Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004893.1 Hibiscus syriacus cultivar Beakdansim tig00011015_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: 120889
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Found at i:7941 original size:20 final size:20
Alignment explanation
Indices: 7918--7997 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 20
7908 TTGGTGCAGA
*
7918 GGGAATCGATACCCCCATGA-
1 GGGAACCGATACCCCC-TGAG
*
7938 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC--TG-AG
*
7961 GGGAACCGATTCCCCCT-AG
1 GGGAACCGATACCCCCTGAG
*
7980 GGGAATCGATACCCCCTG
1 GGGAACCGATACCCCCTG
7998 GGGTTATGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 17 0.33
20 14 0.27
21 3 0.06
22 1 0.02
23 16 0.31
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (20 bp):
GGGAACCGATACCCCCTGAG
Found at i:10009 original size:33 final size:31
Alignment explanation
Indices: 9956--10020 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 31
9946 TTTTAACATT
*
9956 TTGATTATTTTGGAATGTTTGAATTTTTGGA
1 TTGATTATTTTGGAATGTTTGAATTTATGGA
*
9987 TTGATTGATTTT-GAATTTGTTTGGATTTATGGA
1 TTGATT-ATTTTGGAA--TGTTTGAATTTATGGA
10020 T
1 T
10021 GGTGAGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 9 0.31
32 5 0.17
33 15 0.52
ACGTcount: A:0.22, C:0.00, G:0.23, T:0.55
Consensus pattern (31 bp):
TTGATTATTTTGGAATGTTTGAATTTATGGA
Found at i:13203 original size:74 final size:74
Alignment explanation
Indices: 13119--13494 Score: 517
Period size: 74 Copynumber: 5.1 Consensus size: 74
13109 CTGATTAACA
* * * ** * *
13119 TGATGATTACTTAATTAACATGATGTTTTCAATTGAATTTTTAAAGAAGAGAAGTTTGATTTTCA
1 TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTCTGATTTTTA
*
13184 AAGGTTTCT
66 GAGGTTTCT
*
13193 TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAA-AAGCCAAGTCTGATTTTCA
1 TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTCTGATTTTTA
*
13257 GAGGTTTGT
66 GAGGTTTCT
*
13266 TGATGATTA-TTCGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTATGATTTTT
1 TGATGATTACTT-GATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTCTGATTTTT
13330 AGAGGTTTCT
65 AGAGGTTTCT
*
13340 TGATGATTACTAT-ATTGATATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTCTGATTTTT
1 TGATGATTACT-TGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTCTGATTTTT
13404 AGAGGTTTCT
65 AGAGGTTTCT
* * * * *
13414 TTATTATTACTTGATTGATATGATGTTTTCAAATGATTTTTTGAAGAAGCCAAGT-TAGATTTTT
1 TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTCT-GATTTTT
* *
13478 AAAGGGTTCT
65 AGAGGTTTCT
*
13488 TAATGAT
1 TGATGAT
13495 ATGTCCTCTC
Statistics
Matches: 275, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
72 2 0.01
73 67 0.24
74 204 0.74
75 1 0.00
76 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (74 bp):
TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTCTGATTTTTA
GAGGTTTCT
Found at i:13466 original size:148 final size:146
Alignment explanation
Indices: 13119--13494 Score: 531
Period size: 147 Copynumber: 2.5 Consensus size: 146
13109 CTGATTAACA
* * * ** *
13119 TGATGATTACTTAATTAACATGATGTTTTCAATTGAATTTTTAAAGAAGAGAAGTTTGATTTTCA
1 TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAG-TTGATTTTTA
13184 AAGGTTTCTTGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAAAGCCAAGTCT
65 AAGGTTTCTTGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAAAGCCAAGTCT
*
13249 GATTTTCAGAGGTTTGT
130 GATTTTCAGAGGTTTCT
13266 TGATGATTA-TTCGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTATGATTTTT
1 TGATGATTACTT-GATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGT-TGATTTTT
* *
13330 AGAGGTTTCTTGATGATTACTAT-ATTGATATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAG
64 AAAGGTTTCTTGATGATTACT-TGATTGACATGATGTTTTCAAATGAATTTTTAAA-AAGCCAAG
*
13394 TCTGATTTTTAGAGGTTTCT
127 TCTGATTTTCAGAGGTTTCT
* * * * *
13414 TTATTATTACTTGATTGATATGATGTTTTCAAATGATTTTTTGAAGAAGCCAAGTTAGATTTTTA
1 TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTT-GATTTTTA
* *
13479 AAGGGTTCTTAATGAT
65 AAGGTTTCTTGATGAT
13495 ATGTCCTCTC
Statistics
Matches: 205, Mismatches: 18, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
146 3 0.01
147 105 0.51
148 95 0.46
149 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (146 bp):
TGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTTGATTTTTAA
AGGTTTCTTGATGATTACTTGATTGACATGATGTTTTCAAATGAATTTTTAAAAAGCCAAGTCTG
ATTTTCAGAGGTTTCT
Found at i:14084 original size:45 final size:45
Alignment explanation
Indices: 14020--14215 Score: 283
Period size: 45 Copynumber: 4.4 Consensus size: 45
14010 ATCAATCTAC
14020 TTACCATTTA-TCCTATAAGCTCGTAAGCTTATTTTACCAATAAAA
1 TTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATAAAA
* * *
14065 TTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATAAAA
*
14110 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACA
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATA-AAA
* * *
14155 -TACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATAAAA
14199 TTACCA-TTATTCCATAA
1 TTACCATTTATTCCATAA
14216 ACCATATTCC
Statistics
Matches: 135, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
44 49 0.36
45 83 0.61
46 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATAAAA
Found at i:14127 original size:89 final size:89
Alignment explanation
Indices: 14012--14215 Score: 349
Period size: 89 Copynumber: 2.3 Consensus size: 89
14002 CATTTCTTAT
*
14012 CAATCTACTTACCATT-TATCCTATAAGCTCGTAAGCTTATTTTACCAATA-AAATTACCATTTG
1 CAATATACTTACCATTAT-TCC-ATAAGCTCGTAAGCTTATTTTACCAATATAAA-TACCATTTG
14075 TTCCATAAGCTCGTAAGCTTATTTTAC
63 TTCCATAAGCTCGTAAGCTTATTTTAC
*
14102 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACATACCATTTGTTC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAAATACCATTTGTTC
14167 CATAAGCTCGTAAGCTTATTTTAC
66 CATAAGCTCGTAAGCTTATTTTAC
14191 CAATATACTTACCATTATTCCATAA
1 CAATATACTTACCATTATTCCATAA
14216 ACCATATTCC
Statistics
Matches: 110, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
89 89 0.81
90 20 0.18
91 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (89 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAAATACCATTTGTTC
CATAAGCTCGTAAGCTTATTTTAC
Found at i:18219 original size:10 final size:9
Alignment explanation
Indices: 18206--18265 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 9
18196 TTTTTCCTCT
18206 TTTTCTTTTC
1 TTTT-TTTTC
18216 TTTTCTTGTTC
1 TTTT-TT-TTC
18227 TGTTTTTTTC
1 T-TTTTTTTC
18237 TTCGTTTTTTCC
1 TT--TTTTTT-C
18249 TTTTTTTTC
1 TTTTTTTTC
18258 TTTTTTTT
1 TTTTTTTT
18266 ATATTATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
9 10 0.22
10 17 0.38
11 12 0.27
12 6 0.13
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:18265 original size:21 final size:20
