Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008240.1 Hibiscus syriacus cultivar Beakdansim tig00110888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 893855
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:761732 original size:273 final size:272
Alignment explanation
Indices: 761232--761776 Score: 1065
Period size: 273 Copynumber: 2.0 Consensus size: 272
761222 AAAGATTGGG
761232 TTTCACTCTTCAGAATTTACAGGAACATGATATAGTGTGCGTGTCTCCTGGTTAGCTTTTGTGGA
1 TTTCACTCTTCAGAATTTACAGGAACATGATATAGTGTGCGTGTCTCCTGGTTAGCTTTTGTGGA
761297 TGTGTTATATAAATGCGGGGATTCCGATTGGGTAACCCTATTAGGGTTATGGGGTGGAGTAGGTT
66 TGTGTTATATAAATGCGGGGATTCCGATTGGGTAACCCTATTAGGGTTATGGGGTGGAGTAGGTT
761362 ATGCGCCACTGATGGTACTAAGGCAATTTGGGGCACGCCAATTCGTCCCAGCTACATCCGGTCTG
131 ATGCGCCACTGATGGTACTAAGGCAATTTGGGGCACGCCAATTCGTCCCAGCTACATCCGGTCTG
761427 AAGGCATCTGAATTTGTGTACTGTGGAGATCATTACAAGAAGACTGCTCGTGCAATGTCAGAGGC
196 AAGGCATCTGAATTTGTGTACTGTGGAGATCATTACAAGAAGACTGCTCGTGCAATGTCAGAGGC
761492 GTGGAAGTCAAC
261 GTGGAAGTCAAC
761504 TTTCACTCTTCAGAAATTTACAGGAACATGATATAGTGTGGCGTGTCTCCTGGTTAGCTTTTGTG
1 TTTCACTCTTCAG-AATTTACAGGAACATGATATAGTGT-GCGTGTCTCCTGGTTAGCTTTTGTG
761569 GATGTGTTATATAAATGC-GGGATTCCGATTGGGTAACCCTATTAGGGTTATGGGGTGGAGTAGG
64 GATGTGTTATATAAATGCGGGGATTCCGATTGGGTAACCCTATTAGGGTTATGGGGTGGAGTAGG
761633 TTATGCGCCACTGATGGTACTAAGGCAATTTGGGGCACGCCAATTCGTCCCAGCTACATCCGGTC
129 TTATGCGCCACTGATGGTACTAAGGCAATTTGGGGCACGCCAATTCGTCCCAGCTACATCCGGTC
761698 TGAAGGCATCTGAATTTGTGTACTGTGGAGATCATTACAAGAAGACTGCTCGTGCAATGTCAGAG
194 TGAAGGCATCTGAATTTGTGTACTGTGGAGATCATTACAAGAAGACTGCTCGTGCAATGTCAGAG
761763 GCGTGGAAGTCAAC
259 GCGTGGAAGTCAAC
761777 CTTTAGAACT
Statistics
Matches: 271, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
272 13 0.05
273 215 0.79
274 43 0.16
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (272 bp):
TTTCACTCTTCAGAATTTACAGGAACATGATATAGTGTGCGTGTCTCCTGGTTAGCTTTTGTGGA
TGTGTTATATAAATGCGGGGATTCCGATTGGGTAACCCTATTAGGGTTATGGGGTGGAGTAGGTT
ATGCGCCACTGATGGTACTAAGGCAATTTGGGGCACGCCAATTCGTCCCAGCTACATCCGGTCTG
AAGGCATCTGAATTTGTGTACTGTGGAGATCATTACAAGAAGACTGCTCGTGCAATGTCAGAGGC
GTGGAAGTCAAC
Found at i:769993 original size:27 final size:28
Alignment explanation
Indices: 769949--770023 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
769939 CTTGAGAAGA
**
769949 AAAAGAAGAA-GAAAAAATGAGTGAAAAT
1 AAAA-AAGAATGAAAAAATGAGAAAAAAT
*
769977 GAAAAA-AATGAAAAAAT-A-AAAAAAT
1 AAAAAAGAATGAAAAAATGAGAAAAAAT
770002 AAAAAATGAATGAAAAAATGAG
1 AAAAAA-GAATGAAAAAATGAG
770024 GGTTCAAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
25 10 0.26
26 3 0.08
27 21 0.55
28 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (28 bp):
AAAAAAGAATGAAAAAATGAGAAAAAAT
Found at i:770022 original size:8 final size:8
Alignment explanation
Indices: 769972--770011 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
769962 AAAATGAGTG
769972 AAAATGAAA
1 AAAATG-AA
769981 AAAATGAA
1 AAAATGAA
*
769989 AAAATAAA
1 AAAATGAA
769997 AAAAT-AA
1 AAAATGAA
770004 AAAATGAA
1 AAAATGAA
770012 TGAAAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 7 0.24
8 16 0.55
9 6 0.21
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:771090 original size:55 final size:55
Alignment explanation
Indices: 771007--771226 Score: 329
Period size: 55 Copynumber: 4.0 Consensus size: 55
770997 GGTTTCCCAG
* * * *
771007 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAAATGGGGAGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAG-AATAGGGAGCAGACA
* *
771062 CGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* *
771117 CGA-TGTTGAAGA-TATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
*
771170 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
771225 CG
1 CG
771227 TTTTCAAAAG
Statistics
Matches: 151, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
53 41 0.27
54 17 0.11
55 90 0.60
56 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (55 bp):
CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
Found at i:771213 original size:108 final size:110
Alignment explanation
Indices: 771007--771226 Score: 338
Period size: 108 Copynumber: 2.0 Consensus size: 110
770997 GGTTTCCCAG
* * * *
771007 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATGGGGAGCAGACGCGATTGTTGA
1 CGATCGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGA
* *
771072 AGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACA
66 AGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
*
771117 CGAT-GTTGAAGA-TATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTG
1 CGATCGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGA-AATAGGGAGCAGACACGATTGTTG
*
771179 AAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACA
65 AAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
771225 CG
1 CG
771227 TTTTCAAAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 88 0.87
109 8 0.08
110 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (110 bp):
CGATCGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGA
AGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
Found at i:771238 original size:55 final size:54
Alignment explanation
Indices: 771013--771261 Score: 310
Period size: 55 Copynumber: 4.6 Consensus size: 54
771003 CCAGCGATCG
* * * *
771013 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATGGGGAGCAGACGCGATT
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATT
* * * *
771067 GTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATG
1 -TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATT
* * *
771122 TTGAAGA-TATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATT
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATT
771175 GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACG-TT
1 -TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATT
*
771229 TTCAAAAGATT-TTCGAGT-TCTATACTC-CTGAAG
1 TT--GAAGATTGTTCGAGTCTC-ATACTCTCTGAAG
771262 AAAGTGGGAG
Statistics
Matches: 174, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
53 52 0.30
54 28 0.16
55 94 0.54
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (54 bp):
TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGATT
Found at i:771260 original size:108 final size:108
Alignment explanation
Indices: 771007--771272 Score: 328
Period size: 108 Copynumber: 2.4 Consensus size: 108
770997 GGTTTCCCAG
* * *
771007 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAAATGGGGAGCAGACGCGATTGTTG
1 CGAT-GTTAAAGATT-TTCGAGTC-TATACTCTCTGAAAGAAATAGGGAGCAGACACGATTGTTG
* *
771071 AAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACA
63 AAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* * *
771117 CGATGTTGAAGATATTCGAGTCTCATACTCTCTGAAAG-AATAGGGAGTAGACACGATTGTTGAA
1 CGATGTTAAAGATTTTCGAGTCT-ATACTCTCTGAAAGAAATAGGGAGCAGACACGATTGTTGAA
*
771181 GATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACA
65 GATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
*
771225 CG-TTTTCAAAAGATTTTCGAGTTCTATACTC-CTG-AAGAAAGT-GGGAGC
1 CGATGTT--AAAGATTTTCGAG-TCTATACTCTCTGAAAGAAA-TAGGGAGC
771273 GAACCGTTTG
Statistics
Matches: 138, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
107 7 0.05
108 94 0.68
109 30 0.22
110 7 0.05
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (108 bp):
CGATGTTAAAGATTTTCGAGTCTATACTCTCTGAAAGAAATAGGGAGCAGACACGATTGTTGAAG
ATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
Found at i:771312 original size:53 final size:52
Alignment explanation
Indices: 771178--771366 Score: 165
Period size: 52 Copynumber: 3.6 Consensus size: 52
771168 CACGATTGTT
* *
771178 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGGAA-TAGGGAGC-AGACACGTTTTCA
1 GAAGATT-TTCGAGTTCT-ATACTCCCTGAA-GAAGT-GGGAGCGA-AC-CGTTTGCA
*
771233 AAAGATTTTCGAGTTCTATACT-CCTGAAGAAAGTGGGAGCGAACCGTTTGCA
1 GAAGATTTTCGAGTTCTATACTCCCTGAAG-AAGTGGGAGCGAACCGTTTGCA
* * **
771285 GAAGATTTTCAAGTTCTATACTCCCTG-AGAAGAGGGAGCGAACCCGTAGGCA
1 GAAGATTTTCGAGTTCTATACTCCCTGAAGAAGTGGGAGCGAA-CCGTTTGCA
* * *
771337 AAAGATTGTACGAGTT-TCTACTCCCTGAAG
1 GAAGATT-TTCGAGTTCTATACTCCCTGAAG
771367 GAATAGGGAG
Statistics
Matches: 114, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
51 12 0.11
52 53 0.46
53 27 0.24
54 13 0.11
55 9 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (52 bp):
GAAGATTTTCGAGTTCTATACTCCCTGAAGAAGTGGGAGCGAACCGTTTGCA
Found at i:772588 original size:22 final size:23
Alignment explanation
Indices: 772549--772599 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
772539 TAGACATCAA
*
772549 AAAAGAAAACAGAAGAGA-ACCC
1 AAAAGAAAACAAAAGAGATACCC
