Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 73 of 211
Found at i:19489901 original size:16 final size:15
Alignment explanation
Indices: 19489870--19489898 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19489860 AAATTGTAAA
19489870 AAAAAATTATAATTT
1 AAAAAATTATAATTT
19489885 AAAAAA-TATAATTT
1 AAAAAATTATAATTT
19489899 TTACAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAATTATAATTT
Found at i:19489974 original size:19 final size:19
Alignment explanation
Indices: 19489952--19489998 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
19489942 AATGATTGCA
19489952 ATTTTTAAAATTTTTAATG
1 ATTTTTAAAATTTTTAATG
* * **
19489971 ATTTTCACAATTTTTTGTG
1 ATTTTTAAAATTTTTAATG
19489990 -TTTTTAAAA
1 ATTTTTAAAA
19489999 AAATTGCAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTTAAAATTTTTAATG
Found at i:19490341 original size:20 final size:20
Alignment explanation
Indices: 19490271--19490341 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
19490261 TATATATATA
* *
19490271 AAATAAT-TTTTAAAATTTCT
1 AAATAATATTTT-ATATTTTT
*
19490291 AAATAATGTTTTACTAATTTTT
1 AAATAATATTTTA-T-ATTTTT
19490313 --AT-A-ATTTTATATTTTT
1 AAATAATATTTTATATTTTT
19490329 AAATAATATTTTA
1 AAATAATATTTTA
19490342 CGATTTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 6 0.15
17 1 0.02
18 7 0.17
19 2 0.05
20 16 0.39
21 4 0.10
22 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (20 bp):
AAATAATATTTTATATTTTT
Found at i:19490359 original size:38 final size:38
Alignment explanation
Indices: 19490276--19490360 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
19490266 ATATAAAATA
* *
19490276 ATTTTTAAAATTTCTAAATAATGTTTTACTAATTTTTAT
1 ATTTTT-AAATTTCTAAATAATATTTTACTAATTTTAAT
* * * *
19490315 AATTTTATATTTTTAAATAATATTTTAC-GATTTTAAT
1 ATTTTTAAATTTCTAAATAATATTTTACTAATTTTAAT
19490352 CATTTTTAA
1 -ATTTTTAA
19490361 TGATTTGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
37 7 0.19
38 25 0.68
39 5 0.14
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (38 bp):
ATTTTTAAATTTCTAAATAATATTTTACTAATTTTAAT
Found at i:19490822 original size:20 final size:19
Alignment explanation
Indices: 19490797--19490874 Score: 77
Period size: 20 Copynumber: 4.1 Consensus size: 19
19490787 AGTTGGAGCA
19490797 TAAATAATTTTATATATTTT
1 TAAATAATTTTATA-ATTTT
* * *
19490817 TAAATAAATTTAAAATTTC
1 TAAATAATTTTATAATTTT
19490836 TAAATAATTATTATAATTTT
1 TAAATAATT-TTATAATTTT
* * *
19490856 T-TATATTTTTACAATTTT
1 TAAATAATTTTATAATTTT
19490874 T
1 T
19490875 TTCATTTCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
18 10 0.21
19 17 0.35
20 21 0.44
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAATAATTTTATAATTTT
Found at i:19490839 original size:19 final size:20
Alignment explanation
Indices: 19490797--19490842 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
19490787 AGTTGGAGCA
* * *
19490797 TAAATAATTTTATATATTTT
1 TAAATAAATTTATAAATTTC
19490817 TAAATAAATTTA-AAATTTC
1 TAAATAAATTTATAAATTTC
19490836 TAAATAA
1 TAAATAA
19490843 TTATTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATAAATTTATAAATTTC
Found at i:19494927 original size:10 final size:10
Alignment explanation
Indices: 19494914--19494944 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19494904 TAATTTTAAA
19494914 ATATTTTTTT
1 ATATTTTTTT
19494924 ATATTTTTTT
1 ATATTTTTTT
*
19494934 ATAATTTTTT
1 ATATTTTTTT
19494944 A
1 A
19494945 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:19494949 original size:10 final size:10
Alignment explanation
Indices: 19494918--19494952 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19494908 TTTAAAATAT
*
19494918 TTTTTTATAT
1 TTTTTTATAA
19494928 TTTTTTATAA
1 TTTTTTATAA
*
19494938 TTTTTTAAAA
1 TTTTTTATAA
19494948 TTTTT
1 TTTTT
19494953 AAATTTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:19495008 original size:31 final size:31
Alignment explanation
Indices: 19494968--19495033 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
19494958 TTGCTATGTG
* ** *
19494968 GTATGCCACATCAGTGTCGTTTGCCATGTCA
1 GTATACCACATCAGCATCATTTGCCATGTCA
19494999 GTATACCACATCAGCATCATTTGCCATGTCA
1 GTATACCACATCAGCATCATTTGCCATGTCA
19495030 GTAT
1 GTAT
19495034 CGTTAACGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (31 bp):
GTATACCACATCAGCATCATTTGCCATGTCA
Found at i:19495610 original size:27 final size:26
Alignment explanation
Indices: 19495580--19495656 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 26
19495570 ATTAATTTAG
19495580 ATACTATTTAAATAATTTAATATAATT
1 ATACTA-TTAAATAATTTAATATAATT
*
19495607 ATAC-ATAAAATATATTTTAATAT-ATT
1 ATACTATTAAATA-A-TTTAATATAATT
*
19495633 -TAATAATT-AATAATTTAATTATAA
1 ATACT-ATTAAATAATTTAA-TATAA
19495657 ATTTAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
24 5 0.12
25 12 0.29
26 10 0.24
27 14 0.34
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (26 bp):
ATACTATTAAATAATTTAATATAATT
Found at i:19495696 original size:29 final size:30
Alignment explanation
Indices: 19495655--19495727 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
19495645 ATTTAATTAT
* * *
19495655 AAATTTAATTATACATGAAAT-GTTTTTAA
1 AAATTTAAATATACATGAAATAATATTTAA
*
19495684 AAATTTAAATATAATATGAAATAATATTTAA
1 AAATTTAAATAT-ACATGAAATAATATTTAA
19495715 ATAATTT-AATATA
1 A-AATTTAAATATA
19495728 ATTATACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 11 0.30
30 9 0.24
31 12 0.32
32 5 0.14
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (30 bp):
AAATTTAAATATACATGAAATAATATTTAA
Found at i:19506202 original size:6 final size:6
Alignment explanation
Indices: 19506191--19506218 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19506181 ATTTTGATCC
19506191 AAATAT AAATAT AAATAT AAATAT AAAT
1 AAATAT AAATAT AAATAT AAATAT AAAT
19506219 TTATTCAGTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:19519873 original size:14 final size:15
Alignment explanation
Indices: 19519854--19519882 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19519844 CCTTAGTTGC
19519854 TGAAAAAT-AAAAGA
1 TGAAAAATGAAAAGA
19519868 TGAAAAATGAAAAGA
1 TGAAAAATGAAAAGA
19519883 ATGGGGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (15 bp):
TGAAAAATGAAAAGA
Found at i:19521514 original size:30 final size:30
Alignment explanation
Indices: 19521479--19521556 Score: 156
Period size: 30 Copynumber: 2.6 Consensus size: 30
19521469 CAAGGATATG
19521479 GACGTGTGTCCAGGCCGTATGAGTCACATA
1 GACGTGTGTCCAGGCCGTATGAGTCACATA
19521509 GACGTGTGTCCAGGCCGTATGAGTCACATA
1 GACGTGTGTCCAGGCCGTATGAGTCACATA
19521539 GACGTGTGTCCAGGCCGT
1 GACGTGTGTCCAGGCCGT
19521557 GTAACTCTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (30 bp):
GACGTGTGTCCAGGCCGTATGAGTCACATA
Found at i:19536096 original size:20 final size:21
Alignment explanation
Indices: 19536059--19536097 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
19536049 TTTTGGAATT
19536059 TTTTTCATATTCTTAAAATCA
1 TTTTTCATATTCTTAAAATCA
19536080 TTTTT-ATATT-TTGAAAAT
1 TTTTTCATATTCTT-AAAAT
19536098 TATAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 10 0.59
21 5 0.29
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTTTCATATTCTTAAAATCA
Found at i:19550211 original size:20 final size:21
Alignment explanation
Indices: 19550174--19550212 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
19550164 TTTTGGAATT
19550174 TTTTTCATATTCTTAAAATCA
1 TTTTTCATATTCTTAAAATCA
19550195 TTTTT-ATATT-TTGAAAAT
1 TTTTTCATATTCTT-AAAAT
19550213 TATAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 10 0.59
21 5 0.29
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTTTCATATTCTTAAAATCA
Found at i:19561940 original size:52 final size:52
Alignment explanation
Indices: 19561861--19561964 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
19561851 GTAAAACTTG
* *
19561861 CTTTTTGGCTATAGATTCTACAACATAAACTTCGCCGTTGGAATCGGCCTTT
1 CTTTTTGGCTATAGATTCTACAACATAAACTTCGCCATTGGAATCAGCCTTT
* *
19561913 CTTTTTGGCTATAGATTCTATAGCATAAACTTCGCCATTGGAATCAGCCTTT
1 CTTTTTGGCTATAGATTCTACAACATAAACTTCGCCATTGGAATCAGCCTTT
19561965 AGCTGTGGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (52 bp):
CTTTTTGGCTATAGATTCTACAACATAAACTTCGCCATTGGAATCAGCCTTT
Found at i:19572258 original size:20 final size:21
Alignment explanation
Indices: 19572233--19572271 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19572223 CGTTCAAAGC
*
19572233 AAAT-AAAATATTGAAAATCA
1 AAATAAAAATATTAAAAATCA
19572253 AAATAAAAATATTAAAAAT
1 AAATAAAAATATTAAAAAT
19572272 TATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (21 bp):
AAATAAAAATATTAAAAATCA
Found at i:19572279 original size:10 final size:9
Alignment explanation
Indices: 19572255--19572290 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
19572245 GAAAATCAAA
19572255 ATAAAAA-T
1 ATAAAAATT
19572263 ATTAAAAATT
1 A-TAAAAATT
19572273 ATAAAAATT
1 ATAAAAATT
19572282 ATAAAAATT
1 ATAAAAATT
