at i:38661852 original size:25 final size:25
Alignment explanation
Indices: 38661790--38661862 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
38661780 TTCAGCTCTT
* * * *
38661790 ATGAGCTTCCCGATATACAGCTCGC
1 ATGAGCTTCCTGTTATATAGCTCAC
* *
38661815 ATGATCTTCCTGTTATTTAGCTCAC
1 ATGAGCTTCCTGTTATATAGCTCAC
*
38661840 ATGAGCTTTCTGTTATATAGCTC
1 ATGAGCTTCCTGTTATATAGCTC
38661863 GGTAGAGCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATATAGCTCAC
Found at i:38661862 original size:50 final size:49
Alignment explanation
Indices: 38661743--38661895 Score: 132
Period size: 50 Copynumber: 3.1 Consensus size: 49
38661733 CAGCTTTTAA
* * **
38661743 GAGCTTCCCAATATTTAGCTCGCATGAGCTTCCCGATTTCAGCTCTTAT
1 GAGCTTCCCGATATATAGCTCGCATGAGCTTCCCGATTTCAGCTCACAT
* * *
38661792 GAGCTTCCCGATATACAGCTCGCATGATCTTCCTGTTATTT-AGCTCACAT
1 GAGCTTCCCGATATATAGCTCGCATGAGCTTCCCG--ATTTCAGCTCACAT
* * * * *
38661842 GAGCTTTCTGTTATATAGCTCG-GTAGAGCTTCCCG-TTTACATGCTCATAT
1 GAGCTTCCCGATATATAGCTCGCAT-GAGCTTCCCGATTT-CA-GCTCACAT
38661892 GAGC
1 GAGC
38661896 ATACATGTAC
Statistics
Matches: 83, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
47 3 0.04
49 32 0.39
50 44 0.53
51 4 0.05
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (49 bp):
GAGCTTCCCGATATATAGCTCGCATGAGCTTCCCGATTTCAGCTCACAT
Found at i:38663806 original size:13 final size:13
Alignment explanation
Indices: 38663788--38663817 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
38663778 TGCCAATGAG
38663788 GGCATATTGGTTA
1 GGCATATTGGTTA
38663801 GGCATATTGGTTA
1 GGCATATTGGTTA
38663814 GGCA
1 GGCA
38663818 CATAGGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.33
Consensus pattern (13 bp):
GGCATATTGGTTA
Done.