772571 AAAAGAAAA-AAAATGAGATACCC
1 AAAAGAAAACAAAA-GAGATACCC
*
772594 AGAAGA
1 AAAAGA
772600 TCATTCATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.65, C:0.14, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAGAAAACAAAAGAGATACCC
Found at i:781117 original size:2 final size:2
Alignment explanation
Indices: 781110--781134 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
781100 GTGCATGAAT
781110 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
781135 TATCAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:783044 original size:2 final size:2
Alignment explanation
Indices: 783037--783062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
783027 TCCGATTTAA
783037 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
783063 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:783838 original size:19 final size:20
Alignment explanation
Indices: 783810--783847 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
783800 CCCACTAACT
783810 TTTTCCTTCATTTT-TTTTG
1 TTTTCCTTCATTTTATTTTG
*
783829 TTTTCTTTCATTTTATTTT
1 TTTTCCTTCATTTTATTTT
783848 TATCATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTCCTTCATTTTATTTTG
Found at i:785029 original size:16 final size:18
Alignment explanation
Indices: 785008--785041 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
784998 TTTGTTTGAA
785008 CATGTTT-TTT-ATCTTT
1 CATGTTTGTTTAATCTTT
785024 CATGTTTGTTTAATCTTT
1 CATGTTTGTTTAATCTTT
785042 TAAAAGACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.65
Consensus pattern (18 bp):
CATGTTTGTTTAATCTTT
Found at i:785387 original size:31 final size:31
Alignment explanation
Indices: 785349--785417 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
785339 ACCTTTATTT
785349 GAGTCAATAAAGTTACACCATTATCTTTTTA
1 GAGTCAATAAAGTTACACCATTATCTTTTTA
785380 GAGTCAATAAAGTTACACCATTATCTTTTTA
1 GAGTCAATAAAGTTACACCATTATCTTTTTA
*
785411 GACTCAA
1 GAGTCAA
785418 AATTGACATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (31 bp):
GAGTCAATAAAGTTACACCATTATCTTTTTA
Found at i:785544 original size:25 final size:25
Alignment explanation
Indices: 785510--785565 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
785500 GCATCTCATA
785510 GGGAGCCTGAACA-ATGAGACATGTC
1 GGGAGCCTGAA-ATATGAGACATGTC
785535 GGGAGCCTGAAATATGAGACATGTC
1 GGGAGCCTGAAATATGAGACATGTC
785560 GGGAGC
1 GGGAGC
785566 AAGAAGCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.30, C:0.18, G:0.36, T:0.16
Consensus pattern (25 bp):
GGGAGCCTGAAATATGAGACATGTC
Found at i:785948 original size:18 final size:18
Alignment explanation
Indices: 785922--785981 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
785912 AGATCCAATC
*
785922 AGAATAAAAAGCAAAAAG
1 AGAAAAAAAAGCAAAAAG
785940 AGAAAAAAAAGC--AAAG
1 AGAAAAAAAAGCAAAAAG
*
785956 -GAAAAAAAA-TAAAAAG
1 AGAAAAAAAAGCAAAAAG
785972 AGAAAAAAAA
1 AGAAAAAAAA
785982 AAACAAAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
15 9 0.24
16 8 0.22
17 9 0.24
18 11 0.30
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.03
Consensus pattern (18 bp):
AGAAAAAAAAGCAAAAAG
Found at i:785970 original size:32 final size:33
Alignment explanation
Indices: 785934--785996 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
785924 AATAAAAAGC
*
785934 AAAAAGAG-AAAAAAAAGCAAAGGAAAAAAAAT
1 AAAAAGAGAAAAAAAAAACAAAGGAAAAAAAAT
785966 AAAAAGAGAAAAAAAAAAACAAAGGAAAAAA
1 AAAAAGAG-AAAAAAAAAACAAAGGAAAAAA
785997 CAAAAAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 8 0.29
34 20 0.71
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.02
Consensus pattern (33 bp):
AAAAAGAGAAAAAAAAAACAAAGGAAAAAAAAT
Found at i:785982 original size:18 final size:17
Alignment explanation
Indices: 785942--786002 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
785932 GCAAAAAGAG
*
785942 AAAAAAAAGCAAAGGAA
1 AAAAAAAAACAAAGGAA
*
785959 AAAAAATAA-AAAGAGAA
1 AAAAAAAAACAAAG-GAA
785976 AAAAAAAAACAAAGGAA
1 AAAAAAAAACAAAGGAA
785993 AAAACAAAAA
1 AAAA-AAAAA
786003 GAGAACATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 4 0.11
17 25 0.66
18 9 0.24
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.02
Consensus pattern (17 bp):
AAAAAAAAACAAAGGAA
Found at i:786002 original size:32 final size:33
Alignment explanation
Indices: 785927--786016 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 33
785917 CAATCAGAAT
* *
785927 AAAAAGCAAAAAGAG--AAAAAAAAGCAAAGGAA
1 AAAAAACAAAAAGAGAAAAAAAAAAACAAAGG-A
*
785959 AAAAAATAAAAAGAGAAAAAAAAAAACAAAGG-
1 AAAAAACAAAAAGAGAAAAAAAAAAACAAAGGA
* *
785991 AAAAAACAAAAAGAGAACATAAAAAA
1 AAAAAACAAAAAGAGAAAAAAAAAAA
786017 GAGAAACAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
32 36 0.72
34 14 0.28
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (33 bp):
AAAAAACAAAAAGAGAAAAAAAAAAACAAAGGA
Found at i:786028 original size:32 final size:29
Alignment explanation
Indices: 785922--786032 Score: 87
Period size: 32 Copynumber: 3.5 Consensus size: 29
785912 AGATCCAATC
* *
785922 AGAATAAAAAGCAAAAAGAGAAAAAAAAGCAA
1 AGAA-AAAAAACAAAAAGAGAAAAAAAA--AG
* *
785954 AGGAAAAAAAATAAAAAGAGAAAAAAAAAA
1 A-GAAAAAAAACAAAAAGAGAAAAAAAAAG
*
785984 ACAAAGGAAAAAACAAAAAGAGAACATAAAAAAG
1 A-GAA--AAAAAACAAAAAGAGAA-A-AAAAAAG
786018 AGAAACAAAAACAAA
1 AGAAA-AAAAACAAA
786033 GGAAAAGTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
30 5 0.08
31 1 0.02
32 47 0.71
33 6 0.09
34 7 0.11
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (29 bp):
AGAAAAAAAACAAAAAGAGAAAAAAAAAG
Found at i:787459 original size:64 final size:64
Alignment explanation
Indices: 787355--787586 Score: 392
Period size: 64 Copynumber: 3.6 Consensus size: 64
787345 CATAATTTTG
* *
787355 CAGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCAATAAACAACTTTCCAGTTTCATT
1 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATT
* * * *
787419 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAACAAACAACCTTCCATTTTCATT
1 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATT
*
787483 CAGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCAACAAACAACTTTCCAGTTTCATT
1 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATT
*
787547 CAGAGTCAATTTCAACTTCACAACGAAGGATATCGGACTC
1 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTC
787587 GAAACAACGC
Statistics
Matches: 155, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 155 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (64 bp):
CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATT
Found at i:787984 original size:55 final size:55
Alignment explanation
Indices: 787918--788241 Score: 181
Period size: 55 Copynumber: 5.5 Consensus size: 55
787908 GGTCATCCAT
*
787918 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAACCCTTG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACCCTTG
* * * * * * *
787973 GATTTCAACTTCATGATGAAAGATATCCAATTCAAAGCTCAACTTCA-CAACGAATG-AGCCATC
1 GATTTCAACTTCACGACGAAGGATAT-C--GT----GC-CCAC--AAGCAAC-AATGCAACC--C
***
788036 CAC
53 TTG
*
788039 GATTTCAACTTCACGACGAAGGATATTGTGCCCACAAGCAACAATGCAACCCTTG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACCCTTG
* * * * * *
788094 GATTTCAACTTCATGACGAAGGATATCCAATACAAAGCTCAACTTCA-CAACGAATGAGCTATCC
1 GATTTCAACTTCACGACGAAGGATAT-C-GT-----GC-CCAC--AAGCAAC-AAT--GCAACCC
**
788158 -AC
53 TTG
788160 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAG-AAGCAATGCAACCCTTG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAA-CAATGCAACCCTTG
*
788215 GATTTCAACTTCACAACGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
788242 CAATTCAAAA
Statistics
Matches: 198, Mismatches: 40, Indels: 62
0.66 0.13 0.21
Matches are distributed among these distances:
54 5 0.03
55 75 0.38
56 12 0.06
57 9 0.05
58 7 0.04
59 4 0.02
62 4 0.02
63 7 0.04
64 11 0.06
65 10 0.05
66 49 0.25
67 5 0.03
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (55 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACCCTTG
Found at i:788026 original size:121 final size:122
Alignment explanation
Indices: 787555--788431 Score: 992
Period size: 121 Copynumber: 7.2 Consensus size: 122
787545 TTCAGAGTCA
* ** * *
787555 ATTTCAACTTCACAACGAAGGATATCG-G---ACTCGAAACAACGCAACT--TTGGATTTCAACT
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACTCATTGGATTTCAACT
** * *
787614 TCACAACGAAGGATATCCAATTC-AAGACTCAACTTCATAACGAAGGGGCCATCCACG
66 TCATGACGAAGGATATCCAATTCAAAG-CTCAACTTCACAACGAAGGAGCCATCCACG
* * * * * *
787671 ATTTCAACTTCACGACAAAGGATATCGTGCCCACCAGAAAC-ATTCATCTTTAGATTGGATTTCA
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAAC--T-CATTGGATTTCA
* * * *
