Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11097736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 71999 characters in sequence are not A, C, G, or T
File 14 of 22
Found at i:7097979 original size:26 final size:23
Alignment explanation
Indices: 7097947--7098020 Score: 89
Period size: 23 Copynumber: 3.1 Consensus size: 23
7097937 TTTTAATGTC
7097947 ATATATTTTATTTTTATTTATTA
1 ATATATTTTATTTTTATTTATTA
7097970 TTATAATATTTTATATTTTATTT-TTA
1 --AT-ATATTTTAT-TTTTATTTATTA
7097996 ATATATTTATATTTTTA-TTATTA
1 ATATATTT-TATTTTTATTTATTA
7098019 AT
1 AT
7098021 TTTTATATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
22 2 0.04
23 16 0.36
24 5 0.11
25 2 0.04
26 12 0.27
27 8 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
ATATATTTTATTTTTATTTATTA
Found at i:7098019 original size:23 final size:22
Alignment explanation
Indices: 7097955--7098028 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
7097945 TCATATATTT
7097955 TATTTT-TATTTATTATTA-TAA
1 TATTTTATATTT-TTATTATTAA
*
7097976 TATTTTATA-TTTTATTTTTAA
1 TATTTTATATTTTTATTATTAA
7097997 TATATTTATATTTTTATTATTAA
1 TAT-TTTATATTTTTATTATTAA
7098020 T-TTTTATAT
1 TATTTTATAT
7098029 AATACCATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.11
21 21 0.45
22 9 0.19
23 12 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTATATTTTTATTATTAA
Found at i:7098029 original size:23 final size:22
Alignment explanation
Indices: 7097957--7098029 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
7097947 ATATATTTTA
*
7097957 TTTTTAT-TTATTATTA-TAAT
1 TTTTTATATTTTTATTATTAAT
* *
7097977 ATTTTATA-TTTTATTTTTAAT
1 TTTTTATATTTTTATTATTAAT
*
7097998 ATATTTATATTTTTATTATTAAT
1 -TTTTTATATTTTTATTATTAAT
7098021 TTTTATATA
1 TTTT-TATA
7098030 ATACCATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
20 12 0.29
21 4 0.10
22 9 0.22
23 16 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATATTTTTATTATTAAT
Found at i:7098031 original size:113 final size:114
Alignment explanation
Indices: 7097878--7098106 Score: 388
Period size: 113 Copynumber: 2.0 Consensus size: 114
7097868 AAAATACAAG
* *
7097878 TTTAATATATTCATATTTTTTATTATTAATTTTTATATAATATCATTTCTTAAAGATATTTTTAA
1 TTTAATATATTCATATTTTTTATTATTAATTTTTATATAATACCATATCTTAAAGATATTTTTAA
* *
7097943 TGTCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
66 TGTCATATATTTTATTTTCATTTATTATTATAATATTATATATTTTATT
* *
7097992 TTTAATATATTTATA-TTTTTATTATTAATTTTTATATAATACCATATCTTAAATATATTTTTAA
1 TTTAATATATTCATATTTTTTATTATTAATTTTTATATAATACCATATCTTAAAGATATTTTTAA
*
7098056 TGTCATATATTTTATTTTCATTTATTATTATAATCTTATATATTTTATT
66 TGTCATATATTTTATTTTCATTTATTATTATAATATTATATATTTTATT
7098105 TT
1 TT
7098107 CATTTCTTTA
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 94 0.87
114 14 0.13
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (114 bp):
TTTAATATATTCATATTTTTTATTATTAATTTTTATATAATACCATATCTTAAAGATATTTTTAA
TGTCATATATTTTATTTTCATTTATTATTATAATATTATATATTTTATT
Found at i:7098076 original size:15 final size:15
Alignment explanation
Indices: 7098044--7098109 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 15
7098034 CATATCTTAA
* *
7098044 ATATATTTTTAATGTC
1 ATATA-TTTTATTTTC
7098060 ATATATTTTATTTTC
1 ATATATTTTATTTTC
*
7098075 ATTTATTATTATAATCTT-
1 ATATATT-TTAT--T-TTC
7098093 ATATATTTTATTTTC
1 ATATATTTTATTTTC
7098108 AT
1 AT
7098110 TTCTTTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.05
15 17 0.41
16 9 0.22
17 4 0.10
18 7 0.17
19 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (15 bp):
ATATATTTTATTTTC
Found at i:7098192 original size:5 final size:5
Alignment explanation
Indices: 7098182--7098225 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
7098172 TAATTTTTTA
* *
7098182 TATTT TATTT TATTT TATTTT TATTA TATTAT TTTTT TATTT TA
1 TATTT TATTT TATTT TA-TTT TATTT TATT-T TATTT TATTT TA
7098226 ATTATAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 25 0.76
6 8 0.24
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:7098201 original size:24 final size:24
Alignment explanation
Indices: 7098120--7098225 Score: 70
Period size: 27 Copynumber: 4.1 Consensus size: 24
7098110 TTCTTTAATA
*
7098120 TATTTTTTAT-TATATATTTTATTT
1 TATTTTTTATAT-TTTATTTTATTT
* **
7098144 TATTTGTTTACCTATATTATATAAATGTT
1 TATTT-TTTA--TATTTTAT-TTTAT-TT
*
7098173 AATTTTTTATATTTTATTTTATTT
1 TATTTTTTATATTTTATTTTATTT
*
7098197 TATTTTTATTATATTATTTTTTTATTT
1 TA-TTTT-TTATATT-TTATTTTATTT
7098224 TA
1 TA
7098226 ATTATAACAT
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
24 8 0.13
25 11 0.17
26 14 0.22
27 16 0.25
28 8 0.13
29 6 0.10
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TATTTTTTATATTTTATTTTATTT
Found at i:7098205 original size:11 final size:11
Alignment explanation
Indices: 7098177--7098224 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
7098167 AATGTTAATT
7098177 TTTTATATTTTA
1 TTTT-TATTTTA
7098189 -TTTTATTTTA
1 TTTTTATTTTA
*
7098199 TTTTTATTATA
1 TTTTTATTTTA
7098210 TTATTT-TTTTA
1 TT-TTTATTTTA
7098221 TTTT
1 TTTT
7098225 AATTATAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 9 0.28
11 20 0.62
12 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:7098205 original size:16 final size:16
Alignment explanation
Indices: 7098177--7098225 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
7098167 AATGTTAATT
7098177 TTTTATATTTTATTTTA
1 TTTTAT-TTTTATTTTA
*
7098194 TTTTATTTTTATTATA
1 TTTTATTTTTATTTTA
7098210 TTATT-TTTTTATTTTA
1 TT-TTATTTTTATTTTA
7098226 ATTATAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 21 0.72
17 8 0.28
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:7098219 original size:22 final size:24
Alignment explanation
Indices: 7098123--7098231 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 24
7098113 TTTAATATAT
7098123 TTTTTATTATA-TATTTTATTTTA
1 TTTTTATTATATTATTTTATTTTA
* ** *
7098146 TTTGTTTACCTATATTATATAAATGTTAA
1 -TT-TTTA-TTATATTAT-TTTAT-TTTA
*
7098175 TTTTT-TATATTTTATTTTATTTTA
1 TTTTTAT-TATATTATTTTATTTTA
7098199 TTTTTATTATATTA-TTT-TTTTA
1 TTTTTATTATATTATTTTATTTTA
*
7098221 TTTTAATTATA
1 TTTTTATTATA
7098232 ACATTAATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
22 15 0.22
23 3 0.04
24 16 0.24
25 8 0.12
26 11 0.16
27 6 0.09
28 5 0.07
29 3 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTATTATATTATTTTATTTTA
Found at i:7098661 original size:15 final size:16
Alignment explanation
Indices: 7098636--7098668 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
7098626 TTAAAGAATC
7098636 TGATAAAGCCTTTCAG
1 TGATAAAGCCTTTCAG
7098652 TGAT-AAGCCTTTCAG
1 TGATAAAGCCTTTCAG
7098667 TG
1 TG
7098669 CAATACGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (16 bp):
TGATAAAGCCTTTCAG
Found at i:7104718 original size:8 final size:7
Alignment explanation
Indices: 7104707--7104737 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
7104697 AACATAAAAT
7104707 TTTTTTA
1 TTTTTTA
7104714 TTTTTTA
1 TTTTTTA
7104721 TTTTTTA
1 TTTTTTA
7104728 TTTTTT-
1 TTTTTTA
7104734 TTTT
1 TTTT
7104738 CTCTTCACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTTA
Found at i:7104941 original size:9 final size:9
Alignment explanation
Indices: 7104908--7104933 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7104898 TGATTGATTG
7104908 ATAAAAAAA
1 ATAAAAAAA
7104917 ATAAAAAAA
1 ATAAAAAAA
7104926 ATAAAAAA
1 ATAAAAAA
7104934 GTAAAAAATT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:7104990 original size:21 final size:21
Alignment explanation
Indices: 7104966--7105024 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
7104956 TTTAAAATTA
* *
7104966 AATTATTATAAAAATTAATAT
1 AATTATAATAAAAAATAATAT
*
7104987 AATTAAAATAAAATAATAATAT
1 AATTATAATAAAA-AATAATAT
7105009 -ATTATAATAAAAAATA
1 AATTATAATAAAAAATA
7105025 TTTTTATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 22 0.67
22 7 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATTATAATAAAAAATAATAT
Found at i:7105148 original size:31 final size:30
Alignment explanation
Indices: 7105095--7105172 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 30
7105085 TTAAAATAAA
7105095 TCATAATAATAATTATTATCTTATTAAATTT
1 TCATAA-AATAATTATTATCTTATTAAATTT
*
7105126 T-AT-AAATAATTATTCATCTCTTATTATATTT
1 TCATAAAATAATTATT-A--TCTTATTAAATTT
7105157 TCATAAAATAATTATT
1 TCATAAAATAATTATT
7105173 TTATTTTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 10 0.24
29 2 0.05
30 2 0.05
31 14 0.34
32 2 0.05
33 11 0.27
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (30 bp):
TCATAAAATAATTATTATCTTATTAAATTT
Found at i:7115812 original size:14 final size:15
Alignment explanation
Indices: 7115793--7115842 Score: 77
Period size: 14 Copynumber: 3.5 Consensus size: 15
7115783 GAAAAGTAAA
7115793 AATATATT-TTTTAT
1 AATATATTATTTTAT
*
7115807 AATATATTATATTAT
1 AATATATTATTTTAT
7115822 AATAT-TTATTTTAT
1 AATATATTATTTTAT
7115836 AATATAT
1 AATATAT
7115843 CACTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATATATTATTTTAT
Found at i:7115849 original size:27 final size:29
Alignment explanation
Indices: 7115793--7115854 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
7115783 GAAAAGTAAA
* *
7115793 AATATATTTTTTATAATATATTATATTAT
1 AATATATTTTTTATAATATATTACACTAT
