Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold17
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: 1562583
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 255143 characters in sequence are not A, C, G, or T
File 1 of 9
Found at i:6744 original size:10 final size:10
Alignment explanation
Indices: 6729--6837 Score: 55
Period size: 10 Copynumber: 11.7 Consensus size: 10
6719 TAAAAAATTA
6729 TATATATATT
1 TATATATATT
6739 TATATA-ATT
1 TATATATATT
*
6748 T-TTTATATAT
1 TATATATAT-T
6758 TA-ATAT-TT
1 TATATATATT
6766 TATATTATAATT
1 TATA-TAT-ATT
* *
6778 T-TTTATATA
1 TATATATATT
6787 T-TA-ATATT
1 TATATATATT
6795 TAT-TAATATT
1 TATAT-ATATT
6805 TATAT-T-TT
1 TATATATATT
6813 T-TATAT-TT
1 TATATATATT
6821 TATATCATATT
1 TATAT-ATATT
6832 T-TATAT
1 TATATAT
6838 TATGAGTCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 31
0.68 0.05 0.27
Matches are distributed among these distances:
7 3 0.04
8 18 0.23
9 19 0.24
10 30 0.38
11 5 0.06
12 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATATATT
Found at i:6747 original size:20 final size:20
Alignment explanation
Indices: 6713--6763 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6703 TTAATATAAT
* *
6713 TATATTTAAAAAATTATATA
1 TATATTTATATAATTATATA
* *
6733 TATATTTATATAATTTTTTA
1 TATATTTATATAATTATATA
*
6753 TATATTAATAT
1 TATATTTATAT
6764 TTTATATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTATATAATTATATA
Found at i:6766 original size:15 final size:15
Alignment explanation
Indices: 6739--6819 Score: 78
Period size: 15 Copynumber: 5.4 Consensus size: 15
6729 TATATATATT
*
6739 TATA-TAATTTTTTA
1 TATATTAATATTTTA
6753 TATATTAATATTTTA
1 TATATTAATATTTTA
*
6768 TAT-TATAATTTTTTA
1 TATAT-TAATATTTTA
6783 TATATTAATA-TTTA
1 TATATTAATATTTTA
* *
6797 TTAATATTTATATTTTT
1 -T-ATATTAATATTTTA
6814 TATATT
1 TATATT
6820 TTATATCATA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
14 9 0.16
15 34 0.61
16 10 0.18
17 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATATTAATATTTTA
Found at i:6777 original size:30 final size:33
Alignment explanation
Indices: 6741--6818 Score: 119
Period size: 30 Copynumber: 2.5 Consensus size: 33
6731 TATATATTTA
6741 TATAATTTTTTATATATTAATA-TT-TT-ATAT
1 TATAATTTTTTATATATTAATATTTATTAATAT
6771 TATAATTTTTTATATATTAATATTTATTAATAT
1 TATAATTTTTTATATATTAATATTTATTAATAT
6804 T-TATATTTTTTATAT
1 TATA-ATTTTTTATAT
6819 TTTATATCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
30 22 0.50
31 2 0.05
32 4 0.09
33 16 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (33 bp):
TATAATTTTTTATATATTAATATTTATTAATAT
Found at i:6823 original size:7 final size:7
Alignment explanation
Indices: 6748--6838 Score: 51
Period size: 7 Copynumber: 12.3 Consensus size: 7
6738 TTATATAATT
6748 TTTTATA
1 TTTTATA
*
6755 TATTAATA
1 T-TTTATA
6763 TTTTATA
1 TTTTATA
* *
6770 TTATAATT
1 TT-TTATA
6778 TTTTATA
1 TTTTATA
*
6785 TATTAATA
1 T-TTTATA
6793 TTTATTAATA
1 -TT-TT-ATA
*
6803 TTTATATT
1 TTT-TATA
6811 TTTTATA
1 TTTTATA
6818 TTTTATA
1 TTTTATA
*
6825 --TCATA
1 TTTTATA
6830 TTTTATA
1 TTTTATA
6837 TT
1 TT
6839 ATGAGTCTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
5 4 0.06
7 28 0.44
8 23 0.37
9 5 0.08
10 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (7 bp):
TTTTATA
Found at i:6839 original size:40 final size:39
Alignment explanation
Indices: 6737--6837 Score: 94
Period size: 40 Copynumber: 2.5 Consensus size: 39
6727 TATATATATA
* *
6737 TTTATATAATTTTTTATATATTAATATTTTATATTATAAT
1 TTTATAT-ATATTATATATATTAATATTTTATATTATAAT
* * * *
6777 TTTTTATATATTAATATTTATTAATATTTATATTTTTTATAT
1 TTTATATATATT-ATATATATTAATATTT-TATATTATA-AT
*
6819 TTTATATCATATTTTATAT
1 TTTATAT-ATATTATATAT
6838 TATGAGTCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
39 4 0.08
40 20 0.42
41 7 0.15
42 12 0.25
43 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (39 bp):
TTTATATATATTATATATATTAATATTTTATATTATAAT
Found at i:7370 original size:5 final size:5
Alignment explanation
Indices: 7360--7403 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
7350 TTTTAATTTT
*
7360 ATTAA ATTAA ATTAA ATTTAA ATTTAA A-TAA ATTAA ATAAA ATT
1 ATTAA ATTAA ATTAA A-TTAA A-TTAA ATTAA ATTAA ATTAA ATT
7404 TTTAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 20 0.57
6 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:7378 original size:26 final size:26
Alignment explanation
Indices: 7349--7423 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
7339 ATTATTAATT
* * *
7349 ATTTTAATTTTATTAAATTAAATTAA
1 ATTTTAATTTAAATAAATTAAATAAA
*
7375 ATTTAAATTTAAATAAATTAAATAAA
1 ATTTTAATTTAAATAAATTAAATAAA
7401 ATTTTTAAATTTAAACTAAATTA
1 A-TTTT-AATTTAAA-TAAATTA
7424 TTCTAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.56
27 3 0.07
28 8 0.20
29 7 0.17
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTTAATTTAAATAAATTAAATAAA
Found at i:7433 original size:29 final size:28
Alignment explanation
Indices: 7362--7423 Score: 92
Period size: 26 Copynumber: 2.2 Consensus size: 28
7352 TTAATTTTAT
*
7362 TAAATTAAATTAAA--TTTAAATTTAAA
1 TAAATTAAATAAAATTTTTAAATTTAAA
7388 TAAATTAAATAAAATTTTTAAATTTAAA
1 TAAATTAAATAAAATTTTTAAATTTAAA
7416 CTAAATTA
1 -TAAATTA
7424 TTCTAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 13 0.41
28 12 0.38
29 7 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAATTAAATAAAATTTTTAAATTTAAA
Found at i:7608 original size:11 final size:11
Alignment explanation
Indices: 7592--7704 Score: 76
Period size: 11 Copynumber: 10.5 Consensus size: 11
7582 TACAAATTTA
7592 TATATTTATAT
1 TATATTTATAT
7603 TATA-TTA-A-
1 TATATTTATAT
7611 TATATTTATAT
1 TATATTTATAT
*
7622 TAAATTTAT-T
1 TATATTTATAT
7632 ATATATTTATA-
1 -TATATTTATAT
* *
7643 TAAATTT-TAA
1 TATATTTATAT
*
7653 TATATTAATATTT
1 TATATT--TATAT
* *
7666 TATGTTTAGAT
1 TATATTTATAT
*
7677 AATATTTATAT
1 TATATTTATAT
7688 TATATTTTATAT
1 TATA-TTTATAT
*
7700 AATAT
1 TATAT
7705 AATACGTCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
8 4 0.05
9 6 0.08
10 16 0.21
11 35 0.45
12 11 0.14
13 6 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
TATATTTATAT
Found at i:7638 original size:22 final size:22
Alignment explanation
Indices: 7589--7664 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 22
7579 GCTTACAAAT
*
7589 TTATATATTTATATTATA-TTA
1 TTATATATTTATATTAAATTTA
7610 --ATATATTTATATTAAATTTA
1 TTATATATTTATATTAAATTTA
7630 TTATATATTTATA-TAAATTT-
1 TTATATATTTATATTAAATTTA
* *
7650 TAATATATTAATATT
1 TTATATATTTATATT
7665 TTATGTTTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.31
20 14 0.29
21 8 0.17
22 11 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATATTTATATTAAATTTA
Found at i:7673 original size:22 final size:21
Alignment explanation
Indices: 7591--7700 Score: 84
Period size: 22 Copynumber: 5.2 Consensus size: 21
7581 TTACAAATTT
*
7591 ATATATTTATATTATA--TTA
1 ATATATTAATATTATATTTTA
* * *
7610 ATATATTTATATTAAATTTATT
1 ATATATTAATATTATATTT-TA
* *
7632 ATATATTTATA-TAAATTTTA
1 ATATATTAATATTATATTTTA
*
7652 ATATATTAATATTTTATGTTTA
1 ATATATTAATATTATAT-TTTA
*
7674 GATAATATTTATATTATATTTT-
1 -AT-ATATTAATATTATATTTTA
7696 ATATA
1 ATATA
7701 ATATAATACG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
19 15 0.20
20 14 0.18
21 13 0.17
22 16 0.21
23 5 0.07
24 13 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATTAATATTATATTTTA
Found at i:7980 original size:11 final size:11
Alignment explanation
Indices: 7964--8009 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
7954 TTTTAATTTA
7964 TATATTTATAT
1 TATATTTATAT
7975 TATATTTATAT
1 TATATTTATAT
7986 T-T-TTTATACAT
1 TATATTTAT--AT
*
7997 TATAATTATAT
1 TATATTTATAT
8008 TA
1 TA
8010 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
9 5 0.17
10 1 0.03
11 19 0.63
12 1 0.03
13 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTTATAT
Found at i:7991 original size:28 final size:29
Alignment explanation
Indices: 7960--8037 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 29
7950 ATAATTTTAA
* *
7960 TTTATATATTTAT-ATTATATTTATATTT
1 TTTATATATTTATAATTATATTAAAATTT
*
7988 TTTATACA-TTATAATTATATTAAAATTT
1 TTTATATATTTATAATTATATTAAAATTT
* * *
8016 TTTTTATATATA-AATTTTATTA
1 TTTATATATTTATAATTATATTA
8038 TATAAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.10
28 35 0.85
29 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTATATATTTATAATTATATTAAAATTT
Found at i:8035 original size:13 final size:14
Alignment explanation
Indices: 8017--8048 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8007 TTAAAATTTT
8017 TTTTA-TATATAAA
1 TTTTATTATATAAA
8030 TTTTATTATATAAA
1 TTTTATTATATAAA
8044 TTTTA
1 TTTTA
8049 AAATATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTATTATATAAA
Found at i:8038 original size:16 final size:18
Alignment explanation
Indices: 8001--8041 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
7991 ATACATTATA
8001 ATTATAT-TAAAATTTTT
1 ATTATATATAAAATTTTT
*
8018 TTTATATAT-AAA-TTTT
1 ATTATATATAAAATTTTT
8034 ATTATATA
1 ATTATATA
8042 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 9 0.43
18 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATATATAAAATTTTT
Found at i:12462 original size:8 final size:8
Alignment explanation
Indices: 12439--12545 Score: 84
Period size: 8 Copynumber: 13.5 Consensus size: 8
12429 GCTATCTTTC
*
12439 ATATATTA
1 ATATATTT
12447 ATAT-TTT
1 ATATATTT
12454 ATATA-TT
1 ATATATTT
