Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 106 of 438
Found at i:30542933 original size:22 final size:22
Alignment explanation
Indices: 30542880--30542938 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
30542870 TTTTATAAAA
*
30542880 AATTTAT-TATTTTATTTCTTT
1 AATTTATATTTTTTATTTCTTT
*
30542901 -ATTTA-AGTTTTTTATTTTTTT
1 AATTTATA-TTTTTTATTTCTTT
30542922 AATTTATATTTTTTATT
1 AATTTATATTTTTTATT
30542939 ATCACCCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 14 0.44
23 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
AATTTATATTTTTTATTTCTTT
Found at i:30552958 original size:15 final size:16
Alignment explanation
Indices: 30552925--30552988 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
30552915 ATTTTAAGTA
* *
30552925 TTATTT-AATATGAAA
1 TTATTTCAATATTAAT
*
30552940 TTATTTCAATA-TATT
1 TTATTTCAATATTAAT
30552955 TTATTAATCAATATTAAT
1 TTATT--TCAATATTAAT
* *
30552973 TTATTACAATTTTAAT
1 TTATTTCAATATTAAT
30552989 AATCTAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
15 12 0.31
16 13 0.33
17 6 0.15
18 8 0.21
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (16 bp):
TTATTTCAATATTAAT
Found at i:30552967 original size:17 final size:18
Alignment explanation
Indices: 30552945--30552978 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30552935 TGAAATTATT
*
30552945 TCAATA-TATTTTATTAA
1 TCAATATTAATTTATTAA
30552962 TCAATATTAATTTATTA
1 TCAATATTAATTTATTA
30552979 CAATTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TCAATATTAATTTATTAA
Found at i:30568746 original size:20 final size:22
Alignment explanation
Indices: 30568706--30568754 Score: 75
Period size: 20 Copynumber: 2.3 Consensus size: 22
30568696 TTACCTATAA
30568706 ATAAAATAATAATAGTTTAATT
1 ATAAAATAATAATAGTTTAATT
*
30568728 ATAAAA-AATAAT-TTTTAATT
1 ATAAAATAATAATAGTTTAATT
30568748 ATAAAAT
1 ATAAAAT
30568755 GTAAATAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 13 0.52
21 6 0.24
22 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAAATAATAATAGTTTAATT
Found at i:30569682 original size:22 final size:22
Alignment explanation
Indices: 30569657--30569701 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30569647 AATTAGTAAA
*
30569657 ATTAAGTAAGATTAAT-TAATAT
1 ATTAAGTAA-ATAAATATAATAT
*
30569679 ATTAATTAAATAAATATAATAT
1 ATTAAGTAAATAAATATAATAT
30569701 A
1 A
30569702 AGTTAGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTAAGTAAATAAATATAATAT
Found at i:30581844 original size:49 final size:50
Alignment explanation
Indices: 30581782--30581908 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 50
30581772 AAGTTGATGT
* * * *
30581782 CATGTCCCAGACATGGTCTTACACTGACTATCGA-ATTTGAG-GTTGACGC
1 CATGTCCCAGACATGGTCTTACACTGACT-CCCACATTTCAGTGCTGACGC
* *
30581831 CATGTCCCAGACATGGTCTTACACT-AGCTCCCACATTTCTGTGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGA-CTCCCACATTTCAGTGCTGACGC
*
30581881 CATGTCCCGGACATGGTCTTACACTGAC
1 CATGTCCCAGACATGGTCTTACACTGAC
30581909 ACATCTCATA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
48 3 0.04
49 32 0.48
50 31 0.46
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACACTGACTCCCACATTTCAGTGCTGACGC
Found at i:30581939 original size:45 final size:48
Alignment explanation
Indices: 30581829--30581952 Score: 132
Period size: 50 Copynumber: 2.6 Consensus size: 48
30581819 TGAGGTTGAC
* * * *
30581829 GCCATGTCCCAGACATGGTCTTACACTAGCTCCCACATTTCTGTGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG--CACACATCTCTGAGCCGAT
*
30581879 GCCATGTCCCGGACATGGTCTTACACT-G-ACACATCTCAT-AGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACATCTC-TGAGCCGAT
*
30581925 G-CATGTCCCAGACAT-GTCTTACCCTAGC
1 GCCATGTCCCAGACATGGTCTTACACTAGC
30581953 TCTCGTCTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
44 9 0.14
45 14 0.22
46 13 0.20
47 1 0.02
49 1 0.02
50 26 0.41
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCACACATCTCTGAGCCGAT
Found at i:30581976 original size:46 final size:46
Alignment explanation
Indices: 30581919--30582045 Score: 164
Period size: 46 Copynumber: 2.7 Consensus size: 46
30581909 ACATCTCATA
* *
30581919 GCCGATGCATGTCCCAGACATGTCTTACCCTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCAAGACATGTCTTACACTAGCTCTCGTCTCAAT
* ** * * *
30581965 GCTGATGCATGTAAAAAACATGTCTTACTCTAGGTCTCGTCTCAAT
1 GCCGATGCATGTCCAAGACATGTCTTACACTAGCTCTCGTCTCAAT
*
30582011 GCCGATGCCATGTCCTAGACATGTCTTACACTAGC
1 GCCGATG-CATGTCCAAGACATGTCTTACACTAGC
30582046 ACACAAATTA
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
46 45 0.68
47 21 0.32
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCAAGACATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:30588532 original size:46 final size:47
Alignment explanation
Indices: 30588479--30588661 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 47
30588469 CTAAAAACCT
30588479 TAACATCTTGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 TAACATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGC
* * *
30588525 TAACATCTCG-AGGCCGATGCATGTCCCAGACATGTCTTACTCTAGC
1 TAACATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGC
** * ** *
30588571 TCTCGTC-TCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 TAACATCTTGTAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC
** ** * *
30588619 TCTCATAATGT-GGCCGATGCATGTCCTAGACATTTCTTACACT
1 TAACATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACT
30588662 AGCACACAAA
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 62 0.54
47 27 0.24
48 23 0.20
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
TAACATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGC
Found at i:30588658 original size:94 final size:92
Alignment explanation
Indices: 30588491--30588664 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 92
30588481 ACATCTTGTA
*
30588491 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTAACATATCGAGGCCGATGCATGTCCCAGAC
*
30588556 ATGTCTTACTCTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
** * *
30588583 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTAACAT-ATCGAGGCCGATGCATGTCCCA
*
30588647 GACATTTCTTACACTAGC
63 GACATGTCTTACACTAGC
30588665 ACACAAATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 50 0.69
95 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTAACATATCGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:30589387 original size:13 final size:13
Alignment explanation
Indices: 30589369--30589393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30589359 CTAAAAATGT
30589369 AAAAATCATCAAG
1 AAAAATCATCAAG
30589382 AAAAATCATCAA
1 AAAAATCATCAA
30589394 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:30591676 original size:6 final size:6
Alignment explanation
Indices: 30591665--30591693 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
30591655 CCTCGCTCCA
30591665 AGATCC AGATCC AGATCC AGATCC AGATC
1 AGATCC AGATCC AGATCC AGATCC AGATC
30591694 TAGTATGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (6 bp):
AGATCC
Found at i:30596458 original size:36 final size:36
Alignment explanation
Indices: 30596410--30596480 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
30596400 TCTACATGGT
** *
30596410 CTGCAACGTTTCACACGTCTGTGTGCCCCACACGGG
1 CTGCAACGTTTCACACAACCGTGTGCCCCACACGGG
*
30596446 CTGCAA-GATTTCACATAACCGTGTGCCCCACACGG
1 CTGCAACG-TTTCACACAACCGTGTGCCCCACACGG
30596481 CTTGGCCACA
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:0.35, G:0.23, T:0.21
Consensus pattern (36 bp):
CTGCAACGTTTCACACAACCGTGTGCCCCACACGGG
Found at i:30596775 original size:20 final size:20
Alignment explanation
Indices: 30596745--30596782 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30596735 AATAACCACT
30596745 TTCCTTAAAGTAACAATTCAA
1 TTCCTTAAAGTAA-AATTCAA
30596766 TTCC-TAAAGTAAAATTC
1 TTCCTTAAAGTAAAATTC
30596783 GAGTACATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (20 bp):
TTCCTTAAAGTAAAATTCAA
Found at i:30600901 original size:49 final size:51
Alignment explanation
Indices: 30600845--30600953 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 51
30600835 TGAGCTTGGA
*
30600845 TTTCTTAACGTAAATTAGCT-GA-AATGCTAACATGGGTTGCGGA-GTTGTT
1 TTTCTTAACGTAAATTAGCTAGACAATGCTAACATGGGTTGC-AATGTTGTT
* *
30600894 TTTCTTAATGTAAATTGGCTGAAGATCAATGCTAACATGGGTTGCAATGTTGTT
1 TTTCTTAACGTAAATTAGCT--AGA-CAATGCTAACATGGGTTGCAATGTTGTT
30600948 TTTCTT
1 TTTCTT
30600954 TATGCATATC
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
49 18 0.35
52 2 0.04
53 1 0.02
54 30 0.59
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (51 bp):
TTTCTTAACGTAAATTAGCTAGACAATGCTAACATGGGTTGCAATGTTGTT
Found at i:30606072 original size:13 final size:13
Alignment explanation
Indices: 30606054--30606080 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30606044 TCAGCTTTTC
30606054 TCATGTATTTGGA
1 TCATGTATTTGGA
30606067 TCATGTATTTGGA
1 TCATGTATTTGGA
30606080 T
1 T
30606081 GTGTTTTGGG
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:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TCATGTATTTGGA
Found at i:30611661 original size:41 final size:41
Alignment explanation
Indices: 30611609--30611731 Score: 221
Period size: 41 Copynumber: 3.0 Consensus size: 41
30611599 CCGGATGTCA
30611609 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAAT
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAAT
**
30611650 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATGA-
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAAT
30611690 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAAT
1 TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAAT
30611731 T
1 T
30611732 CCACATCAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 38 0.49
