Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 92 of 103
Found at i:33770316 original size:17 final size:16
Alignment explanation
Indices: 33770286--33770330 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
33770276 TATAATTTTA
33770286 TTTTA-AATTAAATAATT
1 TTTTATAATT-AAT-ATT
33770303 TTTTATAATTAATATT
1 TTTTATAATTAATATT
33770319 TTTTATTAATTA
1 TTTTA-TAATTA
33770331 TCATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.31
17 14 0.54
18 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTATAATTAATATT
Found at i:33778400 original size:16 final size:15
Alignment explanation
Indices: 33778381--33778414 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
33778371 ATTTGACTCA
33778381 AAATAAAATATAAAAT
1 AAATAAAATAT-AAAT
*
33778397 AAATTAAATATAAAT
1 AAATAAAATATAAAT
33778412 AAA
1 AAA
33778415 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATATAAAT
Found at i:33780111 original size:18 final size:20
Alignment explanation
Indices: 33780067--33780113 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
33780057 TTGTTGTTTT
33780067 CTGTTTTGGTTACTGCATCTC
1 CTGTTTTGGTTA-TGCATCTC
*
33780088 CTGTTTTGGTT-TGCA-CTG
1 CTGTTTTGGTTATGCATCTC
33780106 CTGTTTTG
1 CTGTTTTG
33780114 CTTGGTACGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
21 11 0.44
ACGTcount: A:0.06, C:0.19, G:0.23, T:0.51
Consensus pattern (20 bp):
CTGTTTTGGTTATGCATCTC
Found at i:33796188 original size:20 final size:20
Alignment explanation
Indices: 33796134--33796188 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
33796124 AATAAAAAAA
* *
33796134 TAAAATTTTATTTAAATTTT
1 TAAAATATTATTTAAAATTT
33796154 TATAAATA--ATTTAAAATTT
1 TA-AAATATTATTTAAAATTT
*
33796173 TAAAATATTATGTAAA
1 TAAAATATTATTTAAA
33796189 TTATATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 12 0.41
20 8 0.28
21 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAAATATTATTTAAAATTT
Found at i:33797966 original size:9 final size:9
Alignment explanation
Indices: 33797952--33797983 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
33797942 TAACTGAATC
33797952 TTTTTAAAA
1 TTTTTAAAA
33797961 TTTTTAAAA
1 TTTTTAAAA
33797970 TTTTTAAAA
1 TTTTTAAAA
33797979 TTTTT
1 TTTTT
33797984 TACCAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:33807307 original size:19 final size:20
Alignment explanation
Indices: 33807278--33807320 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
33807268 TTTTTTACCT
* *
33807278 AATTAATAATTTTCATTGAA
1 AATTAATAATTATCATTAAA
33807298 AATTAA-AATTATCATTAAA
1 AATTAATAATTATCATTAAA
33807317 AATT
1 AATT
33807321 CAAGTTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (20 bp):
AATTAATAATTATCATTAAA
Found at i:33809737 original size:3 final size:3
Alignment explanation
Indices: 33809731--33809763 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
33809721 GGGGGGGGGG
33809731 GGT GGT GGT GGT GGT GGT GGT GGT GGT -GT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
33809764 TTTAACAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:33819819 original size:2 final size:2
Alignment explanation
Indices: 33819812--33819846 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
33819802 TCCTTTTAAT
*
33819812 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33819847 CCTTACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33820228 original size:2 final size:2
Alignment explanation
Indices: 33820221--33820278 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
33820211 TTACTGAAGC
33820221 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33820263 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
33820279 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33820443 original size:2 final size:2
Alignment explanation
Indices: 33820436--33820492 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
33820426 NNTTATGAGC
33820436 TA TA TA TA TA TA TA TA TA TA -A TA TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33820475 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
33820493 CTGAGAACTA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.06
2 49 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33823003 original size:2 final size:2
Alignment explanation
Indices: 33822998--33823042 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
33822988 CGCACACACA
33822998 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33823039 AG AG
1 AG AG
33823043 TGGAGGGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33823425 original size:16 final size:17
Alignment explanation
Indices: 33823404--33823436 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33823394 AAACACAAAT
33823404 AAATTAAGAAG-ATATA
1 AAATTAAGAAGCATATA
*
33823420 AAATTATGAAGCATATA
1 AAATTAAGAAGCATATA
33823437 TATACCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (17 bp):
AAATTAAGAAGCATATA
Found at i:33827022 original size:231 final size:231
Alignment explanation
Indices: 33826619--33827075 Score: 835
Period size: 231 Copynumber: 2.0 Consensus size: 231
33826609 TTTTCGCTTC
*
33826619 TTACTGCACGTTTGGTACAGGGAATAGATAAGCTATTCCCTGTTTATTCCCAAGGGAATAGCCTA
1 TTACTGCACGTTTGGTACAGGGAATAGATAAGCTATTCCCTGTCTATTCCCAAGGGAATAGCCTA
*
33826684 CCTCTGTTTGGTATGGTAATATCACAAAGAATAGCTATTACCTAGTAATAGCTATTCTCTCAAAA
66 CCTCCGTTTGGTATGGTAATATCACAAAGAATAGCTATTACCTAGTAATAGCTATTCTCTCAAAA
33826749 GGGGTAAAACTCAGGCATAGTTAAACCTGAGGTTCCCCATGGTTTTTGCTATTCCGTGATC-ATG
131 GGGGTAAAACTCAGGCATAGTTAAACCTGAGGTTCCCCATGGTTTTTGCTATTCCGTGA-CAATG
33826813 AGAATAGCTTTGAATTATGATATGACTAAAATGCCCT
195 AGAATAGCTTTGAATTATGATATGACTAAAATGCCCT
* *
33826850 TTACTGCACGTTTGGTACAGGGAATAGCTAAGCTATTCTCTGTCTATTCCCAAGGGAATAGCCTA
1 TTACTGCACGTTTGGTACAGGGAATAGATAAGCTATTCCCTGTCTATTCCCAAGGGAATAGCCTA
*
33826915 CCTCCGTTTGGTATGGTAATATCACAAAGAATAGCTATTACTTAGTAATAGCTATTCTCTCAAAA
66 CCTCCGTTTGGTATGGTAATATCACAAAGAATAGCTATTACCTAGTAATAGCTATTCTCTCAAAA
* *
33826980 TGGGTAAAACTCAGGCATAGTTAAACCTGAGGTTCCCCATGGTTTTTGCTATTCCGTGACAATGG
131 GGGGTAAAACTCAGGCATAGTTAAACCTGAGGTTCCCCATGGTTTTTGCTATTCCGTGACAATGA
33827045 GAATAGCTTTGAATTATGATATGACTAAAAT
196 GAATAGCTTTGAATTATGATATGACTAAAAT
33827076 ACCTCTTATT
Statistics
Matches: 218, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
230 1 0.00
231 217 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (231 bp):
TTACTGCACGTTTGGTACAGGGAATAGATAAGCTATTCCCTGTCTATTCCCAAGGGAATAGCCTA
CCTCCGTTTGGTATGGTAATATCACAAAGAATAGCTATTACCTAGTAATAGCTATTCTCTCAAAA
GGGGTAAAACTCAGGCATAGTTAAACCTGAGGTTCCCCATGGTTTTTGCTATTCCGTGACAATGA
GAATAGCTTTGAATTATGATATGACTAAAATGCCCT
Found at i:33827616 original size:26 final size:26
Alignment explanation
Indices: 33827587--33827671 Score: 80
Period size: 30 Copynumber: 3.0 Consensus size: 26
33827577 ATAAATTATT
33827587 TATAAAATTTAAATATTAATATTTTA
1 TATAAAATTTAAATATTAATATTTTA
* * *
33827613 TATATAATTAAAACATTATTAATATTAATA
1 TATAAAATT-TAA-A-TATTAATATT-TTA
33827643 TGATTAAAATATTAAATATTAATATTTTA
1 T-A-TAAAAT-TTAAATATTAATATTTTA
33827672 AACTATTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
26 8 0.17
27 2 0.04
28 1 0.02
29 12 0.26
30 13 0.28
31 2 0.04
32 7 0.15
33 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
TATAAAATTTAAATATTAATATTTTA
Found at i:33827617 original size:15 final size:15
Alignment explanation
Indices: 33827594--33827715 Score: 56
Period size: 15 Copynumber: 8.2 Consensus size: 15
33827584 ATTTATAAAA
*
33827594 TTTAAATATTAATAT
1 TTTATATATTAATAT
33827609 TTTATATA-TAAT-T
1 TTTATATATTAATAT
*** *
33827622 AAAACATTATTAATA-
1 TTTATA-TATTAATAT
* *
33827637 TTAATATGATTAAAAT
1 TTTATAT-ATTAATAT
* *
33827653 ATTAAATATTAATAT
1 TTTATATATTAATAT
* *
33827668 TTTAAACTATTAATGT
1 TTTATA-TATTAATAT
*
33827684 TTTATTTATTAAT-T
1 TTTATATATTAATAT
*
33827698 TTAATATTATTAA-AT
1 TTTATA-TATTAATAT
33827713 TTT
1 TTT
33827716 TAATGAATAT
Statistics
Matches: 79, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
13 3 0.04
14 12 0.15
15 48 0.61
16 16 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTATATATTAATAT
Found at i:33827672 original size:23 final size:24
Alignment explanation
Indices: 33827597--33827680 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 24
33827587 TATAAAATTT
* *
33827597 AAATATTAATATTTTATATATAATTA
1 AAATATTAA-ATATTA-ATATGATTA
*
33827623 AAACATTATTAATATTAATATGATTA
1 AAATATTA--AATATTAATATGATTA
*
33827649 AAATATTAAATATTAATAT-TTTA
1 AAATATTAAATATTAATATGATTA
*
33827672 AACTATTAA
1 AAATATTAA
33827681 TGTTTTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 11 0.22
24 11 0.22
26 22 0.44
27 5 0.10
28 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (24 bp):
AAATATTAAATATTAATATGATTA
Found at i:33827754 original size:20 final size:20
Alignment explanation
Indices: 33827729--33827782 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
33827719 TGAATATAAA
33827729 AATAAAAATTATTAATATT-T
1 AATAAAAATTATTAA-ATTAT
33827749 AATAAATAA-TATTAAATTAT
1 AATAAA-AATTATTAAATTAT
33827769 AA-ATAAAATTATTA
1 AATA-AAAATTATTA
33827783 TTAATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.20
20 22 0.73
21 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAAAAATTATTAAATTAT
Found at i:33827833 original size:18 final size:18
Alignment explanation
Indices: 33827810--33827886 Score: 59
Period size: 21 Copynumber: 4.1 Consensus size: 18
33827800 TTGTTAATTT
33827810 TTATAATAATAATATTAA
1 TTATAATAATAATATTAA
*
33827828 TTATAAATAAAATATTATTAA
1 TTAT-AAT--AATAATATTAA
*
33827849 TTAAAAT-ATAAGTAATTAAA
1 TTATAATAATAA-T-ATT-AA
*
33827869 TTATATTAA-AATATTAA
1 TTATAATAATAATATTAA
33827886 T
1 T
33827887 ATTATAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 7 0.15
20 12 0.26
21 14 0.30
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
TTATAATAATAATATTAA
Found at i:33827855 original size:15 final size:15
Alignment explanation
