Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 65 of 190
Found at i:18809297 original size:20 final size:20
Alignment explanation
Indices: 18809272--18809311 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18809262 CGTAAAATGA
*
18809272 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
18809292 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
18809312 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:18809301 original size:34 final size:35
Alignment explanation
Indices: 18809257--18809323 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18809247 CAGTAAAATA
*
18809257 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
18809291 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
18809324 CTGGTGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:18810676 original size:2 final size:2
Alignment explanation
Indices: 18810671--18810698 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18810661 GTATTTTGAT
18810671 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
18810699 AAGAGCAGAG
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:18811862 original size:24 final size:24
Alignment explanation
Indices: 18811835--18811880 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
18811825 TGGTTGTTTT
* *
18811835 AGGGTTTTGGTTGTTAAAAAAAAG
1 AGGGTTTTGGGTATTAAAAAAAAG
18811859 AGGGTTTTGGGTATTAAAAAAA
1 AGGGTTTTGGGTATTAAAAAAA
18811881 GTTAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (24 bp):
AGGGTTTTGGGTATTAAAAAAAAG
Found at i:18819794 original size:32 final size:32
Alignment explanation
Indices: 18819753--18819818 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
18819743 GTTAGACCAG
*
18819753 CTGTTGGAATCCCTATAATTAATGATAGAAAT
1 CTGTTGGAATCCCTATAATTAAGGATAGAAAT
18819785 CTGTTGGAATCCCTATAATTAAGGATAGAAAT
1 CTGTTGGAATCCCTATAATTAAGGATAGAAAT
18819817 CT
1 CT
18819819 TACCTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (32 bp):
CTGTTGGAATCCCTATAATTAAGGATAGAAAT
Found at i:18825640 original size:12 final size:13
Alignment explanation
Indices: 18825622--18825663 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
18825612 AGGAAAGATT
18825622 TAATAATAATATA
1 TAATAATAATATA
18825635 -AATAATAACATATA
1 TAATAAT-A-ATATA
18825649 TACATAATAATATA
1 TA-ATAATAATATA
18825663 T
1 T
18825664 TAAAGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:18825655 original size:16 final size:16
Alignment explanation
Indices: 18825630--18825667 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18825620 TTTAATAATA
18825630 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
18825646 ATATACATAATAATAT
1 ATATAAATAATAACAT
18825662 AT-TAAA
1 ATATAAA
18825668 GTTGATGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:18825881 original size:18 final size:17
Alignment explanation
Indices: 18825858--18825982 Score: 73
Period size: 18 Copynumber: 7.2 Consensus size: 17
18825848 TGTTAACACT
18825858 TAAAATAATATTATATAA
1 TAAAATAATATTA-ATAA
18825876 TAAAATAATGCA-T-ATACA
1 TAAAATAAT--ATTAATA-A
*
18825894 TAAAATATTA-T-ATAGA
1 TAAAATAATATTAATA-A
*
18825910 T-AAAT-ATATGAACTAA
1 TAAAATAATATTAA-TAA
*
18825926 TAATAATAATAATAATAA
1 TAA-AATAATATTAATAA
*
18825944 TAATAATAATAATAATAA
1 TAA-AATAATATTAATAA
**
18825962 TAATAATAATAACAATAA
1 TAA-AATAATATTAATAA
18825980 TAA
1 TAA
18825983 TGATAACTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
14 2 0.02
15 4 0.04
16 10 0.11
17 6 0.07
18 62 0.68
19 6 0.07
20 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAATAATATTAATAA
Found at i:18825882 original size:15 final size:15
Alignment explanation
Indices: 18825861--18825999 Score: 86
Period size: 15 Copynumber: 8.7 Consensus size: 15
18825851 TAACACTTAA
18825861 AATAATATTATATAAT
1 AATAATATTA-ATAAT
*
18825877 AA-AATAATGCATATACAT
1 AATAAT-AT-TA-ATA-AT
18825895 AA-AATATTATATAGAT
1 AATAATATTA-ATA-AT
*
18825911 AA-ATATATGAACTAAT
1 AATA-ATATTAA-TAAT
*
18825927 AATAATAATAATAAT
1 AATAATATTAATAAT
*
18825942 AATAATAATAATAAT
1 AATAATATTAATAAT
*
18825957 AATAATAATAATAAT
1 AATAATATTAATAAT
* * *
18825972 AACAATAATAATGAT
1 AATAATATTAATAAT
18825987 AACTTAATATTAA
1 AA--TAATATTAA
18826000 AGTAATTATT
Statistics
Matches: 105, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
15 52 0.50
16 24 0.23
17 22 0.21
18 7 0.07
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (15 bp):
AATAATATTAATAAT
Found at i:18825931 original size:3 final size:3
Alignment explanation
Indices: 18825923--18825988 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
18825913 ATATATGAAC
18825923 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
18825971 TAA CAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA
18825989 CTTAATATTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:18826445 original size:20 final size:20
Alignment explanation
Indices: 18826420--18826475 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
18826410 ACGCATAGAG
*
18826420 AAAGAAAAGGAAAAAAATGA
1 AAAGAAAAGGAAAAAAAAGA
*
18826440 AAAGAAACGGAGAAAAAAAGA
1 AAAGAAAAGGA-AAAAAAAGA
18826461 AAA-ACAAA-GAAAAAA
1 AAAGA-AAAGGAAAAAA
18826476 TGTAAATCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 5 0.16
20 13 0.42
21 13 0.42
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (20 bp):
AAAGAAAAGGAAAAAAAAGA
Found at i:18831012 original size:18 final size:19
Alignment explanation
Indices: 18830986--18831025 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18830976 CAATCAGGGC
* *
18830986 ATTATGGACTTGA-ATTTG
1 ATTAGGGACTTCAGATTTG
18831004 ATTAGGGACTTCAGATTTG
1 ATTAGGGACTTCAGATTTG
18831023 ATT
1 ATT
18831026 GCCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (19 bp):
ATTAGGGACTTCAGATTTG
Found at i:18841689 original size:64 final size:64
Alignment explanation
Indices: 18841606--18841887 Score: 239
Period size: 64 Copynumber: 4.4 Consensus size: 64
18841596 ACATCTACAG
* * *
18841606 AGAAATTCCGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGATAGTAAACACAAAACAA
1 AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACAA
* * * * **
18841670 AGAAAGTCTGCTGGGACAGTAAACACATAATAGATAATCCGTTGGGACAATAAACACAGAATGA
1 AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACAA
* * * *
18841734 AGAAAGT-TCGCTAGGACAGTAAACATAGAATAGATAGTTCGCTGGGACAGTAAACA-AAATACA
1 AGAAAGTCT-GCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAA-ACA
*
18841797 G
64 A
* * * * * ** * * *
18841798 AGATAG-C-CCATGGCTACAGTAAACACATAATAGATAGTTTGCTGGGACAATAAACATAGAACA
1 AGAAAGTCTGC-TGG-GACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACA
18841861 A
64 A
* ** * *
18841862 ATAAAGTCCACCGAGACAGTAAACAC
1 AGAAAGTCTGCTGGGACAGTAAACAC
18841888 GAGGTAAGTC
Statistics
Matches: 174, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
62 1 0.01
63 5 0.03
64 163 0.94
65 4 0.02
66 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (64 bp):
AGAAAGTCTGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACAA
Found at i:18841844 original size:128 final size:128
Alignment explanation
Indices: 18841606--18841858 Score: 316
Period size: 128 Copynumber: 2.0 Consensus size: 128
18841596 ACATCTACAG
* *
18841606 AGAAATTCCGCTGGGACAGTAAACACAGAATAGATAATCCGCTGGGATAGTAAACACAAAACAAA
1 AGAAATTCCGCTAGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACAAA
* *
18841671 GAAAGTCTGCTGGGACAGTAAACACATAATAGATAATCCGTTGGGACAATAAACACAGAATGA
66 GAAAGTCTCCTGGGACAGTAAACACATAATAGATAATCCGCTGGGACAATAAACACAGAATGA
* * *
18841734 AGAAAGTT-CGCTAGGACAGTAAACATAGAATAGATAGTTCGCTGGGACAGTAAACA-AAATACA
1 AGAAA-TTCCGCTAGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAA-ACA
* * * * ** *
18841797 GAGATAG-C-CCATGGCTACAGTAAACACATAATAGATAGTTTGCTGGGACAATAAACATAGAA
64 AAGAAAGTCTCC-TGG-GACAGTAAACACATAATAGATAATCCGCTGGGACAATAAACACAGAA
18841859 CAAATAAAGT
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
126 1 0.01
127 7 0.07
128 97 0.91
129 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (128 bp):
AGAAATTCCGCTAGGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACAAA
GAAAGTCTCCTGGGACAGTAAACACATAATAGATAATCCGCTGGGACAATAAACACAGAATGA
Found at i:18841852 original size:31 final size:31
Alignment explanation
Indices: 18841612--18841858 Score: 192
Period size: 31 Copynumber: 7.8 Consensus size: 31
18841602 ACAGAGAAAT
*
18841612 TCCGCTGGGACAGTAAACACAGAATAGATAA
1 TCCGCTGGGACAGTAAACACAGAATAGATAG
* * * *
18841643 TCCGCTGGGATAGTAAACACAAAACAAAGAAAG
1 TCCGCTGGGACAGTAAACAC-AGA-ATAGATAG
* * *
18841676 TCTGCTGGGACAGTAAACACATAATAGATAA
1 TCCGCTGGGACAGTAAACACAGAATAGATAG
* * *
18841707 TCCGTTGGGACAATAAACACAGAATGAAGAAAG
1 TCCGCTGGGACAGTAAACACAGAAT--AGATAG
* * *
18841740 TTCGCTAGGACAGTAAACATAGAATAGATAG
1 TCCGCTGGGACAGTAAACACAGAATAGATAG
* * * *
18841771 TTCGCTGGGACAGTAAACAAAATACAGAGATAG
1 TCCGCTGGGACAGTAAAC-ACAGA-ATAGATAG
* *
18841804 -CC-CATGGCTACAGTAAACACATAATAGATAG
1 TCCGC-TGG-GACAGTAAACACAGAATAGATAG
** * *
18841835 TTTGCTGGGACAATAAACATAGAA
1 TCCGCTGGGACAGTAAACACAGAA
18841859 CAAATAAAGT
Statistics
Matches: 169, Mismatches: 37, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
31 87 0.51
32 18 0.11
33 64 0.38
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCGCTGGGACAGTAAACACAGAATAGATAG
Found at i:18841880 original size:128 final size:128
Alignment explanation
Indices: 18841619--18841887 Score: 303
Period size: 128 Copynumber: 2.1 Consensus size: 128
18841609 AATTCCGCTG
* *
18841619 GGACAGTAAACACAGAATAGATAATCCGCTGGGATAGTAAACACAAAACAAAGAAAGTCTGCTGG
1 GGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACAAAGAAAGTCTCCTGG
* ** * * *
18841684 GACAGTAAACACATAATAGATAATCCGTTGGGACAATAAACACAGAATGAAGAAAGTTCGCTA
66 GACAGTAAACACATAATAGATAATCCGCTGGGACAATAAACACAGAACAAAGAAAGTCCCCGA
* * * * *
18841747 GGACAGTAAACATAGAATAGATAGTTCGCTGGGACAGTAAACA-AAATACAGAGATAG-C-CCAT
1 GGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAA-ACAAAGAAAGTCTCC-T
* * ** * *
18841809 GGCTACAGTAAACACATAATAGATAGTTTGCTGGGACAATAAACATAGAACAAATAAAGTCCACC
64 GG-GACAGTAAACACATAATAGATAATCCGCTGGGACAATAAACACAGAACAAAGAAAGTCC-CC
18841874 GA
127 GA
18841876 -GACAGTAAACAC
1 GGACAGTAAACAC
18841888 GAGGTAAGTC