41 39 0.51
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (41 bp):
TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAAT
Found at i:30611693 original size:81 final size:80
Alignment explanation
Indices: 30611581--30611731 Score: 257
Period size: 81 Copynumber: 1.9 Consensus size: 80
30611571 TATCTAGCAC
* *
30611581 AGCCTGCAGGTTTTTAACCCGGATGTCATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 AGCCTGCAGGTCTTTAACCCGGATATCATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
30611646 CAATTTCCAGCACGA
66 CAATTTCCAGCACGA
* *
30611661 AGCCTGCGGGTCTTTAAGCCCGGATATGATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGAT
1 AGCCTGCAGGTCTTTAA-CCCGGATATCATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGAT
30611726 ACAATT
65 ACAATT
30611732 CCACATCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 15 0.23
81 51 0.77
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (80 bp):
AGCCTGCAGGTCTTTAACCCGGATATCATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
CAATTTCCAGCACGA
Found at i:30611705 original size:40 final size:40
Alignment explanation
Indices: 30611581--30611734 Score: 229
Period size: 40 Copynumber: 3.9 Consensus size: 40
30611571 TATCTAGCAC
* * * *
30611581 AGCCTGCAGGTTTTTAA-CCCGGATGTCATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACGA
*
30611620 AGCCTGCGGGTCTTTAAGCCCGGATACAATTTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATATAA-TTCCAGCACGA
*
30611661 AGCCTGCGGGTCTTTAAGCCCGGATATGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACGA
*
30611701 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATATAATTCCA
30611735 CATCAAATAA
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
39 15 0.14
40 51 0.49
41 38 0.37
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACGA
Found at i:30618275 original size:9 final size:9
Alignment explanation
Indices: 30618261--30618296 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
30618251 CCTTTAAAAA
30618261 TAACCATAT
1 TAACCATAT
30618270 TAACCATAT
1 TAACCATAT
30618279 TAACCATAT
1 TAACCATAT
30618288 TAACCATAT
1 TAACCATAT
30618297 ATTCCACTAT
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
TAACCATAT
Found at i:30625273 original size:26 final size:26
Alignment explanation
Indices: 30625237--30625296 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
30625227 CCAATCGAGG
30625237 AGATGACTAGTCTTAGCTATCAGAGT
1 AGATGACTAGTCTTAGCTATCAGAGT
* *
30625263 AGATGACTAGTCTTGGCTATCAGATT
1 AGATGACTAGTCTTAGCTATCAGAGT
*
30625289 AGTTGACT
1 AGATGACT
30625297 CCATGGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (26 bp):
AGATGACTAGTCTTAGCTATCAGAGT
Found at i:30628093 original size:43 final size:43
Alignment explanation
Indices: 30628045--30628130 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
30628035 AGTGGGAGAA
30628045 GGTTTTTGGACAAAACCTATGATCTCCATTGATGGTTCTTAAG
1 GGTTTTTGGACAAAACCTATGATCTCCATTGATGGTTCTTAAG
30628088 GGTTTTTGGACAAAACCTATGATCTCCATTGATGGTTCTTAAG
1 GGTTTTTGGACAAAACCTATGATCTCCATTGATGGTTCTTAAG
30628131 TAATAGCATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (43 bp):
GGTTTTTGGACAAAACCTATGATCTCCATTGATGGTTCTTAAG
Found at i:30629955 original size:28 final size:28
Alignment explanation
Indices: 30629911--30630063 Score: 198
Period size: 28 Copynumber: 5.5 Consensus size: 28
30629901 TCGATATTTT
*
30629911 GCACACTAAGTGCCATATTCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
* *
30629939 GCACACTAAGTGTCATATTCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
* *
30629967 GCACACTAAGTGCCATGCTCGATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
* *
30629995 GCACACTAAGTGCCATGCTCGATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
* * * *
30630023 GCACACTAAGTGCCATGCTCGATATCTT
1 GCACACTAAGTGCCATACTCAATGTCTC
*
30630051 GTACACTAAGTGC
1 GCACACTAAGTGC
30630064 TAAACATAGC
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 117 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCAATGTCTC
Found at i:30636947 original size:28 final size:28
Alignment explanation
Indices: 30636911--30636977 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
30636901 GATATTTCGT
* *
30636911 ACACTAAGTGCCATACCCACTGTCTCTC
1 ACACTAAGTGCCATACCCAATGTCTCGC
* **
30636939 ACATTAAGTGCCATATTCAATGTCTCGC
1 ACACTAAGTGCCATACCCAATGTCTCGC
30636967 ACACTAAGTGC
1 ACACTAAGTGC
30636978 TAAACATAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.27
Consensus pattern (28 bp):
ACACTAAGTGCCATACCCAATGTCTCGC
Found at i:30639813 original size:10 final size:10
Alignment explanation
Indices: 30639798--30639827 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
30639788 TAACTTACTC
30639798 AAACATACCA
1 AAACATACCA
*
30639808 AAACATAACA
1 AAACATACCA
30639818 AAACATACCA
1 AAACATACCA
30639828 TTGCCTAGAT
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:0.63, C:0.27, G:0.00, T:0.10
Consensus pattern (10 bp):
AAACATACCA
Found at i:30656460 original size:3 final size:3
Alignment explanation
Indices: 30656452--30656495 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
30656442 TTATAATTTG
30656452 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30656496 AAAATAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30658005 original size:18 final size:18
Alignment explanation
Indices: 30657950--30658007 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
30657940 ATTACTGGAC
30657950 TGAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
* * *
30657968 TG-AT---TGTTTGATAC
1 TGAATAACTGATTGTTAT
30657982 TGAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
30658000 TGAATAAC
1 TGAATAAC
30658008 AATAAACAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 9 0.30
15 2 0.07
17 2 0.07
18 17 0.57
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (18 bp):
TGAATAACTGATTGTTAT
Found at i:30665885 original size:2 final size:2
Alignment explanation
Indices: 30665878--30665907 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30665868 ATCATTCCAC
30665878 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
30665908 CAATATAACC
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):
AT
Found at i:30667608 original size:56 final size:56
Alignment explanation
Indices: 30667548--30667682 Score: 225
Period size: 56 Copynumber: 2.4 Consensus size: 56
30667538 TCCCAGACAG
* * *
30667548 GGTCTTACTCGGACACATATATCGGAGTCACATATCAATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGCCACATATCAATGCCAACGTATAAAACGT
*
30667604 GGTCTTACTCGCACAAATATATCGAAGCCACATATCAATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGCCACATATCAATGCCAACGTATAAAACGT
*
30667660 GGTCTTACTCACACACATATATC
1 GGTCTTACTCGCACACATATATC
30667683 AATGCCATAG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGCCACATATCAATGCCAACGTATAAAACGT
Found at i:30673142 original size:20 final size:20
Alignment explanation
Indices: 30673105--30673161 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
30673095 ATTTATCATT
*
30673105 ATTATTATTCTATCAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
30673127 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
30673147 ATTATTATTATTAAA
1 ATTATTATTATTAAA
30673162 AATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 23 0.74
21 3 0.10
22 5 0.16
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:30677443 original size:44 final size:44
Alignment explanation
Indices: 30677358--30677449 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
30677348 TGTTTAGGGA
* *
30677358 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTGGTACTAT
1 TACTTCGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTAT
* * *
30677402 TACTTCGACTTTGAGTCGATAAGGCACCT-TATGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATAAGGCA-CTATAAGTGTCGTACTAT
30677446 TACT
1 TACT
30677450 ATTACTTCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTAT
Found at i:30677689 original size:18 final size:18
Alignment explanation
Indices: 30677634--30677691 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
30677624 ATTACTGGAC
30677634 TGAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
* * *
30677652 TG-AT---TGTTTGATAC
1 TGAATAACTGATTGTTAT
30677666 TGAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
30677684 TGAATAAC
1 TGAATAAC
30677692 AATAAACAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 9 0.30
15 2 0.07
17 2 0.07
18 17 0.57
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (18 bp):
TGAATAACTGATTGTTAT
Found at i:30682468 original size:49 final size:49
Alignment explanation
Indices: 30682413--30682626 Score: 165
Period size: 49 Copynumber: 4.5 Consensus size: 49
30682403 AGTCGATGTC
30682413 ATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAAGCCGATGCT
1 ATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAAGCCGATGCT
* ** * * ** *
30682462 GTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG-T
1 ATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAAGCCGATGCT
* * * * * * *
30682510 CATGTCCTAGACAAGTCTTACACTAAC--ACACA-A-C-AAGCTGACGCC
1 -ATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAAGCCGATGCT
* * * * *
30682555 ATGTCCTAGACAGGTCTTACACTAGCTTGT-ATATCTTGAGGCCGATGC-
1 ATGTCCCAGACAGGTCTTACACTAACTT-TCATATATCGAAGCCGATGCT
*
30682603 ATGTCCCAGACATGTCTTACACTA
1 ATGTCCCAGACAGGTCTTACACTA
30682627 GCTCTCGTCT
Statistics
Matches: 124, Mismatches: 33, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
44 28 0.23
45 1 0.01
46 3 0.02
47 2 0.02
48 23 0.19
49 67 0.54
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAAGCCGATGCT
Found at i:30682614 original size:48 final size:48
Alignment explanation
Indices: 30682554--30682766 Score: 213
