Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 1 of 141
Found at i:229 original size:114 final size:114
Alignment explanation
Indices: 29--255 Score: 445
Period size: 114 Copynumber: 2.0 Consensus size: 114
19 CGGTGTAGAA
29 AGAACCCTAGCGGATGACGTTGAGAGCGTAGCGGCTGCTCCTGCACAAGGGACGCCACCTGTTGA
1 AGAACCCTAGCGGATGACGTTGAGAGCGTAGCGGCTGCTCCTGCACAAGGGACGCCACCTGTTGA
94 ACCTCAGTCATCTGCGAATAATCAAGGTGAGGGGGCTAAACAAGCCTTC
66 ACCTCAGTCATCTGCGAATAATCAAGGTGAGGGGGCTAAACAAGCCTTC
*
143 AGAACCCTAGCGGATGACGTTGAGAGCGTAGCGGCTGCTCCTGCACAAGGGACGCCGCCTGTTGA
1 AGAACCCTAGCGGATGACGTTGAGAGCGTAGCGGCTGCTCCTGCACAAGGGACGCCACCTGTTGA
208 ACCTCAGTCATCTGCGAATAATCAAGGTGAGGGGGCTAAACAAGCCTT
66 ACCTCAGTCATCTGCGAATAATCAAGGTGAGGGGGCTAAACAAGCCTT
256 TGTCAGTTAA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (114 bp):
AGAACCCTAGCGGATGACGTTGAGAGCGTAGCGGCTGCTCCTGCACAAGGGACGCCACCTGTTGA
ACCTCAGTCATCTGCGAATAATCAAGGTGAGGGGGCTAAACAAGCCTTC
Found at i:5019 original size:32 final size:32
Alignment explanation
Indices: 4978--5041 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
4968 TTATTAAGAC
4978 CATGATACATGGAAACATTTGAGTACACTAAG
1 CATGATACATGGAAACATTTGAGTACACTAAG
5010 CATGATACATGGAAACATTTGAGTACACTAAG
1 CATGATACATGGAAACATTTGAGTACACTAAG
5042 TATTTGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (32 bp):
CATGATACATGGAAACATTTGAGTACACTAAG
Found at i:20641 original size:20 final size:21
Alignment explanation
Indices: 20613--20651 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20603 TAAATTCCAA
20613 TTTAACCAAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
20633 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
20652 AAAGCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:27382 original size:84 final size:83
Alignment explanation
Indices: 27225--27403 Score: 261
Period size: 84 Copynumber: 2.1 Consensus size: 83
27215 AATTTGTTCG
* * * *
27225 GTAATACTTTGTAACCCTATTCTGGTTATGGATACGGGTTAGGGGTGTTACACGTGGCCTCTCTA
1 GTAA-ACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTA
*
27290 GTTCGGGGCACTCTAACTGT-
65 CTTCGGGGCACTCTAA-T-TC
27310 GTAAACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTAC
1 GTAAACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTAC
* *
27375 TTTGGGGCTCTCTAATTC
66 TTCGGGGCACTCTAATTC
27393 GTAAACTCTGT
1 GTAAACTCTGT
27404 CTGGACCTCC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
82 1 0.01
83 12 0.14
84 69 0.80
85 4 0.05
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (83 bp):
GTAAACTCTGTAACCCTATTCTAGTGATGGATACGAGTTAGGGGTGTTACACGTGGCCTCTCTAC
TTCGGGGCACTCTAATTC
Found at i:30481 original size:13 final size:13
Alignment explanation
Indices: 30463--30487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30453 CAAATACTAT
30463 AGCTAACATCTAC
1 AGCTAACATCTAC
30476 AGCTAACATCTA
1 AGCTAACATCTA
30488 ATTTATTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
AGCTAACATCTAC
Found at i:33183 original size:42 final size:42
Alignment explanation
Indices: 33075--33183 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
33065 ACGGCCTAAC
* *
33075 ACACGGCCTCA-CACACGACTGTGTGAGATTATTTTGAAGGGT
1 ACACGGCCT-AGCACACGAGTGTGTGAGATTATTTCGAAGGGT
* * *
33117 ACACGGCCTAGCACACGGGCGTGTGAGGTTATTTCGAAGGGT
1 ACACGGCCTAGCACACGAGTGTGTGAGATTATTTCGAAGGGT
* * *
33159 ACATGGCTTGGCACACGAGTGTGTG
1 ACACGGCCTAGCACACGAGTGTGTG
33184 GCTTGGCCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (42 bp):
ACACGGCCTAGCACACGAGTGTGTGAGATTATTTCGAAGGGT
Found at i:38601 original size:14 final size:15
Alignment explanation
Indices: 38582--38610 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38572 CTCTTTCGTT
38582 CTCTTTTCC-TCTTC
1 CTCTTTTCCTTCTTC
38596 CTCTTTTCCTTCTTC
1 CTCTTTTCCTTCTTC
38611 TTGCCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
CTCTTTTCCTTCTTC
Found at i:47340 original size:27 final size:27
Alignment explanation
Indices: 47310--47398 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
47300 TGAAGACCAA
* *
47310 CTCGCCAAGCCTACTTGCGAACACCTG
1 CTCGCCAAGCCTACTGGTGAACACCTG
47337 CTCGCCAAGCCTACTGGTGAACA-CTG
1 CTCGCCAAGCCTACTGGTGAACACCTG
*
47363 ACTCACCAAGCCTACTGGTGAAC-CCTTG
1 -CTCGCCAAGCCTACTGGTGAACACC-TG
47391 CTCGCCAA
1 CTCGCCAA
47399 TTCCATTGGC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.05
27 50 0.91
28 2 0.04
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (27 bp):
CTCGCCAAGCCTACTGGTGAACACCTG
Found at i:47448 original size:27 final size:27
Alignment explanation
Indices: 47418--47481 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
47408 CAAACCCCTA
47418 CTCACCAAGTCCACTAGCAAACACCAG
1 CTCACCAAGTCCACTAGCAAACACCAG
* ** * ** *
47445 CTCATCAAGTTTACTGGTGAACACTAG
1 CTCACCAAGTCCACTAGCAAACACCAG
47472 CTCACCAAGT
1 CTCACCAAGT
47482 TCAACTGGCG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (27 bp):
CTCACCAAGTCCACTAGCAAACACCAG
Found at i:49544 original size:14 final size:14
Alignment explanation
Indices: 49525--49551 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49515 AAAATGAATA
49525 AAATGACCAAATTC
1 AAATGACCAAATTC
49539 AAATGACCAAATT
1 AAATGACCAAATT
49552 TCGTTCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATGACCAAATTC
Found at i:51025 original size:26 final size:26
Alignment explanation
Indices: 50982--51051 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
50972 TTTTACATCG
* * *
50982 TTGCTCATAGGAGTTGTGAAATGGG-
1 TTGCTCACACGAGCTGTGAAATGGGC
51007 TCTGCTCACACGAGCTGTGAAATGGGC
1 T-TGCTCACACGAGCTGTGAAATGGGC
*
51034 TTGCTCACACGAGTTGTG
1 TTGCTCACACGAGCTGTG
51052 GGTCGAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 1 0.03
26 37 0.95
27 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (26 bp):
TTGCTCACACGAGCTGTGAAATGGGC
Found at i:51738 original size:12 final size:13
Alignment explanation
Indices: 51711--51739 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51701 ATTGGTAAAT
51711 TTATCAAAATTAC
1 TTATCAAAATTAC
51724 TTATCAAAA-TAC
1 TTATCAAAATTAC
51736 TTAT
1 TTAT
51740 AAATAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (13 bp):
TTATCAAAATTAC
Found at i:56506 original size:15 final size:15
Alignment explanation
Indices: 56474--56507 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56464 GTTCAACGAA
*
56474 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
56489 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
56504 GAGG
1 GAGG
56508 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:60261 original size:10 final size:10
Alignment explanation
Indices: 60246--60307 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
60236 TTTGAACCAT
*
60246 TACCAATTCG
1 TACCAATTCA
*
60256 TACCAAATACCA
1 TACC-AAT-TCA
*
60268 TACCATTTCA
1 TACCAATTCA
60278 TACCAATTCCA
1 TACCAATT-CA
* *
60289 TACCATTTCG
1 TACCAATTCA
60299 TACCAATTC
1 TACCAATTC
60308 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:60291 original size:21 final size:21
Alignment explanation
Indices: 60246--60308 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
60236 TTTGAACCAT
* *
60246 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
60268 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
60289 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
60309 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:66404 original size:41 final size:41
Alignment explanation
Indices: 66327--66510 Score: 206
Period size: 41 Copynumber: 4.5 Consensus size: 41
66317 GATTTGAAGT
** * * **
66327 TACCAAAGTGTAAACAAGGGCACGTATATGTTATTTAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
* * * *
66368 TATCGAAGTACAAACAGTGGCACGTATGTGCAATTTAGAGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
* * *
66409 TACCAAAGTACAAATAGGGGCACGTATGTGCTATTTAAGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
* * * *
66450 TACTAAAGTACAACCAGGGGCACATATGTGCAATTAAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
*
66491 TACCGAAGTACAAACAGGGG
1 TACCAAAGTACAAACAGGGG
66511 ATAATTCAAT
Statistics
Matches: 116, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 116 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (41 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
Found at i:74867 original size:114 final size:113
Alignment explanation
Indices: 74537--75314 Score: 587
Period size: 114 Copynumber: 6.9 Consensus size: 113
74527 AAAGAACATC
* * * * * *
74537 ATTAGCGGCGTTTACACCAAAGCGCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGA
1 ATTAGCGGCGCTTGCA--AAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGA
* * *
74602 TGTATACAAGAATTAGTGGCGCTTA-GGAGAAAACGCCGCTAAAGC---GT
64 GGTATACTAGAATTAGTGGCGCTTATAG-GAAAACGCCGCTAAAGCATAGT
* * * * * * * * ** *
74649 ATTAGCGGTGTTTTACGAGATGCACCTCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTG
1 ATTAGCGGCG-CTTGC-AAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAG-TTTTGGTCTTG
** * ** * *
74714 ATATATCCTAGAATTAGTGGCGCTTACCGGAAAATGCCGCTAACGCATAGT
63 AGGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAAGCATAGT
* * * ** *
74765 ATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAG-TCCGGTCTAGA
1 ATTAGCGGCGCTT-GC-AAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGA
** *
74829 GGTATGTTAGAATTAGTGGCGCTTATAGGAAAACGCCGC-AAACGGATAGT
64 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAA-GCATAGT
* ** * *
74879 ATTAGCGACGCTT--------GCCGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGAT
1 ATTAGCGGCGCTTGCAAAAGCGCCGCAAAATATCTT-AACTAAAACGCAGAGTTTTGGTCTTGAG
74935 GTATACTAGAATTAGTGGCG-TT-TACGGTAAAACGCCGCTAAAGCATAGT
65 GTATACTAGAATTAGTGGCGCTTATA-GG-AAAACGCCGCTAAAGCATAGT
* * * * *
74984 ATTAGCGGCGATTCTTTGC--TAGCGCTGTAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTT
1 ATTAGCGGCG---C-TTGCAAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTT
* * * * * *