12461 -TATATTT
1 ATATATTT
12468 ATATATTT
1 ATATATTT
12476 -TAT-TTT
1 ATATATTT
12482 ATAT-TTAT
1 ATATATT-T
*
12490 ATAAATTTT
1 ATATA-TTT
*
12499 AATATATTA
1 -ATATATTT
12508 ATAT-TTT
1 ATATATTT
12515 ATATTATTT
1 ATA-TATTT
12524 AAATATATTT
1 --ATATATTT
12534 ATATATTT
1 ATATATTT
12542 ATAT
1 ATAT
12546 TATATAATAC
Statistics
Matches: 82, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
6 7 0.09
7 23 0.28
8 32 0.39
9 6 0.07
10 11 0.13
11 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATATTT
Found at i:12484 original size:12 final size:14
Alignment explanation
Indices: 12439--12551 Score: 89
Period size: 14 Copynumber: 8.4 Consensus size: 14
12429 GCTATCTTTC
*
12439 ATATATTAATATTTT
1 ATATATTTATA-TTT
12454 ATATATTTATATTT
1 ATATATTTATATTT
12468 ATATATTT-TATTT
1 ATATATTTATATTT
12481 -TATATTTATA--T
1 ATATATTTATATTT
*
12492 AAAT-TTTAATATATT
1 ATATATTT-ATAT-TT
12507 A-ATATTT-TATATT
1 ATATATTTATAT-TT
* **
12520 ATTTAAATATATTT
1 ATATATTTATATTT
12534 ATATATTTATA-TT
1 ATATATTTATATTT
12547 ATATA
1 ATATA
12552 ATACGATCAT
Statistics
Matches: 81, Mismatches: 8, Indels: 20
0.74 0.07 0.18
Matches are distributed among these distances:
11 4 0.05
12 12 0.15
13 21 0.26
14 26 0.32
15 18 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATATTTATATTT
Found at i:12497 original size:22 final size:20
Alignment explanation
Indices: 12440--12551 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 20
12430 CTATCTTTCA
*
12440 TATATTAATAT-TTTATATATT
1 TATATTTATATATTT-TAT-TT
12461 TATATTTATATATTTTATTT
1 TATATTTATATATTTTATTT
*
12481 TATATTTATATA---AATTT
1 TATATTTATATATTTTATTT
*
12498 TAATATATTA-ATATTTTATAT
1 T-ATAT-TTATATATTTTATTT
*
12519 TAT-TTAAATATATTTATATATT
1 TATATT-TATATATTT-TAT-TT
12541 TATA-TTATATA
1 TATATTTATATA
12552 ATACGATCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
17 5 0.07
18 8 0.11
19 5 0.07
20 22 0.30
21 25 0.34
22 8 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTATATATTTTATTT
Found at i:12503 original size:18 final size:19
Alignment explanation
Indices: 12461--12545 Score: 63
Period size: 20 Copynumber: 4.6 Consensus size: 19
12451 TTTATATATT
** *
12461 TATATTTATATATTTTATTT
1 TATATTTATATAAATT-TTA
12481 TATATTTATATAAATTTTA
1 TATATTTATATAAATTTTA
12500 -ATA--TAT-TAATATTTTA
1 TATATTTATATAA-ATTTTA
* *
12516 TATTATTTAAATATA-TTTA
1 TA-TATTTATATAAATTTTA
12535 TATATTTATAT
1 TATATTTATAT
12546 TATATAATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
15 3 0.06
16 9 0.17
17 1 0.02
18 13 0.25
19 8 0.15
20 17 0.32
21 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTTATATAAATTTTA
Found at i:12504 original size:32 final size:33
Alignment explanation
Indices: 12452--12551 Score: 96
Period size: 34 Copynumber: 3.0 Consensus size: 33
12442 TATTAATATT
** *
12452 TTATATATTTATATTTATATATTTTATTTTATA
1 TTATATAAATATATTAATATATTTTATTTTATA
*
12485 TTTATATAAAT-T-TTAATATATTAATATTTTATA
1 -TTATATAAATATATTAATATATT-TTATTTTATA
* * *
12518 TTATTTAAATATATTTATATATTTATATTATATA
1 TTATATAAATATATTAATATATTT-TATTTTATA
12552 ATACGATCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
32 18 0.33
33 11 0.20
34 25 0.46
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TTATATAAATATATTAATATATTTTATTTTATA
Found at i:12531 original size:46 final size:45
Alignment explanation
Indices: 12440--12538 Score: 114
Period size: 46 Copynumber: 2.1 Consensus size: 45
12430 CTATCTTTCA
*
12440 TATATTAATATTTTATATATTTATATTTATATATTTTATTTTATATT
1 TATA-TAATATTTTATATATTAATATTTATATA-TTTATTTTATATT
12487 TATATAA-ATTTTAATATATTAATATTT-TATA-TTATTTAAATATATT
1 TATATAATATTTT-ATATATTAATATTTATATATTTATTT---TATATT
12533 TATATA
1 TATATA
12539 TTTATATTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
43 6 0.13
45 9 0.19
46 28 0.60
47 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (45 bp):
TATATAATATTTTATATATTAATATTTATATATTTATTTTATATT
Found at i:12541 original size:61 final size:59
Alignment explanation
Indices: 12439--12552 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 59
12429 GCTATCTTTC
* * *
12439 ATATATTAATATTTTATATATTTATATTTATATATTTTATTTTATATTTATATAAATTTTA
1 ATATATTAATATTTTATATATTTAAATATATATATTATA-TTTATA-TTATATAAATTTTA
*
12500 ATATATTAATATTTTATATTATTTAAATATATTTA-TATATTTATATTATATAA
1 ATATATTAATATTTTATA-TATTTAAATATATATATTATATTTATATTATATAA
12553 TACGATCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 8 0.17
60 6 0.12
61 21 0.44
62 13 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (59 bp):
ATATATTAATATTTTATATATTTAAATATATATATTATATTTATATTATATAAATTTTA
Found at i:12554 original size:26 final size:26
Alignment explanation
Indices: 12440--12554 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 26
12430 CTATCTTTCA
12440 TATATTAATAT-TTTATATATTTATATT
1 TATA-TAATATATTTATATATTTATA-T
* *
12467 TATATATTTTATTT-TATATTTATAT
1 TATATAATATATTTATATATTTATAT
* * *
12492 AAATTTTAATATATTAATAT-TTTATAT
1 -TA-TATAATATATTTATATATTTATAT
*
12519 TATTTAAATATATTTATATATTTATAT
1 TATAT-AATATATTTATATATTTATAT
12546 TATATAATA
1 TATATAATA
12555 CGATCATAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
25 4 0.06
26 32 0.44
27 33 0.46
28 3 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATAATATATTTATATATTTATAT
Found at i:12890 original size:23 final size:24
Alignment explanation
Indices: 12859--12913 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
12849 TACATAAATT
*
12859 TTAATATTTTAATA-ATTTATATTA
1 TTAATATTTTAAAATATTTAT-TTA
12883 TTAA-ATTTTAAAATATTTATTTA
1 TTAATATTTTAAAATATTTATTTA
*
12906 TTTATATT
1 TTAATATT
12914 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTAATATTTTAAAATATTTATTTA
Found at i:12914 original size:32 final size:32
Alignment explanation
Indices: 12831--12915 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 32
12821 TTATATTATA
*
12831 TTTAAAATATTT-TTTA-TT-TA-CA-TAAAT
1 TTTAAAATATTTATTTATTTATATTATTAAAT
* * *
12858 TTTAATAT-TTTAATAATTTATATTATTAAAT
1 TTTAAAATATTTATTTATTTATATTATTAAAT
12889 TTTAAAATATTTATTTATTTATATTAT
1 TTTAAAATATTTATTTATTTATATTAT
12916 ATTTTAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.07
27 9 0.20
28 2 0.04
29 2 0.04
30 1 0.02
31 12 0.27
32 16 0.36
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTAAAATATTTATTTATTTATATTATTAAAT
Found at i:13264 original size:16 final size:16
Alignment explanation
Indices: 13245--13297 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
13235 TTTTTAAAAT
*
13245 TTTTAGTTATTTTTAA
1 TTTTAGTTATTTTAAA
13261 TTTTATGTTATTTTAAA
1 TTTTA-GTTATTTTAAA
** *
13278 TTCAAGTTATTTTAAG
1 TTTTAGTTATTTTAAA
13294 TTTT
1 TTTT
13298 GATCATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.64
Consensus pattern (16 bp):
TTTTAGTTATTTTAAA
Found at i:13264 original size:17 final size:18
Alignment explanation
Indices: 13236--13279 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
13226 AAATTCAAGT
13236 TTTTAAAATTTTTA-GTTA
1 TTTT-AAATTTTTATGTTA
*
13254 TTTTTAA-TTTTATGTTA
1 TTTTAAATTTTTATGTTA
13271 TTTTAAATT
1 TTTTAAATT
13280 CAAGTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.23
17 12 0.55
18 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTAAATTTTTATGTTA
Found at i:15554 original size:113 final size:113
Alignment explanation
Indices: 15356--15579 Score: 385
Period size: 113 Copynumber: 2.0 Consensus size: 113
15346 TTCTGGATGT
*
15356 TGAATATTACCAAATTGAATAAGCTACAGATGACCAATAAAAGATAGATGTTTTGTTGCCTTCCC
1 TGAATATTACCAAATTGAATAAGCTAAAGATGACCAATAAAAGATAGATGTTTTGTTGCCTTCCC
15421 TTGAACCCTTTGGCTTATTCTTTCAAATAAAGGTTGCAATATCTATGC
66 TTGAACCCTTTGGCTTATTCTTTCAAATAAAGGTTGCAATATCTATGC
* * *
15469 TGAATATTACCAGATTGAATAAGCTAAAGATGACCAATAAAGGATAGATGTTTTGTTGTCTTCCC
1 TGAATATTACCAAATTGAATAAGCTAAAGATGACCAATAAAAGATAGATGTTTTGTTGCCTTCCC
* * *
15534 TTGAACCTTTTGGGTTATTCTTTCAAATAAAGGTTGCAATCTCTAT
66 TTGAACCCTTTGGCTTATTCTTTCAAATAAAGGTTGCAATATCTAT
15580 CACTTAATCT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 104 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (113 bp):
TGAATATTACCAAATTGAATAAGCTAAAGATGACCAATAAAAGATAGATGTTTTGTTGCCTTCCC
TTGAACCCTTTGGCTTATTCTTTCAAATAAAGGTTGCAATATCTATGC
Found at i:17625 original size:69 final size:69
Alignment explanation
Indices: 17537--17759 Score: 331
Period size: 69 Copynumber: 3.2 Consensus size: 69
17527 TAGAGGAGTG
* *
17537 GGGTTAGAGTATCCCCGACAATGATAATTTGGACAAAATAAGACTTAAATTTTAATGAGTTTAAA
1 GGGTTAGAGTATCCCCGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAAA
17602 AACA
66 AACA
* * *
17606 GGGTTGGAGTATCCTCGACAATGATAATTTAGACAAAATAAGATTTAAATTTTGATGAGTTTAAA
1 GGGTTAGAGTATCCCCGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAAA
*
17671 AA-T
66 AACA
* * *
17674 GAGGTTAGAATATCCCCAACAATGATAACTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAA
1 G-GGTTAGAGTATCCCCGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAA
17739 AAACA
65 AAACA
* *
17744 GGATTGGAGTATCCCC
1 GGGTTAGAGTATCCCC
17760 TCAAAGGAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.01
69 134 0.99
70 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.30
Consensus pattern (69 bp):
GGGTTAGAGTATCCCCGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAAA
AACA
Found at i:18091 original size:97 final size:97
Alignment explanation
Indices: 17709--18080 Score: 593
Period size: 97 Copynumber: 3.8 Consensus size: 97
17699 TAACTTGGAC
* * * *