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
126 1 0.01
127 7 0.06
128 107 0.91
129 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (128 bp):
GGACAGTAAACACAGAATAGATAATCCGCTGGGACAGTAAACACAAAACAAAGAAAGTCTCCTGG
GACAGTAAACACATAATAGATAATCCGCTGGGACAATAAACACAGAACAAAGAAAGTCCCCGA
Found at i:18841932 original size:28 final size:28
Alignment explanation
Indices: 18841876--18841933 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
18841866 AGTCCACCGA
* *
18841876 GACAGTAAACACGAGGTAAGTCTGTTGG
1 GACAGTAAACACGAGGTAAGTCCGATGG
*
18841904 GACAGTAAGA-ACGGGGTAAGTCCGATGG
1 GACAGTAA-ACACGAGGTAAGTCCGATGG
18841932 GA
1 GA
18841934 TGCAAAGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.17
Consensus pattern (28 bp):
GACAGTAAACACGAGGTAAGTCCGATGG
Found at i:18846972 original size:43 final size:43
Alignment explanation
Indices: 18846887--18846972 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
18846877 GAATCATATA
** *
18846887 TGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTCACTT
1 TGATGCCAATGTCCCAGACATGGTCTTACACATAATCACACTT
18846930 TGATGCCAATGTCCCAGACATGGTCTTACACGA-AATCACACTT
1 TGATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCACACTT
18846973 CGAAAGTCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (43 bp):
TGATGCCAATGTCCCAGACATGGTCTTACACATAATCACACTT
Found at i:18855889 original size:58 final size:57
Alignment explanation
Indices: 18855821--18855965 Score: 188
Period size: 58 Copynumber: 2.6 Consensus size: 57
18855811 CATAGACATC
*
18855821 CTTTTAACAGAGATCGCCACAAAGGCTTCCTTATAAC-AGAGATCGCCAAAAAGGCTT
1 CTTTTAACAGAGATCGCCACAAAGGCTTCCTTAT-ACTAAAGATCGCCAAAAAGGCTT
* * * * *
18855878 CTTTATAACAGAGATCACCAAAAATGCTTCCTTATACTAAAGATTGCCACAAAGGCTT
1 CTTT-TAACAGAGATCGCCACAAAGGCTTCCTTATACTAAAGATCGCCAAAAAGGCTT
*
18855936 CTTTT--CAGAGATAGCCACAAAGGCTTCCTT
1 CTTTTAACAGAGATCGCCACAAAGGCTTCCTT
18855966 TTAGAAATAG
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
55 21 0.28
57 7 0.09
58 48 0.63
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (57 bp):
CTTTTAACAGAGATCGCCACAAAGGCTTCCTTATACTAAAGATCGCCAAAAAGGCTT
Found at i:18855898 original size:29 final size:29
Alignment explanation
Indices: 18855821--18855962 Score: 159
Period size: 29 Copynumber: 5.0 Consensus size: 29
18855811 CATAGACATC
18855821 CTTT-TAACAGAGATCGCCACAAAGGCTT
1 CTTTATAACAGAGATCGCCACAAAGGCTT
* *
18855849 CCTTATAACAGAGATCGCCAAAAAGGCTT
1 CTTTATAACAGAGATCGCCACAAAGGCTT
* * *
18855878 CTTTATAACAGAGATCACCAAAAATGCTT
1 CTTTATAACAGAGATCGCCACAAAGGCTT
* * *
18855907 CCTTAT-ACTAAAGATTGCCACAAAGGCTT
1 CTTTATAAC-AGAGATCGCCACAAAGGCTT
*
18855936 CTTT-T--CAGAGATAGCCACAAAGGCTT
1 CTTTATAACAGAGATCGCCACAAAGGCTT
18855962 C
1 C
18855963 CTTTTAGAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 19 0.19
27 1 0.01
28 6 0.06
29 72 0.73
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (29 bp):
CTTTATAACAGAGATCGCCACAAAGGCTT
Found at i:18855952 original size:26 final size:27
Alignment explanation
Indices: 18855805--18856010 Score: 136
Period size: 29 Copynumber: 7.4 Consensus size: 27
18855795 TTATTGGAGC
* * *
18855805 TAGCCACATAGACATCCTTTTAACAGAGA
1 TAGCCACAAAGGCTTCCTTTT--CAGAGA
* *
18855834 TCGCCACAAAGGCTTCCTTATAACAGAGA
1 TAGCCACAAAGGCTTCCTT-T-TCAGAGA
* *
18855863 TCGCCAAAAAGGCTT-CTTTATAACAGAGA
1 TAGCCACAAAGGCTTCCTTT-T--CAGAGA
* * * *
18855892 TCA-CCAAAAATGCTTCCTTATACTAAAGA
1 T-AGCCACAAAGGCTTCCTT-TTC-AGAGA
*
18855921 TTGCCACAAAGGCTT-CTTTTCAGAGA
1 TAGCCACAAAGGCTTCCTTTTCAGAGA
*
18855947 TAGCCACAAAGGCTTCCTTTT-AGAAA
1 TAGCCACAAAGGCTTCCTTTTCAGAGA
*
18855973 TAGCCACAAAGGCGTT-C-ATTCAGAGA
1 TAGCCACAAAGGC-TTCCTTTTCAGAGA
*
18855999 TAGGCACAAAGG
1 TAGCCACAAAGG
18856011 TCTTTTATAT
Statistics
Matches: 144, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
25 2 0.01
26 51 0.35
27 11 0.08
28 7 0.05
29 68 0.47
30 4 0.03
31 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (27 bp):
TAGCCACAAAGGCTTCCTTTTCAGAGA
Found at i:18858112 original size:15 final size:15
Alignment explanation
Indices: 18858092--18858134 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
18858082 CATCAGTGTA
18858092 TGATATGTGATGATG
1 TGATATGTGATGATG
*
18858107 TGATATATGATGATG
1 TGATATGTGATGATG
18858122 TGATATGTGATGA
1 TGATATGTGATGA
18858135 AGAAGAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (15 bp):
TGATATGTGATGATG
Found at i:18858129 original size:22 final size:22
Alignment explanation
Indices: 18858090--18858132 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18858080 ACCATCAGTG
18858090 TATGATATGTGATGATGTGATA
1 TATGATATGTGATGATGTGATA
18858112 TATGATGATGTGAT-ATGTGAT
1 TATGAT-ATGTGATGATGTGAT
18858133 GAAGAAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (22 bp):
TATGATATGTGATGATGTGATA
Found at i:18861681 original size:15 final size:16
Alignment explanation
Indices: 18861661--18861693 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18861651 AAAACTGAGC
18861661 TATAAAAT-ATTATTT
1 TATAAAATCATTATTT
*
18861676 TATAAATTCATTATTT
1 TATAAAATCATTATTT
18861692 TA
1 TA
18861694 ATACGCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAAAATCATTATTT
Found at i:18869322 original size:18 final size:18
Alignment explanation
Indices: 18869299--18869333 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18869289 AAACAGATGC
*
18869299 CAAAAAAAAATATGTACT
1 CAAAAAAAAAGATGTACT
*
18869317 CAAAAATAAAGATGTAC
1 CAAAAAAAAAGATGTAC
18869334 AAAGAACATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (18 bp):
CAAAAAAAAAGATGTACT
Found at i:18879813 original size:17 final size:18
Alignment explanation
Indices: 18879787--18879825 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
18879777 TTTGATAATT
*
18879787 ATTAAGTGATG-AATTGG
1 ATTAAGTGATGTAATTGA
*
18879804 ATTAATTGATGTAATTGA
1 ATTAAGTGATGTAATTGA
18879822 ATTA
1 ATTA
18879826 CCATGTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (18 bp):
ATTAAGTGATGTAATTGA
Found at i:18882672 original size:24 final size:24
Alignment explanation
Indices: 18882606--18882673 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
18882596 ATAGGCAGGG
* *
18882606 TATTCTGTAAGTTCCTTTATGGCA
1 TATTCTGTAAGTACCTTTGTGGCA
18882630 TATTCTGTAAGTACCTTTGTGGCA
1 TATTCTGTAAGTACCTTTGTGGCA
* *
18882654 TATTCTATAAGTGCCTTTGT
1 TATTCTGTAAGTACCTTTGT
18882674 ATTAAGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.46
Consensus pattern (24 bp):
TATTCTGTAAGTACCTTTGTGGCA
Found at i:18901615 original size:12 final size:12
Alignment explanation
Indices: 18901583--18901616 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18901573 TCGCCCATAT
*
18901583 TAATTTTTAATA
1 TAATTTTTTATA
*
18901595 TTATTTTTTATA
1 TAATTTTTTATA
18901607 TAATTTTTTA
1 TAATTTTTTA
18901617 AAAAAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:18903988 original size:27 final size:27
Alignment explanation
Indices: 18903958--18904029 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
18903948 AACACGTTAG
* * *
18903958 GAAATGAAAGCCTTTTTGGGGAATCAT
1 GAAATGAAAGCCTTTGTCGCGAATCAT
* *
18903985 GAAATGAAAGTCTTTGTCGCGAATCTT
1 GAAATGAAAGCCTTTGTCGCGAATCAT
*
18904012 GGAATGAATAGCCTTTGT
1 GAAATGAA-AGCCTTTGT
18904030 GGCAATCTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 29 0.78
28 8 0.22
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (27 bp):
GAAATGAAAGCCTTTGTCGCGAATCAT
Found at i:18904036 original size:27 final size:26
Alignment explanation
Indices: 18903960--18904043 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 26
18903950 CACGTTAGGA
* * * *
18903960 AATGAAAGCCTTTTTGGGGAATCATGA
1 AATGAAAGCCTTTGT-GGCAATCTTGG
* *
18903987 AATGAAAGTCTTTGTCGCGAATCTTGG
1 AATGAAAGCCTTTGTGGC-AATCTTGG
18904014 AATGAATAGCCTTTGTGGCAATCTCTGG
1 AATGAA-AGCCTTTGTGGCAATCT-TGG
18904042 AA
1 AA
18904044 GGATAGCCCT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.02
27 30 0.65
28 15 0.33
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (26 bp):
AATGAAAGCCTTTGTGGCAATCTTGG
Found at i:18904314 original size:27 final size:27
Alignment explanation
Indices: 18904095--18904316 Score: 225
Period size: 27 Copynumber: 8.2 Consensus size: 27
18904085 GTGAACTTGG
18904095 AAGGAATGGTATTCATGG-AGAACTCTA
1 AAGGAATGGTATTCATGGCA-AACTCTA
* * *
18904122 ATA-GAATGGTACTCATGGTGAAA-TCTG
1 A-AGGAATGGTATTCATGG-CAAACTCTA
*
18904149 AAGGAATGGTATTCATGGCAAACTCAA
1 AAGGAATGGTATTCATGGCAAACTCTA
* *
18904176 AAGGAATGGTATTCATGGCAAACTGTT
1 AAGGAATGGTATTCATGGCAAACTCTA
* * *
18904203 AAGGAATGGTATTCATTGAAAACTCTG
1 AAGGAATGGTATTCATGGCAAACTCTA
* * ** *
18904230 AAGGAATGGTTTTCGTGGTGACCTCTA
1 AAGGAATGGTATTCATGGCAAACTCTA
* *
18904257 AAGGAATGGTACTCATGGCAAACTCTG
1 AAGGAATGGTATTCATGGCAAACTCTA
* * *
18904284 AAGGAATGGTATTCATAGCGAACTTTA
1 AAGGAATGGTATTCATGGCAAACTCTA
18904311 AAGGAA
1 AAGGAA
18904317 AGACATGCAG
Statistics
Matches: 158, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.03
27 150 0.95
28 3 0.02
29 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (27 bp):
AAGGAATGGTATTCATGGCAAACTCTA
Found at i:18906313 original size:18 final size:18
Alignment explanation
Indices: 18906290--18906324 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18906280 CAAGAATAGT
*
18906290 AAGCATCAAAATGGTTTC
1 AAGCATCAAAATAGTTTC
*
18906308 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
18906325 GGTACATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:18919988 original size:39 final size:39
Alignment explanation
Indices: 18919933--18920016 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
18919923 CATGGTACGA
* *
18919933 AAGTGCTATCAAGGGTATCAAAGTACAACAGAGGCACGT
1 AAGTGCGATCAAGGGTACCAAAGTACAACAGAGGCACGT
* *
18919972 AAGTGCGATCAGGGGTACCAAAGTACAACAGGGGCACGT
1 AAGTGCGATCAAGGGTACCAAAGTACAACAGAGGCACGT
18920011 AAGTGC
1 AAGTGC
18920017 TACTAGGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (39 bp):
AAGTGCGATCAAGGGTACCAAAGTACAACAGAGGCACGT
Found at i:18920014 original size:19 final size:19
Alignment explanation
Indices: 18919953--18920014 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
18919943 AAGGGTATCA
*
18919953 AAGTACAACAGAGGCACGT
1 AAGTACAACAGGGGCACGT
* * * **
18919972 AAGTGCGATCAGGGGTACCA