Alignment explanation
Indices: 18206--18265 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
18196 TTTTTCCTCT
* *
18206 TTTTCTTTTCTTTTCTTGTTC
1 TTTT-TTTTCTTTTTTTTTTC
* *
18227 TGTTTTTTTCTTCGTTTTTTCC
1 T-TTTTTTTCTT-TTTTTTTTC
18249 TTTTTTTTCTTTTTTTT
1 TTTTTTTTCTTTTTTTT
18266 ATATTATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.16
21 18 0.56
22 9 0.28
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTTTTTC
Found at i:21032 original size:45 final size:45
Alignment explanation
Indices: 20981--21179 Score: 321
Period size: 45 Copynumber: 4.5 Consensus size: 45
20971 CTTATCAGTT
*
20981 TACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATA
1 TACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
* *
21026 TACTTACCATTTGTTCCATAAGCTCGTAAGTTTATTTTACCAATA
1 TACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
*
21071 TACTTACCA-TTATTCCGTAAGCTCGTAAGCTTATTTTACCAATA
1 TACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
* * *
21115 TACATACCATATGTTCCATAAGCTCGTAAGCTTATTTTACCAATA
1 TACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
21160 TACTTACCA-TTATTCCATAA
1 TACTTACCATTTATTCCATAA
21180 ACCATATTCC
Statistics
Matches: 140, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
44 49 0.35
45 91 0.65
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (45 bp):
TACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATA
Found at i:21093 original size:89 final size:89
Alignment explanation
Indices: 20981--21179 Score: 344
Period size: 89 Copynumber: 2.2 Consensus size: 89
20971 CTTATCAGTT
* * *
20981 TACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTGTTCCATA
1 TACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACATACCATATGTTCCATA
*
21046 AGCTCGTAAGTTTATTTTACCAATA
65 AGCTCGTAAGCTTATTTTACCAATA
*
21071 TACTTACCATTATTCCGTAAGCTCGTAAGCTTATTTTACCAATATACATACCATATGTTCCATAA
1 TACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACATACCATATGTTCCATAA
21136 GCTCGTAAGCTTATTTTACCAATA
66 GCTCGTAAGCTTATTTTACCAATA
21160 TACTTACCATTATTCCATAA
1 TACTTACCATTATTCCATAA
21180 ACCATATTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 94 0.91
90 9 0.09
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (89 bp):
TACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACATACCATATGTTCCATAA
GCTCGTAAGCTTATTTTACCAATA
Found at i:23659 original size:44 final size:44
Alignment explanation
Indices: 23501--23817 Score: 320
Period size: 44 Copynumber: 7.2 Consensus size: 44
23491 TGGTATTACA
* * * *
23501 CCATCACATAAGAAGCTGGATCAGCATCACCATTTCG-TTCAATT
1 CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTT-GATT
* * * * *
23545 CCATCATATAAGGAGTTGCA-CAACATTAACATTTCTCTTGATT
1 CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTTGATT
* *
23588 CCATCAC-TAAGGAGTTCGATCAACATCAACATTTCGCTTGATT
1 CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTTGATT
* * * **
23631 CTATCACATAAGGAGTTGGATCTGCATCATCATTTCGCTCAATT
1 CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTTGATT
* * *
23675 CCATCATATAAGGAGTTGGATTAGCATCAATATTTCG-TTCGATT
1 CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTT-GATT
* * *
23719 TCATCACATAAGGAGTTGGATTAGCATCAACATTTTGCTTGATT
1 CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTTGATT
** * * *
23763 CTGTCGCATAAGAAGTTGGATCAGCATCAATATTTCG-TTCGATT
1 CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTT-GATT
*
23807 CCATCGCATAA
1 CCATCACATAA
23818 TATCAGTATT
Statistics
Matches: 224, Mismatches: 43, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
42 10 0.04
43 51 0.23
44 161 0.72
45 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (44 bp):
CCATCACATAAGGAGTTGGATCAGCATCAACATTTCGCTTGATT
Found at i:23746 original size:23 final size:22
Alignment explanation
Indices: 23676--23748 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
23666 CGCTCAATTC
23676 CATCATATAAGGAGTTGGATTAG
1 CATCA-ATAAGGAGTTGGATTAG
**** * *
23699 CATCAATATTTCGTTCGATT-T
1 CATCAATAAGGAGTTGGATTAG
23720 CATCACATAAGGAGTTGGATTAG
1 CATCA-ATAAGGAGTTGGATTAG
23743 CATCAA
1 CATCAA
23749 CATTTTGCTT
Statistics
Matches: 36, Mismatches: 12, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
21 5 0.14
22 21 0.58
23 10 0.28
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (22 bp):
CATCAATAAGGAGTTGGATTAG
Found at i:23782 original size:132 final size:130
Alignment explanation
Indices: 23503--23811 Score: 397
Period size: 132 Copynumber: 2.4 Consensus size: 130
23493 GTATTACACC
* *
23503 ATCACATAAGAAGCTGGATCAGCATCACCATTTCGTTCAATTCCATCATATAAGGAGTTGCACAA
1 ATCACATAAGAAGTTGGATCAGCATCATCATTTCGTTCAATTCCATCATATAAGGAGTTGCACAA
* *
23568 CATTAACATTTCTCTTGATTCCATCACTAAGGAGTTCGATCAACATCAACATTTCGCTTGATTCT
66 CATCAACATTTCTCTCGATTCCATCACTAAGGAGTTCGATCAACATCAACATTTCGCTTGATTCT
* * * * *
23633 ATCACATAAGGAGTTGGATCTGCATCATCATTTCGCTCAATTCCATCATATAAGGAGTTGGATTA
1 ATCACATAAGAAGTTGGATCAGCATCATCATTTCGTTCAATTCCATCATATAAGGAGTTGCA-CA
* * * * * * *
23698 GCATCAATATTTCGT-TCGATTTCATCACATAAGGAGTTGGATTAGCATCAACATTTTGCTTGAT
65 ACATCAACATTTC-TCTCGATTCCATCAC-TAAGGAGTTCGATCAACATCAACATTTCGCTTGAT
23762 TCT
128 TCT
* * *
23765 GTCGCATAAGAAGTTGGATCAGCATCAAT-ATTTCGTTCGATTCCATC
1 ATCACATAAGAAGTTGGATCAGCATC-ATCATTTCGTTCAATTCCATC
23812 GCATAATATC
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
130 56 0.37
131 22 0.14
132 73 0.48
133 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (130 bp):
ATCACATAAGAAGTTGGATCAGCATCATCATTTCGTTCAATTCCATCATATAAGGAGTTGCACAA
CATCAACATTTCTCTCGATTCCATCACTAAGGAGTTCGATCAACATCAACATTTCGCTTGATTCT
Found at i:23951 original size:36 final size:36
Alignment explanation
Indices: 23908--23993 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
23898 TCAAAAATCA
* * *
23908 TTTTTCTTAAAACATATTTTATCTCACTTGAGATTT
1 TTTTTCTTAAAACAGATTTTATCTCACATGAGATTG
*
23944 TTTTTCTTAAAACAGATTTTATCTCAGATGAGATTG
1 TTTTTCTTAAAACAGATTTTATCTCACATGAGATTG
*
23980 TTTTCCTTAAAACA
1 TTTTTCTTAAAACA
23994 AATATTCTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (36 bp):
TTTTTCTTAAAACAGATTTTATCTCACATGAGATTG
Found at i:28972 original size:20 final size:20
Alignment explanation
Indices: 28947--29002 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
28937 GCAGAGTGAC
*
28947 GGGGAAGAGAGTGAAGGGGA
1 GGGGAAGAGAGGGAAGGGGA
28967 GGGGAAGAGAGGGAAGGGGA
1 GGGGAAGAGAGGGAAGGGGA
28987 ----AAGAGAGGGAAGGGGA
1 GGGGAAGAGAGGGAAGGGGA
29003 AGAGAGGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 16 0.46
20 19 0.54
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.02
Consensus pattern (20 bp):
GGGGAAGAGAGGGAAGGGGA
Found at i:28992 original size:16 final size:15
Alignment explanation
Indices: 28961--29010 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
28951 AAGAGAGTGA