17709 AAAATAAGATTTAAATTTTGATGAGTTTAAAAACAGGATTGGAGTATCCCCTCAAAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACAGGGTTAGAGTATCCCCTCAGAGGAATGGGG
*
17774 TTGGAGTGTTCCCGATGATGAAAATTTAACCG
66 TTGGAGTATTCCCGATGATGAAAATTTAACCG
* *
17806 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCCTCGGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACAGGGTTAGAGTATCCCCTCAGAGGAATGGGG
*
17871 TTGGAGTGTTCCCGATGATGAAAATTTAACCG
66 TTGGAGTATTCCCGATGATGAAAATTTAACCG
* * *
17903 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGGGGTTAGAGTATCCCTTCGGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACAGGGTTAGAGTATCCCCTCAGAGGAATGGGG
* *
17968 TTGGAGTATCCCCGATGATGACAATTTAACCG
66 TTGGAGTATTCCCGATGATGAAAATTTAACCG
*
18000 AAAATAAGATTTAAATTTGGATAAGTTTAAAAACAGGGTT-GAAGTATCCCCTCAGAGGAATGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACAGGGTTAG-AGTATCCCCTCAGAGGAATGGG
*
18064 GTTGGTGTATTCCCGAT
65 GTTGGAGTATTCCCGAT
18081 AAACAAAATT
Statistics
Matches: 258, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 1 0.00
97 257 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (97 bp):
AAAATAAGATTTAAATTTTGATAAGTTTAAAAACAGGGTTAGAGTATCCCCTCAGAGGAATGGGG
TTGGAGTATTCCCGATGATGAAAATTTAACCG
Found at i:19693 original size:35 final size:35
Alignment explanation
Indices: 19627--19694 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
19617 TTTGTTTTCC
* * * *
19627 TGTTTCTTTGCAGCTTCATGCTGTTGATCGATGAT
1 TGTTGCTTTGCAGCTCCATGCTGCTCATCGATGAT
* *
19662 TGTTGCTTTGCAGGTCCATGCTGCTCTTCGATG
1 TGTTGCTTTGCAGCTCCATGCTGCTCATCGATG
19695 CTGCCTCTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.12, C:0.21, G:0.25, T:0.43
Consensus pattern (35 bp):
TGTTGCTTTGCAGCTCCATGCTGCTCATCGATGAT
Found at i:20207 original size:8 final size:8
Alignment explanation
Indices: 20194--20293 Score: 58
Period size: 8 Copynumber: 11.8 Consensus size: 8
20184 TTTCATCATC
20194 ATTTTTTT
1 ATTTTTTT
20202 ATTTTTTT
1 ATTTTTTT
20210 A-TTTTTT
1 ATTTTTTT
20217 ATTTTGATTTT
1 A-TTT--TTTT
*
20228 ATATTTTTG
1 AT-TTTTTT
** *
20237 ATTTAATG
1 ATTTTTTT
20245 ATTTTTTT
1 ATTTTTTT
20253 ATTTTTTT
1 ATTTTTTT
** *
20261 GATTCATTA
1 -ATTTTTTT
20270 ATTTTTTTT
1 A-TTTTTTT
*
20279 AATTTTTTG
1 -ATTTTTTT
20288 ATTTTT
1 ATTTTT
20294 CATTATTATA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
7 7 0.10
8 33 0.46
9 22 0.31
10 2 0.03
11 7 0.10
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:20252 original size:25 final size:25
Alignment explanation
Indices: 20224--20291 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
20214 TTTATTTTGA
*
20224 TTTTATATTTTTGATTTAATGATTT
1 TTTTATATTTTTGATTTAATAATTT
* * *
20249 TTTTATTTTTTTGATTCATTAATTT
1 TTTTATATTTTTGATTTAATAATTT
20274 TTTT-TAATTTTTTGATTT
1 TTTTAT-A-TTTTTGATTT
20292 TTCATTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 1 0.03
25 25 0.71
26 9 0.26
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.72
Consensus pattern (25 bp):
TTTTATATTTTTGATTTAATAATTT
Found at i:20260 original size:26 final size:25
Alignment explanation
Indices: 20231--20291 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
20221 TGATTTTATA
* *
20231 TTTTTGATTTAATGATTTTTTTATT
1 TTTTTGATTTAATAATTTTTTTAAT
* *
20256 TTTTTGATTCATTAATTTTTTTTAAT
1 TTTTTGATTTAATAA-TTTTTTTAAT
20282 TTTTTGATTT
1 TTTTTGATTT
20292 TTCATTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.72
Consensus pattern (25 bp):
TTTTTGATTTAATAATTTTTTTAAT
Found at i:20279 original size:51 final size:50
Alignment explanation
Indices: 20194--20291 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 50
20184 TTTCATCATC
* *
20194 ATTTTTTTATTTTTTTATTTTTTATTTTGATTTT-ATATTTTTGATTTAATG
1 ATTTTTTTATTTTTTTATTATTAATTTT-ATTTTAAT-TTTTTGATTTAATG
20245 ATTTTTTTATTTTTTTGATTCATTAATTTT-TTTTAATTTTTTGATTT
1 ATTTTTTTATTTTTTT-ATT-ATTAATTTTATTTTAATTTTTTGATTT
20292 TTCATTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 30 0.71
52 5 0.12
53 7 0.17
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.74
Consensus pattern (50 bp):
ATTTTTTTATTTTTTTATTATTAATTTTATTTTAATTTTTTGATTTAATG
Found at i:21388 original size:173 final size:173
Alignment explanation
Indices: 21015--21389 Score: 414
Period size: 174 Copynumber: 2.2 Consensus size: 173
21005 CTTAAAAATG
* * * * * * * *
21015 ATAAAGATGATAAGAATGCCAATGTGTTGATTCAAGGTCAGTGACACTGGATTTAAAGATGCGAA
1 ATAAAGATGAGAAAAATGCAAATGTGCTGATTCAAGGTCAGCGACACTGAACTTAAAGATGAGAA
* * * *
21080 GAATGATAAAAGTATCGATATGCTGATTCAAGGCTAGCGATATTAGGCTTGAAAGAAAGAAGATT
66 GAATGATAAAAGTATCGATATGCTAATTCAAGGCCAGCGATATCAAGCTTGAAAGAAAGAAGATT
* ** * * *
21145 TAACAAGTGCTAATGTGTTGATTCAAGGTCTAGACTTAAAGAT
131 TAACAAGTGCCAATGTGTTGATTCAAGACCAAAACTCAAAGAT
* * * * * *
21188 GATAAGGATGAGAAGAGTGCCAATGTGCTGTTTCAAGGTCAGCGACATTGAACTTAAAGATGAGA
1 -ATAAAGATGAGAAAAATGCAAATGTGCTGATTCAAGGTCAGCGACACTGAACTTAAAGATGAGA
* * * *
21253 AGAATGATAAAGGTGTTGATATGTTAATTCAAGGCCAGCG-TATCAAGCTTGAAAGAAAGAAGAT
65 AGAATGATAAAAGTATCGATATGCTAATTCAAGGCCAGCGATATCAAGCTTGAAAGAAAGAAGAT
* *
21317 TTGACAAGTGCCAATGTGTTGATTCAAGACCAACAACATCAGA-AT
130 TTAACAAGTGCCAATGTGTTGATTCAAGACCAA-AAC-TCAAAGAT
*
21362 -TAAAGATGAGAAAAATGATAAATGTGCT
1 ATAAAGATGAGAAAAATG-CAAATGTGCT
21390 AATATGCTGA
Statistics
Matches: 167, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
172 14 0.08
173 58 0.35
174 92 0.55
175 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (173 bp):
ATAAAGATGAGAAAAATGCAAATGTGCTGATTCAAGGTCAGCGACACTGAACTTAAAGATGAGAA
GAATGATAAAAGTATCGATATGCTAATTCAAGGCCAGCGATATCAAGCTTGAAAGAAAGAAGATT
TAACAAGTGCCAATGTGTTGATTCAAGACCAAAACTCAAAGAT
Found at i:21454 original size:52 final size:52
Alignment explanation
Indices: 21376--21480 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
21366 GATGAGAAAA
* * * *
21376 ATGATAAATGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAG
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAG
21428 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAG
1 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAG
21480 A
1 A
21481 AAAATATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (52 bp):
ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAG
Found at i:21641 original size:63 final size:64
Alignment explanation
Indices: 21527--21681 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 64
21517 CTAACGACAT
*
21527 TGGGC-TTAGAAGGGTTGCCA-CTGACTTATATGGGCTTTGAAAAAGATTGCCACCAACTTGTA
1 TGGGCTTTAGAAGGGTTGCCACCAGACTTATATGGGCTTTGAAAAAGATTGCCACCAACTTGTA
* * * * *
21589 TGGGCTTTAGAAGGGTTGCCACCAG-CTTGTGTGGGTTTTAGAAAGAGA-TGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCAGACTTATATGGGCTTT-GAAAAAGATTGCCACCAACTTGTA
* *
21652 TAGGCTTTTGAAAGGGTTGCCACC-GACTTA
1 TGGGCTTTAG-AAGGGTTGCCACCAGACTTA
21682 CGAGCTTTTG
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
62 5 0.06
63 49 0.62
64 25 0.32
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (64 bp):
TGGGCTTTAGAAGGGTTGCCACCAGACTTATATGGGCTTTGAAAAAGATTGCCACCAACTTGTA
Found at i:21650 original size:32 final size:31
Alignment explanation
Indices: 21557--21680 Score: 115
Period size: 32 Copynumber: 3.9 Consensus size: 31
21547 CTGACTTATA
* *
21557 TGGGCTTTGAAAAAGATTGCCACCAACTTGTA
1 TGGGCTTTGAAAGAGA-TGCCACCAACTTGTG
* * *
21589 TGGGCTTT-AGAAGGGTTGCCACCAGCTTGTG
1 TGGGCTTTGA-AAGAGATGCCACCAACTTGTG
*
21620 TGGGTTTTAGAAAGAGATGCCACCAACTTGTG
1 TGGGCTTT-GAAAGAGATGCCACCAACTTGTG
* * * *
21652 TAGGCTTTTGAAAGGGTTGCCACCGACTT
1 TGGGC-TTTGAAAGAGATGCCACCAACTT
21681 ACGAGCTTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
31 21 0.28
32 49 0.66
33 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAAAGAGATGCCACCAACTTGTG
Found at i:21715 original size:29 final size:30
Alignment explanation
Indices: 21573--21724 Score: 121
Period size: 32 Copynumber: 5.0 Consensus size: 30
21563 TTGAAAAAGA
* *
21573 TTGCCACCAACTTGTATGGGCTTTAG-AAGGG
1 TTGCCACCAACTTG--TGAGCTTTTGAAAGGG
* * * *
21604 TTGCCACCAGCTTGTGTGGGTTTTAGAAAGAG
1 TTGCCACCAACTTGTG-AGCTTTT-GAAAGGG
*
21636 ATGCCACCAACTTGTGTAGGCTTTTGAAAGGG
1 TTGCCACCAACTTGTG-A-GCTTTTGAAAGGG
* **
21668 TTGCCACCGACTTACGAGCTTTTGAAAGGG
1 TTGCCACCAACTTGTGAGCTTTTGAAAGGG
* *
21698 -TGCCACTAATTTGTGAGC-TTTGAAAGG
1 TTGCCACCAACTTGTGAGCTTTTGAAAGG
21725 ATGTCATCGA
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
28 9 0.09
29 15 0.15
30 18 0.18
31 15 0.15
32 37 0.37
33 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (30 bp):
TTGCCACCAACTTGTGAGCTTTTGAAAGGG
Found at i:21745 original size:28 final size:28
Alignment explanation
Indices: 21714--21839 Score: 137
Period size: 28 Copynumber: 4.5 Consensus size: 28
21704 TAATTTGTGA
* *
21714 GCTTTGAAAGGATGTCATCGACTCGCGG
1 GCTTTAAAAGGATGTCACCGACTCGCGG
21742 GCTTTAAAAGGATGTCACCGACTCGCGG
1 GCTTTAAAAGGATGTCACCGACTCGCGG
* ** *
21770 GCTTTAAAAGGATGCCACTAACTCGTGG
1 GCTTTAAAAGGATGTCACCGACTCGCGG
** ** *
21798 GCTTTAAAAAGG-TACCATTGACTCGTGG
1 GCTTT-AAAAGGATGTCACCGACTCGCGG
21826 GCTTTAAAAGGATG
1 GCTTTAAAAGGATG
21840 CCACTTGCTT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 6 0.07
28 74 0.86
29 6 0.07
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (28 bp):
GCTTTAAAAGGATGTCACCGACTCGCGG
Found at i:21821 original size:56 final size:57
Alignment explanation
Indices: 21761--21867 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 57
21751 GGATGTCACC
21761 GACTCGCGGGCTTTAAAAGGATGCCACTAACTCGTGGGCTTT-AAAAAGGTACCATT
1 GACTCGCGGGCTTTAAAAGGATGCCACTAACTCGTGGGCTTTGAAAAAGGTACCATT