7115822 AATAT-TTATTTTATAATATA-T-CACTAT
1 AATATATT-TTTTATAATATATTACACTAT
7115849 AATATA
1 AATATA
7115855 AAATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 9 0.31
28 3 0.10
29 17 0.59
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
AATATATTTTTTATAATATATTACACTAT
Found at i:7116020 original size:15 final size:15
Alignment explanation
Indices: 7116000--7116031 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7115990 TAATATTATA
7116000 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
7116015 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
7116030 AT
1 AT
7116032 AATATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:7126294 original size:90 final size:90
Alignment explanation
Indices: 7126140--7126321 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 90
7126130 TCTGAGTGTA
*
7126140 AAATTCGGTAATGACTTCTCTTGTTCTCTTGCCTTCGTAATAATATATACATGCAACAATGTCTT
1 AAATTCGGTAATGACTTCTCTTGTTCTCTTGCCTTCGTAATAATATATACATGCAACAAAGTCTT
7126205 TAAACTAAAAGCTACTGAAACAATG
66 TAAACTAAAAGCTACTGAAACAATG
7126230 AAATTCGGTAATGACTTCTCTTGTTCTCTTGCCTTCGTAATAATATATACATGCAACAAAGTCTT
1 AAATTCGGTAATGACTTCTCTTGTTCTCTTGCCTTCGTAATAATATATACATGCAACAAAGTCTT
7126295 TAAACTAAAAGCTACTGAAACAATG
66 TAAACTAAAAGCTACTGAAACAATG
7126320 AA
1 AA
7126322 CGAAAGGAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (90 bp):
AAATTCGGTAATGACTTCTCTTGTTCTCTTGCCTTCGTAATAATATATACATGCAACAAAGTCTT
TAAACTAAAAGCTACTGAAACAATG
Found at i:7139892 original size:12 final size:12
Alignment explanation
Indices: 7139848--7139901 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
7139838 CCAGAGAAGA
*
7139848 ATATATATATGT
1 ATATATGTATGT
*
7139860 ATGTATGTATGT
1 ATATATGTATGT
*
7139872 ATGTATGTATGT
1 ATATATGTATGT
* *
7139884 ATATTTGTATAT
1 ATATATGTATGT
7139896 ATATAT
1 ATATAT
7139902 ATGTATTACC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (12 bp):
ATATATGTATGT
Found at i:7139902 original size:8 final size:8
Alignment explanation
Indices: 7139851--7139907 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
7139841 GAGAAGAATA
7139851 TATATATG
1 TATATATG
*
7139859 TATGTATG
1 TATATATG
*
7139867 TATGTATG
1 TATATATG
*
7139875 TATGTATG
1 TATATATG
*
7139883 TATATTTG
1 TATATATG
7139891 TATATA--
1 TATATATG
7139897 TATATATG
1 TATATATG
7139905 TAT
1 TAT
7139908 TACCAAGCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 6 0.14
8 37 0.86
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (8 bp):
TATATATG
Found at i:7139903 original size:4 final size:4
Alignment explanation
Indices: 7139855--7139885 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
7139845 AGAATATATA
7139855 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
7139886 ATTTGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:7145705 original size:25 final size:26
Alignment explanation
Indices: 7145649--7145709 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
7145639 TTCCATGCTC
* *
7145649 AGAACAACCATGGCTGCTTCTACATTT
1 AGAACATCC-TGGCTGCTTCTACACTT
*
7145676 AGAACATCCTGGC-GCTTCTATACTT
1 AGAACATCCTGGCTGCTTCTACACTT
*
7145701 GGAAC-TCCT
1 AGAACATCCT
7145710 TAAAGCGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 14 0.47
26 4 0.13
27 8 0.27
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (26 bp):
AGAACATCCTGGCTGCTTCTACACTT
Found at i:7145820 original size:27 final size:27
Alignment explanation
Indices: 7145768--7145838 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
7145758 ACACCCCTAA
* *
7145768 GCACTTCCACACTTGAAGCACTTTTGG
1 GCACTTCTACACTTGAAGCACCTTTGG
* *
7145795 GCACTTCTACTCTTAGAA-CACCTTTGT
1 GCACTTCTACACTT-GAAGCACCTTTGG
* **
7145822 GCGCTTCTGTACTTGAA
1 GCACTTCTACACTTGAA
7145839 ATACCCCTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 3 0.09
27 29 0.83
28 3 0.09
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (27 bp):
GCACTTCTACACTTGAAGCACCTTTGG
Found at i:7146241 original size:94 final size:94
Alignment explanation
Indices: 7146080--7146268 Score: 342
Period size: 94 Copynumber: 2.0 Consensus size: 94
7146070 ACTAACAAGA
* * *
7146080 GGGTACAACTGCGGGACTCCCAACTTACAATTGCCATCGATGCCTACAAACGTGTCAAGGTCCCT
1 GGGTACAACTGCAGGACTCCCAACTTACAATTGCCATCAATGCCTACAAACATGTCAAGGTCCCT
*
7146145 TGTGTGTTGTGTATGCCCACCGTAAAAGT
66 TGTGGGTTGTGTATGCCCACCGTAAAAGT
7146174 GGGTACAACTGCAGGACTCCCAACTTACAATTGCCATCAATGCCTACAAACATGTCAAGGTCCCT
1 GGGTACAACTGCAGGACTCCCAACTTACAATTGCCATCAATGCCTACAAACATGTCAAGGTCCCT
7146239 TGTGGGTTGTGTATGCCCACCGTAAAAGT
66 TGTGGGTTGTGTATGCCCACCGTAAAAGT
7146268 G
1 G
7146269 CACACTACCT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (94 bp):
GGGTACAACTGCAGGACTCCCAACTTACAATTGCCATCAATGCCTACAAACATGTCAAGGTCCCT
TGTGGGTTGTGTATGCCCACCGTAAAAGT
Found at i:7151485 original size:21 final size:22
Alignment explanation
Indices: 7151461--7151507 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
7151451 CTTATTTAAT
7151461 TTAAAATAAAAAT-ATAAAAAA
1 TTAAAATAAAAATAATAAAAAA
* **
7151482 TT-AATTAAATTTAATAAAAAA
1 TTAAAATAAAAATAATAAAAAA
7151503 TTAAA
1 TTAAA
7151508 TTTTAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.33
21 12 0.57
22 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAATAAAAATAATAAAAAA
Found at i:7153392 original size:35 final size:34
Alignment explanation
Indices: 7153346--7153417 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 34
7153336 ACAAACAATA
7153346 AAATATAAATTTAAATAATCT-AAAATAAATATCTC
1 AAATATAAATTTAAATAA-CTAAAAATAAATAT-TC
*
7153381 AAATATCAATTTAAATAACTAAAAATAAATATTC
1 AAATATAAATTTAAATAACTAAAAATAAATATTC
7153415 AAA
1 AAA
7153418 CAACAACGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 7 0.20
35 28 0.80
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (34 bp):
AAATATAAATTTAAATAACTAAAAATAAATATTC
Found at i:7153430 original size:34 final size:35
Alignment explanation
Indices: 7153357--7153431 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
7153347 AATATAAATT
* * **
7153357 TAAATAATCTAAAATAAATATCTCAAATATCAATT
1 TAAATAATCTAAAATAAATATCTCAAACAACAACG
7153392 TAAATAA-CTAAAAATAAATAT-TCAAACAACAACG
1 TAAATAATCT-AAAATAAATATCTCAAACAACAACG
7153426 TAAATA
1 TAAATA
7153432 TTACAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 17 0.49
35 18 0.51
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.28
Consensus pattern (35 bp):
TAAATAATCTAAAATAAATATCTCAAACAACAACG
Found at i:7157064 original size:190 final size:190
Alignment explanation
Indices: 7156741--7157312 Score: 1126
Period size: 190 Copynumber: 3.0 Consensus size: 190
7156731 TTTTTTAGCA
7156741 TTAAGCTTAGCTTAGTTTATACAACTCACAAAAAACTTCAAGCTTGCCCTCCAAGAATGCTATAG
1 TTAAGCTTAGCTTAGTTTATACAACTCACAAAAAACTTCAAGCTTGCCCTCCAAGAATGCTATAG
7156806 TTTATTCCTGCAAATTTTGCAAGTGGGAATTGCTCTCCTACTCCTTAGAAAGACAAAGTTATGGT
66 TTTATTCCTGCAAATTTTGCAAGTGGGAATTGCTCTCCTACTCCTTAGAAAGACAAAGTTATGGT
7156871 CTAGACACATTATCACCCTGTACTTAAAGCATGTGTTAATGCCATGTACTTCAATTTAGT
131 CTAGACACATTATCACCCTGTACTTAAAGCATGTGTTAATGCCATGTACTTCAATTTAGT
7156931 TTAAGCTTAGCTTAGTTTATACAACTCACAAAAAACTTCAAGCTTGCCCTCCAAGAATGCTATAG
1 TTAAGCTTAGCTTAGTTTATACAACTCACAAAAAACTTCAAGCTTGCCCTCCAAGAATGCTATAG
7156996 TTTATTCCTGCAAATTTTGCAAGTGGGAATTGCTCTCCTACTCCTTAGAAAGACAAAGTTATGGT
66 TTTATTCCTGCAAATTTTGCAAGTGGGAATTGCTCTCCTACTCCTTAGAAAGACAAAGTTATGGT
7157061 CTAGACACATTATCACCCTGTACTTAAAGCATGTGTTAATGCCATGTACTTCAATTTAGT
131 CTAGACACATTATCACCCTGTACTTAAAGCATGTGTTAATGCCATGTACTTCAATTTAGT
7157121 TTAAGCTTAGCTTAGTTTATACAACTCACAAAAAACTTCAAGCTTGCCCTCCAAGAATGCTATAG
1 TTAAGCTTAGCTTAGTTTATACAACTCACAAAAAACTTCAAGCTTGCCCTCCAAGAATGCTATAG
7157186 TTTATTCCTGCAAATTTTGCAAGTGGGAATTGCTCTCCTACTCCTTAGAAAGACAAAGTTATGGT
66 TTTATTCCTGCAAATTTTGCAAGTGGGAATTGCTCTCCTACTCCTTAGAAAGACAAAGTTATGGT
* *
7157251 CTAGACACATTATCACCCTGTACTTAAAGCATGTGTTAATGTCATGTACTTCAATGTAGT
131 CTAGACACATTATCACCCTGTACTTAAAGCATGTGTTAATGCCATGTACTTCAATTTAGT
7157311 TT
1 TT
7157313 TATTGTATTC
Statistics
Matches: 380, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 380 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (190 bp):
TTAAGCTTAGCTTAGTTTATACAACTCACAAAAAACTTCAAGCTTGCCCTCCAAGAATGCTATAG
TTTATTCCTGCAAATTTTGCAAGTGGGAATTGCTCTCCTACTCCTTAGAAAGACAAAGTTATGGT
CTAGACACATTATCACCCTGTACTTAAAGCATGTGTTAATGCCATGTACTTCAATTTAGT
Found at i:7159307 original size:2 final size:2
Alignment explanation
Indices: 7159300--7159331 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7159290 AGACAGGAAA
*
7159300 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7159332 TTCATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7160057 original size:2 final size:2
Alignment explanation
Indices: 7160050--7160075 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7160040 AATATTAGCT
7160050 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7160076 AATAAACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7163402 original size:17 final size:17
Alignment explanation
Indices: 7163380--7163412 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7163370 ACTTAAGTGA
7163380 ATGTATCATTCTTTCAG
1 ATGTATCATTCTTTCAG
7163397 ATGTATCATTCTTTCA
1 ATGTATCATTCTTTCA
7163413 AGTGTGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (17 bp):
ATGTATCATTCTTTCAG
