Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 83 of 295
Found at i:25827186 original size:90 final size:90
Alignment explanation
Indices: 25827030--25827210 Score: 299
Period size: 90 Copynumber: 2.0 Consensus size: 90
25827020 TATTCAAGAG
* * * *
25827030 TTCTTTTGGATGGTTAGTATTTGTATCATCCATAGCTTGATCAGAACTATTGAATGTTTTACTTC
1 TTCTTCTGGATAGTTAGTATTTGTATCATCCACAGCTTGATCAGAACTATTGAATATTTTACTTC
25827095 ACCTGTGAACATGTTCATCATCTTC
66 ACCTGTGAACATGTTCATCATCTTC
* *
25827120 TTCTTCTGGATAGTTTGTATTTGTATCATCCACAGCTTGATCAGAACTATTGAATATTTTATTTC
1 TTCTTCTGGATAGTTAGTATTTGTATCATCCACAGCTTGATCAGAACTATTGAATATTTTACTTC
*
25827185 ACCTGTGAACATGTTCATCATTTTC
66 ACCTGTGAACATGTTCATCATCTTC
25827210 T
1 T
25827211 CGTTAATTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (90 bp):
TTCTTCTGGATAGTTAGTATTTGTATCATCCACAGCTTGATCAGAACTATTGAATATTTTACTTC
ACCTGTGAACATGTTCATCATCTTC
Found at i:25832769 original size:24 final size:23
Alignment explanation
Indices: 25832741--25832800 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
25832731 ATAAAATAAA
25832741 ATTATTACTATTTTAAAACAATAC
1 ATTATTA-TATTTTAAAACAATAC
* * *
25832765 ATTATTATGTTTTAAAATAATAA
1 ATTATTATATTTTAAAACAATAC
*
25832788 AATA-TATATTTTA
1 ATTATTATATTTTA
25832801 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 8 0.26
23 16 0.52
24 7 0.23
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATTATATTTTAAAACAATAC
Found at i:25832805 original size:25 final size:28
Alignment explanation
Indices: 25832776--25832834 Score: 88
Period size: 25 Copynumber: 2.2 Consensus size: 28
25832766 TTATTATGTT
25832776 TTAAAATAAT-AAAA-TATATATTT-TA
1 TTAAAATAATAAAAATTATATATTTATA
25832801 TTAAAATAATAAAAATTATATATTTATA
1 TTAAAATAATAAAAATTATATATTTATA
25832829 TATAAA
1 T-TAAA
25832835 TATATGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.33
26 4 0.13
27 9 0.30
28 3 0.10
29 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TTAAAATAATAAAAATTATATATTTATA
Found at i:25832888 original size:6 final size:6
Alignment explanation
Indices: 25832857--25832903 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
25832847 AATATTTTAA
* *
25832857 AATATAT AATATT -ATATT TATTTT AATATT AATATT AATATT AATAT
1 AATAT-T AATATT AATATT AATATT AATATT AATATT AATATT AATAT
25832904 ATTATTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.14
6 26 0.72
7 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
AATATT
Found at i:25834761 original size:54 final size:54
Alignment explanation
Indices: 25834675--25834875 Score: 210
Period size: 54 Copynumber: 3.7 Consensus size: 54
25834665 ATTAGGGATT
* * *
25834675 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
* * * * * * *
25834729 AAGGAAATCATGTAAGACCATGTC-AGGACATGGCATTGATAAACTACTATAA-GC
1 AAGGATACCATGTAAGACCATGCCAAGG-CATGGCAATGGT-AAGTTCTATAAGGC
* * *
25834783 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
* * * *
25834836 AAGGATACCACGTAAGGCCATGTCAAGACATGGCAATGGT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGT
25834876 GAAAGGTACC
Statistics
Matches: 119, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
52 4 0.03
53 42 0.35
54 62 0.52
55 11 0.09
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
Found at i:25847342 original size:47 final size:46
Alignment explanation
Indices: 25847266--25847581 Score: 277
Period size: 47 Copynumber: 6.7 Consensus size: 46
25847256 TGATTTGTGC
* * *
25847266 GCCAGTGTAAGACATGGCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGA
* * * *
25847312 GCCAGTGTAAGACCATGTCTGGGACATGCTTCAGCCATATTATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATGATGAGA
* * *
25847359 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TGATGAGA
* * *
25847407 GCCAGAGTAAGACATGTCTGAGACATGCATCGGCCTCGACA-GA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATGATGAGA
* * * * *
25847454 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AGA
* * *
25847498 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--CAT-GATGAGA
25847546 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
25847582 AATTTATCCC
Statistics
Matches: 220, Mismatches: 33, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.02
44 30 0.14
46 21 0.10
47 103 0.47
48 36 0.16
49 16 0.07
50 9 0.04
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGA
Found at i:25847434 original size:94 final size:94
Alignment explanation
Indices: 25847266--25847582 Score: 332
Period size: 94 Copynumber: 3.4 Consensus size: 94
25847256 TGATTTGTGC
* * ** *
25847266 GCCAGTGTAAGACATGGCTGGGACAT-GCTTCGGCCACA-TTATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGG-CACAGAGATGAGTGCCAGTGTAAGA-CATG
*
25847329 TCTGGGACATGCTTCAGCCAT-ATTATGAGA
64 TCTGGGACATGCATCAGCCATCATTATGAGA
* *
25847359 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGAGATGAGTGCCAGAGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACATGT
* * *
25847424 CTGAGACATGCATCGGCC-TCGA-CA-GAGATA
65 CTGGGACATGCATCAGCCATC-ATTATGAG--A
* * * *
25847454 GCCAGTGTAAGACGTGTCTGGGACA-CGCATCGGCTA-AGAG-T-TGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGC-ACAGAGATGAGTGCCAGTGTAAGACATGT
25847515 CTGGGACATGCATCAG-CATGCATATATGAGA
65 CTGGGACATGCATCAGCCAT-CAT-TATGAGA
25847546 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
25847583 ATTTATCCCA
Statistics
Matches: 187, Mismatches: 22, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
90 1 0.01
91 33 0.18
92 15 0.08
93 42 0.22
94 60 0.32
95 36 0.19
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGACATGTC
TGGGACATGCATCAGCCATCATTATGAGA
Found at i:25849622 original size:23 final size:23
Alignment explanation
Indices: 25849590--25849703 Score: 76
Period size: 23 Copynumber: 5.0 Consensus size: 23
25849580 CTGAGCTGAT
*
25849590 AAACAATAAGCTCTATTAAGCTA
1 AAACAGTAAGCTCTATTAAGCTA
25849613 AAACAGTAAGCTCT-TTCAAGCT-
1 AAACAGTAAGCTCTATT-AAGCTA
* *
25849635 GAACAGTAAGTTC-A-TACGAGCTA
1 AAACAGTAAGCTCTATTA--AGCTA
* * * *
25849658 AAACGGTAAGCTCCAATGAGCTGA
1 AAACAGTAAGCTCTATTAAGCT-A
*
25849682 AAACAATAAGCTCT-TTCAAGCT
1 AAACAGTAAGCTCTATT-AAGCT
25849704 GATATATCGG
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 17 0.24
23 33 0.47
24 17 0.24
25 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (23 bp):
AAACAGTAAGCTCTATTAAGCTA
Found at i:25875889 original size:28 final size:28
Alignment explanation
Indices: 25875813--25875892 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
25875803 TCTCGTCTTC
* * * *
25875813 AAGATAGTCCTTGGTAGACTTTCCTCAT
1 AAGACAGTCCTTAGTGGACTTTCCACAT
* *
25875841 AAGGCAGTCC-TAG-GAAAACTTTCCACAT
1 AAGACAGTCCTTAGTG--GACTTTCCACAT
25875869 AAGACAGTCCTTAGTGGACTTTCC
1 AAGACAGTCCTTAGTGGACTTTCC
25875893 CTGATTTTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
27 2 0.05
28 34 0.85
29 3 0.08
30 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (28 bp):
AAGACAGTCCTTAGTGGACTTTCCACAT
Found at i:25880493 original size:30 final size:30
Alignment explanation
Indices: 25880459--25880518 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
25880449 ACTTAACAAG
25880459 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
25880489 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
25880519 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:25881169 original size:9 final size:9
Alignment explanation
Indices: 25881155--25881180 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25881145 GAAAAGTGAT
25881155 TTTTGATGA
1 TTTTGATGA
25881164 TTTTGATGA
1 TTTTGATGA
25881173 TTTTGATG
1 TTTTGATG
25881181 TTTAGGGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (9 bp):
TTTTGATGA
Found at i:25883640 original size:42 final size:42
Alignment explanation
Indices: 25883583--25883705 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 42
25883573 TTCTGTTTAG
* * *
25883583 CTCTTACAAGATTCTGTTTAACTCATATGAGTTTCCGTTCAA
1 CTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTCCGTTCAA
* * ** * *
25883625 CTCTTTCGAGCTTCTGTTAAACTCTTATGAGTTTTTGCTCAG
1 CTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTCCGTTCAA
* * *
25883667 CTCTTACGAGCTTTTGTTTAACCCTTATGGGTTTCCGTT
1 CTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTCCGTT
25883706 TGCTCTTATG
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (42 bp):
CTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTCCGTTCAA
Found at i:25883706 original size:21 final size:21
Alignment explanation
Indices: 25883682--25883748 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
25883672 ACGAGCTTTT
25883682 GTTTAACCCTTATGGGTTTCC
1 GTTTAACCCTTATGGGTTTCC
* * *
25883703 GTTT-GCTCTTAT-GATCTTCC
1 GTTTAACCCTTATGGGT-TTCC
* * *
25883723 ATTCAACCCTTATGGGTTTCT
1 GTTTAACCCTTATGGGTTTCC
25883744 GTTTA
1 GTTTA
25883749 GCTTTCATGA
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
21 16 0.50
22 2 0.06
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (21 bp):
GTTTAACCCTTATGGGTTTCC
Found at i:25889315 original size:24 final size:24
Alignment explanation
Indices: 25889279--25889324 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25889269 TCTTCTAATG
25889279 GTCTGCCCTCTCTGGCACGTTTCT
1 GTCTGCCCTCTCTGGCACGTTTCT
*
25889303 GTCTGCTCC-CTCTGGCAGGTTT
1 GTCTGC-CCTCTCTGGCACGTTT
25889325 TAGGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.04, C:0.35, G:0.24, T:0.37
Consensus pattern (24 bp):
GTCTGCCCTCTCTGGCACGTTTCT
Found at i:25899696 original size:41 final size:41
Alignment explanation
Indices: 25899625--25899926 Score: 480
Period size: 41 Copynumber: 7.4 Consensus size: 41
25899615 CGTTTTACCA
* * * *
25899625 AAAACACCTCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
25899665 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