1 AAGTAC-AACAGGGGCACGT
18919992 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
18920011 AAGT
1 AAGT
18920015 GCTACTAGGT
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.37, C:0.19, G:0.31, T:0.13
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:18926453 original size:12 final size:12
Alignment explanation
Indices: 18926422--18926454 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18926412 AAAATTCTAA
18926422 AAATTTTAT-TG
1 AAATTTTATATG
18926433 AAA-TTTATATG
1 AAATTTTATATG
18926444 AAATTTTATAT
1 AAATTTTATAT
18926455 ATTAACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 8 0.40
12 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
AAATTTTATATG
Found at i:18931305 original size:5 final size:6
Alignment explanation
Indices: 18931293--18931333 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
18931283 TAGTATTATA
* *
18931293 TTATTT TTATTT TTATTT TTATTC TCATTT ATTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT -TTATTT TTAT
18931334 ATCCTTAGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:18931497 original size:10 final size:9
Alignment explanation
Indices: 18931477--18931506 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
18931467 CTTTGGTTTA
18931477 TTTTTTATT
1 TTTTTTATT
*
18931486 TTTTTTACT
1 TTTTTTATT
18931495 TTTTTTATT
1 TTTTTTATT
18931504 TTT
1 TTT
18931507 CTCTTTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTATT
Found at i:18934280 original size:14 final size:13
Alignment explanation
Indices: 18934261--18934299 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
18934251 CCAGAAGAGT
18934261 AAATCATTTTCCAG
1 AAATCATTTTCC-G
*
18934275 AAATCATTTTTCG
1 AAATCATTTTCCG
18934288 AAAGTCATTTTC
1 AAA-TCATTTTC
18934300 AGTAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:18934850 original size:2 final size:2
Alignment explanation
Indices: 18934796--18934830 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
18934786 TTCTTCACAA
18934796 AT AT -T 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
18934831 TAACTTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:18951208 original size:16 final size:16
Alignment explanation
Indices: 18951184--18951217 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18951174 TTTAGATCAT
*
18951184 AAATAATAAAATATTA
1 AAATAATAAAAAATTA
*
18951200 AAATTATAAAAAATTA
1 AAATAATAAAAAATTA
18951216 AA
1 AA
18951218 CCATACGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATAAAAAATTA
Found at i:18961709 original size:386 final size:385
Alignment explanation
Indices: 18960997--18961771 Score: 1399
Period size: 386 Copynumber: 2.0 Consensus size: 385
18960987 CATAAAGTAG
* *
18960997 ATTGTATGATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCTGTAAATCATGTCTATCCAAT
1 ATTGTATGATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
*
18961062 AATCGTTCACTAGTCTTTCTTAAACCAAAGTCTCTGCTGGAACTAAATTCTCCCTCGAAAGAGTA
66 AATCGTTCACTAGTCTTTCTTAAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCGAAAGAGTA
18961127 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATCGTTGTGATGAAGA
131 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATCGTTGTGATGAAGA
18961192 AAGGTAGGGTTCATCCTCACGAAATGCTACATCCATACATACATAATATTGTCTAGATGGTGGGT
196 AAGGTAGGGTTCATCCTCACGAAATGCTACATCCATACATACATAATATTGTCTAGATGGTGGGT
*
18961257 GGTAACATTTGTAACCATTCTGTGTGGAAGAGTATCCAATGAAAATACATTTGACTGCACGAGGA
261 GGTAACATTTGTAACCATTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTGCACGAGGA
18961322 TCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
326 TCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
* *
18961382 ATTGTATGATGGCATTTTCTTTCTTGTCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
1 ATTGTATGATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
*
18961447 AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCGAAAGAGTA
66 AATCGTTCACTAGTCTTTCTTAAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCGAAAGAGTA
*
18961512 ACAGAAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATGGTTGTGATGAAG
131 ACAG-AAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATCGTTGTGATGAAG
* *
18961577 AAAGGTAGGGTTCATCCTCACGAAATGTTACATTCATACATACATAATACTT-TCTAGATGGTGG
195 AAAGGTAGGGTTCATCCTCACGAAATGCTACATCCATACATACATAATA-TTGTCTAGATGGTGG
* * *
18961641 GTGGTAACGTTTGTAACCGTTCTGTGTGGGAGAGTATCCAATGAAAACACATTTGACTGCACGAG
259 GTGGTAACATTTGTAACCATTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTGCACGAG
*
18961706 GATCCAGTTTGCTCTCATGTTGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
324 GATCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
18961768 ATTG
1 ATTG
18961772 GGTAATCCGT
Statistics
Matches: 374, Mismatches: 14, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
385 128 0.34
386 244 0.65
387 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (385 bp):
ATTGTATGATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
AATCGTTCACTAGTCTTTCTTAAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCGAAAGAGTA
ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATCGTTGTGATGAAGA
AAGGTAGGGTTCATCCTCACGAAATGCTACATCCATACATACATAATATTGTCTAGATGGTGGGT
GGTAACATTTGTAACCATTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTGCACGAGGA
TCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
Found at i:18970063 original size:27 final size:27
Alignment explanation
Indices: 18970033--18970102 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
18970023 AAAGAAAGTA
* *
18970033 TTTGTGGTGATCTATGAAAAGGAAGCT
1 TTTGTGGTGATCTATGAAAAGGAAACC
**
18970060 TTTGTGGCAATCTATGAAAAGGAAACC
1 TTTGTGGTGATCTATGAAAAGGAAACC
18970087 TTTGTGGTGATCTATG
1 TTTGTGGTGATCTATG
18970103 GAGGAAATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (27 bp):
TTTGTGGTGATCTATGAAAAGGAAACC
Found at i:18972265 original size:15 final size:16
Alignment explanation
Indices: 18972242--18972272 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
18972232 AAGTGAAACG
18972242 AAAGCGATGGTTATGA
1 AAAGCGATGGTTATGA
18972258 AAAG-GATGGTTATGA
1 AAAGCGATGGTTATGA
18972273 GGTATGAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (16 bp):
AAAGCGATGGTTATGA
Found at i:18975447 original size:37 final size:37
Alignment explanation
Indices: 18975397--18975474 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
18975387 GATTTATAGA
* *
18975397 TAAATTGTGAAAATAAGCATCTTTCAATTTTAGGGAC
1 TAAATTGTGAAAATAACCATCTTTCAATTTTAAGGAC
* * * *
18975434 TAAATTGTTAAAATAACCTTTTTTCGATTTTAAGGAC
1 TAAATTGTGAAAATAACCATCTTTCAATTTTAAGGAC
18975471 TAAA
1 TAAA
18975475 ATTGGTAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (37 bp):
TAAATTGTGAAAATAACCATCTTTCAATTTTAAGGAC
Found at i:18976778 original size:15 final size:16
Alignment explanation
Indices: 18976758--18976791 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
18976748 GTACGAAACT
18976758 TTTTAC-TTTAGTTAC
1 TTTTACTTTTAGTTAC
18976773 TTTTACTTTTAGTTAC
1 TTTTACTTTTAGTTAC
18976789 TTT
1 TTT
18976792 AGTAAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTACTTTTAGTTAC
Found at i:18994987 original size:13 final size:13
Alignment explanation
Indices: 18994969--18994993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18994959 TGAAGTGGGT
18994969 TTCAAATTTGGAG
1 TTCAAATTTGGAG
18994982 TTCAAATTTGGA
1 TTCAAATTTGGA
18994994 AGATATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
TTCAAATTTGGAG
Found at i:18998375 original size:2 final size:2
Alignment explanation
Indices: 18998368--18998422 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
18998358 AAAATAATTA
18998368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18998410 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
18998423 CTTCAAGTCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18999820 original size:6 final size:6
Alignment explanation
Indices: 18999809--18999836 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18999799 TTAATTAATT
18999809 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
18999837 TCATTCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:19005763 original size:97 final size:96
Alignment explanation
Indices: 19005635--19006029 Score: 269
Period size: 97 Copynumber: 4.1 Consensus size: 96
19005625 AACTTGTAGC
* * * *
19005635 TTTAATCTGCTGCAACGCCAGAGAAAAAAAATTCGCTTCTTTCAGCTTTAA-TCTGTTCTACTAC
1 TTTAATCTACTGCAACGCCAGAGAAAAAAAATTCGCTGCCTTCAGCTTTAACT-TGTTCCACTAC
*
19005699 AATGCCAAGGAAATAAGATTCGTTGCCTTCTGT
65 AACGCCAAGGAAA-AAGATTCGTTGCCTTCTGT
* * * *
19005732 TTTAATCTATTGCAACGCCAGGGAAATAAAATTCGCTGCCTTCAGCTTTAACTTGTTCCACTGCA
1 TTTAATCTACTGCAACGCCAGAGAAAAAAAATTCGCTGCCTTCAGCTTTAACTTGTTCCACTACA
* * * *
19005797 ACGCTAAGGAAAAAGATTCGCTACCTTCAT-C
66 ACGCCAAGGAAAAAGATTCGTTGCCTTC-TGT
* * *
19005828 TTTAATCTGTCCTACTGCAACGCCA-AGGAAAAAAGATTCGCTGCCTTCAACTTTAA--T-CT-C
1 TTTAA----T-CTACTGCAACGCCAGA-GAAAAAAAATTCGCTGCCTTCAGCTTTAACTTGTTCC
* * * * *
19005888 -CTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGC
60 ACTACAACGCCAAGGAAA-AAGATTCGTTGCCTTCTGT
* * * *
19005925 TTTAATCTGTTCCACTGCAACGCCATG-GAAATAAGATTCGCTGCCTTCAACTTTAA-----TCT
1 TTTAATC---T--ACTGCAACGCCA-GAGAAAAAAAATTCGCTGCCTTCAGCTTTAACTTGTTCC
* * * * * *
19005984 ACTACAACACCAGGGAAAAAGATCCGCTGCCTTCAGC
60 ACTACAACGCCAAGGAAAAAGATTCGTTGCCTTCTGT
19006021 TTTAATCTA
1 TTTAATCTA
19006030 TTCCATTGCA
Statistics
Matches: 251, Mismatches: 28, Indels: 44
0.78 0.09 0.14
Matches are distributed among these distances:
91 1 0.00
92 1 0.00
93 2 0.01
95 2 0.01
96 59 0.24
97 143 0.57
98 2 0.01
99 1 0.00
100 1 0.00
101 39 0.16
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (96 bp):
TTTAATCTACTGCAACGCCAGAGAAAAAAAATTCGCTGCCTTCAGCTTTAACTTGTTCCACTACA
ACGCCAAGGAAAAAGATTCGTTGCCTTCTGT
Found at i:19005831 original size:147 final size:147
Alignment explanation
Indices: 19005644--19006029 Score: 480
Period size: 147 Copynumber: 2.7 Consensus size: 147
19005634 CTTTAATCTG
* * * * * * *
19005644 CTGCAACGCCAGAGAAAAAAAATTCGCTTCTTTCAGCTTTAATCTGTTCTACTACAATGCCAAGG
1 CTGCAACGCCA-AGGAAAAAGATTCGCTACCTTCAACTTTAATCTGTCCTACTACAACGCCAAGG
* * *** *
19005709 AAATAAGATTCGTTGCCTTCTGTTTTAATCTATTGCAACGCCAGGGAAATAAAATTCGCTGCCTT
