Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 73 of 93
Found at i:10574751 original size:109 final size:110
Alignment explanation
Indices: 10574510--10574756 Score: 280
Period size: 109 Copynumber: 2.3 Consensus size: 110
10574500 ATGTCTGGAG
* * * * ** * *
10574510 GTCTTAAGAATCATGTCTGGAGGTCTTACAGAATCAATTGGGATAACATCGTAAGTCAAAAAATA
1 GTCTTAAAAATCATGCCTGAAGGTCTTACAGAATCAACTGAAATAACACCGTAAATCAAAAAATA
* * * * * *
10574575 AAGAATCGATCGAGATAATATCGCGAATCAAAATTATGCTCGGAG
66 AAGAATCAATCGAGATAACACCACGAATCAAAATTATGCTCGAAA
* * * * *
10574620 GTCTTAGAAATTATGCTTGAAGGTCTTATAGAATCAACTGAAATAACACCGTAAATTAAAAAATA
1 GTCTTAAAAATCATGCCTGAAGGTCTTACAGAATCAACTGAAATAACACCGTAAATCAAAAAATA
* * *
10574685 AA-AATTAATCGGGATAACACCACGAATCAAAATTATGCTTGAAA
66 AAGAATCAATCGAGATAACACCACGAATCAAAATTATGCTCGAAA
*
10574729 GTCTTAAAAATCATGCCCGAAGGTCTTA
1 GTCTTAAAAATCATGCCTGAAGGTCTTA
10574757 AAAATCATGT
Statistics
Matches: 111, Mismatches: 26, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
109 57 0.51
110 54 0.49
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (110 bp):
GTCTTAAAAATCATGCCTGAAGGTCTTACAGAATCAACTGAAATAACACCGTAAATCAAAAAATA
AAGAATCAATCGAGATAACACCACGAATCAAAATTATGCTCGAAA
Found at i:10574774 original size:22 final size:22
Alignment explanation
Indices: 10574729--10574778 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
10574719 ATGCTTGAAA
10574729 GTCTTAAAAATCATGCCCGAAG
1 GTCTTAAAAATCATGCCCGAAG
* *
10574751 GTCTTAAAAATCATGTCCGGAG
1 GTCTTAAAAATCATGCCCGAAG
10574773 GTCTTA
1 GTCTTA
10574779 TAGAATCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (22 bp):
GTCTTAAAAATCATGCCCGAAG
Found at i:10574879 original size:22 final size:21
Alignment explanation
Indices: 10574845--10574888 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
10574835 ATTACGAATC
* *
10574845 AAAAATATGCCCAGATGTCTT
1 AAAAATATGCCCAAAGGTCTT
*
10574866 AAAAATTATTCCCAAAGGTCTT
1 AAAAA-TATGCCCAAAGGTCTT
10574888 A
1 A
10574889 CAGAATCGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (21 bp):
AAAAATATGCCCAAAGGTCTT
Found at i:10574887 original size:132 final size:131
Alignment explanation
Indices: 10574640--10574888 Score: 320
Period size: 132 Copynumber: 1.9 Consensus size: 131
10574630 TTATGCTTGA
* *
10574640 AGGTCTTATAGAATCAACTGAAATAACACCGTAAATTAAAAAATAAAAATTAATCGGGATAACAC
1 AGGTCTTATAGAATCAACTGAAATAACACCGTAAATTAAAAAATAAAAATCAATCGAGATAACAC
* ** *
10574705 CACGAATCAAAATTATGCTTGAAAGTCTTAAAAATCATGCCCGAAGGTCTTAAAAATCATGTCCG
66 CACGAATCAAAAATATGCCAGAAAGTCTTAAAAATCATGCCCAAAGGTCTTAAAAATCATGTCCG
10574770 G
131 G
* * * * * *
10574771 AGGTCTTATAGAATCGACTGAGATAACACCGTAAGTTAAAAGATAAGGAATCGATCGAGATAACA
1 AGGTCTTATAGAATCAACTGAAATAACACCGTAAATTAAAAAATAA-AAATCAATCGAGATAACA
** * * *
10574836 TTACGAATCAAAAATATGCCCAG-ATGTCTTAAAAATTATTCCCAAAGGTCTTA
65 CCACGAATCAAAAATATG-CCAGAAAGTCTTAAAAATCATGCCCAAAGGTCTTA
10574889 CAGAATCGAT
Statistics
Matches: 99, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
131 42 0.42
132 55 0.56
133 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (131 bp):
AGGTCTTATAGAATCAACTGAAATAACACCGTAAATTAAAAAATAAAAATCAATCGAGATAACAC
CACGAATCAAAAATATGCCAGAAAGTCTTAAAAATCATGCCCAAAGGTCTTAAAAATCATGTCCG
G
Found at i:10574903 original size:110 final size:110
Alignment explanation
Indices: 10574734--10574981 Score: 286
Period size: 110 Copynumber: 2.2 Consensus size: 110
10574724 TGAAAGTCTT
* ** *
10574734 AAAAATCATGCCC-GAAGGTCTTAAAAATCATGT-CCGGAGGTCTTATAGAATCGACTGAGATAA
1 AAAAAT-ATGCCCAG-AGGTCTTAAAAATTAT-TCCCAAAGGTCTTACAGAATCGACTGAGATAA
* * *
10574797 CACCGTAAGTTAAAAGATAAGGAATCGA-TCGAGATAACATTACGAATC
63 CACCGCAAGTCAAAAGATAAGGAATC-ATTCGAGATAACATCACGAATC
* *
10574845 AAAAATATGCCCAGATGTCTTAAAAATTATTCCCAAAGGTCTTACAGAATCGATTGAGATAACAC
1 AAAAATATGCCCAGAGGTCTTAAAAATTATTCCCAAAGGTCTTACAGAATCGACTGAGATAACAC
* * * * **
10574910 CGCAAGTCGAAAGATAATGAATCATTTGGGATAACATCGTGAATC
66 CGCAAGTCAAAAGATAAGGAATCATTCGAGATAACATCACGAATC
* *
10574955 AAAATTATGCCCAGAGGTCTTAGAAAT
1 AAAAATATGCCCAGAGGTCTTAAAAAT
10574982 CAAAATCTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
109 2 0.02
110 107 0.92
111 7 0.06
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (110 bp):
AAAAATATGCCCAGAGGTCTTAAAAATTATTCCCAAAGGTCTTACAGAATCGACTGAGATAACAC
CGCAAGTCAAAAGATAAGGAATCATTCGAGATAACATCACGAATC
Found at i:10575287 original size:88 final size:87
Alignment explanation
Indices: 10575107--10575306 Score: 247
Period size: 88 Copynumber: 2.3 Consensus size: 87
10575097 GTTTTGAAAG
* ** * **
10575107 TTATGCCTAGAGGTCTTACAGAATTGACCGTGATAACATCGTAAGTCAAAAATAAAGAATCGATC
1 TTATGCCTAGAGGTCTTACAGAATCGACCAAGATAACACCACAAGTCAAAAATAAAGAATCGATC
*
10575172 GAGACAACATCACGAATCAAAA
66 GAGACAACACCACGAATCAAAA
** * *
10575194 TTATGCCCGGAGGTCTTACAGAATCGACTAAGATAACACCACAAGTCGAAAGATAAAGAATCGAT
1 TTATGCCTAGAGGTCTTACAGAATCGACCAAGATAACACCACAAGTC-AAAAATAAAGAATCGAT
* * *
10575259 CGAGATAACACCGCGAATCAAAT
65 CGAGACAACACCACGAATCAAAA
* *
10575282 TTATGCCTAAAAGTCTTACAGAATC
1 TTATGCCTAGAGGTCTTACAGAATC
10575307 TCAAAATCTT
Statistics
Matches: 94, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
87 38 0.40
88 56 0.60
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (87 bp):
TTATGCCTAGAGGTCTTACAGAATCGACCAAGATAACACCACAAGTCAAAAATAAAGAATCGATC
GAGACAACACCACGAATCAAAA
Found at i:10575475 original size:41 final size:41
Alignment explanation
Indices: 10575426--10575534 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
10575416 TCATTTTTGA
*
10575426 AGAA-GGTTCC-CTCTAAACAGAGACTTTGAAATCTTGATTG
1 AGAATGGTTCCTCT-TAAATAGAGACTTTGAAATCTTGATTG
*
10575466 A-AATTGGTTCCTCTTAAATAGAGGCTTTGAAATCTTGATTG
1 AGAA-TGGTTCCTCTTAAATAGAGACTTTGAAATCTTGATTG
*
10575507 AGAATGGTTCATCTTAAATAGAGACTTT
1 AGAATGGTTCCTCTTAAATAGAGACTTT
10575535 AAAACTTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
39 2 0.03
40 1 0.02
41 54 0.89
42 4 0.07
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (41 bp):
AGAATGGTTCCTCTTAAATAGAGACTTTGAAATCTTGATTG
Found at i:10575888 original size:15 final size:15
Alignment explanation
Indices: 10575868--10575897 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10575858 TGTCTTTCTT
*
10575868 GTGATGCAGATGCAA
1 GTGATGCAAATGCAA
10575883 GTGATGCAAATGCAA
1 GTGATGCAAATGCAA
10575898 AGACTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (15 bp):
GTGATGCAAATGCAA
Found at i:10576321 original size:22 final size:22
Alignment explanation
Indices: 10576295--10576338 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10576285 TCAAAACTAG
10576295 CCATTACTTTTCAAACAAGATT
1 CCATTACTTTTCAAACAAGATT
10576317 CCATTACTTTTCAAACAAGATT
1 CCATTACTTTTCAAACAAGATT
10576339 TGAGAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (22 bp):
CCATTACTTTTCAAACAAGATT
Found at i:10577276 original size:13 final size:12
Alignment explanation
Indices: 10577252--10577291 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
10577242 ATTTTGTTTA
10577252 TTTTTCTCTTTTT
1 TTTTTCT-TTTTT
*
10577265 TTCTTCTTTTTT
1 TTTTTCTTTTTT
10577277 TTTTTACTTTTTT
1 TTTTT-CTTTTTT
10577290 TT
1 TT
10577292 ATGCCCCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:10581942 original size:21 final size:20
Alignment explanation
Indices: 10581918--10581956 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10581908 ATCATTCAAA
10581918 AAGGAAAAAAATCTTTTTTTT
1 AAGGAAAAAAAT-TTTTTTTT
*
10581939 AAGGAAAAACATTTTTTT
1 AAGGAAAAAAATTTTTTT
10581957 CACATGGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
AAGGAAAAAAATTTTTTTTT
Found at i:10584487 original size:3 final size:3
Alignment explanation
Indices: 10584479--10584509 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
10584469 CATTTTATAT
*
10584479 TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10584510 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:10584495 original size:15 final size:15
Alignment explanation
Indices: 10584475--10584507 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10584465 TTTCCATTTT
10584475 ATATTAATAATAATA
1 ATATTAATAATAATA
10584490 ATATTAATAATAATA
1 ATATTAATAATAATA
10584505 ATA
1 ATA
10584508 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTAATAATAATA
Found at i:10584522 original size:21 final size:23
