Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 33 of 129
Found at i:6781833 original size:11 final size:11
Alignment explanation
Indices: 6781806--6781852 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
6781796 AATTAGAATA
*
6781806 ATAATAAAAAC
1 ATAATAAAAAT
6781817 AT-ATAAAAAT
1 ATAATAAAAAT
6781827 ATAATAAAAAT
1 ATAATAAAAAT
*
6781838 AAAAAATAAAAAT
1 --ATAATAAAAAT
6781851 AT
1 AT
6781853 CTAAAGATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 9 0.30
11 11 0.37
13 10 0.33
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:6781852 original size:24 final size:27
Alignment explanation
Indices: 6781782--6781849 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
6781772 AGTATAGGTG
* * *
6781782 TAAAAATATATAAAAATTAGAATAATAA
1 TAAAAACATATAAAAA-TATAATAAAAA
6781810 TAAAAACATATAAAAATATAATAAAAA
1 TAAAAACATATAAAAATATAATAAAAA
6781837 TAAAAA-ATA-AAAA
1 TAAAAACATATAAAA
6781850 TATCTAAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.11
26 3 0.08
27 15 0.41
28 15 0.41
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (27 bp):
TAAAAACATATAAAAATATAATAAAAA
Found at i:6782323 original size:33 final size:33
Alignment explanation
Indices: 6782284--6782352 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
6782274 TTGTTTCTTG
6782284 TAAAATAATAATAATAAAGATAAAACAATTAGA
1 TAAAATAATAATAATAAAGATAAAACAATTAGA
* *
6782317 TAAAATAATAATAATAAAGATACAATAATTAGA
1 TAAAATAATAATAATAAAGATAAAACAATTAGA
6782350 TAA
1 TAA
6782353 TTAAAACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (33 bp):
TAAAATAATAATAATAAAGATAAAACAATTAGA
Found at i:6785977 original size:14 final size:14
Alignment explanation
Indices: 6785955--6785992 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
6785945 AGTATTTGAT
*
6785955 TTATTATTTATGAA
1 TTATAATTTATGAA
*
6785969 TTATAATTTATTAA
1 TTATAATTTATGAA
6785983 TTATAATTTA
1 TTATAATTTA
6785993 AAATTACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTATAATTTATGAA
Found at i:6785997 original size:21 final size:21
Alignment explanation
Indices: 6785953--6785997 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6785943 GGAGTATTTG
* *
6785953 ATTTATTATTTATGAATTATA
1 ATTTATTAATTATGAATTAAA
6785974 ATTTATTAATTAT-AATTTAAA
1 ATTTATTAATTATGAA-TTAAA
6785995 ATT
1 ATT
6785998 ACATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTATTAATTATGAATTAAA
Found at i:6786700 original size:15 final size:16
Alignment explanation
Indices: 6786680--6786715 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6786670 GGACAGTTTC
*
6786680 CAAAAGGAGAA-AAGA
1 CAAAAGCAGAAGAAGA
6786695 CAAAAGCAGAAGAAGA
1 CAAAAGCAGAAGAAGA
6786711 CAAAA
1 CAAAA
6786716 TTAATGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (16 bp):
CAAAAGCAGAAGAAGA
Found at i:6787450 original size:25 final size:26
Alignment explanation
Indices: 6787422--6787470 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6787412 AAGATTTTCC
6787422 TTTTTT-T-AGTGAT-TATTTTGTCA
1 TTTTTTCTGAGTGATATATTTTGTCA
6787445 TTTTTTCTGAGTGATATATTTTGTCA
1 TTTTTTCTGAGTGATATATTTTGTCA
6787471 ATGTTTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 1 0.04
25 6 0.26
26 10 0.43
ACGTcount: A:0.18, C:0.06, G:0.14, T:0.61
Consensus pattern (26 bp):
TTTTTTCTGAGTGATATATTTTGTCA
Found at i:6789697 original size:44 final size:44
Alignment explanation
Indices: 6789633--6789724 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 44
6789623 TCATTGTTGA
*
6789633 AAGCATAGAAATGCCTAGTCATGGAATGGAGATCAGTAGTTTTG
1 AAGCATAGAAACGCCTAGTCATGGAATGGAGATCAGTAGTTTTG
6789677 AAGCATAGAAACG-CTCAGTCATGGAATGGAGATCAGTAGTTTTG
1 AAGCATAGAAACGCCT-AGTCATGGAATGGAGATCAGTAGTTTTG
6789721 AAGC
1 AAGC
6789725 TGTTGTCGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 2 0.04
44 44 0.96
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (44 bp):
AAGCATAGAAACGCCTAGTCATGGAATGGAGATCAGTAGTTTTG
Found at i:6790859 original size:3 final size:3
Alignment explanation
Indices: 6790851--6790884 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
6790841 AATTTTGGAC
*
6790851 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6790885 GTAAAGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6795127 original size:216 final size:216
Alignment explanation
Indices: 6794749--6795183 Score: 654
Period size: 216 Copynumber: 2.0 Consensus size: 216
6794739 AGCAAGCTCT
* * *
6794749 GTAGCTGTGTATAGATCACTATTTGCCCCAGTTGTCATATGGTCCTAACCAAAGATGAGCTCTTC
1 GTAGCTGTGTATAGATCACTAATTGCCCCAGTTGTAATATGGTCCTAACCAAAGATGAGCACTTC
* * *
6794814 TGCAACTCTTCCTCCCATACAAACATAAAGGTAAGCTGATAATTGCTTCTTACTAATTGAAGTCT
66 TGCAACACTTCCTCCCATACAAACATAAAGGCAAGCTGATAATTACTTCTTACTAATTGAAGTCT
* * * *
6794879 CATAACTTGAAGGCGGCTAGGTAACCATTCCTAGAGCAGATCCACGGGGCGTGATTGTTGCCTTG
131 CATAACTTGAAGGCAGCTAGGTAACCATTCCTAGAGCAGATCCACGAGGCATGAGTGTTGCCTTG
*
6794944 TGGATTGGATTTGCACCCTCA
196 TGGATTGGATGTGCACCCTCA
* * **
6794965 GTAGCTGTTTATATATCACTAATTGCCCCAGTTGTAATATGGTCCTGGCCAAAGATGAGCACTTC
1 GTAGCTGTGTATAGATCACTAATTGCCCCAGTTGTAATATGGTCCTAACCAAAGATGAGCACTTC
*
6795030 TGCAACACTTCCTCCCATACAAACATCAAGGCAAGCTGATAATTACTTCTTACTAATTGAAGTCT
66 TGCAACACTTCCTCCCATACAAACATAAAGGCAAGCTGATAATTACTTCTTACTAATTGAAGTCT
** * * * *
6795095 CATCTCTTGAAGGCATCTGGGTAACTATTCCTAGAGCAGATTCACGAGGCATGAGTGTTGCCTTG
131 CATAACTTGAAGGCAGCTAGGTAACCATTCCTAGAGCAGATCCACGAGGCATGAGTGTTGCCTTG
**
6795160 TGGATTGGATGTGCATTCTCA
196 TGGATTGGATGTGCACCCTCA
6795181 GTA
1 GTA
6795184 TTGAAAGCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
216 195 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (216 bp):
GTAGCTGTGTATAGATCACTAATTGCCCCAGTTGTAATATGGTCCTAACCAAAGATGAGCACTTC
TGCAACACTTCCTCCCATACAAACATAAAGGCAAGCTGATAATTACTTCTTACTAATTGAAGTCT
CATAACTTGAAGGCAGCTAGGTAACCATTCCTAGAGCAGATCCACGAGGCATGAGTGTTGCCTTG
TGGATTGGATGTGCACCCTCA
Found at i:6800044 original size:22 final size:22
Alignment explanation
Indices: 6800016--6800060 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6800006 TTTTTTTGTC
6800016 TTTAATTCTAGAGATACAAATA
1 TTTAATTCTAGAGATACAAATA
6800038 TTTAATTCTAGAGATACAAATA
1 TTTAATTCTAGAGATACAAATA
6800060 T
1 T
6800061 AAATACATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAATTCTAGAGATACAAATA
Found at i:6800071 original size:22 final size:22
Alignment explanation
Indices: 6800023--6800071 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6800013 GTCTTTAATT
* *
6800023 CTAGAGATACAAATATTTAATT
1 CTAGAGATACAAATATTAAATA
6800045 CTAGAGATACAAATA-TAAATA
1 CTAGAGATACAAATATTAAATA
6800066 CATAGA
1 C-TAGA
6800072 TTACAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (22 bp):
CTAGAGATACAAATATTAAATA
Found at i:6803744 original size:25 final size:25
Alignment explanation
Indices: 6803715--6803777 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
6803705 TAGAATGGCT
* *
6803715 ATGAAAGCCTTAACAGGGTTCGACA
1 ATGAAGGCCTAAACAGGGTTCGACA
* * *
6803740 ATGAAGGTCTAAATAGGGTTCGGCA
1 ATGAAGGCCTAAACAGGGTTCGACA
6803765 ATGAAGGCCTAAA
1 ATGAAGGCCTAAA
6803778 ATAGAAGTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.21
Consensus pattern (25 bp):
ATGAAGGCCTAAACAGGGTTCGACA
Found at i:6804060 original size:22 final size:22
Alignment explanation
Indices: 6804035--6804079 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6804025 TTTTTTTGTC
*
6804035 TTTAATTTTAGGGATACAAATA
1 TTTAATTTTAGAGATACAAATA
*
6804057 TTTAATTTTAGAGATACAGATA
1 TTTAATTTTAGAGATACAAATA
6804079 T
1 T
6804080 AAATACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTAATTTTAGAGATACAAATA
Found at i:6813904 original size:12 final size:12
Alignment explanation
Indices: 6813887--6813917 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6813877 AATAAACAGT
6813887 GCTGATTAGCTG
1 GCTGATTAGCTG
6813899 GCTGATTAGCTG
1 GCTGATTAGCTG
*
6813911 ACTGATT
1 GCTGATT
6813918 GGCTAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.35
Consensus pattern (12 bp):
GCTGATTAGCTG
Found at i:6816365 original size:85 final size:85
Alignment explanation
Indices: 6816273--6816754 Score: 291
Period size: 85 Copynumber: 5.7 Consensus size: 85
6816263 TCGGATCTTT
* * ** * * * * *
6816273 AAAATGTCTTTATAAAGG-CTCAATTTGACAAAACAGCTTGACCTAAGAGTTTAGACTCAGCTCG
1 AAAATGTCTTCATAAAGGTCT-AACTCAACAAAACAACTCGACCTAAGAGCTCAGACTCAACTCG
*
6816337 GCCAAAAGAG-TTCGCATTTAC
65 ACCAAAAGAGCTT-GCATTTAC
*
6816358 AAAATGTCTTCATAAAGGTCTAACTCAACAAAACAACTCGACCTAAGAGCTCAGACTTAACTCGA
1 AAAATGTCTTCATAAAGGTCTAACTCAACAAAACAACTCGACCTAAGAGCTCAGACTCAACTCGA
* *
6816423 TCAAAAGAGCTTGGATTTAC
66 CCAAAAGAGCTTGCATTTAC
* * * * * * * * * * *
6816443 AAAATATCTTCATAAAAGCCTAATTCAATAAAATAACTCAACCAAAGAG-TCAAACTCAACTAGG
1 AAAATGTCTTCATAAAGGTCTAACTCAACAAAACAACTCGACCTAAGAGCTCAGACTCAACTCGA
* *