75047 GATGTATACTAAAATTAGTGGCGCTTATGGGAAACCGCCACTAAAGAATAGT
62 GAGGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAAGCATAGT
* * * **
75099 ATTAGCGGCGCTTACTGAAAAGCG-CGACAAAATATCTTAACTAAAACACATAGTTTTAATCTTG
1 ATTAGCGGCGCTTGC--AAAAGCGCCG-CAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTG
* * * * *
75163 A-TTATACTATAATTAGTGGCACTTACTA-GAAAACGCCGTTAAATCATAGT
63 AGGTATACTAGAATTAGTGGCGCTTA-TAGGAAAACGCCGCTAAAGCATAGT
*
75213 ATTAGCGGCGCTTTGCAAAAAGCGCCGCAACATATCTTAAC-AAAACGCAGAG-TTTGGTCTTGA
1 ATTAGCGGCGC-TTGC-AAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGA
** * *
75276 GGTATGTTAAAATTAGTGGCGCTTATAAGAAAACGCCGC
64 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGC
75315 AAAATATCTG
Statistics
Matches: 532, Mismatches: 97, Indels: 73
0.76 0.14 0.10
Matches are distributed among these distances:
103 4 0.01
104 26 0.05
105 50 0.09
106 3 0.01
108 1 0.00
109 2 0.00
111 3 0.01
112 50 0.09
113 92 0.17
114 129 0.24
115 126 0.24
116 45 0.08
117 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (113 bp):
ATTAGCGGCGCTTGCAAAAGCGCCGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGAGG
TATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCTAAAGCATAGT
Found at i:74983 original size:105 final size:105
Alignment explanation
Indices: 74836--75111 Score: 290
Period size: 115 Copynumber: 2.5 Consensus size: 105
74826 AGAGGTATGT
* *
74836 TAGAATTAGTGGCGCTTATAGGAAAACGCCGC-AAACGGATAGTATTAGCGACGCTTGC-CGC-A
1 TAGAATTAGTGGCG-TT-TAGGAAAACGCCGCTAAA-GAATAGTATTAGCGGCGCTTGCACGCTA
* *
74898 AAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATAC
63 AAATATCCT-AACTAAAACGCAGCGTTTTGGTATTGATGTATAC
*
74941 TAGAATTAGTGGCGTTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTGCTAG
1 TAGAATTAGTGGCGTTTA-GG-AAAACGCCGCTAAAGAATAGTATTAGCGGCG---C-TTGC-A-
*
75006 CGCTGTAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATAC
58 CGC--TAAAATATCCTAACTAAAACGCAGCGTTTTGGTATTGATGTATAC
* * * *
75056 TAAAATTAGTGGCGCTTATGGGAAACCGCCACTAAAGAATAGTATTAGCGGCGCTT
1 TAGAATTAGTGGCG-TT-TAGGAAAACGCCGCTAAAGAATAGTATTAGCGGCGCTT
75112 ACTGAAAAGC
Statistics
Matches: 145, Mismatches: 10, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
103 2 0.01
104 4 0.03
105 39 0.27
106 3 0.02
108 1 0.01
109 4 0.03
111 2 0.01
112 4 0.03
115 80 0.55
116 5 0.03
117 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (105 bp):
TAGAATTAGTGGCGTTTAGGAAAACGCCGCTAAAGAATAGTATTAGCGGCGCTTGCACGCTAAAA
TATCCTAACTAAAACGCAGCGTTTTGGTATTGATGTATAC
Found at i:75099 original size:115 final size:113
Alignment explanation
Indices: 74894--75314 Score: 401
Period size: 115 Copynumber: 3.7 Consensus size: 113
74884 CGACGCTTGC
** * * *
74894 CGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGCGTTT
1 CGCAAAATATCTT-AACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
* * *
74958 ACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTGCTAGCG
65 ATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCG-TTCTTTGCAAGCG
* * *
75008 CTGTAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
1 C-GCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
* * * *
75073 ATGGGAAACCGCCACTAAAGAATAGTATTAGCGGCG--CTTACTGAAAAGCG
65 ATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTT--TG-CAAGCG
* * ** * *
75123 CGACAAAATATCTTAACTAAAACACATAGTTTTAATCTTGAT-TATACTATAATTAGTGGCACTT
1 CG-CAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
* * *
75187 ACT-AGAAAACGCCGTTAAATCATAGTATTAGCGGCG--CTTTGCAAAAAGCG
65 A-TGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTGC---AAGCG
* * **
75237 CCGCAACATATCTTAAC-AAAACGCAGAG-TTTGGTCTTGAGGTATGTTAAAATTAGTGGCGCTT
1 -CGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTT
**
75300 ATAAGAAAACGCCGC
65 ATGGGAAAACGCCGC
75315 AAAATATCTG
Statistics
Matches: 254, Mismatches: 40, Indels: 27
0.79 0.12 0.08
Matches are distributed among these distances:
112 15 0.06
113 39 0.15
114 73 0.29
115 126 0.50
116 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (113 bp):
CGCAAAATATCTTAACTAAAACGCAGAGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTA
TGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTTCTTTGCAAGCG
Found at i:75179 original size:334 final size:332
Alignment explanation
Indices: 74560--75225 Score: 717
Period size: 334 Copynumber: 2.0 Consensus size: 332
74550 ACACCAAAGC
* *
74560 GCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGATGTATACAAGAATTAGTGGCGCT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGCT
* *
74625 TAGGAGAAAACGCCGCTAAAGCGTATTAGCGGTGTTTTACGAGATGCACCTCAAAATATCTTAAC
66 TAGGAGAAAACGCCGCTAAAGCGTATTAGCGGCGTTTTACGAGATGCACCTCAAAATATCCTAAC
* * * * * *
74690 CAAAACGCATCGTTTTTGGTGTTGATATATCCTAGAATTAGTGGCGCTTACCGGAAAATGCCGCT
131 CAAAACGCAGCGTTTTTGGTCTTGATATATACTAAAATTAGTGGCGCTTACCGGAAAACGCCACT
* * *
74755 AACGCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTC
196 AAAGAATAGTATTAGCGGCGCTTGACAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTC
** ** *
74820 CGGTCTAGAGGTATGTTAGAATTAGTGGCGCTTA-TAGGAAAACGCCG-CAAA-CGGATAGTATT
261 CAATCTAGAGGTATACTAGAATTAGTGGCACTTACTA-GAAAACGCCGTCAAATC--ATAGTATT
74882 AGCGACGCTT
323 AGCGACGCTT
* * * * *
74892 GCCGCAAAATAT-TTGAACTAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGCGT
1 GCCGCAAAATATCTT-AACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGC
* * ** * *
74956 TTACGG-TAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTCTT-TGCTA-GC-GCTGTAAAAT
65 TTA-GGAGAAAACGCCGCTAAAGC---GTATTAGCGGCG-TT-TTACGAGATGCACCT-CAAAAT
* * **
75017 ATCCTAACTAAAACGCAGCG-TTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTATGGGAAA
123 ATCCTAACCAAAACGCAGCGTTTTTGGTCTTGATATATACTAAAATTAGTGGCGCTTACCGGAAA
* * * *
75081 CCGCCACTAAAGAATAGTATTAGCGGCGCTT-ACTGAAAAGCG-CGACAAAATATCTTAACTAAA
188 ACGCCACTAAAGAATAGTATTAGCGGCGCTTGAC-AAAAAGCGCCG-CAAAAGATCTTAACCAAA
* ** * * * *
75144 ACACATAGTTTTAATCTTGA-TTATACTATAATTAGTGGCACTTACTAGAAAACGCCGTTAAATC
251 ACACAGAG-TCCAATCTAGAGGTATACTAGAATTAGTGGCACTTACTAGAAAACGCCGTCAAATC
*
75208 ATAGTATTAGCGGCGCTT
315 ATAGTATTAGCGACGCTT
75226 TGCAAAAAGC
Statistics
Matches: 275, Mismatches: 45, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
331 2 0.01
332 73 0.27
333 5 0.02
334 142 0.52
335 46 0.17
336 5 0.02
337 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (332 bp):
GCCGCAAAATATCTTAACCAAAACGCAGCGTTTTCGTATTGATGTATACAAGAATTAGTGGCGCT
TAGGAGAAAACGCCGCTAAAGCGTATTAGCGGCGTTTTACGAGATGCACCTCAAAATATCCTAAC
CAAAACGCAGCGTTTTTGGTCTTGATATATACTAAAATTAGTGGCGCTTACCGGAAAACGCCACT
AAAGAATAGTATTAGCGGCGCTTGACAAAAAGCGCCGCAAAAGATCTTAACCAAAACACAGAGTC
CAATCTAGAGGTATACTAGAATTAGTGGCACTTACTAGAAAACGCCGTCAAATCATAGTATTAGC
GACGCTT
Found at i:75373 original size:76 final size:75
Alignment explanation
Indices: 75230--75460 Score: 209
Period size: 84 Copynumber: 2.9 Consensus size: 75
75220 GCGCTTTGCA
* * * *
75230 AAAAGCGCCGCAACATATCTTAA-CAAAACGCAGAG-TTTGGTCTTGAGGTAT-GTTAAAATTAG
1 AAAA-CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTC-TGATGTATACTT-AAATTAG
75292 TGGCGCTTA-TAAG
63 TGGCGCTTACT-AG
* * *
75305 AAAACGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTG
1 AAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCT-GATGTATACTTAAATTAGTG
*
75370 GCGCTTACGTTG
65 GCGCTTAC-TAG
* * *
75382 AAACGTCGCCAAAACGCAAAATACCTTAACCAAAACGCAGCGTTTTGGTCGTGATGTATACTAAA
1 AAA--ACG-C----CGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTC-TGATGTATACTTAA
75447 ATTAGTGGCGCTTA
58 ATTAGTGGCGCTTA
75461 GGGTAAACCG
Statistics
Matches: 128, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
74 16 0.12
75 15 0.12
76 28 0.22
77 6 0.05
78 1 0.01
79 2 0.02
80 1 0.01
84 58 0.45
85 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (75 bp):
AAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTGATGTATACTTAAATTAGTGG
CGCTTACTAG
Found at i:75866 original size:7 final size:7
Alignment explanation
Indices: 75854--75905 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
75844 TTGGTGTCTT
75854 GGGTTTA
1 GGGTTTA
75861 GGGTTTA
1 GGGTTTA
*
75868 GTAGTTTA
1 G-GGTTTA
75876 GGGTTTA
1 GGGTTTA
* *
75883 AGGTTTG
1 GGGTTTA
*
75890 GGGTCTA
1 GGGTTTA
*
75897 AGGTTTA
1 GGGTTTA
75904 GG
1 GG
75906 CCGTTTTAGT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:76874 original size:23 final size:23
Alignment explanation
Indices: 76846--76967 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
76836 CTCCACTCTG
*
76846 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCCAATTTCATTTCCCCA
*
76869 ATTT-CCC-ATTTCCTATTCCCCCA
1 ATTTCCCCAATTT-C-ATTTCCCCA
* * *
76892 ACTTCCCCGATTTCATTTCCCAA
1 ATTTCCCCAATTTCATTTCCCCA
* *
76915 ATTT-CCCAATTCCTTTTCCCCCA
1 ATTTCCCCAATTTCATTT-CCCCA
*
76938 ATTTCCCCGATTTCATTTCCCCA
1 ATTTCCCCAATTTCATTTCCCCA
76961 ATTTCCC
1 ATTTCCC
76968 AAGACCTGTC
Statistics
Matches: 80, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
21 4 0.05
22 14 0.17
23 44 0.55
24 14 0.17
25 4 0.05
ACGTcount: A:0.19, C:0.40, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTCCCCAATTTCATTTCCCCA
Found at i:76905 original size:46 final size:46
Alignment explanation
Indices: 76848--76969 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
76838 CCACTCTGAT
* * *
76848 TTCCCCAATTTCATTTCCCTAATTTCCCATTTCCTATTCCCCCAAC
1 TTCCCCGATTTCATTTCCCAAATTTCCCAATTCCTATTCCCCCAAC
* *
76894 TTCCCCGATTTCATTTCCCAAATTTCCCAATTCCTTTTCCCCCAAT
1 TTCCCCGATTTCATTTCCCAAATTTCCCAATTCCTATTCCCCCAAC
*
76940 TTCCCCGATTTCATTTCCCCAATTTCCCAA
1 TTCCCCGATTTCATTTCCCAAATTTCCCAA
76970 GACCTGTCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.20, C:0.40, G:0.02, T:0.39
Consensus pattern (46 bp):
TTCCCCGATTTCATTTCCCAAATTTCCCAATTCCTATTCCCCCAAC
Found at i:77138 original size:13 final size:12
Alignment explanation
Indices: 77105--77138 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