Alignment explanation
Indices: 10584498--10584543 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
10584488 TAATATTAAT
10584498 AATAATAATAATT-TA-AAAAAA
1 AATAATAATAATTATATAAAAAA
*
10584519 AATAATTATAATTATATAAAAAA
1 AATAATAATAATTATATAAAAAA
10584542 AA
1 AA
10584544 CAAAAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 2 0.09
23 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAATAATAATTATATAAAAAA
Found at i:10584522 original size:24 final size:24
Alignment explanation
Indices: 10584495--10584543 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10584485 TAATAATATT
*
10584495 AATAATAATAATAATTTAAAAAAA
1 AATAATAATAATAATATAAAAAAA
* *
10584519 AATAATTATAATTATATAAAAAAA
1 AATAATAATAATAATATAAAAAAA
10584543 A
1 A
10584544 CAAAAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AATAATAATAATAATATAAAAAAA
Found at i:10584557 original size:16 final size:16
Alignment explanation
Indices: 10584536--10584567 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10584526 ATAATTATAT
10584536 AAAAAAAACAAAAACA
1 AAAAAAAACAAAAACA
*
10584552 AAAAAAAAGAAAAACA
1 AAAAAAAACAAAAACA
10584568 GAAAGTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAACA
Found at i:10586008 original size:16 final size:16
Alignment explanation
Indices: 10585989--10586149 Score: 104
Period size: 16 Copynumber: 10.5 Consensus size: 16
10585979 CTAGGTTTCT
*
10585989 AAAACCCCTGAAATCC
1 AAAACCCCTAAAATCC
* *
10586005 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
*
10586021 AAACCCCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
10586037 GAAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
* *
10586053 AAAACCCCCAAAAATTC
1 AAAA-CCCCTAAAATCC
* * *
10586070 GAAA-TCC-AAAATCT
1 AAAACCCCTAAAATCC
* * *
10586084 TAAA-CTCTTAAATCC
1 AAAACCCCTAAAATCC
10586099 -AAACCCC-AAAATCC
1 AAAACCCCTAAAATCC
* *
10586113 AAAATCTCTAAAATCC
1 AAAACCCCTAAAATCC
*
10586129 -AAA-CCCTTAAAT-C
1 AAAACCCCTAAAATCC
10586142 AAAACCCC
1 AAAACCCC
10586150 AAACCTCAAA
Statistics
Matches: 113, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
13 1 0.01
14 28 0.25
15 20 0.18
16 50 0.44
17 14 0.12
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:10586107 original size:29 final size:30
Alignment explanation
Indices: 10586075--10586134 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
10586065 AATTCGAAAT
** *
10586075 CCAAAATCTTAAA-CTCTTAAATCCAAACC
1 CCAAAATCCAAAATCTCTAAAATCCAAACC
10586104 CCAAAATCCAAAATCTCTAAAATCCAAACC
1 CCAAAATCCAAAATCTCTAAAATCCAAACC
10586134 C
1 C
10586135 TTAAATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (30 bp):
CCAAAATCCAAAATCTCTAAAATCCAAACC
Found at i:10586108 original size:44 final size:45
Alignment explanation
Indices: 10586028--10586152 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 45
10586018 TCCAAACCCC
* * *
10586028 CTAAAATCCGAAACCCCTAAAATTCAAAACCCCCAAAAATTCGAAATC-
1 CTAAAATCC-AAA-CCCTTAAA-TCAAAA-CCCCAAAAATCCAAAATCT
* * *
10586076 C-AAAATCTTAAACTCTTAAATCCAAACCCC-AAAATCCAAAATCT
1 CTAAAATC-CAAACCCTTAAATCAAAACCCCAAAAATCCAAAATCT
10586120 CTAAAATCCAAACCCTTAAATCAAAACCCCAAA
1 CTAAAATCCAAACCCTTAAATCAAAACCCCAAA
10586153 CCTCAAAACC
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
43 11 0.17
44 24 0.38
45 13 0.20
46 6 0.09
47 9 0.14
48 1 0.02
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (45 bp):
CTAAAATCCAAACCCTTAAATCAAAACCCCAAAAATCCAAAATCT
Found at i:10586141 original size:30 final size:29
Alignment explanation
Indices: 10586075--10586145 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
10586065 AATTCGAAAT
* *
10586075 CCAAAATCTTAAA-CTCTTAAATCCAAACC
1 CCAAAATC-AAAATCTCTAAAATCCAAACC
10586104 CCAAAATCCAAAATCTCTAAAATCCAAACC
1 CCAAAAT-CAAAATCTCTAAAATCCAAACC
**
10586134 CTTAAATCAAAA
1 CCAAAATCAAAA
10586146 CCCCAAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (29 bp):
CCAAAATCAAAATCTCTAAAATCCAAACC
Found at i:10586160 original size:51 final size:50
Alignment explanation
Indices: 10586097--10586206 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 50
10586087 ACTCTTAAAT
* * *
10586097 CCAAACCCCAAAATCCAAAATCTCTAAAA-TCCAAACCCTTAAATCAAAACC
1 CCAAACCTCAAAA-CCAAAACCT-TAAAACTCCAAACCCTAAAATCAAAACC
* *
10586148 CCAAACCTCAAAACCCAAACCTTAAAATCTCCAAACTCTAAAATCAAAACC
1 CCAAACCTCAAAACCAAAACCTTAAAA-CTCCAAACCCTAAAATCAAAACC
*
10586199 CTAAACCT
1 CCAAACCT
10586207 TCCATATCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
49 5 0.10
50 7 0.14
51 39 0.76
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (50 bp):
CCAAACCTCAAAACCAAAACCTTAAAACTCCAAACCCTAAAATCAAAACC
Found at i:10586164 original size:14 final size:15
Alignment explanation
Indices: 10586140--10586174 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
10586130 AACCCTTAAA
10586140 TCAAAACCCCAAACC
1 TCAAAACCCCAAACC
10586155 TCAAAA-CCCAAACC
1 TCAAAACCCCAAACC
*
10586169 TTAAAA
1 TCAAAA
10586175 TCTCCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.11
Consensus pattern (15 bp):
TCAAAACCCCAAACC
Found at i:10586183 original size:16 final size:15
Alignment explanation
Indices: 10586142--10586192 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
10586132 CCCTTAAATC
* *
10586142 AAAACCCCAAACCTC
1 AAAATCCCAAACCTT
10586157 AAAA-CCCAAACCTT
1 AAAATCCCAAACCTT
10586171 AAAATCTCCAAA-CTCT
1 AAAATC-CCAAACCT-T
10586187 AAAATC
1 AAAATC
10586193 AAAACCCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 13 0.41
15 7 0.22
16 12 0.38
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAATCCCAAACCTT
Found at i:10589404 original size:14 final size:14
Alignment explanation
Indices: 10589371--10589402 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10589361 TATTTGTCCC
10589371 TTTTTTGTTTCTAT
1 TTTTTTGTTTCTAT
10589385 TTTTTTGTTT-T-T
1 TTTTTTGTTTCTAT
10589397 TTTTTT
1 TTTTTT
10589403 TTTGTGGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTGTTTCTAT
Found at i:10589728 original size:16 final size:15
Alignment explanation
Indices: 10589707--10589749 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10589697 GTCACCCTAC
10589707 TTTTCTGTTTTTTTCT
1 TTTTCT-TTTTTTTCT
*
10589723 TTTTC-TTATTTTCT
1 TTTTCTTTTTTTTCT
*
10589737 CTTTCTTTTTTTT
1 TTTTCTTTTTTTT
10589750 TTAAATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.52
15 6 0.26
16 5 0.22
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTTTTTCT
Found at i:10589784 original size:21 final size:22
Alignment explanation
Indices: 10589754--10589794 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10589744 TTTTTTTTAA
*
10589754 ATTATATATTTTTAAAATTATT
1 ATTATATATTGTTAAAATTATT
10589776 ATTAT-TATTGTTAAAATTA
1 ATTATATATTGTTAAAATTA
10589795 ATAGTAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTATATATTGTTAAAATTATT
Found at i:10599175 original size:22 final size:20
Alignment explanation
Indices: 10599150--10599194 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
10599140 TGATGCTTAA
10599150 AATAAAAAAATTTACAAATGTT
1 AATAAAAAAATTT-CAAAT-TT
**
10599172 AATAATGAAATTTCAAATTT
1 AATAAAAAAATTTCAAATTT
10599192 AAT
1 AAT
10599195 GATTATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 11 0.52
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (20 bp):
AATAAAAAAATTTCAAATTT
Found at i:10601017 original size:2 final size:2
Alignment explanation
Indices: 10601010--10601047 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10601000 TGGTTCTGTT
10601010 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10601048 TTCAAAGGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10604583 original size:24 final size:24
Alignment explanation
Indices: 10604551--10604598 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10604541 GTTTCCTCCC
10604551 GCAAGACATACCCTTTTTTTGACA
1 GCAAGACATACCCTTTTTTTGACA
10604575 GCAAGACATACCCTTTTTTTGACA
1 GCAAGACATACCCTTTTTTTGACA
10604599 ATGAGTGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (24 bp):
GCAAGACATACCCTTTTTTTGACA
Found at i:10606038 original size:17 final size:17
Alignment explanation
Indices: 10606006--10606039 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10605996 CCTTTACAAA
*
10606006 GAACCTTGTGTATTGTT
1 GAACCTTGTCTATTGTT
*
10606023 GAACCTTGTCTTTTGTT
1 GAACCTTGTCTATTGTT