Indices: 33827835--33827877 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33827825 TAATTATAAA
33827835 TAAAATATTATTAAT
1 TAAAATATTATTAAT
* *
33827850 TAAAATATAAGTAAT
1 TAAAATATTATTAAT
*
33827865 TAAATTA-TATTAA
1 TAAAATATTATTAA
33827878 AATATTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TAAAATATTATTAAT
Found at i:33827889 original size:64 final size:63
Alignment explanation
Indices: 33827753--33827890 Score: 163
Period size: 62 Copynumber: 2.2 Consensus size: 63
33827743 ATATTTAATA
** * * *
33827753 AATAATATTAAATTATAAATAAAATTATTATTAATTAAAATATTNCTTTGTTAATTTTTATAAT
1 AATAATATT-AATTATAAATAAAATTATTATTAATTAAAATATAACTATGTAAATTTTTAAAAT
*
33827817 AATAATATTAATTATAAATAAAA-TATTATTAATTAAAATATAAGTAAT-TAAATTATATTAAAA
1 AATAATATTAATTATAAATAAAATTATTATTAATTAAAATATAACT-ATGTAAATT-T-TTAAAA
33827880 T
63 T
*
33827881 ATTAATATTA
1 AATAATATTA
33827891 TAATTTAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
62 24 0.38
63 16 0.25
64 24 0.38
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (63 bp):
AATAATATTAATTATAAATAAAATTATTATTAATTAAAATATAACTATGTAAATTTTTAAAAT
Found at i:33827890 original size:46 final size:46
Alignment explanation
Indices: 33827813--33827935 Score: 123
Period size: 45 Copynumber: 2.7 Consensus size: 46
33827803 TTAATTTTTA
*
33827813 TAATAA-TAATATTAATTATAAA-TA-AAATATTATTAATTAAAATA-
1 TAATAATTAA-ATTAATTATAAATTATTAATATTA-TAATTAAAATAT
* *
33827857 TAAGTAATTAAATTATATTA-AAA-TATTAATATTATAATTTAATTAT
1 TAA-TAATTAAATTA-ATTATAAATTATTAATATTATAATTAAAATAT
* *
33827903 TAATATTTTAATTAATTATAAATTATTAATATT
1 TAATAATTAAATTAATTATAAATTATTAATATT
33827936 TAAAAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
44 7 0.10
45 33 0.49
46 27 0.40
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (46 bp):
TAATAATTAAATTAATTATAAATTATTAATATTATAATTAAAATAT
Found at i:33827905 original size:20 final size:20
Alignment explanation
Indices: 33827863--33827921 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
33827853 AATATAAGTA
* *
33827863 ATTAA-ATTAT-ATTAAAAT
1 ATTAATATTATAATTTAATT
33827881 ATTAATATTATAATTTAATT
1 ATTAATATTATAATTTAATT
*
33827901 ATTAATATTTTAA-TTAATT
1 ATTAATATTATAATTTAATT
33827920 AT
1 AT
33827922 AAATTATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.14
19 13 0.36
20 18 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAATATTATAATTTAATT
Found at i:33828701 original size:5 final size:5
Alignment explanation
Indices: 33828691--33828724 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
33828681 TAACGACCAT
* *
33828691 AAAAG AAAAG AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
33828725 GTTCCTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:33832263 original size:24 final size:24
Alignment explanation
Indices: 33832231--33832301 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
33832221 TTAAAAATGT
* * *
33832231 ATCATCCAATTGTAGACAAGTGTC
1 ATCAGCCAATTCTATACAAGTGTC
33832255 ATCAGCCAATTCTATACAAGTGTC
1 ATCAGCCAATTCTATACAAGTGTC
33832279 ATCAGCCAATTCTATACAAGTGT
1 ATCAGCCAATTCTATACAAGTGT
33832302 ATTACGTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (24 bp):
ATCAGCCAATTCTATACAAGTGTC
Found at i:33836959 original size:21 final size:21
Alignment explanation
Indices: 33836901--33836967 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
33836891 GTAATAAAAA
*
33836901 TAAAATTTTAT-TTAAAATTT
1 TAAAATATTATATTAAAATTT
* * *
33836921 TTAAATAATTTTA-AAAAATTT
1 TAAAAT-ATTATATTAAAATTT
*
33836942 TAAAATGTTATATTAAAATTT
1 TAAAATATTATATTAAAATTT
33836963 TAAAA
1 TAAAA
33836968 ACATGTGATA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 9 0.25
21 27 0.75
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (21 bp):
TAAAATATTATATTAAAATTT
Found at i:33839466 original size:2 final size:2
Alignment explanation
Indices: 33839459--33839493 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
33839449 AGTATTATTA
*
33839459 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33839494 ACTAGAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:33839710 original size:2 final size:2
Alignment explanation
Indices: 33839703--33839748 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
33839693 ATGGTAATAA
*
33839703 AT AT AT AT AT AT AA 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
33839745 AT AT
1 AT AT
33839749 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33840535 original size:2 final size:2
Alignment explanation
Indices: 33840528--33840568 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
33840518 NNNNNNNNNN
33840528 TA TA TA TA TA 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 TA TA TA TA TA T
33840569 CCGAAATGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33848472 original size:14 final size:14
Alignment explanation
Indices: 33848433--33848472 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
33848423 GTATATCATA
33848433 TTTAACTATTTATAG
1 TTTAA-TATTTATAG
33848448 TTT-ATACTTTATAG
1 TTTAATA-TTTATAG
33848462 TTTAATATTTA
1 TTTAATATTTA
33848473 GCATTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 15 0.65
15 6 0.26
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (14 bp):
TTTAATATTTATAG
Found at i:33854169 original size:17 final size:17
Alignment explanation
Indices: 33854147--33854183 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
33854137 GCAAGAATTT
33854147 TAAGTTTTA-AATTGTTA
1 TAAGTTTTATAATT-TTA
33854164 TAAGTTTTATAATTTTA
1 TAAGTTTTATAATTTTA
33854181 TAA
1 TAA
33854184 TAATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
TAAGTTTTATAATTTTA
Found at i:33854211 original size:21 final size:22
Alignment explanation
Indices: 33854172--33854220 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
33854162 TATAAGTTTT
*
33854172 ATAATTT-TATAATAATATA-A
1 ATAATTTATATAAAAATATATA
*
33854192 ATAATTTATCTAAAAATATATA
1 ATAATTTATATAAAAATATATA
33854214 A-AATTTA
1 ATAATTTA
33854221 AAATAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 16 0.64
22 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAATTTATATAAAAATATATA
Found at i:33860933 original size:2 final size:2
Alignment explanation
Indices: 33860920--33860960 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
33860910 TGAGAAGGCG
* *
33860920 GA GA GT GA GA GA GA GA GA GA GA GA GA GA GA GT GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
33860961 GAGGTGGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.51, T:0.05
Consensus pattern (2 bp):
GA
Found at i:33862311 original size:26 final size:24
Alignment explanation
Indices: 33862282--33862377 Score: 97
Period size: 25 Copynumber: 3.9 Consensus size: 24
33862272 TTTATTTTTT
33862282 AAATATTAATAATTTATAATTAATTA
1 AAATATTAAT-ATTT-TAATTAATTA
*
33862308 AAATATTAATA-ATTAA-TAATTTA
1 AAATATTAATATTTTAATTAA-TTA
* * *
33862331 AAATATCAATATTTTAGTATAATTT
1 AAATATTAATATTTTAAT-TAATTA
*
33862356 AATTATTAATATTTTAATTAAT
1 AAATATTAATATTTTAATTAAT
33862378 AATATTTTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.05
23 16 0.28
24 8 0.14
25 18 0.31
26 13 0.22
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
AAATATTAATATTTTAATTAATTA
Found at i:33862373 original size:15 final size:15
Alignment explanation
Indices: 33862278--33862386 Score: 66
Period size: 15 Copynumber: 7.3 Consensus size: 15
33862268 TTATTTTATT
*
33862278 TTTTAAATATTAATAA
1 TTTTAATTATTAAT-A
*
33862294 TTTATAATTAATTAAAA
1 TTT-TAATT-ATTAATA
* *
33862311 TATTAATAATTAATAA
1 TTTTAATTATTAAT-A
* * *
33862327 TTTAAAATATCAATA
1 TTTTAATTATTAATA
*
33862342 TTTT-AGTA-T-A-A
1 TTTTAATTATTAATA
33862353 -TTTAATTATTAATA
1 TTTTAATTATTAATA
*
33862367 TTTTAATTAATAATA
1 TTTTAATTATTAATA
33862382 TTTTA
1 TTTTA
33862387 TTNTTTTTAT
Statistics
Matches: 70, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
10 3 0.04
11 4 0.06
12 2 0.03
13 1 0.01
14 4 0.06
15 27 0.39
16 17 0.24
17 7 0.10
18 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
TTTTAATTATTAATA
Found at i:33872320 original size:2 final size:2
Alignment explanation
Indices: 33872305--33872346 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
33872295 GTTTAAGTTT
* *
33872305 TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33872347 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33872351 original size:2 final size:2
Alignment explanation
Indices: 33872346--33872406 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
33872336 ATATATATAT
33872346 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33872388 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
33872407 NNNNNNNNNN
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33872432 original size:2 final size:2
Alignment explanation
Indices: 33872425--33872487 Score: 92
Period size: 2 Copynumber: 31.0 Consensus size: 2
33872415 NNNNNNNNNN
*
33872425 GA GA GA GA GA GCA GA GA GCA GA GA GA GA GA GA GA GA G- GA GG GA
1 GA GA GA GA GA G-A GA GA G-A GA GA GA GA GA GA GA GA GA GA GA GA
33872468 GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA
33872488 TGACACGATC
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 1 0.02
2 51 0.91
3 4 0.07
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33878433 original size:17 final size:17
Alignment explanation
Indices: 33878411--33878454 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
33878401 AAAAAAACCT
33878411 TGGTGATCTTATCACCA
1 TGGTGATCTTATCACCA
* *
33878428 TGGTGAT-TAAATCATCA
1 TGGTGATCT-TATCACCA
33878445 TGGTGATCTT
1 TGGTGATCTT
33878455 GAAACTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (17 bp):
TGGTGATCTTATCACCA
Found at i:33880092 original size:22 final size:20
Alignment explanation
Indices: 33880051--33880139 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 20
33880041 AGGATTTAAA
*
33880051 GAAAAATTATTTAGAAATTTT
1 GAAAAATTATTCA-AAATTTT
33880072 GAAATAATTATTCAAAGATTTT