* ** *
21817 GACTCGTGGGCTTTAAAAGGATGCCACTTGCTTGTGGGCTTTGAAAAAGGT
1 GACTCGCGGGCTTTAAAAGGATGCCACTAACTCGTGGGCTTTGAAAAAGGT
21868 GAGACTAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 38 0.83
57 8 0.17
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (57 bp):
GACTCGCGGGCTTTAAAAGGATGCCACTAACTCGTGGGCTTTGAAAAAGGTACCATT
Found at i:21853 original size:28 final size:29
Alignment explanation
Indices: 21708--23525 Score: 780
Period size: 29 Copynumber: 62.4 Consensus size: 29
21698 TGCCACTAAT
* * * *
21708 TTGTGAGCTTTGAAAGGATGTCA-TCGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * * *
21736 TCGCGGGCTTTAAAAGGATGTCAC-CGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * *
21764 TCGCGGGCTTTAAAAGGATGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* *
21792 TCGTGGGCTTTAAAAAGG-TACCA-TTGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
*
21820 TCGTGGGCTTTAAAAGGATGCCACTTG-C
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
** *
21848 TTGTGGGCTTTGAAAAAGG-TGAGACTAG-C
1 TTGTGGGCTTT--AAAAGGATGCCACTTGAC
* *
21877 TTGT-GGCTTTGAAAAAGG-TGTCAC-TGTC
1 TTGTGGGCTTT--AAAAGGATGCCACTTGAC
* *
21905 TTGT-GGCTTTAAAAGGGTGCAAC-TGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* *
21932 TTGTGGGTTTTTTAAA-GAGTGCCA-TTGAC
1 TTGTGGG-CTTTAAAAGGA-TGCCACTTGAC
* *
21961 TTATGGGCTTTGAAAAGGGTGCCAC-TGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* *
21990 TTATGGGCTTTAAAA-AAGTGCCAC-TGAC
1 TTGTGGGCTTTAAAAGGA-TGCCACTTGAC
* *
22018 TTGTGGGCTTTAAAAGGGTGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
*
22046 GTGTGGGCTTTTAAAAGAATTGAAAGGATGCCA-TTGAC
1 TTGTGGGC-TTT------A---AAAGGATGCCACTTGAC
*
22084 TTGTGAGCTTTGAAAAGG-TGCCAC-TG-C
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* * *
22111 ATTGTGGGCTTTTGAAA-GAGTGTCACTAG-C
1 -TTGTGGGC-TTTAAAAGGA-TGCCACTTGAC
* * *
22141 TTGTGGGGTTTGAAAAGGGTGCCAC-CGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* * **
22170 TTATGGGCTTTAAAAAGG-TGTCAC-CAAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* *
22198 TTGTGGGCTTTAAAAGGGTGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * *
22226 TTGTGGCCGTTTAAAAAGATTGAAAGGATACCAC-TAAC
1 TTGTGGGC-TTT------A---AAAGGATGCCACTTGAC
* * *
22264 TTGTGGGCTTTGAAAGGGTGCCAC-TGAT
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* *
22292 TTGTGGGCTTTTGAAA-GAGTGTCAC-TGAC
1 TTGTGGGC-TTTAAAAGGA-TGCCACTTGAC
*
22321 TTATGGGCTTTGAAAATGG-TGCCA-TTGAC
1 TTGTGGGCTTT-AAAA-GGATGCCACTTGAC
* * *
22350 TTATAGGCTTTAAAAGGCTGCCAC-TGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
*
22378 TTGTAGGCTTTAAAAGGATTGAAAGGATGCCA-TTGAC
1 TTGTGGGCTTT------A---AAAGGATGCCACTTGAC
* * * *
22415 TTGTAGGCTTTGAAAGGGTGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * * *
22443 TTATGGGCTTTTGAAAGGGTGCCAC-TGGC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
* *
22472 TTGTGGGCTTTGAAAGGGTGCCA-TTGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * *
22500 TTATGGGCTTTGAAAA-AAGTGCTA-TTGAC
1 TTGTGGGCTTT-AAAAGGA-TGCCACTTGAC
* * *
22529 TTGTAGGCTTTGAAAAGGATACCAC-AGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* *
22558 TTGTGAGCTTTAAAATGG-TGTCAC-TGAC
1 TTGTGGGCTTTAAAA-GGATGCCACTTGAC
* *
22586 TTGTAGGCTTTAAAAGGATTGAAATGATGCCAC-TAAC
1 TTGTGGGCTTT-AAA--A--G----GATGCCACTTGAC
* * * * *
22623 TTATGGGTTTTGAAAGGGTGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
** * *
22651 TAATGGGCTTTTGAAAGGGTGCCA-TTGAC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
* *
22680 TTGTGAGCTTTGAAAAGGGTGCCAC-TGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* * * *
22709 TTATGGGCTTTAAAAGGGTACCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * * *
22737 TTATGGGCTTTTGAAAGGGTGCCAC-TAAC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
* * * *
22766 TTGTGAGTTTTAAAAGGGTGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* *
22794 TTGTAGGCTTTGAAAATGG-TGCCAC-CGAC
1 TTGTGGGCTTT-AAAA-GGATGCCACTTGAC
* *
22823 TTGTGGGCTTTGAAAAGAATGCCAC-TAAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* * *
22852 TTGTGGGTTTTGAAAGGATGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * *
22880 TTGTGGGCTTTGAAAGGGTGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * * *
22908 TCGTGGGCTTTTGAAAGGGTGCCAC-TAAC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
*
22937 TTGTGGGCTTTAAAAGGGATGCCAC-TAAC
1 TTGTGGGCTTTAAAA-GGATGCCACTTGAC
* * *
22966 TCGTGGGCTTTTGAAAGGATGCCA-ATGAC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
** *
22995 TCATGGGCTTTGAAAAAG-TGCCAC-TGA-
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* *
23022 TTCGTGGGTTTTGAAAGGATGCCAC-TGAC
1 TT-GTGGGCTTTAAAAGGATGCCACTTGAC
*
23051 TCGTGGGCTTTAAAAAAGG-TGCCAC-TGAC
1 TTGTGGGCTTT--AAAAGGATGCCACTTGAC
*
23080 TTGTGGGCTTTGAAAGGATGCCAC-TGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * *
23108 TTATGGGCTTTAAAAGG-TGCTA-GTGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* *
23135 TTGTGGGCTTTGAAATGGGTGCCAC-TGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
*
23164 TTGTGGGCTTTTGAAAGGATTGAAAGGATGCCAC-TAAC
1 TTGTGGGC-TTT------A---AAAGGATGCCACTTGAC
* * *
23202 TTGTGGGCTTTGAAAGGGTGCCA-TTAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * * *
23230 TTGTGGGCTTTTGAAAGGCTGCTAC-TAAC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
* * *
23259 TTGTGGGCTTTTGAAAGGGTGCTAC-TGAC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
* *
23288 TTGTGGGCTTTGAAAAGGGTGCCAC-TAAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
*
23317 TTGTGGGCTTTAAAATG-TGCCAC-TGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * *
23344 TTATGGGCTTTAAACGG-TGCCAC-TAAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
*
23371 TTGTGGGCTTTTGAAAGGATGCCACTT-AC
1 TTGTGGGC-TTTAAAAGGATGCCACTTGAC
* **
23400 TTGTGGGCTTTAAAAGGGTATCAC-TGAC
1 TTGTGGGCTTTAAAAGGATGCCACTTGAC
* * *
23428 TTATGGGTTTTGAAAAAGATGCCAC-TGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
** *
23457 TTGTGAACTTTAAAAATGATGCCAC-TGAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
* * *
23486 TTGTGAGCTTTGAAAAAGATGCCAC-TAAC
1 TTGTGGGCTTT-AAAAGGATGCCACTTGAC
23515 TTGTGGGCTTT
1 TTGTGGGCTTT
23526 GAAATGGAAA
Statistics
Matches: 1455, Mismatches: 209, Indels: 251
0.76 0.11 0.13
Matches are distributed among these distances:
26 6 0.00
27 96 0.07
28 588 0.40
29 611 0.42
30 28 0.02
31 2 0.00
32 4 0.00
34 2 0.00
35 4 0.00
36 3 0.00
37 50 0.03
38 61 0.04
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (29 bp):
TTGTGGGCTTTAAAAGGATGCCACTTGAC
Found at i:22059 original size:57 final size:56
Alignment explanation
Indices: 21692--23525 Score: 1209
Period size: 57 Copynumber: 31.5 Consensus size: 56
21682 CGAGCTTTTG
* * * * * * *
21692 AAAGGGTGCCACTAATTTGTGAGCTTT-GAAAGGATGTCA-TCGACTCGCGGGCTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCACT-GACTTGTGGGCTTTA
* * * * * * *
21748 AAAGGATGTCACCGACTCGCGGGCTTT-AAAAGGATGCCACTAACTCGTGGGCTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCACTGACTTGTGGGCTTTA
* * * *
21804 AAAAGGTACCATTGACTCGTGGGCTTT-AAAAGGATGCCACTTG-CTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCAC-TGACTTGTGGGCTTT-A
* ** * *
21861 AAAAGGTGAGACT-AGCTTGT-GGCTTTGAAAAAGGTGTCACTGTCTTGT-GGCTTTA
1 AAAGGGTGCCACTGA-CTTGTGGGCTTT-AAAAAGGTGCCACTGACTTGTGGGCTTTA
* * ** * *
21916 AAAGGGTGCAACTGACTTGTGGGTTTTTTAAAGAGTGCCATTGACTTATGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGCTTT-A
* *
21974 AAAGGGTGCCACTGACTTATGGGCTTTAAAAAAGTGCCACTGACTTGTGGGCTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTA
* * * *
22030 AAAGGGTGCCACTAACGTGTGGGCTTTTAAAAGAATTGAAAGGATGCCATTGACTTGTGAGCTTT
1 AAAGGGTGCCACTGACTTGTGGGC-TTT-----AA---AAAGG-TGCCACTGACTTGTGGGCTTT
22095 GA
56 -A
** * *
22097 AAA-GGTGCCACTG-CATTGTGGGCTTTTGAAAGAGTGTCACT-AGCTTGTGGGGTTTGA
1 AAAGGGTGCCACTGAC-TTGTGGGCTTTAAAAAG-GTGCCACTGA-CTTGTGGGCTTT-A
* * * **
22154 AAAGGGTGCCACCGACTTATGGGCTTTAAAAAGGTGTCACCAACTTGTGGGCTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTA
* * * *
22210 AAAGGGTGCCACTAACTTGTGGCCGTTTAAAAAGATTGAAAGGATACCACTAACTTGTGGGCTTT
1 AAAGGGTGCCACTGACTTGTGGGC-TTT----A-A---AAAGG-TGCCACTGACTTGTGGGCTTT
*
22275 G
56 A
* ** * *
22276 AAAGGGTGCCACTGATTTGTGGGCTTTTGAAAGAGTGTCACTGACTTATGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGCTTT-A
* * * * *
22334 AAATGGTGCCATTGACTTATAGGCTTT-AAAAGGCTGCCACTGACTTGTAGGCTTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCACTGACTTGTGGGCTTT-A
* * * * * * *
22391 AAGGATTGAAAGGATGCCATTGACTTGTAGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTTG
1 AA--A--G---GG-TGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGC-TTTA
* * * * *
22456 AAAGGGTGCCACTGGCTTGTGGGCTTTGAAAGGGTGCCATTGACTTATGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTT-A
** * * * * * * *
22513 AAAAAGTGCTATTGACTTGTAGGCTTTGAAAAGGATACCACAGACTTGTGAGCTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCACTGACTTGTGGGCTTTA
* * * * * * *
22570 AAATGGTGTCACTGACTTGTAGGCTTTAAAAGGATTGAAATGATGCCACTAACTTATGGGTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAA--A--G----G-TGCCACTGACTTGTGGGCTTTA
* ** * * * *
22635 AAAGGGTGCCACTAACTAATGGGCTTTTGAAAGGGTGCCATTGACTTGTGAGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTAAAAAGGTGCCACTGACTTGTGGGCTTT-A
* * * * * *
22693 AAAGGGTGCCACTGACTTATGGGCTTTAAAAGGGTACCACTAACTTATGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGC-TTTA
* * * * * *