Period size: 46 Copynumber: 4.5 Consensus size: 48
30682544 AAGCTGACGC
* *
30682554 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * ** * **
30682602 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATACCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * *
30682648 CATGTCCCAGACATGTCTTACACTGGCTTGTGTCTCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * *
30682696 CATGTCCTAGACATGTCTTATATTGGCTATCGTA-ATGT--A-GCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATG
30682742 CATGTCCTAGACATGTCTTACACTA
1 CATGTCCTAGACATGTCTTACACTA
30682767 CCACACATAT
Statistics
Matches: 136, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
46 65 0.48
47 5 0.04
48 61 0.45
49 3 0.02
50 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:30682677 original size:94 final size:93
Alignment explanation
Indices: 30682554--30682766 Score: 277
Period size: 94 Copynumber: 2.3 Consensus size: 93
30682544 AAGCTGACGC
* *
30682554 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
*
30682619 TTACACTAGCTCTCGTCTCAA-TA-CCGATG
66 TTACACTAGCTATCG--T-AAGTAGCCGATG
* * * * *
30682648 CATGTCCCAGACATGTCTTACACTGGCTTGTGTCTCTCGAGGCCGATGCATGTCCTAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * *
30682713 TTATATTGGCTATCGTAATGTAGCCGATG
66 TTACACTAGCTATCGTAA-GTAGCCGATG
30682742 CATGTCCTAGACATGTCTTACACTA
1 CATGTCCTAGACATGTCTTACACTA
30682767 CCACACATAT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 2 0.02
94 98 0.95
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (93 bp):
CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTATCGTAAGTAGCCGATG
Found at i:30700894 original size:46 final size:46
Alignment explanation
Indices: 30700827--30700955 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
30700817 TGTAACCCGC
** * * *
30700827 CCATAAGCAAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
30700873 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
30700919 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
30700956 TGCCCAAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:30708282 original size:27 final size:27
Alignment explanation
Indices: 30708218--30708276 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
30708208 TTTAATTCCA
**
30708218 TAAATATATTTTATCTCGAAAAGTTTTTT
1 TAAATA-A-TTTATCTCGAAAAGTTTAAT
30708247 TAAATAATTTAT-TCGAAAA-TTTAAT
1 TAAATAATTTATCTCGAAAAGTTTAAT
30708272 TAAAT
1 TAAAT
30708277 GAAATTCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.32
26 7 0.25
27 5 0.18
28 1 0.04
29 6 0.21
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (27 bp):
TAAATAATTTATCTCGAAAAGTTTAAT
Found at i:30712191 original size:43 final size:42
Alignment explanation
Indices: 30712086--30712207 Score: 192
Period size: 42 Copynumber: 2.9 Consensus size: 42
30712076 GGTGTTTATT
*
30712086 AAAAAAAGGGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
*
30712128 AAAAAAA-CAACCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
1 AAAAAAAGC-GCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
*
30712170 AAGAAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGC
1 AA-AAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGC
30712208 TTTTTATTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
42 41 0.56
43 31 0.42
44 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (42 bp):
AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
Found at i:30712251 original size:103 final size:103
Alignment explanation
Indices: 30712114--30712316 Score: 320
Period size: 103 Copynumber: 2.0 Consensus size: 103
30712104 AGTCATGGCC
30712114 TTTAGCGGCGTTTGAAAAAAACAACCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAG
1 TTTAGCGGCGTTTGAAAAAAACAACCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAG
* * *
30712179 CGCCGCTAAAAGTCGTGGCCTTTAGCGGC-TTTTTATT
66 CACCACTAAAAGTCATGGCCTTTAGCGGCGTTTTTATT
* * *
30712216 TTTAGCGGCGTTTGAATAAAAAGC-GCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAGAGAA
1 TTTAGCGGCGTTTGAA-AAAAA-CAACCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAA
30712280 AGCACCACTAAAAGTCATGGCCTTTAGCGGCGTTTTT
64 AGCACCACTAAAAGTCATGGCCTTTAGCGGCGTTTTT
30712317 CCCACAAACG
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
102 16 0.17
103 70 0.76
104 6 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (103 bp):
TTTAGCGGCGTTTGAAAAAAACAACCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAG
CACCACTAAAAGTCATGGCCTTTAGCGGCGTTTTTATT
Found at i:30712264 original size:43 final size:43
Alignment explanation
Indices: 30712216--30712314 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
30712206 GCTTTTTATT
* * * *
30712216 TTTAGCGGCGTTTGAATAAAAAGCGCCGCTAAAAGTCGTGGCC
1 TTTAGCGGCGTTTGAAGAAAAAGCACCACTAAAAGTCATGGCC
*
30712259 TTTAGCGGCGTTTGAAGAGAAAGCACCACTAAAAGTCATGGCC
1 TTTAGCGGCGTTTGAAGAAAAAGCACCACTAAAAGTCATGGCC
30712302 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
30712315 TTCCCACAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGTTTGAAGAAAAAGCACCACTAAAAGTCATGGCC
Found at i:30712422 original size:31 final size:30
Alignment explanation
Indices: 30712387--30712452 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
30712377 CTTCCTGCAT
30712387 TAAAATCCAACC-AAATACAACAAATATAGCA
1 TAAAATCCAACCAAAATAC--CAAATATAGCA
* * *
30712418 TAAAATGCAGCCAAAATACCAAATTTAGCA
1 TAAAATCCAACCAAAATACCAAATATAGCA
30712448 TAAAA
1 TAAAA
30712453 AAATACAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.06, T:0.18
Consensus pattern (30 bp):
TAAAATCCAACCAAAATACCAAATATAGCA
Found at i:30712714 original size:21 final size:21
Alignment explanation
Indices: 30712688--30712728 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30712678 TTCCTATGCT
30712688 CTGCCTCCCTCGCTGCTGCCA
1 CTGCCTCCCTCGCTGCTGCCA
*
30712709 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
30712729 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.54, G:0.17, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCA
Found at i:30713146 original size:13 final size:13
Alignment explanation
Indices: 30713109--30713147 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
30713099 AATGCAACAT
30713109 AACATTATTGAATTA
1 AACATTA-T-AATTA
30713124 AACAATTATAATTA
1 AAC-ATTATAATTA
30713138 AACATTATAA
1 AACATTATAA
30713148 ATATTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 4 0.17
16 4 0.17
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (13 bp):
AACATTATAATTA
Found at i:30713351 original size:16 final size:17
Alignment explanation
Indices: 30713314--30713352 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
30713304 AAAATATTAT
*
30713314 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
30713331 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
30713347 TTAATA
1 TTAATA
30713353 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:30718357 original size:9 final size:9
Alignment explanation
Indices: 30718343--30718532 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
30718333 TATTTAAGTA
30718343 TTATGTAAG
1 TTATGTAAG
30718352 TTATGTAAG
1 TTATGTAAG
*
30718361 TTATGATATG
1 TTATG-TAAG
* * *
30718371 ATATAT-AT
1 TTATGTAAG
*
30718379 TTATGTAAA
1 TTATGTAAG
* *
30718388 TTATAT-AT
1 TTATGTAAG
*
30718396 TTATCTAAG
1 TTATGTAAG
*
30718405 TTATATAAG
1 TTATGTAAG
30718414 TTATGTAAG
1 TTATGTAAG
*
30718423 TTATGTAAA
1 TTATGTAAG
*
30718432 TTATGATATAAAA
1 TTATG---T-AAG
*
30718445 TATATTTAAG
1 T-TATGTAAG
30718455 TATTATGTAAG
1 --TTATGTAAG
30718466 TTATGTAAG
1 TTATGTAAG
* *
30718475 TTATAT-AT
1 TTATGTAAG
*
30718483 TTATCTAAG
1 TTATGTAAG
*
30718492 TTATATAAG
1 TTATGTAAG
*
30718501 TTATGTACG
1 TTATGTAAG
*
30718510 TTTTGTAAG
1 TTATGTAAG
* *
30718519 TTATATAAA
1 TTATGTAAG
30718528 TTATG
1 TTATG
30718533 ATATCAAATA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
8 16 0.12
9 98 0.71
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:30718425 original size:71 final size:69
Alignment explanation
Indices: 30718343--30718505 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
30718333 TATTTAAGTA
* * * *
30718343 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
30718407 ATATAAG
64 ATAT-AG
* * *
30718414 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
30718479 ATAT
66 ATAG
* *
30718483 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
30718506 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:30718481 original size:87 final size:90
Alignment explanation
Indices: 30718379--30718563 Score: 259
Period size: 96 Copynumber: 2.0 Consensus size: 90
30718369 TGATATATAT
*
30718379 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TA-TGTAAGTTATGTAAATTATGATAT
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
30718441 AAAATATATTTAAGTATTATGTAAG
66 AAAATATATTTAAGTATTATGTAAG
*
30718466 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA----TTGTAAGTTATATAAATTA
* *
30718531 TGATATCAAATATATTTATGTATTATGTAAG
60 TGATATAAAATATATTTAAGTATTATGTAAG
30718562 TT
1 TT
30718564 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 34 0.40
90 1 0.01
91 2 0.02
96 48 0.56
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (90 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
AAAATATATTTAAGTATTATGTAAG
Found at i:30718519 original size:114 final size:114
Alignment explanation
Indices: 30718319--30718532 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
30718309 ACTAGTTATG
* * * *
30718319 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
30718384 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
30718433 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
30718496 ATAAGTTATGTACGTTT-TGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