10606040 CTCTCTAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.50
Consensus pattern (17 bp):
GAACCTTGTCTATTGTT
Found at i:10619787 original size:2 final size:2
Alignment explanation
Indices: 10619780--10619806 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10619770 ACAAAATTCT
10619780 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
10619807 GCATCACCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10621182 original size:21 final size:20
Alignment explanation
Indices: 10621157--10621195 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10621147 AAATTAAGAT
10621157 AAAATAATTTATTTATTAATC
1 AAAATAA-TTATTTATTAATC
* *
10621178 AAAATTATTATTTTTTAA
1 AAAATAATTATTTATTAA
10621196 GTCTATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATAATTATTTATTAATC
Found at i:10621576 original size:30 final size:30
Alignment explanation
Indices: 10621485--10621576 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
10621475 TATACTTTTA
* * *
10621485 TTACACCTAAATAAAT-ATTTAATATTTAAT
1 TTACACCCAAATAAGTCA-TTAACATTTAAT
*
10621515 TAACACCCAAATAAGTCATTAACATTTAAT
1 TTACACCCAAATAAGTCATTAACATTTAAT
* *
10621545 TTATACCCAAATAA-TCTATTAACTTTTAAT
1 TTACACCCAAATAAGTC-ATTAACATTTAAT
10621575 TT
1 TT
10621577 GTACTTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.04
30 50 0.94
31 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.40
Consensus pattern (30 bp):
TTACACCCAAATAAGTCATTAACATTTAAT
Found at i:10622416 original size:14 final size:14
Alignment explanation
Indices: 10622386--10622437 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
10622376 TAAAACTACT
*
10622386 TTTAAAATATAATA
1 TTTAAAATTTAATA
* *
10622400 TTTAATATTTAAAA
1 TTTAAAATTTAATA
10622414 TTT-AAATATTAATA
1 TTTAAAAT-TTAATA
*
10622428 TTTATAATTT
1 TTTAAAATTT
10622438 TTCATTTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 3 0.10
14 24 0.80
15 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAAAATTTAATA
Found at i:10622436 original size:21 final size:22
Alignment explanation
Indices: 10622386--10622437 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
10622376 TAAAACTACT
*
10622386 TTTAAAATAT-AATATTTAATA
1 TTTAAAATTTAAATATTTAATA
10622407 TTTAAAATTTAAATA-TTAATA
1 TTTAAAATTTAAATATTTAATA
*
10622428 TTTATAATTT
1 TTTAAAATTT
10622438 TTCATTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAAAATTTAAATATTTAATA
Found at i:10625604 original size:18 final size:18
Alignment explanation
Indices: 10625583--10625617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10625573 CAAAATTTTC
*
10625583 CATAAGAACAAACAAATG
1 CATAACAACAAACAAATG
*
10625601 CATAACAACAAATAAAT
1 CATAACAACAAACAAAT
10625618 TATATTGATT
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:0.63, C:0.17, G:0.06, T:0.14
Consensus pattern (18 bp):
CATAACAACAAACAAATG
Found at i:10626367 original size:2 final size:2
Alignment explanation
Indices: 10626360--10626393 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10626350 CATGCAACCG
10626360 CT 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
10626394 AAAAGCCTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10631857 original size:29 final size:29
Alignment explanation
Indices: 10631815--10631871 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
10631805 TTTGAAACTC
10631815 TGTCAATAACCCTTATATTACTAGGCACT
1 TGTCAATAACCCTTATATTACTAGGCACT
10631844 TGTCAATAACCCTTATATTACTAGGCAC
1 TGTCAATAACCCTTATATTACTAGGCAC
10631872 CAAATCATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (29 bp):
TGTCAATAACCCTTATATTACTAGGCACT
Found at i:10643675 original size:3 final size:3
Alignment explanation
Indices: 10643662--10643691 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10643652 ATAGCGAAAT
*
10643662 TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
10643692 ACGGCAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:10644987 original size:17 final size:17
Alignment explanation
Indices: 10644966--10645009 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10644956 TGATTAGAGA
*
10644966 ATTATTTAATAATTAAT
1 ATTATTTAATAATAAAT
* *
10644983 TTTATTTAAGAATAAAT
1 ATTATTTAATAATAAAT
10645000 ATT-TTTAATA
1 ATTATTTAATA
10645010 GGTAAGAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTATTTAATAATAAAT
Found at i:10645421 original size:20 final size:20
Alignment explanation
Indices: 10645357--10645422 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
10645347 ATATGTTGGT
10645357 AATA-TTTTATTTTTTAAATTTA
1 AATATTTTTA-TTTTTAAA--TA
* * *
10645379 AAAATTATTT-TTCTTAAAAA
1 AATATT-TTTATTTTTAAATA
10645399 AATATTTTTATTTTTAAATA
1 AATATTTTTATTTTTAAATA
10645419 AATA
1 AATA
10645423 AATAAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 3 0.09
20 18 0.51
22 10 0.29
23 1 0.03
24 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTTTTATTTTTAAATA
Found at i:10646182 original size:23 final size:25
Alignment explanation
Indices: 10646156--10646203 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
10646146 ATTTATTAAT
10646156 TTAATTT-AATTTTTCAT-TTTTTG
1 TTAATTTCAATTTTTCATATTTTTG
* *
10646179 TTAATTTCTATTTTTGATATTTTTG
1 TTAATTTCAATTTTTCATATTTTTG
10646204 AAATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 8 0.38
25 6 0.29
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (25 bp):
TTAATTTCAATTTTTCATATTTTTG
Found at i:10646538 original size:13 final size:13
Alignment explanation
Indices: 10646522--10646552 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10646512 TCAATGTTAG
10646522 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
*
10646535 AAAAAAAGAAAAG
1 AAAAAAAGAAAAA
10646548 AAAAA
1 AAAAA
10646553 GAAATCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:10647826 original size:14 final size:13
Alignment explanation
Indices: 10647801--10647843 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
10647791 TAGATGAATC
10647801 AATAATTAAAGATA
1 AATAA-TAAAGATA
10647815 AATCAATAAAGATA
1 AAT-AATAAAGATA
*
10647829 AATAGTAAAGATA
1 AATAATAAAGATA
10647842 AA
1 AA
10647844 CAAATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.41
14 14 0.52
15 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (13 bp):
AATAATAAAGATA
Found at i:10647837 original size:27 final size:27
Alignment explanation
Indices: 10647807--10647859 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
10647797 AATCAATAAT
10647807 TAAAGATAAATC-AATA-AAGATAAATAG
1 TAAAGATAAA-CAAATATAA-ATAAATAG
10647834 TAAAGATAAACAAATATAAATAAATA
1 TAAAGATAAACAAATATAAATAAATA
10647860 AAATAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 1 0.04
27 21 0.88
28 2 0.08
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.23
Consensus pattern (27 bp):
TAAAGATAAACAAATATAAATAAATAG
Found at i:10647839 original size:13 final size:14
Alignment explanation
Indices: 10647807--10647843 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
10647797 AATCAATAAT
10647807 TAAAGATAAATCAA
1 TAAAGATAAATCAA
*
10647821 TAAAGATAAAT-AG
1 TAAAGATAAATCAA
10647834 TAAAGATAAA
1 TAAAGATAAA
10647844 CAAATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.65, C:0.03, G:0.11, T:0.22
Consensus pattern (14 bp):
TAAAGATAAATCAA
Found at i:10647891 original size:29 final size:29
Alignment explanation
Indices: 10647871--10647931 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
10647861 AATAAGAATA
* *
10647871 AAAGATAAATAAAAGTAAAAAAAAAAAGAT
1 AAAGA-AAACAAAAGTAAAAAAAAGAAGAT
10647901 AAAGAAAACAAAAGTAAAAAAAAGACAGAT
1 AAAGAAAACAAAAGTAAAAAAAAGA-AGAT
10647931 A
1 A
10647932 CAACTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.10
Consensus pattern (29 bp):
AAAGAAAACAAAAGTAAAAAAAAGAAGAT
Found at i:10647919 original size:24 final size:24
Alignment explanation
Indices: 10647870--10647922 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10647860 AAATAAGAAT
* *
10647870 AAAAGATAAATAAAAGTAAAAAAA
1 AAAAGATAAAGAAAAGCAAAAAAA
10647894 AAAAGATAAAGAAAA-CAAAAGTAAA
1 AAAAGATAAAGAAAAGCAAAA--AAA
10647919 AAAA
1 AAAA
10647923 AGACAGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (24 bp):
AAAAGATAAAGAAAAGCAAAAAAA
Found at i:10647931 original size:30 final size:30
Alignment explanation
Indices: 10647834--10647923 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 30