1 GAAA-AATTATTCAAA-ATTTT
*
33880094 -AAAGATGTATTCAAAAGTTTT
1 GAAAAAT-TATTCAAAA-TTTT
* * *
33880115 GAAAATAGTACTCAAAAATTT
1 GAAAA-ATTATTCAAAATTTT
33880136 GAAA
1 GAAA
33880140 GATGGTTACT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
20 3 0.05
21 28 0.50
22 24 0.43
23 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.36
Consensus pattern (20 bp):
GAAAAATTATTCAAAATTTT
Found at i:33884229 original size:42 final size:42
Alignment explanation
Indices: 33884179--33884338 Score: 196
Period size: 42 Copynumber: 3.8 Consensus size: 42
33884169 ATTGACTCGG
* * * *
33884179 CTATGTGCGAGTAGGAGTGCACATAAGCTGTTGTTGACCTGG
1 CTATGTGCGAGTAGGAGTGCGCATAAGCTGTTGCTGACCCGA
* *
33884221 CTATGTGCGAGTGGGAGTGCGCATAAGCCGTTGCTGACCCGA
1 CTATGTGCGAGTAGGAGTGCGCATAAGCTGTTGCTGACCCGA
** * *
33884263 CTATAAGCGAGTGGGAGTGCGTATAAG-TCGTTGCTGACCCGA
1 CTATGTGCGAGTAGGAGTGCGCATAAGCT-GTTGCTGACCCGA
* *
33884305 CTATGTGCGAGTAGGAGTACGTATAAGCTGTTGC
1 CTATGTGCGAGTAGGAGTGCGCATAAGCTGTTGC
33884339 ATATGAGCTG
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 101 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.26
Consensus pattern (42 bp):
CTATGTGCGAGTAGGAGTGCGCATAAGCTGTTGCTGACCCGA
Found at i:33895631 original size:2 final size:2
Alignment explanation
Indices: 33895624--33895650 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33895614 AACAAAAGAA
33895624 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 A
33895651 GAATCACACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33898201 original size:28 final size:29
Alignment explanation
Indices: 33898160--33898219 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
33898150 GTCTATGGGC
*
33898160 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
33898188 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
33898218 AA
1 AA
33898220 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:33905095 original size:468 final size:467
Alignment explanation
Indices: 33904220--33905144 Score: 1474
Period size: 468 Copynumber: 2.0 Consensus size: 467
33904210 TGACAACTCG
* *
33904220 AACTAGTGTGAGGTGTGATACACGAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
1 AACTAGTGTGAGGCGTGATACACAAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
*
33904285 TAAACAAAATATGCAGAAAAATGGACATCATAGATGACGGGAACACACTTTCAAAATGGACTTTT
66 TAAACAAAATATGCAGAAAAATGGACATCATAGATGACGGGAACAAACTTTCAAAATGGACTTTT
* * * * * *
33904350 TCATAATTAACGGAGAATCTCATTTGCTTTTTTGAAAGATCAAGAATATGATCTCGAAGATGATC
131 TCAGAATTAACAGAGAATCTCATTTGCTTCTTTGAAAGATCAAGAAAATGATCCCAAAGATGATC
* *
33904415 ATGTTTCAACAGCAATAATCTTTCTACTGAGAAACGTACACATTAAAAATCAACTTATAAGAATT
196 ATGTTTCAACAACAATAATCTTTCTACTGAGAAACGTACACAATAAAAATCAACTTATAAGAATT
* * * *
33904480 ACAAAAAGGGGACTTATGAAATAATTGCACTTGGGAATTGACATAGAAATCATTGGAAAAATAAA
261 ACAAAAAGAGAACTTATGAAATAATTGCACTTAGGAATTGACATAAAAATCATTGGAAAAATAAA
* * * *
33904545 ATTGACAACATCGAAAAGAAGTAATAATAAAATAAAACTGATCTCAAATTATCCTTAAGATTGTT
326 ATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAAATTATCCTTAAGATTGTT
*
33904610 CGCTAAAAATCGAAGCAGATGACAACTCGAACTAGTCTAAGGCGTGATACATGAAGTATGAAACT
391 CGCTAAAAATCGAAGCAGATGACAACTCGAACTAGTCTAAGGCGTGATACACGAAGTATGAAACT
33904675 CAACGCAAAACA
456 CAACGCAAAACA
* *
33904687 AACTAGTTTGAGGCGTGATACACAAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTCCTTAC
1 AACTAGTGTGAGGCGTGATACACAAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
* * *
33904752 TAAACAAAATATGTAGAAAAATGGACATCATAGATGATGGGAACAAACTTTCAAAAT-GATTTTT
66 TAAACAAAATATGCAGAAAAATGGACATCATAGATGACGGGAACAAACTTTCAAAATGGA--CTT
*
33904816 TTTCAGAATTAACAGAGACTCTCATTTGCTTCTTTGAAAGATCAAGAAAATGATCCCAAAGATGA
129 TTTCAGAATTAACAGAGAATCTCATTTGCTTCTTTGAAAGATCAAGAAAATGATCCCAAAGATGA
* * * *
33904881 TCATGTTTGAGCAACAATAATCTTTCTACTGAGAAACTTACACAATAAAAATCAACTTATAAGGA
194 TCATGTTTCAACAACAATAATCTTTCTACTGAGAAACGTACACAATAAAAATCAACTTATAAGAA
* *
33904946 TTACAAAAAGAGAACTTATGGAATAATTGCACTTAGGAATTGACATAAAAATCATTGGAAAAATT
259 TTACAAAAAGAGAACTTATGAAATAATTGCACTTAGGAATTGACATAAAAATCATTGGAAAAATA
*
33905011 AAATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAATTTATCCTTAAGATTG
324 AAATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAAATTATCCTTAAGATTG
* * * * * *
33905076 TTGGTTAAAAATTGAAGCAGATGACAACTCGAATTAGTTTGAGGCGTGATACACGAAGTATGAAA
389 TTCGCTAAAAATCGAAGCAGATGACAACTCGAACTAGTCTAAGGCGTGATACACGAAGTATGAAA
33905141 CTCA
454 CTCA
33905145 GTGCAAAAAG
Statistics
Matches: 417, Mismatches: 39, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
466 2 0.00
467 115 0.28
468 300 0.72
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (467 bp):
AACTAGTGTGAGGCGTGATACACAAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
TAAACAAAATATGCAGAAAAATGGACATCATAGATGACGGGAACAAACTTTCAAAATGGACTTTT
TCAGAATTAACAGAGAATCTCATTTGCTTCTTTGAAAGATCAAGAAAATGATCCCAAAGATGATC
ATGTTTCAACAACAATAATCTTTCTACTGAGAAACGTACACAATAAAAATCAACTTATAAGAATT
ACAAAAAGAGAACTTATGAAATAATTGCACTTAGGAATTGACATAAAAATCATTGGAAAAATAAA
ATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAAATTATCCTTAAGATTGTT
CGCTAAAAATCGAAGCAGATGACAACTCGAACTAGTCTAAGGCGTGATACACGAAGTATGAAACT
CAACGCAAAACA
Found at i:33905469 original size:420 final size:419
Alignment explanation
Indices: 33904687--33905572 Score: 1357
Period size: 420 Copynumber: 2.1 Consensus size: 419
33904677 ACGCAAAACA
* *
33904687 AACTAGTTTGAGGCGTGATACACAAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTCCTTAC
1 AACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
* * **
33904752 TAAACAAAATATGTAGAAAAATGGACATCATAGATGATGGGAACAAACTTTCAAAATGATTTTTT
66 TAAACAAAATATGCAAAAAAATGGACATCATAGATGACAGGAACAAACTTTCAAAATGA-TTTTT
* * *
33904817 TTCAGAATTAACAGAGACTCTCATTTGCTTCTTTGAAAGATCAAGAAAATGATCCCAAAGATGAT
130 TTCAGAATTAACAGAGACTCGCATTTGCTTCTTTAAAACATCAAGAAAATGATCCCAAAGATGAT
* * * *
33904882 CATGTTTGAGCAACAATAATCTTTCTACTGAGAAACTTACACAATAAAAATCAACTTATAAGGAT
195 CATGTTTCAGCAACAATAATCTTTCTACTAAGAAACCTACACAATAAAAATCAACTTATAAAGAT
* *
33904947 TACAAAAAGAGAACTTATGGAATAATTGCACTTAGGAATTGACATAAAAATCATTGGAAAAATTA
260 TAAAAAAAGAGAACTTATGAAATAATTGCACTTAGGAATTGACATAAAAATCATTGGAAAAATTA
*
33905012 AATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAATTTATCCTTAAGATTGT
325 AATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAAATTATCCTTAAGATTGT
* * *
33905077 TGGTTAAAAATTGAAGCAGATGACAACTCG
390 TGGCTAAAAATCGAAGCAAATGACAACTCG
*
33905107 AATTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
1 AACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
33905172 TAAACAAAATATGCAAAAAAATGGACATCATAGATGACAGGAACAAACTTTCAAAATAGA-TTTT
66 TAAACAAAATATGCAAAAAAATGGACATCATAGATGACAGGAACAAACTTTCAAAAT-GATTTTT
* * * *
33905236 TTCAGAATTGACAGAGATTCGCATTTGCTT-TTCTAAAACATCAAGAATATGATCCCCGAAGATG
130 TTCAGAATTAACAGAGACTCGCATTTGCTTCTT-TAAAACATCAAGAAAATGAT-CCCAAAGATG
* * * * *
33905300 ATCATGTTTCAGTAGCAATAATCTTTCTACTAAGAAACCTGCTCACTAAAAATCAACTTATAAAG
193 ATCATGTTTCAGCAACAATAATCTTTCTACTAAGAAACCTACACAATAAAAATCAACTTATAAAG
*
33905365 ATTATAAAAAAG-GGACTTATGAAATAATTGCACTT-GAGAATTGACATAAAAATCATTGGAAAA
258 ATTA-AAAAAAGAGAACTTATGAAATAATTGCACTTAG-GAATTGACATAAAAATCATTGGAAAA
* * * * **
33905428 ATTAAATTGATAACATTGAAAAGAAGTAATAATAAAATAAAACTGATTCCAAATTATCCTTAAGA
321 ATTAAATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAAATTATCCTTAAGA
33905493 TTGTTGGCTAAAAATCGAAGCAAATGACAACTCG
386 TTGTTGGCTAAAAATCGAAGCAAATGACAACTCG
*
33905527 AACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAATGCAAAA
1 AACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAGTGCAAAA
33905573 TGAACTAGTC
Statistics
Matches: 423, Mismatches: 38, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
418 2 0.00
419 49 0.12
420 364 0.86
421 8 0.02
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (419 bp):
AACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAGTGCAAAAAGATTAAAGCACTACTTAC
TAAACAAAATATGCAAAAAAATGGACATCATAGATGACAGGAACAAACTTTCAAAATGATTTTTT
TCAGAATTAACAGAGACTCGCATTTGCTTCTTTAAAACATCAAGAAAATGATCCCAAAGATGATC
ATGTTTCAGCAACAATAATCTTTCTACTAAGAAACCTACACAATAAAAATCAACTTATAAAGATT
AAAAAAAGAGAACTTATGAAATAATTGCACTTAGGAATTGACATAAAAATCATTGGAAAAATTAA
ATTGACAACATCGAAAAAAAGTAATAATAAAATAAAACTAACCCCAAATTATCCTTAAGATTGTT
GGCTAAAAATCGAAGCAAATGACAACTCG
Found at i:33905607 original size:48 final size:48
Alignment explanation
Indices: 33905526--33905695 Score: 187
Period size: 48 Copynumber: 3.5 Consensus size: 48
33905516 ATGACAACTC
* * * *
33905526 GAACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAATGCAAAAT
1 GAACTAGTCTGAGGCATGATACATGAAGTATGAAACTCAGTGCAAAAT
** * * **
33905574 GAACTAGTCTGAGGTGTGATACATGAAGAATGAAACTTAGTGTGACAACTT
1 GAACTAGTCTGAGGCATGATACATGAAGTATGAAACTCA--GTG-CAAAAT
* * *
33905625 GAATTAGTTTGAGGCATGATACATGAAGTATGAAACTCAGTGCAAAAC
1 GAACTAGTCTGAGGCATGATACATGAAGTATGAAACTCAGTGCAAAAT
*
33905673 GAACTAGTCTGAGGTATGATACA
1 GAACTAGTCTGAGGCATGATACA
33905696 CTTATTGAGT
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
48 57 0.58
49 3 0.03
50 2 0.02
51 37 0.37
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (48 bp):
GAACTAGTCTGAGGCATGATACATGAAGTATGAAACTCAGTGCAAAAT
Found at i:33905645 original size:51 final size:51
Alignment explanation
Indices: 33905517--33905666 Score: 180
Period size: 51 Copynumber: 3.0 Consensus size: 51
33905507 TCGAAGCAAA
* * *
33905517 TGACAACTCGAACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCA--A
1 TGACAACTTGAACTAGTTTGAGGCGTGATACATGAAGTATGAAACTCAGTG
** * * * *
33905566 TG-CAAAATGAACTAGTCTGAGGTGTGATACATGAAGAATGAAACTTAGTG
1 TGACAACTTGAACTAGTTTGAGGCGTGATACATGAAGTATGAAACTCAGTG
* *
33905616 TGACAACTTGAATTAGTTTGAGGCATGATACATGAAGTATGAAACTCAGTG
1 TGACAACTTGAACTAGTTTGAGGCGTGATACATGAAGTATGAAACTCAGTG
33905667 CAAAACGAAC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
48 37 0.46
49 2 0.02
50 2 0.02
51 40 0.49
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (51 bp):
