Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010987.1 Kokia drynarioides strain JFW-HI SEQ_125957, 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: 330895
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:468 original size:39 final size:40
Alignment explanation
Indices: 415--494 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 40
405 AAGAGGTATG
*
415 TCCAATATGAAAAGGATTCTGACTCTTCAATAGGTGTCCA
1 TCCAATATGAAAAGGATTCTGACTCTTCAAAAGGTGTCCA
* * *
455 TCCAATTTG-AAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGATTCTGACTCTTCAAAAGGTGTCCA
494 T
1 T
495 TGAGTGCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (40 bp):
TCCAATATGAAAAGGATTCTGACTCTTCAAAAGGTGTCCA
Found at i:8104 original size:12 final size:13
Alignment explanation
Indices: 8087--8115 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8077 ATAGCAAACA
8087 TTTTTTTC-TTCT
1 TTTTTTTCTTTCT
8099 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
8112 TTTT
1 TTTT
8116 CTCATTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTCTTTCT
Found at i:9211 original size:21 final size:21
Alignment explanation
Indices: 9185--9232 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
9175 CTCGGTAGGG
9185 TCCTTCTCTTTATTC-TCTTCT
1 TCCTTCTC-TTATTCTTCTTCT
*
9206 TCCTTCTCTTATTCTTCTTTT
1 TCCTTCTCTTATTCTTCTTCT
9227 TCCTTC
1 TCCTTC
9233 AGCTGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.62
Consensus pattern (21 bp):
TCCTTCTCTTATTCTTCTTCT
Found at i:17040 original size:13 final size:14
Alignment explanation
Indices: 17022--17051 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17012 GCCAGTGCAA
17022 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
17035 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
17049 TCA
1 TCA
17052 ATGTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:25061 original size:48 final size:48
Alignment explanation
Indices: 25001--25107 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
24991 CCGAAGTACT
* ** *
25001 TAAA-AGAGGGCACA-TAAGTGCTGGGTAACAGAGGGCACAGAAAGTGC
1 TAAACAGAGGGCACACGAAGTGCT-AATAACAGAGGGCACACAAAGTGC
* *
25048 TAATCAGAGGGCACACGAAGTGCTAATAACAGAGGGCACACATAGTGC
1 TAAACAGAGGGCACACGAAGTGCTAATAACAGAGGGCACACAAAGTGC
25096 TAAACAGAGGGC
1 TAAACAGAGGGC
25108 GCGCTAGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 3 0.06
48 41 0.80
49 7 0.14
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.13
Consensus pattern (48 bp):
TAAACAGAGGGCACACGAAGTGCTAATAACAGAGGGCACACAAAGTGC
Found at i:25086 original size:25 final size:25
Alignment explanation
Indices: 25026--25107 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 25
25016 AAGTGCTGGG
25026 TAACAGAGGGCACA-GAAAGTGCTAA
1 TAACAGAGGGCACACG-AAGTGCTAA
25051 T--CAGAGGGCACACGAAGTGCTAA
1 TAACAGAGGGCACACGAAGTGCTAA
25074 TAACAGAGGGCACAC-ATAGTGCT-A
1 TAACAGAGGGCACACGA-AGTGCTAA
25098 -AACAGAGGGC
1 TAACAGAGGGC
25108 GCGCTAGTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
23 31 0.58
24 3 0.06
25 19 0.36
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (25 bp):
TAACAGAGGGCACACGAAGTGCTAA
Found at i:30619 original size:37 final size:38
Alignment explanation
Indices: 30547--30618 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
30537 TACAACAAAT
* *
30547 TTAAAAAATATATAATATATCAAATACACTTAAAAACA
1 TTAAAAAATAAATAATATATAAAATACACTTAAAAACA
*
30585 TTAAAAAATAAATAA-ATTTAAAATACA-TTAAAAA
1 TTAAAAAATAAATAATATATAAAATACACTTAAAAA
30619 ATTTTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 7 0.23
37 10 0.32
38 14 0.45
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (38 bp):
TTAAAAAATAAATAATATATAAAATACACTTAAAAACA
Found at i:30794 original size:44 final size:45
Alignment explanation
Indices: 30746--30842 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
30736 AATCACATTT
* * *
30746 AAACAACAAAAATA-ACATCTAAAACAGTAGCAAAAATAAC-GAAA
1 AAACAACAAAAATAGACA-CAAAAACAGCAACAAAAATAACAGAAA
* *
30790 AAACAACAAAAATAGCCACAAAAACAGCAACAAAAATAACAGTAA
1 AAACAACAAAAATAGACACAAAAACAGCAACAAAAATAACAGAAA
30835 AAACAACA
1 AAACAACA
30843 CGAAAACAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.67, C:0.19, G:0.06, T:0.08
Consensus pattern (45 bp):
AAACAACAAAAATAGACACAAAAACAGCAACAAAAATAACAGAAA
Found at i:30810 original size:12 final size:12
Alignment explanation
Indices: 30793--30827 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
30783 AACGAAAAAA
30793 CAACAAAAATAG
1 CAACAAAAATAG
* *
30805 CCACAAAAACAG
1 CAACAAAAATAG
30817 CAACAAAAATA
1 CAACAAAAATA
30828 ACAGTAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.23, G:0.06, T:0.06
Consensus pattern (12 bp):
CAACAAAAATAG
Found at i:30836 original size:24 final size:23
Alignment explanation
Indices: 30749--30839 Score: 80
Period size: 24 Copynumber: 4.0 Consensus size: 23
30739 CACATTTAAA
*
30749 CAACAAAAATAACATCTAAAACAG
1 CAACAAAAATAACAT-AAAAACAG
* * *
30773 TAGCAAAAATAAC-GAAAAA-A-
1 CAACAAAAATAACATAAAAACAG
* *
30793 CAACAAAAATAGCCACAAAAACAG
1 CAACAAAAATA-ACATAAAAACAG
30817 CAACAAAAATAACAGTAAAAACA
1 CAACAAAAATAACA-TAAAAACA
30840 ACACGAAAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
20 9 0.17
21 2 0.04
22 9 0.17
23 3 0.06
24 29 0.56
ACGTcount: A:0.66, C:0.19, G:0.07, T:0.09
Consensus pattern (23 bp):
CAACAAAAATAACATAAAAACAG
Found at i:30880 original size:31 final size:30
Alignment explanation
Indices: 30827--30943 Score: 103
Period size: 31 Copynumber: 3.8 Consensus size: 30
30817 CAACAAAAAT
*
30827 AACAGTAAAAACAACACGAAAACAGTAACCAA
1 AACAGTAAAAA-AACACAAAAACAGTAA-CAA
30859 AACAGTAAAAAAACACAAAAACAGTAA-AA
1 AACAGTAAAAAAACACAAAAACAGTAACAA
** **
30888 AACAACACAAAAATAGCA-AAAAACAACAATCAA
1 AACAGTA-AAAAA-A-CACAAAAACAGTAA-CAA
* *
30921 AATAGTAAAAAAACACCAAAACA
1 AACAGTAAAAAAACACAAAAACA
30944 ACAATATAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
29 7 0.10
30 7 0.10
31 32 0.46
32 18 0.26
33 6 0.09
ACGTcount: A:0.68, C:0.19, G:0.06, T:0.07
Consensus pattern (30 bp):
AACAGTAAAAAAACACAAAAACAGTAACAA
Found at i:30881 original size:19 final size:19
Alignment explanation
Indices: 30857--30943 Score: 77
Period size: 19 Copynumber: 4.3 Consensus size: 19
30847 AACAGTAACC
30857 AAAACAGTAAAAAAACACA
1 AAAACAGTAAAAAAACACA
30876 AAAACAGTAAAAAACAACACA
1 AAAACAGT-AAAAA-AACACA
* *
30897 AAAATAG-CAAAAAACAACAA
1 AAAACAGTAAAAAAAC-AC-A
* *
30917 TCAAAATAGTAAAAAAACACC
1 --AAAACAGTAAAAAAACACA
30938 AAAACA
1 AAAACA
30944 ACAATATAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
18 3 0.05
19 19 0.34
20 6 0.11
21 12 0.21
22 9 0.16
23 7 0.12
ACGTcount: A:0.71, C:0.17, G:0.05, T:0.07
Consensus pattern (19 bp):
AAAACAGTAAAAAAACACA
Found at i:30909 original size:22 final size:20
Alignment explanation
Indices: 30865--30941 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
30855 CCAAAACAGT
*
30865 AAAAA-AACACAAAAACAGTA
1 AAAAACAACACAAAAATAG-A
30885 AAAAACAACACAAAAATAGCA
1 AAAAACAACACAAAAATAG-A
*
30906 AAAAACAACA-ATCAAAATAGT
1 AAAAACAACACA--AAAATAGA
30927 AAAAA-AACACCAAAA
1 AAAAACAACA-CAAAA
30942 CAACAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 13 0.27
21 28 0.57
22 8 0.16
ACGTcount: A:0.73, C:0.17, G:0.04, T:0.06
Consensus pattern (20 bp):
AAAAACAACACAAAAATAGA
Found at i:38395 original size:11 final size:11
Alignment explanation
Indices: 38379--38408 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38369 GGTGAGCTAA
38379 TGGAGCAAGTG
1 TGGAGCAAGTG
38390 TGGAGCAAGTG
1 TGGAGCAAGTG
*
38401 TGCAGCAA
1 TGGAGCAA
38409 CTTCTGACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.13, G:0.40, T:0.17
Consensus pattern (11 bp):
TGGAGCAAGTG
Found at i:43495 original size:47 final size:47
Alignment explanation
Indices: 43426--43528 Score: 190
Period size: 47 Copynumber: 2.2 Consensus size: 47
43416 CATTACATAC
*
43426 TTAGTTTTTATATTTTCTAACTCGTTGTTGTTTGGTTTAAATTCTTG
1 TTAGTTTTTATATTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTG
43473 TTAGTTTTTATATTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTG
1 TTAGTTTTTATATTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTG
43520 TTA-TTTTTA
1 TTAGTTTTTA
43529 CCTCTTTTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 6 0.11
47 49 0.89
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.61
Consensus pattern (47 bp):
TTAGTTTTTATATTTTCTAACTCATTGTTGTTTGGTTTAAATTCTTG
Found at i:52653 original size:3 final size:3
Alignment explanation
Indices: 52647--52675 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
52637 AATGTATAAT
52647 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
52676 TCAAACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:55487 original size:19 final size:19
Alignment explanation
Indices: 55465--55524 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
55455 TTAAATAATG
55465 TATTATTAACAAA-TATTTA
1 TATT-TTAACAAATTATTTA
*
55484 TATTTTTAAGAAATTATTTA
1 TA-TTTTAACAAATTATTTA
*
55504 CATTTTAACATAATGTATTTA
1 TATTTTAACA-AAT-TATTTA
55525 CAAATCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 16 0.47
20 12 0.35
21 6 0.18
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (19 bp):
TATTTTAACAAATTATTTA
Found at i:55618 original size:24 final size:24
Alignment explanation
Indices: 55591--55636 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
55581 TGTTTGTTTG
55591 ATAAAGAAATATTACTATTTTTCT
1 ATAAAGAAATATTACTATTTTTCT
* * *
55615 ATAAAGTAGTATTACTGTTTTT
1 ATAAAGAAATATTACTATTTTT
55637 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (24 bp):
ATAAAGAAATATTACTATTTTTCT
Found at i:55965 original size:29 final size:30
Alignment explanation
Indices: 55918--55978 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
55908 GGGCTAAATA
* *
55918 AGGTCTATAGGCCGATTTTTATAATTATTT
1 AGGTCTATAGGCCGATTTTTAAAATTAATT
55948 AGGTCT-TAGGCC-ATTTTTAAAATTAATT
1 AGGTCTATAGGCCGATTTTTAAAATTAATT
55976 AGG
1 AGG
55979 GAAATAGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 17 0.59
29 6 0.21
30 6 0.21
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (30 bp):
AGGTCTATAGGCCGATTTTTAAAATTAATT
Found at i:56611 original size:21 final size:21
Alignment explanation
Indices: 56577--56616 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56567 TACCCTGTAC
* *
56577 TTCTATTGATACAAATATGGG
1 TTCTACTGAAACAAATATGGG
*
56598 TTCTACTGAAACAAGTATG
1 TTCTACTGAAACAAATATG
56617 CAAATTCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (21 bp):
TTCTACTGAAACAAATATGGG
Found at i:62085 original size:21 final size:24
Alignment explanation
Indices: 62059--62105 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
62049 GCTATTATAA
62059 TTAGGG-TT-TTATTT-TTTAAGG
1 TTAGGGTTTATTATTTCTTTAAGG
62080 TTAGGGTTTATTATTTCTTTAAGG
1 TTAGGGTTTATTATTTCTTTAAGG
62104 TT
1 TT
62106 TAAGGTTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
23 6 0.26