Found at i:7164666 original size:38 final size:39
Alignment explanation
Indices: 7164622--7164704 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 39
7164612 CTCTTTTGAA
7164622 GGTGTTCTAAATGCTACTCGTAATGCTTATTCTCTTA-G
1 GGTGTTCTAAATGCTACTCGTAATGCTTATTCTCTTAGG
* * *
7164660 GGTGTTCTAAATGCTACTTGTTATGCTTCTTCTCTTAGG
1 GGTGTTCTAAATGCTACTCGTAATGCTTATTCTCTTAGG
7164699 GGTGTT
1 GGTGTT
7164705 TTGAGTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 34 0.83
39 7 0.17
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.45
Consensus pattern (39 bp):
GGTGTTCTAAATGCTACTCGTAATGCTTATTCTCTTAGG
Found at i:7172509 original size:15 final size:13
Alignment explanation
Indices: 7172477--7172512 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
7172467 GATAGAAAAA
7172477 TAAAAAAAATTGT
1 TAAAAAAAATTGT
*
7172490 TAAAAGAAAATTTT
1 TAAAA-AAAATTGT
7172504 TAAAAAAAA
1 TAAAAAAAA
7172513 GAAAGGATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (13 bp):
TAAAAAAAATTGT
Found at i:7181401 original size:13 final size:13
Alignment explanation
Indices: 7181383--7181408 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7181373 AATAAAGCTA
7181383 ATTTTTTATATAT
1 ATTTTTTATATAT
7181396 ATTTTTTATATAT
1 ATTTTTTATATAT
7181409 TAAGAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTATATAT
Found at i:7185733 original size:20 final size:20
Alignment explanation
Indices: 7185695--7185734 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7185685 AATACCTAAA
*
7185695 AAAAATTCTTAAATTATTTT
1 AAAAATTCTTAAATAATTTT
7185715 AAAAATT-TTAAATAAATTTT
1 AAAAATTCTTAAAT-AATTTT
7185735 TTTATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAATTCTTAAATAATTTT
Found at i:7194643 original size:76 final size:75
Alignment explanation
Indices: 7194492--7194644 Score: 191
Period size: 76 Copynumber: 2.0 Consensus size: 75
7194482 ATGCATCTTA
* * *
7194492 ACAGTTTATTGATCAATAGTTATTTACGCGCCAATTAACGATCATTTAAATTTTTATGTGATTAG
1 ACAGTTTATTGATCAACAGTTATTTACGCGCCAATTAACGATCAATTAAATTTTTATGTCATTAG
* *
7194557 TAGTTCAGTG
66 AAGTTAAGTG
* * * * *
7194567 ACAGTTTATTTGATTAACGGTTATTTACGCGCCACTTAACGGTCAATTAAATTTTTATTTCATTA
1 ACAGTTTA-TTGATCAACAGTTATTTACGCGCCAATTAACGATCAATTAAATTTTTATGTCATTA
7194632 -AAGATTAAGTG
65 GAAG-TTAAGTG
7194643 AC
1 AC
7194645 GCGTGAACAC
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
75 10 0.15
76 56 0.85
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (75 bp):
ACAGTTTATTGATCAACAGTTATTTACGCGCCAATTAACGATCAATTAAATTTTTATGTCATTAG
AAGTTAAGTG
Found at i:7196626 original size:28 final size:28
Alignment explanation
Indices: 7196595--7196653 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
7196585 ACCTTGTGCT
7196595 TGGA-TTAATATTTGAGACATTATTATTA
1 TGGATTTAA-ATTTGAGACATTATTATTA
* *
7196623 TGGATTTAAGTTTGAGATATTATTATTA
1 TGGATTTAAATTTGAGACATTATTATTA
7196651 TGG
1 TGG
7196654 GTTTGATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (28 bp):
TGGATTTAAATTTGAGACATTATTATTA
Found at i:7211634 original size:20 final size:20
Alignment explanation
Indices: 7211606--7211643 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7211596 ATAAATTATT
*
7211606 AAAATATATATTTTATTTTA
1 AAAAAATATATTTTATTTTA
*
7211626 AAAAAATATTTTTTATTT
1 AAAAAATATATTTTATTT
7211644 GATACGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAAAATATATTTTATTTTA
Found at i:7211893 original size:21 final size:22
Alignment explanation
Indices: 7211840--7211893 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
7211830 TGCTTTTTTT
* *
7211840 TTTTTTAAGTATATAATAATAA
1 TTTTTTAATTATATAATAAAAA
7211862 TTTTTTAAATTA-ATAA-AAAAA
1 TTTTTT-AATTATATAATAAAAA
7211883 TTATTTTAATT
1 TT-TTTTAATT
7211894 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 10 0.36
22 14 0.50
23 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTTTAATTATATAATAAAAA
Found at i:7215084 original size:16 final size:16
Alignment explanation
Indices: 7215057--7215099 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
7215047 TTTAAAATTA
*
7215057 TTTTTCTTTTCCTT-TT
1 TTTTT-TTTTCCTTGTC
7215073 TTTCTTTTTTCCTTGTC
1 TTT-TTTTTTCCTTGTC
7215090 TTTTTTTTTC
1 TTTTTTTTTC
7215100 TTGGGGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTCCTTGTC
Found at i:7215827 original size:2 final size:2
Alignment explanation
Indices: 7215822--7215849 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7215812 ACTCTCTCTC
7215822 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
7215850 GTGAAGGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7217171 original size:19 final size:19
Alignment explanation
Indices: 7217139--7217175 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7217129 GTGTGTAGTA
7217139 AAAATTATTTTTTTAAAAT
1 AAAATTATTTTTTTAAAAT
7217158 AAAA-TATTTATTTTAAAA
1 AAAATTATTT-TTTTAAAA
7217176 ACTATTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATTATTTTTTTAAAAT
Found at i:7223247 original size:160 final size:161
Alignment explanation
Indices: 7222884--7223364 Score: 838
Period size: 160 Copynumber: 3.0 Consensus size: 161
7222874 AGCTTTGGAT
* * * *
7222884 TAGTGAGGTTCTCATTCCTCCTCCTTTATTATTTTCTAATAATTTCCTTATATTAATCCTCTTTT
1 TAGTGAGGTTTTCATTCCTCCTCCTCTATTATTTTCTAATAACTTCGTTATATTAATCCTCTTTT
*
7222949 TTAGTTGGATTCTTAAGCTTTCTTTTATGTTCTACTTGTAAATCTGCCTGAGGCTGATCGGTGCT
66 TTAGTTGGATTCTTAAGCTTTCGTTTATGTTCTACTTGTAAATCTGCCTGAGGCTGATCGGTGCT
* *
7223014 TTTGGCGGGGAAGAGCCAAGCTCTGCTTGCT
131 TTTGGCGGGGAAGAGCAAAGCTCTGCTTGCC
*
7223045 TAGTGAGGTTTTCATTCCTCCTCTTCTATTATTTTCTAATAACTTCGTTATATTAATCCTCTTTT
1 TAGTGAGGTTTTCATTCCTCCTCCTCTATTATTTTCTAATAACTTCGTTATATTAATCCTCTTTT
*
7223110 TTAGTTGGATTCTTAAGCTTTCGTTTATGTTCTACCTGTAAATCTGCCTGAGGCTGAT-GGTGCT
66 TTAGTTGGATTCTTAAGCTTTCGTTTATGTTCTACTTGTAAATCTGCCTGAGGCTGATCGGTGCT
7223174 TTTGGCGGGGAAGAGCAAAGCTCTGCTTGCC
131 TTTGGCGGGGAAGAGCAAAGCTCTGCTTGCC
7223205 TAGTGAGGTTTTCATTCCTCCTCCTCTATTATTTTCTAATAACTTCGTTATATTAATCCTCTTTT
1 TAGTGAGGTTTTCATTCCTCCTCCTCTATTATTTTCTAATAACTTCGTTATATTAATCCTCTTTT
*
7223270 TTAGTTGGATTCTTAAGCTTTCGTTTATGTTCTACTTGTAAATCTGCCTGAGGCTGATCAGTGCT
66 TTAGTTGGATTCTTAAGCTTTCGTTTATGTTCTACTTGTAAATCTGCCTGAGGCTGATCGGTGCT
* * *
7223335 TTTCGCTGGGAAGGGCAAAGCTCTGCTTGC
131 TTTGGCGGGGAAGAGCAAAGCTCTGCTTGC
7223365 TCGCTCTCGC
Statistics
Matches: 304, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
160 156 0.51
161 148 0.49
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (161 bp):
TAGTGAGGTTTTCATTCCTCCTCCTCTATTATTTTCTAATAACTTCGTTATATTAATCCTCTTTT
TTAGTTGGATTCTTAAGCTTTCGTTTATGTTCTACTTGTAAATCTGCCTGAGGCTGATCGGTGCT
TTTGGCGGGGAAGAGCAAAGCTCTGCTTGCC
Found at i:7231997 original size:21 final size:21
Alignment explanation
Indices: 7231971--7232012 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7231961 AAAAGTAAAA
*
7231971 TATATCACA-TAATCATATTAT
1 TATATCAAATTAAT-ATATTAT
7231992 TATATCAAATTAATATATTAT
1 TATATCAAATTAATATATTAT
7232013 GTCATCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATCAAATTAATATATTAT
Found at i:7242489 original size:21 final size:19
Alignment explanation
Indices: 7242464--7242510 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7242454 GATTTTAAAA
*
7242464 TTTAATTTTTTATGAACTAAT
1 TTTAATTTATTA--AACTAAT
*
7242485 TTTAATTTATTAAATTAAT
1 TTTAATTTATTAAACTAAT
7242504 TTTAATT
1 TTTAATT
7242511 AATAATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.54
21 11 0.46
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTAATTTATTAAACTAAT
Found at i:7257686 original size:2 final size:2
Alignment explanation
Indices: 7257679--7257708 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7257669 AAATAATTAC
*
7257679 TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7257709 GTTGGAGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7261831 original size:43 final size:43
Alignment explanation
Indices: 7261770--7261853 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
7261760 TCAATGGAAT
*
7261770 GATCATCAATTTAATTTCTAACATAGTGAAATACTAATGAAAG
1 GATCATCAATTTAATTTCTAACAAAGTGAAATACTAATGAAAG
*
7261813 GATCATCAATTTAATTTCTAACAAAGTGAGATACTAATGAA
1 GATCATCAATTTAATTTCTAACAAAGTGAAATACTAATGAA
7261854 TGTTAAACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (43 bp):
GATCATCAATTTAATTTCTAACAAAGTGAAATACTAATGAAAG
Found at i:7266766 original size:20 final size:20
Alignment explanation
Indices: 7266741--7266807 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
7266731 AAAGTGGCAG
7266741 ACAAAAGCAGCTCAAAAGAA
1 ACAAAAGCAGCTCAAAAGAA
*
7266761 ACAAAAG-A--T-AAAGCGGCAA
1 ACAAAAGCAGCTCAAA--AG-AA
7266780 GACAAAAGCAGCTCAAAAGAA
1 -ACAAAAGCAGCTCAAAAGAA
7266801 ACAAAAG
1 ACAAAAG
7266808 ACAAAGTGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 1 0.03
19 3 0.08
20 21 0.57
21 3 0.08
22 1 0.03
23 1 0.03
24 3 0.08
ACGTcount: A:0.60, C:0.18, G:0.18, T:0.04
Consensus pattern (20 bp):
ACAAAAGCAGCTCAAAAGAA
Found at i:7266783 original size:40 final size:40
Alignment explanation
Indices: 7266726--7266818 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
7266716 AACCAAAAAG
*
7266726 AAGAGAAAGTGGC-AGACAAAAGCAGCTCAAAAGAAACAA
1 AAGACAAAGTGGCAAGACAAAAGCAGCTCAAAAGAAACAA
* *
7266765 AAGATAAAGCGGCAAGACAAAAGCAGCTCAAAAGAAACAA