77095 GGTCAGATTC
*
77105 TTTTGTTGGCAT
1 TTTTGTTGTCAT
77117 TTTTGTTGTCAT
1 TTTTGTTGTCAT
77129 TTTTGCTTGT
1 TTTTG-TTGT
77139 TCCGTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.06, C:0.09, G:0.21, T:0.65
Consensus pattern (12 bp):
TTTTGTTGTCAT
Found at i:78171 original size:21 final size:21
Alignment explanation
Indices: 78141--78180 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
78131 TACAATGCAT
*
78141 GGTTTTGAGTGTAAGGTTTCG
1 GGTTTAGAGTGTAAGGTTTCG
78162 GGTTTAGAGTGTAAGGTTT
1 GGTTTAGAGTGTAAGGTTT
78181 GCAGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (21 bp):
GGTTTAGAGTGTAAGGTTTCG
Found at i:78187 original size:21 final size:21
Alignment explanation
Indices: 78142--78189 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
78132 ACAATGCATG
* *
78142 GTTTTGAGTGTAAGGTTTCGG
1 GTTTAGAGTGTAAGGTTTCGA
78163 GTTTAGAGTGTAAGGTTT-GCA
1 GTTTAGAGTGTAAGGTTTCG-A
78184 GTTTAG
1 GTTTAG
78190 GGTTTAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.42
Consensus pattern (21 bp):
GTTTAGAGTGTAAGGTTTCGA
Found at i:78228 original size:29 final size:30
Alignment explanation
Indices: 78153--78233 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
78143 TTTTGAGTGT
* * *
78153 AAGGTTTCGGGTTTAGA-GTGTAAGGTTTG
1 AAGGTTACGGGTTTAGAGGTGTAAAGTTTA
* *
78182 CAGTTTA-GGGTTTAAGAGGT-TAAAGTTTA
1 AAGGTTACGGGTTT-AGAGGTGTAAAGTTTA
78211 AAGGTTACGGGTTTAGA-GTGTAA
1 AAGGTTACGGGTTTAGAGGTGTAA
78234 GGTTAGGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
28 8 0.20
29 25 0.61
30 8 0.20
ACGTcount: A:0.27, C:0.04, G:0.33, T:0.36
Consensus pattern (30 bp):
AAGGTTACGGGTTTAGAGGTGTAAAGTTTA
Found at i:79013 original size:23 final size:22
Alignment explanation
Indices: 78985--79052 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
78975 CTCCACTCTG
*
78985 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCC-ATTTCATTTCCCCA
*
79008 ATTT-CCCATTTCCTATTCCCCCA
1 ATTTCCCCATTT-C-ATTTCCCCA
*
79031 ACTTCCCCGATTTCATTTCCCC
1 ATTTCCCC-ATTTCATTTCCCC
79053 TCAATTCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 21 0.57
24 4 0.11
25 4 0.11
ACGTcount: A:0.18, C:0.41, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTTCCCCATTTCATTTCCCCA
Found at i:80593 original size:15 final size:15
Alignment explanation
Indices: 80569--80601 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
80559 AAGGTTTCTA
*
80569 TATTAGTATTAAATT
1 TATTACTATTAAATT
80584 TATTACTATTAAATT
1 TATTACTATTAAATT
80599 TAT
1 TAT
80602 AAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:80803 original size:9 final size:9
Alignment explanation
Indices: 80758--81044 Score: 189
Period size: 9 Copynumber: 33.4 Consensus size: 9
80748 ATAATTATAT
*
80758 ATAAGCTTAT
1 ATAA-CTTAC
*
80768 ATATCTTAC
1 ATAACTTAC
80777 ATAA--TAC
1 ATAACTTAC
80784 ATAAC-TAC
1 ATAACTTAC
*
80792 ATAACATAC
1 ATAACTTAC
80801 ATAA--TAC
1 ATAACTTAC
*
80808 AGAACTTAC
1 ATAACTTAC
80817 ATAA-TAATAC
1 ATAACT--TAC
* *
80827 ATACCGTAC
1 ATAACTTAC
* *
80836 ATAAATTAA
1 ATAACTTAC
*
80845 ATAAGTTAC
1 ATAACTTAC
80854 ATAA--TAC
1 ATAACTTAC
***
80861 A-AAAAAAC
1 ATAACTTAC
*
80869 AAAAAACTTAC
1 --ATAACTTAC
80880 ATAACTTAC
1 ATAACTTAC
80889 ATAA--TAC
1 ATAACTTAC
* *
80896 ACAACTGAC
1 ATAACTTAC
80905 ATAACTTAC
1 ATAACTTAC
80914 ATAA--TAC
1 ATAACTTAC
*
80921 ACAACTTAC
1 ATAACTTAC
80930 ATAACTTAC
1 ATAACTTAC
80939 ATAA--TAC
1 ATAACTTAC
*
80946 ATAATTTAC
1 ATAACTTAC
80955 ATAACTTAC
1 ATAACTTAC
*
80964 ATAA--GAC
1 ATAACTTAC
80971 ATAACTTAC
1 ATAACTTAC
* *
80980 ATAAGTTTC
1 ATAACTTAC
80989 ATAA--TAC
1 ATAACTTAC
*
80996 ACAACTTAC
1 ATAACTTAC
*
81005 ACAACTTAC
1 ATAACTTAC
81014 ATAACTTAC
1 ATAACTTAC
*
81023 ACAACTTAC
1 ATAACTTAC
81032 ATAACTTAC
1 ATAACTTAC
81041 ATAA
1 ATAA
81045 TAAATAACTT
Statistics
Matches: 221, Mismatches: 34, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
6 2 0.01
7 47 0.21
8 11 0.05
9 147 0.67
10 10 0.05
11 4 0.02
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (9 bp):
ATAACTTAC
Found at i:80836 original size:19 final size:19
Alignment explanation
Indices: 80795--80839 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
80785 TAACTACATA
*
80795 ACATACATAATACAGAACTT
1 ACATA-ATAATACAGAACGT
* *
80815 ACATAATAATACATACCGT
1 ACATAATAATACAGAACGT
80834 ACATAA
1 ACATAA
80840 ATTAAATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.24
Consensus pattern (19 bp):
ACATAATAATACAGAACGT
Found at i:80906 original size:25 final size:25
Alignment explanation
Indices: 80873--81055 Score: 258
Period size: 25 Copynumber: 7.2 Consensus size: 25
80863 AAAAACAAAA
80873 AACTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
80898 AACTGACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
80923 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
* * *
80948 AATTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAC
* *
80973 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAC
*
80998 AACTTACACAACTTACATAACTTACAC
1 AACTTACATAACTTACATAA--TACAC
* *
81025 AACTTACATAACTTACATAATAAAT
1 AACTTACATAACTTACATAATACAC
81050 AACTTA
1 AACTTA
81056 TTCCTAAATC
Statistics
Matches: 140, Mismatches: 16, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
25 116 0.83
27 24 0.17
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:81053 original size:16 final size:17
Alignment explanation
Indices: 80781--81055 Score: 158
Period size: 16 Copynumber: 16.1 Consensus size: 17
80771 TCTTACATAA
*
80781 TACATAACTACATAACA
1 TACATAACTACATAACT
*
80798 TACATAA-TACAGAACT
1 TACATAACTACATAACT
* * *
80814 TACATAATAATACATACCG
1 TACAT-A-ACTACATAACT
* * *
80833 TACATAAATTAAATAAGT
1 TACAT-AACTACATAACT
**
80851 TACATAA-TACA-AAAA
1 TACATAACTACATAACT
* *
80866 AACAAAAAACTTACATAACT
1 TAC--ATAAC-TACATAACT
*
80886 TACATAA-TACACAACT
1 TACATAACTACATAACT
*
80902 GACATAACTTACATAA--
1 TACATAAC-TACATAACT
*
80918 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
80936 TACATAA-TACATAATT
1 TACATAACTACATAACT
80952 TACATAACTTACATAA--
1 TACATAAC-TACATAACT
* *
80968 GACATAACTTACATAAGT
1 TACATAAC-TACATAACT
* *
80986 TTCATAA-TACACAACT
1 TACATAACTACATAACT
*
81002 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
81020 TACACAACTTACATAACT
1 TACATAAC-TACATAACT
*
81038 TACATAA-TAAATAACT
1 TACATAACTACATAACT
81054 TA
1 TA
81056 TTCCTAAATC
Statistics
Matches: 204, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
15 4 0.02
16 95 0.47
17 13 0.06
18 71 0.35
19 17 0.08
20 4 0.02
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.28
Consensus pattern (17 bp):
TACATAACTACATAACT
Found at i:81055 original size:34 final size:35
Alignment explanation
Indices: 80877--81055 Score: 153
Period size: 34 Copynumber: 5.3 Consensus size: 35
80867 ACAAAAAACT
* * *
80877 TACATAACTTACATAA--TACACAACTGACATAAC
1 TACATAACTTACACAACTTACATAACTTACATAAC
80910 TTACATAA--TACACAACTTACATAACTTACATAA-
1 -TACATAACTTACACAACTTACATAACTTACATAAC
* * *
80943 TACATAATTTACATAACTTACATAA--GACATAAC
1 TACATAACTTACACAACTTACATAACTTACATAAC
* * * * *
80976 TTACATAAGTTTCATAA--TACACAACTTACACAAC
1 -TACATAACTTACACAACTTACATAACTTACATAAC
81010 TTACATAACTTACACAACTTACATAACTTACATAA-
1 -TACATAACTTACACAACTTACATAACTTACATAAC
*
81045 TAAATAACTTA
1 TACATAACTTA
81056 TTCCTAAATC
Statistics
Matches: 119, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
32 25 0.21
34 80 0.67
36 14 0.12
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (35 bp):
TACATAACTTACACAACTTACATAACTTACATAAC
Found at i:84463 original size:40 final size:40
Alignment explanation
Indices: 84365--84707 Score: 424
Period size: 40 Copynumber: 8.6 Consensus size: 40
84355 TCCTCGTTCA
* * * * *
84365 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
84404 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
84444 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
84484 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
84524 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
84564 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
84604 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
84644 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
84684 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
84708 CAGCATTCAA
Statistics
Matches: 275, Mismatches: 23, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
39 39 0.14
40 224 0.81
41 12 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:84716 original size:41 final size:41
Alignment explanation
Indices: 84639--84716 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
84629 TTTGTATCTC
* * *
84639 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
84680 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
84717 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:86181 original size:21 final size:21
Alignment explanation
Indices: 86156--86224 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
86146 CAACTTAAAA
*
86156 CAGAGGCAGCAGCGAGGGAAG
1 CAGAGGCAGCAGCGAGAGAAG
* *
86177 CAGAGCCTGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
86198 CAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
86219 CAGAGG
1 CAGAGG
86225 TTCAAAAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.43, T:0.01
Consensus pattern (21 bp):
CAGAGGCAGCAGCGAGAGAAG
Found at i:86779 original size:43 final size:43
Alignment explanation
Indices: 86682--86971 Score: 345
Period size: 43 Copynumber: 6.8 Consensus size: 43
86672 AGCACTACTT
* * * *
86682 TTAGCGGCGTTTTTTACC-AAGCGCCGCTATAGAACATTA-CTT
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATC-A
** * * * * *
86724 TTAGCGATGTTTTTTT-CTAAACGCCGTTAAAGATCATGTTTCT
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATG-ATCA
* *
86767 TTAGCGGCG-TTTTCTCCCAAGCGCCGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