*
28961 AGGGGAGGGGAAGAG
1 AGGGAAGGGGAAGAG
28976 AGGGAAGGGGAAAGAG
1 AGGGAAGGGG-AAGAG
28992 AGGGAAGGGGAAGAG
1 AGGGAAGGGGAAGAG
29007 AGGG
1 AGGG
29011 GATTAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
15 18 0.55
16 15 0.45
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (15 bp):
AGGGAAGGGGAAGAG
Found at i:29012 original size:16 final size:16
Alignment explanation
Indices: 28961--29012 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
28951 AAGAGAGTGA
28961 AGGGG-AGGGGAAGAG
1 AGGGGAAGGGGAAGAG
28976 A-GGGAAGGGGAA-AG
1 AGGGGAAGGGGAAGAG
28990 AGAGGGAAGGGGAAGAG
1 AG-GGGAAGGGGAAGAG
29007 AGGGGA
1 AGGGGA
29013 TTAATTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 15 0.45
17 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (16 bp):
AGGGGAAGGGGAAGAG
Found at i:29599 original size:22 final size:22
Alignment explanation
Indices: 29574--29621 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
29564 ATTTATGTTT
*
29574 AAAAATA-CTAATATTTTTTTAA
1 AAAAATAGCTAAT-TTATTTTAA
29596 AAAAATATGCTAATTTATTTTAA
1 AAAAATA-GCTAATTTATTTTAA
29619 AAA
1 AAA
29622 TATTTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 11 0.48
24 5 0.22
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAAATAGCTAATTTATTTTAA
Found at i:29616 original size:24 final size:21
Alignment explanation
Indices: 29574--29621 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 21
29564 ATTTATGTTT
29574 AAAAATACTAATATTTTTTTAA
1 AAAAATACTAATA-TTTTTTAA
29596 AAAAATATGCTAAT-TTATTTTAA
1 AAAAATA--CTAATATT-TTTTAA
29619 AAA
1 AAA
29622 TATTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 9 0.39
23 9 0.39
24 5 0.22
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
AAAAATACTAATATTTTTTAA
Found at i:29622 original size:21 final size:20
Alignment explanation
Indices: 29563--29624 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 20
29553 AGTATGTGTC
29563 AATTTATGTTTAAAAATA-CT
1 AATTTAT-TTTAAAAATATCT
*
29583 AATATTTTTTTAAAAAAATATGCT
1 AAT-TTATTTT--AAAAATAT-CT
29607 AATTTATTTTAAAAATAT
1 AATTTATTTTAAAAATAT
29625 TTTCATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 6 0.17
21 11 0.31
22 7 0.20
23 6 0.17
24 5 0.14
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTTATTTTAAAAATATCT
Found at i:30107 original size:92 final size:92
Alignment explanation
Indices: 29950--30133 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
29940 CAATAGGCAA
29950 CTCTTATCAGTGATTTTGAATCGTGGCCTGGTAGAGGGGCAGTGGGTAGGGCTTAGATGTTCCAT
1 CTCTTATCAGTGATTTTGAATCGTGGCCTGGTAGAGGGGCAGTGGGTAGGGCTTAGATGTTCCAT
30015 AAAGATTGAACGAATAAATAGTAATAT
66 AAAGATTGAACGAATAAATAGTAATAT
30042 CTCTTATCAGTGATTTTGAATCGTGGCCTGGTAGAGGGGCAGTGGGTAGGGCTTAGATGTTCCAT
1 CTCTTATCAGTGATTTTGAATCGTGGCCTGGTAGAGGGGCAGTGGGTAGGGCTTAGATGTTCCAT
30107 AAAGATTGAACGAATAAATAGTAATAT
66 AAAGATTGAACGAATAAATAGTAATAT
30134 ATAGCTCCCA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.30
Consensus pattern (92 bp):
CTCTTATCAGTGATTTTGAATCGTGGCCTGGTAGAGGGGCAGTGGGTAGGGCTTAGATGTTCCAT
AAAGATTGAACGAATAAATAGTAATAT
Found at i:31202 original size:19 final size:19
Alignment explanation
Indices: 31179--31222 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
31169 AAATAAGAAG
*
31179 AAAATATAAATAA-ATAAA
1 AAAATATAAAGAAGATAAA
*
31197 ACAAATGTAAAGAAGATAAA
1 A-AAATATAAAGAAGATAAA
31217 AAAATA
1 AAAATA
31223 AAGATAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 14 0.67
20 6 0.29
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (19 bp):
AAAATATAAAGAAGATAAA
Found at i:31296 original size:3 final size:3
Alignment explanation
Indices: 31288--31313 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31278 AATAAAATAG
31288 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
31314 AAAAAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31647 original size:26 final size:26
Alignment explanation
Indices: 31609--31678 Score: 63
Period size: 29 Copynumber: 2.6 Consensus size: 26
31599 AGATAAAAAA
31609 AATAAA-ACATATAAAAT-ATAATAAT
1 AATAAAGA-ATATAAAATAATAATAAT
* * *
31634 GATAATGAAGTATATATAATAATAATAGT
1 AATAAAGAA-TATA-A-AATAATAATAAT
31663 AATAAAGAATATAAAA
1 AATAAAGAATATAAAA
31679 AAATTGAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
25 5 0.14
26 7 0.20
27 2 0.06
28 7 0.20
29 14 0.40
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (26 bp):
AATAAAGAATATAAAATAATAATAAT
Found at i:32060 original size:37 final size:37
Alignment explanation
Indices: 32010--32121 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
32000 ATGCTTATTG
*
32010 ATCCTATTTTTAGGAGTTTGAATCTTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
32047 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTAT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* *
32084 ATCCTATTTTTAGGAGTTTGAATCCTAATAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
32121 A
1 A
32122 ACGTTATGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:32882 original size:10 final size:10
Alignment explanation
Indices: 32864--32894 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
32854 CTTCATTTGG
32864 ATATTTTTTT
1 ATATTTTTTT
32874 -TATTTTTTT
1 ATATTTTTTT
32883 ATATTTTTTT
1 ATATTTTTTT
32893 AT
1 AT
32895 TTTCTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:32902 original size:17 final size:18
Alignment explanation
Indices: 32868--32904 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
32858 ATTTGGATAT
*
32868 TTTTTTTATTTTTTTATA
1 TTTTTTTATTTTTCTATA
32886 TTTTTTTA-TTTTCTATA
1 TTTTTTTATTTTTCTATA
32903 TT
1 TT
32905 CTATCGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTATTTTTCTATA
Found at i:33020 original size:20 final size:21
Alignment explanation
Indices: 32966--33023 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
32956 TTATTATTTA
32966 TATATATTTT-TATTACTATAAT
1 TATATATTTTATA-TA-TATAAT
* *
32988 TATATATTATATATATATATT
1 TATATATTTTATATATATAAT
33009 TAT-TATTTTATATAT
1 TATATATTTTATATAT
33024 TTCATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.34
21 8 0.25
22 11 0.34
23 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATATTTTATATATATAAT
Found at i:33048 original size:15 final size:15
Alignment explanation
Indices: 33028--33059 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33018 ATATATTTCA
*
33028 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
33043 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
33058 TT
1 TT
33060 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:33076 original size:20 final size:20
Alignment explanation
Indices: 33029--33082 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
33019 TATATTTCAT
*
33029 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