787735 ACTTCACGAAGAAGGATATCCAATT-AAAGGCTCAACTTCACAACAAAGGGGCCATCCACG
63 ACTTCATGACGAAGGATATCCAATTCAAA-GCTCAACTTCACAACGAAGGAGCCATCCACG
* * * *
787795 ATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAAC-ATTCATCTTTAGATTGGATTTCA
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAAC--T-CATTGGATTTCA
* * * * * * *
787859 TCTTCATGACGAAAGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGGTCATCCATG
63 ACTTCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACG
* *
787919 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAAC-CCTTGGATTTCAACT
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACTCATTGGATTTCAACT
* * *
787983 TCATGATGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACG
66 TCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACG
* *
788040 ATTTCAACTTCACGACGAAGGATATTGTGCCCACAAGCAACAATGCAAC-CCTTGGATTTCAACT
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACTCATTGGATTTCAACT
* * *
788104 TCATGACGAAGGATATCCAATACAAAGCTCAACTTCACAACGAATGAGCTATCCACG
66 TCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACG
*
788161 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAG-AAGCAATGCAAC-CCTTGGATTTCAAC
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAA-CAATGCAACTCATTGGATTTCAAC
** * * *
788224 TTCACAACGAAGGATATCCAATTCAAAACTCAACTTCACAACGAATGAGTCATCCACG
65 TTCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACG
* * * * * ** * *
788282 ATTTCAACTTTACGATGAAGGATATCATGCCTATAAGC-AGGATCCATCTCTAGATTGGATTTCA
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACTC---ATTGGATTTCA
* * *
788346 AGTTCATAACGAATGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACG
63 ACTTCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACG
* * *
788406 ATTTTAACTTCACAAAGAAGGATATC
1 ATTTCAACTTCACGACGAAGGATATC
788432 ATACCCTAAA
Statistics
Matches: 673, Mismatches: 69, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
116 25 0.04
117 1 0.00
119 4 0.01
120 14 0.02
121 323 0.48
124 298 0.44
125 8 0.01
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (122 bp):
ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGCAACTCATTGGATTTCAACT
TCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACG
Found at i:788049 original size:66 final size:66
Alignment explanation
Indices: 787973--788307 Score: 211
Period size: 66 Copynumber: 5.4 Consensus size: 66
787963 GCAACCCTTG
* * *
787973 GATTTCAACTTCATGATGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
788038 C
66 C
* * *
788039 GATTTCAACTTCACGACGAAGGATAT----TGT----GC-CCAC--AAGCAAC-AATGCAACC--
1 GATTTCAACTTCACGACGAAGGATATCCAAT-TCAAAGCTCAACTTCA-CAACGAATG-AGCCAT
***
788090 CTTG
63 CCAC
* * *
788094 GATTTCAACTTCATGACGAAGGATATCCAATACAAAGCTCAACTTCACAACGAATGAGCTATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
788159 C
66 C
* * * * *
788160 GATTTCAACTTCACGACGAAGGATAT-C--GT----GC-CCAC--AAGAA-GCAATGCAACC--C
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACG-AATG-AGCCATC
***
788212 TTG
64 CAC
* * *
788215 GATTTCAACTTCACAACGAAGGATATCCAATTCAAAACTCAACTTCACAACGAATGAGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
788280 C
66 C
* *
788281 GATTTCAACTTTACGATGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
788308 ATGCCTATAA
Statistics
Matches: 194, Mismatches: 43, Indels: 64
0.64 0.14 0.21
Matches are distributed among these distances:
55 53 0.27
56 13 0.07
57 9 0.05
58 7 0.04
59 5 0.03
62 4 0.02
63 7 0.04
64 8 0.04
65 13 0.07
66 75 0.39
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
C
Found at i:789765 original size:47 final size:46
Alignment explanation
Indices: 789692--789787 Score: 147
Period size: 47 Copynumber: 2.1 Consensus size: 46
789682 GTTGCTGATG
* * *
789692 AAGATGAGGTGTACTTCAAGCAGTTAGATAGAAATACAAGCAACAT
1 AAGAGGAGGTGCACTTCAAGCAGTTAGAGAGAAATACAAGCAACAT
*
789738 AAGAGGAGGTGCACTTCCAAGCAGTTAGAGAGAAATATAAGCAACAT
1 AAGAGGAGGTGCACTT-CAAGCAGTTAGAGAGAAATACAAGCAACAT
789785 AAG
1 AAG
789788 GTACGTACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 14 0.31
47 31 0.69
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.19
Consensus pattern (46 bp):
AAGAGGAGGTGCACTTCAAGCAGTTAGAGAGAAATACAAGCAACAT
Found at i:789947 original size:37 final size:36
Alignment explanation
Indices: 789849--789949 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 36
789839 TTTCGTCCTA
789849 CTAGGATTCAAACT-CTCAAAAATAGGATAGAATTCTG
1 CTAGGATT-AAACTCCT-AAAAATAGGATAGAATTCTG
* *
789886 CTAGGATTCAACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
** *
789922 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTAAACTCCTAAAAATAGGAT
789950 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 26 0.46
37 30 0.54
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (36 bp):
CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
Found at i:790413 original size:11 final size:11
Alignment explanation
Indices: 790393--790474 Score: 60
Period size: 11 Copynumber: 7.3 Consensus size: 11
790383 TTAATTATTT
*
790393 TTATTCTAATA
1 TTATTTTAATA
*
790404 TTATTTTAATG
1 TTATTTTAATA
790415 TT-TTTTAA-A
1 TTATTTTAATA
*
790424 GTTATTATATATA
1 -TTATTTTA-ATA
*
790437 TATATTATAACTA
1 T-TATTTTAA-TA
*
790450 TTATTTTATTA
1 TTATTTTAATA
*
790461 TTATTTTACTA
1 TTATTTTAATA
790472 TTA
1 TTA
790475 ACGTATATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
10 8 0.14
11 30 0.52
12 9 0.16
13 11 0.19
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:790546 original size:10 final size:10
Alignment explanation
Indices: 790531--790557 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
790521 TATGTATATT
790531 TTTTATTGTA
1 TTTTATTGTA
790541 TTTTATTGTA
1 TTTTATTGTA
790551 TTTTATT
1 TTTTATT
790558 TTTACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (10 bp):
TTTTATTGTA
Found at i:790667 original size:16 final size:16
Alignment explanation
Indices: 790646--790679 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
790636 CATGTATTTA
790646 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
790662 TATTATTTTACTTTAT
1 TATTATATTACATTAT
790678 TA
1 TA
790680 AATTATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:790710 original size:9 final size:9
Alignment explanation
Indices: 790697--790730 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
790687 ATTATTTCGT
*
790697 TATTATATT
1 TATTATATA
790706 TATTATATA
1 TATTATATA
790715 TA-TATATA
1 TATTATATA
790723 TATTATAT
1 TATTATAT
790731 CATAATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATATA
Found at i:792041 original size:39 final size:38
Alignment explanation
Indices: 791977--792052 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 38
791967 GATTTGTTTG
*
791977 AAATTAGCATGCGGGATAGAGATCATGTCCGGGTAGGAA
1 AAATAAGCATGCGGGATAGAGATCATGT-CGGGTAGGAA
* * * *
792016 AAATAAGCATGTGGGGTAGATATCATGTGGGGTAGGA
1 AAATAAGCATGCGGGATAGAGATCATGTCGGGTAGGA
792053 CTTTCATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
38 8 0.25
39 24 0.75
ACGTcount: A:0.33, C:0.09, G:0.36, T:0.22
Consensus pattern (38 bp):
AAATAAGCATGCGGGATAGAGATCATGTCGGGTAGGAA
Found at i:794046 original size:8 final size:8
Alignment explanation
Indices: 794035--794104 Score: 52
Period size: 8 Copynumber: 8.5 Consensus size: 8
794025 CAAAAAGGGC
794035 AAAAAGAA
1 AAAAAGAA
794043 AAAAAGAA
1 AAAAAGAA
* *
794051 AAGAAGCA
1 AAAAAGAA
*
794059 AAAAAGGA
1 AAAAAGAA
*
794067 AAAAACAA
1 AAAAAGAA
794075 GAACAAA-AA
1 -AA-AAAGAA
*
794084 ATAAAGAA
1 AAAAAGAA
*
794092 CAAAAATAA
1 -AAAAAGAA
794101 AAAA
1 AAAA
794105 GGGAACAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
7 3 0.06
8 33 0.67
9 10 0.20
10 3 0.06
ACGTcount: A:0.80, C:0.06, G:0.11, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:794069 original size:22 final size:21
Alignment explanation
Indices: 794051--794106 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
794041 AAAAAAAGAA
794051 AAGAAGCAAAAAAGGAAAAAAC
1 AAGAA-CAAAAAAGGAAAAAAC
* *
794073 AAGAACAAAAAA-TAAAGAAC
1 AAGAACAAAAAAGGAAAAAAC
* *
794093 AAAAATAAAAAAGG
1 AAGAACAAAAAAGG
794107 GAACAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 16 0.57
21 7 0.25
22 5 0.18
ACGTcount: A:0.75, C:0.07, G:0.14, T:0.04
Consensus pattern (21 bp):
AAGAACAAAAAAGGAAAAAAC
Found at i:794084 original size:13 final size:14
Alignment explanation
Indices: 794073--794101 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
794063 AGGAAAAAAC
794073 AAGAACAAAAAATA
1 AAGAACAAAAAATA
794087 AAGAAC-AAAAATA
1 AAGAACAAAAAATA
794100 AA
1 AA
794102 AAAGGGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AAGAACAAAAAATA
Found at i:794093 original size:20 final size:19