25899706 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
**
25899747 AAAACGCCGCTAAAAATCGGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
* * *
25899788 AAAACGCCGATAAAAGTAAGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
25899829 AAAACGCCGCTAAAAATAAGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
25899870 AAAACACCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
25899911 AAAACGCCGTTAAAAA
1 AAAACGCCGCTAAAAA
25899927 GTTTAGGTTT
Statistics
Matches: 242, Mismatches: 19, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
40 14 0.06
41 228 0.94
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
Found at i:25900023 original size:21 final size:22
Alignment explanation
Indices: 25899999--25900042 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
25899989 GGTTTATGTA
*
25899999 TTATGGTTTAAGGGTT-GGGGT
1 TTATGATTTAAGGGTTAGGGGT
25900020 TTATGATTTAAGGGTTAGGGGT
1 TTATGATTTAAGGGTTAGGGGT
25900042 T
1 T
25900043 AATACTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (22 bp):
TTATGATTTAAGGGTTAGGGGT
Found at i:25900287 original size:21 final size:20
Alignment explanation
Indices: 25900253--25900308 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
25900243 TTATTTTGTG
*
25900253 GTTTATGGTTAAGGGATATA
1 GTTTAGGGTTAAGGGATATA
25900273 GTTTAGGGTTTAAGGGATATA
1 GTTTAGGG-TTAAGGGATATA
*
25900294 CTTTAGGGATTAAGG
1 GTTTAGGG-TTAAGG
25900309 TTATAGGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 7 0.22
21 25 0.78
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.38
Consensus pattern (20 bp):
GTTTAGGGTTAAGGGATATA
Found at i:25900636 original size:11 final size:11
Alignment explanation
Indices: 25900620--25900667 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
25900610 AATTTCCCCG
25900620 ATTTCCCCCAA
1 ATTTCCCCCAA
25900631 ATTTCCCCCAA
1 ATTTCCCCCAA
*
25900642 CTTCTTCTCCCCCAA
1 ---ATT-TCCCCCAA
25900657 ATTTCCCCCAA
1 ATTTCCCCCAA
25900668 CTTCTTCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 19 0.61
12 2 0.06
14 2 0.06
15 8 0.26
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (11 bp):
ATTTCCCCCAA
Found at i:25900654 original size:15 final size:15
Alignment explanation
Indices: 25900634--25900682 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
25900624 CCCCCAAATT
25900634 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
*
25900649 TCCCCCAA---ATT-
1 TCCCCCAACTTCTTC
25900660 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
25900675 TCCCCCAA
1 TCCCCCAA
25900683 AATTTTTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
14 2 0.07
15 16 0.57
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (15 bp):
TCCCCCAACTTCTTC
Found at i:25900687 original size:27 final size:26
Alignment explanation
Indices: 25900623--25900683 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
25900613 TTCCCCGATT
25900623 TCCCCCAAATTTCCCCCAACTTCTTC
1 TCCCCCAAATTTCCCCCAACTTCTTC
25900649 TCCCCCAAATTTCCCCCAACTTCTTC
1 TCCCCCAAATTTCCCCCAACTTCTTC
25900675 TCCCCCAAA
1 TCCCCCAAA
25900684 ATTTTTACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.21, C:0.51, G:0.00, T:0.28
Consensus pattern (26 bp):
TCCCCCAAATTTCCCCCAACTTCTTC
Found at i:25903245 original size:14 final size:13
Alignment explanation
Indices: 25903222--25903251 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
25903212 ATTACTATAA
25903222 TAATTATATGAAG
1 TAATTATATGAAG
25903235 TAATATATATGAAG
1 TAAT-TATATGAAG
25903249 TAA
1 TAA
25903252 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:25903630 original size:183 final size:183
Alignment explanation
Indices: 25903322--25903690 Score: 666
Period size: 183 Copynumber: 2.0 Consensus size: 183
25903312 GATATAGTTC
*
25903322 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
*
25903387 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTAATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTAATATAGATAAA
*
25903452 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTCATATTTGCTTAAACTGAAATATATTTGATGCTACTCTTATAATCTTA
* * *
25903505 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTATTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
*
25903570 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTAATATAGATAAA
*
25903635 GTTTTTATATTTGCTTAAACTGAAATATATTTGATGCTACTCTTATAATCTTA
131 GTTTTCATATTTGCTTAAACTGAAATATATTTGATGCTACTCTTATAATCTTA
25903688 CAT
1 CAT
25903691 CTGTTCTAGG
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 178 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (183 bp):
CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTAATATAGATAAA
GTTTTCATATTTGCTTAAACTGAAATATATTTGATGCTACTCTTATAATCTTA
Found at i:25903912 original size:15 final size:15
Alignment explanation
Indices: 25903892--25903920 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25903882 GGAGTAGACT
25903892 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
25903907 AGGTACGTTTTATT
1 AGGTACGTTTTATT
25903921 TCAAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:25905274 original size:358 final size:358
Alignment explanation
Indices: 25904144--25905370 Score: 2237
Period size: 358 Copynumber: 3.5 Consensus size: 358
25904134 CTTGTCCATT
*
25904144 AAAATTACAACAATGGATGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
25904209 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCCAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
25904274 GTAACAACGCCACGTATGATAAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
25904339 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTAT
196 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTAT
25904404 ATTATTATATTCAAATTACTATTTTTTTGCATTAATAATGTTTGATTTTAATATTTAATATTTCT
261 ATTATTATATTCAAATTACTATTTTTTTGCATTAATAATGTTTGATTTTAATATTTAATATTTCT
25904469 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
326 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
*
25904502 AAAATTACAACAATGGCTGACCTCCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
25904567 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
25904632 ATAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
* *
25904697 TCATTTACTGTTGAATATTTATTTCCAATTTACTTATAAAAATT----TA--A-AC------TAT
196 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTAT
25904749 ATTATTATATTCAAATTACTATTTTTTTGCATTAATAATGTTTGATTTTAATATTTAATATTTCT
261 ATTATTATATTCAAATTACTATTTTTTTGCATTAATAATGTTTGATTTTAATATTTAATATTTCT
25904814 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
326 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
25904847 AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
* *
25904912 ATAGGCTGGAAACCTGACAGGTTGCCTTATATCAAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
25904977 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCAAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
25905042 TCATTTACTATTGAATATTTACTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTAT
196 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTAT
*
25905107 ATTATTATATTCAAATTACTATTTTTTTGCATTAATAATGTTTGATTTTAATATTTAATATTTTT
261 ATTATTATATTCAAATTACTATTTTTTTGCATTAATAATGTTTGATTTTAATATTTAATATTTCT
25905172 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
326 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
25905205 AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
25905270 ATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
25905335 GTAACAACGCCGCGTATGATGAATCTTAAAAAATTC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTC
25905371 TCCGTTTTAT
Statistics
Matches: 836, Mismatches: 20, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
345 333 0.40
349 2 0.00
351 2 0.00
352 2 0.00
354 2 0.00
358 495 0.59
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (358 bp):
AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTAT
ATTATTATATTCAAATTACTATTTTTTTGCATTAATAATGTTTGATTTTAATATTTAATATTTCT
AAATGTCTTTAAAAGTTATAACTAATTTTTATC
Found at i:25905624 original size:15 final size:15
Alignment explanation
Indices: 25905580--25905635 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
25905570 AACGACATGT
*
25905580 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
25905596 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
25905609 ATATTATTTAATTAA
1 ATATTATTTAATTAA
25905624 ATATTATTTAAT
1 ATATTATTTAAT
25905636 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:25905780 original size:9 final size:9
Alignment explanation
Indices: 25905739--25905927 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
25905729 TATTTGATAT
*
25905739 CATAATTTA
1 CATAACTTA
*
25905748 TATAACTTA
1 CATAACTTA
*
25905757 CA-AACGTA
1 CATAACTTA
25905765 CATAACTTA
1 CATAACTTA
*
25905774 TATAACTTA
1 CATAACTTA
* *
25905783 GATAA-ATA
1 CATAACTTA
*
25905791 TATAACTTA
1 CATAACTTA
25905800 CATAACTTA
1 CATAACTTA
25905809 CATAATACTTA
1 CAT-A-ACTTA
* *
25905820 AATATATTTTATA
1 CATA-A--CT-TA
*
25905833 TCATAATTTA
1 -CATAACTTA
25905843 CATAACTTA
1 CATAACTTA
25905852 CATAACTTA
1 CATAACTTA
*
25905861 TATAACTTA
1 CATAACTTA
* *
25905870 GATAA-ATA
1 CATAACTTA
* *
25905878 TATAATTTA
1 CATAACTTA
*
25905887 CATAA-ATA
1 CATAACTTA
* * *
25905895 TATATCATA
1 CATAACTTA
25905904 TCATAACTTA
1 -CATAACTTA
25905914 CATAACTTA
1 CATAACTTA
25905923 CATAA
1 CATAA
25905928 TACTTAAATA
Statistics
Matches: 142, Mismatches: 27, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
8 24 0.17
9 90 0.63
10 12 0.08
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:25905792 original size:17 final size:17
Alignment explanation
Indices: 25905772--25905927 Score: 93
Period size: 17 Copynumber: 8.9 Consensus size: 17