33050 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
33070 TGTTATTGTTATT
1 T-TTATTTTTATT
33083 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:33125 original size:32 final size:31
Alignment explanation
Indices: 33053--33131 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
33043 TTTTATCTTC
33053 TATTTTTATTTTTGTATTGTTATTGTTATTA
1 TATTTTTATTTTTGTATTGTTATTGTTATTA
*
33084 TCTTCTTTATTTTATGTATT-TTATT-TATATATA
1 TATT-TTTATTTT-TGTATTGTTATTGT-TAT-TA
*
33117 TATTTTTATATTTGT
1 TATTTTTATTTTTGT
33132 TTTTGTACCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 7 0.17
32 23 0.56
33 11 0.27
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.70
Consensus pattern (31 bp):
TATTTTTATTTTTGTATTGTTATTGTTATTA
Found at i:33268 original size:12 final size:11
Alignment explanation
Indices: 33240--33269 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
33230 TTATTTTATT
33240 CATTTTTACTA
1 CATTTTTACTA
33251 CATTTTTACTA
1 CATTTTTACTA
33262 CATTTTTA
1 CATTTTTA
33270 TCTAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (11 bp):
CATTTTTACTA
Found at i:46370 original size:23 final size:21
Alignment explanation
Indices: 46318--46379 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
46308 TTTTGGTGCA
*
46318 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
46338 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
46359 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
46380 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:46814 original size:25 final size:26
Alignment explanation
Indices: 46766--46816 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
46756 AGAATTTTCC
46766 AAAAAAAATTTAAATTTTCGAAATTA
1 AAAAAAAATTTAAATTTTCGAAATTA
46792 AAAAAAAATGTT-AATTTTC-AAATTA
1 AAAAAAAAT-TTAAATTTTCGAAATTA
46817 TCGTGTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.25
26 16 0.67
27 2 0.08
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (26 bp):
AAAAAAAATTTAAATTTTCGAAATTA
Found at i:49208 original size:20 final size:20
Alignment explanation
Indices: 49183--49233 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
49173 CACTTAGGGA
49183 ACCGATTCCCCATAGGGGGT
1 ACCGATTCCCCATAGGGGGT
49203 ACCGATTCCCCATAGGGGGT
1 ACCGATTCCCCATAGGGGGT
49223 ACCGATTCCCC
1 ACCGATTCCCC
49234 CCACGCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
ACCGATTCCCCATAGGGGGT
Found at i:51689 original size:22 final size:22
Alignment explanation
Indices: 51661--51704 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
51651 TAACATGGCA
*
51661 GAATATGAGGCCTGTGTATTGG
1 GAATATGAGGCATGTGTATTGG
*
51683 GAATATGAGGCATGTGTCTTGG
1 GAATATGAGGCATGTGTATTGG
51705 AAATTCGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.09, G:0.36, T:0.32
Consensus pattern (22 bp):
GAATATGAGGCATGTGTATTGG
Found at i:53394 original size:17 final size:17
Alignment explanation
Indices: 53372--53421 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
53362 ACCCTAAATT
*
53372 GAAAAAATAAAAAAAGA
1 GAAAAAAAAAAAAAAGA
53389 GAAAAAAGAACAAAAAAGA
1 GAAAAAA-AA-AAAAAAGA
53408 GAAAGAACAAAAAA
1 GAAA-AA-AAAAAA
53422 TAAGGTGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 7 0.25
18 1 0.04
19 15 0.54
20 4 0.14
21 1 0.04
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (17 bp):
GAAAAAAAAAAAAAAGA
Found at i:53395 original size:19 final size:19
Alignment explanation
Indices: 53380--53421 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
53370 TTGAAAAAAT
53380 AAAAAAAGAGAAAAAAGAA
1 AAAAAAAGAGAAAAAAGAA
* * *
53399 CAAAAAAGAGAAAGAACAA
1 AAAAAAAGAGAAAAAAGAA
53418 AAAA
1 AAAA
53422 TAAGGTGGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAGAAAAAAGAA
Found at i:54635 original size:110 final size:110
Alignment explanation
Indices: 54433--54639 Score: 324
Period size: 110 Copynumber: 1.9 Consensus size: 110
54423 GCTTCCCAGT
* * *
54433 TTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGCACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
*
54498 CAACGAAGGGACGACTGATTGTAAACAAACAACTTTTCAGTTTCA
66 CAACGAAGGGACGACTGACTGTAAACAAACAACTTTTCAGTTTCA
* *
54543 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* * * *
54608 TAGCGAAGGGGCGACTGACTGTCAACAAACAA
66 CAACGAAGGGACGACTGACTGTAAACAAACAA
54640 TTTCCAGAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.21
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGACGACTGACTGTAAACAAACAACTTTTCAGTTTCA
Found at i:56129 original size:2 final size:2
Alignment explanation
Indices: 56122--56151 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56112 TATCGTTATT
56122 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56152 CTTTTAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56260 original size:12 final size:13
Alignment explanation
Indices: 56229--56352 Score: 53
Period size: 13 Copynumber: 9.5 Consensus size: 13
56219 TATATATTTA
56229 TTATTTTATATAT
1 TTATTTTATATAT
*
56242 TTCATTTTATCT-T
1 TT-ATTTTATATAT
* *
56255 TTATTTTTTTATCT
1 TTA-TTTTATATAT
*
56269 TCTATTTT-TATTT
1 T-TATTTTATATAT
* *
56282 TTGTATTAT-TAT
1 TTATTTTATATAT
* * *
56294 TGT-TATTATCTTCT
1 T-TATTTTAT-ATAT
*
56308 TTATTTTATGTAT
1 TTATTTTATATAT
56321 TT-TATTTATATAT
1 TTAT-TTTATATAT
*
56334 ATATTTT-TATAT
1 TTATTTTATATAT
56346 TTATTTT
1 TTATTTT
56353 TGTGCCTCTT
Statistics
Matches: 86, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
12 26 0.30
13 35 0.41
14 23 0.27
15 2 0.02
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (13 bp):
TTATTTTATATAT
Found at i:56266 original size:15 final size:15
Alignment explanation
Indices: 56246--56277 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56236 ATATATTTCA
*
56246 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
56261 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
56276 TT
1 TT
56278 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:56294 original size:20 final size:18
Alignment explanation
Indices: 56229--56353 Score: 58
Period size: 20 Copynumber: 6.4 Consensus size: 18
56219 TATATATTTA
* *
56229 TTATTTTATATATTTCATT
1 TTATTTT-TATTTTTTATT
56248 TTATCTTTTATTTTTTTATCT
1 TTAT-TTTTA-TTTTTTAT-T
56269 TCTATTTTTATTTTTGTATT
1 T-TATTTTTATTTTT-TATT
* * *
56289 ATTATTGTTATTATCTT-CT
1 -TTATTTTTATT-TTTTATT
56308 TTA-TTTTATGTATTTTA-T
1 TTATTTTTAT-T-TTTTATT
* *
56326 TTATATATATATTTTTATAT
1 TTATTTTTAT-TTTTTAT-T
56346 TTATTTTT
1 TTATTTTT
56354 GTGCCTCTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
17 5 0.06
18 17 0.21
19 12 0.15
20 32 0.39
21 13 0.16
22 3 0.04
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTTTTATTTTTTATT
Found at i:56462 original size:29 final size:29
Alignment explanation
Indices: 56403--56465 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