65 AAAAAAGATTCGCTGCCTTCAACTTTAATCTACTGCAACGCCAGGGAAATAAAATTCGCTGCCTT
19005774 CAGCTTTAA-CTTGTTCCA
130 CAGCTTTAATC-TGTTCCA
* * *
19005792 CTGCAACGCTAAGGAAAAAGATTCGCTACCTTCATCTTTAATCTGTCCTACTGCAACGCCAAGGA
1 CTGCAACGCCAAGGAAAAAGATTCGCTACCTTCAACTTTAATCTGTCCTACTACAACGCCAAGGA
* *
19005857 AAAAAGATTCGCTGCCTTCAACTTTAATCTCCTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
66 AAAAAGATTCGCTGCCTTCAACTTTAATCTACTGCAACGCCAGGGAAATAAAATTCGCTGCCTTC
19005922 AGCTTTAATCTGTTCCA
131 AGCTTTAATCTGTTCCA
* * *
19005939 CTGCAACGCCATGGAAATAAGATTCGCTGCCTTCAACTTTAA----T-CTACTACAACACC-AGG
1 CTGCAACGCCAAGGAAA-AAGATTCGCTACCTTCAACTTTAATCTGTCCTACTACAACGCCAAGG
* * *
19005998 GAAAAAGATCCGCTGCCTTCAGCTTTAATCTA
65 AAAAAAGATTCGCTGCCTTCAACTTTAATCTA
19006030 TTCCATTGCA
Statistics
Matches: 209, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
142 31 0.15
143 11 0.05
144 1 0.00
147 133 0.64
148 33 0.16
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (147 bp):
CTGCAACGCCAAGGAAAAAGATTCGCTACCTTCAACTTTAATCTGTCCTACTACAACGCCAAGGA
AAAAAGATTCGCTGCCTTCAACTTTAATCTACTGCAACGCCAGGGAAATAAAATTCGCTGCCTTC
AGCTTTAATCTGTTCCA
Found at i:19005882 original size:51 final size:50
Alignment explanation
Indices: 19005644--19006054 Score: 388
Period size: 51 Copynumber: 8.4 Consensus size: 50
19005634 CTTTAATCTG
* * * *
19005644 CTGCAACGCC-AGAGAAAAAAAATTCGCTTCTTTCAGCTTTAATCTGTTCTA
1 CTGCAACGCCAAG-GAAAAAAGATTCGCTGCCTTCAGCTTTAATCTG-TCCA
* * * * * *
19005695 CTACAATGCCAAGGAAATAAGATTCGTTGCCTTCTGTTTTAATC--T--A
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCA
* *
19005741 TTGCAACGCCAGGGAAATAAA-ATTCGCTGCCTTCAGCTTTAA-CTTGTTCCA
1 CTGCAACGCCAAGGAAA-AAAGATTCGCTGCCTTCAGCTTTAATC-TG-TCCA
* * *
19005792 CTGCAACGCTAAGG-AAAAAGATTCGCTACCTTCATCTTTAATCTGTCCTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCC-A
*
19005842 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAACTTTAATC--T-C-
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCA
* *
19005888 CTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTG-TCCA
* * *
19005939 CTGCAACGCCATGGAAATAAGATTCGCTGCCTTCAACTTTAATC--T--A
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCA
* * * * *
19005985 CTACAACACC-AGGGAAAAAGATCCGCTGCCTTCAGCTTTAATCTATTCCA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT-GTCCA
*
19006035 TTGCAACGCCAAGGAAAAAA
1 CTGCAACGCCAAGGAAAAAA
19006055 AATTGCCATG
Statistics
Matches: 296, Mismatches: 41, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
45 29 0.10
46 82 0.28
47 2 0.01
48 4 0.01
49 9 0.03
50 46 0.16
51 122 0.41
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (50 bp):
CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCA
Found at i:19014407 original size:24 final size:24
Alignment explanation
Indices: 19014360--19014407 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19014350 GGATCTTAGC
* * *
19014360 TAGCTGCTCTTGCATTTGCGTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
*
19014384 TAGCTGGTCTTGCATCTCCCTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
19014408 AAGTTGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (24 bp):
TAGCTGCTCTTGCATCTCCCTTTG
Found at i:19014574 original size:19 final size:20
Alignment explanation
Indices: 19014550--19014596 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
19014540 TGGTGGACTT
* *
19014550 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
19014569 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
19014589 -AATGCAAA
1 TAATGCAAA
19014597 AAGGCGTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:19016830 original size:16 final size:16
Alignment explanation
Indices: 19016809--19016842 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19016799 TTTTATGATG
* *
19016809 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
19016825 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
19016841 AA
1 AA
19016843 GAAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:19018769 original size:16 final size:17
Alignment explanation
Indices: 19018748--19018788 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
19018738 GGGCCATGTA
19018748 CAGCCCAATATTTTG-C
1 CAGCCCAATATTTTGCC
19018764 CAGCCCAATATTTTGCC
1 CAGCCCAATATTTTGCC
19018781 CAGCCCAA
1 CAGCCCAA
19018789 AACCCATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.24
Consensus pattern (17 bp):
CAGCCCAATATTTTGCC
Found at i:19020964 original size:69 final size:68
Alignment explanation
Indices: 19020832--19020964 Score: 187
Period size: 71 Copynumber: 1.9 Consensus size: 68
19020822 AAACTCAAGT
* *
19020832 TTTAAAACAATCTCGAGAATTAGAAAGATCGTGTCCTAACTTACTGGGTATGATCCTTTTTTCTC
1 TTTAAAACAATCTCGAGAATTAGAAAGATCGTGTCCTAACTTACTGGGCATGATCC-TATTTCTC
19020897 AAAG
65 AAAG
** *
19020901 TTTAAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC-ATTTCT
1 TTTAAAACAATCTCGAGAATT-AG-AAAGATCGTGTCCTAACTTACTGGGCATGATCCTATTTCT
19020965 TTTAAAATCC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
69 23 0.40
70 2 0.04
71 32 0.56
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (68 bp):
TTTAAAACAATCTCGAGAATTAGAAAGATCGTGTCCTAACTTACTGGGCATGATCCTATTTCTCA
AAG
Found at i:19024923 original size:20 final size:19
Alignment explanation
Indices: 19024900--19024937 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
19024890 ACTTTTTCTG
19024900 AAAAATATTATTTTTATTTA
1 AAAAATA-TATTTTTATTTA
*
19024920 AAAATTATATTTTTATTT
1 AAAAATATATTTTTATTT
19024938 TTAAAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AAAAATATATTTTTATTTA
Found at i:19024954 original size:21 final size:21
Alignment explanation
Indices: 19024916--19024955 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19024906 ATTATTTTTA
** *
19024916 TTTAAAAATTATATTTTTATT
1 TTTAAAAAACATACTTTTATT
19024937 TTTAAAAAACATACTTTTA
1 TTTAAAAAACATACTTTTA
19024956 CGTATTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAAAAACATACTTTTATT
Found at i:19025463 original size:19 final size:19
Alignment explanation
Indices: 19025439--19025482 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19025429 TAAAAGCAAC
19025439 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
19025458 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
19025477 ACAACA
1 ACAACA
19025483 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:19028272 original size:95 final size:96
Alignment explanation
Indices: 19028109--19028502 Score: 648
Period size: 95 Copynumber: 4.2 Consensus size: 96
19028099 ATTAAATTAA
* * *
19028109 AAATTAAT-TAATA-TA-ATAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACA
1 AAATTAATATAATAGTACA-AGTACAACAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACA
* *
19028171 TTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
65 GTTTAAACATTAAAGTTAGTTAATTGAAGCCT
19028203 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTCTGTTAAACCACAG
1 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAG
19028267 TTTAAACATTAAAGTTAGTTAATTGAAGCCT
66 TTTAAACATTAAAGTTAGTTAATTGAAGCCT
19028298 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTCTGTTAAACCACAG
1 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAG
*
19028362 TTTAAACATTAAAGTTAGTTAATTGAAGCGT
66 TTTAAACATTAAAGTTAGTTAATTGAAGCCT
19028393 AAATTAATATAATAGTACAA-T-----AGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAG
1 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAG
19028452 TTTAAACATTAAAGTTAGTTAATTGAAGCCT
66 TTTAAACATTAAAGTTAGTTAATTGAAGCCT
19028483 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
19028503 TAGCATAAAT
Statistics
Matches: 289, Mismatches: 7, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
89 14 0.05
90 73 0.25
94 9 0.03
95 169 0.58
96 23 0.08
97 1 0.00
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.29
Consensus pattern (96 bp):
AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAG
TTTAAACATTAAAGTTAGTTAATTGAAGCCT
Found at i:19028461 original size:185 final size:187
Alignment explanation
Indices: 19028109--19028502 Score: 638
Period size: 185 Copynumber: 2.1 Consensus size: 187
19028099 ATTAAATTAA
*
19028109 AAATTAAT-TAATA-TA-ATAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACTACA
1 AAATTAATATAATAGTACA-AGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACCACA
* *
19028171 TTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAGTACAACAGCATA
65 GTTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAGT---A-AGCATA
19028236 AATTAAACAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
126 AATTAAACAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
* *
19028298 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTCTGTTAAACCACAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACCACAG
*
19028362 TTTAAACATTAAAGTTAGTTAATTGAAGCGTAAATTAATATAATAGTACAA-T-AGCATAAATTA
66 TTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAGTAAGCATAAATTA
19028425 AACAAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
131 AAC-AAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
19028483 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
19028503 TAGCATAAAT
Statistics
Matches: 195, Mismatches: 6, Indels: 12
0.92 0.03 0.06
Matches are distributed among these distances:
184 14 0.07
185 74 0.38
189 9 0.05
190 74 0.38
191 23 0.12
192 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.29
Consensus pattern (187 bp):
AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACCACAG
TTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAGTAAGCATAAATTA
AACAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
Found at i:19028698 original size:14 final size:14
Alignment explanation
Indices: 19028672--19028721 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
19028662 TAAGGTCTGG
19028672 TATT-TAATATTTAA
1 TATTATAAT-TTTAA
*
19028686 TATTTTAATTTTAA
1 TATTATAATTTTAA
*
19028700 T-TTATAATTTAAA
1 TATTATAATTTTAA
19028713 TATTATAAT
1 TATTATAAT
19028722 CCAATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 11 0.34
14 17 0.53
15 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATAATTTTAA
Found at i:19028843 original size:17 final size:17