25905762 GTACATAACT
*
25905772 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
25905789 TATATAACTTACATAACT
1 TATATAACTTACATAA-A
* *
25905807 TACATAA--TACTTAAA
1 TATATAACTTACATAAA
** *
25905822 TATAT-TTTATATCATAATT
1 TATATAACT-TA-CATAA-A
* *
25905841 TACATAACTTACATAACT
1 TATATAACTTACATAA-A
*
25905859 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
25905876 TATATAATTTACATAAA
1 TATATAACTTACATAAA
* * *
25905893 TATATATCATATCATAACT
1 TATATAACTTA-CATAA-A
*
25905912 TACATAACTTACATAA
1 TATATAACTTACATAA
25905928 TACTTAAATA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 40 0.38
18 40 0.38
19 14 0.13
20 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (17 bp):
TATATAACTTACATAAA
Found at i:25905795 original size:26 final size:27
Alignment explanation
Indices: 25905735--25905927 Score: 115
Period size: 26 Copynumber: 7.0 Consensus size: 27
25905725 AATATATTTG
*
25905735 ATATCATAATTTATATAACTTACA-AAC
1 ATAT-ATAACTTATATAACTTACATAAC
* * *
25905762 GTACATAACTTATATAACTTAGATAA-
1 ATATATAACTTATATAACTTACATAAC
*
25905788 ATATATAACTTACATAACTTACATAATAC
1 ATATATAACTTATATAACTTACAT-A-AC
* ** *
25905817 TTAAATATATTTTATATCATAATTTACATAAC
1 --ATATATA-ACT-TAT-ATAACTTACATAAC
* * *
25905849 TTACATAACTTATATAACTTAGATAA-
1 ATATATAACTTATATAACTTACATAAC
* * * * *
25905875 ATATATAATTTACATAA-ATATATATC
1 ATATATAACTTATATAACTTACATAAC
*
25905901 ATATCATAACTTACATAACTTACATAA
1 ATAT-ATAACTTATATAACTTACATAA
25905928 TACTTAAATA
Statistics
Matches: 123, Mismatches: 31, Indels: 23
0.69 0.18 0.13
Matches are distributed among these distances:
25 5 0.04
26 54 0.44
27 28 0.23
28 9 0.07
29 1 0.01
30 4 0.03
31 6 0.05
32 3 0.02
33 3 0.02
34 10 0.08
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (27 bp):
ATATATAACTTATATAACTTACATAAC
Found at i:25911151 original size:14 final size:13
Alignment explanation
Indices: 25911126--25911164 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
25911116 TTCTAAATAT
25911126 TTATAATGTTTAA
1 TTATAATGTTTAA
25911139 TTATAATTGTTTAA
1 TTATAA-TGTTTAA
25911153 TTCAATAATGTT
1 TT--ATAATGTT
25911165 ATGTTGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 4 0.17
16 4 0.17
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (13 bp):
TTATAATGTTTAA
Found at i:25911570 original size:21 final size:21
Alignment explanation
Indices: 25911545--25911606 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
25911535 TTAGAGCGGA
*
25911545 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
25911566 GGCAGCAGCGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
*
25911587 GGCAGTAGCGAGGGAGGCAG
1 GGCAGCAGCGAGGGAGGCAG
25911607 AGCATAGGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.53, T:0.02
Consensus pattern (21 bp):
GGCAGCAGCGAGGGAGGCAGC
Found at i:25912007 original size:43 final size:43
Alignment explanation
Indices: 25911960--25912102 Score: 155
Period size: 43 Copynumber: 3.3 Consensus size: 43
25911950 TCTGCCAAAA
* *
25911960 TTAGCGGCG-TTTGTGGGAAAAACGCCGCTAAAGGCCATGACTT
1 TTAGCGGCGCTTT-TGCGAAAAACGCCGCTAAAGGCCACGACTT
* ***
25912003 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
1 TTAGCGGCGCTTTTGCGAAAAACGCCGCTAAAGGCCACGACTT
*** *
25912046 TTAGCGGCGCTTTCT-CTTCAAACGCCGCTAAAAGCCACGACTT
1 TTAGCGGCGCTTT-TGCGAAAAACGCCGCTAAAGGCCACGACTT
*
25912089 CTAGCGGCGCTTTT
1 TTAGCGGCGCTTTT
25912103 TACTCAAACG
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.01
43 85 0.94
44 4 0.04
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGCTTTTGCGAAAAACGCCGCTAAAGGCCACGACTT
Found at i:25912110 original size:43 final size:43
Alignment explanation
Indices: 25911979--25912291 Score: 270
Period size: 43 Copynumber: 6.9 Consensus size: 43
25911969 TTTGTGGGAA
* *
25911979 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTCTTC
1 AAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCTTTTTCTTC
* *
25912022 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTCTCTTC
1 AAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCTTTTTCTTC
*
25912065 AAACGCCGCTAAAAGCCACGACTTCTAGCGGCGCTTTTTAC-TC
1 AAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCTTTTT-CTTC
*** * * ** *
25912108 AAACGCCGCTAAAAATAAAAAGCCGTTAAAGGCCACGACTTTTAGCGGCGCTTTTTATTC
1 AAACGCCGCT-AAAA-GCCACGAC-TTTTA-G---CG----------GCGCTTTTTCTTC
* * *
25912168 AAACGCCGCTAAAGGCCACGACTTTTAGCGGTGTTTTTTCTTC
1 AAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCTTTTTCTTC
* *
25912211 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTT-TTC
1 AAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCTTTTTCTTC
* *
25912253 AAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTT
1 AAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCTTTTT
25912292 TTAATAAACG
Statistics
Matches: 224, Mismatches: 27, Indels: 39
0.77 0.09 0.13
Matches are distributed among these distances:
42 42 0.19
43 135 0.60
44 5 0.02
45 3 0.01
46 3 0.01
47 1 0.00
50 2 0.01
53 2 0.01
56 1 0.00
57 3 0.01
58 3 0.01
59 3 0.01
60 21 0.09
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCTTTTTCTTC
Found at i:25912213 original size:103 final size:103
Alignment explanation
Indices: 25912026--25912223 Score: 317
Period size: 103 Copynumber: 1.9 Consensus size: 103
25912016 TTCTTCAAAC
*
25912026 GCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTCTCTTCAAACGCCGCTAAAAGCCACGACTTCT
1 GCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTCTATTCAAACGCCGCTAAAAGCCACGACTTCT
25912091 AGCGGCGCTTTTTACTCAAACGCCGCTAAAAATAAAAA
66 AGCGGCGCTTTTTACTCAAACGCCGCTAAAAATAAAAA
* * * *
25912129 GCCGTTAAAGGCCACGACTTTTAGCGGCGCTTTTTATTCAAACGCCGCTAAAGGCCACGACTTTT
1 GCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTCTATTCAAACGCCGCTAAAAGCCACGACTTCT
* *
25912194 AGCGGTG-TTTTTTCTTCAAACGCCGCTAAA
66 AGCGGCGCTTTTTAC-TCAAACGCCGCTAAA
25912224 GGCCATGACT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 6 0.07
103 81 0.93
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (103 bp):
GCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTCTATTCAAACGCCGCTAAAAGCCACGACTTCT
AGCGGCGCTTTTTACTCAAACGCCGCTAAAAATAAAAA
Found at i:25923449 original size:46 final size:46
Alignment explanation
Indices: 25923397--25923521 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 46
25923387 TGGGCATCCG
* * *
25923397 AGCTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATGTCCA
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* *
25923443 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* **
25923489 AGCTCGTTGAGTTGAGTCTGAGTTTGCTTATGG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25923522 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (46 bp):
AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
Found at i:25941632 original size:48 final size:46
Alignment explanation
Indices: 25941525--25941736 Score: 200
Period size: 46 Copynumber: 4.5 Consensus size: 46
25941515 TATGTGTGGT
* *
25941525 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAT-TACGA-TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CATAGAC-ACAAGCC
* * *
25941571 AATATAAGACATGTCTAGGACATGCATCGGCCTCGATAGACACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTC-ATAGACACAAGCC
* * *
25941619 AGTGTAAGACATGTCTGGGACATGCATCGG-T-ATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCATAGACAC-A-AGCC
* *
25941665 AGTGTAAGACATGTCTGGGACATGCATCGGTCTCA-AGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCATAG--ACACAAGCC
* *
25941713 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
25941737 GCGTCAGCTT
Statistics
Matches: 140, Mismatches: 15, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
44 6 0.04
45 1 0.01
46 62 0.44
47 5 0.04
48 61 0.44
49 2 0.01
50 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCATAGACACAAGCC
Found at i:25941686 original size:94 final size:93
Alignment explanation
Indices: 25941525--25941736 Score: 257
Period size: 94 Copynumber: 2.3 Consensus size: 93
25941515 TATGTGTGGT
*
25941525 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATTACGATAGCCAATATAAGACATGTCTAGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTA-ATTACGAGAGCCAATATAAGACATGTCTAGG
* *
25941590 ACATGCATCGGCCTCGATAGACACAAGCC
65 ACATGCATCGGCCTCAAGAGACACAAGCC
* * * *
25941619 AGTGTAAGACATGTCTGGGACATGCATCGG-T-ATTGAGACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAATT---ACGAGAGCCAATATAAGACATGTCTA
* * * *
25941682 GGACATGCATCGGTCTCAAGATATACAAGCT
63 GGACATGCATCGGCCTCAAGAGACACAAGCC
* *
25941713 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
25941737 GCGTCAGCTT
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 3 0.03
93 1 0.01
94 98 0.96
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTAATTACGAGAGCCAATATAAGACATGTCTAGGA
CATGCATCGGCCTCAAGAGACACAAGCC
Found at i:25941813 original size:49 final size:49
Alignment explanation
Indices: 25941757--25941886 Score: 161
Period size: 49 Copynumber: 2.7 Consensus size: 49
25941747 GTTGTGTGTT
* * *
25941757 AGTGTAAGACTTGTCTAGGACATGACATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAAAGCC
* * * ** * **
25941806 AGTGTAAGACCTGTCTGGGACACGGCATCGGCTTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAAAGCC
25941855 AGTGTAAGACCTGTCTGGGACATGACATCGAC
1 AGTGTAAGACCTGTCTGGGACATGACATCGAC
25941887 TTTGATGTGC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAAAGCC
Found at i:25941827 original size:93 final size:95
Alignment explanation
Indices: 25941713--25941934 Score: 245
Period size: 98 Copynumber: 2.3 Consensus size: 95
25941703 TATACAAGCT
* * * * *
25941713 AGTGTAAGACCTGTCTAGGACATGGCGTCAGCTT-G-T-TGTG-TGTTAGTGTAAGACTTGTCTA