22750 AAAGGGTGCCACTAACTTGTGAGTTTTAAAAGGGTGCCACTAACTTGTAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTT-A
* * * * * * *
22807 AAATGGTGCCACCGACTTGTGGGCTTTGAAAAGAATGCCACTAACTTGTGGGTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGCTTTA
* * * * * * *
22864 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTCGTGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGC-TTTA
* * * * *
22921 AAAGGGTGCCACTAACTTGTGGGCTTTAAAAGGGATGCCACTAACTCGTGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCACTGACTTGTGGGC-TTTA
* * ** * *
22979 AAAGGATGCCAATGACTCATGGGCTTTGAAAAA-GTGCCACTGA-TTCGTGGGTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTT-AAAAAGGTGCCACTGACTT-GTGGGCTTTA
* * *
23035 AAAGGATGCCACTGACTCGTGGGCTTTAAAAAAGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTT-AAAAAGGTGCCACTGACTTGTGGGCTTTA
* * * *
23092 AAAGGATGCCACTGACTTATGGGCTTT-AAAAGGTGCTAGTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTT-A
* *
23148 AATGGGTGCCACTGACTTGTGGGCTTTTGAAAGGATTGAAAGGATGCCACTAACTTGTGGGCTTT
1 AAAGGGTGCCACTGACTTGTGGGC-TTT---A--A---AAAGG-TGCCACTGACTTGTGGGCTTT
*
23213 G
56 A
* * ** * * *
23214 AAAGGGTGCCATTAACTTGTGGGCTTTTGAAAGGCTGCTACTAACTTGTGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCACTGACTTGTGGGC-TTTA
* * *
23272 AAAGGGTGCTACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTT-AAAAAGGTGCCACTGACTTGTGGGCTTTA
* * * * *
23329 AAA-TGTGCCACTGACTTATGGGCTTT-AAACGGTGCCACTAACTTGTGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGC-TTTA
* * * ** * *
23384 AAAGGATGCCACTTACTTGTGGGCTTTAAAAGGGTATCACTGACTTATGGGTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTT-A
* * ** * *
23441 AAAAGATGCCACTGACTTGTGAACTTTAAAAATGATGCCACTGACTTGTGAGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAA-GGTGCCACTGACTTGTGGGCTTT-A
* * *
23499 AAAAGATGCCACTAACTTGTGGGCTTT
1 AAAGGGTGCCACTGACTTGTGGGCTTT
23526 GAAATGGAAA
Statistics
Matches: 1433, Mismatches: 253, Indels: 182
0.77 0.14 0.10
Matches are distributed among these distances:
54 23 0.02
55 51 0.04
56 283 0.20
57 546 0.38
58 281 0.20
59 11 0.01
61 3 0.00
62 4 0.00
63 2 0.00
64 2 0.00
65 91 0.06
66 114 0.08
67 22 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (56 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTA
Found at i:22182 original size:123 final size:123
Alignment explanation
Indices: 21951--22186 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 123
21941 TTTTAAAGAG
*
21951 TGCCATTGACTTATGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAAGTGCCACTG
1 TGCCATTGACTTATGAGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAAGTGCCACTG
* *
22016 ACTTGTGGGCTTTAAAAGGGTGCCACTAACGTGTGGGCTTTTAAAAGAATTGAAAGGA
66 ACTTGTGGGCTTTAAAAGGGTGCCACCAACGTATGGGCTTTTAAAAGAATTGAAAGGA
* * * * *
22074 TGCCATTGACTTGTGAGCTTTGAAAA-GGTGCCACTG-CATTGTGGGCTTTTGAAAGAGTGTCAC
1 TGCCATTGACTTATGAGCTTTGAAAAGGGTGCCACTGAC-TTATGGGC-TTTAAAAAAGTGCCAC
* * * *
22137 T-AGCTTGTGGGGTTTGAAAAGGGTGCCACCGACTTATGGGCTTTAAAAAG
64 TGA-CTTGTGGGCTTT-AAAAGGGTGCCACCAACGTATGGGCTTTTAAAAG
22187 GTGTCACCAA
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
121 1 0.01
122 18 0.19
123 49 0.51
124 29 0.30
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (123 bp):
TGCCATTGACTTATGAGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAAGTGCCACTG
ACTTGTGGGCTTTAAAAGGGTGCCACCAACGTATGGGCTTTTAAAAGAATTGAAAGGA
Found at i:22241 original size:180 final size:178
Alignment explanation
Indices: 21795--23529 Score: 1122
Period size: 180 Copynumber: 9.9 Consensus size: 178
21785 CACTAACTCG
* * * ** **
21795 TGGGCTTT-AAAAAGGTACCATTGACTCGTGGGCTTT-AAAAGGATGCCACTTGCTTGTGGGCTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGG-TGCCACTAACTTGTGGGCTT
* ** * * **
21858 TGAAAAAGGTGAGACTAGCTTGTGGCTTT----GAA---AAAGG-TGTCACTGTCTTGT-GGCTT
65 T-AAAAGGGTGCCACTAACTTGTGGCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCTT
* * *
21914 T-AAAAGGGTGCAACTGACTTGTGGGTTTTTTAAAGAGTGCCATTGACTTA
129 TGAAAA-GGTGCCACTGACTTGTGGGCTTTTGAAAGAGTGCCATTGACTTA
* *
21964 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAAGTGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTTT
* * * *
22029 AAAAGGGTGCCACTAACGTGTGGGCTTTTAAAAGAATTGAAAGGATGCCATTGACTTGTGAGCTT
66 AAAAGGGTGCCACTAACTTGT-GGC-TTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCTT
* * *
22094 TGAAAAGGTGCCACTG-CATTGTGGGCTTTTGAAAGAGTGTCACT-AGCTTG
129 TGAAAAGGTGCCACTGAC-TTGTGGGCTTTTGAAAGAGTGCCATTGA-CTTA
* * * *
22144 TGGGGTTTGAAAAGGGTGCCACCGACTTATGGGCTTTAAAAAGGTGTCACCAACTTGTGGGCTTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTTT
*
22209 AAAAGGGTGCCACTAACTTGTGGCCGTTTAAAA-AGATTGAAAGGATACCACTAACTTGTGGGCT
66 AAAAGGGTGCCACTAACTTGTGG-C-TTTAAAAGA-ATTGAAAGGATGCCACTAACTTGTGGGCT
* * * *
22273 TTGAAAGGGTGCCACTGATTTGTGGGCTTTTGAAAGAGTGTCACTGACTTA
128 TTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGAGTGCCATTGACTTA
* * * * *
22324 TGGGCTTTGAAAATGGTGCCATTGACTTATAGGCTTT-AAAAGGCTGCCACTGACTTGTAGGCTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGG-TGCCACTAACTTGTGGGCTT
* ** * ** * * * ** * *
22388 TAAAAGGATTGAAAGGATGCCAT-TGACTTGT--AGGCTTTGAAAGGGTGCCACTAACTTATGGG
65 TAAAAGG-GTGCCA--CTAACTTGTGGCTT-TAAAAGAATTGAAAGGATGCCACTAACTTGTGGG
* * *
22450 CTTTTGAAAGGGTGCCACTGGCTTGTGGGC-TTTGAAAGGGTGCCATTGACTTA
126 C-TTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGAGTGCCATTGACTTA
** * * * * * * *
22503 TGGGCTTTGAAAAAAGTGCTATTGACTTGTAGGCTTTGAAAAGGATACCAC-AGACTTGTGAGCT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGG-TGCCACTA-ACTTGTGGGCT
* * * * * * *
22567 TTAAAATGGTGTCACTGACTTGTAGGCTTTAAAAGGATTGAAATGATGCCACTAACTTATGGGTT
64 TTAAAAGGGTGCCACTAACTTGT-GGCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCT
* * ** * *
22632 TTGAAAGGGTGCCACTAACTAATGGGCTTTTGAAAGGGTGCCATTGACTTG
128 TTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGAGTGCCATTGACTTA
* * * *
22683 TGAGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAGGGTACCACTAACTTATGGGCTTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCCACTAACTTGTGGGC-TT
* * *
22748 TGAAAGGGTGCCACTAACTTGTGAG-TTT-TAA-AA--G---GG-TGCCACTAACTTGTAGGCTT
65 TAAAAGGGTGCCACTAACTTGTG-GCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCTT
* * * * *
22804 TGAAAATGGTGCCACCGACTTGTGGGC-TTTGAAAAGAATGCCACTAACTTG
129 TGAAAA-GGTGCCACTGACTTGTGGGCTTTTG-AAAGAGTGCCATTGACTTA
* * * * * * *
22855 TGGGTTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTCGTGGGCTTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCCACTAACTTGTGGGC-TT
* *
22919 TGAAAGGGTGCCACTAACTTGTGGGCTTT--AA-AA--G---GGATGCCACTAACTCGTGGGCTT
65 TAAAAGGGTGCCACTAACTTGT-GGCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGC-T
* ** * * *
22976 TTG-AAAGGATGCCAATGACTCATGGGC-TTTGAAAAAGTGCCACTGA-TTCG
128 TTGAAAAGG-TGCCACTGACTTGTGGGCTTTTGAAAGAGTGCCATTGACTT-A
* * ** *
23026 TGGGTTTTG-AAAGGATGCCACTGACTCGTGGGCTTTAAAAAAGGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTT-AAAAAGGTGCCACTAACTTGTGGGCTT
* * * * * * *
23090 TGAAAGGATGCCACTGACTTATGGGCTTT------A---AAAGG-TGCTAGTGACTTGTGGGCTT
65 TAAAAGGGTGCCACTAACTTGT-GGCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCTT
* * * *
23145 TGAAATGGGTGCCACTGACTTGTGGGCTTTTGAAAGGATTGAAAGGATGCCACTAACTTG
129 TGAAA-AGGTGCCACTGACTTGTGGGCTTTTG-AA--A--G--A-G-TGCCATTGACTTA
* * * ** *
23205 TGGGCTTTG-AAAGGGTGCCATTAACTTGTGGGCTTTTGAAAGGCTGCTACTAACTTGTGGGCTT
1 TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGG-TGCCACTAACTTGTGGGC-T
* * * *
23269 TTGAAAGGGTGCTACTGACTTGTGGGCTTT----G-A---AAAGGGTGCCACTAACTTGTGGGCT
64 TTAAAAGGGTGCCACTAACTTGT-GGCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCT
* * * * *
23326 TT-AAAATGTGCCACTGACTTATGGGC-TTT-AAACG-GTGCCACTAACTTG
128 TTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAA-GAGTGCCATTGACTTA
* * * * ** * * *
23374 TGGGCTTTTG-AAAGGATGCCACTTACTTGTGGGCTTTAAAAGGGTATCACTGACTTATGGGTTT
1 TGGGC-TTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTT
* * * * * *
23438 TGAAAAAGATGCCACTGACTTGTGAACTTT-AAA-AA-T-----GATGCCACTGACTTGTGAGCT
65 T-AAAAGGGTGCCACTAACTTGTG-GCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCT
* *
23495 TTGAAAAAGATGCCACTAACTTGTGGGC-TTTGAAA
128 TTG-AAAAGGTGCCACTGACTTGTGGGCTTTTGAAA
23530 TGGAAAAAGA
Statistics
Matches: 1285, Mismatches: 204, Indels: 151
0.78 0.12 0.09
Matches are distributed among these distances:
168 9 0.01
169 126 0.10
170 88 0.07
171 214 0.17
172 105 0.08
173 5 0.00
174 1 0.00
175 5 0.00
177 8 0.01
178 15 0.01
179 208 0.16
180 459 0.36
181 19 0.01
182 20 0.02
183 3 0.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (178 bp):
TGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCCACTAACTTGTGGGCTTT
AAAAGGGTGCCACTAACTTGTGGCTTTAAAAGAATTGAAAGGATGCCACTAACTTGTGGGCTTTG
AAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGAGTGCCATTGACTTA
Found at i:23197 original size:38 final size:38
Alignment explanation
Indices: 23144--23218 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
23134 CTTGTGGGCT
* *
23144 TTGAAATGGGTGCCACTGACTTGTGGGCTTTTGAAAGGA
1 TTGAAATGGATGCCACTAACTTGTGGGC-TTTGAAAGGA
23183 TTGAAA-GGATGCCACTAACTTGTGGGCTTTGAAAGG
1 TTGAAATGGATGCCACTAACTTGTGGGCTTTGAAAGG
23219 GTGCCATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 9 0.26
38 19 0.56
39 6 0.18
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.29
Consensus pattern (38 bp):
TTGAAATGGATGCCACTAACTTGTGGGCTTTGAAAGGA