6816507 TCAAAAGAGTTTAG-ATTTAC
66 CCAAAAGAGCTT-GCATTTAC
* * * * * * * * *
6816527 AAAATG-CTATCATAAAGGCCCAACT-AGATAAAATAGCTAGACATAAGAGCTCGGACTCAACTT
1 AAAATGTCT-TCATAAAGGTCTAACTCA-ACAAAACAACTCGACCTAAGAGCTCAGACTCAACTC
* * *
6816590 GACTAAAA-AGAATTCGGATTTAC
64 GACCAAAAGAG-CTT-GCATTTAC
* * * * *
6816613 AAAATGCCTTCATAAAGATCCAACTCAACAAAATAGA-TC-AGCCTAAAAGCTCAGACGT-AACT
1 AAAATGTCTTCATAAAGGTCTAACTCAACAAAACA-ACTCGA-CCTAAGAGCTCAGAC-TCAACT
* * * *
6816675 CGACCAAAATAGCTTGGATCTAT
63 CGACCAAAAGAGCTTGCATTTAC
** * * * * *** *
6816698 AAAATACCTTTATAAAAGCCTAACTCGACAAAATTGCTCGATCTAAGAGCTCAGACT
1 AAAATGTCTTCATAAAGGTCTAACTCAACAAAACAACTCGACCTAAGAGCTCAGACT
6816755 TAGCTTAATC
Statistics
Matches: 314, Mismatches: 67, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
83 3 0.01
84 66 0.21
85 175 0.56
86 64 0.20
87 6 0.02
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (85 bp):
AAAATGTCTTCATAAAGGTCTAACTCAACAAAACAACTCGACCTAAGAGCTCAGACTCAACTCGA
CCAAAAGAGCTTGCATTTAC
Found at i:6818937 original size:35 final size:34
Alignment explanation
Indices: 6818871--6818943 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
6818861 GAAAGCCAAT
*
6818871 TCTTCTTCTAACTCTCTCATTCTTTCTTTTGAAC
1 TCTTCTTCTAACTCTCTCAGTCTTTCTTTTGAAC
* *
6818905 TCTTCTTCTCAATTCTCTCAGTCTTATC-TTTGAGC
1 TCTTCTTCT-AACTCTCTCAGTCTT-TCTTTTGAAC
6818940 TCTT
1 TCTT
6818944 TTTATTAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 9 0.26
35 23 0.68
36 2 0.06
ACGTcount: A:0.14, C:0.29, G:0.05, T:0.52
Consensus pattern (34 bp):
TCTTCTTCTAACTCTCTCAGTCTTTCTTTTGAAC
Found at i:6820628 original size:17 final size:16
Alignment explanation
Indices: 6820606--6820648 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
6820596 ATTTTAATTC
*
6820606 TTTTTTTTACTTTTCTT
1 TTTTTTTTA-TTTACTT
6820623 TTTTTTTATATTTACTT
1 TTTTTTT-TATTTACTT
6820640 TTTCTTTTT
1 TTT-TTTTT
6820649 CTATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTATTTACTT
Found at i:6821839 original size:24 final size:23
Alignment explanation
Indices: 6821788--6821847 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
6821778 TGTTTTAACC
* *
6821788 ATTTTTACTTTTTATATTTGATT
1 ATTTTAACATTTTATATTTGATT
* *
6821811 TTTTTAACATTTTATATGTTTATT
1 ATTTTAACATTTTATAT-TTGATT
*
6821835 ATTTTAAAATTTT
1 ATTTTAACATTTT
6821848 TTGACCTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (23 bp):
ATTTTAACATTTTATATTTGATT
Found at i:6821900 original size:11 final size:10
Alignment explanation
Indices: 6821884--6821925 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
6821874 GGTTCACTTT
6821884 TTATTATTTA
1 TTATTATTTA
6821894 GTTATTATTTA
1 -TTATTATTTA
6821905 TTATGTATTTTA
1 TTAT-TA-TTTA
6821917 TTATT-TTTA
1 TTATTATTTA
6821926 ATGGTGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.14
10 4 0.14
11 13 0.45
12 8 0.28
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (10 bp):
TTATTATTTA
Found at i:6822346 original size:21 final size:23
Alignment explanation
Indices: 6822306--6822347 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
6822296 TGTAATTTCA
6822306 AAAAGTAAAGAAAAAGTCAGAGT
1 AAAAGTAAAGAAAAAGTCAGAGT
*
6822329 AAAA-TAAA-AAAGAGTCAGA
1 AAAAGTAAAGAAAAAGTCAGA
6822348 ATATGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 4 0.22
23 4 0.22
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (23 bp):
AAAAGTAAAGAAAAAGTCAGAGT
Found at i:6823242 original size:12 final size:12
Alignment explanation
Indices: 6823211--6823258 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
6823201 TCATTTGTCA
*
6823211 TTTATTTTTTGCT
1 TTTATTTTTT-AT
*
6823224 TTGATTTTTTAT
1 TTTATTTTTTAT
6823236 TTTATTTTTTAT
1 TTTATTTTTTAT
6823248 ATATTATTTTT
1 -T-TTATTTTT
6823259 ACATTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 12 0.40
13 10 0.33
14 8 0.27
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:6823245 original size:14 final size:14
Alignment explanation
Indices: 6823227--6823287 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 14
6823217 TTTTGCTTTG
6823227 ATTTTTTAT-T-TT
1 ATTTTTTATATATT
6823239 ATTTTTTATATATT
1 ATTTTTTATATATT
*
6823253 A-TTTTTACAT-TT
1 ATTTTTTATATATT
*
6823265 ATATTTTA-ATATTT
1 ATTTTTTATATA-TT
6823279 ATTATTTTA
1 ATT-TTTTA
6823288 AAGGGTTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 14 0.35
13 14 0.35
14 7 0.17
15 5 0.12
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTTATATATT
Found at i:6823286 original size:15 final size:15
Alignment explanation
Indices: 6823249--6823288 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
6823239 ATTTTTTATA
*
6823249 TATTATTTTTACATT
1 TATTATTTTAACATT
*
6823264 TA-TATTTTAATATT
1 TATTATTTTAACATT
6823278 TATTATTTTAA
1 TATTATTTTAA
6823289 AGGGTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTTTAACATT
Found at i:6823440 original size:19 final size:20
Alignment explanation
Indices: 6823406--6823475 Score: 78
Period size: 17 Copynumber: 3.6 Consensus size: 20
6823396 TGATATTTTA
6823406 TATATTATATTATTGCATGAT
1 TATATTAT-TTATTGCATGAT
6823427 TATATTATTT-TTGCATGA-
1 TATATTATTTATTGCATGAT
6823445 T-TATTA-TTATTGCATGA-
1 TATATTATTTATTGCATGAT
*
6823462 AATATTATATTATT
1 TATATTAT-TTATT
6823476 ATTGCATGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
16 2 0.05
17 13 0.30
18 6 0.14
19 8 0.18
20 7 0.16
21 8 0.18
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (20 bp):
TATATTATTTATTGCATGAT
Found at i:6829605 original size:17 final size:17
Alignment explanation
Indices: 6829585--6829620 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6829575 TTTTGTGAAA
*
6829585 CTAAAATTTTTCCGAAT
1 CTAAAATTCTTCCGAAT
*
6829602 CTAAAATTCTTGCGAAT
1 CTAAAATTCTTCCGAAT
6829619 CT
1 CT
6829621 TTCATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (17 bp):
CTAAAATTCTTCCGAAT
Found at i:6829701 original size:35 final size:35
Alignment explanation
Indices: 6829656--6829741 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 35
6829646 GCAAATATTT
* *
6829656 AAATTCTTGTGAATCTTACATTTTTGCGAATTTGA
1 AAATTCTTGTGAATCTTACATTCTTACGAATTTGA
* * *
6829691 AAATTTTTGTGAATCTTCCATTCTTATGAATTTGA
1 AAATTCTTGTGAATCTTACATTCTTACGAATTTGA
*
6829726 AAATTCTTGCGAATCT
1 AAATTCTTGTGAATCT
6829742 AAAAATTCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (35 bp):
AAATTCTTGTGAATCTTACATTCTTACGAATTTGA
Found at i:6829733 original size:18 final size:18
Alignment explanation
Indices: 6829710--6829753 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6829700 TGAATCTTCC
* * *
6829710 ATTCTTATGAATTTGAAA
1 ATTCTTACGAATCTAAAA
*
6829728 ATTCTTGCGAATCTAAAA
1 ATTCTTACGAATCTAAAA
6829746 ATTCTTAC
1 ATTCTTAC
6829754 ATATATGAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTCTTACGAATCTAAAA
Found at i:6829781 original size:17 final size:18
Alignment explanation
Indices: 6829750--6829798 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
6829740 CTAAAAATTC
* *
6829750 TTACATATATGAAAATCT
1 TTACAAATATGAAAACCT
*
6829768 TTGCAAATAT-AAAACCT
1 TTACAAATATGAAAACCT
*
6829785 TTACAAATCTGAAA
1 TTACAAATATGAAA
6829799 CCTCTGTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (18 bp):
TTACAAATATGAAAACCT
Found at i:6830395 original size:6 final size:6
Alignment explanation
Indices: 6830384--6830422 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
6830374 AATTTCAATC
*
6830384 TTGATT TTGATT TTAATT TTGATT TTGATT TTGAATT TT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTG-ATT TT
6830423 TCGACACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (6 bp):
TTGATT
Found at i:6830400 original size:24 final size:24
Alignment explanation
Indices: 6830364--6830422 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
6830354 AACTCAAAAT
* *
6830364 TTTTTATTATAATTTCAATCTTGA
1 TTTTGATTTTAATTTCAATCTTGA
** *
6830388 TTTTGATTTTAATTTTGATTTTGA
1 TTTTGATTTTAATTTCAATCTTGA
6830412 TTTTGAATTTT
1 TTTTG-ATTTT
6830423 TCGACACCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.64
Consensus pattern (24 bp):
TTTTGATTTTAATTTCAATCTTGA
Found at i:6830405 original size:18 final size:19
Alignment explanation
Indices: 6830384--6830422 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
6830374 AATTTCAATC
6830384 TTGATTTTGATTTT-AATT
1 TTGATTTTGATTTTGAATT
6830402 TTGATTTTGATTTTGAATT
1 TTGATTTTGATTTTGAATT
6830421 TT
1 TT
6830423 TCGACACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (19 bp):
TTGATTTTGATTTTGAATT
Found at i:6830711 original size:20 final size:21
Alignment explanation
Indices: 6830688--6830741 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
6830678 TGCTTTGATT
6830688 TTTTTAATTTTAATTTTTA-A
1 TTTTTAATTTTAATTTTTATA
*
6830708 TTTTTATATATT-ATTTTTATA
1 TTTTTA-ATTTTAATTTTTATA
6830729 TTTATT-ATTTTAA