30718533 ATATCAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 62 0.71
115 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:30718571 original size:87 final size:87
Alignment explanation
Indices: 30718379--30718563 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
30718369 TGATATATAT
*
30718379 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
30718444 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
30718466 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
30718529 TATGATATCAAATATATTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
30718553 TTATGTAAGTT
1 TTATGTAAGTT
30718564 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 70 0.81
88 3 0.03
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:30718657 original size:15 final size:15
Alignment explanation
Indices: 30718637--30718692 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
30718627 AAGTAGCGGG
30718637 ATTAAATAATATTTA
1 ATTAAATAATATTTA
30718652 ATTAAATAATATTT-
1 ATTAAATAATATTTA
30718666 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
30718681 ATTAAGTAATAT
1 ATTAAATAATAT
30718693 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:30719712 original size:358 final size:357
Alignment explanation
Indices: 30718901--30720136 Score: 2413
Period size: 358 Copynumber: 3.5 Consensus size: 357
30718891 ATAAAACGGA
*
30718901 GAATTTTTTAAGATTCATCATACGCGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
30718966 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
30719031 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
131 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
30719096 ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAAT
196 ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAAT
30719161 AATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAA
261 AATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAA
30719226 TGAGCTCGATAGAACTTTTTTCAAGTCTTTTT
326 TGAGCTCGATAGAACTTTTTTCAAGTCTTTTT
*
30719258 GAATTTTTTAAGATTTATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
30719323 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
30719388 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
131 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
30719453 ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAAATAGTAATTTGAATATAA
196 ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGC-AAAAAATAGTAATTTGAATATAA
30719518 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAA
260 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAA
30719583 ATGAGCTCGATAGAACTTTTTTCAAGTCTTTTT
325 ATGAGCTCGATAGAACTTTTTTCAAGTCTTTTT
30719616 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
30719681 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
30719746 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
131 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
30719811 ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAAT
196 ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAAT
30719876 AATAT-AAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATT-GAAATAAATATTCAATAGTAAA
261 AATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAA
30719939 TGAGCTCGATAGAACTTTTTTCAAGTCTTTTT
326 TGAGCTCGATAGAACTTTTTTCAAGTCTTTTT
*
30719971 GAATTTTTTAAGATTTATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
30720036 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
*
30720101 AAGGTTGGAGAGAAGGTCATCCATTGTTGTAATTTT
131 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTT
30720137 AATGGACAAG
Statistics
Matches: 873, Mismatches: 5, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
355 218 0.25
356 36 0.04
357 263 0.30
358 356 0.41
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (357 bp):
GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAAT
AATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAA
TGAGCTCGATAGAACTTTTTTCAAGTCTTTTT
Found at i:30720380 original size:15 final size:15
Alignment explanation
Indices: 30720360--30720388 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30720350 AGAATTTTGA
30720360 AATAAAACGTACCTT
1 AATAAAACGTACCTT
30720375 AATAAAACGTACCT
1 AATAAAACGTACCT
30720389 GGTCTACTCC
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:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:30720898 original size:183 final size:183
Alignment explanation
Indices: 30720590--30720958 Score: 693
Period size: 183 Copynumber: 2.0 Consensus size: 183
30720580 CCTAGAACAG
30720590 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
30720655 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAACTTCAGTTGAACCAATAGTTGCAGGAGG
*
30720720 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
30720773 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
30720838 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAACTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAACTTCAGTTGAACCAATAGTTGCAGGAGG
* *
30720903 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
30720956 ATG
1 ATG
30720959 GAACTATATC
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 181 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAACTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:30721048 original size:14 final size:13
Alignment explanation
Indices: 30721029--30721058 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
30721019 CAATATAATT
30721029 TTACTTCATATATA
1 TTACTTCATATA-A
30721043 TTACTTCATATAA
1 TTACTTCATATAA
30721056 TTA
1 TTA
30721059 TTATAGTAAT
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:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:30723619 original size:15 final size:15
Alignment explanation
Indices: 30723599--30723647 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
30723589 GGTAAAAATT
30723599 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
30723614 TT-GGGG-G-A-AAT
1 TTGGGGGAGAAGAAG
*
30723625 TTGGGTGAGAAGAAG
1 TTGGGGGAGAAGAAG
30723640 TTGGGGGA
1 TTGGGGGA
30723648 AATTTGGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 2 0.08
14 5 0.19
15 11 0.42
ACGTcount: A:0.29, C:0.00, G:0.51, T:0.20
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:30723629 original size:26 final size:26
Alignment explanation
Indices: 30723598--30723658 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
30723588 GGGTAAAAAT
30723598 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
*
30723624 TTTGGGTGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
30723650 TTTGGGGGA
1 TTTGGGGGA
30723659 AATCGGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.49, T:0.23
Consensus pattern (26 bp):
TTTGGGGGAGAAGAAGTTGGGGGAAA
Found at i:30723656 original size:11 final size:11
Alignment explanation
Indices: 30723614--30723661 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
30723604 GGAGAAGAAG
30723614 TTGGGGGAAAT
1 TTGGGGGAAAT
*
30723625 TTGGGTGAGAAGAAG
1 TTGGG-G-G-A-AAT
30723640 TTGGGGGAAAT
1 TTGGGGGAAAT
30723651 TTGGGGGAAAT
1 TTGGGGGAAAT
30723662 CGGGGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 18 0.58
12 2 0.06
13 2 0.06
14 2 0.06
15 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.46, T:0.25
Consensus pattern (11 bp):
TTGGGGGAAAT
Found at i:30723971 original size:28 final size:28
Alignment explanation
Indices: 30723939--30723996 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
30723929 AATCAAAACT
*
30723939 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
30723967 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
30723995 CT
1 CT
30723997 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:30723997 original size:21 final size:21
Alignment explanation
Indices: 30723973--30724016 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
30723963 ATCCCTATAA
* *
30723973 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
30723994 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
30724015 CC
1 CC
30724017 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:30724427 original size:41 final size:41
Alignment explanation
Indices: 30724370--30724702 Score: 483
Period size: 41 Copynumber: 8.1 Consensus size: 41
30724360 AACCCTAAAC
*
30724370 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
* * * **
30724411 TTTTAGCGTCATTTTACCAAAAGCGCCTCTAATGCTCCGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
*
30724452 TTTTAGCGGCGCTTTACCAAAAGCGCCCGCTAATGCTCTTAT
1 TTTTAGCGGCGTTTTACCAAAAGCG-CCGCTAATGCTCTTAT
* * *
30724494 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATTGCT-TCGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-TAT
*
30724535 TTTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
30724576 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
* *
30724617 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC-TGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
* *
30724657 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTC-TAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
30724697 GTTTTA
1 -TTTTA
30724703 CAATTTTTTT
Statistics
Matches: 263, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
40 41 0.16
41 185 0.70
42 37 0.14
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
Found at i:30724592 original size:124 final size:122
Alignment explanation
Indices: 30724370--30724702 Score: 508
Period size: 124 Copynumber: 2.7 Consensus size: 122
30724360 AACCCTAAAC
* * * *
30724370 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTTATTTTTAGCGTCATTTTACCAAAAGC
1 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATTGCTCTGATTTTTAGCGACGTTTTACCAAAAGC
* *
30724435 GCCTCTAATGCTCCGATTTTTAGCGGCGCTTTACCAAAAGCGCCCGCTAATGCTCTTAT