1 AAGACAAAGTGGCAAGACAAAAGCAGCTCAAAAGAAACAA
7266805 AAGACAAAGTGGCA
1 AAGACAAAGTGGCA
7266819 GATAAAGCGG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.22
40 38 0.78
ACGTcount: A:0.56, C:0.16, G:0.23, T:0.05
Consensus pattern (40 bp):
AAGACAAAGTGGCAAGACAAAAGCAGCTCAAAAGAAACAA
Found at i:7271953 original size:23 final size:23
Alignment explanation
Indices: 7271926--7271971 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7271916 GGAAAATTGG
7271926 TTCTGAGGATTAATTGAAAAGAA
1 TTCTGAGGATTAATTGAAAAGAA
7271949 TTCTGAGGATTAATTGAAAAGAA
1 TTCTGAGGATTAATTGAAAAGAA
7271972 AACCAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (23 bp):
TTCTGAGGATTAATTGAAAAGAA
Found at i:7274656 original size:4 final size:4
Alignment explanation
Indices: 7274649--7274673 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7274639 TGAGAAGAGA
7274649 GAGG GAGG GAGG GAGG GAGG GAGG G
1 GAGG GAGG GAGG GAGG GAGG GAGG G
7274674 GATCTGGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:7285764 original size:22 final size:21
Alignment explanation
Indices: 7285722--7285765 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7285712 TGTAAAAAAA
* * *
7285722 TAAAAATTTATTTAAATTTTT
1 TAAAAAATAATTTAAAATTTT
7285743 TAAAAAATAATTTAAAGATTTT
1 TAAAAAATAATTTAAA-ATTTT
7285765 T
1 T
7285766 TTAAATGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAAAAATAATTTAAAATTTT
Found at i:7286095 original size:409 final size:403
Alignment explanation
Indices: 7285495--7286241 Score: 978
Period size: 409 Copynumber: 1.8 Consensus size: 403
7285485 ACTATGTGAT
* * **
7285495 GCTAATATGACATGTAACACGTTGCAATCGATGATGATATGATATGTTGATATGGTGTAATGGCA
1 GCTAATATGACATGTAACACGTTGCAATCGATGATGACATGATATGTTGATATGGTATAATAACA
*
7285560 TGGTCATGTGGTTTTTTTTCTCTTAATACCACATTAAATTTATGTCAGTATAAAATAACAAGTAA
66 TGGTCATGTGGTTTTTTTTCTCTTAATACCACATTAAATTCATGTCAGTATAAAATAACAAGTAA
* * * * *
7285625 TATTTTGACTAATGACAATTAGTCATCTATTAGTTATATAAAAGTTTATTTAATCTAAAATAAAA
131 CATTTCGACTAATGAAAATTAGTCATATATTAGTTATATAAAAGTTTATATAATCTAAAATAAAA
* * * *
7285690 ATGTAAGAACTTGATTAAATGCTGTAAAAAAATAAAAATTTATTTAAATTTTTTAAAAAATAATT
196 ATATAAAAACTTGATTAAATACTATAAAAAAATAAAAATTTATTTAAATTTTTTAAAAAATAATT
* * * * * * * * *
7285755 TAAAGATTTTTTTAAATGTTATACTAATATTTATACTTTTTAATCTTTATTAATAGTCTCTTCTT
261 TAAAAACTTTTTCAAATATTATACAAATATTTATACTTTTTAATCTTCATTAAGACTCTATTCTT
*
7285820 CAATATAAAGTAATTGTTATTAAAATATTAATTGTTAATAATCAAACTACCACTTGTCATTCTAT
326 CAATAGAAAGTAATTGTTATTAAAATATTAATTGTTAATAATCAAACTACCACTTGTCATTCTAT
7285885 ATCATATACTGAA
391 ATCATATACTGAA
* * * * *
7285898 GCTACTATGACATGTAACACGTTG-AATTGAATGATGGCATGATATGTTGATGTGGTATGATAAC
1 GCTAATATGACATGTAACACGTTGCAATCG-ATGATGACATGATATGTTGATATGGTATAATAAC
* * * * *
7285962 ATGGTTATGTGGTATTTTCACTCTTCATCTTAATACCACA-TCAATGTCATGTGAGTATAACATG
65 ATGGTCATGTGGT-TTTT---T-TTC-TCTTAATACCACATTAAAT-TCATGTCAGTATAAAATA
* * * * * *
7286026 ACAAGTTACATTTCGATTAATGAAAATTAGTCATATGTTAGTTATAT-AAGGATTTATATGATTT
123 ACAAGTAACATTTCGACTAATGAAAATTAGTCATATATTAGTTATATAAAAG-TTTATATAATCT
* * * **
7286090 AAAATATAAATATAAAAACTTGATTGAATACTATAAAAAAATAAAAATTTATTTAATTTTTTTTT
187 AAAATAAAAATATAAAAACTTGATTAAATACTATAAAAAAATAAAAATTTATTTAAATTTTTTAA
7286155 AAAATAATTTAAAAACTTTTTCAAATATTATACAAATATTTATACTTTTTAATCTTCATTAAGAC
252 AAAATAATTTAAAAACTTTTTCAAATATTATACAAATATTTATACTTTTTAATCTTCATTAAGAC
*
7286220 TCTATTCTTTAATAGAAAGTAA
317 TCTATTCTTCAATAGAAAGTAA
7286242 AAGAGTTTTG
Statistics
Matches: 289, Mismatches: 46, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
402 4 0.01
403 62 0.21
404 4 0.01
407 1 0.00
408 10 0.03
409 208 0.72
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.41
Consensus pattern (403 bp):
GCTAATATGACATGTAACACGTTGCAATCGATGATGACATGATATGTTGATATGGTATAATAACA
TGGTCATGTGGTTTTTTTTCTCTTAATACCACATTAAATTCATGTCAGTATAAAATAACAAGTAA
CATTTCGACTAATGAAAATTAGTCATATATTAGTTATATAAAAGTTTATATAATCTAAAATAAAA
ATATAAAAACTTGATTAAATACTATAAAAAAATAAAAATTTATTTAAATTTTTTAAAAAATAATT
TAAAAACTTTTTCAAATATTATACAAATATTTATACTTTTTAATCTTCATTAAGACTCTATTCTT
CAATAGAAAGTAATTGTTATTAAAATATTAATTGTTAATAATCAAACTACCACTTGTCATTCTAT
ATCATATACTGAA
Found at i:7287300 original size:2 final size:2
Alignment explanation
Indices: 7287293--7287321 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7287283 TTAAGAAGGC
7287293 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 A
7287322 ATCAAGGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7288139 original size:13 final size:13
Alignment explanation
Indices: 7288089--7288150 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 13
7288079 AATATATGAG
7288089 TAAATAGAATAAAAT
1 TAAATA-AAT-AAAT
*
7288104 TAAAAAAATAAAT
1 TAAATAAATAAAT
*
7288117 AATAAT-AAT-AAT
1 TA-AATAAATAAAT
7288129 ATAAATAAATAAAT
1 -TAAATAAATAAAT
7288143 TAAATAAA
1 TAAATAAA
7288151 AACTTTACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
12 6 0.15
13 20 0.51
14 8 0.21
15 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
TAAATAAATAAAT
Found at i:7288242 original size:18 final size:17
Alignment explanation
Indices: 7288208--7288247 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
7288198 TGAAAAAATT
7288208 TTAAAAATTAAAAAAAA
1 TTAAAAATTAAAAAAAA
* *
7288225 TTAAAAATTTGAATAAAA
1 TTAAAAA-TTAAAAAAAA
7288243 TTAAA
1 TTAAA
7288248 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAAAATTAAAAAAAA
Found at i:7298359 original size:27 final size:29
Alignment explanation
Indices: 7298310--7298371 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
7298300 TCTTTATTTA
7298310 TATTT-TTTTATTAATTATTTACTA-AAT
1 TATTTATTTTATTAATTATTTACTATAAT
*
7298337 TTTTTATTTTA-TAA-TATATTACTATAAT
1 TATTTATTTTATTAATTAT-TTACTATAAT
7298365 TATTTAT
1 TATTTAT
7298372 AATAAGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 3 0.10
27 13 0.43
28 14 0.47
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTTATTTTATTAATTATTTACTATAAT
Found at i:7304168 original size:120 final size:121
Alignment explanation
Indices: 7303943--7304192 Score: 351
Period size: 120 Copynumber: 2.1 Consensus size: 121
7303933 AACCTTTAAG
* * * *
7303943 GTTCCTTAGTCACAATGGGAAGGGAATCATGCAAAGCAAGAAGCTTGATTACATTCGACGATGAA
1 GTTCCTGAGTCACAACGAGAAGGGAATCATGCAAAGCAAGAAGCTTGATTACATTCGAAGATGAA
* * *
7304008 GGTTATACTACTCTCCTAGTTAATTTTTCTCCTTTCTCTTTTT-C-ATTATGTTCT
66 GGTTATACTACTCTCATAATTAATTTTTCTCCTTTCTCTTTTTCCTATTATGTCCT
* *
7304062 GTTCCTGAGATCACAACGAGAAGGGAATCATGCAATGCAAGAAGCTTGATTACATTTGAAGATGA
1 GTTCCTGAG-TCACAACGAGAAGGGAATCATGCAAAGCAAGAAGCTTGATTACATTCGAAGATGA
* * * * *
7304127 AGGTTATAGTATTCTCATAATTTATTTTTCTCCTTTTTCTTTTTCCTTTTATGTCCT
65 AGGTTATACTACTCTCATAATTAATTTTTCTCCTTTCTCTTTTTCCTATTATGTCCT
7304184 GTTCCTGAG
1 GTTCCTGAG
7304193 GTCGCAGGTT
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
119 8 0.07
120 88 0.77
121 1 0.01
122 17 0.15
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (121 bp):
GTTCCTGAGTCACAACGAGAAGGGAATCATGCAAAGCAAGAAGCTTGATTACATTCGAAGATGAA
GGTTATACTACTCTCATAATTAATTTTTCTCCTTTCTCTTTTTCCTATTATGTCCT
Found at i:7316554 original size:2 final size:2
Alignment explanation
Indices: 7316547--7316582 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7316537 TTTAAACAAC
7316547 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
7316583 TAAATCTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7318457 original size:32 final size:33
Alignment explanation
Indices: 7318397--7318458 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
7318387 CATATTATTA
7318397 TCAATTATAATATATTAACATATCACATCATTC
1 TCAATTATAATATATTAACATATCACATCATTC
* *
7318430 TCAATTATGATATA-TAATATATCACATCA
1 TCAATTATAATATATTAACATATCACATCA
7318459 ATTTTACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (33 bp):
TCAATTATAATATATTAACATATCACATCATTC
Found at i:7318515 original size:18 final size:16
Alignment explanation
Indices: 7318488--7318521 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
7318478 TATAAATTTT
7318488 ATTTTTTAATTATAAAA
1 ATTTTTTAATT-TAAAA
7318505 ATTTATTTAATTTAAAA
1 ATTT-TTTAATTTAAAA
7318522 TTAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTTTAATTTAAAA
Found at i:7318523 original size:25 final size:25
Alignment explanation
Indices: 7318472--7318574 Score: 76
Period size: 25 Copynumber: 4.1 Consensus size: 25
7318462 TTACATGATA
*
7318472 TAAAATTAT-AAATTTTATTT--TT
1 TAAAATTATAAAAATTTATTTAATT
7318494 T--AATTATAAAAATTTATTTAATT
1 TAAAATTATAAAAATTTATTTAATT
7318517 TAAAATTAAAATATAAAATTTTATTTAATT
1 TAAAATT---ATA-AAAA-TTTATTTAATT
*
7318547 TAAAA-TA-AAAATATTTAAATTAATT
1 TAAAATTATAAAA-ATTT-ATTTAATT
7318572 TAA
1 TAA
7318575 TGTGATAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 21
0.74 0.02 0.23
Matches are distributed among these distances:
20 6 0.09
21 10 0.15
22 1 0.01
23 3 0.04
24 6 0.09
25 16 0.24
26 1 0.01
28 3 0.04
29 5 0.07
30 16 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAAATTATAAAAATTTATTTAATT
Found at i:7318527 original size:22 final size:20
Alignment explanation
Indices: 7318472--7318528 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
7318462 TTACATGATA
7318472 TAAAATTATAAATTTTATTTTT
1 TAAAATTA-AAA-TTTATTTTT
* *
7318494 TAATTATAAAAATTTATTTAATT
1 TAA-AATTAAAATTTATTT--TT
7318517 TAAAATTAAAAT