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCTTCGATATATGAAGTTAGTGTAAGACCTGTCTA
*
25941774 GGACATGACATCGACACCGATAGATGAGAGCC
66 GGACATGACATCGACACCGAT-G-TGAGAGCA
* *
25941806 AGTGTAAGACCTGTCTGGGACACGGCATCGGCTTCGATATATGAAAGTTAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCTTCGATATATG-AAGTTAGTGTAAGACCTGTCT
* *** **
25941871 GGGACATGACATCGACTTTGATGTGCTAGCA
65 AGGACATGACATCGACACCGATGTGAGAGCA
*
25941902 AGTGTAAGACCATGTTTGGGACATGGCATCAGC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCAGC
25941935 ATCTTATCCC
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
93 30 0.28
94 1 0.01
95 1 0.01
96 19 0.18
97 19 0.18
98 36 0.34
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (95 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCTTCGATATATGAAGTTAGTGTAAGACCTGTCTA
GGACATGACATCGACACCGATGTGAGAGCA
Found at i:25944516 original size:30 final size:30
Alignment explanation
Indices: 25944480--25944538 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
25944470 TTTGTACATA
25944480 TCAGCCTCAGTCGAGACCCATTCACTAGCT
1 TCAGCCTCAGTCGAGACCCATTCACTAGCT
25944510 TCAGCCTCAGTCGAGACCCATTCACTAGC
1 TCAGCCTCAGTCGAGACCCATTCACTAGC
25944539 GTACTTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (30 bp):
TCAGCCTCAGTCGAGACCCATTCACTAGCT
Found at i:25946686 original size:18 final size:18
Alignment explanation
Indices: 25946663--25946720 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
25946653 TTTGTTTATT
25946663 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * *
25946681 GTTATTCAGTATCAAACA
1 GTTATTCAATAACAATCA
25946699 ---A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
25946713 GTTATTCA
1 GTTATTCA
25946721 GTCCAGTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
17 1 0.03
18 18 0.60
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:25946959 original size:44 final size:44
Alignment explanation
Indices: 25946905--25946996 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
25946895 CTGAAGTAAT
* *
25946905 AGTAACAGTACGACACATA-AGGTGCCTTATCGACTCAAAGTCGA
1 AGTAACAGTACCACACATATA-GTGCCTCATCGACTCAAAGTCGA
* * *
25946949 AGTAATAGTACCACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACCACACATATAGTGCCTCATCGACTCAAAGTCGA
25946993 AGTA
1 AGTA
25946997 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACCACACATATAGTGCCTCATCGACTCAAAGTCGA
Found at i:25948213 original size:20 final size:20
Alignment explanation
Indices: 25948190--25948246 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
25948180 TTAATTTATT
25948190 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
25948210 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
*
25948230 TTTGATAGAATAATAAT
1 TTT-A-ATAATAATAAT
25948247 AATGATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 1 0.03
22 7 0.23
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:25948264 original size:17 final size:17
Alignment explanation
Indices: 25948212--25948261 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
25948202 AATCATAATT
*
25948212 TAATAAT-ATA-AATTA
1 TAATAATGATAGAATAA
*
25948227 TAAT-TTGATAGAATAA
1 TAATAATGATAGAATAA
25948243 TAATAATGATA-AATAA
1 TAATAATGATAGAATAA
25948259 TAA
1 TAA
25948262 ATATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATGATAGAATAA
Found at i:25951595 original size:68 final size:68
Alignment explanation
Indices: 25951523--25951698 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
25951513 CATCATGTGT
** * * *
25951523 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
25951585 ATGTAG
63 ATGTAG
* * *
25951591 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGATATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
25951656 ATGTAG
63 ATGTAG
*
25951662 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATG
25951699 GGTGGTACTA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
67 6 0.07
68 33 0.36
69 7 0.08
70 6 0.07
71 27 0.29
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:25953767 original size:56 final size:56
Alignment explanation
Indices: 25953681--25953814 Score: 175
Period size: 56 Copynumber: 2.4 Consensus size: 56
25953671 CTATGGCATT
* * * * *
25953681 GATATATGTGTGTGAG-AACGACCACGTTTTATACGTTGGCATTGATATGTGGCTTC
1 GATATATGTGTGCGAGTAA-GACCACGTTTTATACATTGGCATCGATATGTGACTCC
*
25953737 GATATATTTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATGTGACTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATGTGACTCC
25953793 GATAT-TGTGT-CTGAGTAAGACC
1 GATATATGTGTGC-GAGTAAGACC
25953815 CTGTCTGGGA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.01
55 14 0.20
56 52 0.75
57 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATGTGACTCC
Found at i:25963370 original size:18 final size:18
Alignment explanation
Indices: 25963347--25963404 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
25963337 TTTGTTTATT
25963347 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * *
25963365 GTTATTCAGTATCAAACA
1 GTTATTCAATAACAATCA
25963383 ---A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
25963397 GTTATTCA
1 GTTATTCA
25963405 GTCCAGTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
17 1 0.03
18 18 0.60
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:25964598 original size:27 final size:27
Alignment explanation
Indices: 25964550--25964601 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25964540 TTGTTCTTTC
* *
25964550 TTTCTTTTGTTTTCTTTATTTATTATA
1 TTTCTTTTATTCTCTTTATTTATTATA
25964577 TTTCTTTTATTCT-TTTACTTTATTA
1 TTTCTTTTATTCTCTTTA-TTTATTA
25964602 ACTTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (27 bp):
TTTCTTTTATTCTCTTTATTTATTATA
Found at i:25964945 original size:17 final size:17
Alignment explanation
Indices: 25964885--25964942 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
25964875 TATTTTTAAT
* *
25964885 AATAATAATAATAATACA
1 AATAATAATAATGATA-G
* *
25964903 AATTATAAT-TTGATAG
1 AATAATAATAATGATAG
25964919 AATAATAATAATGATA-
1 AATAATAATAATGATAG
25964935 AATAATAA
1 AATAATAA
25964943 ATATCTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 16 0.48
17 9 0.27
18 8 0.24
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (17 bp):
AATAATAATAATGATAG
Found at i:25981562 original size:10 final size:10
Alignment explanation
Indices: 25981544--25981573 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25981534 ATCTAGGCAA
25981544 TGGTATGTTT
1 TGGTATGTTT
*
25981554 TGTTATGTTT
1 TGGTATGTTT
25981564 TGGTATGTTT
1 TGGTATGTTT
25981574 GAGTAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (10 bp):
TGGTATGTTT
Found at i:25984432 original size:28 final size:28
Alignment explanation
Indices: 25984392--25984454 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
25984382 GCTATGTTTA
* *
25984392 GCACTTAGTGTGAGAGACATTGAATATG
1 GCACTTAATGTGAGAGACAGTGAATATG
**
25984420 GCACTTAATGTGAGAGACAGTGGGTATG
1 GCACTTAATGTGAGAGACAGTGAATATG
25984448 GCACTTA
1 GCACTTA
25984455 GTGTACGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (28 bp):
GCACTTAATGTGAGAGACAGTGAATATG
Found at i:25991334 original size:28 final size:28
Alignment explanation
Indices: 25991302--25991377 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
25991292 GCTATGTTTA
*
25991302 GCACTTAGTGTACAAGATATCGAGCACG
1 GCACTTAGTGTACAAGACATCGAGCACG
* * *
25991330 GCACTTAGTGTGCGAGACATCGAGCATG
1 GCACTTAGTGTACAAGACATCGAGCACG
* *
25991358 GCACTTAGTGTGCGAGACAT
1 GCACTTAGTGTACAAGACAT
25991378 TGAATATGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (28 bp):
GCACTTAGTGTACAAGACATCGAGCACG
Found at i:25991390 original size:28 final size:28
Alignment explanation
Indices: 25991329--25991426 Score: 160
Period size: 28 Copynumber: 3.5 Consensus size: 28
25991319 TATCGAGCAC
* **
25991329 GGCACTTAGTGTGCGAGACATCGAGCAT
1 GGCACTTAGTGTGCGAGACATTGAATAT
25991357 GGCACTTAGTGTGCGAGACATTGAATAT
1 GGCACTTAGTGTGCGAGACATTGAATAT
*
25991385 GACACTTAGTGTGCGAGACATTGAATAT
1 GGCACTTAGTGTGCGAGACATTGAATAT
25991413 GGCACTTAGTGTGC
1 GGCACTTAGTGTGC
25991427 AAAATATCGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGACATTGAATAT
Found at i:25994852 original size:17 final size:17
Alignment explanation
Indices: 25994784--25994852 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
25994774 TAATCATTTT
25994784 AATATTAAATT-AATAA
1 AATATTAAATTAAATAA
*
25994800 AATATT--A-TCAATATA
1 AATATTAAATTAAATA-A
* *
25994815 AGTATTAAATTAAATAT
1 AATATTAAATTAAATAA
* *
25994832 AATATTAAATTTATTAA
1 AATATTAAATTAAATAA
25994849 AATA
1 AATA
25994853 ATATTATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
13 1 0.02
14 5 0.12
15 6 0.15
16 6 0.15
17 18 0.44
18 5 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATAA
Found at i:25996051 original size:26 final size:26
Alignment explanation
Indices: 25996022--25996074 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25996012 TGGAGTCAAA
25996022 TACTCTGATAGCCAAGACTAGTCATC
1 TACTCTGATAGCCAAGACTAGTCATC
25996048 TACTCTGATAGCCAAGACTAGTCATC
1 TACTCTGATAGCCAAGACTAGTCATC
25996074 T
1 T
25996075 CCTCAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (26 bp):
TACTCTGATAGCCAAGACTAGTCATC
Found at i:26003021 original size:9 final size:9
Alignment explanation
Indices: 26003007--26003042 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
26002997 ATAGTGGAAT
26003007 ATATGGTTA
1 ATATGGTTA
26003016 ATATGGTTA
1 ATATGGTTA
26003025 ATATGGTTA
1 ATATGGTTA
26003034 ATATGGTTA
1 ATATGGTTA
26003043 TTTTTAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
ATATGGTTA
Found at i:26004040 original size:42 final size:41
Alignment explanation
Indices: 26003933--26004049 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 41
26003923 ATCTGAGATA
*