86809 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
*
86852 TTAGCGGCGTTTTTTTCCTGAGCGCCGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* * *
86895 TTAGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* * *
86938 TTAGCAGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 TTAGCGGCGTTTTTTTC-CTAAGCGCCGCTAAAG
86972 TTAGCGACGT
Statistics
Matches: 213, Mismatches: 29, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
41 1 0.00
42 44 0.21
43 154 0.72
44 14 0.07
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
Found at i:87494 original size:22 final size:22
Alignment explanation
Indices: 87458--87516 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
87448 GGCTCGGCCC
87458 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATACCAAAA
**
87480 ATTTATTTTAAAAAT-TTAAAA
1 ATTTATTTTAAAAATACCAAAA
**
87501 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
87517 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 17 0.55
22 8 0.26
23 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTATTTTAAAAATACCAAAA
Found at i:87540 original size:28 final size:29
Alignment explanation
Indices: 87508--87564 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
87498 AAAAAGTATT
* *
87508 TTAAAAATATTTTAAAAA-TGTTTTAAAA
1 TTAAAAAAATTTTAAAAAGTATTTTAAAA
87536 TTAAAAAAATTTTAAAAAGTATTTTAAAA
1 TTAAAAAAATTTTAAAAAGTATTTTAAAA
87565 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAAAAAAATTTTAAAAAGTATTTTAAAA
Found at i:87559 original size:12 final size:11
Alignment explanation
Indices: 87483--87575 Score: 92
Period size: 11 Copynumber: 8.9 Consensus size: 11
87473 ACCAAAAATT
87483 TATTTT-AAAA
1 TATTTTAAAAA
*
87493 -ATTTAAAAAA
1 TATTTTAAAAA
87503 GTATTTTAAAAA
1 -TATTTTAAAAA
87515 TATTTTAAAAA
1 TATTTTAAAAA
*
87526 TGTTTT--AAA
1 TATTTTAAAAA
87535 -A--TTAAAAA
1 TATTTTAAAAA
*
87543 AATTTTAAAAA
1 TATTTTAAAAA
87554 GTATTTTAAAAA
1 -TATTTTAAAAA
87566 TATTTTAAAA
1 TATTTTAAAA
87576 TTAAAAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
6 2 0.03
8 3 0.04
9 8 0.12
10 4 0.06
11 33 0.48
12 19 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:87593 original size:51 final size:51
Alignment explanation
Indices: 87489--87635 Score: 145
Period size: 51 Copynumber: 3.1 Consensus size: 51
87479 AATTTATTTT
* **
87489 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAATGTTTTAAAATT-AA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAA-GTTAAAAAATTAAA
87540 AAAAATTTTAAAAAGTATTTTAAAAATATTTT-AAAA-TTAAAAAA-T--A
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAAGTTAAAAAATTAAA
* * * *
87586 ATAAA----AAAAAGTATTTTAAAAATATTTT-ATAATTTAAAAAATTTAA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAAGTTAAAAAATTAAA
87632 AAAA
1 AAAA
87636 TAAATATATT
Statistics
Matches: 86, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
42 26 0.30
43 8 0.09
44 1 0.01
46 9 0.10
47 1 0.01
48 6 0.07
50 4 0.05
51 31 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (51 bp):
AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAAAGTTAAAAAATTAAA
Found at i:87608 original size:42 final size:42
Alignment explanation
Indices: 87510--87635 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
87500 AAAGTATTTT
* ***
87510 AAAAA-TATTTTAAAAATGTTTTAAAATT-AAAAA-AATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
87549 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
* *
87591 AAAAAGTATTTTAAAAATATTTTATAATTTAAAAAAT-TTAAA
1 AAAAAGTATTTTAAAAATATTTTA-AAATTAAAAAATAATAAA
87633 AAA
1 AAA
87636 TAAATATATT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
39 5 0.06
40 22 0.29
41 5 0.06
42 34 0.44
43 11 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (42 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATAAA
Found at i:92883 original size:81 final size:81
Alignment explanation
Indices: 92748--92974 Score: 418
Period size: 81 Copynumber: 2.8 Consensus size: 81
92738 GCGTTGTGTG
92748 ATAGAATCTGACGTTTAAGCATACCCACCTACTTGGGCAAACTATATTATTCACCCAATTATAAA
1 ATAGAATCTGACGTTTAAGCATACCCACCTACTTGGGCAAACTATATTATTCACCCAATTATAAA
92813 CTATACTATTATTGTA
66 CTATACTATTATTGTA
92829 ATAGAATCTGACGTTTAAGCATACCCACCTACTTGGGCAAACTATATTATTCACCCAATTATAAA
1 ATAGAATCTGACGTTTAAGCATACCCACCTACTTGGGCAAACTATATTATTCACCCAATTATAAA
92894 CTATACTATTATTGTA
66 CTATACTATTATTGTA
*
92910 ATAGAATCTGACGTTTAAGCATACCCACCTACTTGGGTAAACTATACTATTATTCACCCAATTAT
1 ATAGAATCTGACGTTTAAGCATACCCACCTACTTGGGCAAAC--TA-TATTATTCACCCAATTAT
92975 TAGTATATTT
Statistics
Matches: 142, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
81 122 0.86
83 2 0.01
84 18 0.13
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (81 bp):
ATAGAATCTGACGTTTAAGCATACCCACCTACTTGGGCAAACTATATTATTCACCCAATTATAAA
CTATACTATTATTGTA
Found at i:94533 original size:2 final size:2
Alignment explanation
Indices: 94526--94574 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
94516 TGCATCAACT
* *
94526 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AT AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
94568 AC AC AC A
1 AC AC AC A
94575 TACCATACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.45, G:0.00, T:0.04
Consensus pattern (2 bp):
AC
Found at i:94575 original size:10 final size:10
Alignment explanation
Indices: 94525--94586 Score: 72
Period size: 10 Copynumber: 6.3 Consensus size: 10
94515 ATGCATCAAC
94525 TACACACACA
1 TACACACACA
*
94535 CACACACACA
1 TACACACACA
*
94545 CACACACACA
1 TACACACACA
* *
94555 CACACATACA
1 TACACACACA
94565 TACACACACA
1 TACACACACA
*
94575 TAC-CATACA
1 TACACACACA
94584 TAC
1 TAC
94587 CACTAACTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
9 8 0.17
10 39 0.83
ACGTcount: A:0.48, C:0.42, G:0.00, T:0.10
Consensus pattern (10 bp):
TACACACACA
Found at i:94775 original size:26 final size:26
Alignment explanation
Indices: 94746--94803 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
94736 GACCTGATTA
*
94746 ACCTAATCAGAGTGTTGGGTGTTACT
1 ACCTAATCAGAGTATTGGGTGTTACT
* *
94772 ACCTAATCCGAGTATTGGGTGTTGCT
1 ACCTAATCAGAGTATTGGGTGTTACT
*
94798 CCCTAA
1 ACCTAA
94804 AAAAATGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (26 bp):
ACCTAATCAGAGTATTGGGTGTTACT
Found at i:96111 original size:15 final size:15
Alignment explanation
Indices: 96088--96118 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96078 ATGTGTTTAA
*
96088 TGTTGTTTAACTTAT
1 TGTTATTTAACTTAT
96103 TGTTATTTAACTTAT
1 TGTTATTTAACTTAT
96118 T
1 T
96119 ATAAGACCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (15 bp):
TGTTATTTAACTTAT
Found at i:97289 original size:29 final size:29
Alignment explanation
Indices: 97257--97359 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 29
97247 ACAGAATCAG
*
97257 CCACAATGGCTCACATATAACATACTTCA
1 CCACAAAGGCTCACATATAACATACTTCA
* * * **
97286 CCACAAAGG--CGCATTTGACA-AAATCA
1 CCACAAAGGCTCACATATAACATACTTCA
* * *
97312 GCCACAAGGGCTCACATATATCATACTTCC
1 -CCACAAAGGCTCACATATAACATACTTCA
* *
97342 CCACAAAGACTCTCATAT
1 CCACAAAGGCTCACATAT
97360 CACGGATATC
Statistics
Matches: 53, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
26 4 0.08
27 16 0.30
29 30 0.57
30 3 0.06
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.21
Consensus pattern (29 bp):
CCACAAAGGCTCACATATAACATACTTCA
Found at i:97311 original size:56 final size:56
Alignment explanation
Indices: 97229--97349 Score: 179
Period size: 56 Copynumber: 2.2 Consensus size: 56
97219 TAGATAGATA
* * * *
97229 ACCATAAAGGTGCATTTAACAGAATCAGCCACAATGGCTCACATATAACATACTTC
1 ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
* *
97285 ACCACAAAGGCGCATTTGACAAAATCAGCCACAAGGGCTCACATATATCATACTTC
1 ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
*
97341 CCCACAAAG
1 ACCACAAAG
97350 ACTCTCATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (56 bp):
ACCACAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
Found at i:106001 original size:16 final size:16
Alignment explanation
Indices: 105980--106011 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
105970 GTTTTGTTGC
*
105980 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
105996 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
106012 CTTTCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:106297 original size:51 final size:50
Alignment explanation
Indices: 106239--106482 Score: 357
Period size: 50 Copynumber: 4.8 Consensus size: 50
106229 CCGGTTCACA
106239 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT-TCCGATACACG
* * * *
106290 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCTGGTACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTTCCGATACACG
106340 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT-TCCGATACACG
* * *
106391 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCCGGTACACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTTCCGATACACG
* *
106441 TAGTAACCTGCACATAGTACTACACACGTGACCATCACTTCC
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTCC
106483 ACTTTCACAT
Statistics
Matches: 174, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
49 8 0.05
50 84 0.48
51 74 0.43
52 8 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTCCGATACACG
Found at i:106374 original size:101 final size:101
Alignment explanation
Indices: 106229--106479 Score: 457
Period size: 101 Copynumber: 2.5 Consensus size: 101
106219 ATTAATAATA
*
106229 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
106294 AGCCTGCACATAGTACTACACATGCGACCTATCATT
66 AGCCTGCACATAGTACTACACATGCGACCTATCATT
*
106330 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
106395 AGCCTGCACATAGTACTACACATGCGACCTATCATT
66 AGCCTGCACATAGTACTACACATGCGACCTATCATT
* * *
106431 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