66 GCCGCTAATGCT-CTATTTTTAGCGGCGCTTTACCAAAAGCG-CCGCTAATGCTCTTAT
30724494 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATTGCT-TCGATTTTTAGCGACGTTTTACCAAAAG
1 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GATTTTTAGCGACGTTTTACCAAAAG
*
30724558 CGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTAT
65 CGCCGCTAATGCTC-TATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTTAT
* * *
30724617 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTG-TTTTTAGCGGCGTTTTACCAAAAAC
1 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATTGCTCTGATTTTTAGCGACGTTTTACCAAAAGC
*
30724681 GCCGCTATTGCTCTATGTTTTA
66 GCCGCTAATGCTCTAT-TTTTA
30724703 CAATTTTTTT
Statistics
Matches: 194, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
121 3 0.02
122 40 0.21
123 54 0.28
124 97 0.50
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (122 bp):
TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATTGCTCTGATTTTTAGCGACGTTTTACCAAAAGC
GCCGCTAATGCTCTATTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTTAT
Found at i:30724741 original size:12 final size:12
Alignment explanation
Indices: 30724726--30724751 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30724716 GTTTTTTGAT
30724726 AAAACGCCGCTA
1 AAAACGCCGCTA
30724738 AAAACGCCGCTA
1 AAAACGCCGCTA
30724750 AA
1 AA
30724752 GACCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:30727199 original size:37 final size:37
Alignment explanation
Indices: 30727136--30727285 Score: 237
Period size: 37 Copynumber: 4.1 Consensus size: 37
30727126 CTTTAGCTCA
* * * *
30727136 GACAAAATCTCCACACGAAGTTATCGGGTCTTACTCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
30727173 GACATACTCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
30727210 AACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
30727247 GACATAATCTCCACACGTAGTCATCGGGTCTCACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
30727284 GA
1 GA
30727286 ATATATTTCC
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:30727407 original size:48 final size:48
Alignment explanation
Indices: 30727330--30728163 Score: 1184
Period size: 48 Copynumber: 17.0 Consensus size: 48
30727320 TGTTACAACA
* * *
30727330 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * * *
30727378 TTCACATTCGCCATTCGGCCTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
30727426 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
30727474 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
30727522 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
30727570 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * * *
30727618 TTCACATTCGCCATTTGGCTTTATCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
30727666 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATCACATATACAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATA--TC-TCACATAT--AT
* * * * * ** *
30727719 ATCACACATATATTTCACATTAGCCATT-CGGCTTTATCACATATACATATCACACATATAT
1 -T-TCACAT-TA--GC-CATTCGGCTTTACCAC-ATAT-ACATAT-C---T--CACATATAT
*
30727780 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
30727828 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
30727876 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
30727924 TTCACATTCGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
30727972 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
30728020 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
30728068 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
30728116 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
30728164 ATATTTATCT
Statistics
Matches: 707, Mismatches: 60, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
48 626 0.89
50 3 0.00
51 7 0.01
53 3 0.00
54 7 0.01
55 16 0.02
56 5 0.01
58 6 0.01
59 17 0.02
60 6 0.01
61 4 0.01
63 7 0.01
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:30727718 original size:114 final size:114
Alignment explanation
Indices: 30727594--30727821 Score: 429
Period size: 114 Copynumber: 2.0 Consensus size: 114
30727584 TCGGCTTTAC
* * *
30727594 CACATATACATATCTCACATATATTTCACATTCGCCATTTGGCTTTATCACATATACATATCACA
1 CACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTATCACATATACATATCACA
30727659 CATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
66 CATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
30727708 CACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTATCACATATACATATCACA
1 CACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTATCACATATACATATCACA
30727773 CATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
66 CATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
30727822 ATATATTTCA
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.35
Consensus pattern (114 bp):
CACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTATCACATATACATATCACA
CATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
Found at i:30727719 original size:66 final size:66
Alignment explanation
Indices: 30727640--30727769 Score: 251
Period size: 66 Copynumber: 2.0 Consensus size: 66
30727630 ATTTGGCTTT
30727640 ATCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 ATCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
30727705 C
66 C
*
30727706 ATCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTATCACATATACATATC
1 ATCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
30727770 ACACATATAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (66 bp):
ATCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
C
Found at i:30727772 original size:35 final size:35
Alignment explanation
Indices: 30727652--30727772 Score: 99
Period size: 35 Copynumber: 3.6 Consensus size: 35
30727642 CACATATACA
* *
30727652 TATCACACATATATTTCACATTAGCCATTCGGCTT
1 TATCACACATACATATCACATTAGCCATTCGGCTT
* * * * * *
30727687 TACCACATATACATATCTCATCA--CATAT--AC-A
1 TATCACACATACATATCACATTAGCCAT-TCGGCTT
* *
30727718 TATCACACATATATTTCACATTAGCCATTCGGCTT
1 TATCACACATACATATCACATTAGCCATTCGGCTT
*
30727753 TATCACATATACATATCACA
1 TATCACACATACATATCACA
30727773 CATATATTTC
Statistics
Matches: 61, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
31 17 0.28
32 2 0.03
33 6 0.10
34 2 0.03
35 34 0.56
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (35 bp):
TATCACACATACATATCACATTAGCCATTCGGCTT
Found at i:30731735 original size:40 final size:40
Alignment explanation
Indices: 30731641--30731870 Score: 372
Period size: 40 Copynumber: 5.8 Consensus size: 40
30731631 CCAGCATGAT
* * * *
30731641 TGCTCTTCGGGACCTAGCCCGGATACATCATTAG-ACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
30731680 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
30731720 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
30731760 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
30731800 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
30731840 TGCTCTTCGGAATTTAGCCCGGATATATCAC
1 TGCTCTTCGGAACTTAGTCCGGATACATCAC
30731871 ACTCAATTCT
Statistics
Matches: 181, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 31 0.17
40 150 0.83
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:30733181 original size:37 final size:37
Alignment explanation
Indices: 30733102--30733245 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
30733092 GCTCAGACGA
* *
30733102 AATCTCCACACGAAGTTATCGGGTC-TACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
30733138 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
30733175 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
30733212 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30733246 ATATATTTCC
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 22 0.22
37 80 0.78
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:30733433 original size:48 final size:48
Alignment explanation
Indices: 30733290--30734151 Score: 1462
Period size: 48 Copynumber: 18.0 Consensus size: 48
30733280 TGTTACAACA
* * * *
30733290 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
30733338 TTCACATTCGCCATTCGGC-TTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
30733385 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30733433 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30733481 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
30733529 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30733577 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
30733625 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
30733673 TTCACATTAGCCATTCGGCTTTACCACATATACATAT-ATCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCA-CACATATAT
30733721 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30733769 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
30733817 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
30733865 TTCACATTAGCCATTCGGCTTTACCACATATACATAT-ATCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCA-CACATATAT
*
30733913 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30733961 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
30734009 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30734057 TTCACATTAGCCATTCGGCTTTA-CACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
30734104 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
30734152 ATTTTATCTT
Statistics
Matches: 772, Mismatches: 36, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
47 90 0.12
48 680 0.88
49 2 0.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:30745250 original size:24 final size:24
Alignment explanation
Indices: 30745218--30745263 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30745208 AAAAAACCTA
30745218 AAACCTGCCAGAG-GGAGCAGACAG
1 AAACCTGCCAGAGAGG-GCAGACAG