1 TTT-TTAATTTTAA
6830742 AGGGTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 17 0.61
21 9 0.32
22 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTAATTTTAATTTTTATA
Found at i:6830736 original size:15 final size:15
Alignment explanation
Indices: 6830695--6830739 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
6830685 ATTTTTTTAA
6830695 TTTTA-ATTT-TTAAT
1 TTTTATATTTATT-AT
6830709 TTTTATA--TATTAT
1 TTTTATATTTATTAT
6830722 TTTTATATTTATTAT
1 TTTTATATTTATTAT
6830737 TTT
1 TTT
6830740 AAAGGGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.37
14 7 0.26
15 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATATTTATTAT
Found at i:6830860 original size:21 final size:21
Alignment explanation
Indices: 6830836--6830998 Score: 121
Period size: 21 Copynumber: 7.7 Consensus size: 21
6830826 ATTTGTTTAA
6830836 TATATTAATTGCATGATAATT
1 TATATTAATTGCATGATAATT
6830857 TATATTAATTGCATGATAATT
1 TATATTAATTGCATGATAATT
*
6830878 TATATTATTTGCATGATAATT
1 TATATTAATTGCATGATAATT
*
6830899 TACATATTATATT--ATTGCATGA-T
1 T--ATATTA-ATTGCA-TG-ATAATT
* *
6830922 TATATT-ATTTC-TGCATGA-T
1 TATATTAATTGCATG-ATAATT
6830941 TATTATT-ATTGCATGAT-ATAT
1 TA-TATTAATTGCATGATAAT-T
6830962 TATATT-ATTGCATGAT-ATAT
1 TATATTAATTGCATGATAAT-T
6830982 TATATTATTATTGCATG
1 TATATTA--ATTGCATG
6830999 GTATTATTTG
Statistics
Matches: 124, Mismatches: 4, Indels: 26
0.81 0.03 0.17
Matches are distributed among these distances:
19 14 0.11
20 34 0.27
21 52 0.42
22 1 0.01
23 18 0.15
24 5 0.04
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (21 bp):
TATATTAATTGCATGATAATT
Found at i:6830967 original size:23 final size:21
Alignment explanation
Indices: 6830902--6830998 Score: 104
Period size: 20 Copynumber: 4.9 Consensus size: 21
6830892 GATAATTTAC
6830902 ATATTA-TATTATTGCATGAT
1 ATATTATTATTATTGCATGAT
6830922 -TA-TATTATT-TCTGCATG--
1 ATATTATTATTAT-TGCATGAT
6830939 --ATTATTATTATTGCATGAT
1 ATATTATTATTATTGCATGAT
6830958 ATATTA-TATTATTGCATGAT
1 ATATTATTATTATTGCATGAT
6830978 ATATTATATTATTATTGCATG
1 ATA-T-TATTATTATTGCATG
6830999 GTATTATTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 19
0.78 0.00 0.22
Matches are distributed among these distances:
16 1 0.02
17 13 0.20
18 4 0.06
19 12 0.18
20 17 0.26
21 5 0.08
22 2 0.03
23 12 0.18
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (21 bp):
ATATTATTATTATTGCATGAT
Found at i:6831304 original size:103 final size:103
Alignment explanation
Indices: 6831196--6831383 Score: 315
Period size: 103 Copynumber: 1.8 Consensus size: 103
6831186 AAATCCTATC
** *
6831196 AACATATTAAAGGATAATTTTTGATGAAAAATCTTACCAACATATT-GAAAGATATTTCTAAAAA
1 AACATATTAAAGGATAATTTTTGACAAAAAATCTTACCAACATATTAG-AAGATATTTATAAAAA
6831260 TAAATTATTTTCACAAATAAATAAATTTTCAATCCTGCT
65 TAAATTATTTTCACAAATAAATAAATTTTCAATCCTGCT
* *
6831299 AACATATTAAAGGATAATTTTTGACAAAAAATCTTACCAATATATTAGAAGATATTTATAAGAAT
1 AACATATTAAAGGATAATTTTTGACAAAAAATCTTACCAACATATTAGAAGATATTTATAAAAAT
6831364 AAATTATTTTCACAAATAAA
66 AAATTATTTTCACAAATAAA
6831384 AGTTTTTAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 78 0.99
104 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (103 bp):
AACATATTAAAGGATAATTTTTGACAAAAAATCTTACCAACATATTAGAAGATATTTATAAAAAT
AAATTATTTTCACAAATAAATAAATTTTCAATCCTGCT
Found at i:6831960 original size:14 final size:14
Alignment explanation
Indices: 6831943--6831969 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6831933 TTTTTATATC
6831943 TTATTTTTATGTTT
1 TTATTTTTATGTTT
6831957 TTATTTTTATGTT
1 TTATTTTTATGTT
6831970 AGACACACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (14 bp):
TTATTTTTATGTTT
Found at i:6832648 original size:26 final size:26
Alignment explanation
Indices: 6832619--6832687 Score: 61
Period size: 29 Copynumber: 2.6 Consensus size: 26
6832609 TTCATTTTGT
*
6832619 TTATATATATTACATTAATAAAGATA
1 TTATATATATTACATTAAAAAAGATA
*
6832645 TTATTTAATATCTTA-ATTTAAAAAAGATA
1 TTA--T-ATATATTACA-TTAAAAAAGATA
*
6832674 TTATATTTA-TACAT
1 TTATATATATTACAT
6832688 AATTAAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
25 3 0.09
26 7 0.21
27 1 0.03
28 2 0.06
29 21 0.62
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (26 bp):
TTATATATATTACATTAAAAAAGATA
Found at i:6832690 original size:29 final size:28
Alignment explanation
Indices: 6832632--6832695 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
6832622 TATATATTAC
* *
6832632 ATTAATAAAGATATTATTTAATATCTTA
1 ATTAAAAAAGATATTATTTAATATCATA
*
6832660 ATTTAAAAAAGATATTATATTTATA-CATA
1 A-TTAAAAAAGATATTAT-TTAATATCATA
6832689 ATTAAAA
1 ATTAAAA
6832696 TGTAATCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 19 0.61
30 5 0.16
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (28 bp):
ATTAAAAAAGATATTATTTAATATCATA
Found at i:6833476 original size:20 final size:20
Alignment explanation
Indices: 6833453--6833494 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6833443 AGTTTTTTCA
6833453 TTTTCATTTTCATTTTAGTT
1 TTTTCATTTTCATTTTAGTT
* **
6833473 TTTTTATTTTTTTTTTAGTT
1 TTTTCATTTTCATTTTAGTT
6833493 TT
1 TT
6833495 ATTTTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTCATTTTCATTTTAGTT
Found at i:6833488 original size:26 final size:26
Alignment explanation
Indices: 6833439--6833500 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
6833429 AGCTCTTTTT
6833439 TTTTAGTTTTTTCATTTTCATTTTCA-
1 TTTTAGTTTTTTCATTTTCATTTT-AG
* **
6833465 TTTTAGTTTTTTTATTTTTTTTTTAG
1 TTTTAGTTTTTTCATTTTCATTTTAG
6833491 TTTTA-TTTTT
1 TTTTAGTTTTT
6833501 AATTAGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (26 bp):
TTTTAGTTTTTTCATTTTCATTTTAG
Found at i:6835452 original size:21 final size:22
Alignment explanation
Indices: 6835410--6835461 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
6835400 TCCGAAATTA
6835410 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
*
6835432 GTAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
6835453 AT-AAATATT
1 ATAAAATATT
6835462 TAAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.25
21 5 0.18
22 16 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:6835463 original size:14 final size:14
Alignment explanation
Indices: 6835446--6835497 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6835436 AATATTATTT
6835446 TTTAAATATAAATA
1 TTTAAATATAAATA
*
6835460 TTTAAAAATATAATTA
1 TTT--AAATATAAATA
* *
6835476 TATAAATATATATA
1 TTTAAATATAAATA
*
6835490 ATTAAATA
1 TTTAAATA
6835498 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 18 0.60
16 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:6835468 original size:30 final size:30
Alignment explanation
Indices: 6835434--6835505 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
6835424 TTTAAAATGT
* * * *
6835434 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATAATTATATAAATATAAATAATTA
*
6835464 AAAATATAATTATATAAATATATATAATTA
1 AAAATATAATTATATAAATATAAATAATTA
6835494 AATAAT-TAATTA
1 AA-AATATAATTA
6835506 AAAAATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATAATTATATAAATATAAATAATTA
Found at i:6835470 original size:16 final size:16
Alignment explanation
Indices: 6835449--6835487 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6835439 ATTATTTTTT
*
6835449 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
6835465 AAATATAATTATATAA
1 AAATATAAATATATAA
*
6835481 ATATATA
1 AAATATA
6835488 TAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:6836661 original size:8 final size:8
Alignment explanation
Indices: 6836648--6836672 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6836638 GTGGAAGTGA
6836648 AATCAAAT
1 AATCAAAT
6836656 AATCAAAT
1 AATCAAAT
6836664 AATCAAAT
1 AATCAAAT
6836672 A
1 A
6836673 CAAGAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (8 bp):
AATCAAAT
Found at i:6843694 original size:1 final size:1
Alignment explanation
Indices: 6843688--6843712 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6843678 CTACAATCTC
6843688 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6843713 CTTGATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6844829 original size:18 final size:18
Alignment explanation
Indices: 6844806--6844844 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6844796 TGTTATGATC
6844806 ATATTACATATAATT-ATT
1 ATATTACA-ATAATTAATT
*
6844824 ATATTATAATAATTAATT
1 ATATTACAATAATTAATT
6844842 ATA
1 ATA
6844845 GTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTACAATAATTAATT
Found at i:6844837 original size:17 final size:17
Alignment explanation
Indices: 6844815--6844856 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
6844805 CATATTACAT
6844815 ATAATTATTATA-TTATA
1 ATAATTATTATAGTT-TA
6844832 ATAATTAATTATAGTTTA
1 ATAATT-ATTATAGTTTA