19572291 GGTTCAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 1 0.04
9 23 0.88
10 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:19575676 original size:3 final size:3
Alignment explanation
Indices: 19575668--19575710 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19575658 AGTGAATGGA
19575668 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
19575711 TTTGTGAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:19575850 original size:22 final size:22
Alignment explanation
Indices: 19575825--19575876 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
19575815 TTTTATTTAT
*
19575825 TTTAAAGATT-TTTTTAAAAAAA
1 TTTAAA-ATTATTGTTAAAAAAA
* *
19575847 TTTACAATTATTGTTAAAAAAT
1 TTTAAAATTATTGTTAAAAAAA
19575869 TTTAAAAT
1 TTTAAAAT
19575877 GTCAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
TTTAAAATTATTGTTAAAAAAA
Found at i:19581176 original size:56 final size:56
Alignment explanation
Indices: 19581099--19581205 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 56
19581089 TTCATTCTTT
* *
19581099 AAAATTTTAAAAATTTAAAAAAATTATAAAACTACTTTTAAAAATTAGAAATCACTA
1 AAAATTTTAAAAATTTAAAAAAA-TATAAAAATACTTTTAAAAATTAAAAATCACTA
* * *
19581156 AAAATTTT-TAAA-TTATAAAAAATATAAAAATATTTTTTAAAATTAAAAAT
1 AAAATTTTAAAAATTTA-AAAAAATATAAAAATACTTTTAAAAATTAAAAAT
19581206 AATTAAATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 27 0.61
56 9 0.20
57 8 0.18
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (56 bp):
AAAATTTTAAAAATTTAAAAAAATATAAAAATACTTTTAAAAATTAAAAATCACTA
Found at i:19583599 original size:12 final size:13
Alignment explanation
Indices: 19583571--19583600 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19583561 TCTAGTCATA
19583571 TAATAAATTATTT
1 TAATAAATTATTT
19583584 TAATAAATTA-TT
1 TAATAAATTATTT
19583596 TAATA
1 TAATA
19583601 TTTCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATAAATTATTT
Found at i:19583704 original size:15 final size:15
Alignment explanation
Indices: 19583684--19583740 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
19583674 ATTGAATATT
19583684 AATATTTTAATAATA
1 AATATTTTAATAATA
*
19583699 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
19583718 AATATATTAATAAAA
1 AATATTTTAATAATA
19583733 AATATTTT
1 AATATTTT
19583741 GTAATATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:19586452 original size:21 final size:20
Alignment explanation
Indices: 19586403--19586452 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
19586393 AAATTTGAAT
* *
19586403 CTATCGATACTTAACAAAAT
1 CTATCGATACTTAAAAAAAA
*
19586423 CTATTGATACTTGAAAAAAAA
1 CTATCGATACTT-AAAAAAAA
*
19586444 GTATCGATA
1 CTATCGATA
19586453 TAGGATCGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (20 bp):
CTATCGATACTTAAAAAAAA
Found at i:19589451 original size:20 final size:19
Alignment explanation
Indices: 19589410--19589463 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
19589400 AACCCAATAG
*
19589410 GTATCGATAATTTTTTGTAA
1 GTATCGAT-ATTTTTTGAAA
19589430 GTATCGATACTTTTTAT-AAA
1 GTATCGATA-TTTTT-TGAAA
*
19589450 GTGTCGATATTTTT
1 GTATCGATATTTTT
19589464 GTATCGGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.20
20 23 0.77
21 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (19 bp):
GTATCGATATTTTTTGAAA
Found at i:19595553 original size:20 final size:21
Alignment explanation
Indices: 19595528--19595580 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
19595518 GATAAATTTG
*
19595528 AATCTATCGATAC-TGAACAA
1 AATCTATCGATACTTGAAAAA
*
19595548 AATCTATTGATACTTGAAAAA
1 AATCTATCGATACTTGAAAAA
**
19595569 AAAGTATCGATA
1 AATCTATCGATA
19595581 TAGGATCGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (21 bp):
AATCTATCGATACTTGAAAAA
Found at i:19596470 original size:31 final size:31
Alignment explanation
Indices: 19596414--19596488 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
19596404 GATATATTAG
* * *
19596414 TTAAATTAAATT-AATTATTATATAATGTGA
1 TTAAATTAAATTAAAATATTACATAATGTAA
19596444 TTAAATTAAATTAAAATATTACATAATGTAA
1 TTAAATTAAATTAAAATATTACATAATGTAA
*
19596475 TTAAATTGAATTAA
1 TTAAATTAAATTAA
19596489 TAATGAGCCC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 12 0.30
31 28 0.70
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (31 bp):
TTAAATTAAATTAAAATATTACATAATGTAA
Found at i:19603393 original size:20 final size:20
Alignment explanation
Indices: 19603368--19603426 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
19603358 AACATTAAAT
19603368 TAAATTTAATATTAAGATAA
1 TAAATTTAATATTAAGATAA
19603388 TAAATTTAATATTAA-ATTAA
1 TAAATTTAATATTAAGA-TAA
* *
19603408 TAAA-ATATTATTAAGATAA
1 TAAATTTAATATTAAGATAA
19603427 GTATTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 12 0.34
20 23 0.66
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATTAAGATAA
Found at i:19603414 original size:25 final size:25
Alignment explanation
Indices: 19603363--19603414 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
19603353 AGATAAACAT
*
19603363 TAAATTAAATTTAATATTAAGATAA
1 TAAATTAAATTTAATATTAAGAAAA
* *
19603388 TAAATTTAATATTAA-ATTAATAAAA
1 TAAATTAAAT-TTAATATTAAGAAAA
19603413 TA
1 TA
19603415 TTATTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATTAAATTTAATATTAAGAAAA
Found at i:19624141 original size:51 final size:51
Alignment explanation
Indices: 19624085--19624182 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
19624075 AATTATTTTC
19624085 TCAATTTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAATT
* * *
19624136 TCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
19624183 TTAATTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.47
Consensus pattern (51 bp):
TCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAATT
Found at i:19626639 original size:64 final size:64
Alignment explanation
Indices: 19626510--19626731 Score: 304
Period size: 64 Copynumber: 3.5 Consensus size: 64
19626500 CCCTAACCCT
* * * * * *
19626510 AAACTCTAACCCTTAACTTAAAAACTCTAAACCCTTAAGTTATAA-ACCCAAACTCTTAAGTTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA-AATACCCTAACCCTTAACTTAA
* * * *
19626574 AAACCCGAAATCCTTAACTTAAAAACCCT-AATCCTTAACTTAAATACCCTAACCCTTAACCTAA
1 AAACCC-TAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAATACCCTAACCCTTAACTTAA
* *
19626638 AAACCTTAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAAATACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAATACCCTAACCCTTAACTTAA
19626702 AAACCCTAACCCTTAACTTAAAAACCCTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAA
19626732 CTGTATTCCT
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
63 21 0.15
64 97 0.71
65 19 0.14
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.26
Consensus pattern (64 bp):
AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAATACCCTAACCCTTAACTTAA
Found at i:19626642 original size:85 final size:85
Alignment explanation
Indices: 19626510--19626733 Score: 304
Period size: 85 Copynumber: 2.6 Consensus size: 85
19626500 CCCTAACCCT
* * * * * *
19626510 AAACTCTAACCCTTAACTTAAAAACTCTAAACCCTTAAGTTATAAACCCAAACTCTTAAGTTAAA
1 AAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACTCTTAACTTAAA
*
19626575 AACCCGAAATCCTTAACTTAA
65 AACCCGAAACCCTTAACTTAA
* * * * *
19626596 AAACCCTAATCCTTAACTTAAATACCCTAACCCTTAACCTAAAAACCTTAACCCTTAACTTAAAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTCTTAACTTAAAA
**
19626661 ACCTTAAACCCTTAACTTAA
66 ACCCGAAACCCTTAACTTAA
*
19626681 ATACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACT
1 AAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACT
19626734 GTATTCCTTA
Statistics
Matches: 118, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 94 0.80
86 24 0.20
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.26
Consensus pattern (85 bp):
AAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTCTTAACTTAAAA
ACCCGAAACCCTTAACTTAA
Found at i:19626752 original size:27 final size:21
Alignment explanation
Indices: 19626510--19626732 Score: 284
Period size: 21 Copynumber: 10.5 Consensus size: 21
19626500 CCCTAACCCT
*
19626510 AAACTCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
* * *
19626531 AAACTCTAAACCCTTAAGTTAT
1 AAACCCT-AACCCTTAACTTAA
* * *
19626553 AAACCCAAACTCTTAAGTTAA
1 AAACCCTAACCCTTAACTTAA
* *
19626574 AAACCCGAAATCCTTAACTTAA
1 AAACCC-TAACCCTTAACTTAA
*
19626596 AAACCCTAATCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
* *
19626617 ATACCCTAACCCTTAACCTAA
1 AAACCCTAACCCTTAACTTAA
*
19626638 AAACCTTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
*
19626659 AAACCTTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
19626681 ATACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
19626702 AAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
19626723 AAACCCTAAC
1 AAACCCTAAC
19626733 TGTATTCCTT
Statistics
Matches: 180, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