10647824 AGATAAATAG
10647834 TAAAGATAAACAAATA-TAAATAAATAAAATAAGAA
1 TAAAGATAAACAAA-AGT-AA-AAA-AAAA-AAG-A
*
10647869 TAAAAGATAAATAAAAGTAAAAAAAAAAAGA
1 T-AAAGATAAACAAAAGTAAAAAAAAAAAGA
10647900 TAAAGA-AAACAAAAGTAAAAAAAA
1 TAAAGATAAACAAAAGTAAAAAAAA
10647924 GACAGATACA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
29 17 0.33
30 5 0.10
31 2 0.04
32 3 0.06
33 4 0.08
34 3 0.06
35 4 0.08
36 13 0.25
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (30 bp):
TAAAGATAAACAAAAGTAAAAAAAAAAAGA
Found at i:10647985 original size:7 final size:7
Alignment explanation
Indices: 10647973--10648003 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10647963 TAAATAAATG
10647973 AAATAAA
1 AAATAAA
*
10647980 AAATAAC
1 AAATAAA
10647987 AAATAAA
1 AAATAAA
10647994 AAATAAA
1 AAATAAA
10648001 AAA
1 AAA
10648004 ATGGGCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:10648256 original size:37 final size:37
Alignment explanation
Indices: 10648211--10648300 Score: 155
Period size: 37 Copynumber: 2.5 Consensus size: 37
10648201 AATTTTAGAA
10648211 TAATTTAAAAGAATGAAGTTGTGACCTAGACTGAGCC
1 TAATTTAAAAGAATGAAGTTGTGACCTAGACTGAGCC
10648248 TAATTTAAAAGAATGAAGTTGTGACCTAGACTGAGCC
1 TAATTTAAAAGAATGAAGTTGTGACCTAGACTGAGCC
* *
10648285 AAAGTTAAAA-AATGAA
1 TAATTTAAAAGAATGAA
10648301 ATGACCTAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 6 0.12
37 45 0.88
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (37 bp):
TAATTTAAAAGAATGAAGTTGTGACCTAGACTGAGCC
Found at i:10648517 original size:32 final size:32
Alignment explanation
Indices: 10648425--10648518 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 32
10648415 CTAAGATAAA
** * *
10648425 AAAATGAAGGTGATCAAACTGAGTCAATGTTG
1 AAAATGAAGGTGATCGGACTGAATCAAAGTTG
* * **
10648457 AAAATGAAAGTGACCGGACAAAATCAAAGTTG
1 AAAATGAAGGTGATCGGACTGAATCAAAGTTG
* *
10648489 AAAATGAAGGTGATTGGACTGAACCAAAGT
1 AAAATGAAGGTGATCGGACTGAATCAAAGT
10648519 CAAAAATTAA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.20
Consensus pattern (32 bp):
AAAATGAAGGTGATCGGACTGAATCAAAGTTG
Found at i:10648740 original size:63 final size:64
Alignment explanation
Indices: 10648667--10648796 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 64
10648657 GTAATCAGAC
* * * *
10648667 TGAGCTAAGGTCAAAATAAGGGTGAGCAT-AGTAAGTCAAGGT-AAAAAATAAAGATGATTGTAT
1 TGAGCCAAGGTCAAAATAAGGGTGA-CATAAGTAAGTCAAGATAAAAAAACAAAGATGACTGTAT
* * * * *
10648730 TGAGCCAAGGTCAATATGAGGGTGACCTAATTGAGTCAAGATAAAAAAACAAAGATGACTGTAT
1 TGAGCCAAGGTCAAAATAAGGGTGACATAAGTAAGTCAAGATAAAAAAACAAAGATGACTGTAT
10648794 TGA
1 TGA
10648797 ACTAAGATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
62 2 0.04
63 32 0.57
64 22 0.39
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (64 bp):
TGAGCCAAGGTCAAAATAAGGGTGACATAAGTAAGTCAAGATAAAAAAACAAAGATGACTGTAT
Found at i:10649075 original size:16 final size:16
Alignment explanation
Indices: 10649054--10649086 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10649044 TTTTTATTTG
10649054 TTTGTTTATTCATTAA
1 TTTGTTTATTCATTAA
*
10649070 TTTGTTTATTCTTTAA
1 TTTGTTTATTCATTAA
10649086 T
1 T
10649087 AAAAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTGTTTATTCATTAA
Found at i:10651443 original size:20 final size:20
Alignment explanation
Indices: 10651420--10651463 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
10651410 ACACAAATAG
*
10651420 GAGCTGTGAATGAAGAATGT
1 GAGCTGTGAATAAAGAATGT
10651440 GAGCTGTGAATAAAGAATGT
1 GAGCTGTGAATAAAGAATGT
10651460 GAGC
1 GAGC
10651464 AATTAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.23
Consensus pattern (20 bp):
GAGCTGTGAATAAAGAATGT
Found at i:10655644 original size:46 final size:46
Alignment explanation
Indices: 10655586--10655693 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
10655576 AAAACCCTTA
10655586 GAAATTTTGGATGTGAATCTT-TAAAATTTTTCAAATG-AAAATATTT
1 GAAATTTTGGATGTGAAT-TTCTAAAATTTTTCAAATGTAAAAT-TTT
* * * *
10655632 GAAATCTTGGATGAGAATTTCTAAAATTTTTTAAATGTGAAATTTT
1 GAAATTTTGGATGTGAATTTCTAAAATTTTTCAAATGTAAAATTTT
10655678 G-AATTTTGGATGTGAA
1 GAAATTTTGGATGTGAA
10655694 CCATTAACAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 15 0.28
46 35 0.65
47 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.43
Consensus pattern (46 bp):
GAAATTTTGGATGTGAATTTCTAAAATTTTTCAAATGTAAAATTTT
Found at i:10655820 original size:17 final size:17
Alignment explanation
Indices: 10655800--10655848 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
10655790 AATTTTTGCC
**
10655800 AACCTAAAATTCTTACG
1 AACCTAAAATTCTTAAA
*
10655817 AACCTCAAATTCTTAAA
1 AACCTAAAATTCTTAAA
*
10655834 AACCTAAAGTTCTTA
1 AACCTAAAATTCTTA
10655849 TGAAACTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (17 bp):
AACCTAAAATTCTTAAA
Found at i:10655936 original size:34 final size:33
Alignment explanation
Indices: 10655862--10655971 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 33
10655852 AACTTAGATC
* * *
10655862 CTTGTGAATCTGAAAGTCTTACAAATCCTTGAAGTT
1 CTTGTGAATATG-AATTCTTATAAAT-CTTGAA-TT
10655898 -TTGTGAATATGAATTCTTATAAA-CTTGAAAATT
1 CTTGTGAATATGAATTCTTATAAATCTTG--AATT
* * * *
10655931 CTTGTGAATCTGAATTTTTGTAAATCTTGGATT
1 CTTGTGAATATGAATTCTTATAAATCTTGAATT
10655964 CTTGTGAA
1 CTTGTGAA
10655972 ACTAAAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
32 4 0.06
33 13 0.21
34 32 0.51
35 14 0.22
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (33 bp):
CTTGTGAATATGAATTCTTATAAATCTTGAATT
Found at i:10655951 original size:16 final size:17
Alignment explanation
Indices: 10655889--10655971 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 17
10655879 CTTACAAATC
10655889 CTTGAAGTT-TTGTGAAT
1 CTTGAA-TTCTTGTGAAT
* * *
10655906 -ATGAATTCTTAT-AAA
1 CTTGAATTCTTGTGAAT
10655921 CTTGAAAATTCTTGTGAAT
1 CTTG--AATTCTTGTGAAT
* *
10655940 C-TGAATTTTTGTAAAT
1 CTTGAATTCTTGTGAAT
*
10655956 CTTGGATTCTTGTGAA
1 CTTGAATTCTTGTGAA
10655972 ACTAAAATTA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
15 4 0.08
16 21 0.43
17 11 0.22
18 10 0.20
19 3 0.06
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (17 bp):
CTTGAATTCTTGTGAAT
Found at i:10656285 original size:18 final size:17
Alignment explanation
Indices: 10656262--10656314 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10656252 AATTTGAAAC
10656262 CTTTGCGAAACTTAGAAT
1 CTTTGCGAAACTT-GAAT
*
10656280 CTTTGC-AAATTTGAAAT
1 CTTTGCGAAACTTG-AAT
* *
10656297 CTTTGAGAATCTTGAAT
1 CTTTGCGAAACTTGAAT
10656314 C
1 C
10656315 ATTTACAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 17 0.59
18 11 0.38
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (17 bp):
CTTTGCGAAACTTGAAT
Found at i:10656299 original size:17 final size:18
Alignment explanation
Indices: 10656252--10656301 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
10656242 AAATTTTACG
*
10656252 AATTTGAAACCTTTGCGA
1 AATTTGAAATCTTTGCGA
*
10656270 AACTT-AGAATCTTTGC-A
1 AATTTGA-AATCTTTGCGA
10656287 AATTTGAAATCTTTG
1 AATTTGAAATCTTTG
10656302 AGAATCTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (18 bp):
AATTTGAAATCTTTGCGA
Found at i:10656301 original size:35 final size:35
Alignment explanation
Indices: 10656246--10656349 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 35
10656236 TTTGAAAAAT
* *
10656246 TTTACGAATTTGAAACCTTTGCGAAACTTAGAATC-
1 TTTACAAATTTGAAATCTTTGCGAAACTT-GAATCA
* * *
10656281 TTTGCAAATTTGAAATCTTTGAGAATCTTGAATCA
1 TTTACAAATTTGAAATCTTTGCGAAACTTGAATCA
* * *
10656316 TTTACAAACTTTTGGAGTCTTTGCAAAACTTGAA
1 TTTACAAA--TTTGAAATCTTTGCGAAACTTGAA
10656350 ATTCTTGTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
34 5 0.09
35 31 0.56
37 19 0.35
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (35 bp):
TTTACAAATTTGAAATCTTTGCGAAACTTGAATCA
Found at i:10659342 original size:57 final size:57
Alignment explanation
Indices: 10659249--10659363 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 57
10659239 GAATTTTTTA
*
10659249 AAAAAATATTTTAATTTTCACCAGACACTCTGCAGTTGTCAGAAAAACTACACAAGG
1 AAAAAATATTTTAATTTTCACCAGACACTCTACAGTTGTCAGAAAAACTACACAAGG
* * *
10659306 AAAAAATATTTTAATTTTTACTAGACACTCTACAGTTGTTAGAAAAACTACACAAGG
1 AAAAAATATTTTAATTTTCACCAGACACTCTACAGTTGTCAGAAAAACTACACAAGG
10659363 A
1 A
