Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 346 of 356
Found at i:110792633 original size:35 final size:36
Alignment explanation
Indices: 110792583--110792661 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 36
110792573 TATGTATTTT
110792583 CGTATGTTTGTTCAAG-TTCCGAGTC-TAAGACTGCA
1 CGTAT-TTTGTTCAAGATTCCGAGTCTTAAGACTGCA
* *
110792618 CGTATTTTGTATCAAGTATTTCGAGTCTTAAGGCTGCA
1 CGTATTTTGT-TCAAG-ATTCCGAGTCTTAAGACTGCA
110792656 CGTATT
1 CGTATT
110792662 CTAGATTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
34 5 0.13
35 10 0.26
37 8 0.21
38 15 0.39
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (36 bp):
CGTATTTTGTTCAAGATTCCGAGTCTTAAGACTGCA
Found at i:110792970 original size:30 final size:30
Alignment explanation
Indices: 110792936--110792992 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
110792926 TCTAATAATG
110792936 TTAAATTAATTTCAATATTATAATGTATTA
1 TTAAATTAATTTCAATATTATAATGTATTA
110792966 TTAAATTAATTTCAATATTATAATGTA
1 TTAAATTAATTTCAATATTATAATGTA
110792993 AACATGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
TTAAATTAATTTCAATATTATAATGTATTA
Found at i:110793434 original size:13 final size:13
Alignment explanation
Indices: 110793416--110793441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110793406 GGTTATGTTC
110793416 GTTTAATATAGAT
1 GTTTAATATAGAT
110793429 GTTTAATATAGAT
1 GTTTAATATAGAT
110793442 AGCTAGTTTA
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTAATATAGAT
Found at i:110796451 original size:42 final size:42
Alignment explanation
Indices: 110796404--110796488 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
110796394 ACCATAAACC
110796404 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
1 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
*
110796446 TTTCAAAAAGAGTTAAATTGTTGTTGTTTTTAATAGAAATAT
1 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
110796488 T
1 T
110796489 GACTAAAACG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (42 bp):
TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
Found at i:110797201 original size:17 final size:18
Alignment explanation
Indices: 110797179--110797212 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
110797169 TTCGCCCCTC
110797179 ATTATACATA-CTAAATA
1 ATTATACATACCTAAATA
*
110797196 ATTATATATACCTAAAT
1 ATTATACATACCTAAAT
110797213 TATGTTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATACATACCTAAATA
Found at i:110805380 original size:47 final size:47
Alignment explanation
Indices: 110805315--110805436 Score: 235
Period size: 47 Copynumber: 2.6 Consensus size: 47
110805305 AAAGTATATA
110805315 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
110805362 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
110805409 TATATATGTGATAAGGCCTAATAGCCGA
1 TATATATGTGATAAGGCCTAATGGCCGA
110805437 AGTGTATATA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:110805422 original size:94 final size:94
Alignment explanation
Indices: 110805315--110805733 Score: 693
Period size: 94 Copynumber: 4.6 Consensus size: 94
110805305 AAAGTATATA
*
110805315 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
110805380 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
110805409 TATATATGTGATAAGGCCTAATAGCCGA----A-G--TGT---A---TATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
110805461 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
110805490 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
110805555 GAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
110805584 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
110805649 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
110805680 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
110805734 ATGTGATGAA
Statistics
Matches: 305, Mismatches: 5, Indels: 30
0.90 0.01 0.09
Matches are distributed among these distances:
81 75 0.25
84 1 0.00
85 1 0.00
86 1 0.00
87 3 0.01
88 3 0.01
89 1 0.00
90 1 0.00
91 1 0.00
94 127 0.42
96 91 0.30
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:110805445 original size:32 final size:33
Alignment explanation
Indices: 110805404--110805476 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 33
110805394 ATGAATGTGA
110805404 AAGTG-TATATATGTGATAAGGCCTAATAGCCG
1 AAGTGATATATATGTGATAAGGCCTAATAGCCG
*
110805436 AAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 AAGTG-ATATATATGTGATAAGGCCTAATAGCCG
*
110805470 ATGTGAT
1 AAGTGAT
110805477 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 5 0.14
33 2 0.05
34 30 0.81
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (33 bp):
AAGTGATATATATGTGATAAGGCCTAATAGCCG
Found at i:110805454 original size:81 final size:81
Alignment explanation
Indices: 110805362--110805517 Score: 312
Period size: 81 Copynumber: 1.9 Consensus size: 81
110805352 TGTGAAAGTG
110805362 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
110805427 TAATAGCCGAAGTGTA
66 TAATAGCCGAAGTGTA
110805443 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
110805508 TAATAGCCGA
66 TAATAGCCGA
110805518 TGTGATGAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.29
Consensus pattern (81 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGAAGTGTA
Found at i:110805501 original size:47 final size:47
Alignment explanation
Indices: 110805443--110805733 Score: 528
Period size: 47 Copynumber: 6.1 Consensus size: 47
110805433 CCGAAGTGTA
110805443 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
110805490 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
110805537 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
110805584 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
110805631 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
110805680 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
110805727 TATATAT
1 TATATAT
110805734 ATGTGATGAA
Statistics
Matches: 235, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
47 189 0.80
49 46 0.20
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:110805656 original size:96 final size:96
Alignment explanation
Indices: 110805436--110805740 Score: 569
Period size: 96 Copynumber: 3.2 Consensus size: 96
110805426 CTAATAGCCG
110805436 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
110805501 TAAGGCCTAATAGCCGATGTGATGAATGTGA
66 TAAGGCCTAATAGCCGATGTGATGAATGTGA
*
110805532 AAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
110805595 TAAGGCCTAATAGCCGATGTGATGAATGTGA
66 TAAGGCCTAATAGCCGATGTGATGAATGTGA
110805626 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
110805691 TAAGGCCGAATGGCCGATGTGATGAATGTGA
66 TAAGGCCTAATAGCCGATGTGATGAATGTGA
110805722 AAGTGTATATATATGTGAT
1 AAGTGTATATATATGTGAT
110805741 GAATGTGAAA
Statistics
Matches: 203, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
94 93 0.46
96 110 0.54
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATAGCCGATGTGATGAATGTGA
Found at i:110805694 original size:143 final size:141
Alignment explanation
Indices: 110805443--110805733 Score: 546
Period size: 143 Copynumber: 2.0 Consensus size: 141
110805433 CCGAAGTGTA
*
110805443 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
110805508 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
110805573 ATGTGAAAGTG
131 ATGTGAAAGTG
110805584 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
*
110805649 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGAT
64 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGAT
110805714 GAATGTGAAAGTG
129 GAATGTGAAAGTG
110805727 TATATAT
1 TATATAT
110805734 ATGTGATGAA
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
141 46 0.32
143 100 0.68
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
ATGTGAAAGTG
Found at i:110805699 original size:39 final size:39
Alignment explanation
Indices: 110805655--110805908 Score: 136
Period size: 39 Copynumber: 6.2 Consensus size: 39
110805645 AAGGCCTAAT
110805655 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
**
110805694 GGCCGAATG-GCCG-ATGTGATGAA-TGTGA-A-A-GTGTATATA
1 GGCCG-ATGTGATGAATGTGA--AAGTGT-ATATATGTG-ATA-A
*
110805733 ----TATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
110805770 GGCC--TGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
110805809 GGCCTAATGGCTGATGTGATGAATGTGAAGGTGTATATATGTGATAA
1 GG-C------C-GATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
110805856 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 -G-------GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
110805903 GGCCGA
1 GGCCGA
110805909 GTGGCCAACG
Statistics
Matches: 170, Mismatches: 9, Indels: 72
0.68 0.04 0.29
Matches are distributed among these distances:
34 5 0.03
35 4 0.02
36 7 0.04
37 6 0.04
38 14 0.08
39 57 0.34
40 7 0.04
46 2 0.01
47 46 0.27
48 2 0.01
49 18 0.11
54 1 0.01
55 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (39 bp):
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:110805745 original size:27 final size:27
Alignment explanation
Indices: 110805707--110805767 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
110805697 CGAATGGCCG
110805707 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
110805734 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
110805761 ATGTGAT
1 ATGTGAT
110805768 AAGGCCTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:110805872 original size:47 final size:47
Alignment explanation