Alignment explanation
Indices: 794041--794104 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
794031 GGGCAAAAAG
794041 AAAAAAAGAA-AAGAAGCAA
1 AAAAAAAGAACAAGAA-CAA
*
794060 AAAAGGAAAAAACAAGAACAA
1 AAAA--AAAGAACAAGAACAA
* *
794081 AAAATAAAGAACAAAAATAA
1 AAAA-AAAGAACAAGAACAA
794101 AAAA
1 AAAA
794105 GGGAACAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.11
20 16 0.43
21 12 0.32
22 5 0.14
ACGTcount: A:0.80, C:0.06, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAAAAGAACAAGAACAA
Found at i:795698 original size:38 final size:37
Alignment explanation
Indices: 795603--795713 Score: 161
Period size: 36 Copynumber: 3.0 Consensus size: 37
795593 GTTCTCACCA
795603 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
795639 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-CT
* * *
795677 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
795714 ATTGAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 31 0.46
37 3 0.04
38 30 0.45
39 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:795799 original size:37 final size:37
Alignment explanation
Indices: 795740--795810 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
795730 TTGAAATGAG
* *
795740 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
* *
795777 TTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
795811 TAAACATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
Found at i:795830 original size:102 final size:102
Alignment explanation
Indices: 795621--796013 Score: 653
Period size: 102 Copynumber: 3.9 Consensus size: 102
795611 CTTGAGACAG
** * * *
795621 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTTCTCCC
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA-TTTTGTCTCCC
795686 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
65 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
795724 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
795789 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
795826 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
795891 TAAGACAGTTTCTCCTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
795928 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCATTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
795992 TGAGACAGTTTCTCTTGAAACA
66 TGAGACAGTTTCTCTTGAAACA
796014 CAAAACCTTT
Statistics
Matches: 274, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
101 35 0.13
102 191 0.70
103 48 0.18
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:795901 original size:37 final size:37
Alignment explanation
Indices: 795826--795912 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
795816 ATTGGAAACA
** * * *
795826 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
795862 TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
795899 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
795913 TAAACATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
36 12 0.27
37 30 0.68
38 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
Found at i:795974 original size:36 final size:36
Alignment explanation
Indices: 795927--796013 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
795917 CATTGAAAAC
* ** *
795927 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCATTGAAACAAATTTCGTCTCCCTTGAGATA
* *
795963 ATTTCCATTGAAACAAATTTTGTCTCCCTTGAGACA
1 ATTTCCATTGAAACAAATTTCGTCTCCCTTGAGATA
*
795999 GTTTCTC-TTGAAACA
1 ATTTC-CATTGAAACA
796014 CAAAACCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (36 bp):
ATTTCCATTGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:795976 original size:204 final size:204
Alignment explanation
Indices: 795621--796080 Score: 670
Period size: 204 Copynumber: 2.2 Consensus size: 204
795611 CTTGAGACAG
*
795621 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTTCTCCC
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTGTCTCCC
* * * *
795686 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTCTCTC
66 TTAAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTC
* * *
795751 TTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
131 TTGAGATAATTTCCATTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
795816 ATTGGAAACA
195 ATTGGAAACA
** * *
795826 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA-TTTTGTCTCCC
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTGTCTCCC
795890 TTAAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTC
66 TTAAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTC
*
795955 TTGAGATAATTTCCATTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAAC
131 TTGAGATAATTTCCATTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-TAAAC
* * ***
796020 CTTTGAGATTG
195 ATTGGA-AACA
* * * * * *
796031 TTTCCCTCGAAACAAATTTTGTCTCCCATGAGACATTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
796081 CAAAATCTTT
Statistics
Matches: 227, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
203 36 0.16
204 99 0.44
205 92 0.41
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (204 bp):
TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTGTCTCCC
TTAAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTC
TTGAGATAATTTCCATTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
TTGGAAACA
Found at i:796111 original size:67 final size:67
Alignment explanation
Indices: 795973--796113 Score: 205
Period size: 67 Copynumber: 2.1 Consensus size: 67
795963 ATTTCCATTG
*
795973 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTTGAGATTGTTTCCCT
1 AAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAACCTTTGAGATTGTTTCCCT
*
796038 CG
66 CA
* *
796040 AAACAAATTTTGTCTCCCATGAGACATTTTCTCTTGAAACACAAAATCTTTGA-ATT-TATCTCC
1 AAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAACCTTTGAGATTGT-T-TCC
*
796103 CTTA
64 CTCA
796107 AAACAAA
1 AAACAAA
796114 ATTTCGTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 4 0.06
67 62 0.93
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAACCTTTGAGATTGTTTCCCT
CA
Found at i:796345 original size:37 final size:37
Alignment explanation
Indices: 796272--796345 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
796262 TGGAACTAAG
* * **
796272 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* * *
796309 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAGCAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
796346 AATATCTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:797161 original size:106 final size:108
Alignment explanation
Indices: 796693--797328 Score: 608
Period size: 109 Copynumber: 6.0 Consensus size: 108
796683 TAGCTAGAGT
* * * *
796693 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGCCAAC-AACAATTTCCCAATTTCGGAATCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
* *
796757 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
66 ATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* ** * * *
796801 CAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAATGAACAACTTCCCAATTCCAGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
* * *
796866 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGAAAACA
66 ATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * * *
796910 CAAGTCCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAATAACTTT-TCAGTTTC--ATCC
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCCCAATTTCAGAACC
*
796972 ACGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACA
65 A--ATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * * *
797019 CAAGTTCAACTTCACAATGAAGGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
* *
797084 ATTTCAACTTCAC-AGCGAAGGATAT-TG-GACTCGAGACAACA
66 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCGAGACAACA
* * * **
797125 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAAC-AA-GATTT--C--GTTCAGAGTCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
* * * *
797184 ATTTCAACTTCAC-AGCGAAGGATAT-T-AGACTCGAGACATCA
66 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCGAGACAACA
* * * * ** ** *
797225 CAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCGGTTCCAGAACCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
* *
797290 ATTTCAACTTCAC-AGCGGAGGATAT-TG-GACTCGAAACAA
66 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCGAGACAA
797329 TATTTGGATT
Statistics
Matches: 456, Mismatches: 56, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
100 83 0.18
101 2 0.00
102 4 0.01
104 4 0.01
105 2 0.00
106 92 0.20
107 5 0.01
108 41 0.09
109 217 0.48
110 2 0.00
111 4 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (108 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