24 9 0.39
ACGTcount: A:0.19, C:0.02, G:0.21, T:0.57
Consensus pattern (24 bp):
TTAGGGTTTATTATTTCTTTAAGG
Found at i:63939 original size:17 final size:17
Alignment explanation
Indices: 63919--63952 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63909 GGTAACTCCT
63919 TAAGCTATCGAA-CTTAC
1 TAAGCTAT-GAAGCTTAC
63936 TAAGCTATGAAGCTTAC
1 TAAGCTATGAAGCTTAC
63953 CAAAGATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (17 bp):
TAAGCTATGAAGCTTAC
Found at i:64555 original size:21 final size:19
Alignment explanation
Indices: 64508--64561 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
64498 TAGAAATAAA
* *
64508 ACTTGTATCAGTAGAAGTC
1 ACTTGTATCGGTAGAAATC
*
64527 ATTTGTATCGGTAGAACTATC
1 ACTTGTATCGGTAGAA--ATC
64548 ACTTGTATCGGTAG
1 ACTTGTATCGGTAG
64562 GAGTCTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.48
21 15 0.52
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (19 bp):
ACTTGTATCGGTAGAAATC
Found at i:71194 original size:21 final size:21
Alignment explanation
Indices: 71155--71194 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
71145 TGAGCACATA
* *
71155 GGCATGTGGGGTAATCACAAG
1 GGCATGTGGGATAACCACAAG
*
71176 GGCATGTGGGATAGCCACA
1 GGCATGTGGGATAACCACA
71195 CAGCCATGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.38, T:0.17
Consensus pattern (21 bp):
GGCATGTGGGATAACCACAAG
Found at i:72149 original size:181 final size:181
Alignment explanation
Indices: 71839--72191 Score: 607
Period size: 181 Copynumber: 2.0 Consensus size: 181
71829 TTATATAAAT
*
71839 AAATATAAAATTATGTATTATATAAATAACTAAAAGTTGTTATTTAAAACTAAAATAATATAAAA
1 AAATATAAAATTATGTATTATATAAATAACTAAAAGTTGTCATTTAAAACTAAAATAATATAAAA
* *** *
71904 TTTTCTTTTAATTTTTTTGGTAGAAAAAAGCAACCTTAAGTGATTACAAAAAGAAAATTAAGACA
66 TTTTCTTTTAATTTTTTTGGTAGAAAAAAACAACCTTAAACAATTACAAAAAGAAAAATAAGACA
* * *
71969 ATTTGGAACTAGCATGACAACTGTCCTTTTGTAGTATCCGAAAATCTAATA
131 AATTGGAACTAGCATGACAACTATCCTTTTGTAATATCCGAAAATCTAATA
*
72020 AAATATAAAGTTATGTATTATATAAATAACTAAAAGTTGTCATTTAAAACTAAAATAATATAAAA
1 AAATATAAAATTATGTATTATATAAATAACTAAAAGTTGTCATTTAAAACTAAAATAATATAAAA
*
72085 TTTTCTTTTTATTTTTTTGGTAGAAAAAAACAACCTTAAACAATTACAAAAAGAAAAATAAGACA
66 TTTTCTTTTAATTTTTTTGGTAGAAAAAAACAACCTTAAACAATTACAAAAAGAAAAATAAGACA
72150 AATTGGAACTAGCATGACAACTATCCTTTTGTAATATCCGAA
131 AATTGGAACTAGCATGACAACTATCCTTTTGTAATATCCGAA
72192 TAATTGCAGT
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
181 161 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (181 bp):
AAATATAAAATTATGTATTATATAAATAACTAAAAGTTGTCATTTAAAACTAAAATAATATAAAA
TTTTCTTTTAATTTTTTTGGTAGAAAAAAACAACCTTAAACAATTACAAAAAGAAAAATAAGACA
AATTGGAACTAGCATGACAACTATCCTTTTGTAATATCCGAAAATCTAATA
Found at i:73295 original size:57 final size:58
Alignment explanation
Indices: 73229--73337 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 58
73219 AAAAATTATG
*
73229 TGTAACAAGA-TTTGGACAATAGACATGAAGAATATTAAACATTCAACTTTATCTATA
1 TGTAACAAGATTTTGGACAATAGACATCAAGAATATTAAACATTCAACTTTATCTATA
* * * * *
73286 TGTAACAAGATTTTGGACCATGGACATCATGAGTATTAAACGTTCAACTTTA
1 TGTAACAAGATTTTGGACAATAGACATCAAGAATATTAAACATTCAACTTTA
73338 CCATTTACTC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 10 0.22
58 35 0.78
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (58 bp):
TGTAACAAGATTTTGGACAATAGACATCAAGAATATTAAACATTCAACTTTATCTATA
Found at i:74037 original size:15 final size:14
Alignment explanation
Indices: 74000--74041 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
73990 TGTAATTAAT
74000 TTAAAAATTT-TAA
1 TTAAAAATTTATAA
74013 TTAATTAAATTTATCAA
1 TTAA--AAATTTAT-AA
74030 TTAAAAATTTAT
1 TTAAAAATTTAT
74042 TCTCATCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.16
15 14 0.56
16 1 0.04
17 6 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAAAATTTATAA
Found at i:74949 original size:12 final size:12
Alignment explanation
Indices: 74934--74975 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
74924 GTTCAATTAT
74934 ATGTTCGTAAAC
1 ATGTTCGTAAAC
**
74946 ATGTTCGTTTA-
1 ATGTTCGTAAAC
*
74957 ATGTTCGTGAAC
1 ATGTTCGTAAAC
74969 ATGTTCG
1 ATGTTCG
74976 ATTAAGTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
ATGTTCGTAAAC
Found at i:74964 original size:23 final size:23
Alignment explanation
Indices: 74911--74980 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
74901 TCATTAAAAT
* *
74911 TGTTCGTGAATATGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* *
74935 TGTTCGTAAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
74958 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
74981 GTTAAATGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:75319 original size:9 final size:9
Alignment explanation
Indices: 75305--75348 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
75295 TTCGCATCCT
75305 TCTCTCAAC
1 TCTCTCAAC
75314 TCTCTCAAAC
1 TCTCTC-AAC
* * *
75324 CCTCTCCAG
1 TCTCTCAAC
75333 TCTCTCAAC
1 TCTCTCAAC
75342 TCTCTCA
1 TCTCTCA
75349 TTTTGATTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.20, C:0.45, G:0.02, T:0.32
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:78036 original size:17 final size:17
Alignment explanation
Indices: 78016--78070 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
78006 CCAACTCGAA
78016 TGGCGCACTGAACACGG
1 TGGCGCACTGAACACGG
** * *
78033 TGGC-CACACAACTCGAA
1 TGGCGCACTGAACACG-G
78050 TGGCGCACTGAACACGG
1 TGGCGCACTGAACACGG
78067 TGGC
1 TGGC
78071 CACATACTCT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
16 8 0.29
17 12 0.43
18 8 0.29
ACGTcount: A:0.25, C:0.31, G:0.31, T:0.13
Consensus pattern (17 bp):
TGGCGCACTGAACACGG
Found at i:78050 original size:34 final size:34
Alignment explanation
Indices: 78007--78074 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
77997 TGTTTGGCAC
78007 CAACTCGAATGGCGCACTGAACACGGTGGCCACA
1 CAACTCGAATGGCGCACTGAACACGGTGGCCACA
78041 CAACTCGAATGGCGCACTGAACACGGTGGCCACA
1 CAACTCGAATGGCGCACTGAACACGGTGGCCACA
78075 TACTCTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.12
Consensus pattern (34 bp):
CAACTCGAATGGCGCACTGAACACGGTGGCCACA
Found at i:87864 original size:14 final size:14
Alignment explanation
Indices: 87845--87872 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
87835 CGATAAAATA
87845 CACTGGCAGTAAGC
1 CACTGGCAGTAAGC
87859 CACTGGCAGTAAGC
1 CACTGGCAGTAAGC
87873 TTGCTAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (14 bp):
CACTGGCAGTAAGC
Found at i:90146 original size:22 final size:22
Alignment explanation
Indices: 90121--90162 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
90111 TATAAATTTG
90121 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
90140 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
90162 A
1 A
90163 ATTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:90149 original size:16 final size:15
Alignment explanation
Indices: 90124--90157 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
90114 AAATTTGATA
*
90124 ATAATTAATATATATT
1 ATAATAAATATA-ATT
90140 ATAATAAATATAATT
1 ATAATAAATATAATT
90155 ATA
1 ATA
90158 TATTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:90751 original size:17 final size:17
Alignment explanation
Indices: 90731--90766 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
90721 ACTTGGAAAA
90731 AACTTTAACCAGGAATT
1 AACTTTAACCAGGAATT
**
90748 AACTTTAACTTGGAATT
1 AACTTTAACCAGGAATT
90765 AA
1 AA
90767 ATAACAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (17 bp):
AACTTTAACCAGGAATT
Found at i:93381 original size:21 final size:21
Alignment explanation
Indices: 93340--93393 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
93330 GGAGTTTTTG
**
93340 GTATCGGTAGTTACATGACTT
1 GTATCGGTAGAAACATGACTT
93361 GTATCGGTAGAAATCAT-ACTT
1 GTATCGGTAGAAA-CATGACTT
*
93382 GTATTGGTAGAA
1 GTATCGGTAGAA
93394 CTAGCATAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAACATGACTT
Found at i:93880 original size:21 final size:21
Alignment explanation
Indices: 93855--93897 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
93845 CATTCTAGGT
93855 AGATTTTAGTACTTTTCATGC
1 AGATTTTAGTACTTTTCATGC
93876 AGATTTTAGTACTTTTCATGC
1 AGATTTTAGTACTTTTCATGC
93897 A
1 A
93898 TTCATGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (21 bp):
AGATTTTAGTACTTTTCATGC
Found at i:97188 original size:16 final size:16
Alignment explanation
Indices: 97167--97197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97157 TATATATATA
*
97167 TATATTGGATTGGGTT
1 TATATTAGATTGGGTT
97183 TATATTAGATTGGGT
1 TATATTAGATTGGGT
97198 CTAGGTAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (16 bp):
TATATTAGATTGGGTT
Found at i:97904 original size:19 final size:19
Alignment explanation
Indices: 97865--97900 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
97855 AAATAAGCAA
*
97865 AAGTTCAAGTAAACAACAT
1 AAGTCCAAGTAAACAACAT
97884 AAGTCCAAGT-AACAACA
1 AAGTCCAAGTAAACAACA
97901 ATAACACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (19 bp):
AAGTCCAAGTAAACAACAT
Found at i:101640 original size:43 final size:40
Alignment explanation
Indices: 101590--101678 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 40
101580 CTAAATGAGG
101590 GTTTAATTTAGGGGGTTTTTTAGGATAAAAAAAATTAT-TTTGA
1 GTTTAATTTA-GGGGTTTTTTA--AT-AAAAAAATTATGTTTGA
* **
101633 GTTTAATTTATGGGTTTTTTAATAATTAAATTATGTTTGA
1 GTTTAATTTAGGGGTTTTTTAATAAAAAAATTATGTTTGA
101673 GTTTAA
1 GTTTAA
101679 AAATAATTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 9 0.21
40 13 0.31
42 10 0.24
43 10 0.24
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (40 bp):
GTTTAATTTAGGGGTTTTTTAATAAAAAAATTATGTTTGA
Found at i:106472 original size:16 final size:15
Alignment explanation
Indices: 106447--106478 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
106437 ATTATTGGAC
106447 ATGAATGAAGATTAA
1 ATGAATGAAGATTAA
106462 ATGAGATGAAGATTAA
1 ATGA-ATGAAGATTAA
106478 A
1 A
106479 ATTAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (15 bp):
ATGAATGAAGATTAA
Found at i:108278 original size:19 final size:19
Alignment explanation
Indices: 108247--108289 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
108237 GAGTAAATAA
108247 TTAA-TTAAATTAT-TTAAT
1 TTAATTTAAATTATATT-AT
*
108265 TTAATTTAATTTATATTAT
1 TTAATTTAAATTATATTAT
108284 TTAATT
1 TTAATT
108290 ATATTGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAATTTAAATTATATTAT
Found at i:108285 original size:14 final size:13
Alignment explanation
Indices: 108247--108294 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
108237 GAGTAAATAA
*
108247 TTAATTAAATTAT
1 TTAATTATATTAT
108260 TTAATT-TA--AT
1 TTAATTATATTAT
108270 TTAATTTATATTAT
1 TTAA-TTATATTAT
108284 TTAATTATATT
1 TTAATTATATT
108295 GTACATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 6 0.20
11 2 0.07
12 3 0.10
13 13 0.43