Indices: 110805774--110805950 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
110805764 TGATAAGGCC
*
110805774 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGA
1 TGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGA
* *
110805823 TGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATAGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * * * *
110805870 TGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * * *
110805917 CGTGATGGACGTGAAAGTGTATAAATGTGATAAG
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAG
110805951 TCCCGAAGGG
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 94 0.84
49 18 0.16
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
Found at i:110805885 original size:209 final size:207
Alignment explanation
Indices: 110805571--110805947 Score: 605
Period size: 209 Copynumber: 1.8 Consensus size: 207
110805561 CCGATGTGAT
110805571 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
* *
110805636 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
66 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAA
* * *
110805701 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATGAATGTGAAAGTGTATATATATGTG
131 TGGCCAACGTGATGAACGTGAAAGTGTATA-A-ATGTGATGAATGTGAAAGTGTATATATATGTG
110805766 ATAAGGCCTGTGAT
194 ATAAGGCCTGTGAT
* * *
110805780 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTG-AAG-GTGT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
*
110805843 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCG
64 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCG
* *
110805908 AGTGGCCAACGTGATGGACGTGAAAGTGTATAAATGTGAT
129 AATGGCCAACGTGATGAACGTGAAAGTGTATAAATGTGAT
110805948 AAGTCCCGAA
Statistics
Matches: 155, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
207 7 0.05
208 1 0.01
209 105 0.68
210 3 0.02
211 39 0.25
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (207 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAA
TGGCCAACGTGATGAACGTGAAAGTGTATAAATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTGTGAT
Found at i:110822080 original size:16 final size:16
Alignment explanation
Indices: 110822040--110822094 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
110822030 TTAATCATAT
*
110822040 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
110822056 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
110822071 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
110822089 -TAAAAT
1 TTAAAAT
110822095 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:110822087 original size:18 final size:17
Alignment explanation
Indices: 110822060--110822094 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
110822050 TTTTTATTAA
*
110822060 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
110822078 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
110822095 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:110822267 original size:119 final size:120
Alignment explanation
Indices: 110822043--110822320 Score: 436
Period size: 119 Copynumber: 2.3 Consensus size: 120
110822033 ATCATATTTA
*
110822043 AACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * *
110822108 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAATT
*
110822163 AACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAAT-AAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * *
110822226 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATAATTT
65 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAATT
*
110822282 AACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATA
110822321 TTTTCAATTA
Statistics
Matches: 146, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
118 14 0.10
119 87 0.60
120 45 0.31
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAATT
Found at i:110824252 original size:19 final size:19
Alignment explanation
Indices: 110824228--110824264 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
110824218 ATAAAATATT
110824228 ATCGTTCAGGTACATATAC
1 ATCGTTCAGGTACATATAC
*
110824247 ATCGTTCAGGTGCATATA
1 ATCGTTCAGGTACATATA
110824265 GAGGTCATGC
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:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTTCAGGTACATATAC
Found at i:110825316 original size:15 final size:15
Alignment explanation
Indices: 110825292--110825321 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
110825282 GGAGGGTAAA
*
110825292 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
110825307 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
110825322 GCCAAAAAAG
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:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:110826492 original size:20 final size:19
Alignment explanation
Indices: 110826467--110826514 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
110826457 CATTACAAGT
110826467 ATAATTATTATATTT-TATTA
1 ATAATTATT-TATTTATA-TA
110826487 ATAATTTATTTATTTATATA
1 ATAA-TTATTTATTTATATA
*
110826507 TTAATTAT
1 ATAATTAT
110826515 AGTTGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 14 0.56
21 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTATTTATTTATATA
Found at i:110828884 original size:11 final size:11
Alignment explanation
Indices: 110828868--110828902 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
110828858 CCGGATTCCC
110828868 CTCCCTTCTCT
1 CTCCCTTCTCT
110828879 CTCCCTTCTCT
1 CTCCCTTCTCT
110828890 CTTCCC-TCTCT
1 C-TCCCTTCTCT
110828901 CT
1 CT
110828903 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:110829428 original size:22 final size:23
Alignment explanation
Indices: 110829385--110829429 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
110829375 ATATTACCAT
*
110829385 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
110829408 TATT-TTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
110829430 CCTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:110829696 original size:19 final size:19
Alignment explanation
Indices: 110829661--110829697 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
110829651 ATATATTACC
**
110829661 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
110829680 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
110829698 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:110831895 original size:19 final size:20
Alignment explanation
Indices: 110831855--110831898 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
110831845 GTCTCTTTTG
* *
110831855 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
110831874 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
110831893 GCATTA
1 GCATTA
110831899 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:110836130 original size:42 final size:42
Alignment explanation
Indices: 110836083--110836303 Score: 118
Period size: 42 Copynumber: 5.2 Consensus size: 42
110836073 GTTAGCTGAT
110836083 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * *
110836125 CTTGCC-ACTCT-CGTCTG-TAG-TAGAGCTGGTTGAAGATAGCAGAA-
1 CTTGCCTTC-CTGCAT-TGACAGCGA-AGCAGATCGAAG--A-CA-AAC
110836169 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * *
110836211 CTTGCCATT-CT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCC-TTCCTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
*
110836255 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
110836297 CTTGCCT
1 CTTGCCT
110836304 CTCTCGTTTG
Statistics
Matches: 126, Mismatches: 31, Indels: 44
0.63 0.15 0.22
Matches are distributed among these distances:
40 2 0.02
41 28 0.22
42 33 0.26
43 8 0.06
44 25 0.20
45 28 0.22
46 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:110836174 original size:86 final size:86
Alignment explanation
Indices: 110836029--110836378 Score: 504
Period size: 86 Copynumber: 4.1 Consensus size: 86
110836019 AGTAAAAATT
* * * * *
110836029 GAAGATAAACATTGCCTCTCTCGGTC-GTAGCAGAGCTGGTTGAAGTTAGCTGATCTTGCCTTCC
1 GAAGACAAACCTTGCCACTCTC-GTCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
110836093 TGCATTGACAGCGAAGCAGATC
65 TGCATTGACAGCGAAGCAGATC
* *
110836115 GAAGACAAACCTTGCCACTCTCGTCTGTAGTAGAGCTGGTTGAAGATAGCAGAACTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
110836180 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
110836201 GAAGACAAACCTTGCCATTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
*
110836266 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * * *
110836287 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATTGCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCACTCTCGTCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* * *
110836352 GTATTTGGCAGCGAAGCAGATT
66 GCA-TTGACAGCGAAGCAGATC
110836374 GAAGA
1 GAAGA
110836379 TGGCAGATTT
Statistics
Matches: 241, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
85 3 0.01
86 218 0.90
87 20 0.08
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:110836246 original size:41 final size:41
Alignment explanation
Indices: 110836115--110836246 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
110836105 GAAGCAGATC
* *
110836115 GAAGACAAACCTTGCCACTCTCGTCTGTAGTAGAGCTGGTT
1 GAAGACAAACCTTGCCATTCTCGTTTGTAGTAGAGCTGGTT
* * * * * *
110836156 GAAGATAGCAGAA-CTTGCC-TTC-CTGCATTGACAG-CGAAGCAGATC
1 GAAG--A-CA-AACCTTGCCATTCTC-G-TTTG-TAGTAG-AGCTGGTT
110836201 GAAGACAAACCTTGCCATTCTCGTTTGTAGTAGAGCTGGTT
1 GAAGACAAACCTTGCCATTCTCGTTTGTAGTAGAGCTGGTT
110836242 GAAGA
1 GAAGA
110836247 TAGCAGATCT