TGACAACTTGAACTAGTTTGAGGCGTGATACATGAAGTATGAAACTCAGTG
Found at i:33905693 original size:99 final size:99
Alignment explanation
Indices: 33905517--33905695 Score: 295
Period size: 99 Copynumber: 1.8 Consensus size: 99
33905507 TCGAAGCAAA
* *
33905517 TGACAACTCGAACTAGTTTGAGGCGTGATACACGAAGTATGAAACTCAATGCAAAATGAACTAGT
1 TGACAACTCGAACTAGTTTGAGGCATGATACACGAAGTATGAAACTCAATGCAAAACGAACTAGT
*
33905582 CTGAGGTGTGATACATGAAGAATGAAACTTAGTG
66 CTGAGGTATGATACATGAAGAATGAAACTTAGTG
* * * *
33905616 TGACAACTTGAATTAGTTTGAGGCATGATACATGAAGTATGAAACTCAGTGCAAAACGAACTAGT
1 TGACAACTCGAACTAGTTTGAGGCATGATACACGAAGTATGAAACTCAATGCAAAACGAACTAGT
33905681 CTGAGGTATGATACA
66 CTGAGGTATGATACA
33905696 CTTATTGAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (99 bp):
TGACAACTCGAACTAGTTTGAGGCATGATACACGAAGTATGAAACTCAATGCAAAACGAACTAGT
CTGAGGTATGATACATGAAGAATGAAACTTAGTG
Found at i:33906225 original size:27 final size:27
Alignment explanation
Indices: 33906169--33906351 Score: 161
Period size: 27 Copynumber: 6.7 Consensus size: 27
33906159 TAAAAAATTG
** * *
33906169 TGTTGAAAATGCAGTTGTTGCATAG-TA
1 TGTTGAAAATTTAGTTGTTACAT-GCCA
*
33906196 TGTTAAAAATTTAGTTGTTACATGCCA
1 TGTTGAAAATTTAGTTGTTACATGCCA
* * * *
33906223 TGTTGAAAATGTAATTGTTACACGTCA
1 TGTTGAAAATTTAGTTGTTACATGCCA
* *
33906250 TGTTGAAAATTTAGTTATTACATGTCA
1 TGTTGAAAATTTAGTTGTTACATGCCA
* * **
33906277 TGCTGACAAATATAGTTGTTACACCCCA
1 TGTTGA-AAATTTAGTTGTTACATGCCA
*** *
33906305 TGTTGTGGATTTAGTTGTTATATGCCA
1 TGTTGAAAATTTAGTTGTTACATGCCA
*
33906332 TGTTGAAAATTTAATTGTTA
1 TGTTGAAAATTTAGTTGTTA
33906352 AATGTTGAAA
Statistics
Matches: 122, Mismatches: 32, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
26 1 0.01
27 101 0.83
28 20 0.16
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TGTTGAAAATTTAGTTGTTACATGCCA
Found at i:33906359 original size:22 final size:23
Alignment explanation
Indices: 33906331--33906373 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
33906321 GTTATATGCC
*
33906331 ATGTTG-AAAATTTAATTGTTAA
1 ATGTTGAAAAATGTAATTGTTAA
33906353 ATGTTGAAAAATGTAATTGTT
1 ATGTTGAAAAATGTAATTGTT
33906374 GTTCGTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (23 bp):
ATGTTGAAAAATGTAATTGTTAA
Found at i:33915992 original size:29 final size:28
Alignment explanation
Indices: 33915944--33916142 Score: 245
Period size: 29 Copynumber: 6.9 Consensus size: 28
33915934 GGCAGCTTTT
** *
33915944 ACATGTTTGAATTTATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
*
33915972 ACATGTGTAGTCTTAATTTAGACAAGAAA
1 ACATGT-TTGTCTTAATTTAGACAAGAAA
* *
33916001 ACATGTTTTGTCTCAATTTAAACAAGAAA
1 ACATG-TTTGTCTTAATTTAGACAAGAAA
*
33916030 ACATGTTTGTTTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
33916058 ACATGTTTTGTCTTAATTTAGACAAGAAA
1 ACATG-TTTGTCTTAATTTAGACAAGAAA
**
33916087 ACATGTTTGTCTCGATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
* * *
33916115 ACATATTTTGTTTTAATTAAAGACAAGA
1 ACAT-GTTTGTCTTAATT-TAGACAAGA
33916143 GTTGTTTTAA
Statistics
Matches: 148, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
28 56 0.38
29 83 0.56
30 9 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:33916089 original size:86 final size:85
Alignment explanation
Indices: 33915944--33916142 Score: 292
Period size: 86 Copynumber: 2.3 Consensus size: 85
33915934 GGCAGCTTTT
*
33915944 ACATGTTTGAATTT-ATTTAGACAAGAAAACATGTGTAGTCTTAATTTAGACAAGAAAACATGTT
1 ACATGTTTG-TTTTAATTTAGACAAGAAAACATGTGTAGTCTTAATTTAGACAAGAAAACATG-T
33916008 TTGTCTCAATTTAAACAAGAAA
64 TTGTCTCAATTTAAACAAGAAA
* *
33916030 ACATGTTTGTTTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTT
1 ACATGTTTGTTTTAATTTAGACAAGAAAACATGTGTAGTCTTAATTTAGACAAGAAAACATGTTT
* *
33916095 GTCTCGATTTAGACAAGAAA
66 GTCTCAATTTAAACAAGAAA
* *
33916115 ACATATTTTGTTTTAATTAAAGACAAGA
1 ACAT-GTTTGTTTTAATT-TAGACAAGA
33916143 GTTGTTTTAA
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
85 28 0.27
86 67 0.65
87 8 0.08
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (85 bp):
ACATGTTTGTTTTAATTTAGACAAGAAAACATGTGTAGTCTTAATTTAGACAAGAAAACATGTTT
GTCTCAATTTAAACAAGAAA
Found at i:33916131 original size:57 final size:57
Alignment explanation
Indices: 33915958--33916142 Score: 271
Period size: 57 Copynumber: 3.2 Consensus size: 57
33915948 GTTTGAATTT
* *
33915958 ATTTAGACAAGAAAACATGTGTAGTCTTAATTTAGACAAGAAAACATGTTTTGTCTCA
1 ATTTAGACAAGAAAACATGT-TTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTA
* *
33916016 ATTTAAACAAGAAAACATGTTTGTTTTAATTTAGACAAGAAAACATGTTTTGTCTTA
1 ATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTA
** * *
33916073 ATTTAGACAAGAAAACATGTTTGTCTCGATTTAGACAAGAAAACATATTTTGTTTTA
1 ATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTA
*
33916130 ATTAAAGACAAGA
1 ATT-TAGACAAGA
33916143 GTTGTTTTAA
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
57 88 0.77
58 27 0.23
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (57 bp):
ATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTA
Found at i:33925192 original size:17 final size:17
Alignment explanation
Indices: 33925172--33925244 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
33925162 TAAAACAACC
*
33925172 AAAAAAATAGCAAAA-AG
1 AAAAAAAAAG-AAAAGAG
33925189 AAAAAAAAAGAAAAGAG
1 AAAAAAAAAGAAAAGAG
* * *
33925206 AAAAGAGAAG-AGAGA-
1 AAAAAAAAAGAAAAGAG
*
33925221 AAAAAAAAAGCAAAGAAG
1 AAAAAAAAAGAAAAG-AG
33925239 AAAAAA
1 AAAAAA
33925245 GAGGACAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.18
16 11 0.24
17 20 0.44
18 6 0.13
ACGTcount: A:0.78, C:0.03, G:0.18, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAGAAAAGAG
Found at i:33925662 original size:5 final size:5
Alignment explanation
Indices: 33925654--33925687 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
33925644 TTTTAGGATT
*
33925654 TTTTA TTTTA TTTTA TTTTA TTTCA TTCTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTT
33925688 ATGAGTAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:33929849 original size:27 final size:27
Alignment explanation
Indices: 33929818--33929983 Score: 98
Period size: 27 Copynumber: 6.1 Consensus size: 27
33929808 AATGTAATTA
33929818 TTATATGTCATGTTAAAAATTTAGTTG
1 TTATATGTCATGTTAAAAATTTAGTTG
* * * *
33929845 TTATATATTATGTTGACAAATGTAGTTG
1 TTATATGTCATGTT-AAAAATTTAGTTG
* * * * * ** *
33929873 TCACATGCCGTATTGTATATTTAGTTG
1 TTATATGTCATGTTAAAAATTTAGTTG
* * * *
33929900 TTACAGGTCATGTTGAAAATTTAATTG
1 TTATATGTCATGTTAAAAATTTAGTTG
* * * *
33929927 TTATACGTCATATTGAAAAATGTAATTG
1 TTATATGTCATGTT-AAAAATTTAGTTG
* * * *
33929955 TTATAAGCCATGTTGAAGATTTAGTTG
1 TTATATGTCATGTTAAAAATTTAGTTG
33929982 TT
1 TT
33929984 GCACGCTATG
Statistics
Matches: 102, Mismatches: 35, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
27 62 0.61
28 40 0.39
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.44
Consensus pattern (27 bp):
TTATATGTCATGTTAAAAATTTAGTTG
Found at i:33929955 original size:28 final size:27
Alignment explanation
Indices: 33929897--33929959 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
33929887 GTATATTTAG
* * * *
33929897 TTGTTACAGGTCATGTTGAAAATTTAA
1 TTGTTATACGTCATATTGAAAATGTAA
33929924 TTGTTATACGTCATATTGAAAAATGTAA
1 TTGTTATACGTCATATTG-AAAATGTAA
33929952 TTGTTATA
1 TTGTTATA
33929960 AGCCATGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (27 bp):
TTGTTATACGTCATATTGAAAATGTAA
Found at i:33929970 original size:28 final size:28
Alignment explanation
Indices: 33929908--33929971 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
33929898 TGTTACAGGT
* * *
33929908 CATGTTG-AAAATTTAATTGTTATACGT
1 CATGTTGAAAAATGTAATTGTTATAAGC
*
33929935 CATATTGAAAAATGTAATTGTTATAAGC
1 CATGTTGAAAAATGTAATTGTTATAAGC
33929963 CATGTTGAA
1 CATGTTGAA
33929972 GATTTAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.39
Consensus pattern (28 bp):
CATGTTGAAAAATGTAATTGTTATAAGC
Found at i:33936759 original size:26 final size:26
Alignment explanation
Indices: 33936699--33936760 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
33936689 ACCATATACC
*
33936699 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
33936725 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
33936751 CATCATCATC
1 CATCATCATC
33936761 TCATATGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.42, G:0.03, T:0.23
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:33937052 original size:130 final size:130
Alignment explanation
Indices: 33936819--33937065 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
33936809 AAGCATCCCC
* * *
33936819 CCCCTTCGCTACGGTGGCATAACATGGTACCTATCAGAGCACTCGGCAAGAGGTGCACTTCACTC
1 CCCCTTCGCTACGGAGGCACAACACGGTACCTATCAGAGCACTCGGCAAGAGGTGCACTTCACTC
33936884 CGAATCACAAAGCAACGGAGCAGTCCCTTCCCTCCTCTTCCAAGCTCTTGGGACGTACCACTCAA
66 CGAATCACAAAGCAACGGAGCAGTCCCTTCCCTCCTCTTCCAAGCTCTTGGGACGTACCACTCAA
33936949 CCCCTTCGCTACGGAGGCGACAA-ACGGTACCTATCAGAGCACTCGGCAAGAGGTGCACTTCACT
1 CCCCTTCGCTACGGAGGC-ACAACACGGTACCTATCAGAGCACTCGGCAAGAGGTGCACTTCACT
* *
33937013 CCGGATCACGAAGCAACGGAGCAGTCCCTTCCCTCCTCTTCCAAGCTCTTGGG
65 CCGAATCACAAAGCAACGGAGCAGTCCCTTCCCTCCTCTTCCAAGCTCTTGGG
33937066 CGGAGAGTCA
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
130 108 0.97
131 3 0.03
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.20
Consensus pattern (130 bp):
CCCCTTCGCTACGGAGGCACAACACGGTACCTATCAGAGCACTCGGCAAGAGGTGCACTTCACTC
CGAATCACAAAGCAACGGAGCAGTCCCTTCCCTCCTCTTCCAAGCTCTTGGGACGTACCACTCAA
Found at i:33937242 original size:33 final size:35
Alignment explanation
Indices: 33937203--33937291 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 35
33937193 GGAGGCAACG
33937203 ACGGCTTATGTGCA-A-CACATAGCCGGGTCAGCA
1 ACGGCTTATGTGCATACCACATAGCCGGGTCAGCA
33937236 ACGGCTTATGTGCACTCTTACTCGCACATAGCCGGGTCAGCA
1 ACGGCTTATGTGCA----TA--C-CACATAGCCGGGTCAGCA
33937278 ACGGCTTATGTGCA
1 ACGGCTTATGTGCA
33937292 CTCCTACTCG