106480 TCCACTTTCA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 144 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (101 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACTACACATGCGACCTATCATT
Found at i:106531 original size:101 final size:99
Alignment explanation
Indices: 106229--106509 Score: 359
Period size: 101 Copynumber: 2.8 Consensus size: 99
106219 ATTAATAATA
* * * *
106229 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAACCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACATAGT
* *
106294 AGCCTGCACATAGTACTACACATGCGACCTATCATT
66 AGCCTACACACAGTACTACACAT--GACCTATCATT
* * * *
106330 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTACACATAGTAACCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACATAGT
* *
106395 AGCCTGCACATAGTACTACACATGCGACCTATCATT
66 AGCCTACACACAGTACTACACAT--GACCTATCATT
* *
106431 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT-TCC-ACTTTCACATA
1 CCGGTACACATAGTAACCTGCACATAGTACTACACACGTGACCATCACTATCCGA--TACACATA
*
106494 GTGGCCTACACACAGT
64 GTAGCCTACACACAGT
106510 CCATGCCACA
Statistics
Matches: 167, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 3 0.02
101 163 0.98
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (99 bp):
CCGGTACACATAGTAACCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACATAGT
AGCCTACACACAGTACTACACATGACCTATCATT
Found at i:116291 original size:52 final size:50
Alignment explanation
Indices: 116171--116293 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 50
116161 ATATTTAATG
* *
116171 AAGTCATGTATTATGTAACTCTCACGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCACGTTAGTTAAGTTTGCATCATAAATT
* * *
116221 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCACGTTAGTT-AAGTTTGCATCA-TAAATT
*
116273 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
116294 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 27 0.43
51 12 0.19
52 24 0.38
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCACGTTAGTTAAGTTTGCATCATAAATT
Found at i:118499 original size:18 final size:18
Alignment explanation
Indices: 118447--118502 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
118437 AGTTGATAAT
*
118447 GAAAGAAAATGAGCGAAAAA
1 GAAA-AAAATGAGAG-AAAA
* *
118467 TAAAAGAAAT-TGAGAAAA
1 GAAAA-AAATGAGAGAAAA
118485 GAAAAAAATGAGAGAAAA
1 GAAAAAAATGAGAGAAAA
118503 ATAAATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
19 3 0.10
20 7 0.24
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.09
Consensus pattern (18 bp):
GAAAAAAATGAGAGAAAA
Found at i:120577 original size:50 final size:52
Alignment explanation
Indices: 120505--120603 Score: 159
Period size: 50 Copynumber: 1.9 Consensus size: 52
120495 TTAATAAAGT
*
120505 CATGCATTATGTATCTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTATCTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
120555 CATGCATTATGTAAT-TCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
1 CATGCATTATGT-ATCTCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
120604 AGTCATGTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
50 24 0.53
51 14 0.31
52 7 0.16
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (52 bp):
CATGCATTATGTATCTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
Found at i:122166 original size:18 final size:18
Alignment explanation
Indices: 122139--122173 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
122129 ACATAACATG
*
122139 ATTTCCATGTATCTCATC
1 ATTTCAATGTATCTCATC
*
122157 ATTTCAATGTATTTCAT
1 ATTTCAATGTATCTCAT
122174 GTATACCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTTCAATGTATCTCATC
Found at i:122389 original size:27 final size:25
Alignment explanation
Indices: 122323--122389 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
122313 ATGTACATAT
*
122323 ATGCTCACATGAGCTATGAATAAGT
1 ATGCTCACATGAGCTATGAATAAGC
122348 ATGCTCACACT-AGCTATGAA-AATGGGC
1 ATGCTCACA-TGAGCTATGAATAA---GC
*
122375 CTGCTCACATGAGCT
1 ATGCTCACATGAGCT
122390 GTAGGTCGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 2 0.06
25 18 0.51
26 2 0.06
27 13 0.37
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (25 bp):
ATGCTCACATGAGCTATGAATAAGC
Found at i:126568 original size:27 final size:27
Alignment explanation
Indices: 126530--126584 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
126520 TCCTTCCTAG
126530 TTGCCTTGTTAAGCTTGCAATAGTCTA
1 TTGCCTTGTTAAGCTTGCAATAGTCTA
*
126557 TTGCCTTGTTAAGCTTGCGATAGTCTA
1 TTGCCTTGTTAAGCTTGCAATAGTCTA
126584 T
1 T
126585 GCATACTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
TTGCCTTGTTAAGCTTGCAATAGTCTA
Found at i:126759 original size:15 final size:15
Alignment explanation
Indices: 126735--126765 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126725 CATCAAGCCA
*
126735 CTTGATAACTTCTTT
1 CTTGACAACTTCTTT
126750 CTTGACAACTTCTTT
1 CTTGACAACTTCTTT
126765 C
1 C
126766 ATGATCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.48
Consensus pattern (15 bp):
CTTGACAACTTCTTT
Found at i:127110 original size:50 final size:49
Alignment explanation
Indices: 126986--127382 Score: 353
Period size: 50 Copynumber: 7.9 Consensus size: 49
126976 AAATATAACA
* * * * ** * * * *
126986 TGCCAAAGCTATGTCCGAGACATAGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAG
* * * * * ** *
127035 TGCCAATGCCATATCCAAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTA-G
* * ** *
127085 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TAG
* *
127135 AGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AG
* * *
127185 TGCCAACACCGTGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TAG
* * *
127235 TGCCAATGCCCTGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AG
* *
127285 TGGCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-G
*** *
127340 ATGCCAATTTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
127383 TTACCCAAAT
Statistics
Matches: 284, Mismatches: 53, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.13
50 202 0.71
51 2 0.01
53 4 0.01
54 1 0.00
55 1 0.00
56 36 0.13
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAG
Found at i:127160 original size:100 final size:100
Alignment explanation
Indices: 127036--127374 Score: 403
Period size: 100 Copynumber: 3.3 Consensus size: 100
127026 TTCTTGTACT
* * * ** * * *
127036 GCCAATGCCATATCCAAGATATGGTCTTACATGAGAGTTCTCATAT-AGGTGCCCATGCCATGTC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA-GTGCCAACGCCATGTC
**
127100 CCAGACATGGTCTTACGGGGGACCTCTCATCTTGGA
65 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGA
* * * * *
127136 GCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCAGTGCCAACACCGTGTCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
*
127201 CAGACATGGTCTTACATGGGACCTCTCATCTTGGT
66 CAGACATGGTCTTACATGGGACCTCTCATCTTGGA
* * *
127236 GCCAATGCCCTGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGGCAACGCCATGTAC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
127301 CAGACATGGTCTTACATGGGACCTCTCATAATCTCAAT-GA
66 CAGACATGGTCTTACATGGGACCTCTC---ATCT---TGGA
**
127341 TGCCAATTTCATGTCCCAGACATGGTCTTACATG
1 -GCCAATGCCATGTCCCAGACATGGTCTTACATG
127375 GGATCTCTTT
Statistics
Matches: 203, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
100 166 0.82
101 1 0.00
103 4 0.02
105 1 0.00
106 31 0.15
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (100 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
CAGACATGGTCTTACATGGGACCTCTCATCTTGGA
Found at i:127237 original size:150 final size:154
Alignment explanation
Indices: 127056--127382 Score: 419
Period size: 150 Copynumber: 2.1 Consensus size: 154
127046 TATCCAAGAT
* ** * * *
127056 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
** * *
127121 ACCTCTCATCTTGGAGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTC-ATCTC-A
66 ACCTCTCATCTCAGAGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCAATCTCAA
*
127184 -G-TGCCAACACCGTGTCCCAGAC
131 TGATGCCAACACCATGTCCCAGAC
* * * *
127206 ATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGCCCTGTCCCAGACATGGTCTTACATGAG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
* *
127271 ACCTCTCATCTCAGTGGCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCATAATCTC
66 ACCTCTCATCTCAGAGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTC--AATCTC
***
127336 AATGATGCCAATTTCATGTCCCAGAC
129 AATGATGCCAACACCATGTCCCAGAC
*
127362 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
127383 TTACCCAAAT
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
150 106 0.71
153 5 0.03
154 1 0.01
155 1 0.01
156 37 0.25
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (154 bp):
ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAG
ACCTCTCATCTCAGAGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCAATCTCAA
TGATGCCAACACCATGTCCCAGAC
Found at i:133025 original size:29 final size:29
Alignment explanation
Indices: 132992--133051 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
132982 GATTCAAAAG
132992 TAGTATGTTCATGTGCACTTAGCTTACCT
1 TAGTATGTTCATGTGCACTTAGCTTACCT
133021 TAGTATGTTCATGTGCACTTAGCTTACCT
1 TAGTATGTTCATGTGCACTTAGCTTACCT
133050 TA
1 TA
133052 TGATAATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
TAGTATGTTCATGTGCACTTAGCTTACCT
Found at i:137166 original size:22 final size:21
Alignment explanation
Indices: 137142--137181 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
137132 TTCAAGAACA
*
137142 AAAATTCTTTTACTAGGGACG
1 AAAATTCCTTTACTAGGGACG
137163 AAAATTCCTTTACTAGGGA
1 AAAATTCCTTTACTAGGGA
137182 GGGTTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAATTCCTTTACTAGGGACG
Found at i:141029 original size:40 final size:40
Alignment explanation
Indices: 140952--141044 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
140942 TTGACCACAT
** *
140952 TACTGGTAGCTTTTCTACATTACTAACAGTTTATCTGCAA
1 TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
* ** * *