ATTTCAACTCCACGACGGAGGATATCTGCGACTCGAGACAACA
Found at i:797840 original size:36 final size:37
Alignment explanation
Indices: 797780--797852 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
797770 CTTTTTCGTC
797780 CTACTAGGATTCAAACTCTCAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCTCAAAAATAGGATAGAATT
797817 CTACTAGGATTC-AACTC-CTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCTC-AAAAATAGGATAGAATT
797853 TTGCTATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 1 0.03
36 22 0.63
37 12 0.34
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.27
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCTCAAAAATAGGATAGAATT
Found at i:798345 original size:11 final size:11
Alignment explanation
Indices: 798325--798408 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 11
798315 TTAATTATTT
*
798325 TTATTCTAATA
1 TTATTTTAATA
*
798336 TTATTTTAATG
1 TTATTTTAATA
798347 TT-TTTTAA-A
1 TTATTTTAATA
*
798356 GTTATTATATATA
1 -TTATTTTA-ATA
798369 TATATTTATAACTA
1 T-TATTT-TAA-TA
*
798383 TTATATTTATTA
1 TTAT-TTTAATA
*
798395 TTATTTTACTA
1 TTATTTTAATA
798406 TTA
1 TTA
798409 ACGTATATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 24 0.41
12 8 0.14
13 11 0.19
14 7 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:798399 original size:15 final size:15
Alignment explanation
Indices: 798357--798399 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
798347 TTTTTTAAAG
798357 TTATTATATATATATAT
1 TTATTAT-TAT-TATAT
* *
798374 TTATAACTATTATAT
1 TTATTATTATTATAT
798389 TTATTATTATT
1 TTATTATTATT
798400 TTACTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:798602 original size:16 final size:16
Alignment explanation
Indices: 798581--798614 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
798571 CATGTATTTA
798581 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
798597 TATTATTTTACTTTAT
1 TATTATATTACATTAT
798613 TA
1 TA
798615 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:798619 original size:21 final size:22
Alignment explanation
Indices: 798595--798644 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
798585 ATATTACATT
*
798595 ATTATTATTTTACTTTATTA-A
1 ATTATTATTTTACGTTATTATA
*
798616 ATTATT-TTTTTCGTTATTATA
1 ATTATTATTTTACGTTATTATA
*
798637 TTTATTAT
1 ATTATTAT
798645 ATATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.46
21 12 0.50
22 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATTATTTTACGTTATTATA
Found at i:799695 original size:2 final size:2
Alignment explanation
Indices: 799690--799714 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
799680 TATTTAAATT
799690 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
799715 TACGATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:801020 original size:18 final size:17
Alignment explanation
Indices: 800988--801021 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
800978 TATTCAATTT
*
800988 TTTTAATTTTTTAATAA
1 TTTTAATTTTCTAATAA
801005 TTTTAATATTTCTAATA
1 TTTTAAT-TTTCTAATA
801022 TGAATATTCA
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:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTTTCTAATAA
Found at i:801107 original size:22 final size:24
Alignment explanation
Indices: 801079--801124 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
801069 TTTTGAATAT
801079 TTTAAAA-A-TTTTATATTTATAA
1 TTTAAAATATTTTTATATTTATAA
*
801101 TTTAAAATATTTTTATTTTTATAA
1 TTTAAAATATTTTTATATTTATAA
801125 AAATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTAAAATATTTTTATATTTATAA
Found at i:801358 original size:2 final size:2
Alignment explanation
Indices: 801351--801398 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
801341 ATAATATGAG
801351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
801393 AT AT AT
1 AT AT AT
801399 TTATGTACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:806694 original size:60 final size:60
Alignment explanation
Indices: 806600--806728 Score: 213
Period size: 60 Copynumber: 2.1 Consensus size: 60
806590 TGAAAACAAA
* *
806600 CTAAAAGTTCAAAAACTGTATTATAAGTTTCAAAATTTGGATGATGAAAATATAAGCGTC
1 CTAAAAGTTCAAAAACTGTATTATAAGTTTCAAAATTTGGATGATGAAAATACAAGCGAC
* * *
806660 TTAAAAGTTCAAAAACTGTATTGTATGTTTCAAAATTTGGATGATGAAAATACAAGCGAC
1 CTAAAAGTTCAAAAACTGTATTATAAGTTTCAAAATTTGGATGATGAAAATACAAGCGAC
806720 CTAAAAGTT
1 CTAAAAGTT
806729 TAGAGACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.32
Consensus pattern (60 bp):
CTAAAAGTTCAAAAACTGTATTATAAGTTTCAAAATTTGGATGATGAAAATACAAGCGAC
Found at i:808320 original size:20 final size:20
Alignment explanation
Indices: 808289--808448 Score: 176
Period size: 20 Copynumber: 8.0 Consensus size: 20
808279 AAGGCACACT
808289 AACTCGAAAATCGAATTCGC
1 AACTCGAAAATCGAATTCGC
* * * *
808309 AATTCAAAAATCAAATTGGC
1 AACTCGAAAATCGAATTCGC
*
808329 AACACGAAAATCGAATTCGC
1 AACTCGAAAATCGAATTCGC
* * *
808349 AATTCGAAAATCAAATTGGC
1 AACTCGAAAATCGAATTCGC
*
808369 AACACGAAAATCGAATTCGC
1 AACTCGAAAATCGAATTCGC
* *
808389 AACGCGAAAATCGATTTCGC
1 AACTCGAAAATCGAATTCGC
* * *
808409 AATTTGAAAATCAAATTCGC
1 AACTCGAAAATCGAATTCGC
*
808429 AACACGAAAATCGCAATTCG
1 AACTCGAAAATCG-AATTCG
808449 ATATTTAAAT
Statistics
Matches: 111, Mismatches: 28, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
20 105 0.95
21 6 0.05
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (20 bp):
AACTCGAAAATCGAATTCGC
Found at i:808441 original size:60 final size:60
Alignment explanation
Indices: 808292--808448 Score: 215
Period size: 60 Copynumber: 2.6 Consensus size: 60
808282 GCACACTAAC
* ** * * *
808292 TCGAAAATCGAATTCGCAATTCAAAAATCAAATTGGCAACACGAAAATCGAATTCGCAAT
1 TCGAAAATCAAATTCGCAACACGAAAATCGAATTCGCAACACGAAAATCGAATTCGCAAT
* * *
808352 TCGAAAATCAAATTGGCAACACGAAAATCGAATTCGCAACGCGAAAATCGATTTCGCAAT
1 TCGAAAATCAAATTCGCAACACGAAAATCGAATTCGCAACACGAAAATCGAATTCGCAAT
*
808412 TTGAAAATCAAATTCGCAACACGAAAATCGCAATTCG
1 TCGAAAATCAAATTCGCAACACGAAAATCG-AATTCG
808449 ATATTTAAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 79 0.93
61 6 0.07
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (60 bp):
TCGAAAATCAAATTCGCAACACGAAAATCGAATTCGCAACACGAAAATCGAATTCGCAAT
Found at i:808518 original size:20 final size:20
Alignment explanation
Indices: 808489--808661 Score: 182
Period size: 20 Copynumber: 8.9 Consensus size: 20
808479 TCGAAATCGA
*
808489 TTTCGAGTTGCGAATTTCAT
1 TTTCGAGTTGCGAATTTGAT
*
808509 TTTCGTGTTGCGAATTAT-AT
1 TTTCGAGTTGCGAATT-TGAT
* * *
808529 TTTCGAGTCGCGAATTTTAA
1 TTTCGAGTTGCGAATTTGAT
*
808549 TATCGAGTTGC------GAT
1 TTTCGAGTTGCGAATTTGAT
* *
808563 TTTCGTGTTGCGAATTTGAG
1 TTTCGAGTTGCGAATTTGAT
* *
808583 TTTCGAATTAG-GAATTCGAT
1 TTTCGAGTT-GCGAATTTGAT
808603 TTTCGAGTTGCGAATTTGAT
1 TTTCGAGTTGCGAATTTGAT
808623 TTTCGAGTTGCGAATTTGAT
1 TTTCGAGTTGCGAATTTGAT
808643 TTTCGAGTTGCGAATTTGA
1 TTTCGAGTTGCGAATTTGA
808662 ATTGCGAATC
Statistics
Matches: 126, Mismatches: 17, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
14 10 0.08
19 2 0.02
20 112 0.89
21 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (20 bp):
TTTCGAGTTGCGAATTTGAT
Found at i:808574 original size:74 final size:74
Alignment explanation
Indices: 808489--808635 Score: 179
Period size: 74 Copynumber: 2.0 Consensus size: 74
808479 TCGAAATCGA
* ** * *
808489 TTTCGAGTTGCGAATTTCATTTTCGTGTT-GCGAATTATATTTTCGAGTCGCGAATTTTAATATC
1 TTTCGAGTTGCGAATTTCAGTTTCGAATTAG-GAATTAGATTTTCGAGTCGCGAATTTGAATATC
808553 GAGTTGCGAT
65 GAGTTGCGAT
* * * * * *
808563 TTTCGTGTTGCGAATTTGAGTTTCGAATTAGGAATTCGATTTTCGAGTTGCGAATTTGATTTTCG
1 TTTCGAGTTGCGAATTTCAGTTTCGAATTAGGAATTAGATTTTCGAGTCGCGAATTTGAATATCG
808628 AGTTGCGA
66 AGTTGCGA
808636 ATTTGATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 60 0.98
75 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (74 bp):
TTTCGAGTTGCGAATTTCAGTTTCGAATTAGGAATTAGATTTTCGAGTCGCGAATTTGAATATCG
AGTTGCGAT
Found at i:808967 original size:18 final size:18
Alignment explanation
Indices: 808944--808979 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
808934 AAGACGGTTG
*
808944 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
808962 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
808980 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:812231 original size:20 final size:20
Alignment explanation
Indices: 812208--812277 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
812198 AAAAGTTATT
812208 TTGCGAAATTAAAATTCGTA
1 TTGCGAAATTAAAATTCGTA
812228 TTGC-AAATTCAGAAA-TCG-A
1 TTGCGAAATT-A-AAATTCGTA
* *
812247 GTTGCGAAAATAAAATTC-TCG
1 -TTGCGAAATTAAAATTCGT-A