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
33 14 0.30
38 1 0.02
42 32 0.68
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (35 bp):
ACGGCTTATGTGCATACCACATAGCCGGGTCAGCA
Found at i:33937277 original size:42 final size:42
Alignment explanation
Indices: 33937218--33937314 Score: 185
Period size: 42 Copynumber: 2.3 Consensus size: 42
33937208 TTATGTGCAA
*
33937218 CACATAGCCGGGTCAGCAACGGCTTATGTGCACTCTTACTCG
1 CACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCG
33937260 CACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCG
1 CACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCG
33937302 CACATAGCCGGGT
1 CACATAGCCGGGT
33937315 TCAAATCAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.22
Consensus pattern (42 bp):
CACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCG
Found at i:33942231 original size:29 final size:29
Alignment explanation
Indices: 33942194--33942358 Score: 154
Period size: 29 Copynumber: 5.6 Consensus size: 29
33942184 AACAACTTTT
*
33942194 ACATG-TTTGTCTTAATTTAGACAAAAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* *
33942222 ACATGTTTTGTCTCAATTTAAACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
*
33942251 ACATGTTTGTTGTTTGTCTTGATTTAGACAAGAAA
1 ACA----TG-T-TTTGTCTTAATTTAGACAAGAAA
* **
33942286 ACATATTTTGTCTTAATTTAGGTAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* * *
33942315 ACAT-ATTTGTATCAATTTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* *
33942343 ACACGTTTTGTTTTAA
1 ACATGTTTTGTCTTAA
33942359 ATAAAGACAA
Statistics
Matches: 110, Mismatches: 19, Indels: 15
0.76 0.13 0.10
Matches are distributed among these distances:
28 27 0.25
29 55 0.50
30 1 0.01
31 1 0.01
33 2 0.02
34 1 0.01
35 23 0.21
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (29 bp):
ACATGTTTTGTCTTAATTTAGACAAGAAA
Found at i:33942277 original size:64 final size:64
Alignment explanation
Indices: 33942197--33942324 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
33942187 AACTTTTACA
* *
33942197 TGTTTGTCTTAATTTAGACAAAAAAACATGTTTTGTCTCAATTTAAACAAGAAAACATGTTTGT
1 TGTTTGTCTTAATTTAGACAAAAAAACATATTTTGTCTCAATTTAAACAAGAAAACATATTTGT
* * * ***
33942261 TGTTTGTCTTGATTTAGACAAGAAAACATATTTTGTCTTAATTTAGGTAAGAAAACATATTTGT
1 TGTTTGTCTTAATTTAGACAAAAAAACATATTTTGTCTCAATTTAAACAAGAAAACATATTTGT
33942325 ATCAATTTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (64 bp):
TGTTTGTCTTAATTTAGACAAAAAAACATATTTTGTCTCAATTTAAACAAGAAAACATATTTGT
Found at i:33951856 original size:26 final size:26
Alignment explanation
Indices: 33951818--33951879 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
33951808 TTACATATGA
*
33951818 GATGATGACGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
33951844 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
*
33951870 GTTGATGATG
1 GATGATGATG
33951880 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.23, C:0.05, G:0.42, T:0.31
Consensus pattern (26 bp):
GATGATGATGATGGGATGGTGTGCAT
Found at i:33953390 original size:37 final size:40
Alignment explanation
Indices: 33953338--33953429 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
33953328 AAAGCTATTA
* *
33953338 ATTTTTCTTATATGCATAT-ATTTT-TGTAT-AAAAAAAT
1 ATTTTTCTTACATGCATATCATTTTATATATAAAAAAAAT
*
33953375 ATTTTTCTTACATGCATATCTTTTTATATATAAAAAAAAT
1 ATTTTTCTTACATGCATATCATTTTATATATAAAAAAAAT
33953415 ATTTTTCTTACATGC
1 ATTTTTCTTACATGC
33953430 GGTAAACTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 18 0.37
38 4 0.08
39 4 0.08
40 23 0.47
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (40 bp):
ATTTTTCTTACATGCATATCATTTTATATATAAAAAAAAT
Found at i:33963070 original size:45 final size:45
Alignment explanation
Indices: 33962986--33963072 Score: 124
Period size: 47 Copynumber: 1.9 Consensus size: 45
33962976 GGGTGGCCAC
33962986 AGCCCCCAAAATTTTTAAAAGTTTTTATTATATATATATATTAAT
1 AGCCCCCAAAATTTTTAAAAGTTTTTATTATATATATATATTAAT
* *
33963031 AGCCCCTCAAAAATTTTTAGAATTTTTTATT-TAT-TATATATT
1 AGCCCC-C-AAAATTTTTAAAAGTTTTTATTATATATATATATT
33963073 TTTTAATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
45 14 0.37
46 4 0.11
47 20 0.53
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (45 bp):
AGCCCCCAAAATTTTTAAAAGTTTTTATTATATATATATATTAAT
Found at i:33963110 original size:50 final size:49
Alignment explanation
Indices: 33963009--33963137 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 49
33962999 TTTAAAAGTT
* * * * *
33963009 TTTATTATATATATATATTAATAGCCCCTCAAAAATTTTTAGAATTTTTTA
1 TTTATTATATAT-T-TTTTAATGGTCCCTCAAAAATTTATAGAATTATTTA
* *
33963060 TTTATTATATATTTTTTAATGGTCCCTTACAAAATTTATGGAATTATTTA
1 TTTATTATATATTTTTTAATGGTCCCTCA-AAAATTTATAGAATTATTTA
*
33963110 TTTACTATATA-TTTTTAATGGTTCCCTC
1 TTTATTATATATTTTTTAATGG-TCCCTC
33963138 CAAATAGTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 22 0.33
50 33 0.49
51 12 0.18
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (49 bp):
TTTATTATATATTTTTTAATGGTCCCTCAAAAATTTATAGAATTATTTA
Found at i:33963456 original size:16 final size:17
Alignment explanation
Indices: 33963427--33963458 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33963417 TCTTTTTTCC
33963427 ATTTATATTATTTAACT
1 ATTTATATTATTTAACT
33963444 ATTTATA-TATTTAAC
1 ATTTATATTATTTAAC
33963459 CATTGTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATATTATTTAACT
Found at i:33969672 original size:17 final size:17
Alignment explanation
Indices: 33969651--33969691 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
33969641 ATTGATATAC
33969651 GAAAAAAATTTTAGAATT
1 GAAAAAAATTTT-GAATT
33969669 -AAAAAAATTTTGAATT
1 GAAAAAAATTTTGAATT
33969685 GAAAAAA
1 GAAAAAA
33969692 CTTATATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (17 bp):
GAAAAAAATTTTGAATT
Found at i:33978450 original size:254 final size:233
Alignment explanation
Indices: 33978236--33978671 Score: 615
Period size: 234 Copynumber: 1.9 Consensus size: 233
33978226 ACACACGCAC
* *
33978236 AACTATTATGATGCTGACTAGAATTTAAATTGAAGTATAATATAAATTAAAATAATTTATTTATA
1 AACTATTATGATGCTGACTAGAATTTAAATTGAAGTATAATATGAATAAAAATAATTTATTTATA
* * *
33978301 ATATGTACAAATATAAATTATTTATAATTTTTTCCTTTAACTTTTTTCATAAACTTGTCTTTCAA
66 ATATATACAAATATAAATTATTTATAATTTTTTTCTTTAACTTTTTTCATAAACTTATCTTTCAA
* * * * * *
33978366 ATTAAATATGTTGAAATAGAGAATGAATATTCATGAATTAAATATACAGTCAAGATTCATGAATA
131 ATTAAACATGTTGAAATAGAGAATAAATATGCATTAATTAAATATACAATCAAGATTCATAAATA
* *
33978431 TCTTAATACTTCCTTCGTAACGTTACGCATTCATGTGT
196 TCTTAATACTTCCTTCGTAACCTTACGCATGCATGTGT
* * * *
33978469 AACTATTATGATGTTGGCTATAATTTAAATTGAAGTATAATATGAATAAAAATAATTTATTTATG
1 AACTATTATGATGCTGACTAGAATTTAAATTGAAGTATAATATGAATAAAAATAATTTATTTATA
* * *
33978534 ATATATACAAATATAAGTTATTTATAATTTTTTTTCTTTAACTTTTTGT-ATAAACATATGTTTC
66 ATATATACAAATATAAATTATTTATAA-TTTTTTTCTTTAACTTTTT-TCATAAACTTATCTTTC
* * * *
33978598 AAATTAAGCATGTTTAAATAGA-AGATAAATATGCATTAATTAAATATATAATCAAAATTCATAA
129 AAATTAAACATGTTGAAATAGAGA-ATAAATATGCATTAATTAAATATACAATCAAGATTCATAA
33978662 ATATCTTAAT
193 ATATCTTAAT
33978672 GCTTTTTTTT
Statistics
Matches: 178, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
233 85 0.48
234 92 0.52
235 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (233 bp):
AACTATTATGATGCTGACTAGAATTTAAATTGAAGTATAATATGAATAAAAATAATTTATTTATA
ATATATACAAATATAAATTATTTATAATTTTTTTCTTTAACTTTTTTCATAAACTTATCTTTCAA
ATTAAACATGTTGAAATAGAGAATAAATATGCATTAATTAAATATACAATCAAGATTCATAAATA
TCTTAATACTTCCTTCGTAACCTTACGCATGCATGTGT
Found at i:33979252 original size:74 final size:74
Alignment explanation
Indices: 33979174--33979321 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
33979164 GGAAGTAAAT
33979174 GTGAGAGAGGTTGAAATGGATGCTAGAAATAAGAGAAAGCCATGATTTTGAGACAAGTTTTAATT
1 GTGAGAGAGGTTGAAATGGATGCTAGAAATAAGAGAAAGCCATGATTTTGAGACAAGTTTTAATT
33979239 TTAGGAGAG
66 TTAGGAGAG
33979248 GTGAGAGAGGTTGAAATGGATGCTAGAAATAAGAGAAAGCCATGATTTTGAGACAAGTTTTAATT
1 GTGAGAGAGGTTGAAATGGATGCTAGAAATAAGAGAAAGCCATGATTTTGAGACAAGTTTTAATT
33979313 TTAGGAGAG
66 TTAGGAGAG
33979322 TTTTGGTAGG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (74 bp):
GTGAGAGAGGTTGAAATGGATGCTAGAAATAAGAGAAAGCCATGATTTTGAGACAAGTTTTAATT
TTAGGAGAG
Found at i:33980335 original size:22 final size:22
Alignment explanation
Indices: 33980267--33980342 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
33980257 TGTGATTTAA
*
33980267 GCATTATGTGACT-AGTTGTTAGG
1 GCATTGTGTGACTGA-TTGTTA-G
*
33980290 GCATTGCGTGACTGATT-TTCAG
1 GCATTGTGTGACTGATTGTT-AG
*
33980312 GCATTGTGTGACTGATTGATAG
1 GCATTGTGTGACTGATTGTTAG
33980334 GCATTGTGT
1 GCATTGTGT
33980343 TAGTTAGACA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 30 0.65
23 15 0.33
24 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (22 bp):
GCATTGTGTGACTGATTGTTAG
Found at i:33980469 original size:23 final size:23
Alignment explanation
Indices: 33980379--33980483 Score: 104
Period size: 23 Copynumber: 4.6 Consensus size: 23
33980369 TAGTTATTAT
* *
33980379 GTGACTGGTTTGTACAGCATTGC
1 GTGACTGGTTTTTAGAGCATTGC
* ** *
33980402 CTGACTGGTTGATAGGGCATTGC
1 GTGACTGGTTTTTAGAGCATTGC
* * *
33980425 GTGATTGGTTTTTAG-TCGTTGC
1 GTGACTGGTTTTTAGAGCATTGC
*
33980447 GTGAGTGGTTTTTAGAGCATTGC
1 GTGACTGGTTTTTAGAGCATTGC
*
33980470 GTGACTAGTTTTTA
1 GTGACTGGTTTTTA
33980484 ATTATTGCAT
Statistics
Matches: 65, Mismatches: 16, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
22 19 0.29
23 46 0.71
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.40
Consensus pattern (23 bp):
GTGACTGGTTTTTAGAGCATTGC
Found at i:33980490 original size:22 final size:22
Alignment explanation
Indices: 33980351--33980501 Score: 77
Period size: 22 Copynumber: 6.7 Consensus size: 22
33980341 GTTAGTTAGA
* * *
33980351 CATTGTGTGACTGATTTTTAGT
1 CATTGCGTGACTGGTTTTTAAT
* ** * *
33980373 TATTATGTGACTGGTTTGTACAG
1 CATTGCGTGACTGGTTTTTA-AT
* ** **
33980396 CATTGCCTGACTGGTTGATAGGG