56393 TCTTTATCTG
*
56403 TTTTATTTTCTCTACTTTATTGCATTTAT
1 TTTTATTTTCTCTACTTTATTGCATTCAT
* **
56432 TTTTA-TTTCATCTTCTTTATTTTATTCAT
1 TTTTATTTTC-TCTACTTTATTGCATTCAT
56461 TTTTA
1 TTTTA
56466 CTACATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.17, C:0.13, G:0.02, T:0.68
Consensus pattern (29 bp):
TTTTATTTTCTCTACTTTATTGCATTCAT
Found at i:61921 original size:24 final size:24
Alignment explanation
Indices: 61880--61926 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
61870 TTTAAGAAAT
*
61880 TAGATTTAATTATTTAAGACTAAAA
1 TAGATTTAATTATGTAAGA-TAAAA
*
61905 TAGA-TTAATTGTGTAAGATAAA
1 TAGATTTAATTATGTAAGATAAA
61927 GTTTACACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (24 bp):
TAGATTTAATTATGTAAGATAAAA
Found at i:63928 original size:26 final size:26
Alignment explanation
Indices: 63892--63942 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
63882 CCAAAGTGCT
63892 TACACATAAGGTCGTGCCCACTATAA
1 TACACATAAGGTCGTGCCCACTATAA
*
63918 TACACATAAGGTCGTGCTCACTATA
1 TACACATAAGGTCGTGCCCACTATA
63943 TGCACTAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (26 bp):
TACACATAAGGTCGTGCCCACTATAA
Found at i:65182 original size:20 final size:20
Alignment explanation
Indices: 65157--65206 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
65147 TCCATCTTGG
*
65157 AGGGAGCACCCTAATTTCTC
1 AGGGAGCAACCTAATTTCTC
65177 AGGGAGCAACCTAATTTCTC
1 AGGGAGCAACCTAATTTCTC
65197 AGGGAGCAAC
1 AGGGAGCAAC
65207 TCGAACAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (20 bp):
AGGGAGCAACCTAATTTCTC
Found at i:66983 original size:22 final size:22
Alignment explanation
Indices: 66957--67011 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
66947 TTTTATTTGT
*
66957 TTTTAATTTTTGGATATTTT-AA
1 TTTTAATTTTT-AATATTTTGAA
*
66979 TTTTAATTTTTAATTTTTTGAA
1 TTTTAATTTTTAATATTTTGAA
67001 TTTTAATTTTT
1 TTTTAATTTTT
67012 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTAATTTTTAATATTTTGAA
Found at i:66994 original size:29 final size:28
Alignment explanation
Indices: 66956--67010 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
66946 TTTTTATTTG
66956 TTTTTAATTTTTGGATATTTTAATTTTAA
1 TTTTTAATTTTTGGA-ATTTTAATTTTAA
*
66985 TTTTTAATTTTTTGAATTTTAATTTT
1 TTTTTAATTTTTGGAATTTTAATTTT
67011 TTTAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (28 bp):
TTTTTAATTTTTGGAATTTTAATTTTAA
Found at i:66997 original size:15 final size:15
Alignment explanation
Indices: 66956--67020 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
66946 TTTTTATTTG
**
66956 TTTTTAATTTTTGGA
1 TTTTTAATTTTTTAA
66971 TATTTTAA--TTTTAA
1 T-TTTTAATTTTTTAA
66985 TTTTTAATTTTTTGAA
1 TTTTTAATTTTTT-AA
67001 -TTTTAATTTTTTTAA
1 TTTTTAA-TTTTTTAA
67016 TTTTT
1 TTTTT
67021 TTCTTCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
13 6 0.14
14 5 0.12
15 13 0.31
16 18 0.43
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:67002 original size:9 final size:8
Alignment explanation
Indices: 66956--67021 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
66946 TTTTTATTTG
66956 TTTTTAAT
1 TTTTTAAT
**
66964 TTTTGGAT
1 TTTTTAAT
*
66972 ATTTTAA-
1 TTTTTAAT
66979 -TTTTAA-
1 TTTTTAAT
66985 TTTTTAAT
1 TTTTTAAT
66993 TTTTTGAA-
1 TTTTT-AAT
67001 -TTTTAATT
1 TTTTTAA-T
67009 TTTTTAAT
1 TTTTTAAT
67017 TTTTT
1 TTTTT
67022 TCTTCTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
6 8 0.17
7 10 0.21
8 21 0.45
9 8 0.17
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (8 bp):
TTTTTAAT
Found at i:67019 original size:22 final size:21
Alignment explanation
Indices: 66957--67019 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
66947 TTTTATTTGT
**
66957 TTTTAATTTTTGGATATTTTAA
1 TTTTAATTTTTTTA-ATTTTAA
66979 TTTTAA--TTTTTAATTTTTTGAA
1 TTTTAATTTTTTTAA--TTTT-AA
67001 TTTTAATTTTTTTAATTTT
1 TTTTAATTTTTTTAATTTT
67020 TTTCTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 1 0.03
20 4 0.12
21 4 0.12
22 18 0.53
24 7 0.21
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTAATTTTTTTAATTTTAA
Found at i:67020 original size:7 final size:7
Alignment explanation
Indices: 66956--67011 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
66946 TTTTTATTTG
66956 TTTTTAA
1 TTTTTAA
*
66963 TTTTTGGA
1 TTTTT-AA
66971 TATTTTAA
1 T-TTTTAA
66979 -TTTTAA
1 TTTTTAA
66985 TTTTTAA
1 TTTTTAA
66992 TTTTTTGAA
1 -TTTTT-AA
67001 -TTTTAA
1 TTTTTAA
67007 TTTTT
1 TTTTT
67012 TTAATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
6 8 0.20
7 19 0.46
8 8 0.20
9 6 0.15
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (7 bp):
TTTTTAA
Found at i:70945 original size:31 final size:32
Alignment explanation
Indices: 70907--71038 Score: 158
Period size: 32 Copynumber: 4.2 Consensus size: 32
70897 GAGCCAATCT
* *
70907 AAGGGAATGCCTTGGGGCCTTAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTCAGAGCCTACCC
70939 AA-GGAATACCTTGGGGCCTCAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTCAGAGCCTACCC
* *
70970 AAGGGAGTACCTTGGGGCCTCAGAACCTACCC
1 AAGGGAATACCTTGGGGCCTCAGAGCCTACCC
* * * * * * *
71002 AATGGAACATCTCGGGGCTTAAGAGCCTTCCC
1 AAGGGAATACCTTGGGGCCTCAGAGCCTACCC
71034 AAGGG
1 AAGGG
71039 TTACCTTAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
31 29 0.34
32 56 0.66
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.17
Consensus pattern (32 bp):
AAGGGAATACCTTGGGGCCTCAGAGCCTACCC
Found at i:70975 original size:63 final size:64
Alignment explanation
Indices: 70907--71038 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 64
70897 GAGCCAATCT
* * * * * *
70907 AAGGGAATGCCTTGGGGCCTTAGAGCCTACCCAA-GGAATACCTTGGGGCCTCAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTCAGAACCTACCCAATGGAACACCTCGGGGCCTAAGAGCCTACCC
* * * *
70970 AAGGGAGTACCTTGGGGCCTCAGAACCTACCCAATGGAACATCTCGGGGCTTAAGAGCCTTCCC
1 AAGGGAATACCTTGGGGCCTCAGAACCTACCCAATGGAACACCTCGGGGCCTAAGAGCCTACCC
71034 AAGGG
1 AAGGG
71039 TTACCTTAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
63 30 0.52
64 28 0.48
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.17
Consensus pattern (64 bp):
AAGGGAATACCTTGGGGCCTCAGAACCTACCCAATGGAACACCTCGGGGCCTAAGAGCCTACCC
Found at i:73174 original size:17 final size:18
Alignment explanation
Indices: 73154--73192 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
73144 GAAATATTAC
73154 TTTTCAAAAAATTTAA-T
1 TTTTCAAAAAATTTAACT
73171 TTTTCAAAAAATTTAACT
1 TTTTCAAAAAATTTAACT
73189 TTTT
1 TTTT
73193 ATCAAAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTCAAAAAATTTAACT
Found at i:74456 original size:70 final size:70
Alignment explanation
Indices: 74376--74513 Score: 258
Period size: 70 Copynumber: 2.0 Consensus size: 70
74366 AGGTTTTTCA
*
74376 GTTTCGGGAACATTTATTAGTTATATGTTATACTAAAATATTTATCAAATATTTTATTCTATAAG