26003933 TCGTGTAAGACCATGTCTGGGACACAGGCCTCGATTGATATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGA-ATT
*
26003975 TACGTATAAGACCATGTCTGGGACATCA-GCATCGTATTTG-ATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-A-TTGAATT
* * *
26004018 TCGTGTAAGACCCTATCTGGGACAGAGGCATC
1 TCGTGTAAGACCATGTCTGGGACACAGGCATC
26004050 AATATTGAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.41
43 31 0.48
44 3 0.05
45 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAATT
Found at i:26009693 original size:41 final size:40
Alignment explanation
Indices: 26009589--26009781 Score: 291
Period size: 40 Copynumber: 4.8 Consensus size: 40
26009579 TTATTTGATG
**
26009589 TGGAATTGTATCCGGGCTTAAAGACCTACAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
26009629 TAGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
26009669 TGGAAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGG-AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
26009710 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
26009750 TGGAA-TGAATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCT
26009782 GTGCTAGATA
Statistics
Matches: 141, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 15 0.11
39 9 0.06
40 79 0.56
41 38 0.27
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:26009727 original size:81 final size:80
Alignment explanation
Indices: 26009589--26009789 Score: 302
Period size: 81 Copynumber: 2.5 Consensus size: 80
26009579 TTATTTGATG
*
26009589 TGGAATTGTATCCGGGCTTAAAGACCTACAGGCTTCGTGCTAGAATCGTATCCGGGCTTAAAGAC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTAGAATCGTATCCGGGCTTAAAGAC
*
26009654 CCGCAGGCTTTGTGC
66 CCGCAGGCTTCGTGC
* * *
26009669 TGGAAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
1 TGG-AATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTAGAATCGTATCCGGGCTTAAAGA
26009734 CCCGCAGGCTTCGTGC
65 CCCGCAGGCTTCGTGC
* *
26009750 TGGAA-TGAATCCGGG-TTAAAAACCTGCAGGC-T-GTGCTAGA
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTAGA
26009790 TATGTGTTTC
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
76 7 0.06
77 1 0.01
78 14 0.13
79 9 0.08
80 5 0.05
81 75 0.68
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTAGAATCGTATCCGGGCTTAAAGAC
CCGCAGGCTTCGTGC
Found at i:26015266 original size:13 final size:13
Alignment explanation
Indices: 26015248--26015274 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26015238 TCCAAAACAC
26015248 ATCCAAATACATG
1 ATCCAAATACATG
26015261 ATCCAAATACATG
1 ATCCAAATACATG
26015274 A
1 A
26015275 GAAAAGCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (13 bp):
ATCCAAATACATG
Found at i:26018332 original size:37 final size:37
Alignment explanation
Indices: 26018291--26018364 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
26018281 TGTTTGAATG
26018291 ATAGATTTTTATTTGTTGAGTTTACTAATGAGTAATT
1 ATAGATTTTTATTTGTTGAGTTTACTAATGAGTAATT
26018328 ATAGATTTTTATTTGTTGAGTTTACTAATGAGTAATT
1 ATAGATTTTTATTTGTTGAGTTTACTAATGAGTAATT
26018365 TATATAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (37 bp):
ATAGATTTTTATTTGTTGAGTTTACTAATGAGTAATT
Found at i:26024696 original size:20 final size:20
Alignment explanation
Indices: 26024666--26024703 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26024656 GTATGTACTC
26024666 GAATTTTACTTT-AGGAATT
1 GAATTTTACTTTAAGGAATT
26024685 GAATTGTTACTTTAAGGAA
1 GAATT-TTACTTTAAGGAA
26024704 AGTGGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (20 bp):
GAATTTTACTTTAAGGAATT
Found at i:26025028 original size:36 final size:36
Alignment explanation
Indices: 26024968--26025038 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
26024958 TGTGGCCAAG
* **
26024968 CCGTGTGGGGCACACGGTTATGTGAAATC-TTGCAGC
1 CCGTGTGGGGCACACAGACATGTGAAA-CGTTGCAGC
*
26025004 CCGTGTGGGGCACACAGACGTGTGAAACGTTGCAG
1 CCGTGTGGGGCACACAGACATGTGAAACGTTGCAG
26025039 ACCATGTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (36 bp):
CCGTGTGGGGCACACAGACATGTGAAACGTTGCAGC
Found at i:26025703 original size:16 final size:15
Alignment explanation
Indices: 26025680--26025741 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 15
26025670 AATAATGAAT
26025680 AAAGAAAGAAAAAGA
1 AAAGAAAGAAAAAGA
*
26025695 AATAGAAAGCCAAACAAAA
1 AA-AGAAAG--AAA-AAGA
26025714 TAAAGAAAGAAAAAGA
1 -AAAGAAAGAAAAAGA
26025730 GAAAG-AAGAAAA
1 -AAAGAAAGAAAA
26025742 GAAGAAGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 9 0.23
16 13 0.33
17 3 0.08
18 3 0.08
19 9 0.23
20 2 0.05
ACGTcount: A:0.74, C:0.05, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAAAAAGA
Found at i:26032065 original size:13 final size:13
Alignment explanation
Indices: 26032047--26032071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26032037 GTAAGTGATT
26032047 TTGATGATTTTTC
1 TTGATGATTTTTC
26032060 TTGATGATTTTT
1 TTGATGATTTTT
26032072 ACATTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:26032926 original size:46 final size:46
Alignment explanation
Indices: 26032778--26032948 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 46
26032768 TTTGTGTGCT
* * *
26032778 AGTGTAAGAAATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* ** * * *
26032824 AGTGTAAGACCATGTCTGCGACATGGCATCGGTATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* **
26032872 AGAGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
26032918 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
26032949 TACAAGATGT
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 55 0.53
47 25 0.24
48 22 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:26038694 original size:13 final size:13
Alignment explanation
Indices: 26038676--26038700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26038666 GTAAGTGATT
26038676 TTGATGATTTTTC
1 TTGATGATTTTTC
26038689 TTGATGATTTTT
1 TTGATGATTTTT
26038701 GCATTATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:26039538 original size:46 final size:46
Alignment explanation
Indices: 26039405--26039531 Score: 191
Period size: 46 Copynumber: 2.7 Consensus size: 46
26039395 TAATTTGTGT
*
26039405 GCTAGTGTAAGACATGTCTAGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGAGTAAGACATGTCTAGGACAT-GCATCGGCATTGAGACGAGA
* **
26039452 GCTAGAGTAAGACATGTTTTTGACATGCATCGGCATTGAGACGAGA
1 GCTAGAGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGAGA
* *
26039498 GCTAGGGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGAGTAAGACATGTCTAGGACATGCATCGGC
26039532 TATGAGATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 50 0.69
47 22 0.31
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGAGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGAGA
Found at i:26039660 original size:49 final size:50
Alignment explanation
Indices: 26039542--26039673 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
26039532 TATGAGATGT
* * * *
26039542 GTCAGTGTAAGACCATGTCCGGGACATGGCATCAGCACAGAAATGTGGGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAACACACAAATGTGAGA
* * *
26039592 G-CTAGTGTAAGACCATGTCTGGGACATGGCGTCAAC-CTCAAAT-TCGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCAACACACAAATGT-GAGA
26039641 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
26039674 GACTTGATGG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
48 1 0.01
49 38 0.54
50 32 0.45
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAACACACAAATGTGAGA
Found at i:26049475 original size:57 final size:58
Alignment explanation
Indices: 26049341--26049477 Score: 143
Period size: 57 Copynumber: 2.4 Consensus size: 58
26049331 TTACAAAAAG
** * * * * *
26049341 GATTTAGCCTGGACTGGTAATCCTGATATAAACCCTCTTGAGCATATGTTGTAGATAG
1 GATTTAGCCTGGACAAGTAATCCTGATATAAACCCTCTTGAGCATATGTCGAAAACAA
* * * *
26049399 GATTTAGCCCGGACGAGTAATCCTGAT-TAAGCTCT-TATGAGCATATGTCGAAAACAA
1 GATTTAGCCTGGACAAGTAATCCTGATATAAACCCTCT-TGAGCATATGTCGAAAACAA
*
26049456 GATTTAGCTTGGACAAGTAATC
1 GATTTAGCCTGGACAAGTAATC
26049478 TTGTTATATG
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 1 0.02
57 40 0.62
58 24 0.37
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (58 bp):
GATTTAGCCTGGACAAGTAATCCTGATATAAACCCTCTTGAGCATATGTCGAAAACAA
Found at i:26052748 original size:18 final size:19
Alignment explanation
Indices: 26052711--26052748 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
26052701 ATTATTTACA
*
26052711 TTTTATAATTAAAAATTATT
1 TTTTATAATT-AAAACTATT
26052731 TTTTATAATT-AAACTATT
1 TTTTATAATTAAAACTATT
26052749 ATAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTATAATTAAAACTATT
Found at i:26054769 original size:25 final size:24
Alignment explanation
Indices: 26054733--26054779 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
26054723 AAAAATACAA
*
26054733 TAAAAAATAAAAAGAAAAATAATG
1 TAAAAAAAAAAAAGAAAAATAATG
*
26054757 TAAAAGAAAAAAAAGGAAAATAA
1 TAAAA-AAAAAAAAGAAAAATAA
26054780 AAGAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (24 bp):
TAAAAAAAAAAAAGAAAAATAATG
Found at i:26064847 original size:24 final size:24
Alignment explanation
Indices: 26064800--26064848 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
26064790 ACATTGAAAG
* *
26064800 TGGCCAAGAATTGATTTGTTTTAC
1 TGGCCAAGAATTGATTTATCTTAC
*
26064824 TGGCCAAGAATTGTTTTATCTTAC
1 TGGCCAAGAATTGATTTATCTTAC
26064848 T
1 T
26064849 TTCTTGGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (24 bp):
TGGCCAAGAATTGATTTATCTTAC
Found at i:26068495 original size:17 final size:18
Alignment explanation
Indices: 26068463--26068496 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26068453 ATTAAAATTG
*
26068463 TAATAAATTAATATTGAT
1 TAATAAAATAATATTGAT
26068481 TAATAAAAT-ATATTGA
1 TAATAAAATAATATTGA
26068497 AATAATTTCA