1 CATTGCGTGACTGGTTTTTA-AT
* *
33980419 CATTGCGTGATTGGTTTTTAGT
1 CATTGCGTGACTGGTTTTTAAT
* * *
33980441 CGTTGCGTGAGTGGTTTTTAGAG
1 CATTGCGTGACTGGTTTTTA-AT
*
33980464 CATTGCGTGACTAGTTTTTAAT
1 CATTGCGTGACTGGTTTTTAAT
* * *
33980486 TATTGCATAACTGGTT
1 CATTGCGTGACTGGTT
33980502 GCTAGGGCAT
Statistics
Matches: 96, Mismatches: 31, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
22 48 0.50
23 48 0.50
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.43
Consensus pattern (22 bp):
CATTGCGTGACTGGTTTTTAAT
Found at i:33980512 original size:45 final size:45
Alignment explanation
Indices: 33980396--33980525 Score: 109
Period size: 45 Copynumber: 2.9 Consensus size: 45
33980386 GTTTGTACAG
* * * * *
33980396 CATTGCCTGACTGGTTGATAGGGCATTGCGTGATTGGTTTTTAGT
1 CATTGCATAACTGGTTGATAGGGCATTGCGTGACTAGTTTTTAAT
* * * * ** *
33980441 CGTTGCGTGAGTGGTTTTTAGAGCATTGCGTGACTAGTTTTTAAT
1 CATTGCATAACTGGTTGATAGGGCATTGCGTGACTAGTTTTTAAT
* * * *
33980486 TATTGCATAACTGGTTGCTAGGGCATTACATGACTA-TTTT
1 CATTGCATAACTGGTTGATAGGGCATTGCGTGACTAGTTTT
33980526 AAGTCACGTA
Statistics
Matches: 66, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
44 4 0.06
45 62 0.94
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (45 bp):
CATTGCATAACTGGTTGATAGGGCATTGCGTGACTAGTTTTTAAT
Found at i:33980598 original size:22 final size:22
Alignment explanation
Indices: 33980573--33980627 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
33980563 TAAGTCACGT
33980573 AATGCCTAAAAATCAGTCTCGC
1 AATGCCTAAAAATCAGTCTCGC
33980595 AATGCCT-AAAATCAGTCTCGC
1 AATGCCTAAAAATCAGTCTCGC
*
33980616 AATGCTTAAAAA
1 AATGCCTAAAAA
33980628 CCAATAACGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (22 bp):
AATGCCTAAAAATCAGTCTCGC
Found at i:33980603 original size:38 final size:38
Alignment explanation
Indices: 33980525--33980603 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
33980515 ATGACTATTT
* *
33980525 TAAGTCACGTAATGCGTAAAAGCCAATCTCACAATACC
1 TAAGTCACGTAATGCCTAAAAACCAATCTCACAATACC
* * * *
33980563 TAAGTCACGTAATGCCTAAAAATCAGTCTCGCAATGCC
1 TAAGTCACGTAATGCCTAAAAACCAATCTCACAATACC
33980601 TAA
1 TAA
33980604 AATCAGTCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (38 bp):
TAAGTCACGTAATGCCTAAAAACCAATCTCACAATACC
Found at i:33991197 original size:30 final size:30
Alignment explanation
Indices: 33991157--33991233 Score: 111
Period size: 30 Copynumber: 2.5 Consensus size: 30
33991147 ATAGGCAATG
33991157 GCAAGAAGCAGAAGAC-GAGCATTGAAAAGAA
1 GCAA-AAGCAGAAGACAG-GCATTGAAAAGAA
*
33991188 GCAAAAGCAGAAGACAGGCATTGAGAAGAA
1 GCAAAAGCAGAAGACAGGCATTGAAAAGAA
*
33991218 GCAAAAGCAAAAGACA
1 GCAAAAGCAGAAGACA
33991234 AGGAAGAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 38 0.88
31 5 0.12
ACGTcount: A:0.53, C:0.14, G:0.27, T:0.05
Consensus pattern (30 bp):
GCAAAAGCAGAAGACAGGCATTGAAAAGAA
Found at i:33991220 original size:24 final size:24
Alignment explanation
Indices: 33991139--33991220 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
33991129 AAGCAAAAGC
* *
33991139 AGCAGAAGATAGGCAATG-GCAAGA
1 AGCAGAAGACAGGCATTGAG-AAGA
33991163 AGCAGAAGAC-GAGCATTGAAAAGAAGCAAA
1 AGCAGAAGACAG-GCATTG---AGAAG---A
33991193 AGCAGAAGACAGGCATTGAGAAGA
1 AGCAGAAGACAGGCATTGAGAAGA
33991217 AGCA
1 AGCA
33991221 AAAGCAAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
23 1 0.02
24 19 0.40
27 8 0.17
28 1 0.02
30 17 0.36
31 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.30, T:0.07
Consensus pattern (24 bp):
AGCAGAAGACAGGCATTGAGAAGA
Found at i:33991260 original size:23 final size:24
Alignment explanation
Indices: 33991212--33991262 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
33991202 CAGGCATTGA
33991212 GAAGAAGCAAAAGCAAAAGACAAG
1 GAAGAAGCAAAAGCAAAAGACAAG
33991236 GAAGAAG-AAAACGCAAAAGAC-AG
1 GAAGAAGCAAAA-GCAAAAGACAAG
33991259 GAAG
1 GAAG
33991263 TGAGAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.61, C:0.12, G:0.27, T:0.00
Consensus pattern (24 bp):
GAAGAAGCAAAAGCAAAAGACAAG
Found at i:33991270 original size:30 final size:29
Alignment explanation
Indices: 33991183--33991274 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 29
33991173 GAGCATTGAA
* *
33991183 AAGAAGCAAAAGCAGAAGACAGGCATTGAG
1 AAGAAGCAAAAGCAAAAGACAGG-AATGAG
33991213 AAGAAGCAAAAGCAAAAGAC---AA-G-G
1 AAGAAGCAAAAGCAAAAGACAGGAATGAG
33991237 AAGAAG-AAAACGCAAAAGACAGGAAGTGAG
1 AAGAAGCAAAA-GCAAAAGACAGGAA-TGAG
33991267 AAGAAGCA
1 AAGAAGCA
33991275 GAACCAGTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
23 4 0.08
24 16 0.31
25 1 0.02
26 1 0.02
27 2 0.04
29 1 0.02
30 26 0.50
31 1 0.02
ACGTcount: A:0.57, C:0.12, G:0.28, T:0.03
Consensus pattern (29 bp):
AAGAAGCAAAAGCAAAAGACAGGAATGAG
Found at i:33992187 original size:14 final size:13
Alignment explanation
Indices: 33992149--33992188 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
33992139 TTTTTGTGTT
*
33992149 GTGGAATGTTTTG
1 GTGGAATCTTTTG
33992162 GTGGAATCTTTTAG
1 GTGGAATCTTTT-G
*
33992176 GTGGAATTTTTTG
1 GTGGAATCTTTTG
33992189 TGTTGGGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (13 bp):
GTGGAATCTTTTG
Found at i:33993676 original size:23 final size:24
Alignment explanation
Indices: 33993581--33993676 Score: 60
Period size: 23 Copynumber: 4.1 Consensus size: 24
33993571 ATGGTTAATA
* * *
33993581 ATATGTATGAATGATA-TATTAAT
1 ATATATATGAATCATATTATTATT
* *
33993604 ATATATATG-TTCAAATTA--ATT
1 ATATATATGAATCATATTATTATT
*
33993625 ATATATAT-AATAGCATATTATTCTTTT
1 ATATATATGAAT--CATATTA-T-TATT
33993652 ATATATATGAAT-ATATTATTATT
1 ATATATATGAATCATATTATTATT
33993675 AT
1 AT
33993677 TACTATTATA
Statistics
Matches: 55, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
21 11 0.20
22 3 0.05
23 21 0.38
24 1 0.02
25 6 0.11
27 10 0.18
28 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (24 bp):
ATATATATGAATCATATTATTATT
Found at i:34000751 original size:26 final size:26
Alignment explanation
Indices: 34000715--34000784 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
34000705 ACTGACTTTG
*
34000715 GACATTACGTGACTAGTTTTTTATAA
1 GACATTACGTGACTAGTTTTTGATAA
34000741 GACATTACGTGACTAGTTTTTGATAA
1 GACATTACGTGACTAGTTTTTGATAA
* *
34000767 -AGTATTGCGTGACTAGTT
1 GA-CATTACGTGACTAGTT
34000785 GATAGGCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (26 bp):
GACATTACGTGACTAGTTTTTGATAA
Found at i:34000821 original size:23 final size:23
Alignment explanation
Indices: 34000770--34000848 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
34000760 TTGATAAAGT
34000770 ATTGCGTGACTAGTT-G-ATAGGC
1 ATTGCGTGACTAGTTAGTA-AGGC
* *
34000792 ATTGCGTGACTTGTTAGTAAGAC
1 ATTGCGTGACTAGTTAGTAAGGC
*
34000815 ATTGCGTGACTAGTTAGTGAGGC
1 ATTGCGTGACTAGTTAGTAAGGC
*
34000838 ATTGTGTGACT
1 ATTGCGTGACT
34000849 TAGGCATTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 14 0.29
23 34 0.69
24 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (23 bp):
ATTGCGTGACTAGTTAGTAAGGC
Found at i:34000905 original size:22 final size:22
Alignment explanation
Indices: 34000860--34000907 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
34000850 AGGCATTACT
* *
34000860 TAAAAATCAATCATGCAATTCC
1 TAAAAATCAATCACGCAATGCC
* *
34000882 TAAAAATCAGTCACGTAATGCC
1 TAAAAATCAATCACGCAATGCC
34000904 TAAA
1 TAAA
34000908 CCCAATAACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (22 bp):
TAAAAATCAATCACGCAATGCC
Found at i:34000920 original size:21 final size:22
Alignment explanation
Indices: 34000880--34000939 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
34000870 TCATGCAATT
* * *
34000880 CCTAAAAATCAGTCACGTAATG
1 CCTAAAAACCAATAACGTAATG
*
34000902 CCT-AAACCCAATAACGTAATG
1 CCTAAAAACCAATAACGTAATG
*
34000923 TCTAAAAACCAATAACG
1 CCTAAAAACCAATAACG
34000940 CAGTGATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (22 bp):
CCTAAAAACCAATAACGTAATG
Found at i:34000937 original size:22 final size:21
Alignment explanation
Indices: 34000894--34000939 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
34000884 AAAATCAGTC
*
34000894 ACGTAATGCCTAAACCCAATA
1 ACGTAATGCCTAAAACCAATA
*
34000915 ACGTAATGTCTAAAAACCAATA
1 ACGTAATGCCT-AAAACCAATA
34000937 ACG
1 ACG
34000940 CAGTGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.20
Consensus pattern (21 bp):
ACGTAATGCCTAAAACCAATA
Found at i:34000974 original size:22 final size:22
Alignment explanation
Indices: 34000949--34000995 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
34000939 GCAGTGATTA
*
34000949 AGTCACGTAATACTTAAAAATT
1 AGTCACGTAATACTTAAAAACT
*
34000971 AGTCTCGTAATACTTAAAAACT
1 AGTCACGTAATACTTAAAAACT
34000993 AGT
1 AGT
34000996 ATAATCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.32
Consensus pattern (22 bp):
AGTCACGTAATACTTAAAAACT
Found at i:34002995 original size:68 final size:69
Alignment explanation
Indices: 34002880--34003084 Score: 288
Period size: 69 Copynumber: 2.9 Consensus size: 69
34002870 CAACATTATT
34002880 AAGTTTCAGATT-CTTGCTTGGACGACCATTCCTGAGCAATCTGAAGCACAGTTTTCAATCTAAG
1 AAGTTTCA-ATTGCTTGCTT-G--GACCATTCCTGAGCAATCTGAAGCACAGTTTTCAATCTAAG
34002944 AAGTGCTG
62 AAGTGCTG
* * * *
34002952 AA-TTTCAGTTGCTTGCTTGGACCATTCCTCAGCAATCTGAAGCACAGTTTTGAATATAAGAAGT
1 AAGTTTCAATTGCTTGCTTGGACCATTCCTGAGCAATCTGAAGCACAGTTTTCAATCTAAGAAGT
*
34003016 TCTG
66 GCTG
* * *
34003020 AAGTTTCAATTGCTTGCTTGGACCATTCCTGAGCAATCTGAAGCATAGTTTCCAATCGAAGAAGT
1 AAGTTTCAATTGCTTGCTTGGACCATTCCTGAGCAATCTGAAGCACAGTTTTCAATCTAAGAAGT
34003085 ACTTCACTGA
Statistics
Matches: 119, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
68 47 0.39
69 55 0.46
70 3 0.03
71 12 0.10
72 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (69 bp):
AAGTTTCAATTGCTTGCTTGGACCATTCCTGAGCAATCTGAAGCACAGTTTTCAATCTAAGAAGT
GCTG
Found at i:34011770 original size:209 final size:214
Alignment explanation
Indices: 34011400--34011794 Score: 647
Period size: 209 Copynumber: 1.9 Consensus size: 214