Statistics
Matches: 65, Mismatches: 14, Indels: 24
0.63 0.14 0.23
Matches are distributed among these distances:
41 18 0.28
42 13 0.20
43 9 0.14
44 12 0.18
45 13 0.20
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (41 bp):
GAAGACAAACCTTGCCATTCTCGTTTGTAGTAGAGCTGGTT
Found at i:110836454 original size:45 final size:45
Alignment explanation
Indices: 110836403--110836655 Score: 140
Period size: 45 Copynumber: 5.4 Consensus size: 45
110836393 TCCCTGACTA
*
110836403 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * * *
110836448 CAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
*
110836498 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * ***
110836543 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A--CCA
1 CAGTGGAATACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
*
110836593 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* *
110836638 CAGCGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
110836656 ATTGCAGATC
Statistics
Matches: 149, Mismatches: 37, Indels: 44
0.65 0.16 0.19
Matches are distributed among these distances:
42 22 0.15
43 4 0.03
44 1 0.01
45 47 0.32
46 6 0.04
47 2 0.01
48 2 0.01
49 6 0.04
50 32 0.21
51 1 0.01
52 4 0.03
53 22 0.15
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:110836506 original size:95 final size:95
Alignment explanation
Indices: 110836369--110836657 Score: 542
Period size: 95 Copynumber: 3.0 Consensus size: 95
110836359 GCAGCGAAGC
*
110836369 AGATTGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
110836434 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
110836464 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
110836529 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
110836559 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
110836624 CTCCCTGTATTTGGCAGCGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
110836654 AGAT
1 AGAT
110836658 TGCAGATCTT
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 190 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:110836513 original size:50 final size:49
Alignment explanation
Indices: 110836448--110836610 Score: 133
Period size: 50 Copynumber: 3.4 Consensus size: 49
110836438 CTGTATTTGG
*
110836448 CAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAATACATTGAAGATC-AAGATGGCAGATTTTACCTCCCTGACTA
* * * * * * *
110836498 CAGTGGAGTACATTGAAG--C-CGAT---A-ACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGATCAAGATGGCAGATTTTACCTCCCTG-A-CT-A
* *
110836543 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCA
1 CAGTGGAATACATTGAAGATC-AAGATGGCAGATTTTACCTCCCTGACTA
*
110836593 CAGTGGAGTACATTGAAG
1 CAGTGGAATACATTGAAG
110836611 CCGATAACTC
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 11 0.13
43 2 0.02
44 1 0.01
45 16 0.19
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 32 0.39
52 2 0.02
53 11 0.13
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (49 bp):
CAGTGGAATACATTGAAGATCAAGATGGCAGATTTTACCTCCCTGACTA
Found at i:110836780 original size:134 final size:134
Alignment explanation
Indices: 110836559--110836896 Score: 532
Period size: 134 Copynumber: 2.5 Consensus size: 134
110836549 AATAGATTGA
110836559 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
* * *
110836624 CTCCCTGTATTTGGCAGCGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGCACTTGGCAGCGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
110836689 AAGC
131 AAGC
110836693 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
* * *
110836758 CTCCCTGCACTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTTCTGTATTTGGTAGCA
66 CTCCCTGCACTTGGCAGCGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
110836823 AAGC
131 AAGC
* ** * * ** * **
110836827 AGGTTGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGATAGTTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
110836892 CTCCC
66 CTCCC
110836897 GGGGCAAGAA
Statistics
Matches: 188, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 188 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCACTTGGCAGCGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
AAGC
Found at i:110838087 original size:11 final size:11
Alignment explanation
Indices: 110838071--110838096 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
110838061 CACAAGAAAT
110838071 AAAAAAATAAA
1 AAAAAAATAAA
110838082 AAAAAAATAAA
1 AAAAAAATAAA
110838093 AAAA
1 AAAA
110838097 TATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:110838195 original size:11 final size:11
Alignment explanation
Indices: 110838179--110838213 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
110838169 CCGGATTCCC
110838179 CTCCCTTCTCT
1 CTCCCTTCTCT
110838190 CTCCCTTCTCT
1 CTCCCTTCTCT
110838201 CTTCCC-TCTCT
1 C-TCCCTTCTCT
110838212 CT
1 CT
110838214 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:110838738 original size:23 final size:23
Alignment explanation
Indices: 110838694--110838739 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
110838684 ATATTACCAT
*
110838694 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
110838717 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
110838740 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:110839006 original size:19 final size:19
Alignment explanation
Indices: 110838971--110839007 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
110838961 ATATATTACC
**
110838971 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
110838990 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
110839008 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:110844787 original size:18 final size:18
Alignment explanation
Indices: 110844764--110844799 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
110844754 AAGGCACTTA
110844764 AATAATAATTAAACCATT
1 AATAATAATTAAACCATT
110844782 AATAATAATTAAACCATT
1 AATAATAATTAAACCATT
110844800 CAACTAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAATTAAACCATT
Found at i:110846121 original size:10 final size:10
Alignment explanation
Indices: 110846094--110846152 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
110846084 TATTTTTAGT
110846094 AATTTT-TTA
1 AATTTTATTA
110846103 ATATTTTTATTA
1 A-A-TTTTATTA
* *
110846115 AAGTTTAATA
1 AATTTTATTA
110846125 AATTTTA-TA
1 AATTTTATTA
*
110846134 AATTTTATTT
1 AATTTTATTA
*
110846144 ATTTTTATT
1 AATTTTATT
110846153 TTTTATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
9 10 0.24
10 22 0.54
11 5 0.12
12 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
AATTTTATTA
Found at i:110846121 original size:19 final size:19
Alignment explanation
Indices: 110846099--110846152 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
110846089 TTAGTAATTT
110846099 TTTAATATTTTTATTAAAG
1 TTTAATATTTTTATTAAAG
* *
110846118 TTTAATAAATTTTA-TAAAT
1 TTTAAT-ATTTTTATTAAAG
*
110846137 TTTATTTATTTTTATT
1 TTTA-ATATTTTTATT
110846153 TTTTATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAATATTTTTATTAAAG
Found at i:110846450 original size:84 final size:86
Alignment explanation
Indices: 110846301--110846457 Score: 205
Period size: 84 Copynumber: 1.8 Consensus size: 86
110846291 GAAAAGAGCA
* * * *
110846301 GGGGCTTAATTGCTTTTTTTGATAAATTTTGAAAGTCTTTTTTTATGCATTTTGATAGTTCAAGT
1 GGGGCTTAATTGCTTTTTTTGATAAAGTTTGAAAGGCCTTTTTTATGCATTTTAATAGTTCAAGT
*
110846366 ATTCAATTAAGTGCAAAAAAG
66 ATCCAATTAAGTGCAAAAAAG
* *
110846387 GGGGCTTAATTG-TTTCTTTTGA-AAAGTTTG-AGGGCCTTTTTTATTCATTTTAA-ATGTTCAA
1 GGGGCTTAATTGCTTT-TTTTGATAAAGTTTGAAAGGCCTTTTTTATGCATTTTAATA-GTTCAA
110846448 GTATCCAATT
64 GTATCCAATT
110846458 TAATATAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 1 0.02
84 33 0.53
85 10 0.16
86 18 0.29
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (86 bp):
GGGGCTTAATTGCTTTTTTTGATAAAGTTTGAAAGGCCTTTTTTATGCATTTTAATAGTTCAAGT
ATCCAATTAAGTGCAAAAAAG
Found at i:110846672 original size:18 final size:20
Alignment explanation
Indices: 110846635--110846672 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
110846625 ATTTTTGAAA
*
110846635 ATTTTAATTATATCCTTAAT
1 ATTTTAATTAAATCCTTAAT
110846655 ATTTTAA-TAAAT-CTTAAT
1 ATTTTAATTAAATCCTTAAT
110846673 TAGGTCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAATTAAATCCTTAAT
Found at i:110850729 original size:14 final size:14
Alignment explanation
Indices: 110850710--110850740 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110850700 CTACCATTAA
110850710 ACTATTATGTTGTT
1 ACTATTATGTTGTT
*
110850724 ACTATTTTGTTGTT
1 ACTATTATGTTGTT
110850738 ACT
1 ACT
110850741 GTTCTGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (14 bp):
ACTATTATGTTGTT
Found at i:110853242 original size:14 final size:14
Alignment explanation
Indices: 110853223--110853253 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110853213 CTACCATTAA
110853223 ACTATTATGTTGTT
1 ACTATTATGTTGTT
*
110853237 ACTATTTTGTTGTT
1 ACTATTATGTTGTT
110853251 ACT
1 ACT
110853254 GTTCTGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (14 bp):
ACTATTATGTTGTT
Found at i:110855644 original size:7 final size:7
Alignment explanation
Indices: 110855632--110855660 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
110855622 TTGAATATTT
110855632 CATTTCA
1 CATTTCA
110855639 CATTTCA
1 CATTTCA
110855646 CATTTCA
1 CATTTCA
110855653 CATTTCA
1 CATTTCA
110855660 C
1 C
110855661 TGTTATCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (7 bp):