14 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:111076 original size:40 final size:40
Alignment explanation
Indices: 111027--111110 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
111017 TGATAGATAA
*
111027 ACACTGACACAAAACTTGCT-AGGCATAAAGCCCAATAAAT
1 ACACCGACACAAAACTTG-TAAGGCATAAAGCCCAATAAAT
* *
111067 ACACCGACACAAAGCTTGTAAGGCATAAAGCTCAATAAAT
1 ACACCGACACAAAACTTGTAAGGCATAAAGCCCAATAAAT
111107 ACAC
1 ACAC
111111 TGCCCTAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.45, C:0.25, G:0.13, T:0.17
Consensus pattern (40 bp):
ACACCGACACAAAACTTGTAAGGCATAAAGCCCAATAAAT
Found at i:112125 original size:21 final size:21
Alignment explanation
Indices: 112101--112142 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
112091 TTTTTTAATT
112101 AATTAACC-AACCAAATGTTAA
1 AATT-ACCTAACCAAATGTTAA
* *
112122 AATTTCCTAACCAAATTTTAA
1 AATTACCTAACCAAATGTTAA
112143 TACGACATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (21 bp):
AATTACCTAACCAAATGTTAA
Found at i:112774 original size:15 final size:16
Alignment explanation
Indices: 112754--112796 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
112744 ATTAACCCTT
112754 AATTCAATTAAAT-AA
1 AATTCAATTAAATCAA
*
112769 AATTC-ATCAAATCAA
1 AATTCAATTAAATCAA
112784 AATTCAATATAAA
1 AATTCAAT-TAAA
112797 AATTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 12 0.52
16 2 0.09
17 3 0.13
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTCAATTAAATCAA
Found at i:113148 original size:26 final size:26
Alignment explanation
Indices: 113100--113150 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
113090 TGGTGTTCTT
*
113100 TAGTCAAATTGCGAATAGGGGTTCGC
1 TAGTCAAATTGCGAATAGAGGTTCGC
* *
113126 TAGTCAAGTTGCGAATTGAGGTTCG
1 TAGTCAAATTGCGAATAGAGGTTCG
113151 TCGATCAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.29
Consensus pattern (26 bp):
TAGTCAAATTGCGAATAGAGGTTCGC
Found at i:113158 original size:26 final size:26
Alignment explanation
Indices: 113101--113159 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
113091 GGTGTTCTTT
* *
113101 AGTCAAATTGCGAATAGGGGTTCGCT
1 AGTCAAATTGCGAATAGAGGTTCGCG
* *
113127 AGTCAAGTTGCGAATTGAGGTTCGTCG
1 AGTCAAATTGCGAATAGAGGTTCG-CG
113154 A-TCAAA
1 AGTCAAA
113160 GATATAGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (26 bp):
AGTCAAATTGCGAATAGAGGTTCGCG
Found at i:115063 original size:8 final size:9
Alignment explanation
Indices: 115040--115065 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
115030 ATAAAAAGCA
115040 ACTTTTTAC
1 ACTTTTTAC
115049 ACTTTTTAC
1 ACTTTTTAC
115058 ACTTTTTA
1 ACTTTTTA
115066 TTCAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (9 bp):
ACTTTTTAC
Found at i:123426 original size:127 final size:127
Alignment explanation
Indices: 123200--123432 Score: 403
Period size: 127 Copynumber: 1.8 Consensus size: 127
123190 TCATCTATAT
* * *
123200 AATACCTTGTCAACGCATCCAGCGTTGCTACTTAGCGAAATCAGTGATCCATTCCAAACCTTTAC
1 AATACCTTGTCAACACATCCAGCGTTACTACTTAACGAAATCAGTGATCCATTCCAAACCTTTAC
* *
123265 ACTTGATCACACTTTACTTTTTTGCATTTAAATACTCAACACTTCAACACACTTTGATTTAC
66 ACTTGATCACACTTTACTTTTCTACATTTAAATACTCAACACTTCAACACACTTTGATTTAC
* *
123327 AATACCTTGTCGACATATCCAGCGTTACTACTTAACGAAATCAGTGATCCATTCCAAACCTTTAC
1 AATACCTTGTCAACACATCCAGCGTTACTACTTAACGAAATCAGTGATCCATTCCAAACCTTTAC
123392 ACTTGATCACACTTTACTTTTCTACATTTAAATACTCAACA
66 ACTTGATCACACTTTACTTTTCTACATTTAAATACTCAACA
123433 ACACACTTTG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 99 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (127 bp):
AATACCTTGTCAACACATCCAGCGTTACTACTTAACGAAATCAGTGATCCATTCCAAACCTTTAC
ACTTGATCACACTTTACTTTTCTACATTTAAATACTCAACACTTCAACACACTTTGATTTAC
Found at i:125315 original size:18 final size:19
Alignment explanation
Indices: 125285--125326 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
125275 TCTTGTTTGC
125285 ACAAAACAGAAATGAAATA
1 ACAAAACAGAAATGAAATA
125304 ACAAAA-AGAAATGAAATA
1 ACAAAACAGAAATGAAATA
125322 ACAAA
1 ACAAA
125327 TGAAAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (19 bp):
ACAAAACAGAAATGAAATA
Found at i:128731 original size:28 final size:28
Alignment explanation
Indices: 128700--128754 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
128690 ACTAGGGTTG
* *
128700 AGGGAAGAAGAAG-AAGAAGAAGAAAATT
1 AGGGAAGAA-AAGTAAAAAGAAAAAAATT
*
128728 AGGGTAGAAAAGTAAAAAGAAAAAAAT
1 AGGGAAGAAAAGTAAAAAGAAAAAAAT
128755 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (28 bp):
AGGGAAGAAAAGTAAAAAGAAAAAAATT
Found at i:129187 original size:83 final size:80
Alignment explanation
Indices: 129038--129194 Score: 179
Period size: 83 Copynumber: 1.9 Consensus size: 80
129028 CTCAACCTTA
* ** ** * * * * *
129038 AAAAAAATTAAGCCCCTATTTTTTTTGCATTTTATTGGGTACTTGAATTTTTAAAATGCCTTAAA
1 AAAAAAATTAAGCCCCTATTTTTTTTGCACTCAATTGAATACTTAAATTGTTAAAATACATAAAA
*
129103 AAGGCCTTTAAATTT
66 AAGACCTTTAAATTT
*
129118 AAAAAAATTAAGCCTCTATTTTTTTTTTTGCACTCAATTGAATACTTAAATTGTTAAAATACATA
1 AAAAAAATTAAGCCCCTA---TTTTTTTTGCACTCAATTGAATACTTAAATTGTTAAAATACATA
129183 AAAAAGACCTTT
63 AAAAAGACCTTT
129195 TGATCGTTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
80 17 0.27
83 45 0.73
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (80 bp):
AAAAAAATTAAGCCCCTATTTTTTTTGCACTCAATTGAATACTTAAATTGTTAAAATACATAAAA
AAGACCTTTAAATTT
Found at i:129325 original size:9 final size:9
Alignment explanation
Indices: 129289--129413 Score: 71
Period size: 10 Copynumber: 13.7 Consensus size: 9
129279 AACATGTGGA
129289 AAAAATTAT
1 AAAAATTAT
129298 AAAAA--AT
1 AAAAATTAT
*
129305 AAAAACTAAT
1 AAAAA-TTAT
129315 AAAAATTAT
1 AAAAATTAT
*
129324 AAAAAATAT
1 AAAAATTAT
*
129333 -TAAATT-T
1 AAAAATTAT
*
129340 AATAAAATAT
1 AA-AAATTAT
*
129350 AAAAATATTT
1 AAAAAT-TAT
*
129360 AAAATTTATT
1 AAAAATTA-T
*
129370 AAAAATTAGA
1 AAAAATTA-T
*
129380 AAAAATTAG
1 AAAAATTAT
129389 AAAAATCT-T
1 AAAAAT-TAT
*
129398 AAAAAAATAT
1 -AAAAATTAT
129408 AAAAAT
1 AAAAAT
129414 AAAATATGAA
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
7 8 0.09
8 4 0.05
9 36 0.41
10 40 0.45
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:129336 original size:19 final size:19
Alignment explanation
Indices: 129303--129385 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
129293 ATTATAAAAA
* *
129303 ATAAAAACTAATAAAAATT
1 ATAAAAAATATTAAAAATT
129322 ATAAAAAATATT--AAATT
1 ATAAAAAATATTAAAAATT
129339 -TAATAAAATA-TAAAAATAT
1 ATAA-AAAATATTAAAAAT-T
* **
129358 TTAAAATTTATTAAAAATT
1 ATAAAAAATATTAAAAATT
*
129377 AGAAAAAAT
1 ATAAAAAAT
129386 TAGAAAAATC
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
16 4 0.08
17 11 0.22
18 4 0.08
19 21 0.42
20 10 0.20
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
ATAAAAAATATTAAAAATT
Found at i:129337 original size:17 final size:17
Alignment explanation
Indices: 129317--129349 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
129307 AAACTAATAA
129317 AAATTATAA-AAAATATT
1 AAATT-TAATAAAATATT
129334 AAATTTAATAAAATAT
1 AAATTTAATAAAATAT
129350 AAAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTTAATAAAATATT
Found at i:129350 original size:26 final size:27
Alignment explanation
Indices: 129290--129385 Score: 92
Period size: 26 Copynumber: 3.6 Consensus size: 27
129280 ACATGTGGAA
**
129290 AAAATTATAAAAAATA--AAAACTAAT
1 AAAATTATAAAAAATATTAAATTTAAT
129315 AAAAATTATAAAAAATATTAAATTTAAT
1 -AAAATTATAAAAAATATTAAATTTAAT
*
129343 AAAA-TAT-AAAAATATTTAAAATTTATT
1 AAAATTATAAAAAATA-TT-AAATTTAAT
*
129370 AAAAATTAGAAAAAAT
1 -AAAATTATAAAAAAT
129386 TAGAAAAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.12
26 21 0.36
27 12 0.20
28 11 0.19
29 2 0.03
30 6 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAATTATAAAAAATATTAAATTTAAT
Found at i:129412 original size:20 final size:19
Alignment explanation
Indices: 129334--129412 Score: 65
Period size: 19 Copynumber: 4.1 Consensus size: 19
129324 AAAAAATATT
*
129334 AAATTTAATAAAATATAAA
1 AAATTTAAAAAAATATAAA
** *
129353 AATATTT-AAAATTTATTAA
1 AA-ATTTAAAAAAATATAAA
129372 AAA-TTAGAAAAAAT-TAGAA
1 AAATTTA-AAAAAATATA-AA
129391 AAATCTTAAAAAAATATAAA
1 AAAT-TTAAAAAAATATAAA
129411 AA
1 AA
129413 TAAAATATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
17 2 0.04
18 2 0.04
19 22 0.48
20 15 0.33
21 5 0.11
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATTTAAAAAAATATAAA
Found at i:130258 original size:84 final size:81
Alignment explanation
Indices: 130165--130334 Score: 182
Period size: 82 Copynumber: 2.0 Consensus size: 81
130155 TTAATGGTGT
* *
130165 AAAACCCTCAAACTTCAAAACAAAAAACAATTAAATTTCTTTTTTTCACTCAATTAGGTATA-TA
1 AAAACCCTCAAACTTCAAAA-AAAAAACAATTAAA-CTCTTTTTTTCACTCAATT--GAATACTA
130229 AATT-TTCAAAATATATAAAA
62 AATTGTT-AAAATATATAAAA
* * *** * **
130249 AAAATCCTCAAATTTTTTAAAATAAATTATTAAACTCTTTTTTTCACTCAATTGAATACTTAAAT
1 AAAACCCTCAAACTTCAAAAAAAAAACAATTAAACTCTTTTTTTCACTCAATTGAATAC-TAAAT
130314 TGTTAAAATATATAAAA
65 TGTTAAAATATATAAAA
130331 AAAA
1 AAAA
130335 AAATTTTAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
80 4 0.05
82 41 0.56
83 13 0.18
84 15 0.21
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.36
Consensus pattern (81 bp):
AAAACCCTCAAACTTCAAAAAAAAAACAATTAAACTCTTTTTTTCACTCAATTGAATACTAAATT
GTTAAAATATATAAAA
Found at i:130462 original size:19 final size:20
Alignment explanation
Indices: 130439--130485 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
130429 AACATATAAA
130439 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
130459 -ATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAATTT
130478 AATAAAAA
1 AATAAAAA
130486 ATATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:130473 original size:29 final size:28
Alignment explanation
Indices: 130425--130576 Score: 86
Period size: 29 Copynumber: 5.5 Consensus size: 28
130415 GTATGTAAAA
*
130425 AAAAAACATATAAAA-A-TAAAAATCAAT
1 AAAAAATATA-AAAATATTAAAAATCAAT
** ** *
130452 AAAATTTATAAAAATTATTAAATTTTAAT
1 AAAAAATATAAAAA-TATTAAAAATCAAT
* **
130481 AAAAAATATAAAAATATTTAAAATTTAT
1 AAAAAATATAAAAATATTAAAAATCAAT
* * *
130509 TAAAAATAGAAAAACA-TAAAAAT---T
1 AAAAAATATAAAAATATTAAAAATCAAT
130533 AAAAAAT-TAAAAAATATTATAAAATCGAA-
1 AAAAAATAT-AAAAATATTA-AAAATC-AAT
*
130562 AAAAATTATAAAAAT
1 AAAAAATATAAAAAT
130577 GTAAAGAAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
24 13 0.14
25 2 0.02
26 9 0.10
27 13 0.14
28 24 0.26
29 32 0.34
30 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (28 bp):
AAAAAATATAAAAATATTAAAAATCAAT
Found at i:130556 original size:18 final size:18
Alignment explanation
Indices: 130526--130604 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
130516 AGAAAAACAT
*
130526 AAAAATTAAAAAAT-TAA
1 AAAAATTATAAAATCTAA
*
130543 AAAATATTATAAAATCGAA
1 AAAA-ATTATAAAATCTAA
*
130562 AAAAATTATAAAAATGTAA
1 AAAAATTAT-AAAATCTAA
*