34011390 TTTTGAAACA
*
34011400 TGCTGAAGCATAGTATTATTCTCCTTTCTTATGCTTCAAACACTACACATGAATAGTGGTAATTT
1 TGCTGAAGCATAGTATTATTCTCCTTTCTTATGCTTCAAACACTACACATGAATAGTGG--A-TG
*
34011465 GTAAACCACTGTTAGTACGAAAGTGATTGTGTTACCTAACTGAAAGCTAAATGAACACAATAAAA
63 GTAAACCACTGTTAGTACGAAAGTGATTGTGTTACCTAACTGAAAACTAAATGAACACAATAAAA
* * *
34011530 CAAGTTTAGGACTTGGGAAGAATATTTTCCACATGTAGCCCAAGTTG-GAATGCTCCTATAATTT
128 CAAGCTTAGGACTTGGGAAGAATACTTTCCACATGTAGCCCAAGTTGAAAATGCTCCTATAATTT
34011594 AAAAATTCTTGGAGTATGCTTT
193 AAAAATTCTTGGAGTATGCTTT
*
34011616 TGCTGAAGCATAGTATTATTCTCCTTTCTTATGCTTCAAACACTATACATG-A-A-TGG-TGGTA
1 TGCTGAAGCATAGTATTATTCTCCTTTCTTATGCTTCAAACACTACACATGAATAGTGGATGGTA
* * *
34011677 AACCACTGTTAGTATGAAAGTGATTGTGTTACCTAACTGAAAACTTAATGAACACGATAAAACAA
66 AACCACTGTTAGTACGAAAGTGATTGTGTTACCTAACTGAAAACTAAATGAACACAATAAAACAA
34011742 GCTTAGGACTTGGGAAGAATACTTTCCACATGTAGCCCAAGTTGAAAATGCTC
131 GCTTAGGACTTGGGAAGAATACTTTCCACATGTAGCCCAAGTTGAAAATGCTC
34011795 TTCTGAAATG
Statistics
Matches: 169, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
209 107 0.63
210 7 0.04
213 3 0.02
214 1 0.01
215 1 0.01
216 50 0.30
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (214 bp):
TGCTGAAGCATAGTATTATTCTCCTTTCTTATGCTTCAAACACTACACATGAATAGTGGATGGTA
AACCACTGTTAGTACGAAAGTGATTGTGTTACCTAACTGAAAACTAAATGAACACAATAAAACAA
GCTTAGGACTTGGGAAGAATACTTTCCACATGTAGCCCAAGTTGAAAATGCTCCTATAATTTAAA
AATTCTTGGAGTATGCTTT
Found at i:34015534 original size:18 final size:18
Alignment explanation
Indices: 34015513--34015556 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
34015503 AAAAACAATT
34015513 ATAACAAAAAAAATAACA
1 ATAACAAAAAAAATAACA
** *
34015531 ATAACATCAAATATAACA
1 ATAACAAAAAAAATAACA
34015549 A-AACAAAA
1 ATAACAAAA
34015557 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (18 bp):
ATAACAAAAAAAATAACA
Found at i:34015865 original size:92 final size:92
Alignment explanation
Indices: 34015708--34015904 Score: 367
Period size: 92 Copynumber: 2.1 Consensus size: 92
34015698 GTTATGTTTA
34015708 CATGTTTAAACACGATAATATGACTAACACGATTAATTAAAGGTGTTTTAAACATGTTACTCGTA
1 CATGTTTAAACACGATAATATGACTAACACGATTAATTAAAGGTGTTTTAAACATGTTACTCGTA
*
34015773 TCTGACACATTAAGACATGAAAACTTN
66 TCTGACACATTAAGACATGAAAACTTT
34015800 CATGTTTAAACACGATAATATGACTAACACGATTAATTAAAGGTGTTTTAAACATGTTACTCGTA
1 CATGTTTAAACACGATAATATGACTAACACGATTAATTAAAGGTGTTTTAAACATGTTACTCGTA
34015865 TCTGACACATTAAGACATGAAAACTTT
66 TCTGACACATTAAGACATGAAAACTTT
*
34015892 TATGTCTTAAACA
1 CATGT-TTAAACA
34015905 TGTCAAATAT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 95 0.93
93 7 0.07
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (92 bp):
CATGTTTAAACACGATAATATGACTAACACGATTAATTAAAGGTGTTTTAAACATGTTACTCGTA
TCTGACACATTAAGACATGAAAACTTT
Found at i:34018802 original size:2 final size:2
Alignment explanation
Indices: 34018795--34018835 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
34018785 GGAAAAATAC
34018795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34018836 AAACTCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34019726 original size:12 final size:12
Alignment explanation
Indices: 34019705--34019737 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34019695 GTTAGTTTTA
34019705 TATATATATATG
1 TATATATATATG
*
34019717 TATATGTATATG
1 TATATATATATG
34019729 TATATATAT
1 TATATATAT
34019738 GCAAGATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:34021859 original size:15 final size:15
Alignment explanation
Indices: 34021820--34021853 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34021810 GCCGAAAGCC
*
34021820 AAGAAA-AAAGAGAG
1 AAGAAAGAAAGAGAA
34021834 AAGAAAGAAAGAGAA
1 AAGAAAGAAAGAGAA
34021849 AAGAA
1 AAGAA
34021854 GCAAAGGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAAGAGAA
Found at i:34023909 original size:2 final size:2
Alignment explanation
Indices: 34023902--34023927 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34023892 TTATAGCAAC
34023902 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
34023928 CTATCTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34046880 original size:20 final size:20
Alignment explanation
Indices: 34046857--34046894 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34046847 AAAGGTATCT
34046857 TCTAATTTTATTCTTATGCG
1 TCTAATTTTATTCTTATGCG
*
34046877 TCTAATTTTCTTCTTATG
1 TCTAATTTTATTCTTATG
34046895 TAATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (20 bp):
TCTAATTTTATTCTTATGCG
Found at i:34049821 original size:25 final size:25
Alignment explanation
Indices: 34049793--34049853 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
34049783 CTAGTTATAA
*
34049793 AGTAATTGATAAATGTAATTAAAAG
1 AGTAATTGACAAATGTAATTAAAAG
*
34049818 AGTAATTGACAGATGTAATTAAAAG
1 AGTAATTGACAAATGTAATTAAAAG
*
34049843 AATAATTGACA
1 AGTAATTGACA
34049854 GGTGTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (25 bp):
AGTAATTGACAAATGTAATTAAAAG
Found at i:34049822 original size:12 final size:12
Alignment explanation
Indices: 34049807--34049849 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
34049797 ATTGATAAAT
34049807 GTAATTAAAAGA
1 GTAATTAAAAGA
* *
34049819 GTAATTGACAGA
1 GTAATTAAAAGA
34049831 TGTAATTAAAAGA
1 -GTAATTAAAAGA
*
34049844 ATAATT
1 GTAATT
34049850 GACAGGTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.30
Consensus pattern (12 bp):
GTAATTAAAAGA
Found at i:34049837 original size:13 final size:13
Alignment explanation
Indices: 34049794--34049843 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
34049784 TAGTTATAAA
34049794 GTAATTGATAA-AT
1 GTAATTGA-AAGAT
*
34049807 GTAATTAAAAGA-
1 GTAATTGAAAGAT
*
34049819 GTAATTGACAGAT
1 GTAATTGAAAGAT
*
34049832 GTAATTAAAAGA
1 GTAATTGAAAGA
34049844 ATAATTGACA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 12 0.40
13 18 0.60
ACGTcount: A:0.50, C:0.02, G:0.18, T:0.30
Consensus pattern (13 bp):
GTAATTGAAAGAT
Found at i:34051489 original size:31 final size:31
Alignment explanation
Indices: 34051450--34051543 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
34051440 ATGATATATT
34051450 AAAA-ATAATAAAAATATAAGATAATTAATA
1 AAAATATAATAAAAATATAAGATAATTAATA
*** * *
34051480 ATTTTATAATAATAATATAA-TTAATTATATTA
1 AAAATATAATAAAAATATAAGATAATTA-A-TA
34051512 AAAATAT-ATAAAAAT-TAAGATAATTAATA
1 AAAATATAATAAAAATATAAGATAATTAATA
34051541 AAA
1 AAA
34051544 TATTAATTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
29 5 0.10
30 11 0.22
31 28 0.56
32 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
AAAATATAATAAAAATATAAGATAATTAATA
Found at i:34055507 original size:29 final size:29
Alignment explanation
Indices: 34055474--34055538 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
34055464 CTCGTATACC
* *
34055474 TGTTCTCATACACTTTTTTCTCTTGTACT
1 TGTTCACATACACTTTCTTCTCTTGTACT
* * *
34055503 TGTTCACGTACAGTTTCTTCTTTTGTACCT
1 TGTTCACATACACTTTCTTCTCTTGTA-CT
34055533 T-TTCAC
1 TGTTCAC
34055539 GTATACCTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.14, C:0.25, G:0.09, T:0.52
Consensus pattern (29 bp):
TGTTCACATACACTTTCTTCTCTTGTACT
Found at i:34055539 original size:29 final size:29
Alignment explanation
Indices: 34055482--34055541 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
34055472 CCTGTTCTCA
*
34055482 TACACTTTTTTCTCTTGTACTTGTTCACG
1 TACACTTTCTTCTCTTGTACTTGTTCACG
* *
34055511 TACAGTTTCTTCTTTTGTACCTT-TTCACG
1 TACACTTTCTTCTCTTGTA-CTTGTTCACG
34055540 TA
1 TA
34055542 TACCTCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.15, C:0.23, G:0.10, T:0.52
Consensus pattern (29 bp):
TACACTTTCTTCTCTTGTACTTGTTCACG
Found at i:34057054 original size:102 final size:102
Alignment explanation
Indices: 34056794--34057061 Score: 265
Period size: 102 Copynumber: 2.6 Consensus size: 102
34056784 CAGCTACTAA
* * * * *
34056794 CTTTATCGCTTATATTTTGACTGTAATTATATTATAATATTGGTCGCAAGCTTTATCGCTCATTC
1 CTTTATCGCTCATAATTTGGCTGTAATGATATTATATTATTGGTCGCAAGCTTTATCGCTCATTC
* **
34056859 TTTGACTATAATTCACCATTTTTACTTCAGACGCAAG
66 TTTGACCATAATTCACCATTCATACTTCAGACGCAAG
* * * * * * *
34056896 CTTTACCACTCAT-ATGTTGGCTATAATGATATT-TTTCTATTAGTCACAAGCTTTATCGCTTAT
1 CTTTATCGCTCATAAT-TTGGCTGTAATGATATTATAT-TATTGGTCGCAAGCTTTATCGCTCAT
* ** * *
34056959 TCTTTGACCATAATTTATTATTCATATTTCA-ACCGCTAG
64 TCTTTGACCATAATTCACCATTCATACTTCAGA-CGCAAG
* * *
34056998 CTTTATCGCTCATAATTTGGCTGTAATGATGTTATGTTATTGGCCGCAAG-TATTATCGCTCATT
1 CTTTATCGCTCATAATTTGGCTGTAATGATATTATATTATTGGTCGCAAGCT-TTATCGCTCATT
34057062 TCCTGGCCCT
Statistics
Matches: 131, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
101 4 0.03
102 123 0.94
103 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (102 bp):
CTTTATCGCTCATAATTTGGCTGTAATGATATTATATTATTGGTCGCAAGCTTTATCGCTCATTC
TTTGACCATAATTCACCATTCATACTTCAGACGCAAG
Found at i:34058028 original size:18 final size:18
Alignment explanation
Indices: 34058006--34058055 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
34057996 CCTCAACAGC
*
34058006 AGGAATAACCTCAGTGTT
1 AGGAATAACCTCAGTATT
* * *
34058024 GGGAACAACCTCAATATT
1 AGGAATAACCTCAGTATT
*
34058042 AGGAATAGCCTCAG
1 AGGAATAACCTCAG
34058056 CTTGAATAAC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (18 bp):
AGGAATAACCTCAGTATT
Found at i:34060423 original size:3 final size:3
Alignment explanation
Indices: 34060387--34060448 Score: 74
Period size: 3 Copynumber: 20.0 Consensus size: 3
34060377 ATATATTTGT
34060387 TAA TAA -AA -AA TATA TATA TAA TAA CTAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA -TAA T-AA TAA TAA TAA TAA TAA
34060434 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
34060449 ATAAAACTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.07
3 38 0.69
4 13 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:34061598 original size:15 final size:15
Alignment explanation
Indices: 34061577--34061619 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