1 GTTTCAGGAACATTTATTAGTTATATGTTATACTAAAATATTTATCAAATATTTTATTCTATAAG
74441 ACTCC
66 ACTCC
*
74446 GTTTCAGGAACATTTATTAGTTATATGTTATACTAGAATATTTATCAAATATTTTATTCTATAAG
1 GTTTCAGGAACATTTATTAGTTATATGTTATACTAAAATATTTATCAAATATTTTATTCTATAAG
74511 ACT
66 ACT
74514 ACGATGATTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (70 bp):
GTTTCAGGAACATTTATTAGTTATATGTTATACTAAAATATTTATCAAATATTTTATTCTATAAG
ACTCC
Found at i:76453 original size:3 final size:3
Alignment explanation
Indices: 76445--76512 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
76435 TAGGTCTGTC
* *
76445 ATT ATT ATT ATT ATT GTC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
76493 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
76513 CATCATCATC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:76464 original size:18 final size:18
Alignment explanation
Indices: 76443--76518 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
76433 ACTAGGTCTG
*
76443 TCATTATTATTATTATTG
1 TCATTATTATTATTATTA
76461 TCATTATTATTATTATTA
1 TCATTATTATTATTATTA
*
76479 TTATTATTATTATTATTA
1 TCATTATTATTATTATTA
* *
76497 TTATTATTATTATTATCA
1 TCATTATTATTATTATTA
76515 TCAT
1 TCAT
76519 CATCATTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (18 bp):
TCATTATTATTATTATTA
Found at i:81033 original size:2 final size:2
Alignment explanation
Indices: 81026--81057 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
81016 AATTACTCAC
81026 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
81058 TAAATACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87817 original size:6 final size:6
Alignment explanation
Indices: 87808--87838 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
87798 ATATATATAT
*
87808 ATATTA ATATTA ATAATA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA A
87839 ATACACATTT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
ATATTA
Found at i:93664 original size:29 final size:29
Alignment explanation
Indices: 93631--93696 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
93621 TTTAAGATTG
*
93631 TAGAATCATTTCCAAGCGTGATTGATGAT
1 TAGAATCATTTCCAAGCGTGATTAATGAT
*
93660 TAGAATCATTTCCTAGCGTGATTAATGAT
1 TAGAATCATTTCCAAGCGTGATTAATGAT
*
93689 TAAAATCA
1 TAGAATCA
93697 CTTGTACATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (29 bp):
TAGAATCATTTCCAAGCGTGATTAATGAT
Found at i:97713 original size:91 final size:91
Alignment explanation
Indices: 97554--97740 Score: 358
Period size: 91 Copynumber: 2.1 Consensus size: 91
97544 ACAAAAATTT
97554 CTTC-GCTAACTCATTCCAAGATACTATACCACCTGGTGGAAGTGAACTTAACCAAGCTTTTGCT
1 CTTCAGCTAACTCATTCCAAGATACTATACCACCTGGTGGAAGTGAACTTAACCAAGCTTTTGCT
*
97618 TTAACACATAGCAAATAAGGACATAG
66 TTAACACACAGCAAATAAGGACATAG
97644 CTTCAGCTAACTCATTCCAAGATACTATACCACCTGGTGGAAGTGAACTTAACCAAGCTTTTGCT
1 CTTCAGCTAACTCATTCCAAGATACTATACCACCTGGTGGAAGTGAACTTAACCAAGCTTTTGCT
97709 TTAACACACAGCAAATAAGGACATAG
66 TTAACACACAGCAAATAAGGACATAG
97735 CTTCAG
1 CTTCAG
97741 GTTCAGTGCC
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 4 0.04
91 91 0.96
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (91 bp):
CTTCAGCTAACTCATTCCAAGATACTATACCACCTGGTGGAAGTGAACTTAACCAAGCTTTTGCT
TTAACACACAGCAAATAAGGACATAG
Found at i:99842 original size:22 final size:22
Alignment explanation
Indices: 99814--99860 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
99804 ATTCCAATTC
*
99814 TCATAATCAGTACTTTCACATT
1 TCATAATCAATACTTTCACATT
*
99836 TCATAATCAATACTTTCATATT
1 TCATAATCAATACTTTCACATT
99858 TCA
1 TCA
99861 GTTTTCATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (22 bp):
TCATAATCAATACTTTCACATT
Found at i:101401 original size:32 final size:31
Alignment explanation
Indices: 101340--101401 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
101330 AGCTCCAATG
** *
101340 ATCAAATTCATACAATTCCAATCATCCTAAC
1 ATCAAATTCATACAATTCCAAGAACCCTAAC
101371 ATCAAATTCA-ACCAATTTCCAAGAACCCTAA
1 ATCAAATTCATA-CAA-TTCCAAGAACCCTAA
101402 GTGTGGCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 1 0.04
31 13 0.50
32 12 0.46
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.26
Consensus pattern (31 bp):
ATCAAATTCATACAATTCCAAGAACCCTAAC
Found at i:101518 original size:22 final size:21
Alignment explanation
Indices: 101486--101527 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
101476 CTAATAAAAT
*
101486 AAAATCAACATTTAATTCATA
1 AAAATCAACATGTAATTCATA
*
101507 AAAATTCAACATGTACTTCAT
1 AAAA-TCAACATGTAATTCAT
101528 GAACCCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATCAACATGTAATTCATA
Found at i:105011 original size:5 final size:5
Alignment explanation
Indices: 105001--105027 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
104991 ACCACAAAAA
105001 AAATT AAATT AAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AA
105028 TAAAATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:105070 original size:16 final size:15
Alignment explanation
Indices: 104996--105084 Score: 58
Period size: 15 Copynumber: 6.1 Consensus size: 15
104986 CCTGTACCAC
*
104996 AAAA-AAAATTAAAT
1 AAAATAAAATGAAAT
* * *
105010 TAAATTAAATTAAAT
1 AAAATAAAATGAAAT
*
105025 -TAATAAAATGAAAT
1 AAAATAAAATGAAAT
** ** *
105039 GTAATGTAATGTAAT
1 AAAATAAAATGAAAT
105054 AAAATGAAAATGAAAT
1 AAAAT-AAAATGAAAT
105070 AAAATAAAAT-AAAT
1 AAAATAAAATGAAAT
105084 A
1 A
105085 TTAATAATAA
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
14 19 0.32
15 28 0.47
16 12 0.20
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAAATAAAATGAAAT
Found at i:105284 original size:38 final size:40
Alignment explanation
Indices: 105206--105291 Score: 131
Period size: 38 Copynumber: 2.2 Consensus size: 40
105196 GAATTTAAAA
* *
105206 ATATTATATAAGTTTTCCAAAATGTTTTTTTAAAAACTAT
1 ATATTATATAAATTTTCCAAAATGTTGTTTTAAAAACTAT
105246 ATATTATATAAATTTTCC-AAAT-TTGTTTTAAAAACTAT
1 ATATTATATAAATTTTCCAAAATGTTGTTTTAAAAACTAT
*
105284 ACATTATA
1 ATATTATA
105292 CTTTCAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 22 0.51
39 4 0.09
40 17 0.40
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (40 bp):
ATATTATATAAATTTTCCAAAATGTTGTTTTAAAAACTAT
Found at i:105336 original size:35 final size:34
Alignment explanation
Indices: 105234--105445 Score: 121
Period size: 37 Copynumber: 5.9 Consensus size: 34
105224 AAAATGTTTT
* * *
105234 TTTAAAAACTATATATTATATAAATTTTCCAAATTTGT
1 TTTAAAAACTATATACTATAT--ATTTT-CAAA-ATGA
* *
105272 TTTAAAAACTATACA-T-TATACTTTCAAAATGA
1 TTTAAAAACTATATACTATATATTTTCAAAATGA
*
105304 TTTCAAAACTATATACTATATAATTTTCAAAATG-
1 TTTAAAAACTATATACTATAT-ATTTTCAAAATGA
* * * *
105338 TTTTAAAACTTATATATTGTATATAAGTTTTCAAAAACGT
1 TTTAAAAAC-TATATA--CTATAT-A-TTTTC-AAAATGA
*
105378 TTTAAAAAACTATATAATATATA-TTTCAAAAAAT-A
1 TTT-AAAAACTATATACTATATATTTTC--AAAATGA