812268 TTGCGAAATT
1 TTGCGAAATT
812278 GAAACGCACT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
19 9 0.22
20 24 0.60
21 7 0.17
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
TTGCGAAATTAAAATTCGTA
Found at i:812321 original size:20 final size:20
Alignment explanation
Indices: 812297--812355 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
812287 TTTCCGAATT
812297 AGAAAATCTTGTTGCGAAAA
1 AGAAAATCTTGTTGCGAAAA
* *
812317 GGAAACT-TGTGTTGCGAAAA
1 AGAAAATCT-TGTTGCGAAAA
* *
812337 AGAAATTCGTGTTGCGAAA
1 AGAAAATCTTGTTGCGAAA
812356 TTGTCAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (20 bp):
AGAAAATCTTGTTGCGAAAA
Found at i:813067 original size:19 final size:19
Alignment explanation
Indices: 813045--813082 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
813035 TATGTTCACA
*
813045 ATTATACTTGTAAATATTT
1 ATTATAATTGTAAATATTT
*
813064 ATTATAATTTTAAATATTT
1 ATTATAATTGTAAATATTT
813083 TTTAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTATAATTGTAAATATTT
Found at i:814627 original size:16 final size:15
Alignment explanation
Indices: 814601--814633 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
814591 ATTATAACTG
814601 TAGAAAAAAAATAAT
1 TAGAAAAAAAATAAT
814616 TAGAACAAAAAATAAT
1 TAGAA-AAAAAATAAT
814632 TA
1 TA
814634 ATTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
TAGAAAAAAAATAAT
Found at i:814700 original size:18 final size:17
Alignment explanation
Indices: 814637--814700 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 17
814627 ATAATTAATT
814637 AATAA-ATTTAA-AAAA
1 AATAATATTTAATAAAA
* *
814652 AATAATAATT-AT-ATA
1 AATAATATTTAATAAAA
*
814667 AATATTATTTTAATAAAA
1 AATAATA-TTTAATAAAA
814685 AATAATATTTATATAA
1 AATAATATTTA-ATAA
814701 TTATATTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
15 14 0.38
16 5 0.14
17 6 0.16
18 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATATTTAATAAAA
Found at i:814704 original size:30 final size:32
Alignment explanation
Indices: 814643--814723 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 32
814633 AATTAATAAA
814643 TTTAA-AAAAAATAATAATTATATAAATATTAT
1 TTTAATAAAAAATAAT-ATTATATAAATATTAT
*
814675 TTTAATAAAAAATAATATT-TATATA-ATTAT
1 TTTAATAAAAAATAATATTATATAAATATTAT
*
814705 ATTAATATAAAATATAATA
1 TTTAATA-AAAA-ATAATA
814724 ACTATTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
30 11 0.25
31 9 0.20
32 14 0.32
33 10 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
TTTAATAAAAAATAATATTATATAAATATTAT
Found at i:814715 original size:32 final size:33
Alignment explanation
Indices: 814648--814724 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
814638 ATAAATTTAA
*
814648 AAAAAATAATAATTATATAAATATTATTTTAAT
1 AAAAAATAATAATTATATAAATATTATTATAAT
* *
814681 AAAAAATAATATTTATATAATTA-TATTA-ATAT
1 AAAAAATAATAATTATATAAATATTATTATA-AT
*
814713 AAAATATAATAA
1 AAAAAATAATAA
814725 CTATTTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 1 0.03
32 16 0.42
33 21 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
AAAAAATAATAATTATATAAATATTATTATAAT
Found at i:814733 original size:24 final size:23
Alignment explanation
Indices: 814697--814741 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
814687 TAATATTTAT
* *
814697 ATAATTATATTAATATAAAATATA
1 ATAACTATATTAA-AAAAAATATA
*
814721 ATAACTATTTTAAAAAAAATA
1 ATAACTATATTAAAAAAAATA
814742 CTAACTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAACTATATTAAAAAAAATATA
Found at i:815769 original size:11 final size:11
Alignment explanation
Indices: 815753--815781 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
815743 CTTATAAGTA
815753 AAATATTAAAG
1 AAATATTAAAG
815764 AAATATTAAAG
1 AAATATTAAAG
815775 AAATATT
1 AAATATT
815782 TATAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (11 bp):
AAATATTAAAG
Found at i:815866 original size:18 final size:17
Alignment explanation
Indices: 815845--815887 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
815835 ATATATACAT
815845 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
815863 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
815880 ATAA-AATA
1 ATAATAATA
815888 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:816295 original size:37 final size:38
Alignment explanation
Indices: 816245--816347 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 38
816235 GTGCTTGTGG
* * * * ** *
816245 ATCCTATCTTTAGGAATTTAAATCTTAGTTGAACTC-T
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTCAAAATCTT
816282 ATCCTATTTTTAGGAGTTTGAATCCTAG-CAAAATCTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTCAAAATCTT
816319 ATCCTATTTTTAGGAGTTTGAATCCTAGT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGT
816348 AGGACAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
36 4 0.07
37 53 0.93
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (38 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTCAAAATCTT
Found at i:817136 original size:105 final size:105
Alignment explanation
Indices: 816842--817459 Score: 864
Period size: 105 Copynumber: 6.0 Consensus size: 105
816832 TTTGAGTTGT
* ** * * *
816842 ATATCCTTCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAACCAGCC
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAAGCAGCG
* * *
816906 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
64 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
** * *
816948 ATATCCTTCACTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAGCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
*
817008 CCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
817048 ATATACTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
* *
817113 CCTTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
817153 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
* *
817218 CCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGAAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
817258 ATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTGTTGACAAGCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
*
817323 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAGTTCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
817362 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATT--GAAGTTGTTTGTTGACAACCA-CCG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAGCAGCGG
* * *
817423 TCCCTTCGTTGTGAAG-TGAACTTGTGTTGTCTCGAGT
65 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
817460 GTCACGTATC
Statistics
Matches: 467, Mismatches: 37, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
100 97 0.21
101 28 0.06
102 19 0.04
103 3 0.01
104 43 0.09
105 248 0.53
106 29 0.06
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:817445 original size:310 final size:310
Alignment explanation
Indices: 816842--817489 Score: 898
Period size: 310 Copynumber: 2.1 Consensus size: 310
816832 TTTGAGTTGT
816842 ATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGCCG
1 ATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGCCG
** *
816907 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAA
66 TCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAA
*
816972 TTGACTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTG
131 TTGACTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
817037 TCTGGAGTCCAATATACTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGA
196 TCTGGAGTCCAATATACTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAGTTGTTGTTGA
* * *
817102 CAAGCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
260 CAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
* ** * * *
817153 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAGATTGGGAAGTTG-TTGTTGACAAGCAGCG
1 ATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGA-ACCGGGAAATTGTTTGTTGACAACCAGCC
* **
817216 GTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATTCTTCGTTGTGAAGTTGA
65 GTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTCG-AGTCCAATATCCTTCACTGTGAAGTTGA
*
817280 AATTGGCTCTGAAATTGAGAAGTTATTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
129 AATTGACTCTG-AA-TGA-AA-TT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
817345 TGCGTTGTCT-GAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATT-GAAGTTGT
189 TGCGTTGTCTGGAGTCCAATATACTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAGTTG-
* ** * *
817407 TTGTTGACAACCA-CCGTCCCTTCGTTGTGAAG-TGAACTTGTGTTGTCTCGAGTGTCA
253 TTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGT-CCA
* * *
817464 CGTATCCTCCGTCGTGGAGTTGAAAT
1 -ATATCCTTCGTCGTGAAGTTGAAAT
817490 CGCGGATGTT
Statistics