Alignment explanation
Indices: 19028821--19028872 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
19028811 TTTTCTCTAT
*
19028821 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
19028838 TAATATTATATTATTAC
1 TAATATTACATTATTAC
*
19028855 TAATATTACACTATTAC
1 TAATATTACATTATTAC
19028872 T
1 T
19028873 TTGGGAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:19029286 original size:19 final size:19
Alignment explanation
Indices: 19029262--19029323 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
19029252 GGAGAAGGAA
19029262 AATAGAGCGAAAATCATTC
1 AATAGAGCGAAAATCATTC
* * *
19029281 AATAGAGTGAAACA-GATGC
1 AATAGAGCGAAA-ATCATTC
*
19029300 AAATAGAGCTAAAATCATTC
1 -AATAGAGCGAAAATCATTC
19029320 AATA
1 AATA
19029324 ATTTAAAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (19 bp):
AATAGAGCGAAAATCATTC
Found at i:19033529 original size:4 final size:4
Alignment explanation
Indices: 19033520--19033550 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
19033510 ATATTATAAT
19033520 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
19033551 TAGATATTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:19044817 original size:19 final size:21
Alignment explanation
Indices: 19044783--19044823 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
19044773 AAAACAAATA
*
19044783 CCAAAATC-AAATTTAAAGTC
1 CCAAAATCAAAATTAAAAGTC
19044803 CCAAAA-CAAAATTAAAAGTC
1 CCAAAATCAAAATTAAAAGTC
19044823 C
1 C
19044824 AGAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.20
Consensus pattern (21 bp):
CCAAAATCAAAATTAAAAGTC
Found at i:19045118 original size:34 final size:34
Alignment explanation
Indices: 19045048--19045150 Score: 84
Period size: 34 Copynumber: 3.1 Consensus size: 34
19045038 ACATATACAA
* *
19045048 ATATCATATCAGAATGTCCTATTACCAGAAACAT
1 ATATCAAATCAGAATGTACTATTACCAGAAACAT
* * * **
19045082 ATATCAAATTAGAATGTAGTATTTCCAGAATTAT
1 ATATCAAATCAGAATGTACTATTACCAGAAACAT
* * * *
19045116 ATACCATATCAAAATG-ACATATT-CTAGAAACAT
1 ATATCAAATCAGAATGTAC-TATTACCAGAAACAT
19045149 AT
1 AT
19045151 CATATCAAGA
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
33 10 0.19
34 43 0.81
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.32
Consensus pattern (34 bp):
ATATCAAATCAGAATGTACTATTACCAGAAACAT
Found at i:19045158 original size:31 final size:31
Alignment explanation
Indices: 19045048--19045199 Score: 119
Period size: 31 Copynumber: 4.7 Consensus size: 31
19045038 ACATATACAA
* * *
19045048 ATATCATATCAGAATGTCCTATTACCAGAAAC
1 ATATCATATCAAAATGTCATATT-TCAGAAAC
* * * *
19045080 ATATATCAAATTAGAATGT-AGTATTTCCAGAATTAT
1 --ATATCATATCAAAATGTCA-TATTT-CAGAA--AC
* *
19045116 ATACCATATCAAAATGACATA-TTCTAGAAAC
1 ATATCATATCAAAATGTCATATTTC-AGAAAC
*
19045147 ATATCATATCAAGATGTCATATTTCAGAAAC
1 ATATCATATCAAAATGTCATATTTCAGAAAC
*
19045178 ATATCATATCAGAATGTCATAT
1 ATATCATATCAAAATGTCATAT
19045200 CAGATCGAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 17
0.74 0.12 0.13
Matches are distributed among these distances:
31 45 0.47
32 4 0.04
33 6 0.06
34 38 0.40
35 1 0.01
36 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (31 bp):
ATATCATATCAAAATGTCATATTTCAGAAAC
Found at i:19045198 original size:18 final size:18
Alignment explanation
Indices: 19045146--19045201 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
19045136 ATTCTAGAAA
19045146 CATATCATATCA-AGATGT
1 CATATCATATCAGA-ATGT
*
19045164 CATAT--T-TCAGAA--A
1 CATATCATATCAGAATGT
19045177 CATATCATATCAGAATGT
1 CATATCATATCAGAATGT
19045195 CATATCA
1 CATATCA
19045202 GATCGAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 5 0.17
15 5 0.17
16 8 0.27
18 12 0.40
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (18 bp):
CATATCATATCAGAATGT
Found at i:19047341 original size:38 final size:38
Alignment explanation
Indices: 19047269--19047341 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
19047259 AAACTATGTT
* *
19047269 AAAAAAGATATATTAGTGTCAATTAGACTATTTCATTA
1 AAAAAAGATATATTAGTGTCAACTAAACTATTTCATTA
*
19047307 AAAAAAGATATATTAGTGTCAACTAAACTCTTTCA
1 AAAAAAGATATATTAGTGTCAACTAAACTATTTCA
19047342 GTCCTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (38 bp):
AAAAAAGATATATTAGTGTCAACTAAACTATTTCATTA
Found at i:19068135 original size:354 final size:353
Alignment explanation
Indices: 19067445--19068145 Score: 1312
Period size: 354 Copynumber: 2.0 Consensus size: 353
19067435 TTGGCATTAA
* *
19067445 TTTAGCTGAGCCTGTTTTTGGGTCTATTGACATTAATTCGTTGGGTTTGCTTTTGGTTTTTTTGC
1 TTTAGCTGAGCCTGTTTTTGGGTCTATTGACATTAATTCGCTGGGTTTGCTTTTGGATTTTTTGC
19067510 TCTTGAGTTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTA
66 TCTTGAGTTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTA
* *
19067575 CTCAGCTGTCTATGTCATTGCCTTCTACATCTACCAAGGTGTTTGTTTGGTACTTCGACTCTGGT
131 CTCAGCTGTCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGT
*
19067640 GCCACTAACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTGAATATTTAGGTAAAAT
196 GCCACCAACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTGAATATTTAGGTAAAAT
*
19067705 TCCTCTACTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCGCTATTTCTA
261 TCCTCTACTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCACTATTTCTA
19067770 TTTCTCGTAAATTGTTGCATTTGACTAC
326 TTTCTCGTAAATTGTTGCATTTGACTAC
* *
19067798 TTTAGCTGGGCCTGTTTTTGGGTTTATTGACATTAATTCGGCTGGGTTTGCTTTTGGATTTTTTG
1 TTTAGCTGAGCCTGTTTTTGGGTCTATTGACATTAATTC-GCTGGGTTTGCTTTTGGATTTTTTG
19067863 CTCTTGAGTTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCT
65 CTCTTGAGTTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCT
19067928 ACTCAGCTGTCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGG
130 ACTCAGCTGTCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGG
19067993 TGCCACCAACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTGAATATTTAGGTAAAA
195 TGCCACCAACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTGAATATTTAGGTAAAA
*
19068058 TTCCTCTACTTATGGGTGATGGTACTTGTGTTCATTTTGTGCGTTTGGGTCATAGCACTATTTCT
260 TTCCTCTACTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCACTATTTCT
19068123 ATTTCTCGTAAATTGTTGCATTT
325 ATTTCTCGTAAATTGTTGCATTT
19068146 AACAAATGTG
Statistics
Matches: 338, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
353 37 0.11
354 301 0.89
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.42
Consensus pattern (353 bp):
TTTAGCTGAGCCTGTTTTTGGGTCTATTGACATTAATTCGCTGGGTTTGCTTTTGGATTTTTTGC
TCTTGAGTTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTA
CTCAGCTGTCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGT
GCCACCAACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTGAATATTTAGGTAAAAT
TCCTCTACTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCACTATTTCTA
TTTCTCGTAAATTGTTGCATTTGACTAC
Found at i:19071040 original size:71 final size:71
Alignment explanation
Indices: 19070924--19071068 Score: 256
Period size: 71 Copynumber: 2.0 Consensus size: 71
19070914 TCACTAAACC
*
19070924 ATTATCCTCATCGCCTTTTTGCCATTTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
1 ATTATCCTCATCACCTTTTTGCCATTTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
19070989 GTGAAT
66 GTGAAT
*
19070995 ATTATCCTCATCACCTTTTTGCCGA-TTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATG
1 ATTATCCTCATCACCTTTTTGCC-ATTTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATG
19071059 GGTGAAT
65 GGTGAAT
19071066 ATT
1 ATT
19071069 TGAGTTAGTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
71 70 0.99
72 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (71 bp):
ATTATCCTCATCACCTTTTTGCCATTTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
GTGAAT
Found at i:19074945 original size:15 final size:16
Alignment explanation
Indices: 19074917--19074949 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19074907 AATAGATGTT
*
19074917 ATAATATAATTTTAAA
1 ATAATATAAATTTAAA
19074933 ATAA-ATAAATTTAAA
1 ATAATATAAATTTAAA
19074948 AT
1 AT
19074950 TGAATTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATATAAATTTAAA
Found at i:19085489 original size:13 final size:13
Alignment explanation
Indices: 19085465--19085544 Score: 70
Period size: 13 Copynumber: 6.2 Consensus size: 13
19085455 AGTTTAGCCT
*
19085465 TGCTTTTGAAAAG
1 TGCTTTTAAAAAG
*
19085478 TACTTTTAAAAAG
1 TGCTTTTAAAAAG
* **
19085491 TGCTGTGGAAAAG
1 TGCTTTTAAAAAG
19085504 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* * **
19085517 TGATGTGGAAAAG
1 TGCTTTTAAAAAG
*
19085530 TGTTTTTAAAAAG
1 TGCTTTTAAAAAG
19085543 TG
1 TG
19085545 TTGTGGAAAA
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:19085494 original size:26 final size:26
Alignment explanation
Indices: 19085465--19085582 Score: 121
Period size: 26 Copynumber: 4.5 Consensus size: 26
19085455 AGTTTAGCCT
*
19085465 TGCTTTTGAAAAGTACTTTTAAAAAG
1 TGCTTTGGAAAAGTACTTTTAAAAAG
* *
19085491 TGCTGTGGAAAAGTGCTTTTAAAAAG
1 TGCTTTGGAAAAGTACTTTTAAAAAG
* * **
19085517 TGATGTGGAAAAGTGTTTTTAAAAAG
1 TGCTTTGGAAAAGTACTTTTAAAAAG
* *
19085543 TG-TTGTGGAAAAGTACTTTTGACAAG
1 TGCTT-TGGAAAAGTACTTTTAAAAAG
* *
19085569 TACTTTTGAAAAGT
1 TGCTTTGGAAAAGT
19085583 TTGGTTTACG
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.01
26 75 0.96
27 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCTTTGGAAAAGTACTTTTAAAAAG
Found at i:19085554 original size:13 final size:13
Alignment explanation
Indices: 19085486--19085556 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
19085476 AGTACTTTTA
*
19085486 AAAAGTGCTGTGG
1 AAAAGTGTTGTGG
**
19085499 AAAAGTGCTT-TTA
1 AAAAGTG-TTGTGG
*
19085512 AAAAGTGATGTGG
1 AAAAGTGTTGTGG
* **
19085525 AAAAGTGTTTTTA
1 AAAAGTGTTGTGG
19085538 AAAAGTGTTGTGG
1 AAAAGTGTTGTGG
19085551 AAAAGT
1 AAAAGT
19085557 ACTTTTGACA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
12 1 0.02
13 41 0.95
14 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (13 bp):
AAAAGTGTTGTGG
Found at i:19085569 original size:13 final size:13
Alignment explanation
Indices: 19085550--19085582 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19085540 AAGTGTTGTG
19085550 GAAAAGTACTTTT
1 GAAAAGTACTTTT
*
19085563 GACAAGTACTTTT
1 GAAAAGTACTTTT