140992 TACTGGTCGCTTGGCTACATTACTGGCAGCTTGTCTGCAG
1 TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
* *
141032 TTCTGGTGGCTTG
1 TACTGGTAGCTTG
141045 TCCACAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (40 bp):
TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
Found at i:146181 original size:6 final size:6
Alignment explanation
Indices: 146170--146205 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
146160 GTTGAAATTA
146170 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
1 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
146206 TCCTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
ATGCAG
Found at i:146894 original size:24 final size:24
Alignment explanation
Indices: 146854--146908 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
146844 TTATTAAATT
*
146854 ATATATTTTAATTATAATATAT-TTA
1 ATATA-TTTAATAATAAT-TATGTTA
146879 ATATATTTAATAATAATTATGTTA
1 ATATATTTAATAATAATTATGTTA
*
146903 AAATAT
1 ATATAT
146909 GATTAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 19 0.70
25 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATATATTTAATAATAATTATGTTA
Found at i:147132 original size:45 final size:44
Alignment explanation
Indices: 147044--147138 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
147034 TTACACCTCT
*
147044 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
* *** *
147088 ATTACATTCAATCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
147133 ATTACA
1 ATTACA
147139 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.43
45 25 0.57
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:147138 original size:16 final size:16
Alignment explanation
Indices: 147119--147170 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
147109 GATTTGCTAT
* *
147119 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
147135 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
147151 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
147167 TACA
1 TACA
147171 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:150159 original size:18 final size:19
Alignment explanation
Indices: 150136--150172 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
150126 TAAGTGCACT
150136 TTAATTATTTTTT-GACAA
1 TTAATTATTTTTTCGACAA
150154 TTAATTATTTTTTCGACAA
1 TTAATTATTTTTTCGACAA
150173 GAATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (19 bp):
TTAATTATTTTTTCGACAA
Found at i:150177 original size:18 final size:18
Alignment explanation
Indices: 150138--150177 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
150128 AGTGCACTTT
*
150138 AATTATTTTTTGACAATT
1 AATTATTTTTTGACAATG
150156 AATTATTTTTTCGACAA-G
1 AATTATTTTTT-GACAATG
150174 AATT
1 AATT
150178 TTATTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (18 bp):
AATTATTTTTTGACAATG
Found at i:151923 original size:11 final size:11
Alignment explanation
Indices: 151900--151929 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
151890 TTTAGTTATG
151900 TTTTCTT-ACA
1 TTTTCTTAACA
151910 TTTTCTTAACA
1 TTTTCTTAACA
151921 TTTTCTTAA
1 TTTTCTTAA
151930 ACTCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCTTAACA
Found at i:154557 original size:12 final size:12
Alignment explanation
Indices: 154540--154569 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
154530 CCCGAACTCG
154540 AATATCAACCTA
1 AATATCAACCTA
154552 AATATCAACCTA
1 AATATCAACCTA
154564 ATATAT
1 A-ATAT
154570 AGAAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (12 bp):
AATATCAACCTA
Found at i:156892 original size:13 final size:13
Alignment explanation
Indices: 156876--156901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
156866 ATACTTTAAA
156876 AACACATTCATTC
1 AACACATTCATTC
156889 AACACATTCATTC
1 AACACATTCATTC
156902 CAAATACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
AACACATTCATTC
Found at i:158926 original size:29 final size:29
Alignment explanation
Indices: 158884--159142 Score: 205
Period size: 29 Copynumber: 8.9 Consensus size: 29
158874 GTGTGCTAAA
* * *
158884 CGATGGTCGTAACCGTCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
158913 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TAAT
** *
158943 CGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
158972 TGATGGTC-ATCACCATCCTTTTTCATAAT
1 CGATGGTCGA-AACCATCCCTTTTCATAAT
* * * *
159001 CGATAGCCGAAACTATCCCTTTCCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* ** * *
159030 CGATCGTCGAGGCTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
** **
159059 CGATGGTCGTCACCATCCCTTTTCATTGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * ** *
159088 TGATAGTCGTCACCATCCCTCTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * * * *
159117 CAATAGCCGAAGCTATCCCTTTTCAT
1 CGATGGTCGAAACCATCCCTTTTCAT
159143 TGGTCGATGA
Statistics
Matches: 184, Mismatches: 43, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
29 157 0.85
30 27 0.15
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:159064 original size:87 final size:87
Alignment explanation
Indices: 158884--159157 Score: 275
Period size: 87 Copynumber: 3.1 Consensus size: 87
158874 GTGTGCTAAA
* * * * *
158884 CGATGGTCGTAACCGTCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGG
1 CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCC-TTTCA-TAATCGATAG
* *
158949 TCGTCA-CCATCCCTTTTCATAGTT
64 TCG-AAGCTATCCCTTTTCATAGTT
* * * * *
158973 -GATGGTCATCACCATCCTTTTTCATAATCGATAGCCGAAACTATCCCTTTCCATAATCGATCGT
1 CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCCTTT-CATAATCGATAGT
*
159037 CGAGGCTATCCCTTTTCATA-TT
65 CGAAGCTATCCCTTTTCATAGTT
** * ** * *
159059 CGATGGTCGTCACCATCCCTTTTCATTGTTGATAGTCGTCACCATCCCTCTTCATAATCAATAGC
1 CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCCT-TTCATAATCGATAGT
* *
159124 CGAAGCTATCCCTTTTCATTGGT
65 CGAAGCTATCCCTTTTCATAGTT
*
159147 CGATGATCGTC
1 CGATGGTCGTC
159158 GATACGCTGT
Statistics
Matches: 152, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
86 2 0.01
87 96 0.63
88 54 0.36
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (87 bp):
CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCCTTTCATAATCGATAGTC
GAAGCTATCCCTTTTCATAGTT
Found at i:165003 original size:20 final size:20
Alignment explanation
Indices: 164978--165015 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
164968 CCATTGGTGG
164978 CTTGTCTACATTACTGGCTA
1 CTTGTCTACATTACTGGCTA
164998 CTTGTCTACATTACTGGC
1 CTTGTCTACATTACTGGC
165016 AGTTTATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.39
Consensus pattern (20 bp):
CTTGTCTACATTACTGGCTA
Found at i:165032 original size:20 final size:20
Alignment explanation
Indices: 165009--165075 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
164999 TTGTCTACAT
*
165009 TACTGGCAGTTTATCTGCAA
1 TACTGGTAGTTTATCTGCAA
* * ** *
165029 TACTGGTAGCTTGTCTATAG
1 TACTGGTAGTTTATCTGCAA
*
165049 TACTGGTAGTTTATCTGCAT
1 TACTGGTAGTTTATCTGCAA
165069 TACTGGT
1 TACTGGT
165076 GGCTTGATCA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (20 bp):
TACTGGTAGTTTATCTGCAA
Found at i:165044 original size:40 final size:40
Alignment explanation
Indices: 164986--165123 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
164976 GGCTTGTCTA
*
164986 CATTACTGGCTA-CTTGTCTACATTACTGGCAGTTTATCTG
1 CATTACTGG-TAGCTTGTCTATATTACTGGCAGTTTATCTG
* * *
165026 CAATACTGGTAGCTTGTCTATAGTACTGGTAGTTTATCTG
1 CATTACTGGTAGCTTGTCTATATTACTGGCAGTTTATCTG
* *
165066 CATTACTGGTGGCTTGATC-ATATTATTGGCAGCTTT-TCTG
1 CATTACTGGTAGCTTG-TCTATATTACTGGCAG-TTTATCTG
* *
165106 CATTTCTGGTGGCTTGTC
1 CATTACTGGTAGCTTGTC
165124 CACAAATTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 76 0.89
41 5 0.06
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (40 bp):
CATTACTGGTAGCTTGTCTATATTACTGGCAGTTTATCTG
Found at i:167906 original size:40 final size:40
Alignment explanation
Indices: 167844--167923 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
167834 AACTATTGTA
* *
167844 TGAATGCACATACATGCACCTATTTATACTTCGGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCAGTACCCC
* * *
167884 TGAATGCACATACTTGCCCCTATTCGTACTTCAGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCAGTACCCC
167924 GAACACTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACATGCACCTATTCATACTTCAGTACCCC
Found at i:170129 original size:25 final size:25
Alignment explanation
Indices: 170101--170148 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
170091 TCTCCACTAA
* * *
170101 ATTTAGTTTATATACCTTAATTAAG
1 ATTTAATTAATATAACTTAATTAAG
*
170126 ATTTAATTAATCTAACTTAATTA
1 ATTTAATTAATATAACTTAATTA
170149 GCTTAATCGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (25 bp):
ATTTAATTAATATAACTTAATTAAG
Found at i:173157 original size:24 final size:24
Alignment explanation
Indices: 173130--173253 Score: 97
Period size: 24 Copynumber: 5.2 Consensus size: 24
173120 TTTACTACAA
*
173130 TATTAAGTGGCTTGGCCACAACGC
1 TATTGAGTGGCTTGGCCACAACGC
* *
173154 TATTGAGTGGCTTGTCCACAACGT
1 TATTGAGTGGCTTGGCCACAACGC
* ** **
173178 TATTGTGTGGCTTGAACACAACAA
1 TATTGAGTGGCTTGGCCACAACGC
** ** *
173202 TGCTGAGTGGCTTTTCCACAATG-
1 TATTGAGTGGCTTGGCCACAACGC
* *
173225 TGATTGAGTGGCTTGACTACAACGC
1 T-ATTGAGTGGCTTGGCCACAACGC
173250 TATT
1 TATT
173254 AAGTTCTAAC
Statistics
Matches: 76, Mismatches: 22, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
23 1 0.01
24 74 0.97
25 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (24 bp):
TATTGAGTGGCTTGGCCACAACGC
Found at i:177274 original size:27 final size:25
Alignment explanation
Indices: 177211--177279 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
177201 TGTACATATA
*
177211 TGCTCACACGAGCTATGAATAAGTG
1 TGCTCACACGAGCTATGAATAAGTC
177236 TGCTCACACGAGCTATGAA-AATGGGTC
1 TGCTCACACGAGCTATGAATAA---GTC
177263 TGCTCACACGAGCTATG
1 TGCTCACACGAGCTATG
177280 GGTCGGAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.47