Matches: 299, Mismatches: 28, Indels: 19
0.86 0.08 0.05
Matches are distributed among these distances:
309 1 0.00
310 100 0.33
311 67 0.22
312 36 0.12
313 5 0.02
314 41 0.14
315 49 0.16
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (310 bp):
ATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGCCG
TCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAA
TTGACTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
TCTGGAGTCCAATATACTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAGTTGTTGTTGAC
AACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
Found at i:817849 original size:105 final size:100
Alignment explanation
Indices: 817633--817893 Score: 366
Period size: 105 Copynumber: 2.6 Consensus size: 100
817623 TTCGTTAAAT
* ** *
817633 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGTGAGACAAAA-TTC-GTTTCAAGGGA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCAAGGGA
* * *
817696 AACTATCTCAGCGAGAAAATTCATTTTAAGGGAAA
66 AACTATCTCAGAGAGAAAAATCATTTCAAGGGAAA
* *
817731 TGTTTTCAATGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCGAGGGA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCAAGGGA
817796 AACTATCTCAAGAGAGAAAAAAAAATCATTTCAAGGGAAA
66 AACTATCTC-AGAGAG----AAAAATCATTTCAAGGGAAA
817836 TGTTTTCAATGTTTATGTTTCAAGAGAAAC-GTCTCAAGGGAGACAAAATTTTCTGTTT
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTCTGTTT
817894 TTTTAAGAAA
Statistics
Matches: 145, Mismatches: 10, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
98 44 0.30
99 3 0.02
100 19 0.13
101 5 0.03
104 18 0.12
105 56 0.39
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (100 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCAAGGGA
AACTATCTCAGAGAGAAAAATCATTTCAAGGGAAA
Found at i:819369 original size:183 final size:182
Alignment explanation
Indices: 819061--819597 Score: 941
Period size: 183 Copynumber: 2.9 Consensus size: 182
819051 ATCAGGTTTA
819061 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTG-CCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * * **
819126 ACCAAGTGTCTGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
65 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
819190 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATT
129 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
819244 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTCGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTT-GCCTGACAAAAGCAGTGGAGCAAACACCGAATT
819309 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
65 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
819374 TCCTCTATAACCAATTGCCTTAGTGGAATATCTCAGCTTTAGAGGGACAAATC
130 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
* *
819427 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGTCTGACAAAAACAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTT-GCCTGACAAAAGCAGTGGAGCAAACACCGAATT
819492 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
65 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
819557 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
819598 CGGATTTAAT
Statistics
Matches: 339, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
183 337 0.99
184 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (182 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGCCTGACAAAAGCAGTGGAGCAAACACCGAATTG
CCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:823546 original size:18 final size:18
Alignment explanation
Indices: 823520--823554 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
823510 ATAAAAATAA
*
823520 TTAAAAATATATATATAT
1 TTAAAAATAGATATATAT
*
823538 TTAATAATAGATATATA
1 TTAAAAATAGATATATA
823555 AATAAACTAT
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:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTAAAAATAGATATATAT
Found at i:827224 original size:36 final size:36
Alignment explanation
Indices: 827177--827250 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
827167 GTGCTGGAAA
827177 CGGAGCTATGGGGCATTTTAGAAGGCCTCAAGATTG
1 CGGAGCTATGGGGCATTTTAGAAGGCCTCAAGATTG
827213 CGGAGCTATGGGGCATTTTAGAAGGCCTCAAGATTG
1 CGGAGCTATGGGGCATTTTAGAAGGCCTCAAGATTG
827249 CG
1 CG
827251 TGGCAGCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (36 bp):
CGGAGCTATGGGGCATTTTAGAAGGCCTCAAGATTG
Found at i:842611 original size:24 final size:25
Alignment explanation
Indices: 842552--842614 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
842542 GTAAAAAATC
842552 AAATATTTATTTTTAATCAAATTACT
1 AAATATTTATTTTT-ATCAAATTACT
*
842578 AAATAATTTATTTTT-TTAAATTA-T
1 AAAT-ATTTATTTTTATCAAATTACT
842602 AAATATTTTATTT
1 AAATA-TTTATTT
842615 ATAATTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 1 0.03
24 12 0.35
25 7 0.21
26 4 0.12
27 10 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
AAATATTTATTTTTATCAAATTACT
Found at i:842615 original size:20 final size:19
Alignment explanation
Indices: 842586--842624 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
842576 CTAAATAATT
842586 TATTTTTTTA-AATTATAAA
1 TATTTTTTTATAATT-TAAA
842605 TATTTTATTTATAATTTAAA
1 TATTTT-TTTATAATTTAAA
842625 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTTTATAATTTAAA
Found at i:847750 original size:35 final size:35
Alignment explanation
Indices: 847702--847813 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
847692 TCTAAATCTT
* *
847702 AAATTGAAGTATTTTAGAATTTGGGGTTTAAAATT
1 AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
* * *
847737 TAATTGAATTATTTTAGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
* * * *
847772 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
847807 AAATTGA
1 AAATTGA
847814 GGACTGTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
Found at i:851715 original size:83 final size:83
Alignment explanation
Indices: 851426--851705 Score: 409
Period size: 83 Copynumber: 3.4 Consensus size: 83
851416 ATTATGTGAA
* *
851426 ATGGCATAGATTCTCTGAATAATAATGGAAAACGCTTCCCCTGGAACGCACCTTTCATTTCGGAT
1 ATGGCAGAGATTCTCTGAATAATAATGGAAAACGCTTCCCTTGGAACGCACCTTTCATTTCGGAT
* *
851491 GGGATGAAACATTATGAC
66 GGGATTAAACACTATGAC
* * * *
851509 ATGACAGAGATTCTCTGAATAATAATGGAAAACGGTTCCCTTAGAACGCACCTTTCATTTTGGAT
1 ATGGCAGAGATTCTCTGAATAATAATGGAAAACGCTTCCCTTGGAACGCACCTTTCATTTCGGAT
* *
851574 GGGATTGAACACTATGAT
66 GGGATTAAACACTATGAC
* * * *
851592 ATGGCAGATATTCTCTAAATAATAATGGAAAACGCATCCCTTGGAACGCGCCTTTCATTTCGGAT
1 ATGGCAGAGATTCTCTGAATAATAATGGAAAACGCTTCCCTTGGAACGCACCTTTCATTTCGGAT
851657 GGGATTAAACACTATGAC
66 GGGATTAAACACTATGAC
* *
851675 ATGGCAAAGATT-TTTGAATAATAATGGAAAA
1 ATGGCAGAGATTCTCTGAATAATAATGGAAAA
851706 TGTTTTCCCT
Statistics
Matches: 173, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 17 0.10
83 156 0.90
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (83 bp):
ATGGCAGAGATTCTCTGAATAATAATGGAAAACGCTTCCCTTGGAACGCACCTTTCATTTCGGAT
GGGATTAAACACTATGAC
Found at i:852357 original size:18 final size:18
Alignment explanation
Indices: 852334--852432 Score: 90
Period size: 18 Copynumber: 4.9 Consensus size: 18
852324 ACTGAATATT
852334 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
852352 TGTCCCGAAGGACCACTATATATA
1 TGTCCCGAAGGACCAC------TA
*
852376 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
852394 TGTCCTGAAGGACCACTATATA
1 TGTCCCGAAGGACCAC----TA
852416 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
852433 CCTTAATAAC
Statistics
Matches: 69, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
18 35 0.51
22 17 0.25
24 17 0.25
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:852426 original size:40 final size:41
Alignment explanation
Indices: 852329--852432 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 41
852319 GGGGCACTGA
*
852329 ATATTTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTAT
1 ATATATGTCCCGAAGGACCACTATGTCCCGAAGGACCAC-AT
* *
852371 ATATATGTCCTGAAGGACCACTATGTCCTGAAGGACCAC-T
1 ATATATGTCCCGAAGGACCACTATGTCCCGAAGGACCACAT
852411 ATATATGTCCCGAAGGACCACT
1 ATATATGTCCCGAAGGACCACT
852433 CCTTAATAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 22 0.38
42 36 0.62
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (41 bp):
ATATATGTCCCGAAGGACCACTATGTCCCGAAGGACCACAT
Found at i:855081 original size:26 final size:27
Alignment explanation
Indices: 855046--855097 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
855036 TGAACTATAA
*
855046 AAACAACAAACCA-TAAACATTACATT
1 AAACAACAAACCATTAAACATGACATT
*
855072 AAACAACAAACTATTAAACATGACAT
1 AAACAACAAACCATTAAACATGACAT
855098 GAAGCATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (27 bp):