Found at i:24814 original size:21 final size:19
Alignment explanation
Indices: 24755--24808 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
24745 ATTTTTGTTG
* *
24755 TTTTCTTTTTTTATTTTGC
1 TTTTCATTTTTTATTTTTC
24774 TTTTGCAGTTTTTTATTTTTC
1 TTTT-CA-TTTTTTATTTTTC
24795 TTTTCATTTTTTAT
1 TTTTCATTTTTTAT
24809 GCTTTTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.39
20 3 0.10
21 16 0.52
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (19 bp):
TTTTCATTTTTTATTTTTC
Found at i:26096 original size:60 final size:60
Alignment explanation
Indices: 26003--26118 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
25993 ACTACCTACG
* * * *
26003 AACAATTGTAAAGAATAAAAGAATAAGGGTACAGAATGAACCTTGACATTTGCCCCATTA
1 AACAATTATAAAGAATAAAAAAATAAGAGTACAGAATGAACCTTGACAATTGCCCCATTA
*
26063 AACAATTATAAAGAATAAAAAAATACGAGTACAGAATGAACCTTGACAATTGCCCC
1 AACAATTATAAAGAATAAAAAAATAAGAGTACAGAATGAACCTTGACAATTGCCCC
26119 GAATTAGGCG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (60 bp):
AACAATTATAAAGAATAAAAAAATAAGAGTACAGAATGAACCTTGACAATTGCCCCATTA
Found at i:28003 original size:69 final size:69
Alignment explanation
Indices: 27916--28068 Score: 234
Period size: 69 Copynumber: 2.2 Consensus size: 69
27906 TCAGAAGAGT
* *
27916 GGGGTTGGAGTATTCCCAACAATGATAATTTGGACAAAATAAGACTTAAATTTCGATGAGTTTAA
1 GGGGTTGGAGTATCCCCAACAATGATAATTTGGACAAAATAAGACTTAAATTTCGATAAGTTTAA
27981 AAAC
66 AAAC
* * * *
27985 GGGGTTTGAGTATCCCCAACAATGATAATTTGGATAAAATAAGATTTAAATTTGGATAAGTTTAA
1 GGGGTTGGAGTATCCCCAACAATGATAATTTGGACAAAATAAGACTTAAATTTCGATAAGTTTAA
28050 AAAC
66 AAAC
* *
28054 GAGATTGGAGTATCC
1 GGGGTTGGAGTATCC
28069 TCTCGGAGGA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 75 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (69 bp):
GGGGTTGGAGTATCCCCAACAATGATAATTTGGACAAAATAAGACTTAAATTTCGATAAGTTTAA
AAAC
Found at i:29288 original size:25 final size:23
Alignment explanation
Indices: 29260--29309 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
29250 TTTGGTGTAA
*
29260 CTTGCTGTTTTGTACTTATTTTTTG
1 CTTGCTGTTTTGT-CTT-TCTTTTG
*
29285 CTTGTTGTTTTGTCTTTCTTTTG
1 CTTGCTGTTTTGTCTTTCTTTTG
29308 CT
1 CT
29310 GCTACCATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 3 0.13
25 12 0.52
ACGTcount: A:0.04, C:0.14, G:0.16, T:0.66
Consensus pattern (23 bp):
CTTGCTGTTTTGTCTTTCTTTTG
Found at i:35475 original size:21 final size:21
Alignment explanation
Indices: 35451--35503 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
35441 AACATGTCAT
35451 AAATGCATGAAGCATAGCTCA
1 AAATGCATGAAGCATAGCTCA
35472 AAATGCATGAAGCATAGCTCA
1 AAATGCATGAAGCATAGCTCA
35493 AAATGCATGAA
1 AAATGCATGAA
35504 TCATGGGCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (21 bp):
AAATGCATGAAGCATAGCTCA
Found at i:36425 original size:52 final size:52
Alignment explanation
Indices: 36347--36475 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
36337 CGAAATATGA
*
36347 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
36399 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
36451 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
36476 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:36488 original size:52 final size:51
Alignment explanation
Indices: 36347--36495 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
36337 CGAAATATGA
36347 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
36399 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
36451 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
36496 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:36502 original size:13 final size:13
Alignment explanation
Indices: 36484--36508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36474 CAAAGATCAG
36484 TGTATCGATACAA
1 TGTATCGATACAA
36497 TGTATCGATACA
1 TGTATCGATACA
36509 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:36576 original size:20 final size:21
Alignment explanation
Indices: 36547--36604 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
36537 GCAGTAGCTT
36547 AAAT-TGTATCGATACAAA-A
1 AAATATGTATCGATACAAACA
36566 AAATATGTATCGATA-AAACA
1 AAATATGTATCGATACAAACA
***
36586 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
36605 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 7 0.21
20 23 0.70
21 3 0.09
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATATGTATCGATACAAACA
Found at i:37800 original size:13 final size:13
Alignment explanation
Indices: 37782--37806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37772 CATAAAATGT
37782 TGTATCGATACAA
1 TGTATCGATACAA
37795 TGTATCGATACA
1 TGTATCGATACA
37807 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:37804 original size:33 final size:33
Alignment explanation
Indices: 37762--37831 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
37752 TTCAACGATT
37762 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** * *
37795 TGTATCGATACATATTTTTTTGTATTGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
37828 TGTA
1 TGTA
37832 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:37889 original size:13 final size:13
Alignment explanation
Indices: 37871--37895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37861 ATTACTCATA
37871 TGTATCGATACAT
1 TGTATCGATACAT
37884 TGTATCGATACA
1 TGTATCGATACA
37896 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:37960 original size:52 final size:52
Alignment explanation
Indices: 37904--38028 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 52
37894 CACTGATCTT
* *
37904 TGTATCGATACATGCAGGCAAATTTG-CCTGCATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAG-ATGTATCGATACACTATAAAA
*
37956 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
38008 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
38029 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 65 0.96
53 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:46424 original size:31 final size:31
Alignment explanation
Indices: 46386--46468 Score: 123
Period size: 31 Copynumber: 2.6 Consensus size: 31
46376 CAATTCTTCA
46386 AATCTCTTCTCAAAGCCCACGACTCAGTGGC
1 AATCTCTTCTCAAAGCCCACGACTCAGTGGC
*
46417 AATCTCTTCTCAAAGTCCACGACTCAGTGGC
1 AATCTCTTCTCAAAGCCCACGACTCAGTGGC
*
46448 -ATCCTTTTCTTCAAAGCCCAC
1 AAT-CTCTTC-TCAAAGCCCAC
46469 AACTTCGTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
30 2 0.04
31 35 0.74
32 10 0.21
ACGTcount: A:0.25, C:0.35, G:0.13, T:0.27
Consensus pattern (31 bp):
AATCTCTTCTCAAAGCCCACGACTCAGTGGC
Found at i:46512 original size:33 final size:34
Alignment explanation
Indices: 46460--47113 Score: 474
Period size: 34 Copynumber: 20.3 Consensus size: 34
46450 CCTTTTCTTC
*
46460 AAAGCCCACAACTTCGTGGCACCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * *
46494 -AAGTCCATAATTCCGTGGCA-C----TCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
46522 AAAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
46550 -AAGTCCACGACTCCGTGGCACCCTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCCTTTT
*
46584 AAAGCCCACAACTACGTGGCA-CTCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCCTTTT
*
46618 -AAGCCCATAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* * *
46653 CAAAGCCCACCACTCTGTGGCA-CTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
46687 AAAGCCCACAACTTCGTGGCACTCTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTT
* * *
46722 CAAAGCCCACCACTCCGTGG-AACTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
*
46756 AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
46792 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* * * *
46829 AAAGTCCACGACTCTGTGGCACC-TTTT--TTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
46860 AAAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
46888 -AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT
* * *
46922 -AAGTCCATAACTCTGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
46949 -AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT
* * *
46983 -AAGTCCACAACTCTGTGGTA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
47010 -AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT
*
47044 -AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
47071 -AAGCCCACAACTCCGTGGCACCTTTCTCCTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
47104 AAAGCCCACA
1 AAAGCCCACA
47114 CAAGTCGGTG
Statistics
Matches: 496, Mismatches: 72, Indels: 104
0.74 0.11 0.15
Matches are distributed among these distances:
27 100 0.20
28 21 0.04
29 19 0.04
30 1 0.00
31 21 0.04
32 1 0.00
33 82 0.17
34 109 0.22
35 49 0.10
36 41 0.08
37 52 0.10
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:46565 original size:27 final size:27
Alignment explanation
Indices: 46488--46576 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
46478 GCACCTTTTT
* *
46488 CCTTTTAAGTCCATAATTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
46515 TCTTTTTAAAGCCCACAACTCCGTGGCAC
1 -CCTTTT-AAGTCCACAACTCCGTGGCAC
*
46544 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
46571 CCTTTT
1 CCTTTT
46577 TTCTTTTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 25 0.47
28 10 0.19
29 18 0.34
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:46705 original size:70 final size:69
Alignment explanation
Indices: 46457--47113 Score: 526
Period size: 61 Copynumber: 10.2 Consensus size: 69
46447 CATCCTTTTC
* * * *
46457 TTCAAAGCCCACAACTTCGTGGCACCTTTTTCCTTTT-AAGTCCATAATTCCGTGGCACTC----