*
30745242 AAACGTGCCAGAGAGGGCAGAC
1 AAACCTGCCAGAGAGGGCAGAC
30745264 CATTAGAAGA
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:0.37, C:0.24, G:0.35, T:0.04
Consensus pattern (24 bp):
AAACCTGCCAGAGAGGGCAGACAG
Found at i:30750986 original size:42 final size:42
Alignment explanation
Indices: 30750919--30751043 Score: 142
Period size: 42 Copynumber: 3.0 Consensus size: 42
30750909 GAGCAAACGG
* * * *
30750919 AAACCCATAAGGGTTAAACAAAAGCTCGTAAGAGCTGAGCAA
1 AAACTCATAAGAGTTAAACAGAAGCTCGTAAGAGCTGAACAA
* * * **
30750961 AAACTCATAAGAGTTTAACAGAAGCTCGAAAGAGTTGAACGG
1 AAACTCATAAGAGTTAAACAGAAGCTCGTAAGAGCTGAACAA
* * *
30751003 AAACTCATATGAGTTAAACAGAAGCTTGTAAGAGCTAAACA
1 AAACTCATAAGAGTTAAACAGAAGCTCGTAAGAGCTGAACA
30751044 GAAAGTAAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (42 bp):
AAACTCATAAGAGTTAAACAGAAGCTCGTAAGAGCTGAACAA
Found at i:30750993 original size:21 final size:21
Alignment explanation
Indices: 30750969--30751046 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
30750959 AAAAACTCAT
*
30750969 AAGAGTTTAACAGAAGCTCGA
1 AAGAGTTAAACAGAAGCTCGA
* * *
30750990 AAGAGTTGAACGGAAACTC-A
1 AAGAGTTAAACAGAAGCTCGA
* * *
30751010 TATGAGTTAAACAGAAGCTTGT
1 -AAGAGTTAAACAGAAGCTCGA
*
30751032 AAGAGCTAAACAGAA
1 AAGAGTTAAACAGAA
30751047 AGTAAAACAC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (21 bp):
AAGAGTTAAACAGAAGCTCGA
Found at i:30753470 original size:10 final size:9
Alignment explanation
Indices: 30753441--30753466 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30753431 AGTCCCTAAA
30753441 CATCAAAAT
1 CATCAAAAT
30753450 CATCAAAAT
1 CATCAAAAT
30753459 CATCAAAA
1 CATCAAAA
30753467 ATCACTTTTC
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:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (9 bp):
CATCAAAAT
Found at i:30754116 original size:12 final size:11
Alignment explanation
Indices: 30754097--30754127 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
30754087 TGTATAAAAC
30754097 TTATTTTATTA
1 TTATTTTATTA
30754108 TTAATTTTATTA
1 TT-ATTTTATTA
30754120 TTATTTTA
1 TTATTTTA
30754128 AAGGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:30754142 original size:30 final size:30
Alignment explanation
Indices: 30754108--30754167 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
30754098 TATTTTATTA
30754108 TTAATTTTATTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
* *
30754138 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
30754168 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGTATTTG
Found at i:30755331 original size:28 final size:27
Alignment explanation
Indices: 30755267--30755331 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
30755257 ACACAAATTG
* *
30755267 AAAATAAAATAAAAAGTGGTTATATTA
1 AAAATAAAATAAAAAGTAGATATATTA
* *
30755294 AAATTGAAAATAAAATGTAGATATGATTA
1 AAAAT-AAAATAAAAAGTAGATAT-ATTA
30755323 AAAATAAAA
1 AAAATAAAA
30755332 AAATATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.61
29 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAGATATATTA
Found at i:30758776 original size:28 final size:28
Alignment explanation
Indices: 30758704--30758778 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
30758694 CCAAAATCAG
* * * * *
30758704 GGAAAGTCCACTAGGGACTGTCTTATGT
1 GGAAAGTCTACCAAGGACTGCCTTATGA
* * *
30758732 GGAAAGTTTTCCTAGGACTGCCTTATGA
1 GGAAAGTCTACCAAGGACTGCCTTATGA
30758760 GGAAAGTCTACCAAGGACT
1 GGAAAGTCTACCAAGGACT
30758779 ATCTTGAAGA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (28 bp):
GGAAAGTCTACCAAGGACTGCCTTATGA
Found at i:30758992 original size:34 final size:34
Alignment explanation
Indices: 30758949--30759017 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
30758939 GAAATTATTT
30758949 GTTTGGACTACGTTGAAAGAGAGAAAGTCTAGTG
1 GTTTGGACTACGTTGAAAGAGAGAAAGTCTAGTG
30758983 GTTTGGACTACGTTGAAAGAGAGAAAGTCTAGTG
1 GTTTGGACTACGTTGAAAGAGAGAAAGTCTAGTG
30759017 G
1 G
30759018 AACTATCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.09, G:0.33, T:0.26
Consensus pattern (34 bp):
GTTTGGACTACGTTGAAAGAGAGAAAGTCTAGTG
Found at i:30769068 original size:6 final size:6
Alignment explanation
Indices: 30769059--30769088 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
30769049 TAATTATAAA
30769059 AATATT AATATT AATATT AATATT AA-ATT A
1 AATATT AATATT AATATT AATATT AATATT A
30769089 TTTTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AATATT
Found at i:30775150 original size:2 final size:2
Alignment explanation
Indices: 30775143--30775169 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30775133 ATAATATTTT
30775143 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30775170 GTTAAATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30775626 original size:20 final size:20
Alignment explanation
Indices: 30775601--30775640 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30775591 CCTACCTTTA
30775601 TCTTTTTCTCTTTTATTCTT
1 TCTTTTTCTCTTTTATTCTT
* *
30775621 TCTTTTTCTTTTTTCTTCTT
1 TCTTTTTCTCTTTTATTCTT
30775641 CTTCACCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TCTTTTTCTCTTTTATTCTT
Found at i:30781337 original size:21 final size:22
Alignment explanation
Indices: 30781311--30781351 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30781301 ACTAGCCATG
30781311 GGGGC-ACACACCCGTGTGAGA
1 GGGGCAACACACCCGTGTGAGA
* *
30781332 GGGGCAATACGCCCGTGTGA
1 GGGGCAACACACCCGTGTGA
30781352 CCAATTCGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.27, G:0.39, T:0.12
Consensus pattern (22 bp):
GGGGCAACACACCCGTGTGAGA
Found at i:30783996 original size:68 final size:70
Alignment explanation
Indices: 30783924--30784121 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
30783914 ACACCCTGTA
* * * *
30783924 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
30783986 ATAAAT
65 ATAAAT
*
30783992 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
30784057 ATAAAT
65 ATAAAT
*
30784063 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
30784122 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:30784035 original size:41 final size:41
Alignment explanation
Indices: 30783990--30784107 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30783980 TGAAAGATAA
30783990 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30784031 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30784061 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30784102 ATGTAG
1 ATGTAG
30784108 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30784047 original size:71 final size:71
Alignment explanation
Indices: 30783958--30784121 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30783948 GAGATGTATC
30783958 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30784023 AGGACA
66 AGGACA
30784029 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30784094 AGGACA
66 AGGACA
30784100 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30784122 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30794515 original size:23 final size:23
Alignment explanation
Indices: 30794484--30794543 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
30794474 CTCATTGGAG
* * *
30794484 CTTATTGTTTTAGCTCGTATGAA
1 CTTACTGTTTTAGCTCGAAAGAA
* * *
30794507 CTTACTG-TTCAGCTTGAAAGAG
1 CTTACTGTTTTAGCTCGAAAGAA
30794529 CTTACTGTTTTAGCT
1 CTTACTGTTTTAGCT
30794544 TAATAGAGCT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (23 bp):
CTTACTGTTTTAGCTCGAAAGAA
Found at i:30794551 original size:23 final size:23
Alignment explanation
Indices: 30794448--30794561 Score: 85
Period size: 23 Copynumber: 5.0 Consensus size: 23
30794438 CCGATATATC
30794448 AGCTTGAA-AGAGCTTATTGTTTT
1 AGCTT-AATAGAGCTTATTGTTTT
* * *
30794471 CAGCTCATTGGAGCTTATTGTTTT
1 -AGCTTAATAGAGCTTATTGTTTT
* * *
30794495 AGCTCGT-AT-GAACTTACTG-TTC
1 AGCT--TAATAGAGCTTATTGTTTT
*
30794517 AGCTTGAA-AGAGCTTACTGTTTT
1 AGCTT-AATAGAGCTTATTGTTTT
30794540 AGCTTAATAGAGCTTATTGTTT
1 AGCTTAATAGAGCTTATTGTTT
30794562 ATCAGCTCAG
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
20 1 0.01
22 18 0.25
23 33 0.46
24 19 0.27
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (23 bp):
AGCTTAATAGAGCTTATTGTTTT
Found at i:30796634 original size:44 final size:45
Alignment explanation
Indices: 30796527--30796889 Score: 259
Period size: 47 Copynumber: 7.8 Consensus size: 45
30796517 GGGATAAATT
* * * *
30796527 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGG--CACATCTCTGTA
* * *
30796576 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTGTA
* * *
30796621 GCCGATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTGTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTGT--A
* *
30796667 GGCCGATGCATGTCCCAGACATATCTTACTCTGGCACTCATCTCTGT-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCA--CATCTCTGTA
* * * *
30796714 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC-T-CTGTA
* * * * * * * *
30796762 GCTGAAGCATGTCCCAGACAGGTCTTACACTAGCCCTTGTCTGGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTGTA
* * *
30796807 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC-T-CTGTA
* *
30796856 GCCGAAGCATGTCCCAGCCATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
30796890 GTACAAATCA
Statistics
Matches: 251, Mismatches: 44, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
43 5 0.02
44 31 0.12
45 4 0.02
46 47 0.19
47 87 0.35
48 47 0.19
49 16 0.06
50 14 0.06
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTGTA
Found at i:30796781 original size:94 final size:92
Alignment explanation
Indices: 30796526--30796886 Score: 412
Period size: 94 Copynumber: 3.9 Consensus size: 92
30796516 TGGGATAAAT
* *
30796526 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATG---GCCGAAGCATGTCC