6844850 A-AATTAT
1 ATAATTAT
6844857 ATAAGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 10 0.43
18 9 0.39
19 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATAATTATTATAGTTTA
Found at i:6845158 original size:22 final size:22
Alignment explanation
Indices: 6845133--6845175 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6845123 AGTCAACTTT
*
6845133 CCTC-CTTTATTTTATTGCTTCC
1 CCTCACTTAATTTTA-TGCTTCC
*
6845155 CCTCAGTTAATTTTATGCTTC
1 CCTCACTTAATTTTATGCTTC
6845176 AATTTGCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.51
Consensus pattern (22 bp):
CCTCACTTAATTTTATGCTTCC
Found at i:6849081 original size:14 final size:14
Alignment explanation
Indices: 6849064--6849097 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6849054 AATGATATAA
*
6849064 AATAAATATAAACC
1 AATAAAAATAAACC
*
6849078 AATAAAAATAAATC
1 AATAAAAATAAACC
6849092 AATAAA
1 AATAAA
6849098 CCGATCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAATAAACC
Found at i:6852952 original size:39 final size:38
Alignment explanation
Indices: 6852883--6852963 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 38
6852873 GGATCAATTA
* * *
6852883 AAACTATAAAAAAGATCAATTAAGACGTTTGTGTAACC
1 AAACTATAAAAAAGACCAACTAAGAAGTTTGTGTAACC
* *
6852921 AAACATATAAAAAGGACCAACTAATAAGTTTGTGTAACC
1 AAAC-TATAAAAAAGACCAACTAAGAAGTTTGTGTAACC
6852960 AAAC
1 AAAC
6852964 GCCTTAATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 4 0.11
39 33 0.89
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.23
Consensus pattern (38 bp):
AAACTATAAAAAAGACCAACTAAGAAGTTTGTGTAACC
Found at i:6853779 original size:28 final size:27
Alignment explanation
Indices: 6853727--6853781 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
6853717 GATTGGTTTG
6853727 AGAAAATGTTTTTTATTTTTATTTTTT
1 AGAAAATGTTTTTTATTTTTATTTTTT
6853754 AGAAAATAG-TTTTTATTTTTATTTTTT
1 AGAAAAT-GTTTTTTATTTTTATTTTTT
6853781 A
1 A
6853782 TTTTCTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (27 bp):
AGAAAATGTTTTTTATTTTTATTTTTT
Found at i:6865099 original size:1 final size:1
Alignment explanation
Indices: 6865093--6865117 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6865083 GTTTTGTGAG
6865093 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6865118 GTTTCTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6867092 original size:5 final size:5
Alignment explanation
Indices: 6867084--6867137 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
6867074 GATAATTTTT
*
6867084 AATTA AATTA AATTA AATTTCTA AA-TC AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AA--T-TA AATTA AATTA AATTA AATTA AATTA
6867131 AATTA AA
1 AATTA AA
6867138 CTCAACAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.07
5 35 0.81
7 1 0.02
8 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:6877644 original size:15 final size:17
Alignment explanation
Indices: 6877619--6877656 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
6877609 TATAATAATT
6877619 TTTTATTAAAA-AATAA
1 TTTTATTAAAATAATAA
*
6877635 TTTT-TTAAAATATTAA
1 TTTTATTAAAATAATAA
6877651 TTTTAT
1 TTTTAT
6877657 ATATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 12 0.63
17 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATTAAAATAATAA
Found at i:6877673 original size:24 final size:26
Alignment explanation
Indices: 6877634--6877687 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
6877624 TTAAAAAATA
6877634 ATTTTTTAAAATATTAAT-TTTATAT
1 ATTTTTTAAAATATTAATATTTATAT
*
6877659 ATTTTTTAAAA-ATTAATATTTATTT
1 ATTTTTTAAAATATTAATATTTATAT
6877684 ATTT
1 ATTT
6877688 AATATAACGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTTAAAATATTAATATTTATAT
Found at i:6883428 original size:15 final size:15
Alignment explanation
Indices: 6883404--6883465 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
6883394 TATTTTAATT
*
6883404 TTAATGATAATATTA
1 TTAATAATAATATTA
*
6883419 TTAATAATAATAGTA
1 TTAATAATAATATTA
*
6883434 TTTAAAAATAATTATTAA
1 -TTAATAATAA-TATT-A
*
6883452 TTATATAAAAATAT
1 TTA-ATAATAATAT
6883466 AAAAAACAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.35
16 9 0.24
17 9 0.24
18 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAATAATAATATTA
Found at i:6884088 original size:2 final size:2
Alignment explanation
Indices: 6884076--6884113 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6884066 TCCCCCAGAG
*
6884076 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6884114 TTTTAAAACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:6884910 original size:17 final size:17
Alignment explanation
Indices: 6884879--6884949 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
6884869 TTAAGTTTTT
6884879 AAAACCCC-TAAAAATCC
1 AAAACCCCAT-AAAATCC
*
6884896 AAAACCCCATAAAATCT
1 AAAACCCCATAAAATCC
* * *
6884913 GAAA-CTCATAAAATTC
1 AAAACCCCATAAAATCC
*
6884929 AAAACCCTCA-AAAATTC
1 AAAACCC-CATAAAATCC
6884946 AAAA
1 AAAA
6884950 TCCTCAAACC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 12 0.27
17 29 0.66
18 3 0.07
ACGTcount: A:0.55, C:0.27, G:0.01, T:0.17
Consensus pattern (17 bp):
AAAACCCCATAAAATCC
Found at i:6884954 original size:17 final size:17
Alignment explanation
Indices: 6884917--6884957 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
6884907 AAATCTGAAA
6884917 CTCATAAAATTCAAAACC
1 CTCA-AAAATTCAAAACC
*
6884935 CTCAAAAATTCAAAATC
1 CTCAAAAATTCAAAACC
6884952 CTCAAA
1 CTCAAA
6884958 CCTTTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (17 bp):
CTCAAAAATTCAAAACC
Found at i:6885005 original size:16 final size:15
Alignment explanation
Indices: 6884971--6885009 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
6884961 TTAAACTCTT
6884971 AAATCC-AAACCTCA
1 AAATCCAAAACCTCA
*
6884985 AAATCCAAAATCCTTA
1 AAATCCAAAA-CCTCA
6885001 AAATCCAAA
1 AAATCCAAA
6885010 CTCTTAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 3 0.14
16 13 0.59
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATCCAAAACCTCA
Found at i:6885017 original size:15 final size:15
Alignment explanation
Indices: 6884963--6885017 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 15
6884953 TCAAACCTTT
6884963 AAACTCTT-AAATCC
1 AAACTCTTAAAATCC
*
6884977 AAAC-CTCAAAATCC
1 AAACTCTTAAAATCC
*
6884991 AAAATCCTTAAAATCC
1 AAACT-CTTAAAATCC
6885007 AAACTCTTAAA
1 AAACTCTTAAA
6885018 TCAAAACCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 2 0.06
14 13 0.38
15 6 0.18
16 13 0.38
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (15 bp):
AAACTCTTAAAATCC
Found at i:6885041 original size:51 final size:51
Alignment explanation
Indices: 6884975--6885083 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 51
6884965 ACTCTTAAAT
* * *
6884975 CCAAACCTCAAAATCCAAAATCCTTAAAATC-C-AAACTCTTAAATCAAAACC
1 CCAAACCACAAAATCC-AAA-CCTTAAAATCTCTAAACTCTAAAATAAAAACC
*
6885026 CCAAACCACAAAATCCAAACCTTAAAATCTCTTAACTCTAAAATAAAAACC
1 CCAAACCACAAAATCCAAACCTTAAAATCTCTAAACTCTAAAATAAAAACC
*
6885077 CTAAACC
1 CCAAACC
6885084 TTCATATCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 10 0.20
50 4 0.08
51 37 0.73
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (51 bp):
CCAAACCACAAAATCCAAACCTTAAAATCTCTAAACTCTAAAATAAAAACC
Found at i:6893426 original size:41 final size:41
Alignment explanation
Indices: 6893363--6893467 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 41
6893353 TTAAAGTTTT
* * *
6893363 AAAGTCTCTGTTTAAGAAGAACC-ATTCTTAATCAAGATTTC
1 AAAGCCTCTGTTTAAGAGGAACCAATT-TCAATCAAGATTTC
6893404 AAAGCCTCTGTTTAAGAGGAACCAATTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAGAGGAACCAATTTCAATCAAGATTTC
*
6893445 AAAGCCTCTATTTAA-AGGGAACC
1 AAAGCCTCTGTTTAAGA-GGAACC
6893468 TTCCTCAGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 1 0.02
41 54 0.93
42 3 0.05
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (41 bp):
AAAGCCTCTGTTTAAGAGGAACCAATTTCAATCAAGATTTC
Found at i:6893735 original size:21 final size:23
Alignment explanation
Indices: 6893705--6893762 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 23
6893695 GTCAATTCTA
*
6893705 TAAGACCTCCGGGTATGATTTT-
1 TAAGACCTCCGGGCATGATTTTC
*
6893727 TAA-ACCTCCGAGCATGATTTTC
1 TAAGACCTCCGGGCATGATTTTC
*
6893749 TAAGACTTCCGGGC
1 TAAGACCTCCGGGC
6893763 TGTAAGACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 16 0.53
22 6 0.20
23 8 0.27
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (23 bp):
TAAGACCTCCGGGCATGATTTTC
Found at i:6893968 original size:110 final size:110
Alignment explanation
Indices: 6893765--6893992 Score: 309
Period size: 110 Copynumber: 2.1 Consensus size: 110
6893755 TTCCGGGCTG
*
6893765 TAAGACCTTCGGGCATAAATTCAATTCGCGATGTTATCTCGATCGATTCTTTATCTTTTGACTTC
1 TAAGACCTTCGGGCATAAATTCAATTCACGATGTTATCTCGATCGATTCTTTATCTTTTGACTTC