19085576 GAAAAGT
1 GAAAAGT
19085583 TTGGTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (13 bp):
GAAAAGTACTTTT
Found at i:19085580 original size:52 final size:53
Alignment explanation
Indices: 19085467--19085582 Score: 146
Period size: 52 Copynumber: 2.2 Consensus size: 53
19085457 TTTAGCCTTG
*
19085467 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAAAGTGA
1 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTACTTTTAAAAAGTGA
* * ** * * *
19085520 -TGTGGAAAAGTGTTTTTAAAAAGTGTTGTGGAAAAGTACTTTTGACAAGT-A
1 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTACTTTTAAAAAGTGA
19085571 CTTTTGAAAAGT
1 CTTTTGAAAAGT
19085583 TTGGTTTACG
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
51 1 0.02
52 51 0.98
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.35
Consensus pattern (53 bp):
CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTACTTTTAAAAAGTGA
Found at i:19088093 original size:20 final size:20
Alignment explanation
Indices: 19088070--19088121 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
19088060 TAGTGAGCAT
*
19088070 CAAAATGCTAACAGAGGCAC
1 CAAAATGCAAACAGAGGCAC
*
19088090 CAAAGTGCAAACAGAGGCAC
1 CAAAATGCAAACAGAGGCAC
*
19088110 CAAAGTGCAAAC
1 CAAAATGCAAAC
19088122 CCGTACAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.08
Consensus pattern (20 bp):
CAAAATGCAAACAGAGGCAC
Found at i:19092537 original size:23 final size:21
Alignment explanation
Indices: 19092502--19092544 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
19092492 AGCGTTTACA
19092502 TTTTTTGTTAATTTGACCCTT
1 TTTTTTGTTAATTTGACCCTT
*
19092523 TTTTTTAGTTGAATTTGGCCCT
1 TTTTTT-GTT-AATTTGACCCT
19092545 CGAGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (21 bp):
TTTTTTGTTAATTTGACCCTT
Found at i:19092757 original size:17 final size:16
Alignment explanation
Indices: 19092714--19092754 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
19092704 TATATTTTTG
*
19092714 AATTTTAATTTTGATT
1 AATTTTAATTTTGATA
*
19092730 AATTTTGAATTTTTATA
1 AATTTT-AATTTTGATA
19092747 AATTTTAA
1 AATTTTAA
19092755 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
AATTTTAATTTTGATA
Found at i:19092765 original size:39 final size:38
Alignment explanation
Indices: 19092693--19092767 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
19092683 TCCTAATTTT
* *
19092693 TTTTGAATTTTTATATTTTTGAATTTTAATTTTGATTAA
1 TTTTGAATTTTTATAATTTTAAATTTT-ATTTTGATTAA
19092732 TTTTGAATTTTTATAAATTTTAAATTATT-TTTTGAT
1 TTTTGAATTTTTAT-AATTTTAAATT-TTATTTTGAT
19092768 GTGACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 21 0.66
40 9 0.28
41 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (38 bp):
TTTTGAATTTTTATAATTTTAAATTTTATTTTGATTAA
Found at i:19093718 original size:218 final size:218
Alignment explanation
Indices: 19093340--19093775 Score: 811
Period size: 218 Copynumber: 2.0 Consensus size: 218
19093330 ATTCTAATTT
** *
19093340 TCCCCAAAATGGAATTAGGCCAAAATACTAGTGTGATAAAAATTTAAAAGAATATCCATTTATTC
1 TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
19093405 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
66 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
*
19093470 ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGTGAAATCAATGCGTCACATCCAATACGTT
131 ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGAGAAATCAATGCGTCACATCCAATACGTT
19093535 AGGACACAACGTGTTGAATTCCC
196 AGGACACAACGTGTTGAATTCCC
19093558 TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
1 TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
19093623 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
66 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
19093688 ATTT-TCTTTATTATTTTTTTAAAAATATTCATTTCGAGAAATCAATGCGTCACATCCAATACGT
131 ATTTCT-TTTATTATTTTTTTAAAAATATTCATTTCGAGAAATCAATGCGTCACATCCAATACGT
*
19093752 TAGGACACAATGTGTTGAATTCCC
195 TAGGACACAACGTGTTGAATTCCC
19093776 AATAATGAGT
Statistics
Matches: 212, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
217 1 0.00
218 211 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (218 bp):
TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGAGAAATCAATGCGTCACATCCAATACGTT
AGGACACAACGTGTTGAATTCCC
Found at i:19094401 original size:23 final size:24
Alignment explanation
Indices: 19094369--19094431 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
19094359 TATGTATACT
*
19094369 AAAATAAAT-ATATACATATAGATA
1 AAAATAAATAAT-TACATATAAATA
19094393 AAAAT-AATAATTACATATAAATAA
1 AAAATAAATAATTACATATAAAT-A
*
19094417 ATAAAAAAATAATTA
1 A-AAATAAATAATTA
19094432 TATTATACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 13 0.39
24 9 0.27
25 3 0.09
26 8 0.24
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATAAATAATTACATATAAATA
Found at i:19095444 original size:21 final size:21
Alignment explanation
Indices: 19095419--19095461 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19095409 TCCCACTACA
*
19095419 TAGTGCGAGCATAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
19095440 TAGTGCGAGCAGAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
19095461 T
1 T
19095462 GTATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (21 bp):
TAGTGCGAGCAGAATTCTAGT
Found at i:19099613 original size:54 final size:54
Alignment explanation
Indices: 19099456--19099601 Score: 222
Period size: 54 Copynumber: 2.7 Consensus size: 54
19099446 GTTAAGGAGT
* * *
19099456 CAAATGTCCAATGATTTCTTGAGAAGAGTTCCATATCGTTATTCTTATTCGAGC
1 CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCGTGATTCTTATTCGAGC
** *
19099510 CAAACATCCAATGATTTCTT-AAGAAGAGATCCATATCGTGATTCCTATTCGAGC
1 CAAATGTCCAATGATTTCTTGAA-AAGAGATCCATATCGTGATTCTTATTCGAGC
19099564 CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCG
1 CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCG
19099602 AGATGTTTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 79 0.96
55 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (54 bp):
CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCGTGATTCTTATTCGAGC
Found at i:19109396 original size:50 final size:50
Alignment explanation
Indices: 19109267--19109502 Score: 251
Period size: 50 Copynumber: 4.7 Consensus size: 50
19109257 GATAATAACA
* ** * *
19109267 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * * * ** *
19109316 TACCAATGTCATATCCCAGATATGGCCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
19109366 TGCCCATGCCATGTCCCAGAGATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
19109416 TGCCAACGCCATGTCCTAGACATGATCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
19109466 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
19109503 TCTTTTTACC
Statistics
Matches: 154, Mismatches: 31, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 116 0.75
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19114904 original size:50 final size:50
Alignment explanation
Indices: 19114825--19114949 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 50
19114815 TAACCCAGAT
** * * *
19114825 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
** * *
19114875 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
*
19114925 ATGGTATTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
19114950 ACCTCAATGA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
Found at i:19120481 original size:50 final size:50
Alignment explanation
Indices: 19120409--19120533 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
19120399 TATCCCAGAT
* ** * * *
19120409 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGT-CTCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATGTCCT-AGAC
* * *
19120459 ATGGTCTTCCGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATGTCCTAGAC
*
19120509 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACAGGGGACCTCTCATA
19120534 ATCTCACTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 59 0.97
51 2 0.03
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATGTCCTAGAC
Found at i:19127382 original size:26 final size:26
Alignment explanation
Indices: 19127268--19127383 Score: 101
Period size: 26 Copynumber: 4.5 Consensus size: 26
19127258 ACACACCAGA
* *
19127268 AAATAGAAGCCTTTGTGGCGTATCTT
1 AAATAGAAGCCTTTGTGGCATATCTG
* *
19127294 AAATAGAAGCCTTTGTGGAAAATCTG
1 AAATAGAAGCCTTTGTGGCATATCTG
* * * ** *
19127320 AAATGGAAGCCTGTCTAACGTATCTG
1 AAATAGAAGCCTTTGTGGCATATCTG
*
19127346 -AA-AGATAGCCTTTGTGGCATATTTG
1 AAATAGA-AGCCTTTGTGGCATATCTG
*
19127371 AAATAGGAGCCTT
1 AAATAGAAGCCTT
19127384 CGCGGCATTC
Statistics
Matches: 67, Mismatches: 20, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
24 2 0.03
25 15 0.22
26 48 0.72
27 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (26 bp):
AAATAGAAGCCTTTGTGGCATATCTG
Found at i:19132818 original size:11 final size:11
Alignment explanation
Indices: 19132804--19132833 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19132794 GCTAACGATG
19132804 TGAATATGCAA
1 TGAATATGCAA
*
19132815 TGAATATGCAG
1 TGAATATGCAA
19132826 TGAATATG
1 TGAATATG
19132834 TATGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (11 bp):
TGAATATGCAA
Found at i:19134321 original size:46 final size:46
Alignment explanation
Indices: 19134241--19134403 Score: 146
Period size: 46 Copynumber: 3.5 Consensus size: 46
19134231 GGGTGTTATA
* * * *
19134241 TTACAAACTTAAGAATACAGGAATAGGTTTCGAGCTCCTACGTATG
1 TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
* * * * *
19134287 TTGCGGACTCAAGAATACATGAATAGGTTCCGAGCTCCTGCATATG
1 TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
** * * ** *
19134333 TTACGAACTTGAGAATACAAAAATAGGTTTTGAGCTCCTGTATAAG
1 TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
** * *
19134379 TTGTGAACTCGAGAATACAATAATA
1 TTACGAACTCAAGAATACAAGAATA
19134404 TTAAGCCATG
Statistics
Matches: 95, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (46 bp):
TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
Found at i:19145536 original size:19 final size:19
Alignment explanation
Indices: 19145512--19145550 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19145502 CCTAAGGGTA
19145512 AACAATTCAATAATCCTAT
1 AACAATTCAATAATCCTAT