CATTTCA
Found at i:110863282 original size:3 final size:3
Alignment explanation
Indices: 110863267--110863303 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
110863257 TATTTACATT
*
110863267 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110863304 AAAAGGGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:110864978 original size:20 final size:19
Alignment explanation
Indices: 110864941--110864979 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
110864931 CCTTCTATTC
110864941 CTTTTATTTTGTTTTCTTT
1 CTTTTATTTTGTTTTCTTT
110864960 CTTTTGATTTT-TTTCTCTTT
1 CTTTT-ATTTTGTTT-TCTTT
110864980 AAATTGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (19 bp):
CTTTTATTTTGTTTTCTTT
Found at i:110866549 original size:12 final size:13
Alignment explanation
Indices: 110866526--110866555 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
110866516 AGTGTGCTTG
110866526 TTTTTTATTTTTA
1 TTTTTTATTTTTA
110866539 TTTTTTA-TTTTA
1 TTTTTTATTTTTA
110866551 TTTTT
1 TTTTT
110866556 ATTACATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:110866833 original size:24 final size:22
Alignment explanation
Indices: 110866791--110866834 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
110866781 CCTCCCGGTT
110866791 TTGTCTTCTTTGTCTTATTCTC
1 TTGTCTTCTTTGTCTTATTCTC
*
110866813 TTGTCTTTCTGTTTTCTTATTC
1 TTGTC-TTCT-TTGTCTTATTC
110866835 AAAATTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 4 0.21
24 10 0.53
ACGTcount: A:0.05, C:0.20, G:0.09, T:0.66
Consensus pattern (22 bp):
TTGTCTTCTTTGTCTTATTCTC
Found at i:110868241 original size:41 final size:41
Alignment explanation
Indices: 110868172--110868279 Score: 110
Period size: 41 Copynumber: 2.7 Consensus size: 41
110868162 AAAAGCGCCG
* * * * **
110868172 CTATAGATCGAGAATTAGCAGCGC-TTTTTGAAAAATGCCA
1 CTATAGATCAAGCATTAGCGGCGCTTTTTTAAAAAACACCA
* *
110868212 CTATAGATCAAGCATTAGCGGCACTTTTTTAAAAAACACCG
1 CTATAGATCAAGCATTAGCGGCGCTTTTTTAAAAAACACCA
* * *
110868253 CTATAGGTCCACCATTAGCGGCGCTTT
1 CTATAGATCAAGCATTAGCGGCGCTTT
110868280 ATGCAAAAAG
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 20 0.36
41 35 0.64
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (41 bp):
CTATAGATCAAGCATTAGCGGCGCTTTTTTAAAAAACACCA
Found at i:110868394 original size:40 final size:40
Alignment explanation
Indices: 110868339--110868488 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 40
110868329 AGCTTTAGTG
* * *
110868339 GCATTAGCGGTGCTTTTTGAAAAACGCAGTTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
110868379 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
110868419 -CTATTAGTGG-GTCTTTTTGAAAAATGCCGCTATAGATCGA
1 GC-ATTAGCGGCG-CTTTTTGAAAAACGCCGCTATAGATCGA
* * * * *
110868459 GCTTTAGCAGCACTTTATCAAAAACGCCGC
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGC
110868489 AAAAACATTT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 87 0.97
41 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:110868814 original size:14 final size:14
Alignment explanation
Indices: 110868795--110868825 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110868785 ATCATTTTAA
*
110868795 TTTAGGGTTTATGG
1 TTTAGGGTATATGG
110868809 TTTAGGGTATATGG
1 TTTAGGGTATATGG
110868823 TTT
1 TTT
110868826 TGGTTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (14 bp):
TTTAGGGTATATGG
Found at i:110868877 original size:22 final size:21
Alignment explanation
Indices: 110868852--110868902 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
110868842 GAGTTACTAT
*
110868852 TTTAAGGTTTAT-GTATTATGAG
1 TTTAAGGATTATGGT-TTATG-G
*
110868874 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGTTTATGG
110868895 TTTAAGGA
1 TTTAAGGA
110868903 CTAGGGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 8 0.32
22 15 0.60
23 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
TTTAAGGATTATGGTTTATGG
Found at i:110868948 original size:14 final size:14
Alignment explanation
Indices: 110868915--110868948 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110868905 AGGGGTTTGG
*
110868915 GGTTTATGATTTAT
1 GGTTTATGATTTAA
*
110868929 GTTTTATGATTTAA
1 GGTTTATGATTTAA
110868943 GGTTTA
1 GGTTTA
110868949 GGGGATAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (14 bp):
GGTTTATGATTTAA
Found at i:110869405 original size:43 final size:43
Alignment explanation
Indices: 110869331--110869558 Score: 234
Period size: 43 Copynumber: 5.3 Consensus size: 43
110869321 AATAATTTCA
* *
110869331 CTTTAGCGGC-TTTCGTGGGAAAAGC-ACCGCTAAATGTCATGTT
1 CTTTAGCGGCGTTT-GTGGAAAAAGCGA-CGCTAAAGGTCATGTT
* * * *
110869374 CTATAGCAGCGTTTGTGGTAAAAGTGACGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGACGCTAAAGGTCATGTT
* *
110869417 CTTTAGTGGCGTTTGT-GAAAACAACG-CTGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGAAAA-AGCGAC-GCTAAAGGTCATGTT
* * * *
110869460 TTTTAGCGGCGTTTAT-GAGAAAAGCGCCACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGA-AAAAGCGACGCTAAAGGTCATGTT
*
110869503 CTTTAGCGACGTTTGTGGAAAAAGC-ACCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGA-CGCTAAAGGTCATGTT
*
110869546 CTATAGCGGCGTT
1 CTTTAGCGGCGTT
110869559 GTAACAACCC
Statistics
Matches: 154, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.03
43 139 0.90
44 10 0.06
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGAAAAAGCGACGCTAAAGGTCATGTT
Found at i:110869483 original size:86 final size:86
Alignment explanation
Indices: 110869331--110869558 Score: 264
Period size: 86 Copynumber: 2.7 Consensus size: 86
110869321 AATAATTTCA
* * * * * *
110869331 CTTTAGCGGC-TTTCGTGGGAAAAGCACCGCTAAATGTCATGTTCTATAGCAGCGTTTGTGGTAA
1 CTTTAGCGACGTTT-GTGGAAAAAACACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATGGTAA
* *
110869395 AAGTGACGCTAAAGGTCATGTT
65 AAGCGACACTAAAGGTCATGTT
* * * * * *
110869417 CTTTAGTGGCGTTTGT-GAAAACAACGCTGCTAAAGGTCATGTTTTTTAGCGGCGTTTATGAG-A
1 CTTTAGCGACGTTTGTGGAAAA-AACACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATG-GTA
*
110869480 AAAGCGCCACTAAAGGTCATGTT
64 AAAGCGACACTAAAGGTCATGTT
*
110869503 CTTTAGCGACGTTTGTGGAAAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTT
1 CTTTAGCGACGTTTGTGGAAAAAACACCGCTAAAGGTCATGTTCTATAGCGGCGTT
110869559 GTAACAACCC
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
85 4 0.03
86 105 0.89
87 9 0.08
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (86 bp):
CTTTAGCGACGTTTGTGGAAAAAACACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATGGTAAA
AGCGACACTAAAGGTCATGTT
Found at i:110870988 original size:47 final size:47
Alignment explanation
Indices: 110870928--110871155 Score: 221
Period size: 47 Copynumber: 4.9 Consensus size: 47
110870918 TGGTTGAACC
* *
110870928 ATGGCAACA-TGTGATATGTGATTTTCGTATAAGACCATAGCT-GGCT
1 ATGGCATCAGTGTGATATGTGATTCT-GTATAAGACCATAGCTGGGCT
* * * *
110870974 ATAGCATCAGTGTGATATGAGCTTCTGTATAAGACCATATCTGAGG-T
1 ATGGCATCAGTGTGATATGTGATTCTGTATAAGACCATAGCTG-GGCT
* * * * * *
110871021 ATGTCATCGGTGTGATATGTGCTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTCTGTATAAGACCATAGCTGGGCT
* *
110871068 ATGGCATCAGTGTGATATGTGA-TCTGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGTGTGATATGTGATTCTGTATAAGACCATAGCTGGGCT
* * * **
110871114 ATGGCTTCAGTGTGTGATATGTGACTATGTGCAAGACCATAG
1 ATGGCATCA--GTGTGATATGTGATTCTGTATAAGACCATAG
110871156 TTTTATTATG
Statistics
Matches: 154, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
46 53 0.34
47 72 0.47
48 15 0.10
49 14 0.09
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGATTCTGTATAAGACCATAGCTGGGCT
Found at i:110871127 original size:93 final size:94
Alignment explanation
Indices: 110870937--110871155 Score: 230
Period size: 93 Copynumber: 2.3 Consensus size: 94
110870927 CATGGCAACA
* * * * *
110870937 TGTGATATGTGATTTTCGTATAAGACCATAGCTGGCTATAGCATCAGTGTGATATGAGCTTCTGT
1 TGTGATATGTGCTTAT-GTGTAAGACCATAGCTGGATATAGCATCAGTGTGATATGAGCATCTGT
* *
110871002 ATAAGACCATATCTGAGGTATGTCATC-GG
65 ATAAGACCATAGCTGAGGTATGGCATCAGG
* * * *
110871031 TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATATGGCATCAGTGTGATATGTG-ATCTGT
1 TGTGATATGTGCTTATGTGTAAGACCATAGCT-GGATATAGCATCAGTGTGATATGAGCATCTGT
* * *
110871095 GTAAGACCATGGCTG-GGCTATGGCTTCAGTG
65 ATAAGACCATAGCTGAGG-TATGGCATCAG-G
*
110871126 TGTGATATGTGAC-TATGTGCAAGACCATAG
1 TGTGATATGTG-CTTATGTGTAAGACCATAG
110871156 TTTTATTATG
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
92 2 0.02
93 38 0.37
94 37 0.36
95 26 0.25
96 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (94 bp):
TGTGATATGTGCTTATGTGTAAGACCATAGCTGGATATAGCATCAGTGTGATATGAGCATCTGTA
TAAGACCATAGCTGAGGTATGGCATCAGG
Found at i:110872448 original size:15 final size:16
Alignment explanation
Indices: 110872430--110872462 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
110872420 TTAAAGGTAT
*
110872430 AAAGAGTAAA-AAATA
1 AAAGAATAAACAAATA
110872445 AAAGAATAAACAAATA
1 AAAGAATAAACAAATA
110872461 AA
1 AA
110872463 TAAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAGAATAAACAAATA
Found at i:110872461 original size:16 final size:15
Alignment explanation
Indices: 110872430--110872471 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
110872420 TTAAAGGTAT
*
110872430 AAAGAGTAAAAAATA
1 AAAGAATAAAAAATA
110872445 AAAGAATAAACAAATA
1 AAAGAATAAA-AAATA
110872461 AATA-AATAAAA
1 AA-AGAATAAAA
110872472 GGCTTGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 13 0.54
17 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAGAATAAAAAATA
Found at i:110873759 original size:17 final size:17
Alignment explanation
Indices: 110873733--110873765 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
110873723 TTATTATTAT
110873733 TTTTGGTTTGTTTTTTG
1 TTTTGGTTTGTTTTTTG
*
110873750 TTTTGTTTTGTTTTTT
1 TTTTGGTTTGTTTTTT
110873766 TGGTTTTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (17 bp):
TTTTGGTTTGTTTTTTG
Found at i:110879977 original size:69 final size:69
Alignment explanation
Indices: 110879866--110880095 Score: 284
Period size: 69 Copynumber: 3.3 Consensus size: 69
110879856 GCTGTAATGG
* * * *
110879866 GGAATAATGTGTAAGACCATAGCTCAACTATGGCAATATAGAGAGAGTTTGTCATGACATTAAAC
1 GGAATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGACAGGACATTAAAC
110879931 ATGA
66 ATGA
** *** *
110879935 GGAATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGAGTCCCCCAGGTCATT-AAC
1 GGAATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGACAGGACATTAAAC
*
110879999 ATGG
66 ATGA
* * *
110880003 GGAATAATGTCTAAGACCATAACTCAACTATGGCAACATAGAGAGACTCTGACAGGACATTAAAC
1 GGAATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGACAGGACATTAAAC
110880068 ATGA
66 ATGA
* * *
110880072 -AACATGATGTGTAAAACCATAGCT
1 GGA-ATAATGTGTAAGACCATAGCT
110880096 TGGCTATGGC
Statistics
Matches: 134, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
68 59 0.44
69 75 0.56
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (69 bp):
GGAATAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGACAGGACATTAAAC
ATGA
Found at i:110890403 original size:21 final size:21
Alignment explanation
Indices: 110890364--110890404 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
110890354 GCTCGTGCCT
* *
110890364 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTACAGCCG
*
110890385 CTGCCTCCCTCTCTACAGCC
1 CTGCCTCCCTCGCTACAGCC
110890405 TCCGCTCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.51, G:0.17, T:0.24
Consensus pattern (21 bp):
CTGCCTCCCTCGCTACAGCCG
Found at i:110895802 original size:9 final size:9
Alignment explanation
Indices: 110895788--110895948 Score: 189
Period size: 9 Copynumber: 18.0 Consensus size: 9
110895778 TGACAACATA
110895788 TAAGTTATG
1 TAAGTTATG
*
110895797 TAAGTTATA
1 TAAGTTATG
110895806 TAAGTTATG
1 TAAGTTATG
110895815 TAAGTTATG
1 TAAGTTATG
110895824 TAAGTTATG
1 TAAGTTATG
*
110895833 TAAGTTATA
1 TAAGTTATG
110895842 TAAGTTATG
1 TAAGTTATG
110895851 TAAGTTATG
1 TAAGTTATG
* *
110895860 TATGTTATA
1 TAAGTTATG
*
110895869 TGAGTTATG
1 TAAGTTATG
*
110895878 TAAGTTATA
1 TAAGTTATG
*
110895887 TAAGTTATA
1 TAAGTTATG
* *
110895896 T-ATTTATC
1 TAAGTTATG
*
110895904 TAAGTTATA
1 TAAGTTATG
110895913 TAAGTTATG
1 TAAGTTATG
* *
110895922 TATGTTTTG
1 TAAGTTATG
*
110895931 TAAGTTATA
1 TAAGTTATG
*
110895940 TAAATTATG
1 TAAGTTATG
110895949 ATATCAAATA
Statistics
Matches: 128, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
8 6 0.05
9 122 0.95
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:110895819 original size:27 final size:27
Alignment explanation
Indices: 110895789--110895947 Score: 212
Period size: 27 Copynumber: 5.9 Consensus size: 27
110895779 GACAACATAT
*
110895789 AAGTTATGTAAGTTATATAAGTTATGT
1 AAGTTATGTAAGTTATATAAGTTATAT
*
110895816 AAGTTATGTAAGTTATGTAAGTTATAT
1 AAGTTATGTAAGTTATATAAGTTATAT
* *
110895843 AAGTTATGTAAGTTATGTATGTTATAT
1 AAGTTATGTAAGTTATATAAGTTATAT
*
110895870 GAGTTATGTAAGTTATATAAGTTATAT
1 AAGTTATGTAAGTTATATAAGTTATAT
* * *
110895897 -ATTTATCTAAGTTATATAAGTTATGT
1 AAGTTATGTAAGTTATATAAGTTATAT
* * *
110895923 ATGTTTTGTAAGTTATATAAATTAT
1 AAGTTATGTAAGTTATATAAGTTAT
110895948 GATATCAAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 23 0.20
27 94 0.80
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (27 bp):
AAGTTATGTAAGTTATATAAGTTATAT
Found at i:110896073 original size:15 final size:15
Alignment explanation
Indices: 110896053--110896108 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
110896043 AAGTAGCGGG
110896053 ATTAAATAATATTTA
1 ATTAAATAATATTTA
110896068 ATTAAATAATATTT-
1 ATTAAATAATATTTA
110896082 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
110896097 ATTAAGTAATAT
1 ATTAAATAATAT
110896109 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:110896833 original size:290 final size:290
Alignment explanation
Indices: 110896313--110897318 Score: 1899
Period size: 290 Copynumber: 3.5 Consensus size: 290
110896303 TTGTGATAAA
* *
110896313 AAGTCTTTTTGAATTTTTTAAGATTCATCATAAGTGGCGTTGTTACACCTAGGTAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
* *
110896378 TATCTTGCAGCTCGATATAAGGCAACCTGTTAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
*
110896443 TATTTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
110896508 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
196 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
110896573 ATAGTAAATGAGCTCGATAGAACTTTTTTC
261 ATAGTAAATGAGCTCGATAGAACTTTTTTC
* *
110896603 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTTCACCTAGGGATGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
110896668 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
110896733 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
110896798 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
196 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
110896863 ATAGTAAATGAGCTCGATAGAACTTTTTTC
261 ATAGTAAATGAGCTCGATAGAACTTTTTTC
* *
110896893 AAGTCTTTTTGAATTTTTTAAGATTCATTATATGTGGCGTTGTTACACCTAGGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
*
110896958 TATCTTGCAGGTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
110897023 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATC-
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
110897087 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
196 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
110897152 ATAGTAAATGAGCTCGATAGAACTTTTTTC
261 ATAGTAAATGAGCTCGATAGAACTTTTTTC
*
110897182 AAGTCTTTTTGAA-TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTACGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
110897246 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
110897311 TATTTAAA
131 TATTTAAA
110897319 ATAAGGTTGG
Statistics
Matches: 700, Mismatches: 16, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
288 120 0.17
289 108 0.15
290 472 0.67
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (290 bp):
AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
ATAGTAAATGAGCTCGATAGAACTTTTTTC
Found at i:110899451 original size:62 final size:61
Alignment explanation
Indices: 110899264--110899443 Score: 335
Period size: 61 Copynumber: 3.0 Consensus size: 61
110899254 ACAAACTAGT
110899264 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
*
110899325 TTTTCCATTTCAGAACAAAAAATCGAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
110899386 TTTTCCATTTCAGAACAAAAATATCCAAACAACAGACATAAAACTGAC-AAAAAGAAAT
1 TTTTCCATTTCAGAACAAAAA-ATCCAAACAACAGACATAAAACTGACAAAAAAGAAAT
110899444 CAAATTTTGG
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
61 91 0.78
62 25 0.22
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.19
Consensus pattern (61 bp):
TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
Found at i:110901828 original size:26 final size:25
Alignment explanation
Indices: 110901799--110901848 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
110901789 AAATTAATCA
110901799 TAAACCTTCAAATAC-TAGTTAACTCC
1 TAAACCTT-AAA-ACATAGTTAACTCC
*
110901825 TAAACCTTAAACCATAGTTAACTC
1 TAAACCTTAAAACATAGTTAACTC
110901849 ATAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAACCTTAAAACATAGTTAACTCC
Found at i:110904675 original size:26 final size:25
Alignment explanation
Indices: 110904646--110904695 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
110904636 GAATTAATCA
110904646 TAAACCTTCAAATAC-TAGTTAACTCC
1 TAAACCTT-AAA-ACATAGTTAACTCC
*
110904672 TAAACCTTAAACCATAGTTAACTC
1 TAAACCTTAAAACATAGTTAACTC
110904696 ATAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAACCTTAAAACATAGTTAACTCC
Found at i:110904972 original size:41 final size:41
Alignment explanation
Indices: 110904913--110905255 Score: 499
Period size: 41 Copynumber: 8.4 Consensus size: 41
110904903 GGTTATGAGA
* *
110904913 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTGATGCTCTGG
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
* * *
110904954 TGTTTAGCGGCGTTTTACGAAAAGTGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
* **
110904995 TTTTTTGCGGCGTTTTAGGAAAAGCGATGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
* *
110905036 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAGTGCTCTGG
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
* * * * *
110905077 TTTTTAGCGGCATTTTATGAGAAGCACCGCTAATGCTCTGC
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
*
110905118 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
* *
110905159 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
* *
110905200 TTTTTTGCAGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
110905241 -TTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
110905256 TTTAGAACGC
Statistics
Matches: 268, Mismatches: 34, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
40 13 0.05
41 255 0.95
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
Found at i:110911915 original size:26 final size:25
Alignment explanation