*
105413 TTTTTTGAAAACTATATACTATAT-TTTTCAAAA
1 ---TTTAAAAACTATATACTATATATTTTCAAAA
105446 ACATTTTCAA
Statistics
Matches: 143, Mismatches: 16, Indels: 33
0.74 0.08 0.17
Matches are distributed among these distances:
32 15 0.10
33 5 0.03
34 15 0.10
35 25 0.17
36 8 0.06
37 29 0.20
38 27 0.19
39 5 0.03
40 9 0.06
41 5 0.03
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (34 bp):
TTTAAAAACTATATACTATATATTTTCAAAATGA
Found at i:105361 original size:107 final size:109
Alignment explanation
Indices: 105210--105408 Score: 241
Period size: 107 Copynumber: 1.8 Consensus size: 109
105200 TTAAAAATAT
***
105210 TATATAAGTTTTCCAAAATGTTTTTTTAAAAACTATATATTATATAAATTTTCCAAATTTGTTTT
1 TATATAAGTTTTCCAAAATG--TTTTTAAAAACTATATATTATATAAATTTT-CAAAAACGTTTT
*
105275 -AAAAACTATA-CAT-TATACTTTCAAAATGATTTCAAAACTATATAC
63 AAAAAACTATATAATATATA-TTTCAAAATGATTTCAAAACTATATAC
*
105320 TATATAA-TTTT-CAAAATG-TTTT-AAAACTTATATATTGTATATAAGTTTTCAAAAACGTTTT
1 TATATAAGTTTTCCAAAATGTTTTTAAAAAC-TATATA-T-TATATAAATTTTCAAAAACGTTTT
105381 AAAAAACTATATAATATATATTTCAAAA
63 AAAAAACTATATAATATATATTTCAAAA
105409 AATATTTTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
104 5 0.06
105 10 0.13
106 10 0.13
107 21 0.27
108 17 0.22
109 8 0.10
110 7 0.09
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (109 bp):
TATATAAGTTTTCCAAAATGTTTTTAAAAACTATATATTATATAAATTTTCAAAAACGTTTTAAA
AAACTATATAATATATATTTCAAAATGATTTCAAAACTATATAC
Found at i:105399 original size:38 final size:35
Alignment explanation
Indices: 105210--105408 Score: 149
Period size: 35 Copynumber: 5.5 Consensus size: 35
105200 TTAAAAATAT
*
105210 TATATAAGTTTTCCAAAATGTTTTTTTAAAAACTATATAT
1 TATATAA-TTTT-CAAAATG---TTTTAAAAACTATATAA
* *
105250 TATATAAATTTTCCAAATTTGTTTTAAAAACTATA-CA
1 TATAT-AATTTT-CAAA-ATGTTTTAAAAACTATATAA
* * * *
105287 T-TAT-ACTTTCAAAATGATTTCAAAACTATATAC
1 TATATAATTTTCAAAATGTTTTAAAAACTATATAA
*
105320 TATATAATTTTCAAAATGTTTT-AAAACTTATATATTG
1 TATATAATTTTCAAAATGTTTTAAAAAC-TATATA--A
*
105357 TATATAAGTTTTCAAAAACGTTTTAAAAAACTATATAA
1 TATATAA-TTTTC-AAAATGTTTT-AAAAACTATATAA
105395 TATAT-A-TTTCAAAA
1 TATATAATTTTCAAAA
105409 AATATTTTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
32 14 0.11
33 5 0.04
34 16 0.12
35 24 0.18
36 3 0.02
37 9 0.07
38 24 0.18
39 9 0.07
40 20 0.15
41 9 0.07
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (35 bp):
TATATAATTTTCAAAATGTTTTAAAAACTATATAA
Found at i:106162 original size:84 final size:84
Alignment explanation
Indices: 106094--107230 Score: 1100
Period size: 84 Copynumber: 13.7 Consensus size: 84
106084 CCGGGTGTAA
* * * *
106094 TCGAACTCGAAGGTCTTCGGTTGGTAGATAACCCTTATCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
106159 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * *
106178 TTGAACAT-GAAGGTCTTTTGG-TGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGAT
1 TCGAAC-TCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
* * * *
106241 GTGCCCTCGAAGCTGAGTGTAA
64 GTG-CCTTGGAGCTGAGCGTAG
* * * * * **
106263 TCAAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATAC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
106324 CCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * *
106343 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCAATTTAAATTATGATGTAAATGATAG
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-G
*
106408 -GTCTTGGAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
** * * * * * *
106427 TCGAACTCGAAGGTCTTTGG-TGAAAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATAATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
106491 GCCCTCGAAGCTGAGCGTAG
66 G-CCTTGGAGCTGAGCGTAG
* * * * *
106511 TCAAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGAAAATGATGC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
106572 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * ** * * *
106591 TCGAACTCAAAAGTCTTTGGTTCGTAGATAACTGTTCTCGATTTAATTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
106656 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * *
106675 TCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAG-CATTGACTTCTGCTGTAAATGATG
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC-TTAAGTTATGCTGCAAATGATG
* * *
106738 TGCCCTCGAAGCTGAGCATAG
65 TG-CCTTGGAGCTGAGCGTAG
* * * ** * *
106759 TCGAACTCGAGGGTC--T--TTGGCATATAACCCTTCTCGACTTAAGCTATGCTATAAATGGTGC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
106820 GCCTTAGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * *
106839 TCAAACTTGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTACAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
106904 GACTTGGAGCTGAGCATAA
66 GCCTTGGAGCTGAGCGTAG
* * * * * *
106923 TCGAACTTGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
106987 GCCCTCGAAGCTGAGCGTAG
66 G-CCTTGGAGCTGAGCGTAG
* * * * * * *
107007 TCAAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCCGGAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
107068 GCCTT-GATGCTGAGCGTAG
66 GCCTTGGA-GCTGAGCGTAG
* *
107087 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
107152 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * * *
107171 TCTAACTTGAAGGTCTTT-GTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTACAAATG
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
107231 TTGTCTTAAA
Statistics
Matches: 842, Mismatches: 178, Indels: 67
0.77 0.16 0.06
Matches are distributed among these distances:
79 1 0.00
80 107 0.13
81 141 0.17
82 10 0.01
83 135 0.16
84 417 0.50
85 31 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:106533 original size:248 final size:248
Alignment explanation
Indices: 106094--107223 Score: 1690
Period size: 248 Copynumber: 4.6 Consensus size: 248
106084 CCGGGTGTAA
* * * * *
106094 TCGAACTCGAAGGTCTTCGGTTGGTAGATAACCCTTATCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
* *
106159 GCCTTGGAGCTGAGCGTAGTTGAACAT-GAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTG
66 GCCTTGGAGCTGAGCGTAGTCGAAC-TCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTG
* *
106223 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGAT
129 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCAAACTCGAGGGTCTTTGGCAGAT
* * * *
106288 AGCCCTTCTTGACTTAAGCTATGCTGCAAATGATACCCCTTGGAGCTGAGCGTAG
194 AGCCCTTCTCGACTTAAGCTATGCTGAAAATGATGCGCCTTGGAGCTGAGCGTAG
* * * * * * *
106343 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCAATTTAAATTATGATGTAAATGATAG
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
* *
106408 GTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAAAGATAACCCTTCTAGCCTTGAG
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
* *