19145531 AACAATTCAATAATCCTAT
1 AACAATTCAATAATCCTAT
19145550 A
1 A
19145551 CGGTTCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (19 bp):
AACAATTCAATAATCCTAT
Found at i:19147318 original size:50 final size:50
Alignment explanation
Indices: 19147223--19147318 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
19147213 TGTACTGCAA
* * ** *
19147223 ATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAGTGCCC
1 ATGCCATATCCCAGACATGGTCTTACAGAGGACCTCTCAGATCAGTGCCC
* * * *
19147273 ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAGCTCAGT
1 ATGCCATATCCCAGACATGGTCTTACAGAGGACCTCTCAGATCAGT
19147319 ACCAACACCA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 37 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGCCATATCCCAGACATGGTCTTACAGAGGACCTCTCAGATCAGTGCCC
Found at i:19150922 original size:68 final size:68
Alignment explanation
Indices: 19150778--19150953 Score: 199
Period size: 68 Copynumber: 2.6 Consensus size: 68
19150768 AGCCTATAAG
* ** * ** *
19150778 AGTGTAAGACCATAGCTAGGCTATGGCAATATATAAAGTCCTCCAGGATAGTAAACATGGCACCA
1 AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTCAACCAGGATAGTAAACATGACACCA
19150843 TAT
66 TAT
* * **
19150846 AGTGTAAGACCAAAGCTGGGCTATGACAACGTATGAAGTCAACCAGGATAGTAAACATGACTTCA
1 AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTCAACCAGGATAGTAAACATGACACCA
*
19150911 TCT
66 TAT
* * * **
19150914 ATTTTAAGACCATAGTTGCACTATGGCAACGTATGAAGTC
1 AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTC
19150954 CTCCACGACA
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 89 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (68 bp):
AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTCAACCAGGATAGTAAACATGACACCA
TAT
Found at i:19154052 original size:18 final size:18
Alignment explanation
Indices: 19154029--19154067 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19154019 GGTATGTGAA
* *
19154029 CCACACGGGCGTGTGGGC
1 CCACACAGGCATGTGGGC
19154047 CCACACAGGCATGTGGGC
1 CCACACAGGCATGTGGGC
19154065 CCA
1 CCA
19154068 TAACTCTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.36, T:0.10
Consensus pattern (18 bp):
CCACACAGGCATGTGGGC
Found at i:19158758 original size:24 final size:24
Alignment explanation
Indices: 19158726--19158777 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
19158716 ATGGCACTAC
19158726 AAATGTAAAGGATGAATTGACAGA
1 AAATGTAAAGGATGAATTGACAGA
* *
19158750 AAATGTAAATGATGAATTGACGGA
1 AAATGTAAAGGATGAATTGACAGA
19158774 AAAT
1 AAAT
19158778 TACCCAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.23, T:0.23
Consensus pattern (24 bp):
AAATGTAAAGGATGAATTGACAGA
Found at i:19158870 original size:21 final size:21
Alignment explanation
Indices: 19158846--19158913 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
19158836 AGCTCTCACA
19158846 AGCTTCCATTCAGCTCTTTTG
1 AGCTTCCATTCAGCTCTTTTG
* * *
19158867 AGCTT-CAGTTTAACCCTTATTG
1 AGCTTCCA-TTCAGCTCTT-TTG
*
19158889 -GTTTCCATTCAGCTCTTTTG
1 AGCTTCCATTCAGCTCTTTTG
19158909 AGCTT
1 AGCTT
19158914 TAGTTTAACC
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (21 bp):
AGCTTCCATTCAGCTCTTTTG
Found at i:19158908 original size:42 final size:42
Alignment explanation
Indices: 19158849--19158998 Score: 174
Period size: 42 Copynumber: 3.6 Consensus size: 42
19158839 TCTCACAAGC
* *
19158849 TTCCATTCAGCTCTTTTGAGCTTCAGTTTAACCCTTATTGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * *
19158891 TTCCATTCAGCTCTTTTGAGCTTTAGTTTAACCCCTATGGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
** ** * *
19158933 TTCTGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * *
19158975 TTCCGTTTAGCTCTCATGAGCTTC
1 TTCCATTCAGCTCTTATGAGCTTC
19158999 TGTTCCCTTC
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (42 bp):
TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:19162317 original size:98 final size:98
Alignment explanation
Indices: 19162143--19162337 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
19162133 ATACAATAAA
19162143 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
1 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
* *
19162208 CCTTTAGAATCCCAAACTCGGAATATTTCCTTC
66 CCTTTAAAATCCCAAACTAGGAATATTTCCTTC
* * *
19162241 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
19162306 CCTTTAAAATCCCAAACTAGGAATATTTCCTT
66 CCTTTAAAATCCCAAACTAGGAATATTTCCTT
19162338 TATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
CCTTTAAAATCCCAAACTAGGAATATTTCCTTC
Found at i:19162673 original size:13 final size:12
Alignment explanation
Indices: 19162655--19162693 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
19162645 AATGACATAA
19162655 AAATAATATAAAC
1 AAATAA-ATAAAC
19162668 AAATAAATAAAC
1 AAATAAATAAAC
19162680 GAAATAAA-AAAC
1 -AAATAAATAAAC
19162692 AA
1 AA
19162694 TAATTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:19163021 original size:10 final size:10
Alignment explanation
Indices: 19163003--19163040 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
19162993 TAGTAATATG
*
19163003 TATACATACA
1 TATATATACA
19163013 TATATATACA
1 TATATATACA
*
19163023 AATATATACA
1 TATATATACA
19163033 TATATATA
1 TATATATA
19163041 GTTTATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (10 bp):
TATATATACA
Found at i:19163138 original size:12 final size:12
Alignment explanation
Indices: 19163112--19163169 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 12
19163102 TAAATATGTA
*
19163112 TAAAAATATATAT
1 TAAAAAAATA-AT
19163125 TAAAAAAATAAT
1 TAAAAAAATAAT
19163137 TAAATATGAAAAATAAT
1 T--A-A--AAAAATAAT
19163154 TAAAAAAATAAT
1 TAAAAAAATAAT
19163166 TAAA
1 TAAA
19163170 TAAAGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 16 0.41
13 9 0.23
14 2 0.05
15 2 0.05
17 10 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAAAAAAATAAT
Found at i:19163161 original size:29 final size:31
Alignment explanation
Indices: 19163114--19163180 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 31
19163104 AATATGTATA
19163114 AAAATATATATTAAAAAAATAATTAAATATG
1 AAAATATATATTAAAAAAATAATTAAATATG
*
19163145 AAAA-ATA-ATTAAAAAAATAATTAAATAAAG
1 AAAATATATATTAAAAAAATAATTAAAT-ATG
19163175 AAAATA
1 AAAATA
19163181 AAAAATGGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 19 0.58
30 9 0.27
31 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (31 bp):
AAAATATATATTAAAAAAATAATTAAATATG
Found at i:19163180 original size:17 final size:16
Alignment explanation
Indices: 19163125--19163181 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
19163115 AAATATATAT
19163125 TAAAAAAATAATTAAA
1 TAAAAAAATAATTAAA
*
19163141 TATGAAAAATAA-T---
1 TA-AAAAAATAATTAAA
19163154 TAAAAAAATAATTAAA
1 TAAAAAAATAATTAAA
19163170 TAAAGAAAATAA
1 TAAA-AAAATAA
19163182 AAAATGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
12 8 0.24
13 3 0.09
16 7 0.21
17 15 0.45
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
TAAAAAAATAATTAAA
Found at i:19168842 original size:19 final size:19
Alignment explanation
Indices: 19168818--19168854 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19168808 TCTATGCGGA
19168818 GGTATTTTATTTATTTTCT
1 GGTATTTTATTTATTTTCT
*
19168837 GGTATTTTATTTGTTTTC
1 GGTATTTTATTTATTTTC
19168855 CCGTCTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.68
Consensus pattern (19 bp):
GGTATTTTATTTATTTTCT
Found at i:19170312 original size:42 final size:42
Alignment explanation
Indices: 19170257--19170535 Score: 266
Period size: 42 Copynumber: 6.6 Consensus size: 42
19170247 AGATTCCCCG
* * *
19170257 AGGGGTTGCTAAGTGTTGATTCCCCGAAT-TATTGATTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAAA
*
19170298 AGGTGGTTGTTAAGTGCTGATTCCACCGTATATTTGATTGTAAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGTAAA
* * * *
19170342 AGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAAA
*
19170383 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGTAAA
* * * * *
19170427 AGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTAAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAAA
* * *
19170468 AGGTGGTTGCTAAGTACT-ATTCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGTAAA
*
19170511 AGGGGTTGCTATGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
19170536 ATATCACTGA
Statistics
Matches: 196, Mismatches: 27, Indels: 29
0.78 0.11 0.12
Matches are distributed among these distances:
41 18 0.09
42 95 0.48
43 72 0.37
44 11 0.06
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTAAA
Found at i:19170496 original size:127 final size:127
Alignment explanation
Indices: 19170257--19170578 Score: 304
Period size: 127 Copynumber: 2.5 Consensus size: 127
19170247 AGATTCCCCG
* *
19170257 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGTTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
* * * * * *
19170322 ACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-AA
66 ACCGTATATCTAAATATAAAAGGGGTTGCTAAGTACTGATTCCCCGTATCACTGAATATGAA
* * *
19170383 AGGTGGTTGCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG-GGTTGCTATGTGCTGA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGAATTA-TTGATTCT-AAAGGTGGTTGCTAAGTGCTGA
** * *
19170446 TTCC-CCGTATCA-CTAAATAT-AAAGGTGGTTGCTAAGTACT-ATTCCACCGTATCTTTGATTG
62 TTCCACCGTAT-ATCTAAATATAAAAGG-GGTTGCTAAGTACTGATTCC-CCGTATCACTGAATA
19170507 TGAA
124 TGAA
* * * * * *
19170511 AGGGGTTGCTATGTGCTGATTCCCC-ATATCACTGAATT-T-AAGGTGGTTGCTAAATGTTGAAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-ATTATTG-ATTCTAAAGGTGGTTGCTAAGTGCTGATT
19170573 CCACCG
64 CCACCG
19170579 AGTAACGGAT
Statistics
Matches: 160, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
124 4 0.03
125 16 0.10
126 22 0.14
127 78 0.49
128 35 0.22
129 5 0.03
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (127 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATCTAAATATAAAAGGGGTTGCTAAGTACTGATTCCCCGTATCACTGAATATGAA
Found at i:19170543 original size:84 final size:85
Alignment explanation
Indices: 19170257--19170578 Score: 477
Period size: 85 Copynumber: 3.8 Consensus size: 85
19170247 AGATTCCCCG
* * * * * * * *