Indices: 110911877--110911936 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
110911867 GGGAAGTTAC
* * *
110911877 TTTTAAATTTAGATTTTTATTCTACT
1 TTTTGAATATAGA-TTTTATTATACT
*
110911903 TTTTGAATATAGATTTTATTATAGT
1 TTTTGAATATAGATTTTATTATACT
110911928 TATTTGAAT
1 T-TTTGAAT
110911937 GTAATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTTGAATATAGATTTTATTATACT
Found at i:110923000 original size:13 final size:12
Alignment explanation
Indices: 110922979--110923007 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
110922969 AGTATTAATA
110922979 AAAATATAT-TT
1 AAAATATATATT
110922990 AAAATATATATT
1 AAAATATATATT
110923002 AAAATA
1 AAAATA
110923008 AAAAGTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATATATT
Found at i:110923944 original size:4 final size:4
Alignment explanation
Indices: 110923930--110923963 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
110923920 AATAGAACAA
* *
110923930 ATGT GTGT ATGT ATGT ATGT ATGT ATGT ACGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
110923964 CTATATGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:110934164 original size:12 final size:13
Alignment explanation
Indices: 110934141--110934169 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
110934131 TTTTCTAAAT
110934141 AAAAAATCAAAGC
1 AAAAAATCAAAGC
110934154 AAAAAAT-AAAGC
1 AAAAAATCAAAGC
110934166 AAAA
1 AAAA
110934170 TCGAACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAATCAAAGC
Found at i:110934497 original size:21 final size:21
Alignment explanation
Indices: 110934457--110934496 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
110934447 AAATTGAAGA
*
110934457 TTAAAAAATTCAGAAAAAAAT
1 TTAAAAAAATCAGAAAAAAAT
110934478 TTAAAAAAAT-AGAAAAAAA
1 TTAAAAAAATCAGAAAAAAA
110934497 AAATACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (21 bp):
TTAAAAAAATCAGAAAAAAAT
Found at i:110956542 original size:17 final size:17
Alignment explanation
Indices: 110956520--110956553 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110956510 TCATATTTAA
110956520 AAAATAAATAAATAAAT
1 AAAATAAATAAATAAAT
* *
110956537 AAAATATATCAATAAAT
1 AAAATAAATAAATAAAT
110956554 CTTATATAAT
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAATAAATAAAT
Found at i:110963904 original size:30 final size:31
Alignment explanation
Indices: 110963863--110963933 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
110963853 TTGAACGATC
* ** *
110963863 TAATATTAATATATTATTGA-TATCTGAGTT
1 TAATTTTAATATACAATTGAGTATCTAAGTT
* *
110963893 TAATTTTAATATACAATTTAGTATTTAAGTT
1 TAATTTTAATATACAATTGAGTATCTAAGTT
110963924 TAATTTTAAT
1 TAATTTTAAT
110963934 GTTTAAATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (31 bp):
TAATTTTAATATACAATTGAGTATCTAAGTT
Found at i:110964132 original size:57 final size:57
Alignment explanation
Indices: 110964020--110964133 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
110964010 CATAAAGTAT
* * **
110964020 TTAATTGGGACAAAAAAATTAAGTATCAAATTAAATATTGAAGTCAAATTTAAATAC
1 TTAATTAGGACAAAAAAATCAAGTATCAAATTAAATATTGAAGTCAAATACAAATAC
* * *
110964077 TTAATTAGGA-AAAAAAACTCAAGTATTAAATTGAATATTGAAGTTAAATACAAATAC
1 TTAATTAGGACAAAAAAA-TCAAGTATCAAATTAAATATTGAAGTCAAATACAAATAC
110964134 AAGAAAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 7 0.14
57 42 0.86
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.31
Consensus pattern (57 bp):
TTAATTAGGACAAAAAAATCAAGTATCAAATTAAATATTGAAGTCAAATACAAATAC
Found at i:110964197 original size:16 final size:17
Alignment explanation
Indices: 110964155--110964197 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
110964145 TTAACTTTTT
110964155 TTATTAAAATTTATATA
1 TTATTAAAATTTATATA
*
110964172 TGT-TTTAAATTT-TATA
1 T-TATTAAAATTTATATA
110964188 TTATTAAAAT
1 TTATTAAAAT
110964198 AATATTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.05
16 11 0.50
17 9 0.41
18 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAAATTTATATA
Found at i:110965157 original size:18 final size:19
Alignment explanation
Indices: 110965131--110965172 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
110965121 GAGACATTTA
*
110965131 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATAGTAT
* *
110965149 TTTTTATGTATTATATTAT
1 TTTTAATGTATTATAGTAT
110965168 TTTTA
1 TTTTA
110965173 TAAAAATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTTAATGTATTATAGTAT
Found at i:110966710 original size:102 final size:101
Alignment explanation
Indices: 110966564--110966769 Score: 261
Period size: 102 Copynumber: 2.0 Consensus size: 101
110966554 ATAGGACATG
* * * ** ** *
110966564 TGGCAGTTTTTTTAACTCCTTTGTGGAGTTAAAAGATTGTATTGCTGGTGTACCGAATTCGAACC
1 TGGCAGTTTTTTTAACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTCGAACC
* *
110966629 CTATATATATGTGTGCGCGTGTATAGTGTGAAGCAATT
66 C--TATATATGTCTGCGCGTGTATAGTATGAAGCAATT
*
110966667 TGGCAGTTTTTTT-ACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTTGAACC
1 TGGCAGTTTTTTTAACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTCGAACC
* * *
110966731 CTATATGTGTCTGTGTGTGTATAGTATGAAGCAATT
66 CTATATATGTCTGCGCGTGTATAGTATGAAGCAATT
110966767 TGG
1 TGG
110966770 TAACTATATT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
100 33 0.37
102 43 0.48
103 13 0.15
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (101 bp):
TGGCAGTTTTTTTAACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTCGAACC
CTATATATGTCTGCGCGTGTATAGTATGAAGCAATT
Found at i:110971908 original size:145 final size:144
Alignment explanation
Indices: 110971727--110972069 Score: 453
Period size: 145 Copynumber: 2.4 Consensus size: 144
110971717 ATACATATCC
*** * *
110971727 ATATCCAACACACTTAAACCCAAGTAACATAAGTTATGAAAGTATGTCACATTATTCGCATAAGA
1 ATATCCAACACACTTAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTCGCATAAGA
110971792 TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTCGTATCTGT
66 TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTC-TATCTGT
110971857 ATCGGATACATATCC
130 ATCGGATACATATCC
* * * *
110971872 AAATCCAACACACTTAAGTTCGAGTAACATAAGTTATGAAGGCATGTTACATTATTCGCATATGA
1 ATATCCAACACACTTAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTCGCATAAGA
* * * * *
110971937 TATGAGAATATGATCTCAAAGGACCCATCATTTAATGAAAGGCTTTAGAATA--CTC--T-TGTA
66 TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTCTATCTGTA
*
110971997 TCGGATACATATTC
131 TCGGATACATATCC
* * * *
110972011 ATATTCAACATACATGTAAGTTTAAGTAACATAAGTTATGAAGGCACGTCACATTATTC
1 ATATCCAACACAC-T-TAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTC
110972070 ACATTATTCG
Statistics
Matches: 174, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
139 27 0.16
140 2 0.01
141 39 0.22
143 3 0.02
145 103 0.59
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (144 bp):
ATATCCAACACACTTAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTCGCATAAGA
TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTCTATCTGTA
TCGGATACATATCC
Found at i:110973797 original size:79 final size:79
Alignment explanation
Indices: 110973657--110973900 Score: 425
Period size: 79 Copynumber: 3.1 Consensus size: 79
110973647 ATAAAAGTTA
* *
110973657 AAATGTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTCTAGCATAATTT
1 AAAT-TTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTT
110973722 TAAAGTTATTTACCT
65 TAAAGTTATTTACCT
* *
110973737 AAATTTTTACTGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAAAATCTGTAACATAATTTT
1 AAATTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
110973802 AAAGTTATTTACCT
66 AAAGTTATTTACCT
**
110973816 AAATTTTTACCATTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
1 AAATTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
110973881 AAAGTTATTTACCT
66 AAAGTTATTTACCT
110973895 AAATTT
1 AAATTT
110973901 GTCTCTCTAT
Statistics
Matches: 156, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
79 152 0.97
80 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (79 bp):
AAATTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
AAAGTTATTTACCT
Found at i:110975419 original size:24 final size:23
Alignment explanation
Indices: 110975351--110975421 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
110975341 TGCTTCAATA
* *
110975351 TTCAAATTGGTACTTGAATTTTT
1 TTCAATTTGATACTTGAATTTTT
110975374 TTCAATTTGATACTTGAATTTTT
1 TTCAATTTGATACTTGAATTTTT
110975397 TTCAATTTGATACTT-AAGTTTTT
1 TTCAATTTGATACTTGAA-TTTTT
110975420 TT
1 TT
110975422 TTTCAACTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 2 0.04
23 43 0.96
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (23 bp):
TTCAATTTGATACTTGAATTTTT
Found at i:110980176 original size:46 final size:46
Alignment explanation
Indices: 110980158--110980264 Score: 130
Period size: 46 Copynumber: 2.3 Consensus size: 46
110980148 TGACAAGTGG
* * *
110980158 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
110980204 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
110980250 -AAGTGAAAAGTGATA
1 AAAGTGATAAGTGATA
110980265 AGTGATAGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
45 14 0.24
46 44 0.76
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:110980177 original size:52 final size:51
Alignment explanation
Indices: 110980106--110980290 Score: 272
Period size: 52 Copynumber: 3.7 Consensus size: 51
110980096 ATCAAGTGAC
* **
110980106 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
110980158 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