106473 TTATACTGTAAATAATGTGCCCTCGAAGCTGAGCGTAGTCAAACTCGAGGGTCTTTGGCAGATAG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCAAACTCGAGGGTCTTTGGCAGATAG
*
106538 CCCTTCTCGACTTAAGTTATGCTGAAAATGATGCGCCTTGGAGCTGAGCGTAG
196 CCCTTCTCGACTTAAGCTATGCTGAAAATGATGCGCCTTGGAGCTGAGCGTAG
* * * ** *
106591 TCGAACTCAAAAGTCTTTGGTTCGTAGATAACTGTTCTCGATTTAATTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
* *
106656 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCATTGAC
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
* * * * *
106721 TTCTGCTGTAAATGATGTGCCCTCGAAGCTGAGCATAGTCGAACTCGAGGGTCTTTGGCATATAA
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCAAACTCGAGGGTCTTTGGCAGATAG
* *
106786 CCCTTCTCGACTTAAGCTATGCT-ATAAATGGTGCGCCTTAGAGCTGAGCGTAG
196 CCCTTCTCGACTTAAGCTATGCTGA-AAATGATGCGCCTTGGAGCTGAGCGTAG
* * *
106839 TCAAACTTGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTACAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
* * * *
106904 GACTTGGAGCTGAGCATAATCGAACTTGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
106969 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCAAACTCGAGGGTCTTTGGCAGATAG
131 TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCAAACTCGAGGGTCTTTGGCAGATAG
* * * *
107034 CCCTTCTTGACTTAAGCTATGCCGGAAATGATGTGCCTT-GATGCTGAGCGTAG
196 CCCTTCTCGACTTAAGCTATGCTGAAAATGATGCGCCTTGGA-GCTGAGCGTAG
*
107087 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
* * * * *
107152 GCCTTGGAGCTGAGCGTAGTCTAACTTGAAGGTCTTTGTTGGCAGATAACCCTTATAGCCTTGAG
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
107217 TTATGCT
131 TTATGCT
107224 ACAAATGTTG
Statistics
Matches: 792, Mismatches: 85, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
247 3 0.00
248 706 0.89
249 83 0.10
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (248 bp):
TCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
TTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCAAACTCGAGGGTCTTTGGCAGATAG
CCCTTCTCGACTTAAGCTATGCTGAAAATGATGCGCCTTGGAGCTGAGCGTAG
Found at i:111138 original size:27 final size:27
Alignment explanation
Indices: 111108--111160 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
111098 AAAATGAATA
*
111108 ATAATAAAT-AAATAAATATAAAAAAGC
1 ATAA-AAATGAAATAAAAATAAAAAAGC
*
111135 ATAAAAATGAAATAAAAATAATAAAG
1 ATAAAAATGAAATAAAAATAAAAAAG
111161 TGAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.21
Consensus pattern (27 bp):
ATAAAAATGAAATAAAAATAAAAAAGC
Found at i:111190 original size:20 final size:21
Alignment explanation
Indices: 111167--111205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
111157 AAAGTGAAAC
*
111167 AAAAAAT-CAAGGAAAAAAAT
1 AAAAAATAAAAGGAAAAAAAT
111187 AAAAAATAAAAGGAAAAAA
1 AAAAAATAAAAGGAAAAAA
111206 TGAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (21 bp):
AAAAAATAAAAGGAAAAAAAT
Found at i:112614 original size:39 final size:41
Alignment explanation
Indices: 112536--112624 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
112526 GATTTTAAAA
* *
112536 ATATTATATAAGTTTTTCAAAATGTTTTTTTAAAAAACTAT
1 ATATTATATAAATTTTCCAAAATGTTTTTTTAAAAAACTAT
112577 ATATTATATAAATTTTCCAAAAT-TTTTTTT-AAAAACTAT
1 ATATTATATAAATTTTCCAAAATGTTTTTTTAAAAAACTAT
112616 ATATTATAT
1 ATATTATAT
112625 TTTGAAAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 18 0.39
40 7 0.15
41 21 0.46
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (41 bp):
ATATTATATAAATTTTCCAAAATGTTTTTTTAAAAAACTAT
Found at i:112633 original size:34 final size:34
Alignment explanation
Indices: 112510--112813 Score: 136
Period size: 37 Copynumber: 8.4 Consensus size: 34
112500 CTATATATTA
* **
112510 TATAGTTTTCAAAAATGATTTTAAAAA-TATTATAT
1 TATA-TTTTCAAAATTTTTTTTAAAAACTA-TATAT
*
112545 AAGT-TTTTCAAAATGTTTTTTTAAAAAACTATATATT
1 TA-TATTTTCAAAAT-TTTTTTT-AAAAACTATATA-T
112582 ATATAAATTTTCCAAAATTTTTTTTAAAAACTATATAT
1 -TAT--ATTTT-CAAAATTTTTTTTAAAAACTATATAT
* ** *
112620 TATATTTTGAAAA--TGATTTCAAAACTATATACT
1 TATATTTTCAAAATTTTTTTTAAAAACTATATA-T
* *
112653 ATATAATTTTCAAAA--TGTTTT-AAAACTTATTATTGT
1 -TAT-ATTTTCAAAATTTTTTTTAAAAAC-TA-TA-TAT
*** * *
112689 ATATAAGTTTTCAAAAACGTTTTAAAAAACTATATAA
1 -TAT-A-TTTTCAAAATTTTTTTTAAAAACTATATAT
* * *
112726 TATATATTTCAAAAAATATTTTTTGAAAACTATATAA
1 TATAT-TTTC--AAAATTTTTTTTAAAAACTATATAT
* * *
112763 TATATATTTCAAAAAATATTTTTTGAAAACTATATAC
1 TATAT-TTTC--AAAATTTTTTTTAAAAACTATATAT
112800 TATATTTTTCAAAA
1 TATA-TTTTCAAAA
112814 ACATTTTCAA
Statistics
Matches: 222, Mismatches: 23, Indels: 48
0.76 0.08 0.16
Matches are distributed among these distances:
32 15 0.07
33 1 0.00
34 22 0.10
35 36 0.16
36 22 0.10
37 82 0.37
38 5 0.02
39 17 0.08
40 16 0.07
41 6 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (34 bp):
TATATTTTCAAAATTTTTTTTAAAAACTATATAT
Found at i:112644 original size:32 final size:34
Alignment explanation
Indices: 112492--112739 Score: 118
Period size: 34 Copynumber: 6.9 Consensus size: 34
112482 TTAAAAACGT
* *
112492 TTTCAAAACTATATATTATATAGTTTTCAAAAATG
1 TTTCAAAACTATATACTATATAATTTTC-AAAATG
*
112527 ATTTTAAAA--ATAT--TATATAAGTTTTTCAAAATG
1 -TTTCAAAACTATATACTATATAA--TTTTCAAAATG
* * *
112560 TTTTTTTAAAAAACTATATATTATATAAATTTTCCAAAATTTTT
1 ----TTT-CAAAACTATATACTATAT-AATTTT-CAAAA---TG
* *
112604 TTTAAAAACTATATA-T-TAT-ATTTTGAAAATG
1 TTTCAAAACTATATACTATATAATTTTCAAAATG
112635 ATTTCAAAACTATATACTATATAATTTTCAAAATG
1 -TTTCAAAACTATATACTATATAATTTTCAAAATG
* ** *
112670 TTTTAAAACTTATTATTGTATATAAGTTTTCAAAAACG
1 TTTCAAAAC-TA-TATACTATATAA-TTTTC-AAAATG
* *
112708 TTTTAAAAAACTATATAATATAT-A-TTTCAAAA
1 -TTT-CAAAACTATATACTATATAATTTTCAAAA
112740 AATATTTTTT
Statistics
Matches: 171, Mismatches: 16, Indels: 52
0.72 0.07 0.22
Matches are distributed among these distances:
31 1 0.01
32 20 0.12
33 7 0.04
34 28 0.16
35 22 0.13
36 20 0.12
37 13 0.08
38 14 0.08
39 21 0.12
40 12 0.07
41 10 0.06
42 2 0.01
44 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (34 bp):
TTTCAAAACTATATACTATATAATTTTCAAAATG
Found at i:112814 original size:37 final size:37
Alignment explanation
Indices: 112714--112814 Score: 184
Period size: 37 Copynumber: 2.7 Consensus size: 37
112704 AACGTTTTAA
112714 AAAACTATATAATATATATTTCAAAAAATATTTTTTG
1 AAAACTATATAATATATATTTCAAAAAATATTTTTTG
112751 AAAACTATATAATATATATTTCAAAAAATATTTTTTG
1 AAAACTATATAATATATATTTCAAAAAATATTTTTTG
* *
112788 AAAACTATATACTATATTTTTCAAAAA
1 AAAACTATATAATATATATTTCAAAAA
112815 CATTTTCAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (37 bp):
AAAACTATATAATATATATTTCAAAAAATATTTTTTG
Found at i:116473 original size:2 final size:2
Alignment explanation
Indices: 116466--116500 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
116456 AAATAACATC
116466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116501 ATAACCAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.