130581 AGAAA-TATAAAATTCGTAA
1 AAAAATTATAAAA-TC-TAA
130600 AAAAA
1 AAAAA
130605 AAAAAATTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
17 8 0.16
18 18 0.36
19 24 0.48
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAATTATAAAATCTAA
Found at i:130566 original size:36 final size:36
Alignment explanation
Indices: 130526--130613 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 36
130516 AGAAAAACAT
130526 AAAAATTAAAAAATTAAA-AAATATTATAAAATCG-AA
1 AAAAATTAAAAAATTAAAGAAATA-TA-AAAATCGTAA
*
130562 AAAAATTATAAAAATGTAAAGAAATATAAAATTCGTAA
1 AAAAATTA-AAAAAT-TAAAGAAATATAAAAATCGTAA
130600 AAAAA--AAAAAATTA
1 AAAAATTAAAAAATTA
130614 TCATACCGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
34 2 0.04
35 6 0.13
36 9 0.19
37 12 0.26
38 13 0.28
39 5 0.11
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (36 bp):
AAAAATTAAAAAATTAAAGAAATATAAAAATCGTAA
Found at i:130797 original size:19 final size:19
Alignment explanation
Indices: 130773--130811 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
130763 ATTAAATTAC
130773 ATTTTTGATGCA-TTTTATA
1 ATTTTTGATG-ATTTTTATA
*
130792 ATTTTTTATGATTTTTATA
1 ATTTTTGATGATTTTTATA
130811 A
1 A
130812 AAATTTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTTTTGATGATTTTTATA
Found at i:131162 original size:18 final size:18
Alignment explanation
Indices: 131135--131170 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
131125 TTTTCTACTG
131135 TTTTACTCTCTTGCTTCA
1 TTTTACTCTCTTGCTTCA
*
131153 TTTTAGTCTCTTGCTTCA
1 TTTTACTCTCTTGCTTCA
131171 AGTACCCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.25, G:0.08, T:0.56
Consensus pattern (18 bp):
TTTTACTCTCTTGCTTCA
Found at i:137934 original size:152 final size:152
Alignment explanation
Indices: 137655--137958 Score: 563
Period size: 152 Copynumber: 2.0 Consensus size: 152
137645 GGGCGCTCCT
137655 AAGAACAAAGTCGTGAGGGCCATGTGTGCCTAAAGCGGACAATATCTCACCAAATTGAGTGTTGG
1 AAGAACAAAGTCGTGAGGGCCATGTGTGCCTAAAGCGGACAATATCTCACCAAATTGAGTGTTGG
*
137720 CTATGACATTTATAGGCAGATATGGTAAGACCCTTGTAGAATTAGAGAAGTTTATTTCAACTAGA
66 CTATGACATTTATAGGCAGATATGGTAAGACCCTTATAGAATTAGAGAAGTTTATTTCAACTAGA
137785 AAAAACGAAATCCTAGTTCAAC
131 AAAAACGAAATCCTAGTTCAAC
*
137807 AAGAACAAAGTCGTGAGGGCCATGTGTGCCTAAAGCGGACAATATCTCACCAAGTTGAGTGTTGG
1 AAGAACAAAGTCGTGAGGGCCATGTGTGCCTAAAGCGGACAATATCTCACCAAATTGAGTGTTGG
* *
137872 CTATGACATTTATAGGGAGATATGGTAAGACCCTTATAGAATTAGAGAAGTTTATTTTAACTAGA
66 CTATGACATTTATAGGCAGATATGGTAAGACCCTTATAGAATTAGAGAAGTTTATTTCAACTAGA
*
137937 AAAAATGAAATCCTAGTTCAAC
131 AAAAACGAAATCCTAGTTCAAC
137959 TAGGATGTAG
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 147 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (152 bp):
AAGAACAAAGTCGTGAGGGCCATGTGTGCCTAAAGCGGACAATATCTCACCAAATTGAGTGTTGG
CTATGACATTTATAGGCAGATATGGTAAGACCCTTATAGAATTAGAGAAGTTTATTTCAACTAGA
AAAAACGAAATCCTAGTTCAAC
Found at i:140222 original size:25 final size:21
Alignment explanation
Indices: 140176--140220 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
140166 AAAAGAAGTT
140176 TAATTAATTTTAAAAATAAAC
1 TAATTAATTTTAAAAATAAAC
140197 TAATTAATTTTAAAAATAAAC
1 TAATTAATTTTAAAAATAAAC
140218 TAA
1 TAA
140221 CTCAAAAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTAATTTTAAAAATAAAC
Found at i:144183 original size:40 final size:40
Alignment explanation
Indices: 144128--144209 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
144118 AGGATATTTT
144128 TAATCTCTTTGGGATAATATTCATTCTCCCAATATGATCC
1 TAATCTCTTTGGGATAATATTCATTCTCCCAATATGATCC
*
144168 TAATCTCTTTGGGATAATATTCTTTCTCCCAATATGATCC
1 TAATCTCTTTGGGATAATATTCATTCTCCCAATATGATCC
144208 TA
1 TA
144210 TTTTATTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (40 bp):
TAATCTCTTTGGGATAATATTCATTCTCCCAATATGATCC
Found at i:144956 original size:10 final size:10
Alignment explanation
Indices: 144943--144968 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
144933 TTTGATTAGA
144943 TAAAATTATT
1 TAAAATTATT
144953 TAAAATTATT
1 TAAAATTATT
144963 TAAAAT
1 TAAAAT
144969 AATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATTATT
Found at i:146416 original size:25 final size:25
Alignment explanation
Indices: 146388--146461 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
146378 TTCGGCACGC
146388 AATTGAAAGTGGCACTTCGGTGCAA
1 AATTGAAAGTGGCACTTCGGTGCAA
* *
146413 AATTGAAAGTGACATTTCGGTGC--
1 AATTGAAAGTGGCACTTCGGTGCAA
* *
146436 AATTGACAGTGGCACTTCAGTGCAA
1 AATTGAAAGTGGCACTTCGGTGCAA
146461 A
1 A
146462 TTAGTTGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 19 0.46
25 22 0.54
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (25 bp):
AATTGAAAGTGGCACTTCGGTGCAA
Found at i:146446 original size:23 final size:23
Alignment explanation
Indices: 146386--146460 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
146376 CTTTCGGCAC
146386 GCAATTGAAAGTGGCACTTCGGT
1 GCAATTGAAAGTGGCACTTCGGT
* *
146409 GCAAAATTGAAAGTGACATTTCGGT
1 GC--AATTGAAAGTGGCACTTCGGT
* *
146434 GCAATTGACAGTGGCACTTCAGT
1 GCAATTGAAAGTGGCACTTCGGT
146457 GCAA
1 GCAA
146461 ATTAGTTGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
23 23 0.52
25 21 0.48
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (23 bp):
GCAATTGAAAGTGGCACTTCGGT
Found at i:146781 original size:22 final size:22
Alignment explanation
Indices: 146750--146800 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
146740 TTAGCTAAAT
*
146750 TATAATTTTAATTAATTAATTAA
1 TATAAGTTTAATTAA-TAATTAA
*
146773 T-TAAGTTTAATTAATAGTTAA
1 TATAAGTTTAATTAATAATTAA
146794 TATAAGT
1 TATAAGT
146801 ATATAAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 17 0.68
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (22 bp):
TATAAGTTTAATTAATAATTAA
Found at i:174994 original size:40 final size:40
Alignment explanation
Indices: 174935--175048 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
174925 TGTGTTTGGA
* * *
174935 TAAATTCAAGCTTCGGCTTAGCAGGCTACTAGTCAGTGAT
1 TAAATTCAAGCTTCAGCTTAGCAGGCTACGAGTCAGTGAG
* * *
174975 TAAATTCAAGCTTCTGCTTAGCAGGCTACGAGCCGGTGAG
1 TAAATTCAAGCTTCAGCTTAGCAGGCTACGAGTCAGTGAG
175015 TAAATTCAAGCTTCAGCTTAGCAGGCTACGAGTC
1 TAAATTCAAGCTTCAGCTTAGCAGGCTACGAGTC
175049 GATGTTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (40 bp):
TAAATTCAAGCTTCAGCTTAGCAGGCTACGAGTCAGTGAG
Found at i:178258 original size:24 final size:22
Alignment explanation
Indices: 178209--178259 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
178199 AAAAAGGCAT
* *
178209 TCATACGTCCCCCAAAGGGCTT
1 TCATACGTCCCACAAAGGGCTC
*
178231 TCATACGTCCAACACAAGGGGCTC
1 TCATACGTCC--CACAAAGGGCTC
178255 TCATA
1 TCATA
178260 TACAGGTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
24 14 0.58
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (22 bp):
TCATACGTCCCACAAAGGGCTC
Found at i:183745 original size:468 final size:467
Alignment explanation
Indices: 182857--183796 Score: 1776
Period size: 468 Copynumber: 2.0 Consensus size: 467
182847 ATATAAGGTG
182857 TATA-GATACAAAGTTGTTTGTTATGGCGCACTCTAGTATTTAGTTCACCAAATTAATAAGCTTT
1 TATATGATACAAAGTTGTTTGTTATGGCGCACTCTAGTATTTAGTTCACCAAATTAATAAGCTTT
182921 TGGTGAATTCATGCTTTGGCGTACAGAGTATTCGTCCATAAAAGTATCTCAAGACTTAATTCTCG
66 TGGTGAATTCATGCTTTGGCGTACAGAGTATTCGTCCATAAAAGTATCTCAAGACTTAATTCTCG
182986 TAGTATTTTTTTATTAAAGAAATAATTCAACAAAAGGAGAGTAAACCTTGAATAGGTTATCACCA
131 TAGTATTTTTTTATTAAAGAAATAATTCAACAAAAGGAGAGTAAACCTTGAATAGGTTATCACCA
183051 AAGGTAAAGGTGGTCCAAGCATTATGACCACACAACTTACTGGAAGGATGATATAATAGTAATAC
196 AAGGTAAAGGTGGTCCAAGCATTATGACCACACAACTTACTGGAAGGATGATATAATAGTAATAC
183116 TAACATCAGATGATGTTGACTCAAATAATTTATTAATTTGTGTATTTTAAGTATATTTATTTACT
261 TAACATCAGATGATGTTGACTCAAATAATTTATTAATTTGTGTATTTTAAGTATATTTATTTACT
*
183181 ACAATTAATATCACCTTGTAATGAATTTTAAATGCATTTCTTTTATTATTTTTGCAATTTTTGTT
326 ACAAGTAATATCACCTTGTAATGAATTTTAAATGCATTTCTTTTATTATTTTTGCAATTTTTGTT
* * *
183246 GATTTTGTACCAAGTGGAAGAGAATGCAACCATACTATAACTAGAGGCACGTGGCATGTTTTTGT
391 GATTTTGTACCAAGTGAAAGAGAATGCAACCATACTACAACCAGAGGCACGTGGCATGTTTTTGT
183311 GTGCATGCCACT
456 GTGCATGCCACT
*
183323 TATATGATACACAA-TTGTTTGTTATGGTGCACTCTAGTATTTAGTTCACCAAATTAATAAGCTT
1 TATATGATACA-AAGTTGTTTGTTATGGCGCACTCTAGTATTTAGTTCACCAAATTAATAAGCTT
*
183387 TTGGTGAATTCATGCTTTGGCGTACAGAGTATTCGTCCATAAAAGTATCTCAATACTTAATTCTC
65 TTGGTGAATTCATGCTTTGGCGTACAGAGTATTCGTCCATAAAAGTATCTCAAGACTTAATTCTC
*
183452 GTAGTATTTTTTTTATTAAAGAAATAATTCGACAAAAGGAGAGTAAACCTTGAATAGGTTATCAC
130 GTAGTA-TTTTTTTATTAAAGAAATAATTCAACAAAAGGAGAGTAAACCTTGAATAGGTTATCAC
183517 CAAAGGTAAAGGTGGTCCAAGCATTATGACCACACAACTTACTGGAAGGATGATATAATAGTAAT
194 CAAAGGTAAAGGTGGTCCAAGCATTATGACCACACAACTTACTGGAAGGATGATATAATAGTAAT
183582 ACTAACATCAGATGATGTTGACTCAAATAATTTATTAATTTGTGTATTTTAAGTATATTTATTTA
259 ACTAACATCAGATGATGTTGACTCAAATAATTTATTAATTTGTGTATTTTAAGTATATTTATTTA
183647 CTACAAGTAATATCACCTTGTAATGAATTTTAAATGCATTTCTTTTATTATTTTTGCAATTTTTG
324 CTACAAGTAATATCACCTTGTAATGAATTTTAAATGCATTTCTTTTATTATTTTTGCAATTTTTG
*
183712 TTGATTTTGTATCAAGTGAAAGAGAATGCAACCATACTACAACCAGAGGCACGTGGCATGTTTTT
389 TTGATTTTGTACCAAGTGAAAGAGAATGCAACCATACTACAACCAGAGGCACGTGGCATGTTTTT
183777 GTGTGCATGCCACT
454 GTGTGCATGCCACT
183791 TATATG
1 TATATG
183797 TTTTCCCTAC
Statistics
Matches: 463, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
466 4 0.01
467 125 0.27
468 334 0.72
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (467 bp):
TATATGATACAAAGTTGTTTGTTATGGCGCACTCTAGTATTTAGTTCACCAAATTAATAAGCTTT
TGGTGAATTCATGCTTTGGCGTACAGAGTATTCGTCCATAAAAGTATCTCAAGACTTAATTCTCG
TAGTATTTTTTTATTAAAGAAATAATTCAACAAAAGGAGAGTAAACCTTGAATAGGTTATCACCA
AAGGTAAAGGTGGTCCAAGCATTATGACCACACAACTTACTGGAAGGATGATATAATAGTAATAC
TAACATCAGATGATGTTGACTCAAATAATTTATTAATTTGTGTATTTTAAGTATATTTATTTACT
ACAAGTAATATCACCTTGTAATGAATTTTAAATGCATTTCTTTTATTATTTTTGCAATTTTTGTT
GATTTTGTACCAAGTGAAAGAGAATGCAACCATACTACAACCAGAGGCACGTGGCATGTTTTTGT
GTGCATGCCACT
Found at i:184446 original size:16 final size:16
Alignment explanation
Indices: 184415--184448 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
184405 TTAGGCTTGG
* *
184415 ATTATCTCAGGTTCGA
1 ATTATCTCAAGCTCGA
184431 ATTATCTCAAGCTCGA
1 ATTATCTCAAGCTCGA
184447 AT
1 AT
184449 ATTCTCGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (16 bp):
ATTATCTCAAGCTCGA
Found at i:186233 original size:40 final size:40
Alignment explanation
Indices: 186178--186396 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
186168 GTAGTCTAGC
*
186178 AGTGTTTACAGTGTCACAT-CTAGTTCAGTAATAATATTGT
1 AGTGTTTACAGTGTCAC-TGCCAGTTCAGTAATAATATTGT
* * * *
186218 AGTGTTTACAGTGTCACTGTCAGTTAAGTAGTGATATCT-T
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTAATAATAT-TGT
* * *
186258 AGTGTTTACAGTGTCACTGCCAGTTCAGTAAGAATATCGC
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTAATAATATTGT
* * *
186298 AGTGTTTTACAATGTCACTGCCAG-TCAGAAATAATATTGC