110980204 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
110980255 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCT
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCT
110980291 ATGTGATAGC
Statistics
Matches: 120, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
46 44 0.37
52 76 0.63
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:110980212 original size:98 final size:98
Alignment explanation
Indices: 110980092--110980290 Score: 344
Period size: 98 Copynumber: 2.0 Consensus size: 98
110980082 TTTGAGTACT
* *
110980092 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
110980157 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
*
110980190 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
110980255 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
110980288 TCT
1 TCT
110980291 ATGTGATAGC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
Found at i:110980296 original size:27 final size:27
Alignment explanation
Indices: 110980266--110980317 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
110980256 AAAGTGATAA
110980266 GTGATAGCTTCGGCTACACTTATCTAT
1 GTGATAGCTTCGGCTACACTTATCTAT
110980293 GTGATAGCTTCGGCTACACTTATCT
1 GTGATAGCTTCGGCTACACTTATCT
110980318 GATCAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
GTGATAGCTTCGGCTACACTTATCTAT
Found at i:110980345 original size:79 final size:79
Alignment explanation
Indices: 110980214--110980369 Score: 303
Period size: 79 Copynumber: 2.0 Consensus size: 79
110980204 AAAGTGATAA
110980214 GTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGG
1 GTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGG
110980279 CTACACTTATCTAT
66 CTACACTTATCTAT
110980293 GTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGG
1 GTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGG
*
110980358 CTATACTTATCT
66 CTACACTTATCT
110980370 GATCAAGAGA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (79 bp):
GTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGG
CTACACTTATCTAT
Found at i:110980371 original size:52 final size:52
Alignment explanation
Indices: 110980293--110980439 Score: 198
Period size: 46 Copynumber: 2.9 Consensus size: 52
110980283 ACTTATCTAT
*
110980293 GTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAA
1 GTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAA
*
110980345 GTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC------AAAGTGATAA
1 GTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAA
** *
110980391 GTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC-AAGTGAAAAGTG
110980440 GCTACACTTA
Statistics
Matches: 82, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
46 43 0.52
52 34 0.41
53 5 0.06
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (52 bp):
GTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAA
Found at i:110980392 original size:125 final size:120
Alignment explanation
Indices: 110980171--110980415 Score: 339
Period size: 125 Copynumber: 2.0 Consensus size: 120
110980161 GTGATAAGTA
*
110980171 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 ATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
110980236 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTATGTG
66 TCTGATCAAGAGAC-----AAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTATGTG
110980296 ATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTA
1 ATAGCTTCGGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTA
* *
110980361 TACTTATCTGATCAAGAGAC-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCT
60 CACTTATCTGATCAAGAGACAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCT
110980416 GATCAAGAGA
Statistics
Matches: 109, Mismatches: 5, Indels: 12
0.87 0.04 0.10
Matches are distributed among these distances:
125 65 0.60
131 44 0.40
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (120 bp):
ATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
TCTGATCAAGAGACAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTATGTG
Found at i:110980447 original size:37 final size:37
Alignment explanation
Indices: 110980403--110980511 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
110980393 GATAGCTTTA
110980403 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
110980440 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
110980477 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
110980512 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:110981846 original size:9 final size:9
Alignment explanation
Indices: 110981834--110981897 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
110981824 ATAAAAAAAG
110981834 AAAAATATT
1 AAAAATATT
110981843 -AAAATATT
1 AAAAATATT
110981851 AAAAATATT
1 AAAAATATT
110981860 AAAAATA-T
1 AAAAATATT
110981868 --AAATATT
1 AAAAATATT
*
110981875 ATAAATATT
1 AAAAATATT
110981884 ATAAAATA-T
1 A-AAAATATT
110981893 AAAAA
1 AAAAA
110981898 AATCTAATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
6 5 0.10
7 1 0.02
8 13 0.27
9 25 0.51
10 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATATT
Found at i:110981854 original size:17 final size:17
Alignment explanation
Indices: 110981834--110981896 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
110981824 ATAAAAAAAG
110981834 AAAAATATTAAAATATT
1 AAAAATATTAAAATATT
110981851 AAAAATATTAAAA-A-T
1 AAAAATATTAAAATATT
*
110981866 ATAAATATTATAAATATT
1 AAAAATATTA-AAATATT
110981884 ATAAAATA-TAAAA
1 A-AAAATATTAAAA
110981897 AAATCTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 10 0.25
16 4 0.10
17 17 0.43
18 4 0.10
19 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATATTAAAATATT
Found at i:110983905 original size:10 final size:11
Alignment explanation
Indices: 110983883--110983910 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
110983873 ATTAAAGTGC
110983883 TTTTATAATTT
1 TTTTATAATTT
110983894 TTTTATAATTT
1 TTTTATAATTT
110983905 TTTTAT
1 TTTTAT
110983911 GATTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:110993158 original size:3 final size:3
Alignment explanation
Indices: 110993152--110993195 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
110993142 TCATCATCAT
* * *
110993152 CAC CAC CAC CAC CAC CAT CAC CAC CAC CAT CAC CAT CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
110993196 TAGTGCTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.59, G:0.00, T:0.07
Consensus pattern (3 bp):
CAC
Found at i:110993172 original size:18 final size:18
Alignment explanation
Indices: 110993149--110993195 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
110993139 TAATCATCAT
110993149 CATCACCACCACCACCAC
1 CATCACCACCACCACCAC
*
110993167 CATCACCACCACCATCAC
1 CATCACCACCACCACCAC
110993185 CATCACCACCA
1 CATCACCACCA
110993196 TAGTGCTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.34, C:0.57, G:0.00, T:0.09
Consensus pattern (18 bp):
CATCACCACCACCACCAC
Found at i:110993229 original size:6 final size:6
Alignment explanation
Indices: 110993220--110993245 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
110993210 CTCCTGCAGT
110993220 TGCACC TGCACC TGCACC TGCACC TG
1 TGCACC TGCACC TGCACC TGCACC TG
110993246 AAGCTCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.46, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCACC
Found at i:111003323 original size:23 final size:21
Alignment explanation
Indices: 111003273--111003316 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 21
111003263 TATATTTCAA
*
111003273 AATTTAA-CAAAAAAATAACT
1 AATTTAATAAAAAAAATAACT
111003293 AATTTAATAAAAAAGAATTAACT
1 AATTTAATAAAAAA-AA-TAACT
111003316 A
1 A
111003317 TCTTAATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 2 0.10
23 6 0.30
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AATTTAATAAAAAAAATAACT
Found at i:111004531 original size:58 final size:59
Alignment explanation
Indices: 111004464--111004577 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 59
111004454 GCAGTTAATG
* *
111004464 AATCAAATATTTATCCAAATATA-TTTTCGGGTTTTATTATTTTATTCATATCTTTATT
1 AATCAAATATTTATCCAAATATATTTTTCGGGCTTTATTATTTCATTCATATCTTTATT
* *
111004522 AATCAAATATTTGTCCAAATATATTTTTCGGGCTTTATTATTTCATTCATGTCTTT
1 AATCAAATATTTATCCAAATATATTTTTCGGGCTTTATTATTTCATTCATATCTTT
111004578 TATAATATCG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 22 0.43
59 29 0.57
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (59 bp):
AATCAAATATTTATCCAAATATATTTTTCGGGCTTTATTATTTCATTCATATCTTTATT
Found at i:111007753 original size:29 final size:30
Alignment explanation
Indices: 111007698--111007763 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
111007688 GTACTTGAAC
* * *
111007698 TATTCTTTTATCAGTTTAGTCCTTTTACTT
1 TATTCTTGTATCAATTTAGTCCATTTACTT
*
111007728 TATTCTTGT-TCAATTTGGTCCATTTACTT
1 TATTCTTGTATCAATTTAGTCCATTTACTT
111007757 TCATTCT
1 T-ATTCT
111007764 ATATAGCTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.17, C:0.18, G:0.08, T:0.58
Consensus pattern (30 bp):
TATTCTTGTATCAATTTAGTCCATTTACTT
Found at i:111010086 original size:19 final size:19
Alignment explanation
Indices: 111010062--111010098 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
111010052 GTATATAACT
111010062 AAGTTTTCAAACAACATTA
1 AAGTTTTCAAACAACATTA
*
111010081 AAGTTTTCAAACATCATT
1 AAGTTTTCAAACAACATT
111010099 GTTACAGTCT