10659364 GTAAATTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (57 bp):
AAAAAATATTTTAATTTTCACCAGACACTCTACAGTTGTCAGAAAAACTACACAAGG
Found at i:10667686 original size:44 final size:44
Alignment explanation
Indices: 10667562--10667687 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 44
10667552 TATTTAAGGT
* * * *
10667562 TTTTAAAGTTGTTTACCCTTTGTATA-AATGAGTCAATTTCTTAA
1 TTTTAAAGTTGTTTAGCCTTTGTATAGAA-AAGCCCATTTCTTAA
* * *
10667606 -TTTAAAGTTGTTTTGGCCTCTGTATAGAGGAA-CCCATTTCTTAA
1 TTTTAAAGTTG-TTTAGCCTTTGTATAGA-AAAGCCCATTTCTTAA
* *
10667650 TTTTAAAGTTGTTTAGTCTTTGTGTAGAAAAGCCCATT
1 TTTTAAAGTTGTTTAGCCTTTGTATAGAAAAGCCCATT
10667688 ATAGACACTC
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
43 12 0.18
44 41 0.63
45 12 0.18
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (44 bp):
TTTTAAAGTTGTTTAGCCTTTGTATAGAAAAGCCCATTTCTTAA
Found at i:10667936 original size:42 final size:42
Alignment explanation
Indices: 10667856--10667968 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
10667846 TAGAATTAAT
* *
10667856 TTAATTAATTAA-AAAATTACAAAAAAGTATATACATAAATA
1 TTAATTAATTAATAAAATTACAAAAAAATATATACATAAAAA
* * *
10667897 TATAATTAATTAATCAAATTATAAAAAAATCTATA-ATAAAAA
1 T-TAATTAATTAATAAAATTACAAAAAAATATATACATAAAAA
** *
10667939 TTAATTACAAAAATTAAATTACAAAAAAAT
1 TTAATTA-ATTAATAAAATTACAAAAAAAT
10667969 TAATAAATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 7 0.12
42 36 0.60
43 17 0.28
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (42 bp):
TTAATTAATTAATAAAATTACAAAAAAATATATACATAAAAA
Found at i:10667950 original size:13 final size:14
Alignment explanation
Indices: 10667934--10667965 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10667924 AATCTATAAT
10667934 AAAAATT-AATTAC
1 AAAAATTAAATTAC
10667947 AAAAATTAAATTAC
1 AAAAATTAAATTAC
10667961 AAAAA
1 AAAAA
10667966 AATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAAATTAAATTAC
Found at i:10667951 original size:14 final size:14
Alignment explanation
Indices: 10667934--10667972 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
10667924 AATCTATAAT
10667934 AAAAATTAATTAC-
1 AAAAATTAATTACA
10667947 AAAAATTAAATTACAA
1 AAAAATT-AATTAC-A
10667963 AAAAATTAAT
1 AAAAATTAAT
10667973 AAATTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
15 3 0.13
16 7 0.30
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATTAATTACA
Found at i:10668617 original size:14 final size:14
Alignment explanation
Indices: 10668594--10668633 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
10668584 ACTCTATGCT
*
10668594 ACCAATCCCTTTTC
1 ACCAAGCCCTTTTC
10668608 ACCAAGCCCTTTTC
1 ACCAAGCCCTTTTC
10668622 ACCAAGCCCTTT
1 ACCAAGCCCTTT
10668634 ACCAAAGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.23, C:0.42, G:0.05, T:0.30
Consensus pattern (14 bp):
ACCAAGCCCTTTTC
Found at i:10669031 original size:23 final size:23
Alignment explanation
Indices: 10669005--10669060 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
10668995 CTCATTCCCA
*
10669005 CCAAACACTACCCTTCACAAAAC
1 CCAAACACCACCCTTCACAAAAC
*
10669028 CCAAACACCACCCTTCACATAAC
1 CCAAACACCACCCTTCACAAAAC
10669051 CCAAACACCA
1 CCAAACACCA
10669061 ACCCCGGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.46, G:0.00, T:0.11
Consensus pattern (23 bp):
CCAAACACCACCCTTCACAAAAC
Found at i:10671262 original size:28 final size:31
Alignment explanation
Indices: 10671231--10671302 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
10671221 AAATAAAATA
*
10671231 AATTATATGTTA-G-TTA-TTATTTTATTTT
1 AATTATATGTTATGATTATTTATTATATTTT
*
10671259 AATTTTATGGTTATGATTTATTTATTATATTTT
1 AATTATAT-GTTATGA-TTATTTATTATATTTT
10671292 AATTAATATGT
1 AATT-ATATGT
10671303 CACTTTGCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
28 7 0.20
29 4 0.11
30 1 0.03
32 3 0.09
33 17 0.49
34 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (31 bp):
AATTATATGTTATGATTATTTATTATATTTT
Found at i:10677376 original size:17 final size:18
Alignment explanation
Indices: 10677351--10677384 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10677341 AGATATTTCC
10677351 AAAACCAAA-AAAAAAAA
1 AAAACCAAAGAAAAAAAA
*
10677368 AAAAGCAAAGAAAAAAA
1 AAAACCAAAGAAAAAAA
10677385 TATATGCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAACCAAAGAAAAAAAA
Found at i:10678224 original size:83 final size:83
Alignment explanation
Indices: 10678078--10678237 Score: 205
Period size: 83 Copynumber: 1.9 Consensus size: 83
10678068 TCATCGAGTC
** * * *
10678078 TTCTTTGAAATATACCCATCAGTGAAAATTTTGAATTATCAATCACTCCATCTACAAATATTCCA
1 TTCTTTGAAATATACCCATCAGTGAAAAAATTGAATTACCAATCACTCCATCCACAAACATTCCA
*
10678143 AATAGTATTCATTGAGCT
66 AATAGTAATCATTGAGCT
* * * * *
10678161 TTCTTTGAAATATGCCCATTAGTGAAAAAATTGAATTGCCAATCA-TGCCATCCATAAGCATTCC
1 TTCTTTGAAATATACCCATCAGTGAAAAAATTGAATTACCAATCACT-CCATCCACAAACATTCC
10678225 AAATAGTAATCAT
65 AAATAGTAATCAT
10678238 CAATTTATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
82 1 0.02
83 64 0.98
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (83 bp):
TTCTTTGAAATATACCCATCAGTGAAAAAATTGAATTACCAATCACTCCATCCACAAACATTCCA
AATAGTAATCATTGAGCT
Found at i:10678881 original size:10 final size:8
Alignment explanation
Indices: 10678856--10678894 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10678846 TAAATATTAG
10678856 AAAGAAAA
1 AAAGAAAA
10678864 AAAGAAAA
1 AAAGAAAA
*
10678872 AAAGGTAAA
1 AAA-GAAAA
10678881 AAA-AAAA
1 AAAGAAAA
10678888 AAAGAAA
1 AAAGAAA
10678895 GAAGTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.22
8 14 0.52
9 7 0.26
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAGAAAA
Found at i:10679216 original size:22 final size:22
Alignment explanation
Indices: 10679185--10679238 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
10679175 AAGATTTTGA
* *
10679185 GATCTCTAAGACCTTTGGGCAT
1 GATCTTTAAGACCTGTGGGCAT
10679207 GATCTTTAAGACCTGTGGGCAT
1 GATCTTTAAGACCTGTGGGCAT
* *
10679229 AATTTTTAAG
1 GATCTTTAAG
10679239 TCCTCTAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (22 bp):
GATCTTTAAGACCTGTGGGCAT
Found at i:10679344 original size:22 final size:22
Alignment explanation
Indices: 10679313--10679370 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10679303 AAGATTTTCA
10679313 AATCTTTAAGACCTACAAGCAT
1 AATCTTTAAGACCTACAAGCAT
* * * *
10679335 AATCTCTAAGAACTTCAGGCAT
1 AATCTTTAAGACCTACAAGCAT
*
10679357 AATTTTTAAGACCT
1 AATCTTTAAGACCT
10679371 CCGGACAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
AATCTTTAAGACCTACAAGCAT
Found at i:10679433 original size:129 final size:129
Alignment explanation
Indices: 10679117--10679506 Score: 450
Period size: 129 Copynumber: 3.0 Consensus size: 129
10679107 GAGACTTCGG
* *
10679117 GGCAAAACAATTTTAAAATTTTAAAGTTTTAACG-CTTCTAATATAT-AAGGAGTATTTAAAGAT
1 GGCAAAACAATTTTAAAATTTTAAAGTTTTAACGCCTT-TAATATATGAA-GAGCATTCAAAGAT
* * * * *
10679180 TTTGAGATCTCTAAGACCTTTGGGCATGATCTTTAAGACCTGT-GGGCATAATTTTTAAGTCCTC
64 TTTGAGATCTTTAAGACCTTCGAGCATGATCTCTAAGACCT-TCGGGCATAATTTTTAAGACCTC
10679244 TA
128 TA
* * * * *
10679246 GGCAGAAC-ATTTT-AAATTTTCAAAGTTTTAACACATTTAATGTATGAAAAGCATTCAAAGATT
1 GGCAAAACAATTTTAAAATTTT-AAAGTTTTAACGCCTTTAATATATGAAGAGCATTCAAAGATT
* * * * * * * *
10679309 TTCAAATCTTTAAGACCTACAAGCATAATCTCTAAGAACTTCAGGCATAATTTTTAAGACCTC-C
65 TTGAGATCTTTAAGACCTTCGAGCATGATCTCTAAGACCTTCGGGCATAATTTTTAAGACCTCTA
* *
10679373 GGACAAAACAATTTTAAAATTTTAAAGTTTCAATGCCTTTAATATATGAAGAGCATTCAAAGATT
1 GG-CAAAACAATTTTAAAATTTTAAAGTTTTAACGCCTTTAATATATGAAGAGCATTCAAAGATT
* * ** *
10679438 TTGAGATCTTTAATACCTTCGAGCATGATCTCTAAGACCTTCGGGTATAATTCCTAATACCTCTA
65 TTGAGATCTTTAAGACCTTCGAGCATGATCTCTAAGACCTTCGGGCATAATTTTTAAGACCTCTA
10679503 GGCA
1 GGCA
10679507 CAATCTCTAA
Statistics
Matches: 213, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
127 10 0.05
128 89 0.42
129 105 0.49
130 9 0.04
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (129 bp):
GGCAAAACAATTTTAAAATTTTAAAGTTTTAACGCCTTTAATATATGAAGAGCATTCAAAGATTT
TGAGATCTTTAAGACCTTCGAGCATGATCTCTAAGACCTTCGGGCATAATTTTTAAGACCTCTA
Found at i:10679639 original size:173 final size:173
Alignment explanation
Indices: 10679335--10679651 Score: 485
Period size: 173 Copynumber: 1.8 Consensus size: 173
10679325 CTACAAGCAT