1 AGTG-TTTACAGTGTCACTGCCAGTTCAGTAATAATATTGT
* * **
186338 AATGTTTACAGTGTCACTGCCAGTTCAGTAGTAATATCAT
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTAATAATATTGT
186378 AGTGTTTACAGTGTCACTG
1 AGTGTTTACAGTGTCACTG
186397 ATAATTCAGA
Statistics
Matches: 150, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 19 0.13
40 112 0.75
41 19 0.13
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (40 bp):
AGTGTTTACAGTGTCACTGCCAGTTCAGTAATAATATTGT
Found at i:186389 original size:120 final size:120
Alignment explanation
Indices: 186176--186396 Score: 329
Period size: 120 Copynumber: 1.8 Consensus size: 120
186166 TAGTAGTCTA
* * * * * *
186176 GCAGTGTTTACAGTGTCACATCTAGTTCAGTAATAATATTGTAGTGTTTACAGTGTCACTGTCAG
1 GCAGTGTTTACAATGTCACATCCAGTTCAGAAATAATATTGCAATGTTTACAGTGTCACTGCCAG
* *
186241 TTAAGTAGTGATATCTTAGTGTTTACAGTGTCACTGCCAGTTCAGTAAGAATATC
66 TTAAGTAGTAATATCATAGTGTTTACAGTGTCACTGCCAGTTCAGTAAGAATATC
186296 GCAGTGTTTTACAATGTCAC-TGCCAG-TCAGAAATAATATTGCAATGTTTACAGTGTCACTGCC
1 GCAGTG-TTTACAATGTCACAT-CCAGTTCAGAAATAATATTGCAATGTTTACAGTGTCACTGCC
*
186359 AGTTCAGTAGTAATATCATAGTGTTTACAGTGTCACTG
64 AGTTAAGTAGTAATATCATAGTGTTTACAGTGTCACTG
186397 ATAATTCAGA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
120 75 0.83
121 15 0.17
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (120 bp):
GCAGTGTTTACAATGTCACATCCAGTTCAGAAATAATATTGCAATGTTTACAGTGTCACTGCCAG
TTAAGTAGTAATATCATAGTGTTTACAGTGTCACTGCCAGTTCAGTAAGAATATC
Found at i:186823 original size:56 final size:56
Alignment explanation
Indices: 186720--186828 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 56
186710 GTTATTTTCC
** *
186720 AAACAGTATGCACACATGGTCTGCCACACGCCCGTGGGTCTAACCCATGTGTCACT
1 AAACAGTATGCACACACAGTCTGCCACACGCCCGTGGCTCTAACCCATGTGTCACT
* *
186776 AAACAGTATGCACACACAGTCTAG-CACACGCCTGTGTGCTC-AGCCCATGTGTC
1 AAACAGTATGCACACACAGTCT-GCCACACGCCCGTG-GCTCTAACCCATGTGTC
186829 CCCTGAAGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 42 0.91
57 4 0.09
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (56 bp):
AAACAGTATGCACACACAGTCTGCCACACGCCCGTGGCTCTAACCCATGTGTCACT
Found at i:192425 original size:23 final size:23
Alignment explanation
Indices: 192399--192457 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
192389 ACATACTACG
* *
192399 TCAGATAACAGTTCAATCATAGA
1 TCAGATAACAATTCAATAATAGA
192422 TCAGTTGATAACAATTCAATAATAGA
1 TCA---GATAACAATTCAATAATAGA
*
192448 TCAGCTAACA
1 TCAGATAACA
192458 CAATACAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 9 0.30
26 21 0.70
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (23 bp):
TCAGATAACAATTCAATAATAGA
Found at i:192431 original size:26 final size:26
Alignment explanation
Indices: 192402--192451 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
192392 TACTACGTCA
* *
192402 GATAACAGTTCAATCATAGATCAGTT
1 GATAACAATTCAATAATAGATCAGTT
192428 GATAACAATTCAATAATAGATCAG
1 GATAACAATTCAATAATAGATCAG
192452 CTAACACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (26 bp):
GATAACAATTCAATAATAGATCAGTT
Found at i:193117 original size:40 final size:41
Alignment explanation
Indices: 193029--193248 Score: 202
Period size: 40 Copynumber: 5.5 Consensus size: 41
193019 GTAGTCTAGT
* * * *
193029 AGTGTTTACAGTGTCAC-GGCTAGTTTAGTAATAATATTGC
1 AGTGTTTACAGTGTCACTGTCTAGTTCAGTAGTAATATCGC
* * * *
193069 AGTATTTACATTGTCACTGTC-AGTTCAGTAGTGATATCGT
1 AGTGTTTACAGTGTCACTGTCTAGTTCAGTAGTAATATCGC
*
193109 AGTGTTTACAGTGTCACTG-CTAGTTCAGTGAG-ATTATCGC
1 AGTGTTTACAGTGTCACTGTCTAGTTCAGT-AGTAATATCGC
* * **
193149 AGTGTTTACAGTGTCATTGTC-AGTT-AGTAATAATATTAC
1 AGTGTTTACAGTGTCACTGTCTAGTTCAGTAGTAATATCGC
* * * * *
193188 AGTGTTTACAGTGTCACT-ACTAGTTTAATAGTAAAATCGT
1 AGTGTTTACAGTGTCACTGTCTAGTTCAGTAGTAATATCGC
* *
193228 AGTGTTTACAATGTCATTGTC
1 AGTGTTTACAGTGTCACTGTC
193249 AATTCCTAAA
Statistics
Matches: 143, Mismatches: 29, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
38 2 0.01
39 30 0.21
40 105 0.73
41 6 0.04
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (41 bp):
AGTGTTTACAGTGTCACTGTCTAGTTCAGTAGTAATATCGC
Found at i:193164 original size:80 final size:79
Alignment explanation
Indices: 193027--193212 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 79
193017 TGGTAGTCTA
* * * * *
193027 GTAGTGTTTACAGTGTCACGGCTAGTTTAGTAATAATATTGCAGTATTTACATTGTCACTGTCAG
1 GTAGTGTTTACAGTGTCACTGCTAGTTCAGTAAGAATATCGCAGTATTTACAGTGTCACTGTCAG
* *
193092 TTCAGTAGTGATATC
66 TT-AGTAATAATATC
* * * *
193107 GTAGTGTTTACAGTGTCACTGCTAGTTCAGTGAGATTATCGCAGTGTTTACAGTGTCATTGTCAG
1 GTAGTGTTTACAGTGTCACTGCTAGTTCAGTAAGAATATCGCAGTATTTACAGTGTCACTGTCAG
*
193172 TTAGTAATAATATT
66 TTAGTAATAATATC
** *
193186 ACAGTGTTTACAGTGTCACTACTAGTT
1 GTAGTGTTTACAGTGTCACTGCTAGTT
193213 TAATAGTAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 33 0.36
80 58 0.64
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (79 bp):
GTAGTGTTTACAGTGTCACTGCTAGTTCAGTAAGAATATCGCAGTATTTACAGTGTCACTGTCAG
TTAGTAATAATATC
Found at i:193232 original size:79 final size:80
Alignment explanation
Indices: 193029--193249 Score: 257
Period size: 79 Copynumber: 2.8 Consensus size: 80
193019 GTAGTCTAGT
* * * * * *
193029 AGTGTTTACAGTGTCACGGCTAGTTTAGTAATAATATTGCAGTATTTACATTGTCACTGTCAGTT
1 AGTGTTTACAGTGTCACTGCTAGTTTAGTAGTAATATCGCAGTGTTTACAATGTCATTGTCAGTT
* * **
193094 CAGTAGTGATATCGT
66 CAGTAATAATATCAC
* * *
193109 AGTGTTTACAGTGTCACTGCTAGTTCAGTGAG-ATTATCGCAGTGTTTACAGTGTCATTGTCAGT
1 AGTGTTTACAGTGTCACTGCTAGTTTAGT-AGTAATATCGCAGTGTTTACAATGTCATTGTCAGT
*
193173 T-AGTAATAATATTAC
65 TCAGTAATAATATCAC
* * * *
193188 AGTGTTTACAGTGTCACTACTAGTTTAATAGTAAAATCGTAGTGTTTACAATGTCATTGTCA
1 AGTGTTTACAGTGTCACTGCTAGTTTAGTAGTAATATCGCAGTGTTTACAATGTCATTGTCA
193250 ATTCCTAAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.02
79 61 0.51
80 55 0.46
81 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (80 bp):
AGTGTTTACAGTGTCACTGCTAGTTTAGTAGTAATATCGCAGTGTTTACAATGTCATTGTCAGTT
CAGTAATAATATCAC
Found at i:193771 original size:40 final size:40
Alignment explanation
Indices: 193681--193902 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
193671 TGGTAGTCTA
* * * *
193681 GTAGTGTTTACAGTGTCACGGCTA-TTTAGTAATAATATT
1 GTAGTGTTTACAGTGTCACTGCTAGTTCAGTAGTAATATC
* * * *
193720 GCAGTATTTACATTGTCACTG-TCAGTTCAGTAGTGATATC
1 GTAGTGTTTACAGTGTCACTGCT-AGTTCAGTAGTAATATC
* *
193760 ATAGTGTTTACAGTGTCACTGCTAGTTCAGTGAG-ATTATC
1 GTAGTGTTTACAGTGTCACTGCTAGTTCAGT-AGTAATATC
* * * * *
193800 GTAGTATTTACAGTGTCATTGCCAG-TCAGTAATAATATT
1 GTAGTGTTTACAGTGTCACTGCTAGTTCAGTAGTAATATC
* * *
193839 GCAGTGTTTACAGTGTCACTGCTAGTTCAATAGTAAAATC
1 GTAGTGTTTACAGTGTCACTGCTAGTTCAGTAGTAATATC
* *
193879 GTAGTGTTTACATTGTCATTGCTA
1 GTAGTGTTTACAGTGTCACTGCTA
193903 ATTCCTAAAT
Statistics
Matches: 145, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.33
40 92 0.63
41 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (40 bp):
GTAGTGTTTACAGTGTCACTGCTAGTTCAGTAGTAATATC
Found at i:193829 original size:79 final size:79
Alignment explanation
Indices: 193682--193900 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 79
193672 GGTAGTCTAG
* * * * * * *
193682 TAGTGTTTACAGTGTCACGGCTA-TTTAGTAATAATATTGCAGTATTTACATTGTCACTGTCAGT
1 TAGTGTTTACAGTGTCACTGCTAGTTCAGT-AGAATATCGTAGTATTTACATTGTCATTGCCAGT
* *
193746 TCAGTAGTGATATCA
65 TCAGTAATAATATCA
* *
193761 TAGTGTTTACAGTGTCACTGCTAGTTCAGTGAGATTATCGTAGTATTTACAGTGTCATTGCCAG-
1 TAGTGTTTACAGTGTCACTGCTAGTTCAGT-AGAATATCGTAGTATTTACATTGTCATTGCCAGT
**
193825 TCAGTAATAATATTG
65 TCAGTAATAATATCA
* * * *
193840 CAGTGTTTACAGTGTCACTGCTAGTTCAATAGTAAAATCGTAGTGTTTACATTGTCATTGC
1 TAGTGTTTACAGTGTCACTGCTAGTTCAGTAG-AATATCGTAGTATTTACATTGTCATTGC
193901 TAATTCCTAA
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.02
79 85 0.72
80 31 0.26
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (79 bp):
TAGTGTTTACAGTGTCACTGCTAGTTCAGTAGAATATCGTAGTATTTACATTGTCATTGCCAGTT
CAGTAATAATATCA
Found at i:193837 original size:119 final size:119
Alignment explanation
Indices: 193681--193902 Score: 302
Period size: 119 Copynumber: 1.9 Consensus size: 119
193671 TGGTAGTCTA
* * * * *
193681 GTAGTGTTTACAGTGTCACGGCTATTTAGTAATAATATTGCAGTATTTACATTGTCACTG-TCAG
1 GTAGTATTTACAGTGTCACGGCCAGTCAGTAATAATATTGCAGTATTTACAGTGTCACTGCT-AG
* * *
193745 TTCAGTAGTGATATCATAGTGTTTACAGTGTCACTGCTAGTTCAGTGAGATTATC
65 TTCAATAGTAAAATCATAGTGTTTACAGTGTCACTGCTAGTTCAGTGAGATTATC
** *
193800 GTAGTATTTACAGTGTCATTGCCAGTCAGTAATAATATTGCAGTGTTTACAGTGTCACTGCTAGT
1 GTAGTATTTACAGTGTCACGGCCAGTCAGTAATAATATTGCAGTATTTACAGTGTCACTGCTAGT
* * *
193865 TCAATAGTAAAATCGTAGTGTTTACATTGTCATTGCTA
66 TCAATAGTAAAATCATAGTGTTTACAGTGTCACTGCTA
193903 ATTCCTAAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
119 87 0.99
120 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (119 bp):
GTAGTATTTACAGTGTCACGGCCAGTCAGTAATAATATTGCAGTATTTACAGTGTCACTGCTAGT
TCAATAGTAAAATCATAGTGTTTACAGTGTCACTGCTAGTTCAGTGAGATTATC
Found at i:194340 original size:653 final size:650
Alignment explanation
Indices: 192625--194448 Score: 2599
Period size: 653 Copynumber: 2.8 Consensus size: 650
192615 CCGATACAAT
* ** * * *
192625 TAAATATAACACCCTAAACCCGGCCCACATGAAACGACCAA-TCAAGAATATCACAAAGTCATCA
1 TAAATATAACACCTTAAACCCAACCTAAATGAAATGACCAAGTCAAGAATATCACAAAGTCATCA
* * ** * * * *
192689 C--AGGGAAAACCATACAATAACACATTGGAAGGAAGTACATAATTAAGTTATATAGATAATAGG
66 CGAAGGAAAAAACATATGATAACACATTGGAAGCAAGCACACAATTAAGTTATATAGACAATAGG
* * * *
192752 TTTAACCCCATATCATAAGTATCAACATGAATTCGATAGTTCCACACTTAAGTTTCATCGTAACA
131 TTCAACACCAAATCACAAGTATCAACATGAATTCGATAGTTCCACACTTAAGTTTCATCGTAACA
* *
192817 AAACTATAACTAGCTATAAGTCCTAAGAGTCC------T-A-C-AA-A--T-G---ATC-G----
196 TAACTATAACTAGCTATAAGTCCTAAGAGTCCTAAAAATGACCGAACACCTCGTCCGTCAGCCTT
192861 CAAGTCTGGTAGACCCTAAAACATCATTAAATAAGTCAGTATGAAACATAATGATATTTTTGTAA
261 CAAGTCTGGTAGACCCTAAAACATCATTAAATAAGTCAGTATGAAACATAATGATATTTTTGTAA
*
192926 ATCTCATCAACGTAATTTATAAAAATATTTATTCAGTTCTATAATTAGATTCACAGATCTAAACC
326 ATCTCATCAACGTAATTTATAAAAACATTTATTCAGTTCTATAATTAGATTCACAGATCTAAACC
*
192991 AGTTAGATAGTTGTATTACAGCTCATTGGTAGTCTAGTAGTGTTTACAGTGTCACGGCTAGTTTA
391 AGTTAGACAGTTGTATTACAGCTCATT-GTAG--T-GTAGTGTTTACAGTGTCACGGCTAGTTTA
193056 GTAATAATATTGCAGTATTTACATTGTCACTGTCAGTTCAGTAGTGATATCGTAGTGTTTACAGT
452 GTAATAATATTGCAGTATTTACATTGTCACTGTCAGTTCAGTAGTGATATCGTAGTGTTTACAGT
* * *
193121 GTCACTGCTAGTTCAGTGAGATTATCGCAGTGTTTACAGTGTCATTGTCAGTTAGTAATAATATT
517 GTCACTGCTAGTTCAGTGAGATTATCGCAGTATTTACAGTGTCATTGCCAGTCAGTAATAATATT
*
193186 ACAGTGTTTACAGTGTCACTACTAGTTTAATAGTAAAATCGTAGTGTTTACAATGTCATTGTCAA
582 ACAGTGTTTACAGTGTCACTACTAGTTCAATAGTAAAATCGTAGTGTTTACAATGTCATTGTCAA
193251 TTCC
647 TTCC
*
193255 TAAATATAACACCTTAAACCCAACCTAAATGAAATGTCCAAGTCAAGAATATCACAAAGTCATCA
1 TAAATATAACACCTTAAACCCAACCTAAATGAAATGACCAAGTCAAGAATATCACAAAGTCATCA