*
30796591 CAGACATGTCTTACACTAGCA-CAACTCT-
63 CAGACATGTCTTACACTAGCACCATCTCTG
* * * *
30796619 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-TGTCGA-GGCCGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAT--ATGGCCGAAGCATGT
* * *
30796680 CCCAGACATATCTTACTCTGGCACTCATCTCTG
61 CCCAGACATGTCTTACACTAGCAC-CATCTCTG
*
30796713 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGGCCGAAGCATGTCCCA
* * *
30796778 GACAGGTCTTACACTAGC-CCTTGTCTGG
65 GACATGTCTTACACTAGCACCATCTCT-G
*
30796806 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGGCCGAAGCATGTCCC
*
30796871 AGCCATGTCTTACACT
64 AGACATGTCTTACACT
30796887 GGCGTACAAA
Statistics
Matches: 230, Mismatches: 23, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
91 31 0.13
92 18 0.08
93 35 0.15
94 131 0.57
95 15 0.07
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGGCCGAAGCATGTCCCAG
ACATGTCTTACACTAGCACCATCTCTG
Found at i:30796789 original size:141 final size:137
Alignment explanation
Indices: 30796527--30796899 Score: 396
Period size: 141 Copynumber: 2.7 Consensus size: 137
30796517 GGGATAAATT
*
30796527 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TATG--TGCCGATGCATGTCCC
* * * * * *
30796592 AGACATGTCTTACACTAG-CACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCT
63 AGACATGTCTTACACTGGCCACAAATCATAGCCGAAGCATGTCCCAGACACGTCTTACACTAGC-
*
30796656 ATCTCTGTC-GAG
127 -CCT-TGTCGGAG
* * * *
30796668 GCCGATG-CATGTCCCAGACAT-ATCTTACTCTGGCACTCATCTCTGTGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TATGTGCCGATG-CATGTCCCA
* * * *
30796731 GACATGGTCTTACACTGGCTCTCATAAT-ATGGCTGAAGCATGTCCCAGACAGGTCTTACACTAG
64 GACAT-GTCTTACACTGGC-CACA-AATCATAGCCGAAGCATGTCCCAGACACGTCTTACACTAG
*
30796795 CCCTTGTCTGGAT
126 CCCTTGTC-GGAG
* *
30796808 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTATGT-GCCGATGCATGTCCCAG
* *
30796873 CCATGTCTTACACTGGCGTACAAATCA
65 ACATGTCTTACACTGGC-CACAAATCA
30796900 CCCAATATCT
Statistics
Matches: 193, Mismatches: 28, Indels: 23
0.79 0.11 0.09
Matches are distributed among these distances:
137 7 0.04
138 18 0.09
139 35 0.18
140 39 0.20
141 70 0.36
142 24 0.12
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (137 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTATGTGCCGATGCATGTCCCAGA
CATGTCTTACACTGGCCACAAATCATAGCCGAAGCATGTCCCAGACACGTCTTACACTAGCCCTT
GTCGGAG
Found at i:30798402 original size:12 final size:13
Alignment explanation
Indices: 30798380--30798411 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
30798370 CTAGACACAC
30798380 GGGCGTGGTACAT
1 GGGCGTGGTACAT
30798393 GGGC-TGGTACAT
1 GGGCGTGGTACAT
30798405 GGGCGTG
1 GGGCGTG
30798412 TGATCAGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.12, C:0.16, G:0.50, T:0.22
Consensus pattern (13 bp):
GGGCGTGGTACAT
Found at i:30806244 original size:54 final size:54
Alignment explanation
Indices: 30806077--30806277 Score: 219
Period size: 54 Copynumber: 3.7 Consensus size: 54
30806067 GGTACCTTTC
* * * *
30806077 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTT
* * * * **
30806130 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTG-CTTATAGTAGTTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTT
* * * *
30806184 ATCAATGCCATGTCC-TGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTT
1 ACCAATGCCATG-CCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTT
* *
30806238 ACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30806278 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
52 5 0.04
53 39 0.32
54 68 0.57
55 8 0.07
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTT
Found at i:30807581 original size:20 final size:20
Alignment explanation
Indices: 30807556--30807621 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
30807546 TGTTTGAATT
*
30807556 GAACCGGCCAGTTAGATCAA
1 GAACCGGCCAGTCAGATCAA
30807576 GAACCGGCCAGTCAGATCAA
1 GAACCGGCCAGTCAGATCAA
30807596 GAACCGGCCAGTCAGATCAA
1 GAACCGGCCAGTCAGATCAA
30807616 GAACCG
1 GAACCG
30807622 ACTTGAATAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.35, C:0.29, G:0.26, T:0.11
Consensus pattern (20 bp):
GAACCGGCCAGTCAGATCAA
Found at i:30808100 original size:6 final size:6
Alignment explanation
Indices: 30808089--30808135 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
30808079 ATTTAATAAT
* *
30808089 ATATTA ATATTA ATATTA ATATTA AAATAA ATA-TA ATATTA TATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA -ATATT
30808136 TTAAAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 4 0.11
6 26 0.74
7 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:30808237 original size:23 final size:24
Alignment explanation
Indices: 30808206--30808260 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
30808196 ATTATATATT
30808206 TATTATTTTAAAACA-TAATAATG
1 TATTATTTTAAAACAGTAATAATG
* *
30808229 TATTGTTTTAAAATAGTAATAAT-
1 TATTATTTTAAAACAGTAATAATG
30808252 T-TTATTTTA
1 TATTATTTTA
30808261 TCATTTTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 14 0.50
24 7 0.25
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (24 bp):
TATTATTTTAAAACAGTAATAATG
Found at i:30808770 original size:2 final size:2
Alignment explanation
Indices: 30808763--30808795 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30808753 TGAAAATCTA
30808763 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 A
30808796 AAAGAAGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30813957 original size:90 final size:90
Alignment explanation
Indices: 30813804--30813976 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 90
30813794 CGAGAAAATA
* *
30813804 ATGAACATGTTCACAGGTGAAATAAAACATTCAATAGTTCTGATCAAGCTGTGGATGATACAAAT
1 ATGAACATGTTCACAGGTGAAATAAAACATTCAATAGTTCCGATCAAGCTATGGATGATACAAAT
* *
30813869 ACAAACTATCCAGAAGAAGAAGATG
66 ACAAACCATCCAAAAGAAGAAGATG
*
30813894 ATGAACATGTTCACAGGTGAAGTAAAACATTCAATAGTTCCGATCAAGCTATGGATGATACAAAT
1 ATGAACATGTTCACAGGTGAAATAAAACATTCAATAGTTCCGATCAAGCTATGGATGATACAAAT
*
30813959 ACTAACCATCCAAAAGAA
66 ACAAACCATCCAAAAGAA
30813977 CTCTTGAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (90 bp):
ATGAACATGTTCACAGGTGAAATAAAACATTCAATAGTTCCGATCAAGCTATGGATGATACAAAT
ACAAACCATCCAAAAGAAGAAGATG
Found at i:30816454 original size:40 final size:40
Alignment explanation
Indices: 30816409--30816538 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
30816399 CGGAATATAA
30816409 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
30816449 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
30816489 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
30816529 CCGGATATAA
1 CCGGATATAA
30816539 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30816553 original size:40 final size:39
Alignment explanation
Indices: 30816425--30816575 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
30816415 ATAACCATGT
* * *
30816425 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
30816465 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
30816505 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
30816544 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
30816576 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:30816559 original size:80 final size:79
Alignment explanation
Indices: 30816409--30816575 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
30816399 CGGAATATAA
*
30816409 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
30816474 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
30816489 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
30816551 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
30816568 CCGGATAT
1 CCGGATAT
30816576 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:30823597 original size:40 final size:40
Alignment explanation
Indices: 30823553--30823719 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
30823543 CGGAATATAA
*
30823553 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
30823593 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
30823633 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
30823673 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
30823712 CCGGATAT
1 CCGGATAT
30823720 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30823703 original size:80 final size:79
Alignment explanation
Indices: 30823569--30823719 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
30823559 ATAACCATGT
*
30823569 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
30823634 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
30823649 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
30823712 CCGGATAT
64 CCGGATAT
30823720 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:30825288 original size:21 final size:23
Alignment explanation
Indices: 30825264--30825307 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
30825254 AAACCTTTAA
30825264 ATAA-TAATTTTAAAT-TAAATT
1 ATAATTAATTTTAAATATAAATT
*
30825285 ATAATTATTTTTAAATATAAATT
1 ATAATTAATTTTAAATATAAATT
30825308 TAGTAATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 10 0.50
23 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAATTAATTTTAAATATAAATT
Found at i:30825381 original size:2 final size:2
Alignment explanation
Indices: 30825374--30825425 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
30825364 TAAAGCTTTC
30825374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30825416 AT AT AT -T AT A
1 AT AT AT AT AT A
30825426 GATAGATATG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30833103 original size:40 final size:39
Alignment explanation
Indices: 30833059--30833226 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 39