21 126 0.70
22 54 0.30
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:19626994 original size:22 final size:21
Alignment explanation
Indices: 19626954--19626999 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
19626944 TTTTTTCTAA
* *
19626954 AACCCTAAAAACCTTAAACCCT
1 AACCCTAAAAACC-CAAAACCT
19626976 AACCCTAAAAACCCAAAACCT
1 AACCCTAAAAACCCAAAACCT
19626997 AAC
1 AAC
19627000 GTTGGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (21 bp):
AACCCTAAAAACCCAAAACCT
Found at i:19629707 original size:43 final size:43
Alignment explanation
Indices: 19629635--19629716 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
19629625 GATTCTGTTA
*
19629635 TGTGTTATCGTGTAAGACCACATTGGGGACATTGGCATCAACC
1 TGTGTTATCGTGTAAGACCACATTGGGGACAGTGGCATCAACC
19629678 TGTGTT-TACGTGTAAGACC-CTATCT-GGGACAGTGGCATC
1 TGTGTTAT-CGTGTAAGACCAC-AT-TGGGGACAGTGGCATC
19629717 GTTATATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
42 2 0.06
43 32 0.91
44 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTGTTATCGTGTAAGACCACATTGGGGACAGTGGCATCAACC
Found at i:19638200 original size:17 final size:18
Alignment explanation
Indices: 19638164--19638207 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
19638154 AAACAAAATT
19638164 TATTTTATAATAAGATAA
1 TATTTTATAATAAGATAA
19638182 TATTTTATAATAA-ATAA
1 TATTTTATAATAAGATAA
*
19638199 TATATTATA
1 TATTTTATA
19638208 TAGATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TATTTTATAATAAGATAA
Found at i:19638970 original size:23 final size:23
Alignment explanation
Indices: 19638926--19638971 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19638916 AACAAATACA
* *
19638926 CATATTTATATTATTAATATATT
1 CATATTTATACTATTAAAATATT
19638949 CATATTTTATACTA-TAAAATATT
1 CATA-TTTATACTATTAAAATATT
19638972 TTACTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (23 bp):
CATATTTATACTATTAAAATATT
Found at i:19646557 original size:19 final size:20
Alignment explanation
Indices: 19646504--19646557 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
19646494 AAAAAACATA
*
19646504 ATAATAAATATAAT-ATTAAT
1 ATAA-AAATAAAATAATTAAT
*
19646524 ATTAAAAAT-ATATAATT-AT
1 A-TAAAAATAAAATAATTAAT
19646543 ATAAAAATAAAATAA
1 ATAAAAATAAAATAA
19646558 AATCCTTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 7 0.25
19 10 0.36
20 8 0.29
21 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAAAATAAAATAATTAAT
Found at i:19647542 original size:22 final size:23
Alignment explanation
Indices: 19647516--19647772 Score: 117
Period size: 22 Copynumber: 11.0 Consensus size: 23
19647506 ATTTTCACAC
*
19647516 CAAAATTTGGACAGCATATATA-
1 CAAAATTTGGACAGCATATACAT
*
19647538 CAAAATTTGGACTGCATTTATACAT
1 CAAAATTTGGACAGCA--TATACAT
19647563 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
* ** * *
19647585 -AAATAATTGGATTGTATTTGTACAT
1 CAAA-ATTTGGACAGCA--TATACAT
19647610 CAAAATTT-GACAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
**
19647632 -ATATAA-TTGGACTCCATTTATACAT
1 CA-A-AATTTGGACAGCA--TATACAT
*
19647657 CAAAATTT-GACAGCATACACAT
1 CAAAATTTGGACAGCATATACAT
* *
19647679 -ATATAA-TTGGACTGCATCTGTACAT
1 CA-A-AATTTGGACAGCA--TATACAT
*
19647704 CAAAATTT-GACAGCATACACAT
1 CAAAATTTGGACAGCATATACAT
* **
19647726 -ATATAA-TTGAACTCCATTTATACAT
1 CA-A-AATTTGGACAGCA--TATACAT
*
19647751 CAAAATTT-GATAGCATATACAT
1 CAAAATTTGGACAGCATATACAT
19647773 TCATTTACTC
Statistics
Matches: 174, Mismatches: 32, Indels: 58
0.66 0.12 0.22
Matches are distributed among these distances:
21 6 0.03
22 58 0.33
23 25 0.14
24 35 0.20
25 44 0.25
26 6 0.03
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (23 bp):
CAAAATTTGGACAGCATATACAT
Found at i:19647567 original size:47 final size:45
Alignment explanation
Indices: 19647516--19647769 Score: 292
Period size: 47 Copynumber: 5.4 Consensus size: 45
19647506 ATTTTCACAC
* *
19647516 CAAAATTTGGACAGCATATATACAAAATTTGGACTGCATTTATACAT
1 CAAAATTT-GACAGCATATATATATAA-TTGGACTGCATTTATACAT
* * * *
19647563 CAAAATTTGACAGCATATACATAAATAATTGGATTGTATTTGTACAT
1 CAAAATTTGACAGCATAT--ATATATAATTGGACTGCATTTATACAT
*
19647610 CAAAATTTGACAGCATATACATATATAATTGGACTCCATTTATACAT
1 CAAAATTTGACAGCATAT--ATATATAATTGGACTGCATTTATACAT
* * *
19647657 CAAAATTTGACAGCATACACATATATAATTGGACTGCATCTGTACAT
1 CAAAATTTGACAGCAT--ATATATATAATTGGACTGCATTTATACAT
* * *
19647704 CAAAATTTGACAGCATACACATATATAATTGAACTCCATTTATACAT
1 CAAAATTTGACAGCAT--ATATATATAATTGGACTGCATTTATACAT
*
19647751 CAAAATTTGATAGCATATA
1 CAAAATTTGACAGCATATA
19647770 CATTCATTTA
Statistics
Matches: 183, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.01
46 10 0.05
47 164 0.90
48 6 0.03
49 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (45 bp):
CAAAATTTGACAGCATATATATATAATTGGACTGCATTTATACAT
Found at i:19647651 original size:94 final size:94
Alignment explanation
Indices: 19647516--19647772 Score: 383
Period size: 94 Copynumber: 2.7 Consensus size: 94
19647506 ATTTTCACAC
* * *
19647516 CAAAATTTGGACAGCATAT--ATACAAAATTTGGACTGCATTTATACATCAAAATTTGACAGCAT
1 CAAAATTT-GACAGCATATACATATATAA-TTGGACTCCATTTATACATCAAAATTTGACAGCAT
* * *
19647579 ATACATAAATAATTGGATTGTATTTGTACAT
64 ATACATAAATAATTGGACTGCATCTGTACAT
*
19647610 CAAAATTTGACAGCATATACATATATAATTGGACTCCATTTATACATCAAAATTTGACAGCATAC
1 CAAAATTTGACAGCATATACATATATAATTGGACTCCATTTATACATCAAAATTTGACAGCATAT
*
19647675 ACATATATAATTGGACTGCATCTGTACAT
66 ACATAAATAATTGGACTGCATCTGTACAT
* * *
19647704 CAAAATTTGACAGCATACACATATATAATTGAACTCCATTTATACATCAAAATTTGATAGCATAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTCCATTTATACATCAAAATTTGACAGCATAT
19647769 ACAT
66 ACAT
19647773 TCATTTACTC
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
93 10 0.07
94 133 0.89
95 6 0.04
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (94 bp):
CAAAATTTGACAGCATATACATATATAATTGGACTCCATTTATACATCAAAATTTGACAGCATAT
ACATAAATAATTGGACTGCATCTGTACAT
Found at i:19647661 original size:141 final size:140
Alignment explanation
Indices: 19647516--19647772 Score: 363
Period size: 141 Copynumber: 1.8 Consensus size: 140
19647506 ATTTTCACAC
* *
19647516 CAAAATTTGGACAGCAT-ATATACAAAATTTGGACTGCATTTATACATCAAAATTTGACAGCATA
1 CAAAATTT-GACAGCATAACATACAAAA-TTGGACTGCATCTATACATCAAAATTTGACAGCATA
* * * ** *
19647580 TACATAAATAATTGGATTGTATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACT
64 CACATAAATAATTGAACTCCATTTATACATCAAAATTTGACAGCATATACATATATAATTGGACT
19647645 CCATTTATACAT
129 CCATTTATACAT
* * *
19647657 CAAAATTTGACAGCATACACATATATAATTGGACTGCATCTGTACATCAAAATTTGACAGCATAC
1 CAAAATTTGACAGCATA-ACATACAAAATTGGACTGCATCTATACATCAAAATTTGACAGCATAC
* *
19647722 ACATATATAATTGAACTCCATTTATACATCAAAATTTGATAGCATATACAT
65 ACATAAATAATTGAACTCCATTTATACATCAAAATTTGACAGCATATACAT
19647773 TCATTTACTC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
140 8 0.08
141 86 0.85
142 7 0.07
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (140 bp):
CAAAATTTGACAGCATAACATACAAAATTGGACTGCATCTATACATCAAAATTTGACAGCATACA
CATAAATAATTGAACTCCATTTATACATCAAAATTTGACAGCATATACATATATAATTGGACTCC
ATTTATACAT
Found at i:19647695 original size:23 final size:23
Alignment explanation
Indices: 19647613--19647734 Score: 74
Period size: 23 Copynumber: 5.2 Consensus size: 23
19647603 TGTACATCAA
* *
19647613 AATTTGACAGCATATACATATAT
1 AATTGGACAGCATACACATATAT
** *
19647636 AATTGGACTCCATTTATACATCA-A-
1 AATTGGACAGCA--TACACAT-ATAT
*
19647660 AATTTGACAGCATACACATATAT
1 AATTGGACAGCATACACATATAT
*
19647683 AATTGGACTGCAT-CTGTACATCA-A-
1 AATTGGACAGCATAC---ACAT-ATAT
*
19647707 AATTTGACAGCATACACATATAT
1 AATTGGACAGCATACACATATAT
19647730 AATTG
1 AATTG
19647735 AACTCCATTT
Statistics
Matches: 75, Mismatches: 12, Indels: 24
0.68 0.11 0.22
Matches are distributed among these distances:
21 2 0.03
22 13 0.17
23 24 0.32
24 20 0.27
25 14 0.19
26 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (23 bp):
AATTGGACAGCATACACATATAT
Found at i:19648046 original size:14 final size:15
Alignment explanation
Indices: 19648008--19648056 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
19647998 TCACCATGCA
* *
19648008 CATATATATACATTAC
1 CATATAAATAC-TAAC
19648024 CATATAAATACTAAC
1 CATATAAATACTAAC
19648039 CATA-AAATACTAATC
1 CATATAAATACTAA-C
19648054 CAT
1 CAT
19648057 GATTAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 11 0.37
16 10 0.33
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (15 bp):
CATATAAATACTAAC
Found at i:19649767 original size:12 final size:12
Alignment explanation
Indices: 19649750--19649780 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19649740 TATTAACCTT
19649750 TATATAAATATA
1 TATATAAATATA
*
19649762 TATATACATATA
1 TATATAAATATA
19649774 TATATAA
1 TATATAA
19649781 GGTTATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATAAATATA
Found at i:19652610 original size:32 final size:32
Alignment explanation
Indices: 19652573--19652663 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 32