** * * *
6893830 TGGTGTTATCCTAGTCAATTCTGTAAGACCTTCAGGCATAATTTTC
66 TAATATTATCCTAGTCAATTCTGTAAGACCTCCAGGCATAA-TGTC
** *
6893876 TAAGACCTTCGGGCATAAATTTGATTTACGATGTTATC-CTGATCGATT-TTTATCTTTTGACTT
1 TAAGACCTTCGGGCATAAATTCAATTCACGATGTTATCTC-GATCGATTCTTTATCTTTTGACTT
* *
6893939 AC-AATATTATCCTAGTCAATTCTGTAAGACCTCCGGGCATGATGTC
65 -CTAATATTATCCTAGTCAATTCTGTAAGACCTCCAGGCATAATGTC
6893985 TAAGACCT
1 TAAGACCT
6893993 CCAGGCATGA
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
109 11 0.11
110 50 0.48
111 43 0.41
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (110 bp):
TAAGACCTTCGGGCATAAATTCAATTCACGATGTTATCTCGATCGATTCTTTATCTTTTGACTTC
TAATATTATCCTAGTCAATTCTGTAAGACCTCCAGGCATAATGTC
Found at i:6893991 original size:22 final size:21
Alignment explanation
Indices: 6893963--6894047 Score: 93
Period size: 22 Copynumber: 4.0 Consensus size: 21
6893953 GTCAATTCTG
6893963 TAAGACCTCCGGGCATGATGTC
1 TAAGACCTCCGGGCATGAT-TC
*
6893985 TAAGACCTCCAGGCATGATTTC
1 TAAGACCTCCGGGCATGA-TTC
* *
6894007 TAAGACCTCCGAG--TAATTC
1 TAAGACCTCCGGGCATGATTC
6894026 TATAAGACCTCCGGGCATGATT
1 --TAAGACCTCCGGGCATGATT
6894048 TTATAAAACC
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 3 0.06
20 2 0.04
21 12 0.23
22 30 0.58
23 5 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
TAAGACCTCCGGGCATGATTC
Found at i:6894221 original size:23 final size:23
Alignment explanation
Indices: 6894155--6894222 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 23
6894145 TCCCAATCAT
* * *
6894155 TTCTGTAAGACCTTCGGGCATGA
1 TTCTATAAGACCTCCGGGCATAA
* * *
6894178 TT-TTTAAAACATCC-GG-ATAA
1 TTCTATAAGACCTCCGGGCATAA
6894198 TTCTATAAGACCTCCGGGCATAA
1 TTCTATAAGACCTCCGGGCATAA
6894221 TT
1 TT
6894223 TTGATTCGCG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
20 5 0.15
21 11 0.32
22 10 0.29
23 8 0.24
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (23 bp):
TTCTATAAGACCTCCGGGCATAA
Found at i:6894430 original size:108 final size:109
Alignment explanation
Indices: 6894203--6894706 Score: 512
Period size: 109 Copynumber: 4.6 Consensus size: 109
6894193 GATAATTCTA
* * * * * ** * * *
6894203 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTGTCTCAATCGATTCTTTA-TTTCTGACTTG
1 TAAGACCTCCGAGCATAAATTCGATTCGCGATGTTATCTTGATCGATTCTTTATTTTTTAACTTA
* *
6894267 CGGTGTTATCCCAATCAATTCTGTAAGACCTCCGGGCATGATTTC
66 CGAT-TTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTC
* * * * * * *
6894312 TAAGACCTCCGAGCATAAATTCAATTCGCAATGTT-TTTTGATCAATTCTTTATCTTTTGACTTG
1 TAAGACCTCCGAGCATAAATTCGATTCGCGATGTTATCTTGATCGATTCTTTATTTTTTAACTTA
* * * * *
6894376 TGGTGTTATCCCAATCGA-TCTGTAAGACCTCCGGGCATGATATC
66 CGAT-TTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTC
* * **
6894420 TAAGACCTCCGAGCATAAATTCGATTCGTGATATTATCCCGATCGATTCTTTATTTTTTAACTTA
1 TAAGACCTCCGAGCATAAATTCGATTCGCGATGTTATCTTGATCGATTCTTTATTTTTTAACTTA
* * * *
6894485 CAATTTATCCCAATCAATTCTATAAGACCTCTGGACATGATTTG
66 CGATTTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTC
* * * *
6894529 TAAGACCTCCG-GACATAAATTTGATTCGCGGTGTTATCTTGATTGATTTTTTATTTTTTAACTT
1 TAAGACCTCCGAG-CATAAATTCGATTCGCGATGTTATCTTGATCGATTCTTTATTTTTTAACTT
* * * * * *
6894593 ACGATTTATCTCAATCGATTTTGTAAGACTTTCGGACATGATTTG
65 ACGATTTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTC
* * * ** * *
6894638 TAAGACCTCCGGGCATAAATTCGATTCGTGATATTATCTCAATCGATTCATTATTTTTTGACTTA
1 TAAGACCTCCGAGCATAAATTCGATTCGCGATGTTATCTTGATCGATTCTTTATTTTTTAACTTA
6894703 CGAT
66 CGAT
6894707 ATCATCTCAA
Statistics
Matches: 329, Mismatches: 61, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
108 82 0.25
109 246 0.75
110 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (109 bp):
TAAGACCTCCGAGCATAAATTCGATTCGCGATGTTATCTTGATCGATTCTTTATTTTTTAACTTA
CGATTTATCCCAATCAATTCTGTAAGACCTCCGGACATGATTTC
Found at i:6894931 original size:31 final size:31
Alignment explanation
Indices: 6894869--6894931 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
6894859 AATTTTAATG
* **
6894869 ATAATATTAATAATAATAATAATATTTAAAA
1 ATAATATTAATAATAATAAAAATATAAAAAA
*
6894900 ATAATTATTAATTAT-ATAAAAATATAAAAAA
1 ATAA-TATTAATAATAATAAAAATATAAAAAA
6894931 A
1 A
6894932 ACAAAAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
ATAATATTAATAATAATAAAAATATAAAAAA
Found at i:6896396 original size:17 final size:17
Alignment explanation
Indices: 6896376--6896446 Score: 76
Period size: 17 Copynumber: 4.2 Consensus size: 17
6896366 CTAAGTTTTT
6896376 AAAACCCCTAAAAATCC
1 AAAACCCCTAAAAATCC
*
6896393 AAAACCTC-ATAAAATCC
1 AAAACCCCTA-AAAATCC
* *
6896410 GAAACTCCT-AAAATCC
1 AAAACCCCTAAAAATCC
6896426 AAAA-CCCTAAAAAATCC
1 AAAACCCCT-AAAAATCC
6896443 AAAA
1 AAAA
6896447 TCTCCAAACC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 3 0.07
16 11 0.25
17 30 0.68
ACGTcount: A:0.55, C:0.30, G:0.01, T:0.14
Consensus pattern (17 bp):
AAAACCCCTAAAAATCC
Found at i:6896423 original size:16 final size:16
Alignment explanation
Indices: 6896376--6896506 Score: 80
Period size: 16 Copynumber: 8.2 Consensus size: 16
6896366 CTAAGTTTTT
*
6896376 AAAACCCCTAAAAATCC
1 AAAACTCCT-AAAATCC
*
6896393 AAAACCTCATAAAATCC
1 AAAA-CTCCTAAAATCC
*
6896410 GAAACTCCTAAAATCC
1 AAAACTCCTAAAATCC
6896426 AAAAC-CCTAAAAAATCC
1 AAAACTCCT--AAAATCC
6896443 AAAATCTCC--AAA-CC
1 AAAA-CTCCTAAAATCC
* *
6896457 TTTAAACT-CTTAAATCC
1 --AAAACTCCTAAAATCC
*
6896474 AAACCT-C-AAAATCC
1 AAAACTCCTAAAATCC
6896488 AAAA-TCCTTAAAATCC
1 AAAACTCC-TAAAATCC
6896504 AAA
1 AAA
6896507 CTCTTAAATC
Statistics
Matches: 91, Mismatches: 10, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
13 1 0.01
14 13 0.14
15 13 0.14
16 31 0.34
17 27 0.30
18 4 0.04
19 2 0.02
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.19
Consensus pattern (16 bp):
AAAACTCCTAAAATCC
Found at i:6896440 original size:33 final size:34
Alignment explanation
Indices: 6896376--6896451 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 34
6896366 CTAAGTTTTT
* *
6896376 AAAACCCCTAAAAATCCAAAACCTCATAAAATCC
1 AAAACTCCTAAAAATCCAAAACCTCAAAAAATCC
*
6896410 GAAACTCCT-AAAATCCAAAACC-CTAAAAAATCC
1 AAAACTCCTAAAAATCCAAAACCTC-AAAAAATCC
6896443 AAAATCTCC
1 AAAA-CTCC
6896452 AAACCTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 1 0.03
33 24 0.67
34 11 0.31
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.16
Consensus pattern (34 bp):
AAAACTCCTAAAAATCCAAAACCTCAAAAAATCC
Found at i:6896549 original size:14 final size:14
Alignment explanation
Indices: 6896523--6896578 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
6896513 AATCAAAACC
6896523 CCAAACCAC-AAAAT
1 CCAAACC-CTAAAAT
6896537 CCAAACCCTAAAAT
1 CCAAACCCTAAAAT
**
6896551 CTCTAAACTTTAAAAT
1 C-C-AAACCCTAAAAT
*
6896567 CAAAACCCTAAA
1 CCAAACCCTAAA
6896579 CCTTCCATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.03
14 21 0.62
15 1 0.03
16 11 0.32
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (14 bp):
CCAAACCCTAAAAT
Found at i:6896559 original size:51 final size:51
Alignment explanation
Indices: 6896472--6896580 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 51
6896462 ACTCTTAAAT
* *
6896472 CCAAACCTCAAAATCCAAAATCCTTAAAATCCAAACTCTT-AAATCAAAACC
1 CCAAACCACAAAATCCAAAATCCCTAAAATCCAAACT-TTAAAATCAAAACC
6896523 CCAAACCACAAAATCC-AAA-CCCTAAAATCTCTAAACTTTAAAATCAAAACC
1 CCAAACCACAAAATCCAAAATCCCTAAAATC-C-AAACTTTAAAATCAAAACC
*
6896574 CTAAACC
1 CCAAACC
6896581 TTCCATATCC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
49 9 0.17
50 6 0.12
51 37 0.71
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (51 bp):
CCAAACCACAAAATCCAAAATCCCTAAAATCCAAACTTTAAAATCAAAACC
Found at i:6901274 original size:16 final size:16
Alignment explanation
Indices: 6901250--6901285 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6901240 GATAAACGAT
*
6901250 TGATAATGATGATTTA
1 TGATAATGATGACTTA
*
6901266 TGATTATGATGACTTA
1 TGATAATGATGACTTA
6901282 TGAT
1 TGAT
6901286 GATTTTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.44
Consensus pattern (16 bp):
TGATAATGATGACTTA
Found at i:6904732 original size:18 final size:18
Alignment explanation
Indices: 6904699--6904733 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6904689 ATATAATACT
*
6904699 TAAAATAATTATTTTTCA
1 TAAAATAATTACTTTTCA
*
6904717 TAAAATAATTCCTTTTC
1 TAAAATAATTACTTTTC
6904734 GTCATTAAAT
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:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATAATTACTTTTCA
Found at i:6905903 original size:28 final size:29
Alignment explanation
Indices: 6905834--6905903 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
6905824 ACTCGATCTA
* * *
6905834 ATTTAACATATTAA-ATTATTGTTAAAAT
1 ATTTAAAATATTAATATTAGTATTAAAAT