30833049 CTTCGAGACA
* *
30833059 TAGCCCGGTTATAGTGATTCGCAC-AATCGCCTTCGGGAAT
1 TAGCCCGGTT-TAGTAACTCGCACAAAT-GCCTTCGGGAAT
* *
30833099 TAGCCTGGATTTAGTAACTCGCACAAATGCCTTCGGGACT
1 TAGCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGAAT
* *
30833139 TAACCCGGTATTGGTAACTCGCACAAATGCCTTC-GGAAT
1 TAGCCCGGT-TTAGTAACTCGCACAAATGCCTTCGGGAAT
* * * * *
30833178 T-GACCCAGATTTAGTCACTTAGCACAAAAGCCTTCGGGACT
1 TAG-CCC-GGTTTAGTAAC-TCGCACAAATGCCTTCGGGAAT
30833219 TAGCCCGG
1 TAGCCCGG
30833227 ATACCATTCG
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
39 15 0.14
40 75 0.72
41 13 0.12
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
TAGCCCGGTTTAGTAACTCGCACAAATGCCTTCGGGAAT
Found at i:30841145 original size:40 final size:39
Alignment explanation
Indices: 30841101--30841279 Score: 155
Period size: 40 Copynumber: 4.5 Consensus size: 39
30841091 GCTCGATTGT
* * *
30841101 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
30841141 CTTCGGGA-ATTAGCCTGGATTTAGTAACTCACACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
30841181 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
30841221 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
* *
30841262 CTTCGGGACTTAACCCGG
1 CTTCGGGACATAGCCCGG
30841280 ATACCATTCG
Statistics
Matches: 111, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
39 2 0.02
40 83 0.75
41 25 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:30841216 original size:80 final size:81
Alignment explanation
Indices: 30841101--30841279 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
30841091 GCTCGATTGT
* * * * * *
30841101 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCTGGATTTAG
1 CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
*
30841165 TAACTCA-CACAAATGC
65 TAACTCAGCACAAAAGC
* *
30841181 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
* *
30841246 CACTTAGCACAAAAGC
66 AACTCAGCACAAAAGC
30841262 CTTCGGGACTTAACCCGG
1 CTTCGGGACTTAACCCGG
30841280 ATACCATTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 59 0.69
81 27 0.31
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTCAGCACAAAAGC
Found at i:30841268 original size:41 final size:41
Alignment explanation
Indices: 30841131--30841281 Score: 180
Period size: 40 Copynumber: 3.7 Consensus size: 41
30841121 ATAGTGATTC
* * * *
30841131 GCACAATTGCCTTCGGGAATTAGCCTGGATTTAGTAACTCA
1 GCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTA
* * * *
30841172 -CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC-TC
1 GCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTA
* *
30841211 GCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTA
1 GCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTA
* *
30841252 GCACAAAAGCCTTCGGGACTTAACCCGGAT
1 GCACAAATGCCTTCGGGAATTAACCCGGAT
30841282 ACCATTCGAA
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 63 0.69
41 28 0.31
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTA
Found at i:30851623 original size:81 final size:81
Alignment explanation
Indices: 30851488--30851650 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 81
30851478 TGAACTTAAA
* *
30851488 AGGTCAAAATTAAAGATTATGGAGGATGCAGAGCACACCGACTACAAAAACCAACCAAATAGCTT
1 AGGTCAAAATTAAAGATTATGGAGGACGCAAAGCACACCGACTACAAAAACCAACCAAATAGCTT
*
30851553 TAACCATTGATTTTCT
66 TAACCATTGATCTTCT
* *
30851569 AGGTCAAAATTGAAGATTATGGGGGACGCAAAGCACACCGACTACAAAAACCAACCAAATAGCTT
1 AGGTCAAAATTAAAGATTATGGAGGACGCAAAGCACACCGACTACAAAAACCAACCAAATAGCTT
30851634 TAACCATTGATCTTCT
66 TAACCATTGATCTTCT
30851650 A
1 A
30851651 ACACACTTGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (81 bp):
AGGTCAAAATTAAAGATTATGGAGGACGCAAAGCACACCGACTACAAAAACCAACCAAATAGCTT
TAACCATTGATCTTCT
Found at i:30856851 original size:49 final size:49
Alignment explanation
Indices: 30856798--30856895 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
30856788 TTTCGTAAAG
* *
30856798 AAAAGAGAAATAACATAGATTTTTTACGGGCA-AAGAAGAAGAAAATTCA
1 AAAAGAGAAATAACACAGATTTTTTACGGGCAGAA-AAAAAGAAAATTCA
* *
30856847 AAAAGAGAAATAATACATATTTTTTACGGGCAGAAAAAAAGAAAATTCA
1 AAAAGAGAAATAACACAGATTTTTTACGGGCAGAAAAAAAGAAAATTCA
30856896 CTATGTCGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 42 0.95
50 2 0.05
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.21
Consensus pattern (49 bp):
AAAAGAGAAATAACACAGATTTTTTACGGGCAGAAAAAAAGAAAATTCA
Found at i:30859515 original size:20 final size:20
Alignment explanation
Indices: 30859490--30859546 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
30859480 TATTTTTAAA
30859490 AATATTTTAACATAATTTC-T
1 AATATTTTAA-ATAATTTCTT
30859510 AATATTATT-AAT-ATATTCTT
1 AATATT-TTAAATAAT-TTCTT
*
30859530 AATATTTTTAATAATTT
1 AATATTTTAAATAATTT
30859547 ATATTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.06
19 7 0.22
20 19 0.59
21 4 0.12
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATTTTAAATAATTTCTT
Found at i:30859536 original size:29 final size:29
Alignment explanation
Indices: 30859504--30859574 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
30859494 TTTTAACATA
*
30859504 ATTTCTAATATTATTA-ATATATTCTTAAT
1 ATTTCTAATAAT-TTATATATATTCTTAAT
* * *
30859533 ATTTTTAATAATTTATATTTATTTTTAAT
1 ATTTCTAATAATTTATATATATTCTTAAT
*
30859562 ATTTTTAA-AATTT
1 ATTTCTAATAATTT
30859575 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 8 0.22
29 29 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTTCTAATAATTTATATATATTCTTAAT
Found at i:30859566 original size:9 final size:9
Alignment explanation
Indices: 30859490--30859585 Score: 75
Period size: 9 Copynumber: 10.0 Consensus size: 9
30859480 TATTTTTAAA
*
30859490 AATATTTTA
1 AATATTTTT
*
30859499 ACATAATTTCT
1 A-AT-ATTTTT
*
30859510 AATATTATT
1 AATATTTTT
30859519 AATATATTCTT
1 AATAT-TT-TT
30859530 AATATTTTT
1 AATATTTTT
*
30859539 AATAATTTAT
1 AAT-ATTTTT
*
30859549 ATTTATTTTT
1 A-ATATTTTT
30859559 AATATTTTT
1 AATATTTTT
*
30859568 AAAATTTTT
1 AATATTTTT
*
30859577 AAAATTTTT
1 AATATTTTT
30859586 TAGAATTATT
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
9 39 0.55
10 19 0.27
11 13 0.18
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTT
Found at i:30865694 original size:47 final size:47
Alignment explanation
Indices: 30865625--30865719 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
30865615 TAATGCTACG
30865625 ATGCCTCTATTCCTCTTTGCCCTAACTAAAGTAACTTCAATATCCTT
1 ATGCCTCTATTCCTCTTTGCCCTAACTAAAGTAACTTCAATATCCTT
30865672 ATGCCTCTATTCCTCTTTGCCCTAACTAAAGTAACTTCAATATCCTT
1 ATGCCTCTATTCCTCTTTGCCCTAACTAAAGTAACTTCAATATCCTT
30865719 A
1 A
30865720 CCTTTCTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.38
Consensus pattern (47 bp):
ATGCCTCTATTCCTCTTTGCCCTAACTAAAGTAACTTCAATATCCTT
Found at i:30868618 original size:28 final size:29
Alignment explanation
Indices: 30868586--30868710 Score: 204
Period size: 28 Copynumber: 4.4 Consensus size: 29
30868576 AATGAGATTG
30868586 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATA
30868614 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATA
*
30868642 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATA
30868671 GCACTAAGTGTGCGAGTTTAAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTAAAT-TGTATA
30868699 GCACTAAGTGTG
1 GCACTAAGTGTG
30868711 TGGACTTACT
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
28 60 0.64
29 33 0.35
30 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.34
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTGTATA
Found at i:30868680 original size:57 final size:56
Alignment explanation
Indices: 30868586--30868710 Score: 209
Period size: 57 Copynumber: 2.2 Consensus size: 56
30868576 AATGAGATTG
30868586 GCACTAAGTGTGCGAGTTTAATTGTATAGCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATAGCACTAAGTGTGCGAGTTTAAATAT-TA-A
30868642 GCACTAAGTGTGCGAGTTTGAATTGTATAGCACTAAGTGTGCGAGTTTAAATATTAA
1 GCACTAAGTGTGCGAGTTT-AATTGTATAGCACTAAGTGTGCGAGTTTAAATATTAA
30868699 GCACTAAGTGTG
1 GCACTAAGTGTG
30868711 TGGACTTACT
Statistics
Matches: 66, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
56 19 0.29
57 41 0.62
58 5 0.08
59 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.34
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTAATTGTATAGCACTAAGTGTGCGAGTTTAAATATTAA
Found at i:30873786 original size:68 final size:70
Alignment explanation
Indices: 30873714--30873911 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
30873704 ACACCCTGTA
* * * *
30873714 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
30873776 ATAAAT
65 ATAAAT
*
30873782 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
30873847 GTAAAT
65 ATAAAT
*
30873853 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
30873912 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:30873837 original size:71 final size:71
Alignment explanation
Indices: 30873748--30873911 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
30873738 GAGATGTATC
30873748 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30873813 AGGACA
66 AGGACA
*
30873819 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30873884 AGGACA
66 AGGACA
30873890 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30873912 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30886418 original size:40 final size:40
Alignment explanation
Indices: 30886373--30886502 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
30886363 CGGAATACAA
30886373 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
30886413 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
30886453 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
30886493 CCGGATATAA
1 CCGGATATAA
30886503 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Done.