19652563 TAACCACATT
19652573 AAAGTTGATATTTGTTATCATTTCACAAAATTG
1 AAAGTTGATATTTGTTATCATTTCACAAAA-TG
*
19652606 -AAGTTG-TAATTTGTTA-CTATTTCATAAAATG
1 AAAGTTGAT-ATTTGTTATC-ATTTCACAAAATG
19652637 AAAGTTGATATTTGTTATCATTTCACA
1 AAAGTTGATATTTGTTATCATTTCACA
19652664 GAACTGCGCG
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
31 4 0.08
32 45 0.88
33 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (32 bp):
AAAGTTGATATTTGTTATCATTTCACAAAATG
Found at i:19653451 original size:7 final size:7
Alignment explanation
Indices: 19653441--19653466 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19653431 GGAGTGGGGG
19653441 CTTTTGC
1 CTTTTGC
19653448 CTTTTGC
1 CTTTTGC
19653455 CTTTTGC
1 CTTTTGC
19653462 CTTTT
1 CTTTT
19653467 CATTAAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.12, T:0.62
Consensus pattern (7 bp):
CTTTTGC
Found at i:19659946 original size:14 final size:14
Alignment explanation
Indices: 19659927--19659958 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
19659917 GAAAAAGGAA
19659927 TAATATATAATTTC
1 TAATATATAATTTC
19659941 TAATATATAATTTC
1 TAATATATAATTTC
19659955 TAAT
1 TAAT
19659959 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATATAATTTC
Found at i:19660839 original size:35 final size:35
Alignment explanation
Indices: 19660788--19660862 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
19660778 TACAAAGAGG
*
19660788 AAAAAAAATAGCTTGTTTAACAAAACCAGAGAGAA
1 AAAAAAAAGAGCTTGTTTAACAAAACCAGAGAGAA
* * **
19660823 AAAAAAAAGAGTTTGTTTGACAAAACGGGAGAGAA
1 AAAAAAAAGAGCTTGTTTAACAAAACCAGAGAGAA
19660858 AAAAA
1 AAAAA
19660863 TCTGTTAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.57, C:0.08, G:0.19, T:0.16
Consensus pattern (35 bp):
AAAAAAAAGAGCTTGTTTAACAAAACCAGAGAGAA
Found at i:19674110 original size:45 final size:45
Alignment explanation
Indices: 19674059--19674208 Score: 124
Period size: 45 Copynumber: 3.3 Consensus size: 45
19674049 GAAAAGCAGC
19674059 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGT
1 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGT
* *** ** *** * * *
19674104 AGATCTTGTCTTCATGTACCAG-CATGAAGTAGATCAAAAGTAA-C
1 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC-AAAGAAAGT
*
19674148 AAATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGGAAAAAGT
1 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAA-G--AAAGT
*
19674196 AGATCTTGTCTTC
1 AGATCTTGCCTTC
19674209 ATGTACTGGC
Statistics
Matches: 72, Mismatches: 27, Indels: 9
0.67 0.25 0.08
Matches are distributed among these distances:
44 27 0.38
45 32 0.44
47 2 0.03
48 11 0.15
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGT
Found at i:19674163 original size:89 final size:91
Alignment explanation
Indices: 19674061--19674233 Score: 296
Period size: 92 Copynumber: 1.9 Consensus size: 91
19674051 AAAGCAGCAG
19674061 ATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAA-G-AAAGTAGATCTTGTCTTCATGTACC
1 ATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGGAAAAGTAGATCTTGTCTTCATGTACC
19674124 AGCATGAAGTAGATCAAAAGTAACAA
66 AGCATGAAGTAGATCAAAAGTAACAA
19674150 ATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGGAAAAAGTAGATCTTGTCTTCATGTAC
1 ATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGG-AAAAGTAGATCTTGTCTTCATGTAC
** *
19674215 TGGCGTGAAGTAGATCAAA
65 CAGCATGAAGTAGATCAAA
19674234 GACATCAGGT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
89 37 0.47
90 1 0.01
92 40 0.51
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (91 bp):
ATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGGAAAAGTAGATCTTGTCTTCATGTACC
AGCATGAAGTAGATCAAAAGTAACAA
Found at i:19676015 original size:3 final size:3
Alignment explanation
Indices: 19676009--19676038 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
19675999 TTTTAACTGT
19676009 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19676039 AACATTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:19679897 original size:19 final size:19
Alignment explanation
Indices: 19679842--19679899 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
19679832 TGGCATAGGA
* *
19679842 GTGCATCTTGACGTACAAG
1 GTGCATCTTGGCGCACAAG
* * *
19679861 ATGCATACCTGGCACACAAG
1 GTGCAT-CTTGGCGCACAAG
19679881 GTGCATCTTGGCGCACAAG
1 GTGCATCTTGGCGCACAAG
19679900 CGTATATCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (19 bp):
GTGCATCTTGGCGCACAAG
Found at i:19680258 original size:243 final size:243
Alignment explanation
Indices: 19679830--19680305 Score: 684
Period size: 243 Copynumber: 2.0 Consensus size: 243
19679820 TATTAACTTG
* * * * * * *
19679830 ACTGGCATAGGAGTGCATCTTGACGTACAAGATGCATACCTGGCACACAAGGTGCATCTTGGCGC
1 ACTGGCATAGAAGTACATCCTGACGTACAAGACGCATACCTGACACACAAGGTACAGCTTGGCGC
* * * *
19679895 ACAAGCGTATATCTAGTACATGAAATGCATCCTGGCGTTTAAACACATAATCCCGTACTTAATCC
66 ACAAGCGTATATCTAGCACATGAAATGCATCCTGGCGTATAAACACATAATCCCATACTCAATCC
* *
19679960 AATCCTATGGCATGCCAACCATATCCAACTCAATTCCACTAGTTAATAGGGTATCAAATTTCAAT
131 AATCCTATGACATGCCAACCATATCCAACTCAATCCCACTAGTTAATAGGGTATCAAATTTCAAT
*
19680025 TCCATTTAGAATATAATACACATATCAATTTTTCAATCAACACACCAA
196 TCCATTTAGAATATAATACACATATCAAATTTTCAATCAACACACCAA
* * *
19680073 ACTGGCATCGAAGTACATCCTGACGTACAAGACGCATACCTGATACACAAGGTACAGCTTGGTGC
1 ACTGGCATAGAAGTACATCCTGACGTACAAGACGCATACCTGACACACAAGGTACAGCTTGGCGC
* * * * *
19680138 ATAAGTGTATATCTAGCACATGAAATGCATCCTGGGGTATAAGCGCATAATCCCATACTCAATCC
66 ACAAGCGTATATCTAGCACATGAAATGCATCCTGGCGTATAAACACATAATCCCATACTCAATCC
** *
19680203 AATCCTATGACATGCCAATTATATCCAACTCAA-CCCGACTAGTTAATAGGGTATCAAATTTTAA
131 AATCCTATGACATGCCAACCATATCCAACTCAATCCC-ACTAGTTAATAGGGTATCAAATTTCAA
** *
19680267 TTCTGTTTAGAGTATAATACACATATCAAATTTTCAATC
195 TTCCATTTAGAATATAATACACATATCAAATTTTCAATC
19680306 CTATACACTA
Statistics
Matches: 204, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
242 2 0.01
243 202 0.99
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (243 bp):
ACTGGCATAGAAGTACATCCTGACGTACAAGACGCATACCTGACACACAAGGTACAGCTTGGCGC
ACAAGCGTATATCTAGCACATGAAATGCATCCTGGCGTATAAACACATAATCCCATACTCAATCC
AATCCTATGACATGCCAACCATATCCAACTCAATCCCACTAGTTAATAGGGTATCAAATTTCAAT
TCCATTTAGAATATAATACACATATCAAATTTTCAATCAACACACCAA
Found at i:19681262 original size:20 final size:20
Alignment explanation
Indices: 19681239--19681278 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19681229 TTAATTAACA
*
19681239 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
*
19681259 TAATAAACCTTATTTTAATT
1 TAATAAACCTTACTTTAATT
19681279 AAGTTATTAA
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:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:19687870 original size:118 final size:118
Alignment explanation
Indices: 19687662--19687889 Score: 368
Period size: 118 Copynumber: 1.9 Consensus size: 118
19687652 GAAATACTAT
* *
19687662 CGAGCCATACCTACTGAATCTACTGAAATGTATGTGCTATTGAGCCATACCTAATGATTTACTGA
1 CGAGCCATACCTACTGAATCTACTGAAATGTATGTGCTATCGAGCCATACCTAATAATTTACTGA
* *
19687727 AATGTATGCGCTATTGAGCCATACCTACTGATTCTAATGAAAGTATGCTTTAG
66 AATGTATGCGCTATCGAGCCATACCTACCGATTCTAATGAAAGTATGCTTTAG
* *
19687780 CGAGCCATACCTACTGAATTTACTGAAATGTATGTGCTATCGAGCCATACCTACTAATTCTACTG
1 CGAGCCATACCTACTGAATCTACTGAAATGTATGTGCTATCGAGCCATACCTAATAATT-TACTG
* *
19687845 AAA-GTATGCTCTATCGAGCCATACCTACCGATTCTATTGAAAGTA
65 AAATGTATGCGCTATCGAGCCATACCTACCGATTCTAATGAAAGTA
19687890 GCTCAAACGA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
118 93 0.92
119 8 0.08
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (118 bp):
CGAGCCATACCTACTGAATCTACTGAAATGTATGTGCTATCGAGCCATACCTAATAATTTACTGA
AATGTATGCGCTATCGAGCCATACCTACCGATTCTAATGAAAGTATGCTTTAG
Found at i:19687872 original size:79 final size:78
Alignment explanation
Indices: 19687658--19687886 Score: 309
Period size: 79 Copynumber: 2.9 Consensus size: 78
19687648 AGTTGAAATA
* *
19687658 CTATCGAGCCATACCTACTGAA-TCTACTGAAATGTATG-TGCTATTGAGCCATACCTAATGATT
1 CTATCGAGCCATACCTACT-AATTCTACTGAAA-GTATGCT-CTATCGAGCCATACCTACTGATT
19687721 TACTGAAATGTATGCG
63 TACTGAAATGTATGCG
* * * * *
19687737 CTATTGAGCCATACCTACTGATTCTAATGAAAGTATGCTTTAGCGAGCCATACCTACTGAATTTA
1 CTATCGAGCCATACCTACTAATTCTACTGAAAGTATGCTCTATCGAGCCATACCTACTG-ATTTA
*
19687802 CTGAAATGTATGTG
65 CTGAAATGTATGCG
*
19687816 CTATCGAGCCATACCTACTAATTCTACTGAAAGTATGCTCTATCGAGCCATACCTACCGATTCTA
1 CTATCGAGCCATACCTACTAATTCTACTGAAAGTATGCTCTATCGAGCCATACCTACTGATT-TA
*
19687881 TTGAAA
65 CTGAAA
19687887 GTAGCTCAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 25 0.19
79 106 0.81
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (78 bp):
CTATCGAGCCATACCTACTAATTCTACTGAAAGTATGCTCTATCGAGCCATACCTACTGATTTAC
TGAAATGTATGCG
Found at i:19687887 original size:39 final size:40
Alignment explanation
Indices: 19687658--19687893 Score: 290
Period size: 39 Copynumber: 6.0 Consensus size: 40