193320 CGAAGGAAAAAACATATGATAACACATTGGAAGCAAGCACACAATTAAGTTATATAGACAATAGG
66 CGAAGGAAAAAACATATGATAACACATTGGAAGCAAGCACACAATTAAGTTATATAGACAATAGG
193385 TTCAACACCAAATCACAAGTATCAACATGAATTCGATAGTTCCACACTTAAGTTTCATCGTAACA
131 TTCAACACCAAATCACAAGTATCAACATGAATTCGATAGTTCCACACTTAAGTTTCATCGTAACA
* *
193450 TAACTATAACTAGCTATAAGTCCTAAGAGTCCTACAAATGACCGAACTCCTCGTCCGTCAGCCTT
196 TAACTATAACTAGCTATAAGTCCTAAGAGTCCTAAAAATGACCGAACACCTCGTCCGTCAGCCTT
* * * * *
193515 CAAGTTTGGTAGACCCTGAAACATCATTAAATAAGTCAGCATGAAGCATAATGACATTTTTGTAA
261 CAAGTCTGGTAGACCCTAAAACATCATTAAATAAGTCAGTATGAAACATAATGATATTTTTGTAA
* * *
193580 ATCTCATCAACGTAATTTATAAAAACATTTATCCAGTTCTATTATTAGATTCACAGATCTTAACC
326 ATCTCATCAACGTAATTTATAAAAACATTTATTCAGTTCTATAATTAGATTCACAGATCTAAACC
193645 AGTTAGACAGTTGTATTACAGCTCATTGGTAGTCTAGTAGTGTTTACAGTGTCACGGCTA-TTTA
391 AGTTAGACAGTTGTATTACAGCTCATT-GTAG--T-GTAGTGTTTACAGTGTCACGGCTAGTTTA
*
193709 GTAATAATATTGCAGTATTTACATTGTCACTGTCAGTTCAGTAGTGATATCATAGTGTTTACAGT
452 GTAATAATATTGCAGTATTTACATTGTCACTGTCAGTTCAGTAGTGATATCGTAGTGTTTACAGT
*
193774 GTCACTGCTAGTTCAGTGAGATTATCGTAGTATTTACAGTGTCATTGCCAGTCAGTAATAATATT
517 GTCACTGCTAGTTCAGTGAGATTATCGCAGTATTTACAGTGTCATTGCCAGTCAGTAATAATATT
* * *
193839 GCAGTGTTTACAGTGTCACTGCTAGTTCAATAGTAAAATCGTAGTGTTTACATTGTCATTG-CTA
582 ACAGTGTTTACAGTGTCACTACTAGTTCAATAGTAAAATCGTAGTGTTTACAATGTCATTGTC-A
193903 ATTCC
646 ATTCC
* **
193908 TAAATGTAACACCTTAAACCCGGCCTAAATGAAATGACCAAGTCAAGAATATCACAAAGTCATCA
1 TAAATATAACACCTTAAACCCAACCTAAATGAAATGACCAAGTCAAGAATATCACAAAGTCATCA
*
193973 CGAAGGAAAAAATATATGATAACACATTGGAAGCAAGCACACAATTAAGTTATATAGACAATAGG
66 CGAAGGAAAAAACATATGATAACACATTGGAAGCAAGCACACAATTAAGTTATATAGACAATAGG
* * * *
194038 TTCAAC-CCAGATCAGAAGTATCAACATGAATTCGGTAGTTCCACACTTAAGTTTCATCGTAGCA
131 TTCAACACCAAATCACAAGTATCAACATGAATTCGATAGTTCCACACTTAAGTTTCATCGTAACA
*
194102 TAACTATAACTAGTTATAAGTCCTATAAGTCCTAAGAGTCCTAAAAATGACCGAGCACCTCGTCC
196 TAACTATAAC------T-AG--CTATAAGTCCTAAGAGTCCTAAAAATGACCGAACACCTCGTCC
* * *
194167 GTCGGCCTTCAAGTCTGGGTAGACCCTAAAACATCATTAAATATGTCAGTGTGAAACATAATGAT
252 GTCAGCCTTCAAGTCT-GGTAGACCCTAAAACATCATTAAATAAGTCAGTATGAAACATAATGAT
* * * *
194232 ATTTTTGTAAATCTCATCAACGTACTTTATAAAAACA-TTATTCAGTTTTATAATCAAATTCACA
316 ATTTTTGTAAATCTCATCAACGTAATTTATAAAAACATTTATTCAGTTCTATAATTAGATTCACA
* * * *
194296 TATCTCAACCAGTTAGACAGTTGTATTACAGCTCATTGGTAGTGTAGCAATGTTTATAATGTCAC
381 GATCTAAACCAGTTAGACAGTTGTATTACAGCTCATT-GTAGTGTAG---TGTTTACAGTGTCAC
* * * * * *
194361 GGGTAGTTCAGTAATAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTAG-GAAGATCGTA
442 GGCTAGTTTAGTAATAATATTGCAGTATTTACATTGTCACTGTCAGTTCAGTAGTG-ATATCGTA
* *
194425 GTGTTTATAATGTCACTGCTAGTT
506 GTGTTTACAGTGTCACTGCTAGTT
194449 AGTAATAATA
Statistics
Matches: 1074, Mismatches: 80, Indels: 48
0.89 0.07 0.04
Matches are distributed among these distances:
630 34 0.03
631 24 0.02
633 146 0.14
639 1 0.00
640 1 0.00
641 1 0.00
642 2 0.00
645 1 0.00
646 1 0.00
649 2 0.00
650 1 0.00
652 65 0.06
653 323 0.30
654 180 0.17
658 5 0.00
659 3 0.00
661 134 0.12
662 150 0.14
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (650 bp):
TAAATATAACACCTTAAACCCAACCTAAATGAAATGACCAAGTCAAGAATATCACAAAGTCATCA
CGAAGGAAAAAACATATGATAACACATTGGAAGCAAGCACACAATTAAGTTATATAGACAATAGG
TTCAACACCAAATCACAAGTATCAACATGAATTCGATAGTTCCACACTTAAGTTTCATCGTAACA
TAACTATAACTAGCTATAAGTCCTAAGAGTCCTAAAAATGACCGAACACCTCGTCCGTCAGCCTT
CAAGTCTGGTAGACCCTAAAACATCATTAAATAAGTCAGTATGAAACATAATGATATTTTTGTAA
ATCTCATCAACGTAATTTATAAAAACATTTATTCAGTTCTATAATTAGATTCACAGATCTAAACC
AGTTAGACAGTTGTATTACAGCTCATTGTAGTGTAGTGTTTACAGTGTCACGGCTAGTTTAGTAA
TAATATTGCAGTATTTACATTGTCACTGTCAGTTCAGTAGTGATATCGTAGTGTTTACAGTGTCA
CTGCTAGTTCAGTGAGATTATCGCAGTATTTACAGTGTCATTGCCAGTCAGTAATAATATTACAG
TGTTTACAGTGTCACTACTAGTTCAATAGTAAAATCGTAGTGTTTACAATGTCATTGTCAATTCC
Found at i:194409 original size:40 final size:40
Alignment explanation
Indices: 194346--194531 Score: 167
Period size: 40 Copynumber: 4.7 Consensus size: 40
194336 AGTGTAGCAA
* * ** *
194346 TGTTTATAATGTCACGGGTAGTTCAGTAATAATATTGCAG
1 TGTTTACAATGTCACTGCCAGTTCAGTAATAATATTGTAG
* ** * *
194386 TGTTTACAGTGTCACTGCCAGTTCAGTAGGAAGATCGTAG
1 TGTTTACAATGTCACTGCCAGTTCAGTAATAATATTGTAG
* * *
194426 TGTTTATAATGTCACTGCTAGTT-AGTAATAATATTGGAG
1 TGTTTACAATGTCACTGCCAGTTCAGTAATAATATTGTAG
* * * *
194465 TGTTTACAATGGCACTACCAGTTCAGTAGTAATGTTGTAG
1 TGTTTACAATGTCACTGCCAGTTCAGTAATAATATTGTAG
** * * *
194505 TGAATACAGTGTCACTGTCAATTCAGT
1 TGTTTACAATGTCACTGCCAGTTCAGT
194532 CACTTATTTA
Statistics
Matches: 113, Mismatches: 32, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
39 30 0.27
40 83 0.73
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (40 bp):
TGTTTACAATGTCACTGCCAGTTCAGTAATAATATTGTAG
Found at i:194506 original size:79 final size:80
Alignment explanation
Indices: 194346--194493 Score: 235
Period size: 79 Copynumber: 1.9 Consensus size: 80
194336 AGTGTAGCAA
* * * *
194346 TGTTTATAATGTCACGGGTAGTTCAGTAATAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCA
1 TGTTTATAATGTCACGGCTAGTTCAGTAATAATATTGCAGTGTTTACAATGGCACTACCAGTTCA
194411 GTAGGAAGATCGTAG
66 GTAGGAAGATCGTAG
* *
194426 TGTTTATAATGTCACTGCTAGTT-AGTAATAATATTGGAGTGTTTACAATGGCACTACCAGTTCA
1 TGTTTATAATGTCACGGCTAGTTCAGTAATAATATTGCAGTGTTTACAATGGCACTACCAGTTCA
194490 GTAG
66 GTAG
194494 TAATGTTGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 41 0.66
80 21 0.34
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (80 bp):
TGTTTATAATGTCACGGCTAGTTCAGTAATAATATTGCAGTGTTTACAATGGCACTACCAGTTCA
GTAGGAAGATCGTAG
Found at i:194518 original size:79 final size:80
Alignment explanation
Indices: 194353--194521 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 80
194343 CAATGTTTAT
* * * * *
194353 AATGTCACGGGTAGTTCAGTAATAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAGTAGGAA
1 AATGTCACTGCTAGTTCAGTAATAATATTGCAGTGTTTACAATGGCACTACCAGTTCAGTAGGAA
** *
194418 GATCGTAGTGTTTAT
66 GATCGTAGTGAATAC
* *
194433 AATGTCACTGCTAGTT-AGTAATAATATTGGAGTGTTTACAATGGCACTACCAGTTCAGTAGTAA
1 AATGTCACTGCTAGTTCAGTAATAATATTGCAGTGTTTACAATGGCACTACCAGTTCAGTAGGAA
*
194497 TG-TTGTAGTGAATAC
66 -GATCGTAGTGAATAC
*
194512 AGTGTCACTG
1 AATGTCACTG
194522 TCAATTCAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 61 0.80
80 15 0.20
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (80 bp):
AATGTCACTGCTAGTTCAGTAATAATATTGCAGTGTTTACAATGGCACTACCAGTTCAGTAGGAA
GATCGTAGTGAATAC
Found at i:194976 original size:56 final size:56
Alignment explanation
Indices: 194886--194994 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
194876 GCTATTTTCC
* * *
194886 AAACAGTATGCACACACGGTCTACCATACACCCGTG-GGTCTAGCCCATGTGTCACT
1 AAACAGTATGCACACACGGTCCACCACACACCCGTGTGCTCT-GCCCATGTGTCACT
* * ** *
194942 AAACAGTATGCACACATGGTCCAGCACATGCCCGTGTGCTCTGCCCGTGTGTC
1 AAACAGTATGCACACACGGTCCACCACACACCCGTGTGCTCTGCCCATGTGTC
194995 CCCTGAAGCT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 40 0.91
57 4 0.09
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (56 bp):
AAACAGTATGCACACACGGTCCACCACACACCCGTGTGCTCTGCCCATGTGTCACT
Found at i:202437 original size:2 final size:2
Alignment explanation
Indices: 202430--202463 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
202420 AGAACTTCAA
202430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
202464 TTATCTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203857 original size:68 final size:66
Alignment explanation
Indices: 203777--203952 Score: 210
Period size: 67 Copynumber: 2.6 Consensus size: 66
203767 TTAAGGCGTG
* *
203777 TTTAATTTATTTTCCAAAATTATAATTATAATTTTTTTAATTTAATTAAATAGTTGGACGATATT
1 TTTAATTTATTTTCCAAAATTATAATTATAATTTTTTTAATTTAATCAAATAGTTGGACG--ACT
203842 TTT
64 TTT
* * * * * *
203845 TTTAATTTATTTTCTAAAATTATAATTCTAAATATTTTTAGTTTAATCAAATGGTTGGATGACTT
1 TTTAATTTATTTTCCAAAATTATAATTAT-AATTTTTTTAATTTAATCAAATAGTTGGACGACTT
203910 TT
65 TT
* *
203912 TTTAATTTATTTTTCAAAATTATGATTCCAT-ATTTTTTTAA
1 TTTAATTTATTTTCCAAAATTATAATT--ATAATTTTTTTAA
203953 ATCATACAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
67 37 0.41
68 27 0.30
69 27 0.30
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (66 bp):
TTTAATTTATTTTCCAAAATTATAATTATAATTTTTTTAATTTAATCAAATAGTTGGACGACTTT
T
Found at i:204042 original size:20 final size:20
Alignment explanation
Indices: 203995--204052 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
203985 AAAACCTAAA
203995 TAATTAAAAATATAAAACCC
1 TAATTAAAAATATAAAACCC
* *
204015 TAATTTAAAATTTTCAAAA-CC
1 TAA-TTAAAAATAT-AAAACCC
204036 TAATTAAATAA-ATAAAA
1 TAATTAAA-AATATAAAA
204053 AAACTCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 4 0.13
20 9 0.29
21 14 0.45
22 4 0.13
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
TAATTAAAAATATAAAACCC
Found at i:209682 original size:29 final size:29
Alignment explanation
Indices: 209640--209697 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
209630 GTAACTTCAC
209640 TTTCCTTAGCTTTTCCTCTAAATTAGGGT
1 TTTCCTTAGCTTTTCCTCTAAATTAGGGT
209669 TTTCCTTAGCTTTTCCTCTAAATTAGGGT
1 TTTCCTTAGCTTTTCCTCTAAATTAGGGT
209698 AATTAAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (29 bp):
TTTCCTTAGCTTTTCCTCTAAATTAGGGT
Found at i:213053 original size:23 final size:24
Alignment explanation
Indices: 213022--213077 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
213012 AATAGAAGGC
213022 ACACAAAGTGCTAAT-CAGAGGGT
1 ACACAAAGTGCTAATACAGAGGGT
*
213045 ACACGAAGTGCTAATAACAGAGGGT
1 ACACAAAGTGCTAAT-ACAGAGGGT
213070 A-A-AAAGTG
1 ACACAAAGTG
213078 TTGATCAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 19 0.66
24 1 0.03
25 9 0.31
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.16
Consensus pattern (24 bp):
ACACAAAGTGCTAATACAGAGGGT
Found at i:213124 original size:23 final size:22
Alignment explanation
Indices: 213098--213238 Score: 104
Period size: 22 Copynumber: 6.2 Consensus size: 22
213088 GGCACGAAAC
*
213098 GTGCTAAACATATAGCACACACA
1 GTGCTAAACAGA-AGCACACACA
* * *
213121 GTGCTAAAAAAAAAGCACGAAAC-
1 GTGCT-AAACAGAAGCAC-ACACA
*
213144 CTGCTAAACAGATAGCACACACA
1 GTGCTAAACAGA-AGCACACACA
* * *
213167 GTGCTAAAAAAAAAGCACTCACA
1 GTGCT-AAACAGAAGCACACACA
* * * *
213190 TTGTTGATCAGAAGCACACACA
1 GTGCTAAACAGAAGCACACACA
* *
213212 GTGCTGATCAGAAGCACACACA
1 GTGCTAAACAGAAGCACACACA
213234 GTGCT
1 GTGCT
213239 GATCAGTAAG
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
22 45 0.48
23 35 0.38
24 13 0.14
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (22 bp):
GTGCTAAACAGAAGCACACACA
Found at i:213140 original size:46 final size:46
Alignment explanation
Indices: 213089--213184 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
213079 TGATCAGAGG
* *
213089 GCACGAAACGTGCTAAACATATAGCACACACAGTGCTAAAAAAAAA
1 GCACGAAACCTGCTAAACAGATAGCACACACAGTGCTAAAAAAAAA
213135 GCACGAAACCTGCTAAACAGATAGCACACACAGTGCTAAAAAAAAA