1 TAAAATTAAAAT
7318529 ATAAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 7 0.25
22 13 0.46
23 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAATTAAAATTTATTTTT
Found at i:7318534 original size:30 final size:30
Alignment explanation
Indices: 7318498--7318602 Score: 124
Period size: 30 Copynumber: 3.6 Consensus size: 30
7318488 ATTTTTTAAT
*
7318498 TATAAAAATTTATTTAATTTAAAATTAAAA
1 TATAAAAATTTATTTAATTTAAAATAAAAA
*
7318528 TATAAAATTTTATTTAATTTAAAATAAAAA
1 TATAAAAATTTATTTAATTTAAAATAAAAA
** * * *
7318558 TATTTAAATTAATTTAATGT--GATAAAAA
1 TATAAAAATTTATTTAATTTAAAATAAAAA
*
7318586 TATAAAAAATTATTTAA
1 TATAAAAATTTATTTAA
7318603 AATTCTTTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
28 20 0.32
30 43 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (30 bp):
TATAAAAATTTATTTAATTTAAAATAAAAA
Found at i:7319666 original size:18 final size:18
Alignment explanation
Indices: 7319643--7319683 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
7319633 AATTTTTAAC
*
7319643 ATTTTTTATTTATTATAT
1 ATTTTTAATTTATTATAT
*
7319661 ATTTTTAATTTTTTATAT
1 ATTTTTAATTTATTATAT
7319679 ATTTT
1 ATTTT
7319684 AAAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTAATTTATTATAT
Found at i:7319848 original size:16 final size:16
Alignment explanation
Indices: 7319827--7319868 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7319817 TATCTTCGCC
7319827 TTTTTCTCTCTCTTTT
1 TTTTTCTCTCTCTTTT
* *
7319843 TTTTTCTTTTTCTTTT
1 TTTTTCTCTCTCTTTT
7319859 TTTATTCTCT
1 TTT-TTCTCT
7319869 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCTCTCTCTTTT
Found at i:7320853 original size:73 final size:74
Alignment explanation
Indices: 7320766--7320906 Score: 221
Period size: 74 Copynumber: 1.9 Consensus size: 74
7320756 ATGAATGGAA
* * *
7320766 TAAATATTACTAATAATTATAAT-AAAAATATTTTAATGATTATCATTTAATGAATACACATTTA
1 TAAATATTACTAATAATTATAATAAAAAATATTTCAATGATCATAATTTAATGAATACACATTTA
7320830 TAATAAGTT
66 TAATAAGTT
* * *
7320839 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATGATCATAATTTAATGAATATATATTTA
1 TAAATATTACTAATAATTATAATAAAAAATATTTCAATGATCATAATTTAATGAATACACATTTA
7320904 TAA
66 TAA
7320907 GTATAGGGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 22 0.36
74 39 0.64
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (74 bp):
TAAATATTACTAATAATTATAATAAAAAATATTTCAATGATCATAATTTAATGAATACACATTTA
TAATAAGTT
Found at i:7321983 original size:21 final size:21
Alignment explanation
Indices: 7321909--7321983 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 21
7321899 ATTTTGATTA
* *
7321909 ATAA-AAAAAATTAATTAATT
1 ATAATAAAAATTTAATTAAAT
* *
7321929 ATTATAAAAATTTATATGATTTAAAA
1 ATAATAAAAA-TT-TA--A-TTAAAT
7321955 AT-ATAAAAATTTAATTAAAT
1 ATAATAAAAATTTAATTAAAT
7321975 ATAATAAAA
1 ATAATAAAA
7321984 TTAAAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
20 10 0.23
21 12 0.28
22 1 0.02
23 4 0.09
24 2 0.05
25 8 0.19
26 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
ATAATAAAAATTTAATTAAAT
Found at i:7322035 original size:16 final size:16
Alignment explanation
Indices: 7322016--7322046 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7322006 TTAATATTTT
7322016 TTAAATAATTAAATTA
1 TTAAATAATTAAATTA
*
7322032 TTAAATAATTTAATT
1 TTAAATAATTAAATT
7322047 TTTTAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAATAATTAAATTA
Found at i:7330561 original size:22 final size:22
Alignment explanation
Indices: 7330518--7330562 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
7330508 ATAATAAGTA
*
7330518 AATTATAATTGTGATACTATTT
1 AATTATAATTGTGATACAATTT
7330540 AATTATTAATTGTGATA-AATTT
1 AATTA-TAATTGTGATACAATTT
7330562 A
1 A
7330563 TATAATGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
AATTATAATTGTGATACAATTT
Found at i:7351922 original size:169 final size:170
Alignment explanation
Indices: 7351637--7351979 Score: 661
Period size: 169 Copynumber: 2.0 Consensus size: 170
7351627 TCTTCAACTG
7351637 TATCTTCACTCTTTTACACACTACTAAGAAAATCTAAATTAATTTATTTTTTTGTTTTAATTTAC
1 TATCTTCACTCTTTTACACACTACTAAGAAAATCTAAATTAATTTATTTTTTTGTTTTAATTTAC
7351702 TTGAGACCAAATAGGTCAGAGGCTATAAATAGTCACTTTAAATAATTTTTTCTTTTCATCAAGTA
66 TTGAGACCAAATAGGTCAGAGGCTATAAATAGTCACTTTAAATAATTTTTTCTTTTCATCAAGTA
7351767 A-TATTTTTATATTTAGATTTTAAGTATTTTATTTTTTAT
131 ATTATTTTTATATTTAGATTTTAAGTATTTTATTTTTTAT
7351806 TATCTTCACTCTTTTACACACTACTAAGAAAATCTAAATTAATTTATTTTTTTGTTTTAATTTAC
1 TATCTTCACTCTTTTACACACTACTAAGAAAATCTAAATTAATTTATTTTTTTGTTTTAATTTAC
*
7351871 TTGAGACCAAATAGGTCAGAGGCTATAAATAGTCACTTTAAATAGTTTTTTCTTTTCATCAAGTA
66 TTGAGACCAAATAGGTCAGAGGCTATAAATAGTCACTTTAAATAATTTTTTCTTTTCATCAAGTA
7351936 ATTTATTTTTATATTTAGATTTTAAGTATTTTATTTTTTAT
131 A-TTATTTTTATATTTAGATTTTAAGTATTTTATTTTTTAT
7351977 TAT
1 TAT
7351980 TAAAATAATA
Statistics
Matches: 171, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
169 130 0.76
171 41 0.24
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (170 bp):
TATCTTCACTCTTTTACACACTACTAAGAAAATCTAAATTAATTTATTTTTTTGTTTTAATTTAC
TTGAGACCAAATAGGTCAGAGGCTATAAATAGTCACTTTAAATAATTTTTTCTTTTCATCAAGTA
ATTATTTTTATATTTAGATTTTAAGTATTTTATTTTTTAT
Found at i:7359556 original size:9 final size:9
Alignment explanation
Indices: 7359544--7359596 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
7359534 GTTACAGCTC
7359544 CAACAGCAG
1 CAACAGCAG
7359553 CAACAGCAG
1 CAACAGCAG
7359562 CAACAGCAG
1 CAACAGCAG
* * *
7359571 CAGCAACAA
1 CAACAGCAG
* *
7359580 CAACAACAA
1 CAACAGCAG
7359589 CAACAGCA
1 CAACAGCA
7359597 AATGAAACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.51, C:0.34, G:0.15, T:0.00
Consensus pattern (9 bp):
CAACAGCAG
Found at i:7359558 original size:18 final size:18
Alignment explanation
Indices: 7359537--7359596 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
7359527 AACAAAGGTT
*
7359537 ACAGCTCCAACAGCAGCA
1 ACAGCACCAACAGCAGCA
*
7359555 ACAGCAGCAACAGCAGCA
1 ACAGCACCAACAGCAGCA
* * * * *
7359573 GCAACAACAACAACAACA
1 ACAGCACCAACAGCAGCA
7359591 ACAGCA
1 ACAGCA
7359597 AATGAAACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.48, C:0.35, G:0.15, T:0.02
Consensus pattern (18 bp):
ACAGCACCAACAGCAGCA
Found at i:7368235 original size:28 final size:28
Alignment explanation
Indices: 7368195--7368252 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
7368185 GAGTAAAGAA
7368195 TTGTTCCTCAAGCTATATCACTCGACCC
1 TTGTTCCTCAAGCTATATCACTCGACCC
7368223 TTGTTCCTCAAGCTATATCACTCGACCC
1 TTGTTCCTCAAGCTATATCACTCGACCC
7368251 TT
1 TT
7368253 TAAAACATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.34
Consensus pattern (28 bp):
TTGTTCCTCAAGCTATATCACTCGACCC
Found at i:7377550 original size:28 final size:28
Alignment explanation
Indices: 7377507--7377578 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
7377497 CAGCTTTTAC
*
7377507 ATAT-TTTGTCTTAATTTAAACAAGAAA
1 ATATGTTTGTCTTAATTGAAACAAGAAA
*
7377534 ATATGTTTGT-TTCAATTGACACAAGAAA
1 ATATGTTTGTCTT-AATTGAAACAAGAAA
*
7377562 ACATGTTTGTCTTAATT
1 ATATGTTTGTCTTAATT
7377579 ATCTTAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.15
28 31 0.79
29 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.42
Consensus pattern (28 bp):
ATATGTTTGTCTTAATTGAAACAAGAAA
Found at i:7377653 original size:28 final size:28
Alignment explanation
Indices: 7377580--7377778 Score: 202
Period size: 29 Copynumber: 7.0 Consensus size: 28
7377570 GTCTTAATTA
*
7377580 TCTTAATTTAGACAAGAAAACATGCTATG
1 TCTTAATTTAGACAAGAAAACATG-TTTG
*
7377609 TCTTAATTTAGATAAGAAAACATGTTTG
1 TCTTAATTTAGACAAGAAAACATGTTTG
* * * *
7377637 TTTTAACTTAGACAAGAAAATATGTTTTA
1 TCTTAATTTAGACAAGAAAACATG-TTTG
* *
7377666 TCTTAATTTAGACAATAAAACATGGTTG
1 TCTTAATTTAGACAAGAAAACATGTTTG
* * * * * *
7377694 TCTTAATTTAAAATAAAAAAATATATTTCA
1 TCTTAATTT-AGACAAGAAAACATGTTT-G
*
7377724 TCTTAATCTAGACAAGAAAACATGTTTG
1 TCTTAATTTAGACAAGAAAACATGTTTG
*
7377752 TCTTAAGTTAGACAA-AAAAGCATGTTT
1 TCTTAATTTAGACAAGAAAA-CATGTTT
7377779 TGTATCTTTC
Statistics
Matches: 137, Mismatches: 29, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
27 4 0.03
28 54 0.39
29 71 0.52
30 8 0.06
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (28 bp):
TCTTAATTTAGACAAGAAAACATGTTTG
Found at i:7377675 original size:57 final size:57
Alignment explanation
Indices: 7377580--7377779 Score: 222
Period size: 57 Copynumber: 3.5 Consensus size: 57
7377570 GTCTTAATTA
* * * *
7377580 TCTTAATTTAGACAAGAAAACATGCTATGTCTTAATTTAGATAAGAAAACATGTTTG
1 TCTTAATTTAGACAAGAAAACATGTTTTATCTTAATTTAGACAAGAAAACATGTTTG
* * * * *
7377637 TTTTAACTTAGACAAGAAAATATGTTTTATCTTAATTTAGACAATAAAACATGGTTG
1 TCTTAATTTAGACAAGAAAACATGTTTTATCTTAATTTAGACAAGAAAACATGTTTG
* * * * * * *
7377694 TCTTAATTTAAAATAAAAAAATATATTTCATCTTAATCTAGACAAGAAAACATGTTTG
1 TCTTAATTT-AGACAAGAAAACATGTTTTATCTTAATTTAGACAAGAAAACATGTTTG
*
7377752 TCTTAAGTTAGACAA-AAAAGCATGTTTT
1 TCTTAATTTAGACAAGAAAA-CATGTTTT
7377780 GTATCTTTCT
Statistics
Matches: 116, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
56 4 0.03
57 64 0.55
58 48 0.41
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (57 bp):
TCTTAATTTAGACAAGAAAACATGTTTTATCTTAATTTAGACAAGAAAACATGTTTG
Found at i:7377756 original size:86 final size:85
Alignment explanation
Indices: 7377577--7377775 Score: 233