*
10679335 AATCTCTAAGAACTTCAGGCATAATTTTTAAGACCTCCGGACAAAACAATTTTAAAATTTTAAAG
1 AATCTCTAAGAACTTCAGACATAATTTTTAAGACCTCCGGACAAAACAATTTTAAAATTTTAAAG
* * * *
10679400 TTTCAATGCCTTTAATATATGAAGAGCATTCAAAGATTTTGAGATCTTTAATACCTTCGAGCATG
66 TTTCAATGCCTATAATAAATGAAGAGCATTCAAAGATTTTGAGATCTCTAAGACCTTCGAGCATG
10679465 ATCTCTAAGACCTTCGGGTATAATTCCTAATACCTCTAGGCAC
131 ATCTCTAAGACCTTCGGGTATAATTCCTAATACCTCTAGGCAC
* * *
10679508 AATCTCTAAG-ACTTTCAGATATAATTTTTAAGACCTTC-GAGCAAAACAATTTTAAAATTTTAC
1 AATCTCTAAGAAC-TTCAGACATAATTTTTAAGACCTCCGGA-CAAAACAATTTTAAAATTTTAA
* * * * *
10679571 AGTTTTAATGCCTATAATAAATGAGGAGTATTCAAAGATTTTGAGATCTCTAAGACCTTTGGGCA
64 AGTTTCAATGCCTATAATAAATGAAGAGCATTCAAAGATTTTGAGATCTCTAAGACCTTCGAGCA
10679636 TGATCTCTAAGACCTT
129 TGATCTCTAAGACCTT
10679652 TGGGCATGAT
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
172 4 0.03
173 125 0.97
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (173 bp):
AATCTCTAAGAACTTCAGACATAATTTTTAAGACCTCCGGACAAAACAATTTTAAAATTTTAAAG
TTTCAATGCCTATAATAAATGAAGAGCATTCAAAGATTTTGAGATCTCTAAGACCTTCGAGCATG
ATCTCTAAGACCTTCGGGTATAATTCCTAATACCTCTAGGCAC
Found at i:10679643 original size:22 final size:22
Alignment explanation
Indices: 10679615--10679672 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
10679605 AAGATTTTGA
10679615 GATCTCTAAGACCTTTGGGCAT
1 GATCTCTAAGACCTTTGGGCAT
10679637 GATCTCTAAGACCTTTGGGCAT
1 GATCTCTAAGACCTTTGGGCAT
10679659 GATCTCTAAGACCT
1 GATCTCTAAGACCT
10679673 CCGGGTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (22 bp):
GATCTCTAAGACCTTTGGGCAT
Found at i:10680447 original size:42 final size:45
Alignment explanation
Indices: 10680382--10680476 Score: 142
Period size: 43 Copynumber: 2.2 Consensus size: 45
10680372 GAAAAATTAC
*
10680382 AAAAAATATATACATAAATAATTAATTA-ATTAATCAAATTATAA
1 AAAAAATATATACATAAATAATTAATTACAATAATCAAATTATAA
* *
10680426 AAAAAATGTATA-ATAAA-AATTAATTACAATAATTAAATTATAA
1 AAAAAATATATACATAAATAATTAATTACAATAATCAAATTATAA
10680469 AAAAAATA
1 AAAAAATA
10680477 AATTACAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 9 0.20
43 26 0.57
44 11 0.24
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (45 bp):
AAAAAATATATACATAAATAATTAATTACAATAATCAAATTATAA
Found at i:10680487 original size:43 final size:42
Alignment explanation
Indices: 10680382--10680487 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
10680372 GAAAAATTAC
* * *
10680382 AAAAAATATATACATAAATAATTAATTAATTAATCAAATTATAA
1 AAAAAATAAATA-ACAAA-AATTAATTAAATAATCAAATTATAA
** * *
10680426 AAAAAATGTATAATAAAAATTAATTACAATAATTAAATTATAA
1 AAAAAATAAATAACAAAAATTAATTA-AATAATCAAATTATAA
*
10680469 AAAAAATAAATTACAAAAA
1 AAAAAATAAATAACAAAAA
10680488 AAATACAGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 9 0.17
43 34 0.63
44 11 0.20
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (42 bp):
AAAAAATAAATAACAAAAATTAATTAAATAATCAAATTATAA
Found at i:10680492 original size:16 final size:16
Alignment explanation
Indices: 10680459--10680492 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10680449 TTACAATAAT
*
10680459 TAAATTATAAAAAAAA
1 TAAATTACAAAAAAAA
10680475 TAAATTACAAAAAAAA
1 TAAATTACAAAAAAAA
10680491 TA
1 TA
10680493 CAGGAAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATTACAAAAAAAA
Found at i:10683711 original size:43 final size:43
Alignment explanation
Indices: 10683545--10683755 Score: 208
Period size: 43 Copynumber: 4.9 Consensus size: 43
10683535 CGTTACGACA
* * * * *
10683545 CCCATTCCCTATTTTAAAGTTGTTTTGCCTCTGTTTA-AAGGTG
1 CCCATTTCCTATTTTAAAGTTATTTAGCCTCTGTATAGAA-GAG
* * * * *
10683588 CTCATTTCTTAATTTAAAGTTGTTTTAGCCTCTTTATAGAAGAG
1 CCCATTTCCTATTTTAAAGTT-ATTTAGCCTCTGTATAGAAGAG
* * * * * *
10683632 GCCATTTCTTAATTTTAAAATTGTTTAGACTTTGTATAGAAGAG
1 CCCATTTCCT-ATTTTAAAGTTATTTAGCCTCTGTATAGAAGAG
* *
10683676 CCCATTTCCTATTTTAAAGTTATTCAGCCTCTGTATAGAGGAG
1 CCCATTTCCTATTTTAAAGTTATTTAGCCTCTGTATAGAAGAG
* *
10683719 CCTATTTCCTATTTTAAAGTTATTTAGCCTCTATATA
1 CCCATTTCCTATTTTAAAGTTATTTAGCCTCTGTATA
10683756 AATGAGTCCA
Statistics
Matches: 137, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
43 78 0.57
44 48 0.35
45 11 0.08
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (43 bp):
CCCATTTCCTATTTTAAAGTTATTTAGCCTCTGTATAGAAGAG
Found at i:10684495 original size:25 final size:24
Alignment explanation
Indices: 10684459--10684516 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
10684449 AAGATTATAT
*
10684459 AGAAACTCTTGAGA-AAAAAAAAGA
1 AGAAAATCTTGAGAGAAAAAAAA-A
10684483 AGAAAATCATTGAGAGAAAAAAAAA
1 AGAAAATC-TTGAGAGAAAAAAAAA
10684508 AGAAAATCT
1 AGAAAATCT
10684517 AAAATTGTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 8 0.26
25 15 0.48
26 8 0.26
ACGTcount: A:0.64, C:0.07, G:0.16, T:0.14
Consensus pattern (24 bp):
AGAAAATCTTGAGAGAAAAAAAAA
Found at i:10684600 original size:4 final size:4
Alignment explanation
Indices: 10684591--10684624 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
10684581 TATTTTTTTA
*
10684591 TATT TATT TAAT TATTT TATT TATT TATT TATT T
1 TATT TATT TATT TA-TT TATT TATT TATT TATT T
10684625 GATTATCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:10684613 original size:17 final size:17
Alignment explanation
Indices: 10684591--10684624 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10684581 TATTTTTTTA
10684591 TATTTATTTAATTATTT
1 TATTTATTTAATTATTT
*
10684608 TATTTATTTATTTATTT
1 TATTTATTTAATTATTT
10684625 GATTATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTATTTAATTATTT
Found at i:10684615 original size:21 final size:22
Alignment explanation
Indices: 10684581--10684621 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10684571 CAACTTCAAG
*
10684581 TATTTTTTTATATTTATTTAAT
1 TATTTTATTATATTTATTTAAT
10684603 TATTTTATT-TATTTATTTA
1 TATTTTATTATATTTATTTA
10684622 TTTGATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTATTATATTTATTTAAT
Found at i:10685675 original size:40 final size:40
Alignment explanation
Indices: 10685624--10685710 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
10685614 TCTTATCACG
* * * **
10685624 AAAGATTTTCCTCATTCGAGAATTCAAAATCTCATATTGAA
1 AAAG-TTTTCCTCATTCAACAAATCAAAATCTCATACAGAA
*
10685665 AAAGTTTTCCTCATTTAACAAATCAAAATCTCATACAGAA
1 AAAGTTTTCCTCATTCAACAAATCAAAATCTCATACAGAA
10685705 AAAGTT
1 AAAGTT
10685711 CCCCTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (40 bp):
AAAGTTTTCCTCATTCAACAAATCAAAATCTCATACAGAA
Found at i:10685733 original size:40 final size:40
Alignment explanation
Indices: 10685644--10685720 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
10685634 CTCATTCGAG
** **
10685644 AATTCAAAATCTCATATTGAAAAAGTTTTCCTCATTTAAC
1 AATTCAAAATCTCATACAGAAAAAGTTCCCCTCATTTAAC
* *
10685684 AAATCAAAATCTCATACAGAAAAAGTTCCCCTTATTT
1 AATTCAAAATCTCATACAGAAAAAGTTCCCCTCATTT
10685721 GACGCTTCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (40 bp):
AATTCAAAATCTCATACAGAAAAAGTTCCCCTCATTTAAC
Found at i:10690631 original size:11 final size:12
Alignment explanation
Indices: 10690613--10690638 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10690603 AGTTTTATTT
10690613 TTATTTTTAAAA
1 TTATTTTTAAAA
10690625 TTATTTTTAAAA
1 TTATTTTTAAAA
10690637 TT
1 TT
10690639 TTAAAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTTTAAAA
Found at i:10690730 original size:53 final size:53
Alignment explanation
Indices: 10690670--10690782 Score: 149
Period size: 53 Copynumber: 2.1 Consensus size: 53
10690660 TTTTCAAAAA
* *
10690670 TTATTTTTTTAAAATTTCAAAA-CTCTCTAATATGTTGGTAAGATT-TTATTTTT
1 TTATTTTTTTAAAATTACAAAACCT-TCCAATATGTTGGTAAGATTATT-TTTTT
* * *
10690723 TTATTTTTTTTAAATTACTAAACCTTCCAATATGTTGGTAAGGTTATTTTTTT
1 TTATTTTTTTAAAATTACAAAACCTTCCAATATGTTGGTAAGATTATTTTTTT
10690776 TTATTTT
1 TTATTTT
10690783 CAAAAATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
53 49 0.92
54 4 0.08
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (53 bp):
TTATTTTTTTAAAATTACAAAACCTTCCAATATGTTGGTAAGATTATTTTTTT
Found at i:10692893 original size:20 final size:20
Alignment explanation
Indices: 10692857--10692971 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 20
10692847 TACACATAAA
* *
10692857 TAATAGTCATGCAAATATAT
1 TAATAATCATACAAATATAT
** *
10692877 TGGTAATCATACGAATATAT