1 GCACGAAACCTGCTAAACAGATAGCACACACAGTGCTAAAAAAAAA
213181 GCAC
1 GCAC
213185 TCACATTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (46 bp):
GCACGAAACCTGCTAAACAGATAGCACACACAGTGCTAAAAAAAAA
Found at i:213258 original size:22 final size:22
Alignment explanation
Indices: 213152--213249 Score: 106
Period size: 22 Copynumber: 4.3 Consensus size: 22
213142 ACCTGCTAAA
* *
213152 CAGATAGCACACACAGTGCTAAAA
1 CAGA-AGCACACACAGTGCT-GAT
* * * * *
213176 AAAAAGCACTCACATTGTTGAT
1 CAGAAGCACACACAGTGCTGAT
213198 CAGAAGCACACACAGTGCTGAT
1 CAGAAGCACACACAGTGCTGAT
213220 CAGAAGCACACACAGTGCTGAT
1 CAGAAGCACACACAGTGCTGAT
213242 CAGTAAGC
1 CAG-AAGC
213250 GCGCTAGTGT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
22 43 0.70
23 16 0.26
24 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.16
Consensus pattern (22 bp):
CAGAAGCACACACAGTGCTGAT
Found at i:217465 original size:30 final size:30
Alignment explanation
Indices: 217431--217585 Score: 115
Period size: 30 Copynumber: 5.3 Consensus size: 30
217421 AAAACTTGAA
* *
217431 TTTGACCCCCAAACTTCCTAAAAATTTTAT
1 TTTGACCCTCAAACTTCCTAAAAATTTAAT
* *
217461 TTTGACCCTCGAACTATCC-AAAAATTCAAT
1 TTTGACCCTCAAACT-TCCTAAAAATTTAAT
* * * *
217491 TTTGACCCTTAAATTTTCTAAAAATTTCAT
1 TTTGACCCTCAAACTTCCTAAAAATTTAAT
** * *
217521 TTTGACCCT-AAACTTTTTGAAAA-GTACAT
1 TTTGACCCTCAAACTTCCTAAAAATTTA-AT
* *
217550 TTTGA-CCTCAAACTTTCC-AAAATTTTGA-
1 TTTGACCCTCAAAC-TTCCTAAAAATTTAAT
217578 TTTGACCC
1 TTTGACCC
217586 CTTTTGCCTT
Statistics
Matches: 97, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
28 9 0.09
29 30 0.31
30 55 0.57
31 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTGACCCTCAAACTTCCTAAAAATTTAAT
Found at i:217512 original size:60 final size:60
Alignment explanation
Indices: 217415--217529 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
217405 GCCCTTATTT
* *
217415 TATCCAAAAACTTGAATTTGACCCCCAAACTTCCTAAAAATTTTATTTTGACCCTCGAAC
1 TATCCAAAAACTTCAATTTGACCCCCAAACTTCCTAAAAATTTCATTTTGACCCTCGAAC
** * *
217475 TATCCAAAAA-TTCAATTTTGACCCTTAAATTTTCTAAAAATTTCATTTTGACCCT
1 TATCCAAAAACTTCAA-TTTGACCCCCAAACTTCCTAAAAATTTCATTTTGACCCT
217530 AAACTTTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 4 0.08
60 44 0.92
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (60 bp):
TATCCAAAAACTTCAATTTGACCCCCAAACTTCCTAAAAATTTCATTTTGACCCTCGAAC
Found at i:217550 original size:29 final size:30
Alignment explanation
Indices: 217489--217565 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
217479 CAAAAATTCA
* *
217489 ATTTTGACCCTTAAA-TTTTCTAAAAATTTC
1 ATTTTGACCC-TAAACTTTTCTAAAAAGTAC
*
217519 ATTTTGACCCTAAACTTTT-TGAAAAGTAC
1 ATTTTGACCCTAAACTTTTCTAAAAAGTAC
217548 ATTTTGA-CCTCAAACTTT
1 ATTTTGACCCT-AAACTTT
217566 CCAAAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.07
29 25 0.60
30 14 0.33
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.43
Consensus pattern (30 bp):
ATTTTGACCCTAAACTTTTCTAAAAAGTAC
Found at i:222892 original size:18 final size:17
Alignment explanation
Indices: 222862--222914 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
222852 AATTTCACCC
222862 AAAAAAATAAAAAAGGAA
1 AAAAAAAT-AAAAAGGAA
*
222880 AAAAGAAATAAAAAGAAA
1 AAAA-AAATAAAAAGGAA
*
222898 ACAAAAAAGAAAAAGGA
1 A-AAAAAATAAAAAGGA
222915 GAGGTCGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAAATAAAAAGGAA
Found at i:224032 original size:49 final size:50
Alignment explanation
Indices: 223871--224252 Score: 297
Period size: 50 Copynumber: 7.7 Consensus size: 50
223861 AAGATATAAA
* * * * * *
223871 GGGAAAGGTTGAGACTGCAACGACGAACCCGGTACCTTAAAAGATGTAAT
1 GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
* * * *** * ** *
223921 GGGAAAGGTTGAGACTGCAATGATGAACCCAACACCTTAGAAGACATGAA
1 GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
*
223971 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCAT-GAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
** * *
224020 GGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
* * * * * * * * * *
224070 GGGAATGATTGAGACCGCATCAATGAATCTGGTACCA-CGAAGATATGAA
1 GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
* ** ** *
224119 GGGAAAGGTTGA-GCTGCAACGACAAACCCAATACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
* * * * *
224168 GGG-AAGGATTGAGGCCGTAGCGGTGAATCTGGTACCAT-GAAGATGTGAT
1 GGGAAAGG-TTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
* * * * *
224217 GGGAAGGGTGGAGGCTGCAAAGGTGAACCCGGTACC
1 GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACC
224253 TTAGGAACAT
Statistics
Matches: 254, Mismatches: 73, Indels: 11
0.75 0.22 0.03
Matches are distributed among these distances:
48 17 0.07
49 113 0.44
50 124 0.49
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.18
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCGCAACGATGAACCCGGTACCATAGAAGATGTGAT
Found at i:224061 original size:99 final size:99
Alignment explanation
Indices: 223860--224236 Score: 380
Period size: 99 Copynumber: 3.8 Consensus size: 99
223850 AAGGAAACAT
* * * * * *
223860 GAAGATATAAAGGGAAAGGTTGAGACTGCAACGACGAACCCGGTACCTTAAAAGATGTAATGGGA
1 GAAGATATGAAGGGAAAGGTTGAGACCGCAACGATGAACCCGGTACCAT-GAAGATGTGATGGGA
* * * *
223925 AAGGTTGAGACTGCAATGATGAACCCAACACCTTA
65 AAGGTTGAGGCTGCAACGACGAACCCAATACCTTA
* * *
223960 GAAGACATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATGAAGATGTGATGGGAA
1 GAAGATATGAAGGGAAAGGTTGAGACCGCAACGATGAACCCGGTACCATGAAGATGTGATGGGAA
* * *
224025 AGGTTGAGGCCGCAACGGCGAACCCAGTACCTTA
66 AGGTTGAGGCTGCAACGACGAACCCAATACCTTA
* * * * * * * * * * *
224059 GAAGATGTGATGGGAATGATTGAGACCGCATCAATGAATCTGGTACCACGAAGATATGAAGGGAA
1 GAAGATATGAAGGGAAAGGTTGAGACCGCAACGATGAACCCGGTACCATGAAGATGTGATGGGAA
*
224124 AGGTTGA-GCTGCAACGACAAACCCAATACCTTA
66 AGGTTGAGGCTGCAACGACGAACCCAATACCTTA
* * * * * * * *
224157 GAAGATGTGATGGG-AAGGATTGAGGCCGTAGCGGTGAATCTGGTACCATGAAGATGTGATGGGA
1 GAAGATATGAAGGGAAAGG-TTGAGACCGCAACGATGAACCCGGTACCATGAAGATGTGATGGGA
* *
224221 AGGGTGGAGGCTGCAA
65 AAGGTTGAGGCTGCAA
224237 AGGTGAACCC
Statistics
Matches: 229, Mismatches: 46, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
97 2 0.01
98 79 0.34
99 106 0.46
100 42 0.18
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (99 bp):
GAAGATATGAAGGGAAAGGTTGAGACCGCAACGATGAACCCGGTACCATGAAGATGTGATGGGAA
AGGTTGAGGCTGCAACGACGAACCCAATACCTTA
Found at i:224473 original size:42 final size:42
Alignment explanation
Indices: 224370--224527 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
224360 GTTACATCAC
* * * *
224370 CATCCAATCTCTTACCCCAATCAT-AGGGCAAATTGCAG---T
1 CATCCAATCTCTGACCTCGATCATGA-GGCAGATTGCAGCCAT
* *
224409 CATCCAATCTCTTACC-CTGATCATGAGGCAGATTGTAGCCAT
1 CATCCAATCTCTGACCTC-GATCATGAGGCAGATTGCAGCCAT
* *
224451 CATCCAATCTCTGACCTCGATCATGAGGTACATTGCAGCCAT
1 CATCCAATCTCTGACCTCGATCATGAGGCAGATTGCAGCCAT
* *
224493 CATCCAATCTCTGACCTTGATCATGGGGCAGATTG
1 CATCCAATCTCTGACCTCGATCATGAGGCAGATTG
224528 AAGTTATTAA
Statistics
Matches: 102, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 31 0.30
40 1 0.01
42 68 0.67
43 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (42 bp):
CATCCAATCTCTGACCTCGATCATGAGGCAGATTGCAGCCAT
Found at i:224553 original size:38 final size:38
Alignment explanation
Indices: 224370--225198 Score: 598
Period size: 38 Copynumber: 21.3 Consensus size: 38
224360 GTTACATCAC
* * * *
224370 CATCCAATCTCTTACCCCAATCATAGGGCAAATTGCAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* * *
224408 TCATCCAATCTCTTACCCTGATCATGAGGCAGATTGTAGCCAT
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTG-A---AG
* * * * * *
224451 CATCCAATCTCTGACCTCGATCATGAGGTACATTGCAGCCAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTG-A---AG
* **
224493 CATCCAATCTCTGACCTTGATCATGGGGCAGATTGAAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* * *
224531 TTAT-TAATCTCTTACCCCGATCATGGGGCATATT-ACAG
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGA-AG
* * ***
224569 CCATCCAATCTCTTACTCTGATCATAAAGCAGATTGAAG
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* ** *
224608 AATCCAATCTCTTACCCTAATCA-GAGGGCAGGTTGAAG
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAG
* * *
224646 ACAATTCAATCTCTTACCCCGATCATGGGGAAGATTAAAG
1 -C-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
** *
224686 ACAATCCAATCTCTTACCCATATCATAGGGCAGATTGAAG
1 -C-ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* * * * *
224726 AATTCAATCTCTTATCCCGATTATGGGACAGATTGAAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* * * * * *
224764 CATCTAATCTTTTA-CCCTAGTTA-GAAGGCAAATTGAAG
1 CATCCAATCTCTTACCCCGA-TCATG-GGGCAGATTGAAG
* * * * *
224802 ACA-CATCAATTTCTTACCCCAATTATAGGGCAGATTAAAG
1 -CATC--CAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* *
224842 CATCCAATCTCTTACCCCGATCTTGGGGCAGATTAAAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* ** * *
224880 AATCCAAT-TGCTTACCCTAATTA-GAGGGCAGATTGAATAT
1 CATCCAATCT-CTTACCCCGATCATG-GGGCAGATTG-A-AG
* * *
224920 AATCCAATCTCTTATCCCGATCATGGGGCAAATTGAAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
*
224958 CATCCAATTTCTTACCCCGATCATGGGGCAGATTGAAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* * * **
224996 AATTCAATATCTTACCCTAATCA-GAGGGCAGATTGAAG
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAG
* * *
225034 ATAATCCAATCTCTTATCCCGATCATGGGGCAGATTAAAG
1 --CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* ** ** *
225074 CATCCAATCTCGTACCCTAATCATAAGGC-GTATTGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAG-ATTGA-AG
*
225113 CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
* *
225151 CATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
*
225189 AATCCAATCT
1 CATCCAATCT
225199 AAACCCTAAC
Statistics
Matches: 627, Mismatches: 130, Indels: 67
0.76 0.16 0.08
Matches are distributed among these distances:
37 10 0.02
38 305 0.49
39 93 0.15
40 142 0.23
41 9 0.01
42 67 0.11
43 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (38 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
Found at i:224731 original size:78 final size:75
Alignment explanation
Indices: 224370--225198 Score: 574
Period size: 78 Copynumber: 10.6 Consensus size: 75
224360 GTTACATCAC
* * * * * *
224370 CATCCAATCTCTTACCCCAATCATAGGGCAAATTGCAGTCATCCAATCTCTTACCCTGATCATGA
1 CATCCAATCTCTTA-CCCTATCATAGGGCAGATTGAAG-AATCCAATCTCTTACCCCGATCATGG
*
224435 GGCAGATTGTAGCCAT
64 GGCAGATTG-A---AG
* * * * * * **
224451 CATCCAATCTCTGACCTCGATCAT-GAGGTACATTGCAGCCATCATCCAATCTCTGACCTTGATC
1 CATCCAATCTCTTACC-CTATCATAG-GGCAGATTGAAG--A--ATCCAATCTCTTACCCCGATC
224515 ATGGGGCAGATTGAAG
60 ATGGGGCAGATTGAAG
* * * * * * * *
224531 TTAT-TAATCTCTTACCCCGATCATGGGGCATATT-ACAGCCATCCAATCTCTTACTCTGATCAT
1 -CATCCAATCTCTTA-CCCTATCATAGGGCAGATTGA-AG-AATCCAATCTCTTACCCCGATCAT
***
224594 AAAGCAGATTGAAG
62 GGGGCAGATTGAAG
* * * *