34061567 GCATTATTGG
*
34061577 CTAAGGTGTTACTGT
1 CTAAGGTGTTACTGC
* *
34061592 TTAAGGTGGTACTGC
1 CTAAGGTGTTACTGC
*
34061607 CCAAGGTGTTACT
1 CTAAGGTGTTACT
34061620 ACTTCAAGTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (15 bp):
CTAAGGTGTTACTGC
Found at i:34061850 original size:35 final size:35
Alignment explanation
Indices: 34061804--34061883 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
34061794 AAAGAACAAC
* * * * *
34061804 TAGAACAAGTGAAATGCTCCTTCACGCAGAATAAT
1 TAGAAAAAGTGAAATGCTACTTAACACAGAATAAG
* *
34061839 TAGAAAAAGTGAAGTGCTACTTAACATAGAATAAG
1 TAGAAAAAGTGAAATGCTACTTAACACAGAATAAG
*
34061874 TAGAATAAGT
1 TAGAAAAAGT
34061884 AGAGCACTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (35 bp):
TAGAAAAAGTGAAATGCTACTTAACACAGAATAAG
Found at i:34062175 original size:29 final size:29
Alignment explanation
Indices: 34062141--34062209 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
34062131 GTTCTCATGC
34062141 ACCTTTTTCTCTTGTA-CTTGTTCATGTAT
1 ACCTTTTTCTCTTGTATCTT-TTCATGTAT
* *
34062170 AGCTTTTTCTTTTGTATCTTTTCATGTAT
1 ACCTTTTTCTCTTGTATCTTTTCATGTAT
34062199 ACCTCTTTTCT
1 ACCT-TTTTCT
34062210 AATACTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.58
Consensus pattern (29 bp):
ACCTTTTTCTCTTGTATCTTTTCATGTAT
Found at i:34065065 original size:8 final size:8
Alignment explanation
Indices: 34065054--34065082 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
34065044 CTTTAACACG
34065054 AAAAAACA
1 AAAAAACA
34065062 AAAAAAC-
1 AAAAAACA
34065069 AAAAAACA
1 AAAAAACA
34065077 AAAAAA
1 AAAAAA
34065083 GAGAAGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:34065072 original size:15 final size:15
Alignment explanation
Indices: 34065054--34065082 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34065044 CTTTAACACG
34065054 AAAAAACAAAAAAAC
1 AAAAAACAAAAAAAC
34065069 AAAAAACAAAAAAA
1 AAAAAACAAAAAAA
34065083 GAGAAGGTAA
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:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAC
Found at i:34067745 original size:10 final size:10
Alignment explanation
Indices: 34067730--34067759 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
34067720 GAAGGGATAG
34067730 AAATGGAGAA
1 AAATGGAGAA
34067740 AAATGGAGAA
1 AAATGGAGAA
*
34067750 AAATGTAGAA
1 AAATGGAGAA
34067760 GAATATACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (10 bp):
AAATGGAGAA
Found at i:34070747 original size:441 final size:438
Alignment explanation
Indices: 34069908--34070764 Score: 1495
Period size: 442 Copynumber: 1.9 Consensus size: 438
34069898 TTTTTTATTT
* * * *
34069908 TTTTTAATATTTTTAACTTAAATTTTTTTATTTAATTATTTCTATTTGTGATTTTGATTTTGAAT
1 TTTTTAATATTTGTAACTTAAATTTTTTTATTTAATAATTTCTATTTCTGATTTTGATTTAGAAT
34069973 TTACCATCTTAGCCATTTTTTTGTTGAAAGTAACAAAACACAGATTTGACTAAGTATCTAAAGTT
66 TTACCATCTTAGCCATTTTTTTGTTGAAAGTAACAAAACACAGATTTGACTAAGTATCTAAAGTT
34070038 AGTTATTACTTATTTATTTAGGAATTACTTTATTGCTTTCCTACAAATTCTTTGTGTTTTTTTTT
131 AGTTATTACTTATTTATTTAGGAATTACTTTATTGCTTTCCTACAAATTCTTTGTGTTTTTTTTT
* *
34070103 TTATTTAGATTCTTGTGAACAATTAAATTTTTTATTCAAAGATTGCTTCTTCGTTGAATTGTTTA
196 TTATTTAGATTCTTGTGAACAATTAAATTTTTTATT-AAAGATTGCTTCTTCATTGAATTATTTA
* *
34070168 TTAATATTGTATTTAATTTTTGTGATTAATTTTAGAGAATTGCTTCCCCATTGAATTGTTTATTG
260 TTAATATTGTATTTAAATTTTGTGATCAATTTTAGAGAATTGCTTCCCCATTGAATTGTTTATTG
34070233 ATAGCCTTAACATTTTTTTAGGAGATTAAGTCCCATTTAGATTTTTGTTATTATATTTGTTAATT
325 ATAGCCTTAACATTTTTTTAGGAGATTAAGTCCCATTTAGATTTTTGTTATTATATTTGTTAATT
34070298 TTTGTTTATTGTTAAATTTATTTAGANGTTTGGTTTATTTACTTATTTTA
390 TTTGTTTATTGTTAAATTTATTTAGA-GTTTGGTTTATTTACTTATTTTA
34070348 TTTTTAATATTTGTAACTTTAAATTTTTGTTATTTAATAATTTCTATTTACT-ATTTTGATTTAG
1 TTTTTAATATTTGTAAC-TTAAATTTTT-TTATTTAATAATTTCTATTT-CTGATTTTGATTTAG
*
34070412 GATTTACCATCTTAGCCATTTTTTTGTTGAAAGTAACAAAACACAGATTTGACTAAGTATCTAAA
63 AATTTACCATCTTAGCCATTTTTTTGTTGAAAGTAACAAAACACAGATTTGACTAAGTATCTAAA
34070477 GTTAGTTATTACTTATTTATTTAGGAATTACTTTATTGCTTTCCTACAAATTCTTTGTGTTTTTT
128 GTTAGTTATTACTTATTTATTTAGGAATTACTTTATTGCTTTCCTACAAATTCTTTGTGTTTTTT
* **
34070542 TTTTTATTTAGATTCTTGTGAACAATTAAGTTTTTTACTT-GGGATTGCTT-TCTCATTGAATTA
193 TTTTTATTTAGATTCTTGTGAACAATTAAATTTTTTA-TTAAAGATTGCTTCT-TCATTGAATTA
* *
34070605 TTTATTGATATTGTATTTAAATTTTGTGATCAATTTTAGGGAATTGCTTCCCCATTGAATTGTTT
256 TTTATTAATATTGTATTTAAATTTTGTGATCAATTTTAGAGAATTGCTTCCCCATTGAATTGTTT
34070670 ATTGATAGCCTTAACATTTTTTTAGGAGATTAAGTCCCATTTAGATTTTTGTTATTATATTTGTT
321 ATTGATAGCCTTAACATTTTTTTAGGAGATTAAGTCCCATTTAGATTTTTGTTATTATATTTGTT
*
34070735 AATTTTTGTTTATTGTTAAGTTTATTTAGA
386 AATTTTTGTTTATTGTTAAATTTATTTAGA
34070765 AATTGAGATT
Statistics
Matches: 397, Mismatches: 15, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
440 17 0.04
441 182 0.46
442 195 0.49
443 3 0.01
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.53
Consensus pattern (438 bp):
TTTTTAATATTTGTAACTTAAATTTTTTTATTTAATAATTTCTATTTCTGATTTTGATTTAGAAT
TTACCATCTTAGCCATTTTTTTGTTGAAAGTAACAAAACACAGATTTGACTAAGTATCTAAAGTT
AGTTATTACTTATTTATTTAGGAATTACTTTATTGCTTTCCTACAAATTCTTTGTGTTTTTTTTT
TTATTTAGATTCTTGTGAACAATTAAATTTTTTATTAAAGATTGCTTCTTCATTGAATTATTTAT
TAATATTGTATTTAAATTTTGTGATCAATTTTAGAGAATTGCTTCCCCATTGAATTGTTTATTGA
TAGCCTTAACATTTTTTTAGGAGATTAAGTCCCATTTAGATTTTTGTTATTATATTTGTTAATTT
TTGTTTATTGTTAAATTTATTTAGAGTTTGGTTTATTTACTTATTTTA
Found at i:34076065 original size:23 final size:23
Alignment explanation
Indices: 34076035--34076079 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
34076025 TACTTGATTT
34076035 TTTTTATTTTTAAAAATAATTAA
1 TTTTTATTTTTAAAAATAATTAA
34076058 TTTTTATTTTTAAAAATAATTA
1 TTTTTATTTTTAAAAATAATTA
34076080 TATAAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTATTTTTAAAAATAATTAA
Found at i:34076847 original size:19 final size:19
Alignment explanation
Indices: 34076823--34076860 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34076813 CAATTTGACT
34076823 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
34076842 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
34076861 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:34090911 original size:18 final size:18
Alignment explanation
Indices: 34090876--34090916 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
34090866 GCAGATTAAG
*
34090876 ATAAA-CAATTGTACAAT
1 ATAAAGCAACTGTACAAT
*
34090893 ATAAAGCAACTGTATAAT
1 ATAAAGCAACTGTACAAT
34090911 ATAAAG
1 ATAAAG
34090917 ATCCTATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (18 bp):
ATAAAGCAACTGTACAAT
Found at i:34092339 original size:340 final size:340
Alignment explanation
Indices: 34091719--34092341 Score: 900
Period size: 340 Copynumber: 1.8 Consensus size: 340
34091709 TATTTTGTTC
** * * *
34091719 AATGAATTAGATGGATGCTTATTAGAATTTAAACATTCATGTACAAAAAAGATGTTTATATACTA
1 AATGAATTAGATGGACACTTATTAGAATTTAAACATTCAAGTACAAAAAAGATATCTATATACTA
* * **
34091784 TAGATTCAGATTGATGCAAAATAAGAGAATATAGATGAAAAATAATATTAAACTGTAATTGATAA
66 TAGATTCAGATTCATGCAAAATAAGAGAATATAAACAAAAAATAATATTAAACTGTAATTGATAA
*
34091849 ATATTAAATGAATCAATCTTATAAGTATTAAAAGTTAGAAATTATTGTTTTCATATATTTTTTAC
131 ATATTAAATGAATCAATCTTATAAGCATTAAAAGTTAGAAATTATTGTTTTCATATATTTTTTAC
34091914 TAAAATAAATAAAAGAAAAAAAGAAAAAAAAACCCTTCAAATGTCAAAAGCAATGTAATTTTGAC
196 TAAAATAAATAAAAGAAAAAAAGAAAAAAAAACCCTTCAAATGTCAAAAGCAATGTAATTTTGAC
*
34091979 ATATGGTGTAAAAAAAATTAATTTAATTAAGAATGGCAAATGTCAATTAATTGACCCAATCAATT
261 ATAAGGTGTAAAAAAAATTAATTTAATTAAGAATGGCAAATGTCAATTAATTGACCCAATCAATT
34092044 ATCCTACTTTTATAT
326 ATCCTACTTTTATAT
* * * *
34092059 AATGAATTAGATGGACATTTATT-GAAATTTAAACATTTAAGTATAAAAGAGATATCTATATACT
1 AATGAATTAGATGGACACTTATTAG-AATTTAAACATTCAAGTACAAAAAAGATATCTATATACT
* * *
34092123 ATAGATTCAGGTTCCTG-AAGAATAAGAGAATATAAACAAAAAATAATATTAAATTGTAATTGAT
65 ATAGATTCAGATTCATGCAA-AATAAGAGAATATAAACAAAAAATAATATTAAACTGTAATTGAT
* * * *
34092187 AAATATTAAATGAATCTATTTTCTAAGCATTAAAAGTTAGAAATTATTGTTTTTA-AGTATTTTT
129 AAATATTAAATGAATCAATCTTATAAGCATTAAAAGTTAGAAATTATTGTTTTCATA-TATTTTT
* *
34092251 TATTAAAATAAAT-AAAGTAAAAAAATAAAAAAAAACCCTTCAAATGTCAACAA-CAACT-T-AT
193 TACTAAAATAAATAAAAG-AAAAAAAGAAAAAAAAACCCTTCAAATGTCAA-AAGCAA-TGTAAT
**
34092312 TTTGGATGTAAGGTGTAAAAAAAATTAATT
255 TTT-GACATAAGGTGTAAAAAAAATTAATT
34092342 AAATAGGAAA
Statistics
Matches: 250, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
339 13 0.05
340 234 0.94
341 3 0.01
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.34
Consensus pattern (340 bp):
AATGAATTAGATGGACACTTATTAGAATTTAAACATTCAAGTACAAAAAAGATATCTATATACTA
TAGATTCAGATTCATGCAAAATAAGAGAATATAAACAAAAAATAATATTAAACTGTAATTGATAA
ATATTAAATGAATCAATCTTATAAGCATTAAAAGTTAGAAATTATTGTTTTCATATATTTTTTAC
TAAAATAAATAAAAGAAAAAAAGAAAAAAAAACCCTTCAAATGTCAAAAGCAATGTAATTTTGAC
ATAAGGTGTAAAAAAAATTAATTTAATTAAGAATGGCAAATGTCAATTAATTGACCCAATCAATT
ATCCTACTTTTATAT
Found at i:34102590 original size:22 final size:22
Alignment explanation
Indices: 34102565--34102623 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
34102555 ATGTGATCAT
* *
34102565 TTTCAAATTTTTTAAGTACAAA
1 TTTCAAATCTTTCAAGTACAAA
* *
34102587 TTTCAAATCTTTCAAGTATAAT
1 TTTCAAATCTTTCAAGTACAAA
*
34102609 TTTCAAAACTTTCAA
1 TTTCAAATCTTTCAA
34102624 ATAATCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.44
Consensus pattern (22 bp):
TTTCAAATCTTTCAAGTACAAA
Found at i:34103167 original size:30 final size:32
Alignment explanation
Indices: 34103127--34103186 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
34103117 ATATTTTAAA
34103127 ATATTAAAATTA-AATTA-TAATAAAATATTC
1 ATATTAAAATTACAATTATTAATAAAATATTC
*
34103157 ATATTTAAATTATCAATTATTAATAAAATA
1 ATATTAAAATTA-CAATTATTAATAAAATA
34103187 AATTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
32 5 0.19
33 10 0.38
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (32 bp):
ATATTAAAATTACAATTATTAATAAAATATTC
Done.