AAACAACAAACCATTAAACATGACATT
Found at i:855212 original size:6 final size:6
Alignment explanation
Indices: 855198--855228 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
855188 TGAATAAAAG
*
855198 CATACA CATATA CATACA CATACA CATACA C
1 CATACA CATACA CATACA CATACA CATACA C
855229 CTAAAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (6 bp):
CATACA
Found at i:856054 original size:3 final size:3
Alignment explanation
Indices: 856048--856075 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
856038 ATCATCATTA
856048 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
856076 TATCCTCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:858209 original size:12 final size:12
Alignment explanation
Indices: 858192--858221 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
858182 ATAATCAAAT
*
858192 AATAAATGCTAA
1 AATAAATACTAA
858204 AATAAATACTAA
1 AATAAATACTAA
858216 AATAAA
1 AATAAA
858222 ATAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (12 bp):
AATAAATACTAA
Found at i:858253 original size:16 final size:15
Alignment explanation
Indices: 858234--858278 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
858224 AATTAATTAC
858234 TTAAATAATAAAAAA
1 TTAAATAATAAAAAA
*
858249 TTTAATGAATAAAAAA
1 TTAAAT-AATAAAAAA
* *
858265 ATAAATTATAAAAA
1 TTAAATAATAAAAA
858279 CAATTATACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
TTAAATAATAAAAAA
Found at i:858267 original size:24 final size:24
Alignment explanation
Indices: 858214--858269 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
858204 AATAAATACT
* * *
858214 AAAATAAAATAATTAATTACTTAA
1 AAAATAAAATAATTAATGAATAAA
*
858238 ATAATAAAA-AATTTAATGAATAAA
1 AAAATAAAATAA-TTAATGAATAAA
858262 AAAATAAA
1 AAAATAAA
858270 TTATAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATAAAATAATTAATGAATAAA
Found at i:867454 original size:53 final size:53
Alignment explanation
Indices: 867389--867490 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
867379 CTAAGTGCCT
*
867389 AAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTCG
1 AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTCG
* * *
867442 AAATGGTCATTCATAAACTCATTATGAATACCATGGGTGCACACATAGT
1 AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGT
867491 ACCGAAAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (53 bp):
AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTCG
Found at i:868244 original size:20 final size:22
Alignment explanation
Indices: 868221--868271 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
868211 CTTCCTCTTG
868221 GTATCGATACCT-C-TACATCA
1 GTATCGATACCTACTTACATCA
*
868241 GTATCGATA-CTACTTTCATCA
1 GTATCGATACCTACTTACATCA
868262 GTATCGATAC
1 GTATCGATAC
868272 TGTTCATCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 10 0.37
21 15 0.56
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (22 bp):
GTATCGATACCTACTTACATCA
Found at i:876712 original size:22 final size:22
Alignment explanation
Indices: 876671--876712 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
876661 GTATGAATTA
*
876671 TACCGTGAACAATAATGAATAG
1 TACCGTGAACAATAACGAATAG
* *
876693 TACCGTGAACAGTACCGAAT
1 TACCGTGAACAATAACGAAT
876713 GCTAAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (22 bp):
TACCGTGAACAATAACGAATAG
Found at i:878014 original size:25 final size:24
Alignment explanation
Indices: 877986--878035 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
877976 TTTCATCGCT
*
877986 ATACATTTACTATTTATATACATAA
1 ATACATTTACTATGTAT-TACATAA
*
878011 ATACATTTACTGTGTATTACATAA
1 ATACATTTACTATGTATTACATAA
878035 A
1 A
878036 CTCTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (24 bp):
ATACATTTACTATGTATTACATAA
Found at i:878620 original size:32 final size:32
Alignment explanation
Indices: 878537--878690 Score: 156
Period size: 32 Copynumber: 4.9 Consensus size: 32
878527 AAATGAACTA
* *
878537 TCCATATGTTCC-TAAGAACATAGGTAA-T-TG
1 TCCATATGTCCCGAAAG-ACATAGGTAATTATG
* *
878567 TCTATATGTCCTG-AAGAACATAGGTAATTATG
1 TCCATATGTCCCGAAAG-ACATAGGTAATTATG
* * *
878599 TCCATATGACCCGAAAGACATAGATAA-TACTA
1 TCCATATGTCCCGAAAGACATAGGTAATTA-TG
*
878631 TCCATATGTCCCGAAAGACATAGGTAATCATG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
* *
878663 TCCATATGTCCCAAAATACATAGGTAAT
1 TCCATATGTCCCGAAAGACATAGGTAAT
878691 CCTTGACTCT
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
30 23 0.22
31 3 0.03
32 74 0.71
33 4 0.04
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (32 bp):
TCCATATGTCCCGAAAGACATAGGTAATTATG
Found at i:878653 original size:64 final size:64
Alignment explanation
Indices: 878570--878690 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
878560 GTAATTGTCT
* * *
878570 ATATGTCCTGAAGAACATAGGTAATTATGTCCATATGACCCGAAAGACATAGATAATACTATCC
1 ATATGTCCCGAAGAACATAGGTAATCATGTCCATATGACCCAAAAGACATAGATAATACTATCC
* * *
878634 ATATGTCCCGAA-AGACATAGGTAATCATGTCCATATGTCCCAAAATACATAGGTAAT
1 ATATGTCCCGAAGA-ACATAGGTAATCATGTCCATATGACCCAAAAGACATAGATAAT
878691 CCTTGACTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 1 0.02
64 49 0.98
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (64 bp):
ATATGTCCCGAAGAACATAGGTAATCATGTCCATATGACCCAAAAGACATAGATAATACTATCC
Found at i:881666 original size:64 final size:63
Alignment explanation
Indices: 881564--881716 Score: 195
Period size: 63 Copynumber: 2.4 Consensus size: 63
881554 GAATGACCTA
* * * * *
881564 TCCATATGTTCC-TAAGAACATAGGT-A-ACTGTCCATATGTCCCGAATGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAG-ACATAGGTAATACTGTCCATATGTCCCGAAAGACATAAGTAA-TCAG
* * *
881626 TCTATATGTCCCGAAAGATATCGGTAATACTGTCCATATGTCCCGAAAGACATAAGTAATCAG
1 TCCATATGTCCCGAAAGACATAGGTAATACTGTCCATATGTCCCGAAAGACATAAGTAATCAG
881689 TCCATATGTCCCGAAAGACATAGGTAAT
1 TCCATATGTCCCGAAAGACATAGGTAAT
881717 CCTCGACTCT
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 16 0.21
63 32 0.42
64 29 0.38
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (63 bp):
TCCATATGTCCCGAAAGACATAGGTAATACTGTCCATATGTCCCGAAAGACATAAGTAATCAG
Found at i:881695 original size:31 final size:31
Alignment explanation
Indices: 881564--881717 Score: 195
Period size: 32 Copynumber: 4.9 Consensus size: 31
881554 GAATGACCTA
* *
881564 TCCATATGTTCC-TAAGAACATAGGTAA-CTG
1 TCCATATGTCCCGAAAG-ACATAGGTAATCTG
*
881594 TCCATATGTCCCGAATGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAA-TCTG
* * *
881626 TCTATATGTCCCGAAAGATATCGGTAATACTG
1 TCCATATGTCCCGAAAGACATAGGTAAT-CTG
* *
881658 TCCATATGTCCCGAAAGACATAAGTAATCAG
1 TCCATATGTCCCGAAAGACATAGGTAATCTG
881689 TCCATATGTCCCGAAAGACATAGGTAATC
1 TCCATATGTCCCGAAAGACATAGGTAATC
881718 CTCGACTCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.20
31 33 0.31
32 53 0.50
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (31 bp):
TCCATATGTCCCGAAAGACATAGGTAATCTG
Found at i:887867 original size:35 final size:35
Alignment explanation
Indices: 887828--888036 Score: 296
Period size: 35 Copynumber: 5.9 Consensus size: 35
887818 AGATAAACAT
* *
887828 TTGAATCGAAAGTGCTGATGCTTACTTCCGTTCAC
1 TTGAATCGAAAGTGCTCATGCTTCCTTCCGTTCAC
* *
887863 TTGAATCGAAAGTG-TCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCTC-ATGCTTCCTTCCGTTC-AC
*
887899 TTGAATCGAAAGTGCCCATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCTCATGCTTCCTTCCGTTCAC
*
887934 TTGAATCGAAAGTGCCCATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCTCATGCTTCCTTCCGTTCAC
887969 TTGAATCGAAAGTG-TCCATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCT-CATGCTTCCTTCCGTTCAC
* * *
888004 TTGAATCGAAAGTGCCCATGCTTCATTTCGTTC
1 TTGAATCGAAAGTGCTCATGCTTCCTTCCGTTC
888037 TTCTTATTCA
Statistics
Matches: 158, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
34 1 0.01
35 126 0.80
36 30 0.19
37 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (35 bp):
TTGAATCGAAAGTGCTCATGCTTCCTTCCGTTCAC
Found at i:892217 original size:69 final size:69
Alignment explanation
Indices: 892128--892268 Score: 194
Period size: 69 Copynumber: 2.0 Consensus size: 69
892118 GCCACGACAC
* * * * *
892128 TATCACCAACCAAACTATGACGTATATACTCAACAGAATCATTAATATTCAAGACATGGCCATGA
1 TATCACCAACCAAACTATGACGCATATACTCAACAGAATCATTAATACTCAAAACAAGACCATGA
892193 GAAT
66 GAAT
* * *
892197 TATCACCAACTAAAGC-ATGACGCATATTCTCAACAGAATCATTAATGCTCAAAACAAGACCATG
1 TATCACCAACCAAA-CTATGACGCATATACTCAACAGAATCATTAATACTCAAAACAAGACCATG
892261 AGAAT
65 AGAAT
892266 TAT
1 TAT
892269 GACCTTGCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 62 0.98
70 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (69 bp):
TATCACCAACCAAACTATGACGCATATACTCAACAGAATCATTAATACTCAAAACAAGACCATGA
GAAT
Done.