Period size: 86 Copynumber: 2.3 Consensus size: 85
7377567 TTTGTCTTAA
* * * * *
7377577 TTATCTTAATTTAGACAAGAAAACATGCTATGTCTTAATTTAGATAAGAAAACATGTTTGTTTTA
1 TTATCTTAATTTAGACAA-AAAACATGCTATGTCTTAATTTAAATAAAAAAACATATTTATCTTA
*
7377642 ACTTAGACAAGAAAATATGTT
65 ACTTAGACAAGAAAACATGTT
* *
7377663 TTATCTTAATTTAGACAATAAAACATGGT-TGTCTTAATTTAAAATAAAAAAATATATTTCATCT
1 TTATCTTAATTTAGACAA-AAAACATGCTATGTCTTAATTT-AAATAAAAAAACATATTT-ATCT
7377727 TAA-TCTAGACAAGAAAACATG-T
63 TAACT-TAGACAAGAAAACATGTT
* *
7377749 TTGTCTTAAGTTAGACAAAAAAGCATG
1 TTATCTTAATTTAGACAAAAAA-CATG
7377776 TTTTGTATCT
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
85 15 0.15
86 63 0.64
87 20 0.20
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (85 bp):
TTATCTTAATTTAGACAAAAAACATGCTATGTCTTAATTTAAATAAAAAAACATATTTATCTTAA
CTTAGACAAGAAAACATGTT
Found at i:7382398 original size:68 final size:68
Alignment explanation
Indices: 7382309--7382704 Score: 458
Period size: 68 Copynumber: 5.8 Consensus size: 68
7382299 CACATACATG
* * * *
7382309 CTTACTCATCTCAT-AAGGTATATGGAATTTACATCATATACATAATCTCATGGCATTTATCATG
1 CTTAATCATCTCATGTA-GTATATGGAATATACATCATATACATAATCTCATGGCATTAATCATG
* *
7382373 CTTG
65 CATA
* *
7382377 CTCAATCATCTCATGTAGTATATGGAATATACATCATATACATAATCTCATGGCATTAATCTTGC
1 CTTAATCATCTCATGTAGTATATGGAATATACATCATATACATAATCTCATGGCATTAATCATGC
7382442 ATA
66 ATA
* *
7382445 CTTAATCATCTCATGTCA-TATGTGGAATATACATCATATACATAATCTCATGGCATTAATGATG
1 CTTAATCATCTCATGT-AGTATATGGAATATACATCATATACATAATCTCATGGCATTAATCATG
7382509 CATA
65 CATA
* * *
7382513 CTTAATCATCTCATGTAGTATATGGAACATACATCATATACATAATCTCATGGCACTAACCATGC
1 CTTAATCATCTCATGTAGTATATGGAATATACATCATATACATAATCTCATGGCATTAATCATGC
7382578 ATA
66 ATA
* * * * * * * * * *
7382581 CTTAATCACCTCCTATGGTATATGGAATTTACGTCATATACACAATCTTATAGTA-TACATCATG
1 CTTAATCATCTCATGTAGTATATGGAATATACATCATATACATAATCTCATGGCATTA-ATCATG
7382645 CATA
65 CATA
* * * * * * *
7382649 CTTGATCATCTCACAG-GGTATATGAAATTTACATCATATACAAAATCTTATGGCAT
1 CTTAATCATCTCA-TGTAGTATATGGAATATACATCATATACATAATCTCATGGCAT
7382705 CCATCATACC
Statistics
Matches: 283, Mismatches: 39, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
67 3 0.01
68 278 0.98
69 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (68 bp):
CTTAATCATCTCATGTAGTATATGGAATATACATCATATACATAATCTCATGGCATTAATCATGC
ATA
Found at i:7382527 original size:31 final size:30
Alignment explanation
Indices: 7382421--7382527 Score: 81
Period size: 31 Copynumber: 3.3 Consensus size: 30
7382411 CATATACATA
*
7382421 ATCTCATGGCATTAATCTTGCATACTTAATC
1 ATCTCATGGCATTAAT-ATGCATACTTAATC
* * *
7382452 ATCTCATGTCATATGTGGAATATACAT-CATATACATA
1 ATCTCATGGC--AT-T--AATATGCATAC-T-TA-ATC
7382489 ATCTCATGGCATTAATGATGCATACTTAATC
1 ATCTCATGGCATTAAT-ATGCATACTTAATC
7382520 ATCTCATG
1 ATCTCATG
7382528 TAGTATATGG
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
31 19 0.32
32 5 0.08
33 8 0.14
34 4 0.07
35 7 0.12
36 5 0.08
37 11 0.19
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (30 bp):
ATCTCATGGCATTAATATGCATACTTAATC
Found at i:7384869 original size:17 final size:19
Alignment explanation
Indices: 7384847--7384881 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7384837 ATCTCCACTA
7384847 ATTTTATT-TA-ATTTTAT
1 ATTTTATTGTAGATTTTAT
7384864 ATTTTATTGTAGATTTTA
1 ATTTTATTGTAGATTTTA
7384882 ATACATGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (19 bp):
ATTTTATTGTAGATTTTAT
Found at i:7397230 original size:60 final size:60
Alignment explanation
Indices: 7397114--7397225 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
7397104 ACAATAAACC
7397114 AAATAATCAACAACATGATAAAAACACAAATCATCCAATTTTTTAAAATACAATAACTCA
1 AAATAATCAACAACATGATAAAAACACAAATCATCCAATTTTTTAAAATACAATAACTCA
* *
7397174 AAATAATCAACAACAT-A-AACAACACAAATCA-CCAATTTTTT-AAATGCAATAA
1 AAATAATCAACAACATGATAAAAACACAAATCATCCAATTTTTTAAAATACAATAA
7397226 ATAACACAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
56 10 0.20
57 10 0.20
58 13 0.26
59 1 0.02
60 16 0.32
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (60 bp):
AAATAATCAACAACATGATAAAAACACAAATCATCCAATTTTTTAAAATACAATAACTCA
Found at i:7399041 original size:61 final size:61
Alignment explanation
Indices: 7398907--7399046 Score: 169
Period size: 61 Copynumber: 2.3 Consensus size: 61
7398897 GTTGAACATG
* *
7398907 TATCAATACATTT-ATTAATGTATCGATACTTTTGAGGCAAAGAGCATTTTATTAAAAATA
1 TATCAATACATTTGATGAATGTATCGATACTTTTGAGGCAAAGAGCATTCTATTAAAAATA
* * * * ** *
7398967 TATCTATATATTTGATGAATGTATCGATACTTTTGAGGCAGTA-AGCATTCTATTACATTTT
1 TATCAATACATTTGATGAATGTATCGATACTTTTGAGGCA-AAGAGCATTCTATTAAAAATA
7399028 TATCAATACATTTGA-GAAT
1 TATCAATACATTTGATGAAT
7399047 TTATTAATAG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 15 0.22
61 51 0.76
62 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (61 bp):
TATCAATACATTTGATGAATGTATCGATACTTTTGAGGCAAAGAGCATTCTATTAAAAATA
Found at i:7400698 original size:16 final size:18
Alignment explanation
Indices: 7400677--7400723 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
7400667 TTAGTTATTT
7400677 TTAG-TTATTTTT-TTAA
1 TTAGTTTATTTTTATTAA
7400693 TTAGTTTATTTTTATTAA
1 TTAGTTTATTTTTATTAA
7400711 GTTA-TTCTATTTT
1 -TTAGTT-TATTTT
7400724 ATGCTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 6 0.22
19 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (18 bp):
TTAGTTTATTTTTATTAA
Found at i:7400715 original size:14 final size:13
Alignment explanation
Indices: 7400667--7400716 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
7400657 AGATTAGGAT
7400667 TTAGTTATTTTTA
1 TTAGTTATTTTTA
7400680 GTTA-TT-TTTTTAA
1 -TTAGTTATTTTT-A
7400693 TTAGTTTATTTTTA
1 TTAG-TTATTTTTA
7400707 TTAAGTTATT
1 TT-AGTTATT
7400717 CTATTTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.26
13 3 0.10
14 13 0.42
15 7 0.23
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TTAGTTATTTTTA
Found at i:7408602 original size:21 final size:20
Alignment explanation
Indices: 7408564--7408605 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
7408554 AAAGTTATAG
7408564 TAGGCTAAAATAGTTTAGTT
1 TAGGCTAAAATAGTTTAGTT
7408584 TAGG-TAAAATTAGGTTTAGTT
1 TAGGCTAAAA-TA-GTTTAGTT
7408605 T
1 T
7408606 TCAAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (20 bp):
TAGGCTAAAATAGTTTAGTT
Found at i:7411608 original size:27 final size:26
Alignment explanation
Indices: 7411576--7411696 Score: 82
Period size: 27 Copynumber: 4.5 Consensus size: 26
7411566 GACGTATAAC
7411576 AACTAAATTTTTTAATACGCATGTAAT
1 AACTAAATTTTTTAATA-GCATGTAAT
* * *
7411603 AACTAAA-TCTTCAACATGACATGTAAT
1 AACTAAATTTTTTAATA-G-CATGTAAT
* **
7411630 AACTACATTTTTTAACATAATATGTAAT
1 AACTAAATTTTTT-A-ATAGCATGTAAT
* * * *
7411658 AACTAAATTTTTAACATGGTATGAAAT
1 AACTAAATTTTTTA-ATAGCATGTAAT
*
7411685 AACTATATTTTT
1 AACTAAATTTTT
7411697 AACATGACGT
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
26 7 0.09
27 43 0.58
28 21 0.28
29 1 0.01
30 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (26 bp):
AACTAAATTTTTTAATAGCATGTAAT
Found at i:7411665 original size:55 final size:53
Alignment explanation
Indices: 7411596--7411764 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 53
7411586 TTTAATACGC
7411596 ATGTAATAACTAAATCTTCAACATGACATGTAATAACTACATTTTTTAACATAAT
1 ATGTAATAACTAAAT-TTCAACATGACATGTAATAACTACA-TTTTTAACATAAT
* ** * * * *
7411651 ATGTAATAACTAAATTTTTAACATGGTATGAAATAACTATATTTTTAACATGAC
1 ATGTAATAACTAAA-TTTCAACATGACATGTAATAACTACATTTTTAACATAAT
* * * * * *
7411705 GTGTAACAACTAAATTTCCAAC-TTAGCATATAATAACTACATTTTCAACATACT
1 ATGTAATAACTAAATTT-CAACATGA-CATGTAATAACTACATTTTTAACATAAT
7411759 ATGTAA
1 ATGTAA
7411765 CAATTATTTC
Statistics
Matches: 90, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
53 4 0.04
54 51 0.57
55 34 0.38
56 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (53 bp):
ATGTAATAACTAAATTTCAACATGACATGTAATAACTACATTTTTAACATAAT
Found at i:7411697 original size:27 final size:27
Alignment explanation
Indices: 7411596--7411721 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
7411586 TTTAATACGC
* * *
7411596 ATGTAATAACTAAATCTTCAACATGAC
1 ATGTAATAACTAAATTTTTAACATGAT
* *
7411623 ATGTAATAACTACATTTTTTAACATAAT
1 ATGTAATAACTA-AATTTTTAACATGAT
*
7411651 ATGTAATAACTAAATTTTTAACATGGT
1 ATGTAATAACTAAATTTTTAACATGAT
* * *
7411678 ATGAAATAACTATATTTTTAACATGAC
1 ATGTAATAACTAAATTTTTAACATGAT
* *
7411705 GTGTAACAACTAAATTT
1 ATGTAATAACTAAATTT
7411722 CCAACTTAGC
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 60 0.73
28 22 0.27
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (27 bp):
ATGTAATAACTAAATTTTTAACATGAT
Found at i:7411764 original size:54 final size:52
Alignment explanation
Indices: 7411570--7411767 Score: 159
Period size: 54 Copynumber: 3.7 Consensus size: 52
7411560 TAGCATGACG
* * * * *
7411570 TATAACAACTAAATTTTTTA-ATACGCATGTAATAACTAAATCTTCAACATGACA
1 TATAATAACTACATTTTTAACATAC-TATGTAACAACTAAAT-TTCAACATG-CA
* * * * *
7411624 TGTAATAACTACATTTTTTAACATAATATGTAATAACTAAATTTTTAACATG-G
1 TATAATAACTACA-TTTTTAACATACTATGTAACAACTAAA-TTTCAACATGCA
* * *
7411677 TATGAAATAACTATATTTTTAACATGAC-GTGTAACAACTAAATTTCCAACTTAGCA
1 TAT--AATAACTACATTTTTAACAT-ACTATGTAACAACTAAATTT-CAACAT-GCA
*
7411733 TATAATAACTACATTTTCAACATACTATGTAACAA