224608 AATCCAATCTCTTACCCTAATCAGAGGGCAGGTTGAAGACAATTCAATCTCTTACCCCGATCATG
1 CATCCAATCTCTTACCCT-ATCATAGGGCAGATTGAAG--AATCCAATCTCTTACCCCGATCATG
* *
224673 GGGAAGATTAAAG
63 GGGCAGATTGAAG
* * *
224686 ACAATCCAATCTCTTACCCATATCATAGGGCAGATTGAAGAATTCAATCTCTTATCCCGATTATG
1 -C-ATCCAATCTCTTACCC-TATCATAGGGCAGATTGAAGAATCCAATCTCTTACCCCGATCATG
*
224751 GGACAGATTGAAG
63 GGGCAGATTGAAG
* * * * * * * * *
224764 CATCTAATCTTTTACCCTAGTTAGAAGGCAAATTGAAGACA-CATCAATTTCTTACCCCAATTAT
1 CATCCAATCTCTTACCCTA-TCATAGGGCAGATTGAAGA-ATC--CAATCTCTTACCCCGATCAT
* *
224828 AGGGCAGATTAAAG
62 GGGGCAGATTGAAG
* * * * ** *
224842 CATCCAATCTCTTACCCCGATCTTGGGGCAGATTAAAGAATCCAAT-TGCTTACCCTAATTA-GA
1 CATCCAATCTCTTA-CCCTATCATAGGGCAGATTGAAGAATCCAATCT-CTTACCCCGATCATG-
*
224905 GGGCAGATTGAATAT
63 GGGCAGATTG-A-AG
* * * * * *
224920 AATCCAATCTCTTATCCCGATCATGGGGCAAATTGAAGCATCCAATTTCTTACCCCGATCATGGG
1 CATCCAATCTCTTA-CCCTATCATAGGGCAGATTGAAGAATCCAATCTCTTACCCCGATCATGGG
224985 GCAGATTGAAG
65 GCAGATTGAAG
* * * * *
224996 AATTCAATATCTTACCCTAATCAGAGGGCAGATTGAAGATAATCCAATCTCTTATCCCGATCATG
1 CATCCAATCTCTTACCCT-ATCATAGGGCAGATTGAAG--AATCCAATCTCTTACCCCGATCATG
*
225061 GGGCAGATTAAAG
63 GGGCAGATTGAAG
* * **
225074 CATCCAATCTCGTACCCTAATCATAAGGC-GTATTGACATCATCCAATCTCTTACCCCGATCATG
1 CATCCAATCTCTTACCCT-ATCATAGGGCAG-ATTGA-AGAATCCAATCTCTTACCCCGATCATG
*
225138 GGGCAAATTGAAG
63 GGGCAGATTGAAG
* * * *
225151 CATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAAATCCAATCT
1 CATCCAATCTCTTA-CCCTATCATAGGGCAGATTGAAGAATCCAATCT
225199 AAACCCTAAC
Statistics
Matches: 601, Mismatches: 112, Indels: 75
0.76 0.14 0.10
Matches are distributed among these distances:
75 6 0.01
76 98 0.16
77 118 0.20
78 244 0.41
79 8 0.01
80 60 0.10
81 35 0.06
83 1 0.00
84 31 0.05
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (75 bp):
CATCCAATCTCTTACCCTATCATAGGGCAGATTGAAGAATCCAATCTCTTACCCCGATCATGGGG
CAGATTGAAG
Found at i:225097 original size:116 final size:115
Alignment explanation
Indices: 224370--225198 Score: 590
Period size: 116 Copynumber: 7.1 Consensus size: 115
224360 GTTACATCAC
** * * * * * ** *
224370 CATCCAATCTCTTACCCCAATCATAGGGCAAATTGCAGTCATCCAATCTCTTACCCTGATCATGA
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAG-AATTCAATCTCTTACCCCAATCATGG
* * * * * * *
224435 GGCAGATTGTAGCCATCATCCAATCTCTGACCTCGATCAT-GAGGTACATTGCAGCCAT
65 GGCAGATTGAAGACA--ATCCAATCTCTTACC-CGATCATAG-GGCAGATT--A--AAG
* * * *
224493 CATCCAATCTCTGACCTTGATCATGGGGCAGATTGAAGTTATT-AATCTCTTACCCCGATCATGG
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAG-AATTCAATCTCTTACCCCAATCATGG
* * * ** *
224557 GGCATATT-ACAG-CCATCCAATCTCTTACTCTGATCATAAAGCAGATTGAAG
65 GGCAGATTGA-AGACAATCCAATCTCTTAC-CCGATCATAGGGCAGATTAAAG
* * * *
224608 AATCCAATCTCTTACCCTAATCA-GAGGGCAGGTTGAAGACAATTCAATCTCTTACCCCGATCAT
1 CATCCAATCTCTTACCCTGATCATG-GGGCAGATTGAAG--AATTCAATCTCTTACCCCAATCAT
* * * *
224672 GGGGAAGATTAAAGACAATCCAATCTCTTACCCATATCATAGGGCAGATTGAAG
63 GGGGCAGATTGAAGACAATCCAATCTCTTACCC-GATCATAGGGCAGATTAAAG
* * * * * * * * *
224726 AATTCAATCTCTTATCCC-GATTATGGGACAGATTGAAGCA-TCTAATCTTTTACCCTAGTTA-G
1 CATCCAATCTCTTA-CCCTGATCATGGGGCAGATTGAAGAATTC-AATCTCTTACCCCAATCATG
* * * * *
224788 AAGGCAAATTGAAGACACAT-CAATTTCTTACCCCAATTATAGGGCAGATTAAAG
64 -GGGCAGATTGAAGACA-ATCCAATCTCTTA-CCCGATCATAGGGCAGATTAAAG
* * * * * *
224842 CATCCAATCTCTTACCCCGATCTTGGGGCAGATTAAAGAATCCAAT-TGCTTACCCTAATTA-GA
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGAATTCAATCT-CTTACCCCAATCATG-
* * * * *
224905 GGGCAGATTGAATATAATCCAATCTCTTATCCCGATCATGGGGCAAATTGAAG
64 GGGCAGATTGAAGACAATCCAATCTCTTA-CCCGATCATAGGGCAGATTAAAG
* * * *
224958 CATCCAATTTCTTACCCCGATCATGGGGCAGATTGAAGAATTCAATATCTTACCCTAATCA-GAG
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGAATTCAATCTCTTACCCCAATCATG-G
* *
225022 GGCAGATTGAAGATAATCCAATCTCTTATCCCGATCATGGGGCAGATTAAAG
65 GGCAGATTGAAGACAATCCAATCTCTTA-CCCGATCATAGGGCAGATTAAAG
* * ** ** * *
225074 CATCCAATCTCGTACCCTAATCATAAGGC-GTATTGACATCATCCAATCTCTTACCCCGATCATG
1 CATCCAATCTCTTACCCTGATCATGGGGCAG-ATTGA-AGAATTCAATCTCTTACCCCAATCATG
* * *
225138 GGGCAAATTGAAG-C-ATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
64 GGGCAGATTGAAGACAATCCAATCTCTTA-CCCGATCATAGGGCAGATTAAAG
*
225189 AATCCAATCT
1 CATCCAATCT
225199 AAACCCTAAC
Statistics
Matches: 581, Mismatches: 102, Indels: 54
0.79 0.14 0.07
Matches are distributed among these distances:
114 1 0.00
115 86 0.15
116 273 0.47
117 68 0.12
118 61 0.10
119 28 0.05
120 1 0.00
121 1 0.00
122 28 0.05
123 34 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (115 bp):
CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGAATTCAATCTCTTACCCCAATCATGGG
GCAGATTGAAGACAATCCAATCTCTTACCCGATCATAGGGCAGATTAAAG
Found at i:225561 original size:10 final size:11
Alignment explanation
Indices: 225540--225565 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
225530 TTAACCCACG
225540 AAAATACAAAA
1 AAAATACAAAA
225551 AAAATACAAAA
1 AAAATACAAAA
225562 AAAA
1 AAAA
225566 GGAGCATTGA
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:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:226470 original size:30 final size:30
Alignment explanation
Indices: 226436--226609 Score: 165
Period size: 30 Copynumber: 5.8 Consensus size: 30
226426 TATTTTATCC
* * *
226436 AAAAACTCAAATTTGACCCCCAAACTTTCT
1 AAAAATTCAATTTTGACCCTCAAACTTTCT
* * *
226466 AAAAATTCAATTTTGACCCTCGAACTATCA
1 AAAAATTCAATTTTGACCCTCAAACTTTCT
* *
226496 AAAAATTTAATTTTGACCCTCAAATTTTCT
1 AAAAATTCAATTTTGACCCTCAAACTTTCT
* * * *
226526 AAAAATT-ACTTTTTGCCCCCCAAAATTTCT
1 AAAAATTCA-ATTTTGACCCTCAAACTTTCT
* *
226556 AAAAATTTC-ATTTTGACCCTTAAACTTTTT
1 AAAAA-TTCAATTTTGACCCTCAAACTTTCT
*
226586 GAAAATT-ACATTTTGACCCTCAAA
1 AAAAATTCA-ATTTTGACCCTCAAA
226610 ATTTTCAAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
29 3 0.03
30 111 0.96
31 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAATTCAATTTTGACCCTCAAACTTTCT
Found at i:226591 original size:90 final size:90
Alignment explanation
Indices: 226447--226619 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 90
226437 AAAACTCAAA
* *
226447 TTTGACCCCCAAACTTTCTAAAAATTCAATTTTGACCCTCGAACTATCAAAAAATTTA-ATTTTG
1 TTTGACCCCCAAAATTTCTAAAAATTCAATTTTGACCCTCAAACTATCAAAAAA-TTACATTTTG
226511 ACCCTC-AAATTTTCTAAAAATTACTT
65 ACCCTCAAAATTTTC-AAAAATTACTT
* * * ***
226537 TTTGCCCCCCAAAATTTCTAAAAATTTC-ATTTTGACCCTTAAACTTTTTGAAAATTACATTTTG
1 TTTGACCCCCAAAATTTCTAAAAA-TTCAATTTTGACCCTCAAACTATCAAAAAATTACATTTTG
226601 ACCCTCAAAATTTTCAAAA
65 ACCCTCAAAATTTTCAAAA
226620 TTTTGATTGG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
89 3 0.04
90 58 0.81
91 11 0.15
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.38
Consensus pattern (90 bp):
TTTGACCCCCAAAATTTCTAAAAATTCAATTTTGACCCTCAAACTATCAAAAAATTACATTTTGA
CCCTCAAAATTTTCAAAAATTACTT
Found at i:226612 original size:60 final size:60
Alignment explanation
Indices: 226447--226622 Score: 196
Period size: 60 Copynumber: 3.0 Consensus size: 60
226437 AAAACTCAAA
* * * * * *
226447 TTTGACCCCCAAACTTTCTAAAAATT-CAATTTTGACCCTCGAACTATCAAAAAATTTAAT
1 TTTGACCCTCAAACTTTTTAAAAATTAC-ATTTTGACCCTCAAAATTTCTAAAAATTTAAT
* * * *
226507 TTTGACCCTCAAA-TTTTCTAAAAATTACTTTTTGCCCCCCAAAATTTCTAAAAATTTCAT
1 TTTGACCCTCAAACTTTT-TAAAAATTACATTTTGACCCTCAAAATTTCTAAAAATTTAAT
* * *
226567 TTTGACCCTTAAACTTTTTGAAAATTACATTTTGACCCTCAAAATTT-TCAAAATTT
1 TTTGACCCTCAAACTTTTTAAAAATTACATTTTGACCCTCAAAATTTCTAAAAATTT
226623 TGATTGGACC
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 11 0.11
60 81 0.84
61 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.39
Consensus pattern (60 bp):
TTTGACCCTCAAACTTTTTAAAAATTACATTTTGACCCTCAAAATTTCTAAAAATTTAAT
Found at i:227349 original size:109 final size:104
Alignment explanation
Indices: 227090--227374 Score: 259
Period size: 109 Copynumber: 2.7 Consensus size: 104
227080 TATTTCTTTA
* * * * * ** * * * *
227090 TTTAGGGAACTCGAAAAATTGTACTCAAACATACTGGGTACGATTTTTCTTTGAACTTAAGTAAT
1 TTTAGGGAACTCGAAAAATTATGCCCTAACGTGTTAGGTATGATTTTTGTTTGAACCTAAGTAAT
* * * *
227155 TGAATATCCTATTCAAAAATCGAGTCAATGTTCTTTTAT
66 TGAATATCCTATTCAAAAATCAAGTCAATATTATGTTAT
* ** * *
227194 TTTAGGGAAGTCGAGGAATTATGCCCTAACGTGTTAGGTATTATTTTTGTTTGAACCTAAATAAT
1 TTTAGGGAACTCGAAAAATTATGCCCTAACGTGTTAGGTATGATTTTTGTTTGAACCTAAGTAAT
*
227259 TGAATATCCTATTCGAAACCAATTAATGCTCAATATTATGTTAT
66 TGAATATCCTATTC-AAA--AATCAA-G-TCAATATTATGTTAT
* * * *
227303 TTTAGGGGACTCGAAAAATTGTGCCCTAGCGTGTT-GAGTATGA-TTTTGCCTTGAACCTAAGTA
1 TTTAGGGAACTCGAAAAATTATGCCCTAACGTGTTAG-GTATGATTTTTG-TTTGAACCTAAGTA
*
227366 ATCGAATAT
64 ATTGAATAT
227375 TTCGTTTAAA
Statistics
Matches: 143, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
104 63 0.44
105 3 0.02
107 4 0.03
108 7 0.05
109 66 0.46
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (104 bp):
TTTAGGGAACTCGAAAAATTATGCCCTAACGTGTTAGGTATGATTTTTGTTTGAACCTAAGTAAT
TGAATATCCTATTCAAAAATCAAGTCAATATTATGTTAT
Found at i:236495 original size:15 final size:14
Alignment explanation
Indices: 236458--236492 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
236448 TGTTTTATAT
* *
236458 AAAATAGTTTTTGA
1 AAAATAATTTTTAA
236472 AAAATAATTTTTAA
1 AAAATAATTTTTAA
236486 AAAATAA
1 AAAATAA
236493 ATTGATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:237740 original size:22 final size:22
Alignment explanation
Indices: 237714--237783 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
237704 TTTTTCACAC
237714 AAATTT-ATATCAATTTCTCTAT
1 AAATTTCA-ATCAATTTCTCTAT
* * *
237736 AAATTTCACTCAATTTCTTTTT
1 AAATTTCAATCAATTTCTCTAT
*
237758 AAATTTCACA-CAAATTTCTCTCT
1 AAATTTCA-ATC-AATTTCTCTAT
237781 AAA
1 AAA
237784 GCTCTCAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 26 0.67
23 13 0.33
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTTCAATCAATTTCTCTAT
Found at i:237963 original size:23 final size:23
Alignment explanation
Indices: 237919--237984 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 23
237909 GTAAGAGTTA
237919 ATTTTATTTTTTAATATTATTTAATT
1 ATTTTATTTTTT-ATA--ATTTAATT
237945 ATTTTATTTTTTATAATTTAATT
1 ATTTTATTTTTTATAATTTAATT
* *
237968 A--ATAATTTTTATAATTT
1 ATTTTATTTTTTATAATTT
237985 TTATGTGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 14 0.37
23 9 0.24
25 3 0.08
26 12 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTATTTTTTATAATTTAATT
Found at i:237969 original size:27 final size:26
Alignment explanation
Indices: 237917--237976 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
237907 TGGTAAGAGT
*
237917 TAATTTTATTTTTTAATATTATTTAA
1 TAATTTTATTTTTTAATATTAATTAA
*
237943 TTATTTTATTTTTT-ATAATTTAATTAA
1 TAATTTTATTTTTTAAT-A-TTAATTAA
237970 TAATTTT
1 TAATTTT
237977 TATAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 14 0.48
27 13 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TAATTTTATTTTTTAATATTAATTAA
Done.