1 TTCAAAGCCCACAACTCCGTGGCA-CTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
46517 T--TT
65 TCCTT
* * *
46520 TT-AAAGCCCACAACTCCGTGGCAC-----CCTTTT-AAGTCCACGACTCCGTGGCACCCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
46578 TCTT
66 CCTT
* *
46582 TT-AAAGCCCACAACTACGTGGCACTCTTTTCCTTTT-AAGCCCATAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACT-TTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
46645 TCCCTT
65 T-CCTT
* * * *
46651 TTCAAAGCCCACCACTCTGTGGCACTTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
46716 TCTT
66 CCTT
* * * *
46720 TTCAAAGCCCACCACTCCGTGGAACTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
46785 CCCTT
66 -CCTT
* * *
46790 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACGACTCTGTGGCAC-C--
1 TTCAAAGCCCACAACTCCGTGGCA--CTTTTT-CCTTTTAAAGCCCACAACTCCGTGGCACTCTT
46852 TTT--TT
63 TTTCCTT
46857 TTCAAAGCCCACAACTCCGTGGCAC-----CCTTTT-AAGCCCACAACTCCGTGGCACT-TTTTT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
46915 CATCT
66 CCT-T
* * *
46920 TT--AAGTCCATAACTCTGTGGCAC-----CCTTTT-AAGCCCACAACTCCGTGGCACT-TTTTT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
46976 CATCT
66 CCT-T
* * *
46981 TT--AAGTCCACAACTCTGTGGTAC-----CCTTTT-AAGCCCACAACTCCGTGGCACT-TTTTT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
47037 CATCT
66 CCT-T
* *
47042 TT--AAGTCCACAACTCCGTGGCAC-----CCTTTT-AAGCCCACAACTCCGTGGCAC-CTTTCT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
47098 CCTT
66 CCTT
*
47102 CT-AAAGCCCACA
1 TTCAAAGCCCACA
47114 CAAGTCGGTG
Statistics
Matches: 523, Mismatches: 44, Indels: 56
0.84 0.07 0.09
Matches are distributed among these distances:
56 25 0.05
58 18 0.03
59 6 0.01
60 6 0.01
61 178 0.34
62 46 0.09
63 5 0.01
65 1 0.00
67 26 0.05
68 30 0.06
69 78 0.15
70 74 0.14
72 7 0.01
73 23 0.04
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (69 bp):
TTCAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
CCTT
Found at i:46769 original size:139 final size:139
Alignment explanation
Indices: 46428--46915 Score: 506
Period size: 139 Copynumber: 3.7 Consensus size: 139
46418 ATCTCTTCTC
*
46428 AAAGTCCACGAC-TCAGTGGCATCC--TTTTC--TTCAAAGCCCACAACTTCGTGGCACCTTTTT
1 AAAGTCCACGACTTC-GTGGCA-CCTTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
* * *
46488 CCTTTTAAGTCCATAATTCCGTGGCACTC----T---TTTT-AAAGCCCACAACTCCGTGGCA--
63 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
46543 -----CCCTTTT
128 TTTTTCCCTTTT
* *
46550 -AAGTCCACGACTCCGTGGCACCCTTTTTTCTTTT-AAAGCCCACAACTACGTGGCACTCTTTTC
1 AAAGTCCACGACTTCGTGGCA-CCTTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTC
* * *
46613 CTTTTAAGCCCATAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACCACTCTGTGGCA-CT
64 CTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
*
46677 TTTT-CTTTTT
129 TTTTCCCTTTT
* * * * *
46687 AAAGCCCACAACTTCGTGGCACTCTTTTTTCTTTTCAAAGCCCACCACTCCGTGGAACTTTTTCT
1 AAAGTCCACGACTTCGTGGCAC-CTTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTCC
*
46752 TTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC
65 TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-C
46817 TTTTTCCCTTTT
128 TTTTTCCCTTTT
46829 AAAGTCCACGAC-TCTGTGGCACC---TTT-TTTTCAAAGCCCACAACTCCGTGGCAC-----CC
1 AAAGTCCACGACTTC-GTGGCACCTTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTCC
46884 TTTTAAGCCCACAACTCCGTGGCACT-TTTTTC
65 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTC
46916 ATCTTTAAGT
Statistics
Matches: 312, Mismatches: 26, Indels: 48
0.81 0.07 0.12
Matches are distributed among these distances:
121 19 0.06
122 1 0.00
123 7 0.02
124 51 0.16
125 2 0.01
128 1 0.00
130 6 0.02
131 25 0.08
132 24 0.08
137 31 0.10
138 41 0.13
139 73 0.23
141 9 0.03
142 22 0.07
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (139 bp):
AAAGTCCACGACTTCGTGGCACCTTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTCCT
TTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
TTCCCTTTT
Found at i:46854 original size:27 final size:27
Alignment explanation
Indices: 46823--47095 Score: 140
Period size: 27 Copynumber: 9.2 Consensus size: 27
46813 ACTCTTTTTC
* * *
46823 CCTTTTAAAGTCCACGACTCTGTGGCA
1 CCTTTTAAAGCCCACAACTCCGTGGCA
46850 CCTTTTTTTCAAAGCCCACAACTCCGTGGCA
1 CC---TTTT-AAAGCCCACAACTCCGTGGCA
46881 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 -CCTTTTAAAGCCCACAACTCCGTGGCA
* * * *
46908 CTTTTTTCATCTTTAAGTCCATAACTCTGTGGCA
1 C-CTTTT-A-----AAGCCCACAACTCCGTGGCA
46942 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 -CCTTTTAAAGCCCACAACTCCGTGGCA
* * * *
46969 CTTTTTTCATCTTTAAGTCCACAACTCTGTGGTA
1 C-CTTTT-A-----AAGCCCACAACTCCGTGGCA
47003 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 -CCTTTTAAAGCCCACAACTCCGTGGCA
* *
47030 CTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 C-CTTTT-A-----AAGCCCACAACTCCGTGGCA
47064 CCCTTTT-AAGCCCACAACTCCGTGGCA
1 -CCTTTTAAAGCCCACAACTCCGTGGCA
47091 CCTTT
1 CCTTT
47096 CTCCTTCTAA
Statistics
Matches: 191, Mismatches: 23, Indels: 65
0.68 0.08 0.23
Matches are distributed among these distances:
26 8 0.04
27 87 0.46
29 4 0.02
30 4 0.02
31 18 0.09
32 2 0.01
34 65 0.34
35 3 0.02
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (27 bp):
CCTTTTAAAGCCCACAACTCCGTGGCA
Found at i:46921 original size:139 final size:131
Alignment explanation
Indices: 46428--47064 Score: 439
Period size: 139 Copynumber: 4.9 Consensus size: 131
46418 ATCTCTTCTC
* * *
46428 AAAGTCCACGACTCAGTGGCATCC-TTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTTCCTT
1 AAAGTCCACGACTCTGTGGCA-CCTTTTTTTTCAAAGCCCACAACTCCGTGGCA-C----TCCTT
* * *
46492 TTAAGTCCATAATTCCGTGGCACTC----T---TTTT-AAAGCCCACAACTCCGTGGCA------
60 TTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTT
46543 CCCTTTT
125 CCCTTTT
* * *
46550 -AAGTCCACGACTCCGTGGCACCCTTTTTTCTTTTAAAGCCCACAACTACGTGGCACTCTTTTCC
1 AAAGTCCACGACTCTGTGGCA-CC-TTTTT-TTTCAAAGCCCACAACTCCGTGGCA--C---TCC
* * *
46614 TTTTAAGCCCATAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACCACTCTGTGGCACTTT
58 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTT
*
46679 TT-CTTTTT
123 TTCCCTTTT
* * * *
46687 AAAGCCCACAACT-TCGTGGCACTCTTTTTTCTTTTCAAAGCCCACCACTCCGTGGAACTTTTTC
1 AAAGTCCACGACTCT-GTGGCAC-C--TTTT-TTTTCAAAGCCCACAACTCCGTGGCAC----TC
* *
46751 TTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACT
57 CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA--
46816 CTTTTTCCCTTTT
119 CTTTTTCCCTTTT
46829 AAAGTCCACGACTCTGTGGCACC-TTTTTTTCAAAGCCCACAACTCCGTGGCAC-CCTTTTAAGC
1 AAAGTCCACGACTCTGTGGCACCTTTTTTTTCAAAGCCCACAACTCCGTGGCACTCCTTTTAAGC
* * * *
46892 CCACAACTCCGTGGCACT-TTTTT-CATCTTT--AAGTCCATAACTCTGTGGCA------CCCTT
66 CCACAACTCCGTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCCGTGGCACTTTTTCCCTT
46947 TT
130 TT
* * * ** * * *
46949 -AAGCCCACAACTCCGTGGCA-CTTTTTTCATCTTTAAGTCCACAACTCTGTGGTAC-CCTTTTA
1 AAAGTCCACGACTCTGTGGCACCTTTTTT--T-TCAAAGCCCACAACTCCGTGGCACTCCTTTTA
* *
47011 AGCCCACAACTCCGTGGCACT-TTTTT-CATCTTT--AAGTCCACAACTCCGTGGCAC
63 AGCCCACAACTCCGTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCCGTGGCAC
47065 CCTTTTAAGC
Statistics
Matches: 436, Mismatches: 44, Indels: 69
0.79 0.08 0.13
Matches are distributed among these distances:
118 1 0.00
119 22 0.05
120 7 0.02
121 22 0.05
122 77 0.18
123 4 0.01
124 53 0.12
125 1 0.00
128 18 0.04
129 2 0.00
130 8 0.02
131 25 0.06
132 24 0.06
137 32 0.07
138 29 0.07
139 79 0.18
140 1 0.00
141 7 0.02
142 23 0.05
143 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (131 bp):
AAAGTCCACGACTCTGTGGCACCTTTTTTTTCAAAGCCCACAACTCCGTGGCACTCCTTTTAAGC
CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTCCCTTT
T
Found at i:47200 original size:49 final size:49
Alignment explanation
Indices: 47147--47785 Score: 831
Period size: 49 Copynumber: 13.5 Consensus size: 49
47137 GCCCAATATC
* *
47147 GCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
*
47196 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
47245 GTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAACGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
47294 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
47337 GCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
*
47386 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
47435 GTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
47484 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
47527 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
47576 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* **
47619 GCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
*
47668 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * * **
47711 GCAGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTTAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCAC--CTTC-ATCTTTAAGTCCAATGTA
47763 GCTGGCCTTGAATCAGCACATTG
1 GCTGGCCTTGAATCAGCACATTG
47786 ACATCCTTTT
Statistics
Matches: 522, Mismatches: 41, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
43 155 0.30
45 3 0.01
47 2 0.00
49 328 0.63
52 34 0.07
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (49 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
Found at i:47357 original size:190 final size:190
Alignment explanation
Indices: 47129--47785 Score: 1056
Period size: 190 Copynumber: 3.5 Consensus size: 190
47119 CGGTGGCAAC
*