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:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
TAATAAAATAATATTGAT
Found at i:26077190 original size:11 final size:11
Alignment explanation
Indices: 26077174--26077211 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
26077164 TATTATTATT
26077174 AAATTCAAATG
1 AAATTCAAATG
*
26077185 AAATTCAACTG
1 AAATTCAAATG
*
26077196 AAA-TGAAATG
1 AAATTCAAATG
26077206 AAATTC
1 AAATTC
26077212 CAAAGACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (11 bp):
AAATTCAAATG
Found at i:26078540 original size:21 final size:22
Alignment explanation
Indices: 26078500--26078556 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
26078490 TTGGGGTGAT
26078500 AATAAAAAATATAAATTAAAAA
1 AATAAAAAATATAAATTAAAAA
*
26078522 AATAAAAAACT-TAAA-TAAAGA
1 AATAAAAAA-TATAAATTAAAAA
26078543 AATAAAATAATATA
1 AATAAAA-AATATA
26078557 TTTTTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 13 0.42
22 17 0.55
23 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AATAAAAAATATAAATTAAAAA
Found at i:26084764 original size:64 final size:64
Alignment explanation
Indices: 26084683--26084866 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
26084673 AGACATTATG
* * * *
26084683 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCAAGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
26084747 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
26084812 AA
63 AA
* * * *
26084814 AT-TGGCTAGGTCACACGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
26084867 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 25 0.26
66 20 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:26089627 original size:13 final size:13
Alignment explanation
Indices: 26089606--26089665 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
26089596 AATTGAAATT
26089606 TAAAA-AAAAGGA
1 TAAAATAAAAGGA
**
26089618 TAAAATAAAAATA
1 TAAAATAAAAGGA
* *
26089631 CAAAATAAAAATGA
1 TAAAAT-AAAAGGA
26089645 -AAAAT-AAAGGA
1 TAAAATAAAAGGA
26089656 TAAAATAAAA
1 TAAAATAAAA
26089666 ATACAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
11 5 0.13
12 10 0.26
13 18 0.47
14 5 0.13
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (13 bp):
TAAAATAAAAGGA
Found at i:26089636 original size:38 final size:39
Alignment explanation
Indices: 26089607--26089687 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 39
26089597 ATTGAAATTT
26089607 AAAAA-AAAGGATAAAATAAAAATACAAAA-TAAAAATG
1 AAAAATAAAGGATAAAATAAAAATACAAAATTAAAAATG
26089644 AAAAATAAAGGATAAAATAAAAATACAAAA-TAAAAATG
1 AAAAATAAAGGATAAAATAAAAATACAAAATTAAAAATG
26089682 AAAAAT
1 AAAAAT
26089688 GATAACTTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 5 0.12
38 38 0.88
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.15
Consensus pattern (39 bp):
AAAAATAAAGGATAAAATAAAAATACAAAATTAAAAATG
Found at i:26089673 original size:13 final size:12
Alignment explanation
Indices: 26089619--26089687 Score: 77
Period size: 13 Copynumber: 5.4 Consensus size: 12
26089609 AAAAAAGGAT
26089619 AAAATAAAAATA
1 AAAATAAAAATA
26089631 CAAAATAAAAATGA
1 -AAAATAAAAAT-A
*
26089645 AAAATAAAGGAT-
1 AAAATAAA-AATA
26089657 AAAATAAAAATA
1 AAAATAAAAATA
26089669 CAAAATAAAAATGA
1 -AAAATAAAAAT-A
26089683 AAAAT
1 AAAAT
26089688 GATAACTTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
11 2 0.04
12 8 0.16
13 35 0.71
14 4 0.08
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:26089689 original size:7 final size:6
Alignment explanation
Indices: 26089619--26089687 Score: 77
Period size: 6 Copynumber: 10.8 Consensus size: 6
26089609 AAAAAAGGAT
*
26089619 AAAATA AAAATA CAAAATA AAAATGA AAAATA AAGGAT- AAAATA AAAATA
1 AAAATA AAAATA -AAAATA AAAAT-A AAAATA AA-AATA AAAATA AAAATA
26089669 CAAAATA AAAATGA AAAAT
1 -AAAATA AAAAT-A AAAAT
26089688 GATAACTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
5 2 0.04
6 27 0.49
7 26 0.47
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:26091240 original size:20 final size:20
Alignment explanation
Indices: 26091215--26091260 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
26091205 TATTTTTATG
*
26091215 ATGATTAGAAGT-ATATTTAC
1 ATGATTAG-AGTGATAATTAC
*
26091235 ATGATTTGAGTGATAATTAC
1 ATGATTAGAGTGATAATTAC
26091255 ATGATT
1 ATGATT
26091261 TTTTTTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.41
Consensus pattern (20 bp):
ATGATTAGAGTGATAATTAC
Found at i:26092389 original size:279 final size:279
Alignment explanation
Indices: 26091881--26092446 Score: 1062
Period size: 279 Copynumber: 2.0 Consensus size: 279
26091871 GCAAATATTT
*
26091881 AATTGAG-TTTTGGGTGGTTAATTTTGCAAGATTATTGATATATGTTTAAGTGATGAATTTTTTG
1 AATTGAGCATTTGGGTGGTTAATTTTGCAAGATTATTGATATATGTTTAAGTGATGAATTTTTTG
*
26091945 TTAAGTGTTGGTAAGTGAACATCTAGTGATTTTATGTGCTTGATTTGGTTGATTATAATGGAGAA
66 TTAAGTGTTGGTAAGTGAACATCTAGTGATTTTATGTGCATGATTTGGTTGATTATAATGGAGAA
*
26092010 CTAAGCAAGTATGTTAGAGTTTTTGGTCCATGGTATGTTGATATTTCAATTGATAAATGAACATT
131 CTAAGCAAGTATGCTAGAGTTTTTGGTCCATGGTATGTTGATATTTCAATTGATAAATGAACATT
*
26092075 GATAATAGTTAATTGGTATGCTAGATTTAATTTGATATTAAAATGGCTATGTTACATGATTTACA
196 GATAATAGTTAATTGGTATGCTAGATTTAATTTGATATTAAAATGGCTATGTTACATGATTCACA
26092140 TATGCATTTTGGCACTTTA
261 TATGCATTTTGGCACTTTA
*
26092159 AATTGAGCATTTGGGTGGTTAATTTTGCAAGATTGTTGATATATGTTTAAGTGATGAATTTTTTG
1 AATTGAGCATTTGGGTGGTTAATTTTGCAAGATTATTGATATATGTTTAAGTGATGAATTTTTTG
* *
26092224 TTAAGTGTTGGTAAGTGAACATCTAGTGATTTTATGTGCATGTTTTGGTTGATTATAATGGTGAA
66 TTAAGTGTTGGTAAGTGAACATCTAGTGATTTTATGTGCATGATTTGGTTGATTATAATGGAGAA
26092289 CTAAGCAAGTATGCTAGAGTTTTTGGTCCATGGTATGTTGATATTTCAATTGATAAATGAACATT
131 CTAAGCAAGTATGCTAGAGTTTTTGGTCCATGGTATGTTGATATTTCAATTGATAAATGAACATT
26092354 GATAATAGTTAATTGGTATGCTAGATTTAATTTGATATTAAAATGGCTATGTTACATGATTCACA
196 GATAATAGTTAATTGGTATGCTAGATTTAATTTGATATTAAAATGGCTATGTTACATGATTCACA
26092419 TATGCATTTTGGCACTTTA
261 TATGCATTTTGGCACTTTA
26092438 AATTGAGCA
1 AATTGAGCA
26092447 CATTATTGAC
Statistics
Matches: 280, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
278 7 0.03
279 273 0.98
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (279 bp):
AATTGAGCATTTGGGTGGTTAATTTTGCAAGATTATTGATATATGTTTAAGTGATGAATTTTTTG
TTAAGTGTTGGTAAGTGAACATCTAGTGATTTTATGTGCATGATTTGGTTGATTATAATGGAGAA
CTAAGCAAGTATGCTAGAGTTTTTGGTCCATGGTATGTTGATATTTCAATTGATAAATGAACATT
GATAATAGTTAATTGGTATGCTAGATTTAATTTGATATTAAAATGGCTATGTTACATGATTCACA
TATGCATTTTGGCACTTTA
Found at i:26105024 original size:23 final size:22
Alignment explanation
Indices: 26104972--26105024 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
26104962 TCCACGTCTT
*
26104972 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
26104994 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
26105017 TTTCTTTT
1 TTTCTTTT
26105025 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:26107357 original size:4 final size:4
Alignment explanation
Indices: 26107343--26107373 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
26107333 TTAAACTAAG
26107343 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
26107374 AATAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:26108266 original size:18 final size:18
Alignment explanation
Indices: 26108243--26108331 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
26108233 AACAAGTGAG
26108243 GAAAAAGAAAAAGAGAAT
1 GAAAAAGAAAAAGAGAAT
*
26108261 GAAAAAGAGCAAAAAGAGATT
1 G-AAAA-AG-AAAAAGAGAAT
* *
26108282 GAGAATGAAAAAGA-AATT
1 GAAAAAGAAAAAGAGAA-T
* *
26108300 GAAGAAAG-AAGAGAAAAT
1 GAA-AAAGAAAAAGAGAAT
**
26108318 GAATTAGAAAAAGA
1 GAAAAAGAAAAAGA
26108332 AACAAAAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.06
18 25 0.46
19 10 0.19
20 5 0.09
21 11 0.20
ACGTcount: A:0.65, C:0.01, G:0.24, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGAGAAT
Found at i:26108316 original size:23 final size:22
Alignment explanation
Indices: 26108290--26108342 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
26108280 TTGAGAATGA
*
26108290 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
26108313 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
26108335 AAAAGAAA
1 AAAAGAAA
26108343 AAGACGTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:26113683 original size:35 final size:35
Alignment explanation
Indices: 26113637--26113709 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
26113627 GACTAGGTTA
26113637 ACCTTTCATATAATCTTGAAGTTTAAATGTTATGT
1 ACCTTTCATATAATCTTGAAGTTTAAATGTTATGT
26113672 ACCTTTCATATAATCTTGAAGTTTAAATGTTATGT
1 ACCTTTCATATAATCTTGAAGTTTAAATGTTATGT
26113707 ACC
1 ACC
26113710 ATCTTAGCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (35 bp):
ACCTTTCATATAATCTTGAAGTTTAAATGTTATGT
Found at i:26117822 original size:21 final size:21
Alignment explanation
Indices: 26117796--26117836 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26117786 TAAAATAAAG
*
26117796 AAATCTGAAATTCTAA-ATTCT
1 AAATCTAAAATT-TAATATTCT
26117817 AAATCTAAAATTTAATATTC
1 AAATCTAAAATTTAATATTC
26117837 ATTTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATCTAAAATTTAATATTCT
Found at i:26124094 original size:44 final size:44
Alignment explanation
Indices: 26124045--26124131 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
26124035 GTAAGTCAAA
*
26124045 TAATATTAAAATAACCTATACTAATAAGAGTTTTAGTGGGAAAC
1 TAATATTAAAATAACCTATACTAATAAGAGTTTAAGTGGGAAAC
*
26124089 TAATATTAAAATAACCTATACTAATCAGAGTTTAAGTGGGAAA
1 TAATATTAAAATAACCTATACTAATAAGAGTTTAAGTGGGAAA
26124132 TAAAAAATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAACCTATACTAATAAGAGTTTAAGTGGGAAAC
Found at i:26135473 original size:83 final size:83
Alignment explanation
Indices: 26135334--26135499 Score: 278