1 TAATAATCATACAAATATAT
*
10692897 TAATAATCATGCAAATATAT
1 TAATAATCATACAAATATAT
* * *
10692917 AAATAACCATGCAAATATAT
1 TAATAATCATACAAATATAT
* * *
10692937 TAATGATCATGCAAAAATA-
1 TAATAATCATACAAATATAT
*
10692956 TAAT-ATTATACAAATA
1 TAATAATCATACAAATA
10692972 ATAAATTGTG
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
18 9 0.12
19 4 0.05
20 64 0.83
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (20 bp):
TAATAATCATACAAATATAT
Found at i:10692901 original size:40 final size:40
Alignment explanation
Indices: 10692857--10692958 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
10692847 TACACATAAA
*** * *
10692857 TAATAGTCATGCAAATATATTGGTAATCATACGAATATAT
1 TAATAGTCATGCAAATATATAAATAACCATACAAATATAT
* *
10692897 TAATAATCATGCAAATATATAAATAACCATGCAAATATAT
1 TAATAGTCATGCAAATATATAAATAACCATACAAATATAT
*
10692937 TAAT-GATCATGCAAAAATATAA
1 TAATAG-TCATGCAAATATATAA
10692959 TATTATACAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (40 bp):
TAATAGTCATGCAAATATATAAATAACCATACAAATATAT
Found at i:10693231 original size:19 final size:20
Alignment explanation
Indices: 10693209--10693255 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
10693199 AATCACAATT
10693209 AAATAAGAAAATT-AAA-AAA
1 AAATAA-AAAATTGAAATAAA
*
10693228 AAATTAAAAAATTGAAATAGA
1 AAA-TAAAAAATTGAAATAAA
10693249 AAATAAA
1 AAATAAA
10693256 CAAAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (20 bp):
AAATAAAAAATTGAAATAAA
Found at i:10693236 original size:10 final size:11
Alignment explanation
Indices: 10693205--10693238 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
10693195 ACTAAATCAC
10693205 AATTAAATAAGAA
1 AATTAAA-AA-AA
10693218 AATTAAAAAAA
1 AATTAAAAAAA
10693229 AATTAAAAAA
1 AATTAAAAAA
10693239 TTGAAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 2 0.10
13 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AATTAAAAAAA
Found at i:10693656 original size:20 final size:21
Alignment explanation
Indices: 10693612--10693656 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
10693602 AAAATTTATT
*
10693612 GAAAAATTCAAAGACTCACTA
1 GAAAAATTCAAAGACACACTA
10693633 -AAAAATTCAAAG-CA-ACCTA
1 GAAAAATTCAAAGACACA-CTA
10693652 GAAAA
1 GAAAA
10693657 GCCTAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 1 0.05
19 4 0.19
20 16 0.76
ACGTcount: A:0.58, C:0.18, G:0.09, T:0.16
Consensus pattern (21 bp):
GAAAAATTCAAAGACACACTA
Found at i:10694616 original size:43 final size:43
Alignment explanation
Indices: 10694516--10694648 Score: 110
Period size: 43 Copynumber: 3.0 Consensus size: 43
10694506 TCTTCCTTAA
* * * *
10694516 CAGAGGCCTTGAAACTTT-GAAAAAA-ATAAATATTCCCCCCCCC
1 CAGAGGCTTTGAAA-TTTAGAAAAAATA-AAATACTCCACCCCAC
* *
10694559 CATTGGAGGCTTTGAAACTTTAG-AAACATAAAATGCTCCACCCCAC
1 CA---GAGGCTTTGAAA-TTTAGAAAAAATAAAATACTCCACCCCAC
* * *
10694605 CAGAGGTTTTGAAATTTTGAAAAAATAAAATACTCCTCCCCAC
1 CAGAGGCTTTGAAATTTAGAAAAAATAAAATACTCCACCCCAC
10694648 C
1 C
10694649 GAAGACTTTG
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
42 4 0.05
43 34 0.47
46 33 0.45
47 2 0.03
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (43 bp):
CAGAGGCTTTGAAATTTAGAAAAAATAAAATACTCCACCCCAC
Found at i:10694672 original size:43 final size:42
Alignment explanation
Indices: 10694567--10694676 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 42
10694557 CCCATTGGAG
* * * *
10694567 GCTTTGAAACTTTAGAAACATAAAATGCTCCACCCCACCAGA
1 GCTTTGGAACTTTTGAAAAATAAAATACTCCACCCCACCAGA
* * * *
10694609 GGTTTTGAAATTTTGAAAAAATAAAATACTCCTCCCCACC-GAA
1 GCTTTGGAACTTTTG-AAAAATAAAATACTCCACCCCACCAG-A
10694652 GACTTTGGAACTTTTGAAAAATAAA
1 G-CTTTGGAACTTTTGAAAAATAAA
10694677 TGCTTTCCCT
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 11 0.20
43 32 0.59
44 11 0.20
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (42 bp):
GCTTTGGAACTTTTGAAAAATAAAATACTCCACCCCACCAGA
Found at i:10694984 original size:13 final size:13
Alignment explanation
Indices: 10694966--10694990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10694956 TTCTAAGCAT
10694966 ATGCAATGAATGC
1 ATGCAATGAATGC
10694979 ATGCAATGAATG
1 ATGCAATGAATG
10694991 AAAAGACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:10699995 original size:24 final size:23
Alignment explanation
Indices: 10699919--10699978 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
10699909 AAAAAAAATT
10699919 TTGAAACCCTAAAATCCAAAACA
1 TTGAAACCCTAAAATCCAAAACA
10699942 TTGAAACCCTAAAATCCAAAACA
1 TTGAAACCCTAAAATCCAAAACA
10699965 TTGAAACCCTAAAA
1 TTGAAACCCTAAAA
10699979 CTTCAAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.52, C:0.25, G:0.05, T:0.18
Consensus pattern (23 bp):
TTGAAACCCTAAAATCCAAAACA
Found at i:10700014 original size:15 final size:16
Alignment explanation
Indices: 10699968--10700056 Score: 67
Period size: 16 Copynumber: 5.7 Consensus size: 16
10699958 CAAAACATTG
10699968 AAACCCTAAAACTTCA
1 AAACCCTAAAACTTCA
* *
10699984 AAAACCTGAAAC-TCA
1 AAACCCTAAAACTTCA
*
10699999 ATACCCT-AAACTTCA
1 AAACCCTAAAACTTCA
* *
10700014 AAATCTTAAAA-TCTCA
1 AAACCCTAAAACT-TCA
* * * *
10700030 AGATCTTAAAACCTCA
1 AAACCCTAAAACTTCA
10700046 AAACCCTAAAA
1 AAACCCTAAAA
10700057 TCTAAAATCT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
14 4 0.07
15 16 0.28
16 37 0.65
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.21
Consensus pattern (16 bp):
AAACCCTAAAACTTCA
Found at i:10700030 original size:31 final size:31
Alignment explanation
Indices: 10699970--10700056 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
10699960 AAACATTGAA
*
10699970 ACCCTAAAACTTCAAAAACCTGAAACTCAAT
1 ACCCTAAAACTTCAAAAACCTAAAACTCAAT
* * *
10700001 ACCCT-AAACTTCAAAATCTTAAAATCTCAAG
1 ACCCTAAAACTTCAAAAACCTAAAA-CTCAAT
* * * *
10700032 ATCTTAAAACCTCAAAACCCTAAAA
1 ACCCTAAAACTTCAAAAACCTAAAA
10700057 TCTAAAATCT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
30 16 0.36
31 13 0.29
32 16 0.36
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (31 bp):
ACCCTAAAACTTCAAAAACCTAAAACTCAAT
Found at i:10700035 original size:16 final size:16
Alignment explanation
Indices: 10700006--10700095 Score: 67
Period size: 16 Copynumber: 5.7 Consensus size: 16
10699996 TCAATACCCT
*
10700006 AAACTTCAAAATCTTA
1 AAACCTCAAAATCTTA
* *
10700022 AAATCTCAAGATCTTA
1 AAACCTCAAAATCTTA
* *
10700038 AAACCTCAAAACCCTA
1 AAACCTCAAAATCTTA
* *
10700054 AAATCT-AAAATCTCA
1 AAACCTCAAAATCTTA
* *
10700069 AAACC-CTAAAACCTTG
1 AAACCTC-AAAATCTTA
*
10700085 AAACCTTAAAA
1 AAACCTCAAAA
10700096 CAAGACCTTA
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
15 10 0.18
16 45 0.82
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.23
Consensus pattern (16 bp):
AAACCTCAAAATCTTA
Found at i:10700047 original size:32 final size:31
Alignment explanation
Indices: 10700006--10700081 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
10699996 TCAATACCCT
* * * * *
10700006 AAACTTCAAAATCTTAAAATCTCAAGATCTTA
1 AAACCTCAAAACCCTAAAATCT-AAAATCTCA
10700038 AAACCTCAAAACCCTAAAATCTAAAATCTCA
1 AAACCTCAAAACCCTAAAATCTAAAATCTCA
10700069 AAACC-CTAAAACC
1 AAACCTC-AAAACC
10700082 TTGAAACCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 1 0.03
31 18 0.47
32 19 0.50
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.22
Consensus pattern (31 bp):
AAACCTCAAAACCCTAAAATCTAAAATCTCA
Found at i:10700068 original size:23 final size:23
Alignment explanation
Indices: 10700036--10700079 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10700026 CTCAAGATCT
10700036 TAAAACCTCAAAACCCTAAAATC
1 TAAAACCTCAAAACCCTAAAATC
*
10700059 TAAAATCTCAAAACCCTAAAA
1 TAAAACCTCAAAACCCTAAAA
10700080 CCTTGAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (23 bp):
TAAAACCTCAAAACCCTAAAATC
Found at i:10701300 original size:23 final size:23
Alignment explanation
Indices: 10701266--10701342 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
10701256 TAAAAAATCT
*
10701266 AAAAA-AAGTAAAATGAAATAAA
1 AAAAATAAATAAAATGAAATAAA
* *
10701288 AAAAATATATAAATAT-ATATAAA
1 AAAAATAAATAAA-ATGAAATAAA
*
10701311 TAAAATAAATGAAAATGTAAATTGAAA
1 AAAAATAAAT-AAAATG-AAA-T-AAA
10701338 AAAAA
1 AAAAA
10701343 AAAACTTACG
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
22 5 0.12
23 21 0.51
24 5 0.12
25 2 0.05
26 1 0.02
27 7 0.17