19687648 AGTTGAAATA
*
19687658 CTATCGAGCCATACCTACTGAATCTACTGAAATGTATG-T
1 CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCT
* * *
19687697 GCTATTGAGCCATACCTAATGATT-TACTGAAATGTATGCG
1 -CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCT
* *
19687737 CTATTGAGCCATACCTACTGATTCTAATGAAA-GTATGCT
1 CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCT
* *
19687776 TTAGCGAGCCATACCTACTGAATT-TACTGAAATGTATG-T
1 CTATCGAGCCATACCTACTG-ATTCTACTGAAATGTATGCT
*
19687815 GCTATCGAGCCATACCTACTAATTCTACTGAAA-GTATGCT
1 -CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCT
* *
19687855 CTATCGAGCCATACCTACCGATTCTATTGAAA-GTA-GCT
1 CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCT
19687893 C
1 C
19687894 AAACGAGCAC
Statistics
Matches: 172, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
38 4 0.02
39 107 0.62
40 61 0.35
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (40 bp):
CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCT
Found at i:19689836 original size:24 final size:24
Alignment explanation
Indices: 19689804--19689859 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
19689794 GCAAACAGTT
19689804 ATTAAACACTATTTATTTGCTTTC
1 ATTAAACACTATTTATTTGCTTTC
* *
19689828 ATTAAACACTATTTGTTTGCTTTT
1 ATTAAACACTATTTATTTGCTTTC
*
19689852 AGTAAACA
1 ATTAAACA
19689860 TTTAAGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (24 bp):
ATTAAACACTATTTATTTGCTTTC
Found at i:19694550 original size:19 final size:18
Alignment explanation
Indices: 19694526--19694569 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
19694516 TAATGATTAC
19694526 TTAAATTAATTATATAAAA
1 TTAAATTAATTAT-TAAAA
**
19694545 TTAAATTTTTTATTAAAA
1 TTAAATTAATTATTAAAA
19694563 -TAAATTA
1 TTAAATTA
19694570 TATAAATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTAATTATTAAAA
Found at i:19695480 original size:24 final size:24
Alignment explanation
Indices: 19695424--19695471 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19695414 AAGGTCAGTA
19695424 ATTCATATTTCTCTCTCTCTCTCT
1 ATTCATATTTCTCTCTCTCTCTCT
19695448 ATTCATATTTCTCTCTCTCTCTCT
1 ATTCATATTTCTCTCTCTCTCTCT
19695472 CTCTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTCATATTTCTCTCTCTCTCTCT
Found at i:19705878 original size:17 final size:18
Alignment explanation
Indices: 19705847--19705880 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19705837 AATTTAACTT
19705847 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
19705865 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
19705881 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:19706076 original size:20 final size:21
Alignment explanation
Indices: 19706051--19706089 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
19706041 CCGAACCCCG
19706051 AGATTTAAG-GTTTGGGTTTA
1 AGATTTAAGAGTTTGGGTTTA
*
19706071 AGATTTAAGATTTTGGGTT
1 AGATTTAAGAGTTTGGGTT
19706090 CGAAATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
AGATTTAAGAGTTTGGGTTTA
Found at i:19708898 original size:3 final size:3
Alignment explanation
Indices: 19708877--19708915 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
19708867 TAATTCTCTC
* * *
19708877 TTA TTA ATA TTA ATA TTA TTA TTA TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19708916 AGTGTAGAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:19711560 original size:20 final size:18
Alignment explanation
Indices: 19711510--19711561 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
19711500 CTTGTAGATA
19711510 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
19711527 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
19711547 AATATTAAATTAATA
1 AATATTAAATTAATA
19711562 AACTACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:19718756 original size:16 final size:16
Alignment explanation
Indices: 19718735--19718768 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19718725 CTATGCATGA
* *
19718735 AAAATATAAAAGTCAG
1 AAAATACAAAAGACAG
19718751 AAAATACAAAAGACAG
1 AAAATACAAAAGACAG
19718767 AA
1 AA
19718769 TCGTGAAATG
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:0.68, C:0.09, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:19724678 original size:25 final size:25
Alignment explanation
Indices: 19724650--19724698 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
19724640 CTGTTTTTGA
*
19724650 TAGTATATCCTGAAACTACTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
19724675 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
19724699 TTAGACTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:19736287 original size:12 final size:12
Alignment explanation
Indices: 19736270--19736294 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19736260 TATTCATGAA
19736270 TTTGTACATTCT
1 TTTGTACATTCT
19736282 TTTGTACATTCT
1 TTTGTACATTCT
19736294 T
1 T
19736295 CGGTACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTGTACATTCT
Found at i:19737058 original size:6 final size:6
Alignment explanation
Indices: 19737006--19737057 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
19736996 AATTCAAAAA
*
19737006 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAAC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
19737054 AAAA
1 AAAA
19737058 ATAAGAAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:19737107 original size:40 final size:40
Alignment explanation
Indices: 19737030--19737109 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
19737020 AATCAAAATC
*
19737030 AAAATCAAAATCAAAATCAAAAACAAAAATAAGAAAGAGA
1 AAAATCAAAATCAAAATCAAAAACAAAAATAAAAAAGAGA
* * **
19737070 AAAATCGAAATCAAAGTC-AAAATGAAAATGAAAAAAGAGA
1 AAAATCAAAATCAAAATCAAAAACAAAAAT-AAAAAAGAGA
19737110 GAAGGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 9 0.26
40 25 0.74
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (40 bp):
AAAATCAAAATCAAAATCAAAAACAAAAATAAAAAAGAGA
Found at i:19737117 original size:21 final size:20
Alignment explanation
Indices: 19737088--19737136 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
19737078 AATCAAAGTC
* *
19737088 AAAATGAAAATGAAAAAAGAG
1 AAAAGGAAAAAGAAAAAAG-G
*
19737109 AGAAGGAAAAAAGAAAAAAGG
1 AAAAGG-AAAAAGAAAAAAGG
19737130 AAAAGGA
1 AAAAGGA
19737137 GAGGCCAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 12 0.52
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.04
Consensus pattern (20 bp):
AAAAGGAAAAAGAAAAAAGG
Found at i:19737119 original size:15 final size:15
Alignment explanation
Indices: 19737094--19737133 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
19737084 AGTCAAAATG
* *
19737094 AAAATGAAAAAAGAG
1 AAAAGGAAAAAAGAA
*
19737109 AGAAGGAAAAAAGAA
1 AAAAGGAAAAAAGAA
19737124 AAAAGGAAAA
1 AAAAGGAAAA
19737134 GGAGAGGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAAGGAAAAAAGAA
Found at i:19738197 original size:42 final size:42
Alignment explanation
Indices: 19738103--19738198 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
19738093 TTGATCAGGA
*
19738103 CATGAGGTGATTAGAGCAATTCAAATTCTAATCAGAGTGGGG
1 CATGAGGTGATCAGAGCAATTCAAATTCTAATCAGAGTGGGG
* * * * *
19738145 CATGAAGTGATCAGAGCAATTTAAATTTTGATCAGATTGGGG
1 CATGAGGTGATCAGAGCAATTCAAATTCTAATCAGAGTGGGG
*
19738187 CATGTGGTGATC
1 CATGAGGTGATC
19738199 TTGTTATACC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.29
Consensus pattern (42 bp):
CATGAGGTGATCAGAGCAATTCAAATTCTAATCAGAGTGGGG
Found at i:19739650 original size:88 final size:88
Alignment explanation
Indices: 19739291--19739917 Score: 759
Period size: 88 Copynumber: 7.2 Consensus size: 88
19739281 CAGATCAGTG
* * * * *
19739291 AAGATAGCAGATCTTGCCTTCTTGCATCGACAGTGAAGTAGATCGAAAG-CA-AAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATC-AAAGACACAAGCCTTGCCTC
* *
19739354 CATCGGTTGCAGTGGAGCGGGTTA
65 CCTCGGTTGCAGTGGAGCAGGTTA
* * * * * *
19739378 AAGATAGCAGATTTTGCCTTCTTGCATCGACAGCGAAACAGATCGAAAG-TA-AAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATC-AAAGACACAAGCCTTGCCTC
* *
19739441 CATCGGTTGCAGTGGAGCTGGTTA
65 CCTCGGTTGCAGTGGAGCAGGTTA
* * *
19739465 AAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAA-ACA-AAGCCTTGCC-C
1 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATC-AAAGACACAAGCCTTGCCTC
*
19739527 CCTCGGTTGCAGTGGAGTAGGTTA
65 CCTCGGTTGCAGTGGAGCAGGTTA
* * * ** *
19739551 AAAATAACAGATCTTGCCTTCCTGTGTAGACAGCGAAGCAGATCAAAGACACTGGCCTCGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCC
19739616 CTCGGTTGCAGTGGAGCAGGTTGA
66 CTCGGTTGCAGTGGAGCAGGTT-A
* * *
19739640 AA-ATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCT
1 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCC
**
19739704 CTCGGTTGCAGTGGAGTGGGTTA
66 CTCGGTTGCAGTGGAGCAGGTTA
* * * * *
19739727 AAGGTAGCAGATCTTGCCTTCCTACGTAGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCC
* *
19739792 CTTGGTTGCAGTGGAGCGGGTTA
66 CTCGGTTGCAGTGGAGCAGGTTA