Period size: 83 Copynumber: 2.0 Consensus size: 83
26135324 AATAGAGCGA
* *
26135334 ACCAGATGAGTTGGTGAGGAGGGAAGTGGTTAAGACTCAATGCAGGATGTGCCAAAGTTGGTGAT
1 ACCAGATGAGTTGGTGAGGAGGGAAGTGATTAAGACTCAATGCAGGATGTACCAAAGTTGGTGAT
26135399 CGTGGACTTCGGCGCGTT
66 CGTGGACTTCGGCGCGTT
* * *
26135417 ACCAGATGAGTTGGTGAGGGGGGAAGTGATTAAGATTCAATGTAGGATGTACCAAAGTTGGTGAT
1 ACCAGATGAGTTGGTGAGGAGGGAAGTGATTAAGACTCAATGCAGGATGTACCAAAGTTGGTGAT
*
26135482 TGTGGACTTCGGCGCGTT
66 CGTGGACTTCGGCGCGTT
26135500 CTCATAAACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.25, C:0.13, G:0.37, T:0.26
Consensus pattern (83 bp):
ACCAGATGAGTTGGTGAGGAGGGAAGTGATTAAGACTCAATGCAGGATGTACCAAAGTTGGTGAT
CGTGGACTTCGGCGCGTT
Found at i:26140254 original size:17 final size:18
Alignment explanation
Indices: 26140220--26140263 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
26140210 CCCAGAATCT
26140220 CACACG-CC-TGTGGGCC
1 CACACGCCCATGTGGGCC
26140236 CACACGCCCATGT-GGCC
1 CACACGCCCATGTGGGCC
26140253 CACACGGCCCA
1 CACAC-GCCCA
26140264 AGTTGTCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.24
17 11 0.44
18 8 0.32
ACGTcount: A:0.18, C:0.48, G:0.25, T:0.09
Consensus pattern (18 bp):
CACACGCCCATGTGGGCC
Found at i:26161140 original size:9 final size:9
Alignment explanation
Indices: 26161118--26161151 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
26161108 AAGAAATATT
26161118 AATTAATT-
1 AATTAATTA
26161126 AATTAATTA
1 AATTAATTA
*
26161135 AATTAACTA
1 AATTAATTA
26161144 AATTAATT
1 AATTAATT
26161152 TTTCAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:26161679 original size:20 final size:22
Alignment explanation
Indices: 26161656--26161697 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26161646 CTAAACGAAG
26161656 AAATTC-AAGAATA-AAAAATA
1 AAATTCAAAGAATAGAAAAATA
*
26161676 AAATTCAAAGCATAGAAAAATA
1 AAATTCAAAGAATAGAAAAATA
26161698 TAGAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (22 bp):
AAATTCAAAGAATAGAAAAATA
Found at i:26166638 original size:10 final size:10
Alignment explanation
Indices: 26166623--26166647 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26166613 ATGTTAAATC
26166623 AAATGAATAG
1 AAATGAATAG
26166633 AAATGAATAG
1 AAATGAATAG
26166643 AAATG
1 AAATG
26166648 GTGAAAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
AAATGAATAG
Found at i:26166711 original size:58 final size:58
Alignment explanation
Indices: 26166649--26166771 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 58
26166639 ATAGAAATGG
* * * * * *
26166649 TGAAAATGGAGAAATGAGAAATCA-TTTGGTAATGATTATGG-TTTCTTCAAAATGGAAA
1 TGAAAATGGAGAAA-CA-AAATCATTTTGGAAACGAATATGGTTTTCTCCAAAATGAAAA
*
26166707 TGAAAATGGAGAAACAAAATCATTTTGGAAACGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAACAAAATCATTTTGGAAACGAATATGGTTTTCTCCAAAATGAAAA
26166765 TGAAAAT
1 TGAAAAT
26166772 AAAAAAATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 6 0.11
57 14 0.25
58 36 0.64
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAACAAAATCATTTTGGAAACGAATATGGTTTTCTCCAAAATGAAAA
Found at i:26168167 original size:41 final size:41
Alignment explanation
Indices: 26168121--26168346 Score: 285
Period size: 41 Copynumber: 5.5 Consensus size: 41
26168111 TACATCCAGT
* *
26168121 GGTACCAAAGTACAAATAGGGGCACATTTGTGCAATTCAGG
1 GGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGG
* * *
26168162 GGTACCAAAGTACAAACAGGGGTACATTTGTGCAATTCAAG
1 GGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGG
**
26168203 GGTACCGGAGTA-AGAACAGGGGCACATATGTGCAATTCAGG
1 GGTACCAAAGTACA-AACAGGGGCACATATGTGCAATTCAGG
* ** * *
26168244 GGTACCAAAGTACAAATAGGGGGTCGTATGTGCAATTAAGG
1 GGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGG
*
26168285 GGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGG
1 GGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGG
* *
26168326 GGTATCGAAGTA-AAACCAGGG
1 GGTACCAAAGTACAAA-CAGGG
26168347 TATGTATGGG
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 4 0.03
41 155 0.97
42 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (41 bp):
GGTACCAAAGTACAAACAGGGGCACATATGTGCAATTCAGG
Found at i:26168245 original size:21 final size:21
Alignment explanation
Indices: 26168219--26168327 Score: 62
Period size: 21 Copynumber: 5.3 Consensus size: 21
26168209 GGAGTAAGAA
26168219 CAGGGGCACATATGTGCAATT
1 CAGGGGCACATATGTGCAATT
* * * *
26168240 CAGGGGTACCA-AAGTACAAAT
1 CAGGGGCA-CATATGTGCAATT
** *
26168261 -AGGGGGTCGTATGTGCAATT
1 CAGGGGCACATATGTGCAATT
* * ** * * *
26168281 AAGGGGTACCGAAGTACAA-A
1 CAGGGGCACATATGTGCAATT
26168301 CAGGGGCACATATGTGCAATT
1 CAGGGGCACATATGTGCAATT
26168322 CAGGGG
1 CAGGGG
26168328 TATCGAAGTA
Statistics
Matches: 60, Mismatches: 24, Indels: 8
0.65 0.26 0.09
Matches are distributed among these distances:
19 1 0.02
20 25 0.42
21 32 0.53
22 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (21 bp):
CAGGGGCACATATGTGCAATT
Found at i:26168346 original size:123 final size:123
Alignment explanation
Indices: 26168121--26168346 Score: 337
Period size: 123 Copynumber: 1.8 Consensus size: 123
26168111 TACATCCAGT
* * *
26168121 GGTACCAAAGTACAAATAGGGGCACATTTGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGTA
1 GGTACCAAAGTACAAATAGGGGCACATATGTGCAATTAAGGGGTACCAAAGTACAAACAGGGGCA
* *
26168186 CATTTGTGCAATTCAAGGGTACCGGAGTAAGAACAGGGGCACATATGTGCAATTCAGG
66 CATATGTGCAATTCAAGGGTACCGAAGTAAGAACAGGGGCACATATGTGCAATTCAGG
** * *
26168244 GGTACCAAAGTACAAATAGGGGGTCGTATGTGCAATTAAGGGGTACCGAAGTACAAACAGGGGCA
1 GGTACCAAAGTACAAATAGGGGCACATATGTGCAATTAAGGGGTACCAAAGTACAAACAGGGGCA
* *
26168309 CATATGTGCAATTCAGGGGTATCGAAGTAA-AACCAGGG
66 CATATGTGCAATTCAAGGGTACCGAAGTAAGAA-CAGGG
26168347 TATGTATGGG
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
122 2 0.02
123 89 0.98
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (123 bp):
GGTACCAAAGTACAAATAGGGGCACATATGTGCAATTAAGGGGTACCAAAGTACAAACAGGGGCA
CATATGTGCAATTCAAGGGTACCGAAGTAAGAACAGGGGCACATATGTGCAATTCAGG
Found at i:26173048 original size:25 final size:25
Alignment explanation
Indices: 26173020--26173083 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
26173010 CGACCCACAG
26173020 CTCGTGTGAGCATACTTATTCAGAA
1 CTCGTGTGAGCATACTTATTCAGAA
* * *
26173045 CTCGTGTAAGCATACTTATTCATAG
1 CTCGTGTGAGCATACTTATTCAGAA
26173070 CTCGTGTGAGCATA
1 CTCGTGTGAGCATA
26173084 TATGTAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (25 bp):
CTCGTGTGAGCATACTTATTCAGAA
Found at i:26180867 original size:27 final size:27
Alignment explanation
Indices: 26180827--26180994 Score: 236
Period size: 27 Copynumber: 6.2 Consensus size: 27
26180817 AGGAAGCGTC
*
26180827 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
26180854 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
26180880 CCTGGTGGCTATGCCACA-ATTATCTGAC
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
26180908 CTGGTGGCTCTGCCACATATATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
26180935 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
26180962 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
26180989 CTGGTG
1 CTGGTG
26180995 ACTTCGTCAC
Statistics
Matches: 128, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
26 9 0.07
27 117 0.91
28 2 0.02
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:26180966 original size:81 final size:81
Alignment explanation
Indices: 26180826--26180994 Score: 270
Period size: 81 Copynumber: 2.1 Consensus size: 81
26180816 GAGGAAGCGT
26180826 CCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
1 CCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
26180891 TGCCACAATTATCTG-A
66 TGCCACAA-TATCTGTA
* *
26180907 CCTGGTGGCTCTGCCAC-ATATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCT
1 CCTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCT
*
26180971 CTGCCACAATATCTGTA
65 ATGCCACAATATCTGTA
*
26180988 TCTGGTG
1 CCTGGTG
26180995 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
80 8 0.10
81 74 0.90
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (81 bp):
CCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
TGCCACAATATCTGTA
Found at i:26180991 original size:54 final size:55
Alignment explanation
Indices: 26180827--26180994 Score: 263
Period size: 54 Copynumber: 3.1 Consensus size: 55
26180817 AGGAAGCGTC
*
26180827 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
*
26180881 CTGGTGGCTATGCCACAATTATCTGACCTGGTGGCTCTGCCACATATATCTG-AT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
* *
26180935 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
26180989 CTGGTG
1 CTGGTG
26180995 ACTTCGTCAC
Statistics
Matches: 106, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
53 9 0.08
54 97 0.92
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
Found at i:26185514 original size:12 final size:12
Alignment explanation
Indices: 26185497--26185531 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
26185487 GATTTTATCC
26185497 AAAATGAGAATG
1 AAAATGAGAATG
*
26185509 AAAATGAAAATG
1 AAAATGAGAATG
26185521 AAAATGGAGAA
1 AAAAT-GAGAA
26185532 ATGGAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (12 bp):
AAAATGAGAATG
Found at i:26185538 original size:6 final size:6
Alignment explanation
Indices: 26185497--26185526 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
26185487 GATTTTATCC
*
26185497 AAAATG AGAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
26185527 GAGAAATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:26185582 original size:57 final size:57
Alignment explanation
Indices: 26185509--26185640 Score: 187
Period size: 57 Copynumber: 2.3 Consensus size: 57
26185499 AATGAGAATG
* *