**
6905862 ATTTTTAATA-TAATATTAGTATTAAAAT
1 ATTTAAAATATTAATATTAGTATTAAAAT
6905890 A-TTAAAATATTAAT
1 ATTTAAAATATTAAT
6905904 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (29 bp):
ATTTAAAATATTAATATTAGTATTAAAAT
Found at i:6905912 original size:22 final size:24
Alignment explanation
Indices: 6905887--6905932 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
6905877 TTAGTATTAA
6905887 AATATTAAAATAT-TA-ATTTTTT
1 AATATTAAAATATATATATTTTTT
**
6905909 AATATTTTAATATATATATTTTTT
1 AATATTAAAATATATATATTTTTT
6905933 TTTTTGGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 2 0.10
24 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
AATATTAAAATATATATATTTTTT
Found at i:6915953 original size:55 final size:54
Alignment explanation
Indices: 6915863--6915973 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 54
6915853 GGTCTGTTTG
* * *
6915863 GATGAGCGTTAAGGTTGAAATAATAATGAAAGTAAAATTAATCATTATAATAGT
1 GATGAGCATTAAGATTGAAATAATAATAAAAGTAAAATTAATCATTATAATAGT
*
6915917 GATGAGCATTAAGATTGAAAATAATAATAAAAGTAAAATTAATTATTATAATAGT
1 GATGAGCATTAAGATTG-AAATAATAATAAAAGTAAAATTAATCATTATAATAGT
6915972 GA
1 GA
6915974 GATTAAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 15 0.29
55 37 0.71
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.32
Consensus pattern (54 bp):
GATGAGCATTAAGATTGAAATAATAATAAAAGTAAAATTAATCATTATAATAGT
Found at i:6915969 original size:27 final size:26
Alignment explanation
Indices: 6915937--6915995 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
6915927 AAGATTGAAA
6915937 ATAATAATAAAAGTAAAATTAATTATT
1 ATAATAATAAAAGTAAAATTAATTA-T
* * * *
6915964 ATAATAGTGAGATTAAAATTAATTAT
1 ATAATAATAAAAGTAAAATTAATTAT
6915990 ATAATA
1 ATAATA
6915996 TGTATTTGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (26 bp):
ATAATAATAAAAGTAAAATTAATTAT
Found at i:6918314 original size:2 final size:2
Alignment explanation
Indices: 6918309--6918338 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6918299 TCTCTCTTTC
6918309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6918339 AAATTAGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6925430 original size:6 final size:6
Alignment explanation
Indices: 6925419--6925454 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
6925409 TTTTTTGGGT
*
6925419 TTTTTA TTTTTA TTTTTA TTTTTTA ATTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTT
6925455 TCTTTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:6925441 original size:13 final size:13
Alignment explanation
Indices: 6925419--6925461 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
6925409 TTTTTTGGGT
6925419 TTTTTA-TTTTTA
1 TTTTTATTTTTTA
6925431 TTTTTATTTTTTA
1 TTTTTATTTTTTA
* *
6925444 ATTTTATTTTTTC
1 TTTTTATTTTTTA
6925457 TTTTT
1 TTTTT
6925462 TCCTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:6925461 original size:19 final size:19
Alignment explanation
Indices: 6925418--6925454 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6925408 ATTTTTTGGG
*
6925418 TTTTTTATTTTTATTTTTA
1 TTTTTTAATTTTATTTTTA
6925437 TTTTTTAATTTTATTTTT
1 TTTTTTAATTTTATTTTT
6925455 TCTTTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTAATTTTATTTTTA
Found at i:6936714 original size:2 final size:2
Alignment explanation
Indices: 6936707--6936737 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6936697 CGCCGATACC
6936707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6936738 ACACACAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6939454 original size:12 final size:12
Alignment explanation
Indices: 6939433--6939469 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6939423 AACCAGACCA
6939433 AAAAAAAAAAAG
1 AAAAAAAAAAAG
* *
6939445 AAAGAAAAAACG
1 AAAAAAAAAAAG
6939457 AAAAAAAAAAAG
1 AAAAAAAAAAAG
6939469 A
1 A
6939470 TTCTGCCGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:6947502 original size:12 final size:12
Alignment explanation
Indices: 6947485--6947509 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6947475 AACCAGACCA
6947485 AAAAAAAAAAAG
1 AAAAAAAAAAAG
6947497 AAAAAAAAAAAG
1 AAAAAAAAAAAG
6947509 A
1 A
6947510 TTCTGCCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:6948548 original size:19 final size:18
Alignment explanation
Indices: 6948508--6948553 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6948498 TTTTTTAAAA
* * *
6948508 TAATAAATAAAAATTGAT
1 TAATAAAAAAAAATTAAG
6948526 TAATAAAAAAAAATATAAG
1 TAATAAAAAAAAAT-TAAG
6948545 TAATAAAAA
1 TAATAAAAA
6948554 TAGGAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (18 bp):
TAATAAAAAAAAATTAAG
Found at i:6960629 original size:45 final size:45
Alignment explanation
Indices: 6960565--6961110 Score: 689
Period size: 45 Copynumber: 11.9 Consensus size: 45
6960555 AAAAGATAAA
* ** *
6960565 ATTTTAAAGTTGTGGAGCCTCTATTGAGAGGAGCTTTTTCATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
* * *
6960610 ATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
*
6960655 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCATTTTTCATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-CTTTTCATGAG
* * *
6960701 ATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
*
6960746 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAAGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
*
6960791 AATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAG-CTTTTCCAGATGAG
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C--ATGAG
*
6960839 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAA
1 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
* *
6960885 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAAGATA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGA-G
* * *
6960931 ATTTTAAAGTCGTTGAGCCTCTGCTGAGATGAGCCTTTTCAAGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
* * * * *
6960976 AATTTTTAAAGTTGTTAAGCCTCTGTTAAGATGAGCCTTTTCAAGAG
1 -A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
** * * * * *
6961023 AATTTTAAAGTCATTGAGCCTCTACTGAGAGGTGCTTTTTCAAGATAAA
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC---ATGAG
6961072 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
6961111 AAACTTTCAA
Statistics
Matches: 450, Mismatches: 38, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
45 175 0.39
46 155 0.34
47 43 0.10
48 70 0.16
49 7 0.02
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (45 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG
Found at i:6960720 original size:91 final size:90
Alignment explanation
Indices: 6960565--6961110 Score: 689
Period size: 91 Copynumber: 5.9 Consensus size: 90
6960555 AAAAGATAAA
* ** * *
6960565 ATTTTAAAGTTGTGGAGCCTCTATTGAGAGGAGCTTTTTCATGAGATTTTAAAGTTGTGGAGCCT
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAGATTTTAAAGTTGTTGAGCCT
* *
6960630 CTGTTGAGAGGAGCTTTTTCATGAG
66 CTGCTGAGAGGAGCCTTTTCATGAG
* *
6960655 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCATTTTTCATGAGATTTTAAAGTTGTGGAGCC
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-CTTTTCATGAGATTTTAAAGTTGTTGAGCC
* *
6960720 TCTGTTGAGAGGAGCTTTTTCATGAG
65 TCTGCTGAGAGGAGCCTTTTCATGAG
* *
6960746 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAAGAGAATTTTAAAGTCGTTGAGCC
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG-ATTTTAAAGTTGTTGAGCC
6960811 TCTGCTGAGAGGAG-CTTTTCCAGATGAG
65 TCTGCTGAGAGGAGCCTTTT-C--ATGAG
*
6960839 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAAATTTTAAAGTTGTTGAGCC
1 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAGATTTTAAAGTTGTTGAGCC
* *
6960904 TCTGCTGAGAGGAGCCTTTTCAAGATA
65 TCTGCTGAGAGGAGCCTTTTCATGA-G
* * * *
6960931 ATTTTAAAGTCGTTGAGCCTCTGCTGAGATGAGCCTTTTCAAGAGAATTTTTAAAGTTGTTAAGC
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAG-A-TTTTAAAGTTGTTGAGC
* * * *
6960996 CTCTGTTAAGATGAGCCTTTTCAAGAG
64 CTCTGCTGAGAGGAGCCTTTTCATGAG
** * * * * *
6961023 AATTTTAAAGTCATTGAGCCTCTACTGAGAGGTGCTTTTTCAAGATAAAATTTTAAAGTTGTTGA
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC---ATGAGATTTTAAAGTTGTTGA
6961088 GCCTCTGCTGAGAGGAGCCTTTT
62 GCCTCTGCTGAGAGGAGCCTTTT
6961111 AAACTTTCAA
Statistics
Matches: 407, Mismatches: 35, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
90 44 0.11
91 164 0.40
92 2 0.00
93 113 0.28
94 81 0.20
95 1 0.00
96 2 0.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (90 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCATGAGATTTTAAAGTTGTTGAGCCT
CTGCTGAGAGGAGCCTTTTCATGAG
Found at i:6961587 original size:12 final size:11
Alignment explanation
Indices: 6961567--6961601 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6961557 AACCAGACCA
6961567 AAAAAAAAAAG
1 AAAAAAAAAAG
*
6961578 AAAGAAAAAATG
1 AAA-AAAAAAAG
6961590 AAAAAAAAAAG