* * * *
19739815 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAACGAAGAAGATCGAAGACACAAGCCTCGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCC
* *
19739880 ATCGGTTG-AGTGGAGCAGGTTG
66 CTCGGTTGCAGTGGAGCAGGTTA
*
19739902 AAGATATCAGATCTTG
1 AAGATAGCAGATCTTG
19739918 TCTCCCTAAG
Statistics
Matches: 482, Mismatches: 52, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
85 3 0.01
86 63 0.13
87 172 0.36
88 241 0.50
89 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGCGTAGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCC
CTCGGTTGCAGTGGAGCAGGTTA
Found at i:19739701 original size:44 final size:44
Alignment explanation
Indices: 19739563--19739877 Score: 122
Period size: 44 Copynumber: 7.2 Consensus size: 44
19739553 AATAACAGAT
* * **
19739563 CTTGCCTTCCTGTGTAGACAGCGAAGCAGATCAAAGACACTGGC
1 CTTGCCTTCCTGCGTAGACAGCGAAGCAGATCGAAGACACCAGC
* * * * * * * * * * *
19739607 CTCGCCTCCCT-CGGTTG-CAGTGGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTTCCTGC-GTAGACAGCGAAGCAGATCGAAGACACCAG-C
19739651 CTTGCCTTCCTGCGTAGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCGTAGACAGCGAAGCAGATCGAAGACACCAGC
* * * ** * ** ** * *
19739695 CTTGCC-TCTCT-CGGTTG-CAGTGGAGTGGGTTAAAGGTAGCAGAT
1 CTTGCCTTC-CTGC-GTAGACAGCGAAGCAGATCGAAGACACCAG-C
* *
19739739 CTTGCCTTCCTACGTAGATAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCGTAGACAGCGAAGCAGATCGAAGACACCAGC
* * * * * * ** * * *
19739783 CTTGCCTCCCTTG-GTTG-CAGTGGAGCGGGTTAAAGATAGCAGAT
1 CTTGCCTTCC-TGCGTAGACAGCGAAGCAGATCGAAGACACCAG-C
* * *
19739827 CTTGCCTTCCTGCGTAGACAACGAAGAAGATCGAAGACACAAGC
1 CTTGCCTTCCTGCGTAGACAGCGAAGCAGATCGAAGACACCAGC
*
19739871 CTCGCCT
1 CTTGCCT
19739878 CCATCGGTTG
Statistics
Matches: 178, Mismatches: 79, Indels: 28
0.62 0.28 0.10
Matches are distributed among these distances:
43 51 0.29
44 76 0.43
45 51 0.29
ACGTcount: A:0.25, C:0.26, G:0.27, T:0.22
Consensus pattern (44 bp):
CTTGCCTTCCTGCGTAGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:19747284 original size:52 final size:53
Alignment explanation
Indices: 19747182--19747287 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
19747172 ATATGTATGG
19747182 TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
1 TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
19747235 TAGTTTTTGTGTATATCTCTTTC-TTTTTAATTAGGAGATTAGATGCTAAAGT
1 TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
19747287 T
1 T
19747288 TAGGAGATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.57
53 23 0.43
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.51
Consensus pattern (53 bp):
TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
Found at i:19751835 original size:52 final size:53
Alignment explanation
Indices: 19751733--19751838 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
19751723 ATATGTATGG
19751733 TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
1 TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
19751786 TAGTTTTTGTGTATATCTCTTTC-TTTTTAATTAGGAGATTAGATGCTAAAGT
1 TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
19751838 T
1 T
19751839 TAGGAGATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.57
53 23 0.43
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.51
Consensus pattern (53 bp):
TAGTTTTTGTGTATATCTCTTTCTTTTTTAATTAGGAGATTAGATGCTAAAGT
Found at i:19752910 original size:70 final size:70
Alignment explanation
Indices: 19752772--19752902 Score: 174
Period size: 70 Copynumber: 1.9 Consensus size: 70
19752762 ACACATATGA
* * * * *
19752772 TATTGTTGGTTTATCTGACTAGTGCTGGACGCAAACCATTTTCGGCTATCCGACTAGTGCAAGAC
1 TATTGTCGGTTTATCCGACTAGTACTGGACGCAAAACATTATCGGCTATCCGACTAGTGCAAGAC
19752837 ACACC
66 ACACC
* * *
19752842 TATTGTCGGTTTATCCGACTAGTACTAGG-CGCAAAATATTATCGGTTATCTGACTAGTGCA
1 TATTGTCGGTTTATCCGACTAGTACT-GGACGCAAAACATTATCGGCTATCCGACTAGTGCA
19752903 GGGCACACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 50 0.96
71 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (70 bp):
TATTGTCGGTTTATCCGACTAGTACTGGACGCAAAACATTATCGGCTATCCGACTAGTGCAAGAC
ACACC
Found at i:19752924 original size:70 final size:70
Alignment explanation
Indices: 19752780--19752933 Score: 166
Period size: 70 Copynumber: 2.2 Consensus size: 70
19752770 GATATTGTTG
* * * *
19752780 GTTTATCTGACTAGTGCTGGACGCAAACCATTTTCGGCTATCCGACTAGTGCAAGACACACCTAT
1 GTTTATCCGACTAGTACTGGACGCAAAACATTATCGGCTATCCGACTAGTGCAAGACACACCTAT
** *
19752845 TGTCG
66 CATCA
* * * * * *
19752850 GTTTATCCGACTAGTACTAGG-CGCAAAATATTATCGGTTATCTGACTAGTGCAGGGCACACTTA
1 GTTTATCCGACTAGTACT-GGACGCAAAACATTATCGGCTATCCGACTAGTGCAAGACACACCTA
19752914 TCATCA
65 TCATCA
*
19752920 GTTTATTCGACTAG
1 GTTTATCCGACTAG
19752934 CGTTGAGTGC
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
70 67 0.97
71 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (70 bp):
GTTTATCCGACTAGTACTGGACGCAAAACATTATCGGCTATCCGACTAGTGCAAGACACACCTAT
CATCA
Found at i:19753344 original size:12 final size:12
Alignment explanation
Indices: 19753323--19753360 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
19753313 TTACGAGAAT
*
19753323 ATTGTGTACTAA
1 ATTGTATACTAA
19753335 ATTGTATACTAA
1 ATTGTATACTAA
*
19753347 ATTGTATATTAA
1 ATTGTATACTAA
19753359 AT
1 AT
19753361 AGAATCGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (12 bp):
ATTGTATACTAA
Found at i:19760017 original size:20 final size:18
Alignment explanation
Indices: 19759970--19760018 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
19759960 ATAGATAAAC
19759970 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
19759987 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
19760007 ATTAAATTAATA
1 ATTAAATTAATA
19760019 AAATATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:19768604 original size:5 final size:5
Alignment explanation
Indices: 19768594--19768621 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
19768584 TTATCATGTT
19768594 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
19768622 GAACAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19770051 original size:34 final size:33
Alignment explanation
Indices: 19769977--19770051 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
19769967 AATATTGTTT
*
19769977 AATATAAATTAATTTTAATATTTTTCATTAATCA
1 AATATAAATTAATTTAAATATTTTT-ATTAATCA
*
19770011 ATTATAAA-TAATTTAAATAATTATTT-TTAATACA
1 AATATAAATTAATTTAAAT-ATT-TTTATTAAT-CA
19770045 AATATAA
1 AATATAA
19770052 TTTTATTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
33 14 0.40
34 18 0.51
35 3 0.09
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (33 bp):
AATATAAATTAATTTAAATATTTTTATTAATCA
Found at i:19773276 original size:14 final size:14
Alignment explanation
Indices: 19773257--19773284 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19773247 TTTTTTTAAT
19773257 GATACTATTCTAAC
1 GATACTATTCTAAC
19773271 GATACTATTCTAAC
1 GATACTATTCTAAC
19773285 ATGCAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:19774610 original size:62 final size:62
Alignment explanation
Indices: 19774466--19774699 Score: 342
Period size: 62 Copynumber: 3.7 Consensus size: 62
19774456 CAACATTACA
* * * *
19774466 ACATTAGAACACTAAAACTTGTAACAAAATTTGTAATATAAATTTTGTTTGTAATATAAATTAAA
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTG--T-T-ATATAAATTAAA
19774531 T
62 T
19774532 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
* *
19774594 ACATTACAACATTAAAAATTGGAACAAACTTTGTAACATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
* * * *
19774656 ACATTAGAGCATTAAAAATTAGAACAAACTTTGTAATATAAATT
1 ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATT
19774700 AGGTACATTG
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
62 113 0.72
63 1 0.01
64 1 0.01
66 43 0.27
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (62 bp):
ACATTACAACACTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
Found at i:19786938 original size:21 final size:21
Alignment explanation
Indices: 19786905--19786957 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
19786895 CATTGTTTCT
** * *
19786905 AATCTCATTGCTATAGTATCC
1 AATCTCACCGCTACAGTAGCC
* *
19786926 AGTCTCACCGCTACAGTAGCT
1 AATCTCACCGCTACAGTAGCC
19786947 AATCTCACCGC
1 AATCTCACCGC
19786958 CACCGCTGTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.28
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAGCC
Found at i:19787121 original size:45 final size:45
Alignment explanation
Indices: 19787057--19787145 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
19787047 AACAGATACT
*
19787057 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
19787102 CGGTGGAATT-AGCATATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGG-ATTCAGCACATAGCAACCACCTTACTAATCAATGATGT
19787146 TCAGTTCACA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 38 0.93
46 3 0.07