26185509 AAAATGAAAATGAAAATGGAGAAATGGAAA-CATTTGGAAATGATTATGGTTTT-TACC
1 AAAATGAAAATAAAAATGGAGAAAT-GAAATCATTTGGAAATGAATATGGTTTTCT-CC
* *
26185566 AAAATGAAAATAAAAATGGAGAAATGAAATCATTTGGAAATTAATGTGGTTTTCTCC
1 AAAATGAAAATAAAAATGGAGAAATGAAATCATTTGGAAATGAATATGGTTTTCTCC
26185623 AAAATGAAAATGAAAAAT
1 AAAATGAAAAT-AAAAAT
26185641 TAAAAATACT
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
56 4 0.06
57 57 0.84
58 7 0.10
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.27
Consensus pattern (57 bp):
AAAATGAAAATAAAAATGGAGAAATGAAATCATTTGGAAATGAATATGGTTTTCTCC
Found at i:26187325 original size:31 final size:31
Alignment explanation
Indices: 26187282--26187442 Score: 150
Period size: 31 Copynumber: 5.3 Consensus size: 31
26187272 GGTATATGTG
26187282 CCGGTGATTATATCTTATCAGGTATTATATA
1 CCGGTGATTATATCTTATCAGGTATTATATA
* *
26187313 CTGGTGACTATA--TTATCAGGTACTT-TATA
1 CCGGTGATTATATCTTATCAGGTA-TTATATA
* * * * * *
26187342 CCGATGTTTATAT-TCTATCATGCACTATATG
1 CCGGTGATTATATCT-TATCAGGTATTATATA
* * *
26187373 CCAGTGTTTATATCTTATCAGGTATTATGTA
1 CCGGTGATTATATCTTATCAGGTATTATATA
* * *
26187404 CCAGTGATTATATCTTATCAGGTACTATGTA
1 CCGGTGATTATATCTTATCAGGTATTATATA
26187435 CCGGTGAT
1 CCGGTGAT
26187443 GGACACCTTA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
29 22 0.21
30 4 0.04
31 78 0.74
32 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (31 bp):
CCGGTGATTATATCTTATCAGGTATTATATA
Found at i:26192234 original size:43 final size:42
Alignment explanation
Indices: 26192143--26192250 Score: 101
Period size: 43 Copynumber: 2.5 Consensus size: 42
26192133 GGTTATCGAG
* **
26192143 ATGTGATTACATGTAAGACCATGTTTGGGACATTGAAATTTT
1 ATGTGATTACATGTAAGACCATGTTTGGGACATAGAAATAAT
** *
26192185 ATTGTGATTATGTGTAAGACCATGTTTGGGACAGTAG-CATCAAT
1 A-TGTGATTACATGTAAGACCATGTTTGGGACA-TAGAAAT-AAT
* * *
26192229 ATGTGATAACTTTTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
26192251 ATCCGGGATA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.02
43 48 0.91
44 4 0.08
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.36
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTTTGGGACATAGAAATAAT
Found at i:26194963 original size:40 final size:40
Alignment explanation
Indices: 26194919--26195101 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
26194909 TACTAGCTCG
* *
26194919 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
26194959 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
26194999 AATGCCTTCGGGACTTAGGCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
26195039 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
26195079 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
26195102 TTATCATCCA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:26197632 original size:13 final size:13
Alignment explanation
Indices: 26197609--26197634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26197599 AATTTTCAAA
26197609 AATTATTTTCTAT
1 AATTATTTTCTAT
26197622 AATTATTTTCTAT
1 AATTATTTTCTAT
26197635 GAACTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
AATTATTTTCTAT
Found at i:26210941 original size:86 final size:85
Alignment explanation
Indices: 26210795--26210979 Score: 187
Period size: 86 Copynumber: 2.2 Consensus size: 85
26210785 TGAGAATACG
* * *
26210795 TGTAAGACCATATCTAGGATATGGCATCGGTATGATATTACATGTAAGACCATGCTTGGGACATT
1 TGTAAGACCATATCTAGGACATGGCATCGGTATGATATTACATATAAGACCATGCTTGGGACAGT
* * * *
26210860 GGCATTG-TATTGTGATTACA
66 GACATCGATA-TATGATAACA
* * * * * * *
26210880 TGTAAGACCATGTCTAGGACATTGGCATCGTTAT-ATGGTTTCGTATAAGACCTTG-TCTGGGAT
1 TGTAAGACCATATCTAGGACA-TGGCATCGGTATGAT-ATTACATATAAGACCATGCT-TGGGAC
26210943 AGTGACATCGATATATGATAACA
63 AGTGACATCGATATATGATAACA
26210966 TGTAAGACCATATC
1 TGTAAGACCATATC
26210980 CGAGATATGG
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
85 22 0.27
86 57 0.70
87 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (85 bp):
TGTAAGACCATATCTAGGACATGGCATCGGTATGATATTACATATAAGACCATGCTTGGGACAGT
GACATCGATATATGATAACA
Found at i:26214844 original size:20 final size:20
Alignment explanation
Indices: 26214819--26214861 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
26214809 GGAAAATATA
26214819 TATATATATATTTGTCAATC
1 TATATATATATTTGTCAATC
26214839 TATATATATATTTGTCAATC
1 TATATATATATTTGTCAATC
26214859 TAT
1 TAT
26214862 TTCTTCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
TATATATATATTTGTCAATC
Found at i:26219015 original size:44 final size:44
Alignment explanation
Indices: 26218952--26219058 Score: 187
Period size: 44 Copynumber: 2.4 Consensus size: 44
26218942 GATTCCAATT
*
26218952 TATGTGTACGAGTAAGACCAGGGCATCGATATGTGACTCCGATA
1 TATGTGTGCGAGTAAGACCAGGGCATCGATATGTGACTCCGATA
* *
26218996 TATGTGTGCAAGTAAGACCATGGCATCGATATGTGACTCCGATA
1 TATGTGTGCGAGTAAGACCAGGGCATCGATATGTGACTCCGATA
26219040 TATGTGTGCGAGTAAGACC
1 TATGTGTGCGAGTAAGACC
26219059 CTATCTGAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
TATGTGTGCGAGTAAGACCAGGGCATCGATATGTGACTCCGATA
Found at i:26221740 original size:27 final size:27
Alignment explanation
Indices: 26221710--26221887 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
26221700 ATATTGAGTC
* * * *
26221710 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
26221737 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26221764 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
26221792 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
26221819 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
26221846 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26221873 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26221888 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:26221849 original size:82 final size:81
Alignment explanation
Indices: 26221731--26221886 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26221721 TGCTATATAA
* *
26221731 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
26221796 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
26221813 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
26221877 CACTTAGTGC
65 CACTTAGTGC
26221887 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:26229674 original size:27 final size:27
Alignment explanation
Indices: 26229644--26229821 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
26229634 ATATTGAGTC
* * * *
26229644 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
26229671 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26229698 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
26229726 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
26229753 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
26229780 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26229807 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26229822 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:26229783 original size:82 final size:81
Alignment explanation
Indices: 26229665--26229820 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26229655 TGCTATATAA
* *
26229665 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
26229730 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
26229747 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
26229811 CACTTAGTGC
65 CACTTAGTGC
26229821 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:26235712 original size:23 final size:24
Alignment explanation
Indices: 26235661--26235720 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
26235651 AGCAAAGATG
*
26235661 TTATATTATAATTTTTAGGTATTA
1 TTATATTATAATTTTAAGGTATTA
26235685 TTATATCTA-AATTTTAAGGTATTA
1 TTATAT-TATAATTTTAAGGTATTA
26235709 -TATATT-TAATTT
1 TTATATTATAATTT
26235721 CACAATTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.18
23 5 0.15
24 20 0.61
25 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
TTATATTATAATTTTAAGGTATTA
Found at i:26243731 original size:48 final size:48
Alignment explanation
Indices: 26243670--26243955 Score: 389
Period size: 48 Copynumber: 6.0 Consensus size: 48
26243660 CACTGTGCTA
* * * *
26243670 ATGTGCCTATGTAAGACCATGTTTGGGATATGACATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
* *
26243718 ATGTGTCTGTGTAATACCATGTCTT-GGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGT-TTGGGACATGGCATCGGCGATGATAT
26243766 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
* * * * *
26243814 ATGTGCCTATGTAAGACAATGTCTAGGACATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
* * * *
26243862 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
* *
26243910 GTGTGCCAGTGTAAGACC--GTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
26243956 GTGGATTCAT
Statistics
Matches: 216, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
46 26 0.12
47 2 0.01
48 186 0.86
49 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
Found at i:26245666 original size:35 final size:35
Alignment explanation
Indices: 26245627--26245695 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
26245617 CATCTCCGGA
*
26245627 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* * *
26245662 GCTTGGCAAATGTGGAAGGGGATCTTCAAAGATA
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATA
26245696 CGCGATCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:26250851 original size:35 final size:35
Alignment explanation
Indices: 26250805--26250876 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
26250795 CATCTCCAGA
*
26250805 GCTTGGAAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
* * *
26250840 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
26250875 GC
1 GC
26250877 GATCCTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAGGAATCTTCAAAGATAT
Done.