1 TATAATAACTACATTTTTAACATACTATGTAACAA
7411768 TTATTTCAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
53 7 0.06
54 62 0.54
55 39 0.34
56 7 0.06
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (52 bp):
TATAATAACTACATTTTTAACATACTATGTAACAACTAAATTTCAACATGCA
Found at i:7413349 original size:18 final size:18
Alignment explanation
Indices: 7413324--7413361 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7413314 TTATTTATAT
7413324 TTTATATAAA-ATTATTA
1 TTTATATAAATATTATTA
*
7413341 TTTATTATAAATATTTTTA
1 TTTA-TATAAATATTATTA
7413360 TT
1 TT
7413362 GTTGTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATAAATATTATTA
Found at i:7414290 original size:66 final size:68
Alignment explanation
Indices: 7414213--7414362 Score: 184
Period size: 65 Copynumber: 2.2 Consensus size: 68
7414203 TAATTTAATA
* * * *
7414213 AAAATATTAATAATTTTTTATTTAAAACTTTACTATGATTATTT-ATTT-TAATTTA-T-TTTAT
1 AAAATATTAATAATTTTATAATTAAAACATTAATATGATTATTTAATTTGT-ATTTATTGTTTAT
7414274 ATTTT
65 -TTTT
*
7414279 AAAATATTAATAA-TTTATAATTAAAACATTAATATGATTATTTCAATTTGTTTTTATTGTTTAT
1 AAAATATTAATAATTTTATAATTAAAACATTAATATGATTATTT-AATTTGTATTTATTGTTTAT
7414343 TTTT
65 TTTT
*
7414347 AAAATATTAAAAATTT
1 AAAATATTAATAATTT
7414363 AAAATTAGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
65 26 0.36
66 13 0.18
67 8 0.11
68 18 0.25
69 7 0.10
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (68 bp):
AAAATATTAATAATTTTATAATTAAAACATTAATATGATTATTTAATTTGTATTTATTGTTTATT
TTT
Found at i:7414362 original size:68 final size:65
Alignment explanation
Indices: 7414213--7414378 Score: 183
Period size: 68 Copynumber: 2.5 Consensus size: 65
7414203 TAATTTAATA
* * * *
7414213 AAAATATTAATAATTTTTTATTTAAAACTTTACTATGATTATTTATTTTAATTTATTTTATATTT
1 AAAATATTAA-AAATTTATAATTAAAACTTTAATATGATTATTTATTTTAATTTATTTTATATTT
7414278 T
65 T
* * *
7414279 AAAATATTAATAATTTATAATTAAAACATTAATATGATTATTTCAATTTGT-TTTTATTGTT-TA
1 AAAATATTAAAAATTTATAATTAAAACTTTAATATGATTATTT--ATTT-TAATTTATT-TTATA
7414342 TTTTT
62 -TTTT
* *
7414347 AAAATATTAAAAATTTAAAATTAGAACTTTAA
1 AAAATATTAAAAATTTATAATTAAAACTTTAA
7414379 CTTTAAAATA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
65 27 0.32
66 10 0.12
67 12 0.14
68 35 0.42
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (65 bp):
AAAATATTAAAAATTTATAATTAAAACTTTAATATGATTATTTATTTTAATTTATTTTATATTTT
Found at i:7414476 original size:29 final size:29
Alignment explanation
Indices: 7414381--7414470 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
7414371 AACTTTAACT
7414381 TTAAAATATTAATTTTTAATAATTTATAA
1 TTAAAATATTAATTTTTAATAATTTATAA
* *
7414410 TTACAAT-TCTAA--TTTAAT-TTTTA-AA
1 TTAAAATAT-TAATTTTTAATAATTTATAA
*
7414435 TTTAAAATATTAATTTTTTATAATTTATAA
1 -TTAAAATATTAATTTTTAATAATTTATAA
7414465 TTAAAA
1 TTAAAA
7414471 CTTTAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
25 2 0.04
26 13 0.27
27 7 0.14
28 6 0.12
29 19 0.39
30 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAAAATATTAATTTTTAATAATTTATAA
Found at i:7417905 original size:39 final size:39
Alignment explanation
Indices: 7417862--7417936 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
7417852 ATAATATTTT
7417862 AAAAA-ATTCTTAAATTATTCAAAAAAATTCAAATAAGCC
1 AAAAAGATT-TTAAATTATTCAAAAAAATTCAAATAAGCC
* * *
7417901 AAAAAGCTTTTAAATTATTTAAAAAAATTTAAATAA
1 AAAAAGATTTTAAATTATTCAAAAAAATTCAAATAA
7417937 ATATTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 30 0.94
40 2 0.06
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (39 bp):
AAAAAGATTTTAAATTATTCAAAAAAATTCAAATAAGCC
Found at i:7417931 original size:19 final size:19
Alignment explanation
Indices: 7417871--7417934 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
7417861 TAAAAAATTC
7417871 TTAAATTATTCAAAAAAAT
1 TTAAATTATTCAAAAAAAT
* * ** **
7417890 TCAAATAAGCCAAAAAGCTT
1 TTAAATTATTCAAAAA-AAT
*
7417910 TTAAATTATTTAAAAAAAT
1 TTAAATTATTCAAAAAAAT
7417929 TTAAAT
1 TTAAAT
7417935 AAATATTTAT
Statistics
Matches: 31, Mismatches: 13, Indels: 2
0.67 0.28 0.04
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (19 bp):
TTAAATTATTCAAAAAAAT
Found at i:7418562 original size:8 final size:8
Alignment explanation
Indices: 7418549--7418576 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7418539 TGAAAAATGC
7418549 CATGTGAT
1 CATGTGAT
7418557 CATGTGAT
1 CATGTGAT
7418565 CATGTGAT
1 CATGTGAT
7418573 CATG
1 CATG
7418577 CTATATCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (8 bp):
CATGTGAT
Found at i:7424033 original size:21 final size:21
Alignment explanation
Indices: 7424007--7424049 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7423997 ACATGGTATG
7424007 TTGATATTGTAGGTACTAAAA
1 TTGATATTGTAGGTACTAAAA
7424028 TTGATATTGTAGGTACTAAAA
1 TTGATATTGTAGGTACTAAAA
7424049 T
1 T
7424050 ATGCTGTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
TTGATATTGTAGGTACTAAAA
Found at i:7430939 original size:2 final size:2
Alignment explanation
Indices: 7430895--7430922 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7430885 ACTATGTATT
7430895 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7430923 CACACATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7443590 original size:1 final size:1
Alignment explanation
Indices: 7443584--7443611 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
7443574 AACCTTCTTC
7443584 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
7443612 GTGTCATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7447053 original size:14 final size:13
Alignment explanation
Indices: 7447026--7447062 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
7447016 GAGACAGATG
7447026 GAGA-AGAA-AAA
1 GAGAGAGAAGAAA
7447037 GAGAGAGAGAGAAA
1 GAGAGAGA-AGAAA
7447051 GAGAGAGAAGAA
1 GAGAGAGAAGAA
7447063 GATGGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 3 0.13
13 5 0.22
14 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
GAGAGAGAAGAAA
Found at i:7460915 original size:42 final size:42
Alignment explanation
Indices: 7460833--7460933 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
7460823 ATTTAAACAA
* * *
7460833 TAAATAAAATATTAATATTTTAAAATGTTAATGATTATATTG
1 TAAATAAAATATTAATATTTTAAAATATCAATGATAATATTG
* * *
7460875 TAAATAAAATATTAATA-TTTAAATTATCAATTATAAATATTT
1 TAAATAAAATATTAATATTTTAAAATATCAATGAT-AATATTG
*
7460917 TAAAATAAATTATTAAT
1 T-AAATAAAATATTAAT
7460934 TATTAATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 13 0.26
42 23 0.46
43 14 0.28
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (42 bp):
TAAATAAAATATTAATATTTTAAAATATCAATGATAATATTG
Found at i:7460925 original size:28 final size:28
Alignment explanation
Indices: 7460894--7460949 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
7460884 TATTAATATT
7460894 TAAATTATCAATTATAAATATTTTAAAA
1 TAAATTATCAATTATAAATATTTTAAAA
* *
7460922 TAAATTATTAATTATTAATATTTTAAAA
1 TAAATTATCAATTATAAATATTTTAAAA
7460950 AATAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TAAATTATCAATTATAAATATTTTAAAA
Found at i:7460937 original size:22 final size:21
Alignment explanation
Indices: 7460834--7460933 Score: 80
Period size: 21 Copynumber: 4.7 Consensus size: 21
7460824 TTTAAACAAT
*
7460834 AAATAAAATATTAATATTTTA
1 AAATAAATTATTAATATTTTA
* * *
7460855 AAATGTTAATGATT-ATATTGT-
1 AAA--TAAATTATTAATATTTTA
*
7460876 AAATAAAATATTAATA-TTTA
1 AAATAAATTATTAATATTTTA
* *
7460896 AATTATCAATTATAAATATTTTA
1 AA--ATAAATTATTAATATTTTA
7460919 AAATAAATTATTAAT
1 AAATAAATTATTAAT
7460934 TATTAATATT
Statistics
Matches: 59, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
19 8 0.14
20 5 0.08
21 17 0.29
22 17 0.29
23 12 0.20
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (21 bp):
AAATAAATTATTAATATTTTA
Found at i:7460962 original size:28 final size:27
Alignment explanation
Indices: 7460894--7460969 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
7460884 TATTAATATT
*
7460894 TAAATTATCAATTATAAATATTTTAAAA
1 TAAA-TATAAATTATAAATATTTTAAAA
* *
7460922 TAAATTATTAATTATTAATATTTTAAAAAA
1 TAAA-TATAAATTATAAATATTTT--AAAA
*
7460952 TAAA-ATAAATTAAAAATA
1 TAAATATAAATTATAAATA
7460970 GATAATTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 33 0.80
30 8 0.20
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAATATAAATTATAAATATTTTAAAA
Found at i:7464241 original size:4 final size:4
Alignment explanation
Indices: 7464232--7464257 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7464222 TGAGCTGAAA
7464232 TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TT
7464258 TGGCCAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:7479434 original size:2 final size:2
Alignment explanation
Indices: 7479427--7479460 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7479417 AAAATGTAAG
*
7479427 CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7479461 TGTATGAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:7491930 original size:23 final size:23
Alignment explanation
Indices: 7491766--7491956 Score: 143
Period size: 23 Copynumber: 8.3 Consensus size: 23
7491756 TGTCACAATA
* *
7491766 GTGTCACATATTCTTACCATG-C
1 GTGTCACACATTCTCACCATGTC
* * * *
7491788 TATATCACACATTTTCACCATGCC
1 -GTGTCACACATTCTCACCATGTC
*