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (23 bp):
AAAAATAAATAAAATGAAATAAA
Found at i:10701733 original size:20 final size:19
Alignment explanation
Indices: 10701679--10701758 Score: 99
Period size: 20 Copynumber: 4.1 Consensus size: 19
10701669 GGAAAAATCA
*
10701679 AACTTTAACC-AAAAATTC
1 AACTTAAACCTAAAAATTC
*
10701697 AACTTAAACCTAGAAATTC
1 AACTTAAACCTAAAAATTC
*
10701716 AACTTCAAACTTAAAAATTC
1 AACTT-AAACCTAAAAATTC
10701736 AACTTTAAACCTAAAAACTTC
1 AAC-TTAAACCTAAAAA-TTC
10701757 AA
1 AA
10701759 ACCTAGAATC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.17
19 12 0.23
20 25 0.47
21 7 0.13
ACGTcount: A:0.50, C:0.21, G:0.01, T:0.28
Consensus pattern (19 bp):
AACTTAAACCTAAAAATTC
Found at i:10701780 original size:23 final size:23
Alignment explanation
Indices: 10701745--10701789 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10701735 CAACTTTAAA
*
10701745 CCTAAAAACTTCAAACCTAGAAT
1 CCTAAAAACTTCAAACCCAGAAT
* *
10701768 CCTAGAAATTTCAAACCCAGAA
1 CCTAAAAACTTCAAACCCAGAA
10701790 ACTTCAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (23 bp):
CCTAAAAACTTCAAACCCAGAAT
Found at i:10701795 original size:15 final size:15
Alignment explanation
Indices: 10701771--10701804 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10701761 CTAGAATCCT
*
10701771 AGAAATTTCAAACCC
1 AGAAACTTCAAACCC
*
10701786 AGAAACTTCAAACCT
1 AGAAACTTCAAACCC
10701801 AGAA
1 AGAA
10701805 TCCCAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.18
Consensus pattern (15 bp):
AGAAACTTCAAACCC
Found at i:10704630 original size:23 final size:24
Alignment explanation
Indices: 10704596--10704654 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
10704586 TGAGATCTTA
*
10704596 AAACCTCAAAACCCCAAAACCTCC
1 AAACCTTAAAACCCCAAAACCTCC
* **
10704620 AAA-CTTAAAACCCTAAAACCTTG
1 AAACCTTAAAACCCCAAAACCTCC
10704643 AAACCTTAAAAC
1 AAACCTTAAAAC
10704655 AAGACCTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (24 bp):
AAACCTTAAAACCCCAAAACCTCC
Found at i:10705141 original size:17 final size:17
Alignment explanation
Indices: 10705119--10705151 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10705109 GATTTTAGTC
10705119 CATGAAATCAGATTTTT
1 CATGAAATCAGATTTTT
10705136 CATGAAATCAGATTTT
1 CATGAAATCAGATTTT
10705152 AGATTCGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
CATGAAATCAGATTTTT
Found at i:10705830 original size:17 final size:17
Alignment explanation
Indices: 10705809--10705847 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
10705799 AAAAAATCTA
10705809 AAAAAAGTAAA-ATGAAAT
1 AAAAAA-TAAATAT-AAAT
10705827 AAAAAATAAATATAAAT
1 AAAAAATAAATATAAAT
10705844 AAAA
1 AAAA
10705848 TAAATGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAAAATAAATATAAAT
Found at i:10705863 original size:27 final size:27
Alignment explanation
Indices: 10705816--10705882 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
10705806 CTAAAAAAAG
10705816 TAAAATGAAAT-AAAAAATAAATAT-AAA
1 TAAAAT-AAATGAAAAAATAAAT-TGAAA
**
10705843 TAAAATAAATGAAAATGTAAATTGAAA
1 TAAAATAAATGAAAAAATAAATTGAAA
10705870 -AAAA-AAATGAAAA
1 TAAAATAAATGAAAA
10705883 CTTGCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 9 0.25
26 9 0.25
27 18 0.50
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (27 bp):
TAAAATAAATGAAAAAATAAATTGAAA
Found at i:10706230 original size:18 final size:18
Alignment explanation
Indices: 10706207--10706288 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
10706197 CATTGACTGG
*
10706207 AAAAATCAAACTTTAACC-
1 AAAAATC-AACTTAAACCT
10706225 AAAAATTCAACTTAAACCT
1 AAAAA-TCAACTTAAACCT
*
10706244 AAAAATTCAACTTCAAACTT
1 AAAAA-TCAACTT-AAACCT
* *
10706264 AGAAATTCAACTTTAAACCC
1 A-AAAATCAAC-TTAAACCT
10706284 AAAAA
1 AAAAA
10706289 CTTCAAACCT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
18 14 0.26
19 18 0.34
20 16 0.30
21 5 0.09
ACGTcount: A:0.54, C:0.21, G:0.01, T:0.24
Consensus pattern (18 bp):
AAAAATCAACTTAAACCT
Found at i:10706234 original size:19 final size:20
Alignment explanation
Indices: 10706207--10706319 Score: 83
Period size: 20 Copynumber: 5.6 Consensus size: 20
10706197 CATTGACTGG
*
10706207 AAAAA-TCAAACTTTAACC-
1 AAAAATTCAAACTTAAACCT
10706225 AAAAATTC-AACTTAAACCT
1 AAAAATTCAAACTTAAACCT
*
10706244 AAAAATTC-AACTTCAAACTT
1 AAAAATTCAAACTT-AAACCT
* *
10706264 AGAAATTC-AACTTTAAACCC
1 AAAAATTCAAAC-TTAAACCT
*
10706284 AAAAACTTCAAACCTAGAATCCT
1 AAAAA-TTCAAACTTA-AA-CCT
*
10706307 AGAAATTTCAAAC
1 A-AAAATTCAAAC
10706320 CTAGAATCCC
Statistics
Matches: 77, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
18 14 0.18
19 15 0.19
20 23 0.30
21 7 0.09
22 5 0.06
23 10 0.13
24 3 0.04
ACGTcount: A:0.50, C:0.22, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAATTCAAACTTAAACCT
Found at i:10706261 original size:20 final size:19
Alignment explanation
Indices: 10706215--10706294 Score: 90
Period size: 20 Copynumber: 4.1 Consensus size: 19
10706205 GGAAAAATCA
*
10706215 AACTTTAACC-AAAAATTC
1 AACTTAAACCTAAAAATTC
10706233 AACTTAAACCTAAAAATTC
1 AACTTAAACCTAAAAATTC
* *
10706252 AACTTCAAACTTAGAAATTC
1 AACTT-AAACCTAAAAATTC
*
10706272 AACTTTAAACCCAAAAACTTC
1 AAC-TTAAACCTAAAAA-TTC
10706293 AA
1 AA
10706295 ACCTAGAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
18 9 0.17
19 13 0.25
20 23 0.44
21 7 0.13
ACGTcount: A:0.50, C:0.23, G:0.01, T:0.26
Consensus pattern (19 bp):
AACTTAAACCTAAAAATTC
Found at i:10706320 original size:23 final size:23
Alignment explanation
Indices: 10706281--10706342 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
10706271 CAACTTTAAA
*
10706281 CCCAAAAACTTCAAACCTAGAAT
1 CCCAGAAACTTCAAACCTAGAAT
* *
10706304 CCTAGAAATTTCAAACCTAGAAT
1 CCCAGAAACTTCAAACCTAGAAT
10706327 CCCAGAAACTTCAAAC
1 CCCAGAAACTTCAAAC
10706343 TCAATTCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (23 bp):
CCCAGAAACTTCAAACCTAGAAT
Found at i:10707211 original size:128 final size:127
Alignment explanation
Indices: 10706985--10707219 Score: 296
Period size: 128 Copynumber: 1.8 Consensus size: 127
10706975 GGTCAAACCA
* * *
10706985 TGAGTAAAAAAGATTATCTAGATTGAGTCGAAATAAAAAATGATGATCAAGATCGAATCGCGAGT
1 TGAGTAAAAAAGATTATCTAAATTGAGTCGAAATAAAAAATAACGATCAAGATCGAATCGCGAGT
10707050 TAAAAAGATGACCTAAATCGAGCCAAGATCAAAAC-AAGTGATCGTGATCGTGATCGAATTG
66 TAAAAAGATGACCTAAATCGAGCCAAGATCAAAACTAAGTGATCGTGATCGTGATCGAATTG
* * * *
10707111 TGAGTAAAAAAGATTATCTAAATTGAG-CTGAGATAAAAAAATAAGCGATCAAGTTTGAA-CTGT
1 TGAGTAAAAAAGATTATCTAAATTGAGTC-GAAAT-AAAAAATAA-CGATCAAGATCGAATC-GC
* ** ** *
10707174 GAGTTAGACGGATGACCTGGATCGAGTCAAGATCAAAACTAAGTGA
62 GAGTTAAAAAGATGACCTAAATCGAGCCAAGATCAAAACTAAGTGA
10707220 CTAGGATTGA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
125 1 0.01
126 30 0.33
127 9 0.10
128 45 0.49
129 6 0.07
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (127 bp):
TGAGTAAAAAAGATTATCTAAATTGAGTCGAAATAAAAAATAACGATCAAGATCGAATCGCGAGT
TAAAAAGATGACCTAAATCGAGCCAAGATCAAAACTAAGTGATCGTGATCGTGATCGAATTG
Found at i:10715542 original size:14 final size:14
Alignment explanation
Indices: 10715523--10715555 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
10715513 ATAATTCCTT
10715523 GTGCCTTTCTATGA
1 GTGCCTTTCTATGA
10715537 GTGCCTTTCTATGA
1 GTGCCTTTCTATGA
10715551 GTGCC
1 GTGCC
10715556 ATGATATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.39
Consensus pattern (14 bp):
GTGCCTTTCTATGA
Found at i:10718907 original size:27 final size:27
Alignment explanation
Indices: 10718855--10718913 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
10718845 AATGAAATAG
** *
10718855 AAAATAAATAAATATATGTATAAAAAT
1 AAAATAAATAAATATATAAATAAAAAA
10718882 AAAATAAATTAAA-ATATAAATTAAAAAA
1 AAAATAAA-TAAATATATAAA-TAAAAAA
10718910 AAAA
1 AAAA
10718914 AAGAAAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAATAAATAAATATATAAATAAAAAA
Found at i:10719317 original size:20 final size:20
Alignment explanation
Indices: 10719292--10719340 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
10719282 ACGCAAATAA
10719292 AAATTCAAC-TTCAAACCCAG
1 AAATTCAACATT-AAACCCAG
*
10719312 AAATTCAACATTAAACCCAT
1 AAATTCAACATTAAACCCAG
10719332 AAACTTCAA
1 AAA-TTCAA
10719341 ACCTAGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATTCAACATTAAACCCAG
Done.