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:19787227 original size:51 final size:51
Alignment explanation
Indices: 19787152--19787342 Score: 242
Period size: 51 Copynumber: 3.8 Consensus size: 51
19787142 ATGTTCAGTT
* * * *
19787152 CACACAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCTGGTA
* * ** *
19787203 CACATAGTAGCTTGCACATAGTACTACACACGTGATCAAAACTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCTGGTA
* * *
19787254 CACATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TCTGGTA
*
19787304 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
19787343 CACTTTCACT
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.35
51 75 0.64
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCTGGTA
Found at i:19787362 original size:101 final size:101
Alignment explanation
Indices: 19787152--19787341 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 101
19787142 ATGTTCAGTT
* * *
19787152 CACACAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACATAGTAGCTTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTAGCCTG
* **
19787217 CACATAGTACTACACACGTGATCAAAACTATCTGGTA
65 CACATAGTACTACACACGTGACCAAAACTATCACGTA
* * * *
19787254 CACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCTGGTACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTAGCCTG
19787318 CACATAGTACTACACACGTGACCA
65 CACATAGTACTACACACGTGACCA
19787342 TCACTTTCAC
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 35 0.44
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAGCCTGC
ACATAGTACTACACACGTGACCAAAACTATCACGTA
Found at i:19789213 original size:66 final size:62
Alignment explanation
Indices: 19788921--19789213 Score: 421
Period size: 62 Copynumber: 4.7 Consensus size: 62
19788911 CAATGTACCT
* *
19788921 AATTTATATTACAAAGTTTGTTCCAA---TTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAAAAA
* *
19788980 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAAAAA
*
19789042 AATTTACATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAAAAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAAAAA
* *
19789104 AACTTATATTATAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATTACAAAGA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATA-TA-AAA-A
* * * * *
19789169 AATTTTATATTATAAATTTTGTTACAAGTTTTAGTGTTTTAATGT
1 AA-TTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGT
19789214 TGTAATGTTG
Statistics
Matches: 216, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
59 26 0.12
62 145 0.67
63 2 0.01
64 3 0.01
65 3 0.01
66 37 0.17
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAAAAA
Found at i:19790487 original size:14 final size:14
Alignment explanation
Indices: 19790468--19790502 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
19790458 CAAATTACAT
19790468 GTTAGAATAGTATC
1 GTTAGAATAGTATC
19790482 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
19790496 ATTAGAA
1 GTTAGAA
19790503 AAAAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:19792954 original size:52 final size:50
Alignment explanation
Indices: 19792892--19792988 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
19792882 ATAATTCTTG
*
19792892 CAACATGCCATTTAGGTTTTTTAAAAAAAAATAATATTTGGGTAAAAAAACC
1 CAACATGCCATTTAGGGTTTTT--AAAAAAATAATATTTGGGTAAAAAAACC
*
19792944 CAACATGCCATTTAGGGTTTTTAAAAAAATATTATTTGGGTAAAA
1 CAACATGCCATTTAGGGTTTTTAAAAAAATAATATTTGGGTAAAA
19792989 CACCCCGTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 22 0.51
52 21 0.49
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (50 bp):
CAACATGCCATTTAGGGTTTTTAAAAAAATAATATTTGGGTAAAAAAACC
Found at i:19794543 original size:25 final size:24
Alignment explanation
Indices: 19794509--19794561 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
19794499 ATATGGAAAG
*
19794509 AAATAACAAAGATTTTTATACTAAT
1 AAATAACAAAGA-TATTATACTAAT
* * *
19794534 AAATATCAAATATATTATGCTAAT
1 AAATAACAAAGATATTATACTAAT
19794558 AAAT
1 AAAT
19794562 GCTAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATAACAAAGATATTATACTAAT
Found at i:19794556 original size:24 final size:24
Alignment explanation
Indices: 19794524--19794576 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
19794514 ACAAAGATTT
* *
19794524 TTATACTAATAAAT-ATCAAATATA
1 TTATGCTAATAAATGCT-AAATATA
19794548 TTATGCTAATAAATGCTAAATATA
1 TTATGCTAATAAATGCTAAATATA
19794572 TTATG
1 TTATG
19794577 TTAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (24 bp):
TTATGCTAATAAATGCTAAATATA
Found at i:19795244 original size:12 final size:12
Alignment explanation
Indices: 19795222--19795258 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
19795212 AGATCATCAA
19795222 AACTTTCATCTTC
1 AACTTT-ATCTTC
*
19795235 ATCTTTATCTTC
1 AACTTTATCTTC
19795247 AACTTTATCTTC
1 AACTTTATCTTC
19795259 TCAATCGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (12 bp):
AACTTTATCTTC
Found at i:19805158 original size:29 final size:30
Alignment explanation
Indices: 19805126--19805193 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
19805116 AAAAAACCCT
19805126 AAAATCCTAAACTCAT-ATTTA-TTTTTTAA
1 AAAATCCTAAAC-CATAATTTATTTTTTTAA
* * *
19805155 AAAA-CATAAACCTTAATTTATTTTTTTCA
1 AAAATCCTAAACCATAATTTATTTTTTTAA
19805184 AAAATCCTAA
1 AAAATCCTAA
19805194 CCCTAAACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.06
28 11 0.34
29 15 0.47
30 4 0.12
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAATCCTAAACCATAATTTATTTTTTTAA
Found at i:19805242 original size:27 final size:29
Alignment explanation
Indices: 19805205--19805263 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
19805195 CCTAAACCTT
19805205 AAAATCCTAAACCC-AACTTA-ATTTTCA
1 AAAATCCTAAACCCTAACTTATATTTTCA
* *
19805232 AAAATCCTAAACCCTAATTTATTTTTTCA
1 AAAATCCTAAACCCTAACTTATATTTTCA
19805261 AAA
1 AAA
19805264 GCCTTACCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 14 0.50
28 5 0.18
29 9 0.32
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATCCTAAACCCTAACTTATATTTTCA
Found at i:19805257 original size:78 final size:78
Alignment explanation
Indices: 19805119--19805263 Score: 202
Period size: 78 Copynumber: 1.9 Consensus size: 78
19805109 ACCTATTAAA
* * * * *
19805119 AAACCCTAAAATCCTAAACTCATATTTATTTTTTAAAAAACATAAACCTTAATTTATTTTTTTCA
1 AAACCCTAAAATCCTAAACCCATACTTAATTTTCAAAAAACATAAACCCTAATTTA-TTTTTTCA
19805184 AAAATCCTAACCCT
65 AAAATCCTAACCCT
* * *
19805198 AAACCTTAAAATCCTAAACCCA-ACTTAATTTTCAAAAATCCTAAACCCTAATTTATTTTTTCAA
1 AAACCCTAAAATCCTAAACCCATACTTAATTTTCAAAAAACATAAACCCTAATTTATTTTTTCAA
19805262 AA
66 AA
19805264 GCCTTACCCA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 11 0.19
78 27 0.47
79 20 0.34
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (78 bp):
AAACCCTAAAATCCTAAACCCATACTTAATTTTCAAAAAACATAAACCCTAATTTATTTTTTCAA
AAATCCTAACCCT
Found at i:19805469 original size:26 final size:27
Alignment explanation
Indices: 19805440--19805496 Score: 62
Period size: 29 Copynumber: 2.1 Consensus size: 27
19805430 CGTTTTGAGT
* **
19805440 TTTTTAGT-CCATTTCGGTAAATAATA
1 TTTTAAGTGCCATTTCCATAAATAATA
19805466 TTTTAAGTGGCCCATTTCCATAAATAATA
1 TTTTAAGT-G-CCATTTCCATAAATAATA
19805495 TT
1 TT
19805497 AGAAATCGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 7 0.28
29 18 0.72
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (27 bp):
TTTTAAGTGCCATTTCCATAAATAATA
Found at i:19805650 original size:14 final size:14
Alignment explanation
Indices: 19805631--19805660 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19805621 GTTTGACCAA
19805631 AAGAATTCATTTTC
1 AAGAATTCATTTTC
19805645 AAGAATTCATTTTC
1 AAGAATTCATTTTC
19805659 AA
1 AA
19805661 AAACACGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (14 bp):
AAGAATTCATTTTC
Found at i:19805774 original size:16 final size:16
Alignment explanation
Indices: 19805753--19805785 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19805743 GGTCAGCCTC
*
19805753 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
19805769 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
19805785 T
1 T
19805786 TCTCTTCGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:19810248 original size:30 final size:32
Alignment explanation
Indices: 19810208--19810267 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
19810198 AATTAATTTT
* * *
19810208 TTTTTCAAAAT-ATTTAAGTGCCCTTATTATA
1 TTTTTCAAAATAACTTAAGTACCCCTATTATA
19810239 TTTTT-AAAATAACTTAAGTACCCCTATTA
1 TTTTTCAAAATAACTTAAGTACCCCTATTA
19810268 ATTCTAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (32 bp):
TTTTTCAAAATAACTTAAGTACCCCTATTATA
Found at i:19819377 original size:29 final size:29
Alignment explanation
Indices: 19819333--19819389 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
19819323 CTTAATGTCA
**
19819333 CACACGGCTTGTCACACGA-TCGTGTGGCT
1 CACACGGCTTACCACACGACT-GTGTGGCT
19819362 CACACGGCTTACCACACGACTGTGTGGC
1 CACACGGCTTACCACACGACTGTGTGGC