19170257 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGTTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
19170322 ACCGTATATTTGATTGTAAA
66 ACCGTATATTTGATTGTGAA
19170342 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
19170407 ACCGTATATTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
* *
19170427 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTACT-ATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
19170491 ACCGTATCTTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
* * * * *
19170511 AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAAT-TTAAGGTGGTTGCTAAATGTTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
19170575 ACCG
66 ACCG
19170579 AGTAACGGAT
Statistics
Matches: 217, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
83 17 0.08
84 67 0.31
85 133 0.61
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATTTGATTGTGAA
Found at i:19180440 original size:24 final size:24
Alignment explanation
Indices: 19180413--19180459 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19180403 CGATCATTTT
19180413 TGAACCAG-TATTCTTTCAATCTTC
1 TGAA-CAGTTATTCTTTCAATCTTC
* *
19180437 TGAATAGTTATTCTTTCATTCTT
1 TGAACAGTTATTCTTTCAATCTT
19180460 TTGGATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (24 bp):
TGAACAGTTATTCTTTCAATCTTC
Found at i:19181265 original size:13 final size:14
Alignment explanation
Indices: 19181236--19181273 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
19181226 TGATTTAATC
*
19181236 CAAAAAAAAAACAA
1 CAAAAACAAAACAA
19181250 CAAAAACAAAAC-A
1 CAAAAACAAAACAA
19181263 CAAAAACAAAA
1 CAAAAACAAAA
19181274 AAAGGGGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAACAAAACAA
Found at i:19181265 original size:16 final size:14
Alignment explanation
Indices: 19181236--19181274 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
19181226 TGATTTAATC
19181236 CAAAAAAAAAACAA
1 CAAAAAAAAAACAA
*
19181250 CAAAAACAAAAC-A
1 CAAAAAAAAAACAA
19181263 CAAAAACAAAAA
1 CAAAAA-AAAAA
19181275 AAGGGGGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAAAAAAACAA
Found at i:19181307 original size:14 final size:13
Alignment explanation
Indices: 19181291--19181364 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 13
19181281 GGGAAAGAAG
19181291 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
* *
19181304 GAAAAAAGAGAACA
1 -AAAAAAAAGAAAA
* *
19181318 AAAAAGAACAAAA
1 AAAAAAAAGAAAA
*
19181331 AATAAAAAACAAAA
1 AA-AAAAAAGAAAA
*
19181345 AACAAAAAGAAACA
1 AAAAAAAAGAAA-A
19181359 AAAAAA
1 AAAAAA
19181365 CCTCTACTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
13 19 0.40
14 29 0.60
ACGTcount: A:0.84, C:0.07, G:0.08, T:0.01
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:19181311 original size:24 final size:25
Alignment explanation
Indices: 19181284--19181356 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
19181274 AAAGGGGGGG
19181284 AAAGAAGAAAAAAAAGAAAAGAAA-
1 AAAGAAGAAAAAAAAGAAAAGAAAT
*
19181308 AAAG-AGAACAAAAAAGAACAAAAAAT
1 AAAGAAGAA-AAAAAAGAA-AAGAAAT
* * *
19181334 AAAAAACAAAAAACA-AAAAGAAA
1 AAAGAAGAAAAAAAAGAAAAGAAA
19181357 CAAAAAAACC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 4 0.10
24 18 0.45
25 7 0.17
26 8 0.20
27 3 0.08
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.01
Consensus pattern (25 bp):
AAAGAAGAAAAAAAAGAAAAGAAAT
Found at i:19181320 original size:10 final size:10
Alignment explanation
Indices: 19181300--19181363 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
19181290 GAAAAAAAAG
19181300 AAAAGAA-AA
1 AAAAGAACAA
*
19181309 AAGAGAACAA
1 AAAAGAACAA
19181319 AAAAGAACAA
1 AAAAGAACAA
* *
19181329 AAAATAAAAA
1 AAAAGAACAA
*
19181339 ACAAAAAAC-A
1 A-AAAGAACAA
19181349 AAAAGAAACAA
1 AAAAG-AACAA
19181360 AAAA
1 AAAA
19181364 ACCTCTACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
9 9 0.20
10 25 0.57
11 10 0.23
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.02
Consensus pattern (10 bp):
AAAAGAACAA
Found at i:19181351 original size:12 final size:12
Alignment explanation
Indices: 19181284--19181351 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
19181274 AAAGGGGGGG
19181284 AAAGAAGAA-AAA
1 AAAGAA-AACAAA
*
19181296 AAAGAAAAGAAA
1 AAAGAAAACAAA
*
19181308 AAAGAGAACAAA
1 AAAGAAAACAAA
19181320 AAAGAACAA-AAA
1 AAAGAA-AACAAA
19181332 ATAA-AAAACAAA
1 A-AAGAAAACAAA
*
19181344 AAACAAAA
1 AAAGAAAA
19181352 AGAAACAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 6 0.12
12 38 0.79
13 4 0.08
ACGTcount: A:0.82, C:0.06, G:0.10, T:0.01
Consensus pattern (12 bp):
AAAGAAAACAAA
Found at i:19183406 original size:50 final size:50
Alignment explanation
Indices: 19183321--19184348 Score: 662
Period size: 50 Copynumber: 20.6 Consensus size: 50
19183311 ATTGCAATTA
* * * *
19183321 AAAAGATTGAAGCCACAACGGTGGATCTTAATTCCCTGGTGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
** ** *** * * * * * **
19183371 AGCAGATTGAAGTCACAACTACGGATCTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* ** *
19183421 AAAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGATGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
*** * * *** * **
19183471 AAAAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAACGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* * *
19183521 AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGATGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
** *** * * * * **
19183571 AGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* * *
19183621 AAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
*** * * * * * **
19183671 AAAAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* *
19183721 AAAAGATTGAAGTTACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
** * * *** * * * * * **
19183771 AGCAGATTGAAGTCACAACGACAGATCTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* * *
19183821 AAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
** ** * * * * * **
19183871 AGCAGATTGAAGTCACAACGGCGGAT-TTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTT-ACTTCCCTGGCGGTGCAGTGG
* * *
19183921 AAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
** * ** * * * ** * *
19183971 AGCAGATTGAAGTCACAACGACGGAT-TTGGTTTCCCCGACAGCACAAT-T
1 AAAAGATTGAAGTCACAACGGCGGATCTT-ACTTCCCTGGCGGTGCAGTGG
* *
19184020 AAAATGATTGAAGCCACAACGGCGGATCTTACTTCCC-GGCGGTGTAGTGG
1 AAAA-GATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
*
19184070 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
** * *** * * * **
19184120 AGCAGATTGAAGTCACAACGACGGATCTGGTTTCCCCGGCAGTGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* * * *
19184170 AAAAGATTGAAGCCACAACGACAGATCTTACTTCCCTAGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
** * ** *** * *** * * **
19184220 AGCAGATTGAAGTCACAGCGGTAGATCTGGTTTCCCCGATAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* * * * * *
19184270 AAAAGATTAAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTTG
1 AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
* *
19184320 AACAGATTGAAG-CTACGACGGCGGATCTT
1 AAAAGATTGAAGTC-ACAACGGCGGATCTT
19184349 GTTTCTTCGA
Statistics
Matches: 705, Mismatches: 265, Indels: 16
0.72 0.27 0.02
Matches are distributed among these distances:
49 42 0.06
50 659 0.93
51 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
AAAAGATTGAAGTCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGG
Found at i:19183439 original size:100 final size:100
Alignment explanation
Indices: 19183314--19184097 Score: 1255
Period size: 100 Copynumber: 7.8 Consensus size: 100
19183304 CTTTGGTATT
** * *
19183314 GCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTAATTCCCTGGTGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
**
19183379 GAAGTCACAACTACGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * **
19183414 GCAATTAAAAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGATGCAGTGGAAAAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
19183479 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAAC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
** *
19183514 GCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
19183579 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGT
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* **
19183614 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAGTGGAAAAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
19183679 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
**
19183714 GCAATTAAAAAGATTGAAGTTACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
19183779 GAAGTCACAACGACAGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
*
19183814 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
19183879 GAAGTCACAACGGCGGATTTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
*
19183914 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
19183979 GAAGTCACAACGACGGATTTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * * * **
19184014 ACAATTAAAATGATTGAAGCCACAACGGCGGATCTTACTTCCC-GGCGGTGTAGTGGAAAAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
19184078 GAAGTCACAACGGCAGATCT
66 GAAGTCACAACGGCGGATCT
19184098 TACTTCCCTG
Statistics
Matches: 637, Mismatches: 47, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
99 35 0.05
100 602 0.95
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
Found at i:19188382 original size:4 final size:4
Alignment explanation
Indices: 19188373--19188401 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
19188363 ACCATTATTC
19188373 CTTT CTTT CTTT CTTT CTTT -TTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
19188402 AATTTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:19195263 original size:26 final size:28
Alignment explanation
Indices: 19195212--19195265 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
19195202 ACTTTTGTCA
19195212 AATAAAAGTATCATATTAAGCAAAAAAAT
1 AATAAAAGTATCATATTAAG-AAAAAAAT
19195241 AATATAAA-TATCATATT-AGAAAAAA
1 AATA-AAAGTATCATATTAAGAAAAAA
19195266 GTATCAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
29 13 0.54
30 3 0.12
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (28 bp):
AATAAAAGTATCATATTAAGAAAAAAAT
Done.