27 19 0.47
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (25 bp):
TGCTCACACGAGCTATGAATAAGTC
Found at i:177744 original size:29 final size:29
Alignment explanation
Indices: 177701--177759 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
177691 TCATTCAATC
*
177701 TATTAATTTAGATAGTAAAACAATGTATT
1 TATTAATTTAGATAGTAAAACAACGTATT
*
177730 TATTAATTTATATAGTAAAACAACGTATT
1 TATTAATTTAGATAGTAAAACAACGTATT
177759 T
1 T
177760 TATGCAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (29 bp):
TATTAATTTAGATAGTAAAACAACGTATT
Found at i:179878 original size:24 final size:24
Alignment explanation
Indices: 179752--179869 Score: 119
Period size: 24 Copynumber: 4.9 Consensus size: 24
179742 TGTAGGTTGG
*
179752 CCACAATGCTATTGAGTGGCTTGT
1 CCACAATGCTATTGAGTGGCTTGA
*** * *
179776 CCACAACATTATTGTGTGACTTGA
1 CCACAATGCTATTGAGTGGCTTGA
* * * **
179800 TCACAACGCTACTGAGTGGCTTTT
1 CCACAATGCTATTGAGTGGCTTGA
* *
179824 CCACAATGTTATTAAGTGGCTTGA
1 CCACAATGCTATTGAGTGGCTTGA
179848 CCACAATGCTATTGAGTGGCTT
1 CCACAATGCTATTGAGTGGCTT
179870 TGGCACAATT
Statistics
Matches: 71, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (24 bp):
CCACAATGCTATTGAGTGGCTTGA
Found at i:179884 original size:24 final size:24
Alignment explanation
Indices: 179751--179886 Score: 98
Period size: 24 Copynumber: 5.7 Consensus size: 24
179741 ATGTAGGTTG
*
179751 GCCACAATGCTATTGAGTGGC-TT
1 GCCACAATGTTATTGAGTGGCTTT
** * *
179774 GTCCACAACATTATTGTGTGAC-TT
1 G-CCACAATGTTATTGAGTGGCTTT
* * * *
179798 GATCACAACGCTACTGAGTGGCTTT
1 G-CCACAATGTTATTGAGTGGCTTT
* *
179823 TCCACAATGTTATTAAGTGGC-TT
1 GCCACAATGTTATTGAGTGGCTTT
*
179846 GACCACAATGCTATTGAGTGGCTTT
1 G-CCACAATGTTATTGAGTGGCTTT
* *
179871 GGCACAATTTTATTGA
1 GCCACAATGTTATTGA
179887 CTGGTTTCAC
Statistics
Matches: 85, Mismatches: 24, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.91
25 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (24 bp):
GCCACAATGTTATTGAGTGGCTTT
Found at i:179899 original size:48 final size:48
Alignment explanation
Indices: 179752--179901 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 48
179742 TGTAGGTTGG
* * *
179752 CCACAATGCTATTGAGTGGC-TTGTCCACAACATTATTGTGTGACTTGA
1 CCACAATGCTATTGAGTGGCTTTG-CCACAATATTATTGAGTGGCTTGA
* * * * * *
179800 TCACAACGCTACTGAGTGGCTTTTCCACAATGTTATTAAGTGGCTTGA
1 CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
* * * * *
179848 CCACAATGCTATTGAGTGGCTTTGGCACAATTTTATTGACTGGTTTCA
1 CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
179896 CCACAA
1 CCACAA
179902 CGAGTAGCTT
Statistics
Matches: 82, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 80 0.98
49 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (48 bp):
CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
Found at i:183213 original size:148 final size:148
Alignment explanation
Indices: 182961--183237 Score: 410
Period size: 148 Copynumber: 1.9 Consensus size: 148
182951 AGCTAACGAA
* *
182961 AAATAATTTTCCCAGCTACCTTCGAACTCAATTACGCAAAACTATAACATATCTTCCAGAATCTG
1 AAATAATTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
* *
183026 TATTACTCGTTCAGACTAGCCATTCATTTGTGAATGAAAGGCGGTATTGAAATTCAATCTGGAGT
66 TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAGT
183091 GCAAACTCAGCTAACAGC
131 GCAAACTCAGCTAACAGC
* * * * * * *
183109 AAATACTTTTCCCAGCTACCTTTGAACTCAGTTACATAACACCATAACATATCTTTCAGGATCTG
1 AAATAATTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
* * * * *
183174 TATTACTTGTTCAGAATGGCTATTCATTTGTGGATGAAAGGAGGTTTTGAAATTCAATCTGGAG
66 TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAG
183238 CCCAAAGCCT
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
148 113 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (148 bp):
AAATAATTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAGT
GCAAACTCAGCTAACAGC
Found at i:187912 original size:19 final size:20
Alignment explanation
Indices: 187887--187930 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
187877 AAACCATACT
187887 TCATACTTGCAAACAAGCTA
1 TCATACTTGCAAACAAGCTA
*
187907 -CATACTTGCATACAAGCTA
1 TCATACTTGCAAACAAGCTA
187926 TCATA
1 TCATA
187931 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (20 bp):
TCATACTTGCAAACAAGCTA
Found at i:189769 original size:13 final size:13
Alignment explanation
Indices: 189751--189775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
189741 AGTTACGATG
189751 GCGACAGCAATGT
1 GCGACAGCAATGT
189764 GCGACAGCAATG
1 GCGACAGCAATG
189776 GTGGAGTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.32, T:0.12
Consensus pattern (13 bp):
GCGACAGCAATGT
Found at i:192844 original size:50 final size:50
Alignment explanation
Indices: 192731--192925 Score: 201
Period size: 50 Copynumber: 3.8 Consensus size: 50
192721 ATTTGGGTAA
* *
192731 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* **
192787 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
192837 AGCGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
192887 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
192926 TCAGTACAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 74 0.64
53 3 0.03
55 1 0.01
56 38 0.33
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:193193 original size:12 final size:12
Alignment explanation
Indices: 193176--193214 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
193166 ATGAGTTATT
193176 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
193188 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
193200 TAAGTGAGTAAG
1 TAAGTAAGCAAG
193212 TAA
1 TAA
193215 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:199250 original size:39 final size:39
Alignment explanation
Indices: 199206--199284 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
199196 ATATGGTAAG
* *
199206 TATGAATTAAATGTGGCGTTGTTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
*
199245 TATGAATTAAATATGGTGTTGCTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
199284 T
1 T
199285 CAAGTCAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.42
Consensus pattern (39 bp):
TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
Found at i:200328 original size:36 final size:37
Alignment explanation
Indices: 200281--200358 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
200271 AAATATATAT
200281 ATTTTATTTTTA-TTTTTTAATTTTAATTTTAAAATA
1 ATTTTATTTTTATTTTTTTAATTTTAATTTTAAAATA
* *
200317 ATTTTATTTTTATTTTTTTATTTTTATTTTTAAAATA
1 ATTTTATTTTTATTTTTTTAATTTTAATTTTAAAATA
200354 ATTTT
1 ATTTT
200359 TAATGTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 12 0.31
37 27 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (37 bp):
ATTTTATTTTTATTTTTTTAATTTTAATTTTAAAATA
Found at i:200337 original size:14 final size:14
Alignment explanation
Indices: 200318--200347 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
200308 TTTAAAATAA
200318 TTTTATTTTTATTT
1 TTTTATTTTTATTT
200332 TTTTATTTTTATTT
1 TTTTATTTTTATTT
200346 TT
1 TT
200348 AAAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:200358 original size:25 final size:25
Alignment explanation
Indices: 200330--200378 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
200320 TTATTTTTAT
* * *
200330 TTTTTTATTTTTATTTTTAAAATAA
1 TTTTTAATGTTTATTTTAAAAATAA
200355 TTTTTAATGTTTATTTTAAAAATA
1 TTTTTAATGTTTATTTTAAAAATA
200379 GGCCGCGCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTAATGTTTATTTTAAAAATAA
Found at i:201772 original size:326 final size:326
Alignment explanation
Indices: 201179--201832 Score: 1308
Period size: 326 Copynumber: 2.0 Consensus size: 326
201169 AAAGTAACTC
201179 TTGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAA
1 TTGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAA
201244 AGAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAA
66 AGAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAA
201309 AAGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAG
131 AAGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAG
201374 TTGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAA
196 TTGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAA
201439 CTCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATT
261 CTCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATT
201504 T
326 T
201505 TTGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAA
1 TTGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAA
201570 AGAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAA
66 AGAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAA
201635 AAGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAG
131 AAGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAG
201700 TTGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAA
196 TTGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAA
201765 CTCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATT
261 CTCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATT
201830 T
326 T
201831 TT
1 TT
201833 AATTGAAGTT
Statistics
Matches: 328, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 328 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (326 bp):
TTGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAA
AGAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAA
AAGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAG
TTGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAA
CTCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATT
T
Found at i:204273 original size:22 final size:22
Alignment explanation
Indices: 204233--204290 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
204223 GTCATATTAA
*
204233 TAAATTTTAAA-ATATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
204254 TAAATTTTAAATGTATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