19819390 ATCGATAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.21
Consensus pattern (29 bp):
CACACGGCTTACCACACGACTGTGTGGCT
Found at i:19819889 original size:6 final size:6
Alignment explanation
Indices: 19819876--19819906 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
19819866 AGCAAAAATG
19819876 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
19819907 GAACAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:19821324 original size:17 final size:17
Alignment explanation
Indices: 19821302--19821365 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
19821292 TTAAGGAGAT
19821302 AAAAATAAATAAATAAC
1 AAAAATAAATAAATAAC
**
19821319 AAAAATAAATAAATATG
1 AAAAATAAATAAATAAC
* *
19821336 AAAAATAAACAAATGAC
1 AAAAATAAATAAATAAC
* *
19821353 TAAAATCAATAAA
1 AAAAATAAATAAA
19821366 CCAATCAGGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATAAATAAATAAC
Found at i:19825469 original size:35 final size:35
Alignment explanation
Indices: 19825429--19825502 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
19825419 CCATAAAACA
*
19825429 CCAATGCTTATAAGAGCTAATCTAACCGAAACACG
1 CCAATGCTCATAAGAGCTAATCTAACCGAAACACG
*
19825464 CCAATGCTCATAAGAGCTAATCTAACCGAAATACG
1 CCAATGCTCATAAGAGCTAATCTAACCGAAACACG
19825499 CCAA
1 CCAA
19825503 ATAGAGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.19
Consensus pattern (35 bp):
CCAATGCTCATAAGAGCTAATCTAACCGAAACACG
Found at i:19833859 original size:20 final size:20
Alignment explanation
Indices: 19833821--19833860 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19833811 AATATTTTTC
* *
19833821 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
19833841 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19833861 TCATTTTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19833862 original size:34 final size:35
Alignment explanation
Indices: 19833809--19833875 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
19833799 CAAACACCAG
* * *
19833809 AAAATATTTTTCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
19833844 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19833876 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19833867 original size:14 final size:14
Alignment explanation
Indices: 19833844--19833883 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
19833834 ATAGAAAAGT
*
19833844 AAAACATTTTCCAG
1 AAAACATTTTACAG
*
19833858 AAATCATTTTACAG
1 AAAACATTTTACAG
19833872 AAAACATTTTAC
1 AAAACATTTTAC
19833884 TGGCAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:19840626 original size:11 final size:11
Alignment explanation
Indices: 19840612--19840637 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19840602 AATTTTTTTA
19840612 CGTTTTGAGAT
1 CGTTTTGAGAT
19840623 CGTTTTGAGAT
1 CGTTTTGAGAT
19840634 CGTT
1 CGTT
19840638 GCTTCGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.27, T:0.46
Consensus pattern (11 bp):
CGTTTTGAGAT
Found at i:19841440 original size:43 final size:43
Alignment explanation
Indices: 19841369--19841484 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
19841359 TATGAGTTAT
*
19841369 CGTGTAAGACCACGTCTAGGACGTTGGCATCGACT-TGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCG-CTATGTGATTA
* *
19841412 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGTTATGTGATTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGCTATGTGATTA
* * *
19841455 CGTGTAAGACAACATCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
19841485 TGTACGATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.05
43 58 0.92
44 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGCTATGTGATTA
Found at i:19850069 original size:6 final size:6
Alignment explanation
Indices: 19850058--19850086 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19850048 GTTGGTGGAT
19850058 CTGAGA CTGAGA CTGAGA CTGAGA CTGAG
1 CTGAGA CTGAGA CTGAGA CTGAGA CTGAG
19850087 CTTGAGTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.17
Consensus pattern (6 bp):
CTGAGA
Found at i:19850885 original size:13 final size:13
Alignment explanation
Indices: 19850865--19850894 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19850855 CAAAATATAT
19850865 AAAA-AAAACAAA
1 AAAACAAAACAAA
19850877 AAAACAAAACAAA
1 AAAACAAAACAAA
19850890 AAAAC
1 AAAAC
19850895 TTGCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAACAAA
Found at i:19850975 original size:27 final size:27
Alignment explanation
Indices: 19850945--19851011 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
19850935 CGCCAATGGT
19850945 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
19850972 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
19850999 ATTGGCGGCACCA
1 ATTGGCGGCACCA
19851012 GTTAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:19851064 original size:4 final size:4
Alignment explanation
Indices: 19851055--19851186 Score: 75
Period size: 4 Copynumber: 33.0 Consensus size: 4
19851045 GAAGGAGAGG
* *
19851055 GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA G-AA -AAA GAAG GAAA
1 GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
*
19851103 GAAAA GGAAA G-GA GAAGA GAAA -AAA -AAA GAAA G-AA G-AA G-AA GAAAA
1 G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA
* *
19851149 GGAAAA GAGAA GAAA -AAA GAAA GAAG GAAG GAAA GAAA
1 -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
19851187 AGGAAAGGAG
Statistics
Matches: 106, Mismatches: 8, Indels: 28
0.75 0.06 0.20
Matches are distributed among these distances:
3 24 0.23
4 54 0.51
5 21 0.20
6 7 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:19851084 original size:18 final size:18
Alignment explanation
Indices: 19851063--19851200 Score: 70
Period size: 18 Copynumber: 7.3 Consensus size: 18
19851053 GGGAAAGAAA
19851063 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGGAGAG
*
19851081 GAAAGAAAGAAA-AAGAAG
1 GAAAGAAAGAAAGGAG-AG
19851099 GAAAGAAAAGGAAAGGAGAAG
1 GAAAG-AAA-GAAAGGAG-AG
* * *
19851120 AGAAAAAAAAAGAAAGAAGAA
1 -G--AAAGAAAGAAAGGAGAG
* *
19851141 G-AAGAAAAGGAAAAGAGAA
1 GAAAG-AAA-GAAAGGAGAG
19851160 GAAA-AAAGAAA-GA-AG
1 GAAAGAAAGAAAGGAGAG
* *
19851175 GAAGGAAAGAAAAGGAAAG
1 GAAAGAAAG-AAAGGAGAG
19851194 GAGAAGA
1 GA-AAGA
19851201 GAAAAAAAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 11 0.12
18 27 0.29
19 16 0.17
20 10 0.11
21 6 0.06
22 8 0.09
23 3 0.03
24 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAAAGGAGAG
Found at i:19851103 original size:32 final size:32
Alignment explanation
Indices: 19851046--19851184 Score: 96
Period size: 36 Copynumber: 4.3 Consensus size: 32
19851036 TGGGGGGCAG
* *
19851046 AAGGAG-AGGGAAAGAAAGAAAGAAAGAAAGGA
1 AAGGAGAAGAGAAAAAAAG-AAGAAAGAAAGGA
*
19851078 GAGGA-AAGA-AAGAAAAAGAAGGAAAGAAAAGGA
1 AAGGAGAAGAGAA-AAAAAGAA-GAAAG-AAAGGA
19851111 AAGGAGAAGAGAAAAAAA-AAGAAAGAAGAAGAAGAA
1 AAGGAGAAGAGAAAAAAAGAAGAAAG-A-AAG--G-A
* *
19851147 AAGGAAAAGAGAAGAAAA-AAGAAAG-AAGG-
1 AAGGAGAAGAGAAAAAAAGAAGAAAGAAAGGA
19851176 AAGGA-AAGA
1 AAGGAGAAGA
19851185 AAAGGAAAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 24
0.75 0.05 0.20
Matches are distributed among these distances:
28 4 0.04
29 5 0.05
31 5 0.05
32 23 0.25
33 18 0.20
34 9 0.10
35 3 0.03
36 24 0.26
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (32 bp):
AAGGAGAAGAGAAAAAAAGAAGAAAGAAAGGA
Found at i:19851103 original size:36 final size:37
Alignment explanation
Indices: 19851056--19851215 Score: 162
Period size: 39 Copynumber: 4.1 Consensus size: 37
19851046 AAGGAGAGGG
* *
19851056 AAAGAAAGAAAG-AAA-GAAAGGAGAGGAAAGAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGGAGAGGAAA-AAAAAA
19851092 AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAA
1 AAAGAAGGAAAGAAAAGGAAAGGAG-AG-GAAAAAAAAA
* * *
19851131 GAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAA
1 -AAAGAAGGA-AAGAAAAGGAAAGGAGAGGAAAAAA-AAA
*
19851171 GAAGGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAA
1 -AAAGAAGGAAAGAAAAGGAAAGGAG-AG-GAAAAAAAAA
*
19851211 GAAGA
1 AAAGA
19851216 GGAGGGAAGG
Statistics
Matches: 104, Mismatches: 11, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
36 11 0.11
37 3 0.03
38 8 0.08
39 32 0.31
40 28 0.27
41 22 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (37 bp):
AAAGAAGGAAAGAAAAGGAAAGGAGAGGAAAAAAAAA
Found at i:19851218 original size:23 final size:22
Alignment explanation
Indices: 19851146--19851219 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
19851136 AAGAAGAAGA
* *
19851146 AAAGGAAAAGAGAAGAAAAAAG
1 AAAGGAGAAGAGAAAAAAAAAG
* * *
19851168 AAAGAAGGAAG-GAAAGAAAAGG
1 AAAGGA-GAAGAGAAAAAAAAAG
19851190 AAAGGAGAAGAGAAAAAAAAAG
1 AAAGGAGAAGAGAAAAAAAAAG
19851212 AAGAGGAG
1 AA-AGGAG
19851220 GGAAGGAAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.10
22 29 0.71
23 8 0.20
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (22 bp):
AAAGGAGAAGAGAAAAAAAAAG
Done.