1 AAAAAAAAAAG
6961601 A
1 A
6961602 TTCTGCGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6961634 original size:21 final size:21
Alignment explanation
Indices: 6961609--6961650 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
6961599 AGATTCTGCG
*
6961609 AAAAAAAAAAATGCAGAAACAC
1 AAAAAAAAAAA-GCAAAAACAC
6961631 AAAAAAAAAAAGCAAAAACA
1 AAAAAAAAAAAGCAAAAACA
6961651 GTCCCCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.79, C:0.12, G:0.07, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAAGCAAAAACAC
Found at i:6964297 original size:29 final size:29
Alignment explanation
Indices: 6964228--6964297 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
6964218 AAATAATTTT
*
6964228 TAAATTATAATAAAATGTTAATATAGTATT
1 TAAATTATAA-AAAATGTTAATATAGTATC
* * *
6964258 TAAACTT-TAAAAATTTTTAATTTAGTATC
1 TAAA-TTATAAAAAATGTTAATATAGTATC
6964287 TAAATTATAAA
1 TAAATTATAAA
6964298 TCGATTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.06
29 23 0.68
30 7 0.21
31 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (29 bp):
TAAATTATAAAAAATGTTAATATAGTATC
Found at i:6964433 original size:29 final size:29
Alignment explanation
Indices: 6964371--6964453 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
6964361 TAAATAAATT
** *
6964371 TTTAAATATTATATTAATTAATAAATTTATAA
1 TTTAAATATTATATT-A--AATATTTTTAAAA
6964403 TTTAAATATTATATTAAATATTTTTAAAA
1 TTTAAATATTATATTAAATATTTTTAAAA
* * *
6964432 TTCAAATATCATATTTAATATT
1 TTTAAATATTATATTAAATATT
6964454 ACTTTATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 29 0.64
31 1 0.02
32 15 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAAATATTATATTAAATATTTTTAAAA
Found at i:6976531 original size:13 final size:13
Alignment explanation
Indices: 6976513--6976538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6976503 CTTATTTTTC
6976513 ATATATATATATA
1 ATATATATATATA
6976526 ATATATATATATA
1 ATATATATATATA
6976539 TTCCAACCAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:6979530 original size:21 final size:21
Alignment explanation
Indices: 6979504--6979551 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
6979494 ATTTTTAAAT
6979504 ATTTATATTTAAAAAATAATA
1 ATTTATATTTAAAAAATAATA
*
6979525 ATTTATATTTTAAAAATAATA
1 ATTTATATTTAAAAAATAATA
*
6979546 TTTTAT
1 ATTTAT
6979552 TAATTTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTATATTTAAAAAATAATA
Found at i:6983747 original size:21 final size:21
Alignment explanation
Indices: 6983708--6983747 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6983698 CATAAACTTA
* * *
6983708 AACAAAAATAATTATAAAATG
1 AACAAAAAGAAATAAAAAATG
6983729 AACAAAAAGAAATAAAAAA
1 AACAAAAAGAAATAAAAAA
6983748 ATGAGGGTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (21 bp):
AACAAAAAGAAATAAAAAATG
Found at i:6987028 original size:13 final size:12
Alignment explanation
Indices: 6987005--6987049 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
6986995 ATTGAGTTTG
6987005 AATTT-GATTTA
1 AATTTAGATTTA
6987016 AATTTAAGATTTAA
1 AATTT-AGATTT-A
6987030 AATTTAG-TTTA
1 AATTTAGATTTA
6987041 AATTT-GATT
1 AATTTAGATT
6987050 GAATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.03
11 13 0.43
12 3 0.10
13 7 0.23
14 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (12 bp):
AATTTAGATTTA
Found at i:6987774 original size:25 final size:26
Alignment explanation
Indices: 6987737--6987788 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
6987727 AGAAATCTTC
*
6987737 TGTTTTTTATAAAAAAAAAACAATTT
1 TGTTTTCTATAAAAAAAAAACAATTT
* *
6987763 TGTTTTCT-TAAACAAAACACAATTT
1 TGTTTTCTATAAAAAAAAAACAATTT
6987788 T
1 T
6987789 CTTTAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (26 bp):
TGTTTTCTATAAAAAAAAAACAATTT
Found at i:6992613 original size:15 final size:15
Alignment explanation
Indices: 6992587--6992622 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
6992577 ATAAAATAGG
6992587 ATAAATAAATAAAAAT
1 ATAAA-AAATAAAAAT
6992603 ATAAAAAATAAAAAT
1 ATAAAAAATAAAAAT
6992618 A-AAAA
1 ATAAAA
6992623 TAGAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAAAAATAAAAAT
Found at i:6992631 original size:21 final size:20
Alignment explanation
Indices: 6992593--6992636 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
6992583 TAGGATAAAT
*
6992593 AAATAAAAATATAAAAAATAA
1 AAATAAAAATAGAAAAAA-AA
6992614 AAATAAAAATAGAGAAAAAAA
1 AAATAAAAATAGA-AAAAAAA
6992635 AA
1 AA
6992637 GACTCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (20 bp):
AAATAAAAATAGAAAAAAAA
Found at i:6993961 original size:17 final size:17
Alignment explanation
Indices: 6993941--6993994 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
6993931 AAATTTTGCA
6993941 AATCTCCAATTCTTGTG
1 AATCTCCAATTCTTGTG
** * * *
6993958 AATCTAAAAATCTTATA
1 AATCTCCAATTCTTGTG
6993975 AATCTCCAATTCTTGTG
1 AATCTCCAATTCTTGTG
6993992 AAT
1 AAT
6993995 TTGAAATTCT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (17 bp):
AATCTCCAATTCTTGTG
Found at i:6993962 original size:34 final size:34
Alignment explanation
Indices: 6993924--6994007 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 34
6993914 AATTCATGCA
* *
6993924 AATCTGAAAATTTTGCAAATCTCCAATTCTTGTG
1 AATCTGAAAATCTTACAAATCTCCAATTCTTGTG
* *
6993958 AATCTAAAAATCTTATAAATCTCCAATTCTTGTG
1 AATCTGAAAATCTTACAAATCTCCAATTCTTGTG
* *
6993992 AATTTGAAATTCTTAC
1 AATCTGAAAATCTTAC
6994008 GAATTTTTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (34 bp):
AATCTGAAAATCTTACAAATCTCCAATTCTTGTG
Found at i:6993979 original size:68 final size:68
Alignment explanation
Indices: 6993851--6993986 Score: 155
Period size: 68 Copynumber: 2.0 Consensus size: 68
6993841 TTTTTTTAAA
* ** * * * * * *
6993851 ATGCGAATCTGAAAATTTTGTGAATCTCCAATTCTTACAAATTTTAAAGCCTTGTGAATCTTCAA
1 ATGCAAATCTGAAAATTTTGCAAATCTCCAATTCTTACAAATCTAAAAACCTTATAAATCTCCAA
6993916 TTC
66 TTC
*** *
6993919 ATGCAAATCTGAAAATTTTGCAAATCTCCAATTCTTGTGAATCTAAAAATCTTATAAATCTCCAA
1 ATGCAAATCTGAAAATTTTGCAAATCTCCAATTCTTACAAATCTAAAAACCTTATAAATCTCCAA
6993984 TTC
66 TTC
6993987 TTGTGAATTT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (68 bp):
ATGCAAATCTGAAAATTTTGCAAATCTCCAATTCTTACAAATCTAAAAACCTTATAAATCTCCAA
TTC
Found at i:6994265 original size:31 final size:30
Alignment explanation
Indices: 6994227--6994390 Score: 115
Period size: 31 Copynumber: 5.6 Consensus size: 30
6994217 GTGTTTCGGC
*
6994227 TCAATCCAAGTTATTCTCTTCAGACTTCAGT
1 TCAATCCAAGTTATTTTCTT-AGACTTCAGT
* ** * * *
6994258 TCAATCCAGGTCCTTTTGTT---CTTCGGC
1 TCAATCCAAGTTATTTTCTTAGACTTCAGT
* *
6994285 TCAGTCCAAGTTAGTTTCTTCAGACTTCAGT
1 TCAATCCAAGTTATTTTCTT-AGACTTCAGT
* * * * *
6994316 TTAATCCAAGTCATTTTGTT---CTTCGGC
1 TCAATCCAAGTTATTTTCTTAGACTTCAGT
6994343 TCAATCCAAGTTATTTTCTTTAGACTTCAGT
1 TCAATCCAAGTTATTTTC-TTAGACTTCAGT
* *
6994374 TCAATCCAGGTCATTTT
1 TCAATCCAAGTTATTTT
6994391 ATTCTTTGGC
Statistics
Matches: 96, Mismatches: 29, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
27 39 0.41
28 2 0.02
31 55 0.57
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (30 bp):
TCAATCCAAGTTATTTTCTTAGACTTCAGT
Found at i:6994283 original size:58 final size:58
Alignment explanation
Indices: 6994192--6994448 Score: 356
Period size: 58 Copynumber: 4.4 Consensus size: 58
6994182 GTAAAGTTGC
* *
6994192 ACTTCGGTTCCATCCAGGTCATTTTGTGT-TTCGGCTCAATCCAAGTTATTCTCTTCAG
1 ACTTCAGTTCAATCCAGGTCATTTTGT-TCTTCGGCTCAATCCAAGTTATTCTCTTCAG
* *
6994250 ACTTCAGTTCAATCCAGGTCCTTTTGTTCTTCGGCTCAGTCCAAGTTAGTT-TCTTCAG
1 ACTTCAGTTCAATCCAGGTCATTTTGTTCTTCGGCTCAATCCAAGTTA-TTCTCTTCAG
* * * *
6994308 ACTTCAGTTTAATCCAAGTCATTTTGTTCTTCGGCTCAATCCAAGTTATTTTCTTTAG
1 ACTTCAGTTCAATCCAGGTCATTTTGTTCTTCGGCTCAATCCAAGTTATTCTCTTCAG
* * * *
6994366 ACTTCAGTTCAATCCAGGTCATTTTATTCTTTGGCTCAGTCCAAGTTATTCTTTTCAG
1 ACTTCAGTTCAATCCAGGTCATTTTGTTCTTCGGCTCAATCCAAGTTATTCTCTTCAG
* *
6994424 ATTTCAGTTCAATCCAGGTAATTTT
1 ACTTCAGTTCAATCCAGGTCATTTT
6994449 ATTTTAGATT
Statistics
Matches: 177, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
57 3 0.02
58 172 0.97
59 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (58 bp):
ACTTCAGTTCAATCCAGGTCATTTTGTTCTTCGGCTCAATCCAAGTTATTCTCTTCAG
Found at i:6994348 original size:27 final size:27
Alignment explanation
Indices: 6994193--6994411 Score: 89
Period size: 27 Copynumber: 7.7 Consensus size: 27
6994183 TAAAGTTGCA
* * *
6994193 CTTCGGTTCCATCCAGGTCATTTTGTGT
1 CTTCGGCTCAATCCAAGTCATTTTGT-T
* * *
6994221 -TTCGGCTCAATCCAAGTTATTCTCTT
1 CTTCGGCTCAATCCAAGTCATTTTGTT
* * * *
6994247 CAGACTTCAGTTCAATCCAGGTCCTTTTGTT
1 ----CTTCGGCTCAATCCAAGTCATTTTGTT
* * * *
6994278 CTTCGGCTCAGTCCAAGTTAGTTTCTT
1 CTTCGGCTCAATCCAAGTCATTTTGTT
* * *
6994305 CAGACTTCAGTTTAATCCAAGTCATTTTGTT
1 ----CTTCGGCTCAATCCAAGTCATTTTGTT