7491812 GTCTCACACATTCTCACCATGTC
1 GTGTCACACATTCTCACCATGTC
* *
7491835 GTGTCACGCATTCCCACCATG-C
1 GTGTCACACATTCTCACCATGTC
* * * * * *
7491857 TATGTCACAAATTCTAAATCTTATC
1 -GTGTCACACATTCT-CACCATGTC
* * *
7491882 ATGTCACACGTTCTCACCATGCC
1 GTGTCACACATTCTCACCATGTC
*
7491905 GTGTCACACATTCTCACCATATC
1 GTGTCACACATTCTCACCATGTC
* * *
7491928 GTGCCACACATTCTCATCATGGC
1 GTGTCACACATTCTCACCATGTC
7491951 GTGTCA
1 GTGTCA
7491957 TAAACTTTAA
Statistics
Matches: 128, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
22 1 0.01
23 110 0.86
24 16 0.12
25 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.31
Consensus pattern (23 bp):
GTGTCACACATTCTCACCATGTC
Found at i:7491954 original size:46 final size:46
Alignment explanation
Indices: 7491792--7492204 Score: 184
Period size: 46 Copynumber: 8.6 Consensus size: 46
7491782 CCATGCTATA
* * *
7491792 TCACACATTTTCACCATGCCGTCTCACACATTCTCACCATGTCGTG
1 TCACACATTCTCACCATGCCGTGTCACACATTCTCACCATATCGTG
* * ** * * * * *
7491838 TCACGCATTCCCACCATGCTATGTCACAAATTCTAAATCTTATCATG
1 TCACACATTCTCACCATGCCGTGTCACACATTCT-CACCATATCGTG
*
7491885 TCACACGTTCTCACCATGCCGTGTCACACATTCTCACCATATCGTG
1 TCACACATTCTCACCATGCCGTGTCACACATTCTCACCATATCGTG
* * * * * ** *
7491931 CCACACATTCTCATCATGGCGTGTCATAAACTTTAAACCCTGTCGTGTCATAGCTGTG
1 TCACACATTCTCACCATGCCGTGTC--ACACATT-----C--TC--ACCATATC-GTG
** * ** *
7491989 TCACACATTCTCACCATGCTATGTCAC-CTATTCCCACCATGCCATG
1 TCACACATTCTCACCATGCCGTGTCACAC-ATTCTCACCATATCGTG
* * * * * * * *
7492035 TCACATATTCCCACCATGCCATGTCACAACCTTGC-CATGTCACAACTATG
1 TCACACATTCTCACCATGCCGTGTCAC-ACATT-CTCA--CCATATC-GTG
* * * *
7492085 TCACATATTCTCACCATACCGTGTCACACATTCTCATCAT-GCTGTG
1 TCACACATTCTCACCATGCCGTGTCACACATTCTCACCATATC-GTG
* * * * *** *
7492131 TCAGACATTCTCACCATACTGTGTCACAAATTCTCACCACGCCGTA
1 TCACACATTCTCACCATGCCGTGTCACACATTCTCACCATATCGTG
* *
7492177 TCACACATTCCCACCATGACGTGTCACA
1 TCACACATTCTCACCATGCCGTGTCACA
7492205 AACTCTAAAC
Statistics
Matches: 273, Mismatches: 72, Indels: 44
0.70 0.19 0.11
Matches are distributed among these distances:
46 145 0.53
47 47 0.17
48 8 0.03
49 10 0.04
50 27 0.10
51 1 0.00
53 1 0.00
55 3 0.01
56 3 0.01
57 5 0.02
58 23 0.08
ACGTcount: A:0.25, C:0.34, G:0.11, T:0.29
Consensus pattern (46 bp):
TCACACATTCTCACCATGCCGTGTCACACATTCTCACCATATCGTG
Found at i:7492062 original size:23 final size:23
Alignment explanation
Indices: 7491987--7492062 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
7491977 GTCATAGCTG
* * *
7491987 TGTCACACATTCTCACCATGCTA
1 TGTCACATATTCCCACCATGCCA
*
7492010 TGTCACCTATTCCCACCATGCCA
1 TGTCACATATTCCCACCATGCCA
7492033 TGTCACATATTCCCACCATGCCA
1 TGTCACATATTCCCACCATGCCA
7492056 TGTCACA
1 TGTCACA
7492063 ACCTTGCCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.25, C:0.38, G:0.09, T:0.28
Consensus pattern (23 bp):
TGTCACATATTCCCACCATGCCA
Found at i:7492109 original size:23 final size:23
Alignment explanation
Indices: 7492083--7492204 Score: 129
Period size: 23 Copynumber: 5.3 Consensus size: 23
7492073 GTCACAACTA
*
7492083 TGTCACATATTCTCACCATACCG
1 TGTCACACATTCTCACCATACCG
* * *
7492106 TGTCACACATTCTCATCATGCTG
1 TGTCACACATTCTCACCATACCG
* *
7492129 TGTCAGACATTCTCACCATACTG
1 TGTCACACATTCTCACCATACCG
* **
7492152 TGTCACAAATTCTCACCACGCCG
1 TGTCACACATTCTCACCATACCG
* *
7492175 TATCACACATTCCCACCATGA-CG
1 TGTCACACATTCTCACCAT-ACCG
7492198 TGTCACA
1 TGTCACA
7492205 AACTCTAAAC
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.28
Consensus pattern (23 bp):
TGTCACACATTCTCACCATACCG
Found at i:7492284 original size:23 final size:23
Alignment explanation
Indices: 7492233--7492285 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
7492223 GTCATAATTG
* *
7492233 TGTCACACATTCTCACCATGCCG
1 TGTCACACATTCCCACCATGCCA
*
7492256 TATCACACATTCCCACCATGCCA
1 TGTCACACATTCCCACCATGCCA
7492279 TGTCACA
1 TGTCACA
7492286 ACCCTGCTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.40, G:0.09, T:0.25
Consensus pattern (23 bp):
TGTCACACATTCCCACCATGCCA
Found at i:7492322 original size:18 final size:18
Alignment explanation
Indices: 7492295--7492333 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
7492285 AACCCTGCTG
7492295 TGTCACAGATTTTCACCA
1 TGTCACAGATTTTCACCA
*
7492313 TGTCATAGATTTTCACCA
1 TGTCACAGATTTTCACCA
7492331 TGT
1 TGT
7492334 TGTGTCACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (18 bp):
TGTCACAGATTTTCACCA
Found at i:7496135 original size:2 final size:2
Alignment explanation
Indices: 7496128--7496158 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7496118 TTTCTTATTT
7496128 TA TA 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 TA TA T
7496159 CCATGTATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7505911 original size:19 final size:20
Alignment explanation
Indices: 7505887--7505926 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7505877 AAGATATATC
7505887 TTGCATGT-TTATTTATGTT
1 TTGCATGTGTTATTTATGTT
*
7505906 TTGCATGTGTTATTTGTGTT
1 TTGCATGTGTTATTTATGTT
7505926 T
1 T
7505927 CAACAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.12, C:0.05, G:0.20, T:0.62
Consensus pattern (20 bp):
TTGCATGTGTTATTTATGTT
Found at i:7509782 original size:2 final size:2
Alignment explanation
Indices: 7509775--7509804 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7509765 TTACTTCTAG
7509775 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
7509805 GTCTTTTAAG
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:7511848 original size:25 final size:25
Alignment explanation
Indices: 7511788--7511848 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
7511778 ATTTTTCATG
*
7511788 TCTTTATTCTTTGTAAAAATTTTCTT
1 TCTTTATT-TTTGTAAAAATTTCCTT
*
7511814 TCTCTT-TTTTTTTAAAAATTTCCATT
1 TCT-TTATTTTTGTAAAAATTTCC-TT
7511840 T-TTTATTTT
1 TCTTTATTTT
7511849 GTCAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 2 0.07
25 18 0.60
26 8 0.27
27 2 0.07
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (25 bp):
TCTTTATTTTTGTAAAAATTTCCTT
Found at i:7513340 original size:14 final size:15
Alignment explanation
Indices: 7513321--7513353 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7513311 TCAATGCATG
7513321 TTAAG-TAGTTTAGT
1 TTAAGTTAGTTTAGT
*
7513335 TTAAGTTATTTTAGT
1 TTAAGTTAGTTTAGT
7513350 TTAA
1 TTAA
7513354 TTTGATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (15 bp):
TTAAGTTAGTTTAGT
Found at i:7522565 original size:432 final size:432
Alignment explanation
Indices: 7521756--7522613 Score: 1509
Period size: 432 Copynumber: 2.0 Consensus size: 432
7521746 CTAAATAATC
* * *
7521756 ACAATATTTGAGTCGTGGCATCTAGATACTACTAACTAGGTTTGATAATTCCATACAATTTCAAC
1 ACAATATTTGAGTCGTGACATCTAGAAACTAATAACTAGGTTTGATAATTCCATACAATTTCAAC
7521821 ATAATATGTAGTAATCATTACATAACTTTAAGTTTTAGCAAATACATTACCAATAAACTATTAAT
66 ATAATATGTAGTAATCATTACATAACTTTAAGTTTTAGCAAATACATTACCAATAAACTATTAAT
7521886 CATTATAAGCTCGACTATTTGACACAACCCAACCTCTAGGTAACGGAGCAACTCGAAGTGGAAGT
131 CATTATAAGCTCGACTATTTGACACAACCCAACCTCTAGGTAACGGAGCAACTCGAAGTGGAAGT
*
7521951 CTAAAAGATGCCATAACCTAGATTGTAGTCGATCTCGAAGTGCTGAACAATGCACTTCAACTGAT
196 CTAAAAGATGCCATAACCTAGATTGCAGTCGATCTCGAAGTGCTGAACAATGCACTTCAACTGAT
*
7522016 TACCTATCTGCAAAAGGAAATAAAGGGGATGAGTCTCACAGACTCAATGATCATCAACTCCGTGA
261 TACCTATCTGCAAAAGGAAATAAAGGGGATGAGTCTCACAGACTCAATGATCATCAACTACGTGA
7522081 GTAGGGCGTAGATGGGAAACAAGCTAAAGGCAAAAGATTTGAATATTAAAAATATAAGAATATAT
326 GTAGGGCGTAGATGGGAAACAAGCTAAAGGCAAAAGATTTGAATATTAAAAATATAAGAATATAT
7522146 GTAAACAATTTACCCAAAAAGGAAGTTTTGTGCCTTATGTAA
391 GTAAACAATTTACCCAAAAAGGAAGTTTTGTGCCTTATGTAA
7522188 ACAATATTTGAGTCGTGACATCTAGAAACTAATAACTAGGTTTGATAATTCCATACAATTTCAAC
1 ACAATATTTGAGTCGTGACATCTAGAAACTAATAACTAGGTTTGATAATTCCATACAATTTCAAC
7522253 ATAATATGTAGTAATCATTACATAACTTTAAGTTTTAGCAAATACATTACCAATAAACTATTAAT
66 ATAATATGTAGTAATCATTACATAACTTTAAGTTTTAGCAAATACATTACCAATAAACTATTAAT
7522318 CATTATAAGCTCGACTATTTGACACAACCCAACCTCTAGGTAACGGAGCAACTCGAAGTGGAAGT
131 CATTATAAGCTCGACTATTTGACACAACCCAACCTCTAGGTAACGGAGCAACTCGAAGTGGAAGT
* *
7522383 CTAAGAGATGCCATAACCTAGATTGCAGTCGATCTCGAAGTGCTGAACAATGCATTTCAACTGAT
196 CTAAAAGATGCCATAACCTAGATTGCAGTCGATCTCGAAGTGCTGAACAATGCACTTCAACTGAT
* * * *
7522448 TACCTATCTGCAAAAGGAAATAAAGGGGATGAGTTTTACAGACTCAATGATCATTAATTACGTGA
261 TACCTATCTGCAAAAGGAAATAAAGGGGATGAGTCTCACAGACTCAATGATCATCAACTACGTGA
**********
7522513 GTAGGGCGTAGATGGGAAACAAGCTAAAGGCAAAAGNNNNNNNNNNTAAAAATATAAGAATATAT
326 GTAGGGCGTAGATGGGAAACAAGCTAAAGGCAAAAGATTTGAATATTAAAAATATAAGAATATAT
* *
7522578 GTAAACAATTTACTCGAAAAGGAAGTTTTGTGCCTT
391 GTAAACAATTTACCCAAAAAGGAAGTTTTGTGCCTT
7522614 CTATGAAATT
Statistics
Matches: 403, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
432 403 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.27
Consensus pattern (432 bp):
ACAATATTTGAGTCGTGACATCTAGAAACTAATAACTAGGTTTGATAATTCCATACAATTTCAAC
ATAATATGTAGTAATCATTACATAACTTTAAGTTTTAGCAAATACATTACCAATAAACTATTAAT
CATTATAAGCTCGACTATTTGACACAACCCAACCTCTAGGTAACGGAGCAACTCGAAGTGGAAGT
CTAAAAGATGCCATAACCTAGATTGCAGTCGATCTCGAAGTGCTGAACAATGCACTTCAACTGAT
TACCTATCTGCAAAAGGAAATAAAGGGGATGAGTCTCACAGACTCAATGATCATCAACTACGTGA
GTAGGGCGTAGATGGGAAACAAGCTAAAGGCAAAAGATTTGAATATTAAAAATATAAGAATATAT
GTAAACAATTTACCCAAAAAGGAAGTTTTGTGCCTTATGTAA
Done.