* *
204276 GACATTTTAACATGT
1 TAAATTTTAA-ATGT
204291 GTTTTTCCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 11 0.34
22 17 0.53
23 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATTTTAAATGTATAAAAAT
Found at i:210692 original size:22 final size:23
Alignment explanation
Indices: 210665--210709 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
210655 AGGTATCTAC
*
210665 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
210687 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
210710 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:210714 original size:22 final size:22
Alignment explanation
Indices: 210662--210719 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
210652 AAAAGGTATC
* *
210662 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
210683 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
210706 TACATATCATATCT
1 TACAAATCATATCT
210720 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:216415 original size:27 final size:27
Alignment explanation
Indices: 216385--216436 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
216375 GTTAATAAAA
216385 TTCTCTTTGAGTTTTCTTTT-GAAGAAT
1 TTCTC-TTGAGTTTTCTTTTAGAAGAAT
216412 TTCTCTTGAGTTTTCTTTTAGAAGA
1 TTCTCTTGAGTTTTCTTTTAGAAGA
216437 GTTTTAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.19, C:0.12, G:0.15, T:0.54
Consensus pattern (27 bp):
TTCTCTTGAGTTTTCTTTTAGAAGAAT
Found at i:218762 original size:26 final size:26
Alignment explanation
Indices: 218693--218763 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
218683 CATTCTAACC
**
218693 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCATACCCATTT
* * *
218719 CATAGCTCGTGTGAGCATACTCTTTT
1 CACAGCTCGTGTGAGCATACCCATTT
218745 CACAGCTCGTGTGAGCATA
1 CACAGCTCGTGTGAGCATA
218764 TATGTAAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATACCCATTT
Found at i:222956 original size:27 final size:27
Alignment explanation
Indices: 222926--222987 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
222916 ACCTAAATCC
222926 AAATGTAAAAACCTTACAGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
* **
222953 AAATATAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
222980 AAATGTAA
1 AAATGTAA
222988 CACTTACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTACAGTTTCATTA
Found at i:223838 original size:19 final size:19
Alignment explanation
Indices: 223814--223906 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
223804 AATAAATTAC
*
223814 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
223833 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * *
223852 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTAAGT
* *
223868 TCATCTAAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
223887 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
223906 T
1 T
223907 GTTGGAATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 7 0.12
19 39 0.68
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:223961 original size:54 final size:54
Alignment explanation
Indices: 223795--223943 Score: 253
Period size: 54 Copynumber: 2.8 Consensus size: 54
223785 ATAAGTATTT
*
223795 AGTTCCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* *
223849 AGTTGCTAGAATAAATTACTCATCTAAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* *
223903 AGTTGTTGGAATAAATTACTCATCTTAGTTAATTAAGTTCA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCA
223944 ACCTAGTTCA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
Found at i:225283 original size:17 final size:18
Alignment explanation
Indices: 225251--225284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
225241 GTGCATAGTT
225251 TTTTGTGGCTTTCTATTC
1 TTTTGTGGCTTTCTATTC
*
225269 TTTTGTGTC-TTCTATT
1 TTTTGTGGCTTTCTATT
225285 GGCTAGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.65
Consensus pattern (18 bp):
TTTTGTGGCTTTCTATTC
Found at i:234028 original size:36 final size:35
Alignment explanation
Indices: 233925--234049 Score: 115
Period size: 36 Copynumber: 3.5 Consensus size: 35
233915 CCCTCTTCTA
* * ** *
233925 GTGTGTTTCGGTTGGACTAGTTCTTCGGAGCAACT
1 GTGTGTTTCGGGTGGACTAGCTCTTATGAGCATCT
* *
233960 GGTGTGTTATCGGGTGGACTGGCTCGTATGAGCATCT
1 -GTGTGTT-TCGGGTGGACTAGCTCTTATGAGCATCT
* * *
233997 CGTGTGTTTTGGGTGGATTAGCTCTTTTGAGCATCT
1 -GTGTGTTTCGGGTGGACTAGCTCTTATGAGCATCT
*
234033 GTTGTGTTTCGGTTGGA
1 G-TGTGTTTCGGGTGGA
234050 ATATCATTGT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
35 1 0.01
36 43 0.60
37 28 0.39
ACGTcount: A:0.12, C:0.14, G:0.34, T:0.39
Consensus pattern (35 bp):
GTGTGTTTCGGGTGGACTAGCTCTTATGAGCATCT
Found at i:240395 original size:21 final size:21
Alignment explanation
Indices: 240371--240413 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
240361 AAATGGTAAG
240371 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
240392 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
240413 A
1 A
240414 CTTCTCCTAT
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:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAAACATTTCTTCATTTTT
Found at i:243944 original size:18 final size:18
Alignment explanation
Indices: 243921--243955 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
243911 AAACTAACTC
243921 AGTTTTCCTCAGCCACAG
1 AGTTTTCCTCAGCCACAG
243939 AGTTTTCCTCAGCCACA
1 AGTTTTCCTCAGCCACA
243956 AATGTGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (18 bp):
AGTTTTCCTCAGCCACAG
Found at i:247571 original size:23 final size:23
Alignment explanation
Indices: 247540--247590 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
247530 ACCTACTTTC
* *
247540 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
247563 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
247586 TTACA
1 TTACA
247591 TTTGTCTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:253496 original size:40 final size:39
Alignment explanation
Indices: 253465--253674 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
253455 GGACTAAGAT
* *
253465 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
253505 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
253545 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
253585 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
253625 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
253664 CCGAAGGCATT
1 CCGAAGGCATT
253675 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:253628 original size:120 final size:120
Alignment explanation
Indices: 253412--253674 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
253402 TTGAATGCTG
* *
253412 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
253476 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
253532 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
253595 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
253651 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
253675 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:253694 original size:79 final size:80
Alignment explanation
Indices: 253413--253709 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
253403 TGAATGCTGT
* ** * * * **
253413 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
253476 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
253493 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
253557 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
253573 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
253637 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
253652 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
253710 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:261442 original size:40 final size:39
Alignment explanation
Indices: 261411--261620 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
261401 GGACTAAGAT
* *
261411 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
261451 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
261491 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
261531 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
261571 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
261610 CCGAAGGCATT
1 CCGAAGGCATT
261621 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:261574 original size:120 final size:120
Alignment explanation
Indices: 261358--261620 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
261348 TTGAATGCTG
* *
261358 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
261422 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
261478 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
261541 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
261597 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
261621 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:261640 original size:79 final size:80
Alignment explanation
Indices: 261359--261655 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
261349 TGAATGCTGT
* ** * * * **
261359 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
261422 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
261439 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
261503 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
261519 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
261583 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
261598 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
261656 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:265521 original size:17 final size:17
Alignment explanation
Indices: 265499--265531 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
265489 TATTTTATTC
*
265499 TTATTTAATTGTTAAAA
1 TTATTTAATTATTAAAA
265516 TTATTTAATTATTAAA
1 TTATTTAATTATTAAA
265532 CTATTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTATTTAATTATTAAAA
Done.