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:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (19 bp):
AAGTTTTCAAACAACATTA
Found at i:111015046 original size:122 final size:122
Alignment explanation
Indices: 111014874--111015098 Score: 346
Period size: 122 Copynumber: 1.8 Consensus size: 122
111014864 TTCATGGATC
* * *
111014874 AATGCTGCAATGGGAGAATTTAACCTAAAACAAATATGTATTTTCATGGATCAATAATATCGAAT
1 AATGCTGCAATGGGAGAAATTAACCCAAAACAAATATGTATTTTCATGGATCAATAATATCGAAA
111014939 TACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCCCTCTTAACGGCATCAAATA
66 TACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCCCTCTTAACGGCATCAAATA
* * *
111014996 AATGCTGCAATGGGAGAAGAATTACCCCAAAACAAATATGTA-TTTC-TGGATCAATAATTTTGA
1 AATGCTGCAATGGGAG-A-AATTAACCCAAAACAAATATGTATTTTCATGGATCAATAATATCGA
* *
111015059 AATACCCCAACACAAATTCATTGTTGTTCAAATGAATCCC
64 AATACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCC
111015099 TCAAATCAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
122 68 0.73
123 5 0.05
124 20 0.22
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.28
Consensus pattern (122 bp):
AATGCTGCAATGGGAGAAATTAACCCAAAACAAATATGTATTTTCATGGATCAATAATATCGAAA
TACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCCCTCTTAACGGCATCAAATA
Found at i:111018301 original size:23 final size:23
Alignment explanation
Indices: 111018256--111018301 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
111018246 TGGGACAAAG
* **
111018256 AAAAACTTAAATATCAATTTGAA
1 AAAAACTTAAATACCAAACTGAA
*
111018279 AAAAACTTAGATACCAAACTGAA
1 AAAAACTTAAATACCAAACTGAA
111018302 CATTAAATCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.24
Consensus pattern (23 bp):
AAAAACTTAAATACCAAACTGAA
Found at i:111018964 original size:21 final size:21
Alignment explanation
Indices: 111018940--111018980 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
111018930 AATTTTTTAC
111018940 CTTAAACAC-AAAACTTTAAAT
1 CTTAAAC-CTAAAACTTTAAAT
*
111018961 CTTAAACCTTAAACTTTAAA
1 CTTAAACCTAAAACTTTAAA
111018981 CTTTAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
CTTAAACCTAAAACTTTAAAT
Found at i:111018967 original size:14 final size:15
Alignment explanation
Indices: 111018950--111018989 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
111018940 CTTAAACACA
111018950 AAACTTTAAATC-TT
1 AAACTTTAAATCTTT
*
111018964 AAACCTTAAA-CTTT
1 AAACTTTAAATCTTT
111018978 AAACTTTAAATC
1 AAACTTTAAATC
111018990 CCGAACCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (15 bp):
AAACTTTAAATCTTT
Found at i:111019692 original size:13 final size:13
Alignment explanation
Indices: 111019674--111019700 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111019664 TAAACAAACC
111019674 TTCGAACTAGGTT
1 TTCGAACTAGGTT
111019687 TTCGAACTAGGTT
1 TTCGAACTAGGTT
111019700 T
1 T
111019701 AAACAACCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (13 bp):
TTCGAACTAGGTT
Found at i:111020433 original size:60 final size:61
Alignment explanation
Indices: 111020359--111020492 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 61
111020349 TAAAAACCCT
* *
111020359 AAAATTCAAGCCCTAATACAAGAACAATTATCAAATTCAGAGA-CTAA-TTCAAACAAAAAA-
1 AAAATTCAAACCCTAATACAAGAACAATTACCAAATTCA-AGACCTAACTT-AAACAAAAAAG
* *** * * *
111020419 ATAATTCAAACCCTAATGTGAGAATAGTTGCCAAATTCAAGACCTAACTTAAACAAAAAAG
1 AAAATTCAAACCCTAATACAAGAACAATTACCAAATTCAAGACCTAACTTAAACAAAAAAG
111020480 AAAATTCAAACCC
1 AAAATTCAAACCC
111020493 AATGTAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 3 0.05
60 44 0.72
61 14 0.23
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.21
Consensus pattern (61 bp):
AAAATTCAAACCCTAATACAAGAACAATTACCAAATTCAAGACCTAACTTAAACAAAAAAG
Found at i:111020497 original size:60 final size:59
Alignment explanation
Indices: 111020390--111020519 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 59
111020380 GAACAATTAT
* * * *
111020390 CAAATTCAGAGACTAATTCAAACAAAAAAATAATTCAAACCCTAATGTGAGAATAGTTGC
1 CAAATTCA-AGACTAATTCAAACAAAAAAAAAATTCAAACCCTAATGTAAAAATAGTTAC
111020450 CAAATTCAAGACCTAACTT-AAACAAAAAAGAAAATTCAAACCC-AATGTAAAAATAGTTAC
1 CAAATTCAAGA-CTAA-TTCAAACAAAAAA-AAAATTCAAACCCTAATGTAAAAATAGTTAC
*
111020510 CAAGTTCAAG
1 CAAATTCAAG
111020520 CCCCCAAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
59 3 0.05
60 45 0.73
61 14 0.23
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.22
Consensus pattern (59 bp):
CAAATTCAAGACTAATTCAAACAAAAAAAAAATTCAAACCCTAATGTAAAAATAGTTAC
Found at i:111028497 original size:85 final size:85
Alignment explanation
Indices: 111028375--111028596 Score: 229
Period size: 85 Copynumber: 2.6 Consensus size: 85
111028365 GATGTAATCG
* * ** * *
111028375 AATCGAATCGAGCCAAATTTAATTAATAACGAATAAATTACATCGATAGTTATTC-GATTA-TTA
1 AATCGAGTAGAGCCAAATTTAATTAATAA-GGGTAAATTATATCGATAGTTATTCAG-TTACTGA
*
111028438 -GATTTATCACAGAAGATACAAA
64 TGATTTATCACA-AAAATACAAA
* *
111028460 AATTGAGTCA-AGCCAAATTTAATTAATAATGGGTAAATTATA-CTTATAGTTATTCAGTTACTG
1 AATCGAGT-AGAGCCAAATTTAATTAATAA-GGGTAAATTATATC-GATAGTTATTCAGTTACTG
*
111028523 ATGATTTGTCACAAAAATACAAA
63 ATGATTTATCACAAAAATACAAA
* * * *
111028546 AATCGAGTAGAGACGAATTTAATTAATTAGGGTAAATTATATTGATAGTTA
1 AATCGAGTAGAGCCAAATTTAATTAATAAGGGTAAATTATATCGATAGTTA
111028597 CACTAAACTA
Statistics
Matches: 113, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
84 1 0.01
85 67 0.59
86 35 0.31
87 10 0.09
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (85 bp):
AATCGAGTAGAGCCAAATTTAATTAATAAGGGTAAATTATATCGATAGTTATTCAGTTACTGATG
ATTTATCACAAAAATACAAA
Found at i:111033339 original size:11 final size:12
Alignment explanation
Indices: 111033312--111033338 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
111033302 AATTTCTAAT
111033312 AAAATTATTAAA
1 AAAATTATTAAA
111033324 AAAATTATTAAA
1 AAAATTATTAAA
111033336 AAA
1 AAA
111033339 TACTATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTATTAAA
Found at i:111033404 original size:3 final size:3
Alignment explanation
Indices: 111033398--111033452 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
111033388 ATCCCTCAAC
111033398 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111033446 ATA ATA A
1 ATA ATA A
111033453 AGGAAGAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:111034665 original size:21 final size:20
Alignment explanation
Indices: 111034640--111034680 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
111034630 ATTCGATATT
111034640 TTATTGATAAAAGAAAAAATA
1 TTATTGA-AAAAGAAAAAATA
* *
111034661 TTATTTAAAAATAAAAAATA
1 TTATTGAAAAAGAAAAAATA
111034681 CAAATCAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
TTATTGAAAAAGAAAAAATA
Found at i:111038414 original size:13 final size:13
Alignment explanation
Indices: 111038396--111038425 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
111038386 AGCAGGGGAG
111038396 AAAAAGAGAAAGA
1 AAAAAGAGAAAGA
*
111038409 AAAAAGGGAAAGA
1 AAAAAGAGAAAGA
111038422 AAAA
1 AAAA
111038426 TTAAAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAGA
Found at i:111039373 original size:41 final size:41
Alignment explanation
Indices: 111039327--111039427 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 41
111039317 TCGCCCTCGA
*
111039327 GTCGATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
* ** * *
111039367 ATTCGATGAGGTACT-GG-GT-ACCAACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
*
111039406 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
111039428 ACTATTACTT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
38 17 0.37
39 13 0.28
40 4 0.09
41 12 0.26
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
Found at i:111039436 original size:39 final size:39
Alignment explanation
Indices: 111039329--111039463 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
111039319 GCCCTCGAGT
* * *
111039329 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG-TC
** ** *
111039370 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
111039408 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
111039447 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
111039464 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 3 0.04
41 15 0.20
42 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:111039721 original size:3 final size:3
Alignment explanation
Indices: 111039715--111039752 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
111039705 GATGAAAGAA
*
111039715 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
111039753 AGTATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:111040139 original size:20 final size:20
Alignment explanation
Indices: 111040116--111040153 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
111040106 GTTATTAAGT
111040116 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
111040136 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
111040154 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:111042313 original size:30 final size:30
Alignment explanation
Indices: 111042252--111042314 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
111042242 AAGTAAATAA
*
111042252 TAAATAATAAATATTTTTATATAATATTTT
1 TAAATAATAAATATTTTTATATAATAATTT
*
111042282 TAAA-AATATATATTTTGTATATAGA-AATTT
1 TAAATAATAAATATTTT-TATATA-ATAATTT
111042312 TAA
1 TAA
111042315 GTTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 11 0.38
30 17 0.59
31 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TAAATAATAAATATTTTTATATAATAATTT
Done.