* *
6994336 CTTCGGCTCAATCCAAGTTATTTTCTTT
1 CTTCGGCTCAATCCAAGTCATTTT-GTT
* * * *
6994364 AGACTTCAGTTCAATCCAGGTCATTTTATT
1 ---CTTCGGCTCAATCCAAGTCATTTTGTT
* *
6994394 CTTTGGCTCAGTCCAAGT
1 CTTCGGCTCAATCCAAGT
6994412 TATTCTTTTC
Statistics
Matches: 135, Mismatches: 43, Indels: 27
0.66 0.21 0.13
Matches are distributed among these distances:
26 1 0.01
27 71 0.53
28 2 0.01
30 2 0.01
31 59 0.44
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (27 bp):
CTTCGGCTCAATCCAAGTCATTTTGTT
Found at i:6994539 original size:57 final size:57
Alignment explanation
Indices: 6994477--6994652 Score: 201
Period size: 57 Copynumber: 3.1 Consensus size: 57
6994467 TGCCAGATCT
* * * * *
6994477 TTTTTTGACTCAGTCCAAGTTATTCTCTTCAAACTTTGGTTAATCCAGGTCATTTTG
1 TTTTTTGGCTTAGTCCAAGTTATTCTTTTCAGACTTTGGTTAATCCAAGTCATTTTG
* * * *
6994534 TTTTTTGGCTTAGTCCAAGTTATTCTTTTTAGA-TTGGGTTTAATGCAAGTTATTTTG
1 TTTTTTGGCTTAGTCCAAGTTATTCTTTTCAGACTTTGG-TTAATCCAAGTCATTTTG
* * * * *
6994591 TTCTTTGGCTTAGTCCAAATTATTCTTTTCAGACTTTCGTTCAATCTATGTCATTTTG
1 TTTTTTGGCTTAGTCCAAGTTATTCTTTTCAGACTTTGGTT-AATCCAAGTCATTTTG
6994649 TTTT
1 TTTT
6994653 GGATTTCGAC
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.04
57 75 0.77
58 18 0.19
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (57 bp):
TTTTTTGGCTTAGTCCAAGTTATTCTTTTCAGACTTTGGTTAATCCAAGTCATTTTG
Found at i:6994613 original size:27 final size:27
Alignment explanation
Indices: 6994511--6994614 Score: 75
Period size: 27 Copynumber: 3.8 Consensus size: 27
6994501 CTCTTCAAAC
* * * *
6994511 TTTGG-TTAATCCAGGTCATTTTGTTT
1 TTTGGCTTAGTCCAAGTTATTTTGTTA
*
6994537 TTTGGCTTAGTCCAAGTTATTCTTTTTAGA
1 TTTGGCTTAGTCCAAGTTATT-TTGTT--A
* * * * *
6994567 TTGGGTTTAATGCAAGTTATTTTGTTC
1 TTTGGCTTAGTCCAAGTTATTTTGTTA
*
6994594 TTTGGCTTAGTCCAAATTATT
1 TTTGGCTTAGTCCAAGTTATT
6994615 CTTTTCAGAC
Statistics
Matches: 58, Mismatches: 16, Indels: 7
0.72 0.20 0.09
Matches are distributed among these distances:
26 5 0.09
27 28 0.48
28 4 0.07
29 4 0.07
30 17 0.29
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (27 bp):
TTTGGCTTAGTCCAAGTTATTTTGTTA
Found at i:6994635 original size:199 final size:200
Alignment explanation
Indices: 6994276--6994736 Score: 531
Period size: 199 Copynumber: 2.3 Consensus size: 200
6994266 GGTCCTTTTG
* * *
6994276 TTCTTCGGCTCAGTCCAAGTTAGTT-TCTTCAGACTTCAGTTTAATCCAAGTCATTTTGTTCTTC
1 TTCTTCCGCTCAGTCCAAGTTA-TTCTCTTCAGACTT-AGTTTAATCCAGGTCATTTTGTTTTTC
*
6994340 GGCTCAATCCAAGTTATTTTCTTTAGACTTCAGTTCAATCCAGGTCATTTTATTCTTTGGCTCAG
64 GGCTCAATCCAAGTTATTTTCTTTAGACTTCAGTTCAATCCAAGTCATTTTATTCTTTGGCTCAG
*
6994405 TCCAAGTTATTCTTTTCAGATTTCAGTTCAATCCAGGTAATTTTATTTTAGATTTC-AGCTTATG
129 TCCAAATTATTCTTTTCAGATTTCAGTTCAATCCAGGTAATTTTATTTTAGATTTCGA-CTTATG
6994469 CCAGAT-C
193 CCAGATCC
* ** * * * *
6994476 TTTTTTTGACTCAGTCCAAGTTATTCTCTTCAAACTTTGGTTAATCCAGGTCATTTTGTTTTTTG
1 TTCTTCCG-CTCAGTCCAAGTTATTCTCTTCAGACTTAGTTTAATCCAGGTCATTTTGTTTTTCG
* * ** * * * * *
6994541 GCTTAGTCCAAGTTATTCTT-TTTAGA-TTGGGTTTAATGCAAGTTATTTTGTTCTTTGGCTTAG
65 GCTCAATCCAAGTTATT-TTCTTTAGACTTCAGTTCAATCCAAGTCATTTTATTCTTTGGCTCAG
* * * * *
6994604 TCCAAATTATTCTTTTCAGACTTTC-GTTCAATCTATGTCATTTTGTTTTGGATTTCGACTTATG
129 TCCAAATTATTCTTTTCAGA-TTTCAGTTCAATCCAGGTAATTTTATTTTAGATTTCGACTTATG
6994668 CCAGATCC
193 CCAGATCC
* * * * *
6994676 TTCTTCCGTTTAGTCCAAGTTATTCTTTTTAGACTTCGATTTAATCCAGGTCATTTT-TTTT
1 TTCTTCCGCTCAGTCCAAGTTATTCTCTTCAGACTTAG-TTTAATCCAGGTCATTTTGTTTT
6994737 GGATTTCAAC
Statistics
Matches: 219, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
199 114 0.52
200 79 0.36
201 26 0.12
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (200 bp):
TTCTTCCGCTCAGTCCAAGTTATTCTCTTCAGACTTAGTTTAATCCAGGTCATTTTGTTTTTCGG
CTCAATCCAAGTTATTTTCTTTAGACTTCAGTTCAATCCAAGTCATTTTATTCTTTGGCTCAGTC
CAAATTATTCTTTTCAGATTTCAGTTCAATCCAGGTAATTTTATTTTAGATTTCGACTTATGCCA
GATCC
Found at i:6994773 original size:84 final size:85
Alignment explanation
Indices: 6994598--6994843 Score: 325
Period size: 84 Copynumber: 2.9 Consensus size: 85
6994588 TTGTTCTTTG
* * *
6994598 GCTTAGTCCAAATTATTCTTTTCAGACTTTCG-TTCAATCTATGTCATTTTGTTTTGGATTTCGA
1 GCTTAGTCCAAGTTATTCTTTTCAGAC-TTCGATTCAATCTAGGTCATTTTATTTTGGATTTCGA
* * *
6994662 CTTATGCCAGATCCTTCTTCC
65 CCTATGCCAAATCCTTCTTCA
* * * * *
6994683 GTTTAGTCCAAGTTATTCTTTTTAGACTTCGATTTAATCCAGGTCATTTT-TTTTGGATTTCAAC
1 GCTTAGTCCAAGTTATTCTTTTCAGACTTCGATTCAATCTAGGTCATTTTATTTTGGATTTCGAC
6994747 CTATGCCAAATCCTTCTTCA
66 CTATGCCAAATCCTTCTTCA
* * * *
6994767 GCTTAGTCCAAGTTATTCATTTCAGATTTTGATTCAATCTAGGTTATTTTATTTTGGATTTCGAC
1 GCTTAGTCCAAGTTATTCTTTTCAGACTTCGATTCAATCTAGGTCATTTTATTTTGGATTTCGAC
*
6994832 CTATGTCAAATC
66 CTATGCCAAATC
6994844 TATCTCCGGA
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
84 76 0.55
85 63 0.45
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.46
Consensus pattern (85 bp):
GCTTAGTCCAAGTTATTCTTTTCAGACTTCGATTCAATCTAGGTCATTTTATTTTGGATTTCGAC
CTATGCCAAATCCTTCTTCA
Found at i:6996902 original size:60 final size:59
Alignment explanation
Indices: 6996524--6996964 Score: 457
Period size: 59 Copynumber: 7.5 Consensus size: 59
6996514 AAAATTAAGA
* *
6996524 AAAAGTTGAAAGTATCAATTTTTTTTGAAAAT-AAAATTTCAAAAAAATATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAGATATTTTTGAGG
* * * * *
6996582 AAAAGTTAAAAGTATAAATTTTTCTTGAAAATTAAAATTT-TAAAAGGTATTTTTG-GG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAGATATTTTTGAGG
* * **
6996639 AAAAGTTGAAAGCATCAATTTTTCTTAAAAATAAAAAAAAACTCAAAAA-ATATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAAT---AAAAATTTCAAAAAGATATTTTTGAGG
* * *
6996700 AAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATTAAAATTTCAAAAAAATATTTTTGAAG
1 AAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAAATTTCAAAAAGATATTTTTGAGG
* * * *
6996759 AAAAGTTGAAAATATCACTTTTTCTCGAAAATAAAAATTTCAAAAAGATACTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAGATATTTTTGAGG
* * * * ** * *
6996818 AAAAATTAAAAATATTAATTTTTCTCAAAAATAAAAATTTCAAAAGAGGTATATTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAA-AGATATTTTTGAGG
* * ** ** *
6996878 AAAAGTTGAAAGTATTAATTTTTCTT-AGGAATAAAAATTT-TGAAAGATGCTTTTG-GAA
1 AAAAGTTGAAAGTATCAATTTTTCTTGA-AAATAAAAATTTCAAAAAGATATTTTTGAG-G
*
6996936 AAAAGTTGAAAGTATCAATTTTTTTTGAA
1 AAAAGTTGAAAGTATCAATTTTTCTTGAA
6996965 TAAAGACATG
Statistics
Matches: 319, Mismatches: 51, Indels: 26
0.81 0.13 0.07
Matches are distributed among these distances:
57 31 0.10
58 83 0.26
59 108 0.34
60 67 0.21
61 30 0.09
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (59 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAGATATTTTTGAGG
Found at i:6997975 original size:2 final size:2
Alignment explanation
Indices: 6997970--6997994 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6997960 TTGGTTCATC
6997970 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6997995 CATTTCTTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6998728 original size:25 final size:25
Alignment explanation
Indices: 6998694--6998742 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6998684 GCACTTTTAG
6998694 TTTATTATTATATTAAATAGTATCT
1 TTTATTATTATATTAAATAGTATCT
6998719 TTTATTATTATATTAAATAGTATC
1 TTTATTATTATATTAAATAGTATC
6998743 ATTACTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTATTATTATATTAAATAGTATCT
Found at i:6998757 original size:25 final size:25
Alignment explanation
Indices: 6998695--6998757 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
6998685 CACTTTTAGT
* *
6998695 TTATTATTATATTAAATAGTATCTT
1 TTATTAATATATTAAATAGTATCTA
*
6998720 TTATTATTATATTAAATAGTATC-A
1 TTATTAATATATTAAATAGTATCTA
*
6998744 TTACTTAATGTATT
1 TTA-TTAATATATT
6998758 GTTTTGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 3 0.09
25 31 0.91
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (25 bp):
TTATTAATATATTAAATAGTATCTA
Found at i:7000419 original size:40 final size:40
Alignment explanation
Indices: 7000355--7000436 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
7000345 TGTCTCTACT
* * *
7000355 TAAATTAATTTCTATTACTTGTTATACTTATAATTGGATA
1 TAAATTAACTTCTATTACTAGTTATACTTATAATTGCATA
* * *
7000395 TAAATTAACTTGTATTTCTAGTTATACTTGTAATTGCATA
1 TAAATTAACTTCTATTACTAGTTATACTTATAATTGCATA
7000435 TA
1 TA
7000437 TGGCTCTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (40 bp):
TAAATTAACTTCTATTACTAGTTATACTTATAATTGCATA
Found at i:7001122 original size:9 final size:10
Alignment explanation
Indices: 7001095--7001122 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7001085 TAAATATATC
7001095 AAAATTTTTT
1 AAAATTTTTT
7001105 AAAATTTTTT
1 AAAATTTTTT
7001115 AAAATTTT
1 AAAATTTT
7001123 ATACGTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AAAATTTTTT
Done.