47129 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATG
*
47194 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTC
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTC
*
47259 AGCACATTGGCACCTTCATCTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCA
130 AGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
47320 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATGT
*
47385 AGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTCA
47450 GCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 GCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
47510 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATGT
* * * *
47575 AGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTCA
* **
47634 GCATATTGGCACCTTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 GCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * * **
47694 CCTTTAAGTCCAATATAGCAGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTTAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCAC--CTTCT-TCTTTAAGTCCAA
47759 TGTAGCTGGCCTTGAATCAGCACATTG
63 TGTAGCTGGCCTTGAATCAGCACATTG
47786 ACATCCTTTT
Statistics
Matches: 443, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
184 125 0.28
186 4 0.01
187 38 0.09
190 272 0.61
191 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (190 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTCA
GCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:47373 original size:92 final size:92
Alignment explanation
Indices: 47229--47794 Score: 835
Period size: 92 Copynumber: 6.0 Consensus size: 92
47219 GCACCTTCAT
* * * * *
47229 CTTTAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAACGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
47294 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
47321 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
47386 GCTGGCCTTGACTCAGCACATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
47417 ATCTTTAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
47482 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
47511 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
47576 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* **
47603 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
47668 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * **
47695 CTTTAAGTCCAATATAGCAGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTTAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTTC-ATCTTTAAGTCCAAT
*
47760 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
47791 CTTT
1 CTTT
47795 TCTCATCATT
Statistics
Matches: 432, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
92 299 0.69
94 3 0.01
95 40 0.09
96 6 0.01
98 84 0.19
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:47905 original size:67 final size:68
Alignment explanation
Indices: 47797--47923 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
47787 CATCCTTTTC
* * *
47797 TCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
47861 TCT
66 TCT
* * * * *
47864 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
47924 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCATTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:48684 original size:13 final size:13
Alignment explanation
Indices: 48666--48690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48656 CATAAAATGT
48666 TGTATCGATACAA
1 TGTATCGATACAA
48679 TGTATCGATACA
1 TGTATCGATACA
48691 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:48688 original size:33 final size:33
Alignment explanation
Indices: 48646--48715 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
48636 TTCAACGATT
48646 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
48679 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
48712 TGTA
1 TGTA
48716 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:48772 original size:13 final size:13
Alignment explanation
Indices: 48754--48778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48744 ATTACTCACA
48754 TGTATCGATACAT
1 TGTATCGATACAT
48767 TGTATCGATACA
1 TGTATCGATACA
48779 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48843 original size:52 final size:52
Alignment explanation
Indices: 48787--48911 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
48777 CACTGATCTT
*
48787 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
48839 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
48891 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
48912 CTTTTCATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:52297 original size:19 final size:20
Alignment explanation
Indices: 52269--52310 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
52259 AATTAAGATG
52269 TATTTAATTATTATAT-ATT
1 TATTTAATTATTATATAATT
* *
52288 TATTTTATTATTTTATAATT
1 TATTTAATTATTATATAATT
52308 TAT
1 TAT
52311 ATTTGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTAATTATTATATAATT
Found at i:52308 original size:20 final size:20
Alignment explanation
Indices: 52269--52368 Score: 61
Period size: 20 Copynumber: 5.1 Consensus size: 20
52259 AATTAAGATG
* *
52269 TATTTAATTATTATAT-ATT
1 TATTTTATTATTTTATAATT
52288 TATTTTATTATTTTATAATT
1 TATTTTATTATTTTATAATT
52308 TATATTTGA--ATTTTATAA--
1 TAT-TTT-ATTATTTTATAATT
* * *
52326 TAATTT-TTATTTTGGTATTT
1 TATTTTATTATTTT-ATAATT
52346 GTATTTTTATTATTTT-TAATT
1 -TA-TTTTATTATTTTATAATT
52367 TA
1 TA
52369 AATAATTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
17 8 0.13
18 4 0.06
19 14 0.22
20 17 0.27
21 9 0.14
22 4 0.06
23 7 0.11
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TATTTTATTATTTTATAATT
Found at i:57510 original size:13 final size:13
Alignment explanation
Indices: 57492--57516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57482 TACAAAGATC
57492 AATGTATCGATAT
1 AATGTATCGATAT
57505 AATGTATCGATA
1 AATGTATCGATA
57517 CATTTGGATA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:58275 original size:49 final size:51
Alignment explanation
Indices: 58156--58279 Score: 155
Period size: 52 Copynumber: 2.5 Consensus size: 51
58146 CGAGAAGAAA
* *
58156 GCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTAGAGATGGTTAAGGT
1 GCCAATGTGCTGATTCAAGGCCAACAACATTCGGTTTAAAGATGG-TAAGGT
* * *
58208 GCAAATGTGTTGATTCAAGGCCAACGACA-TCGGTCTTAAAGAT-G-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAACAACATTCGGT-TTAAAGATGGTAAGGT
*
58257 GCCAATATGCTGATTCAAGGCCA
1 GCCAATGTGCTGATTCAAGGCCA
58280 GCGATATTGG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
49 25 0.40
51 5 0.08
52 33 0.52
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (51 bp):
GCCAATGTGCTGATTCAAGGCCAACAACATTCGGTTTAAAGATGGTAAGGT
Found at i:58309 original size:39 final size:39
Alignment explanation
Indices: 58255--58450 Score: 165
Period size: 39 Copynumber: 5.0 Consensus size: 39
58245 AAAGATGAAG
58255 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
58294 GTGCCAATGTGCTGATTCAAGGCCAGTGA-A-------A
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
58325 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * *
58364 ATACCAATGTGCTGATTCAAGGCCAACGATGTTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
58403 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
58451 AGAAGAAGAT
Statistics
Matches: 120, Mismatches: 20, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
31 26 0.22
32 1 0.01
38 1 0.01
39 59 0.49
48 33 0.28
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:58371 original size:70 final size:70
Alignment explanation
Indices: 58250--58388 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
58240 GTCTTAAAGA
* * *
58250 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAG
1 TGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATGTGCTGATTCAAG
58315 GCCAG
66 GCCAG
*
58320 TGAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTATACCAATGTGCTGATTCAAG
1 TGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATGTGCTGATTCAAG
58385 GCCA
66 GCCA
58389 ACGATGTTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (70 bp):
TGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATACCAATGTGCTGATTCAAG
GCCAG
Found at i:58540 original size:27 final size:28
Alignment explanation
Indices: 58460--58769 Score: 337
Period size: 28 Copynumber: 11.0 Consensus size: 28
58450 TAGAAGAAGA
*
58460 TGCCACCAACTTGTATGGGCTTTTGAAAGGGT
1 TGCCACTAACTTG--TGGGC-TTTGAAA-GGT
* *
58492 TG-CACCAACTTGTGTGCTTTTG-AAGGT
1 TGCCACTAACTTGTGGGC-TTTGAAAGGT
* *
58519 TGCCACTACCTTATGGGCTTTG-AAGGT
1 TGCCACTAACTTGTGGGCTTTGAAAGGT
* *
58546 TGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTAACTTGTGGGC-TTTGAAAGGT
* * *
58575 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTAACTTGTGGGC-TTTGAAAGGT
*
58604 TGCCACTGACTTGTGGGCTTTG-AAGGT
1 TGCCACTAACTTGTGGGCTTTGAAAGGT
*
58631 TGCCACTAACATGTGGGCTTTG-AAGGT
1 TGCCACTAACTTGTGGGCTTTGAAAGGT
58658 TGCCACTAACTTGTGGGCTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTG-AAAGGT
58686 TGCCACTAACTTGTGGGCTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTG-AAAGGT
* *
58714 TGCCACTAACTTGTGGGCTTTGAAAAGA
1 TGCCACTAACTTGTGGGCTTTGAAAGGT
* * *
58742 TGCCACTGACTTATGGGCTTTGGAAGGT
1 TGCCACTAACTTGTGGGCTTTGAAAGGT
58770 GAGAAATGTC
Statistics
Matches: 251, Mismatches: 21, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
27 83 0.33
28 94 0.37
29 62 0.25
31 10 0.04
32 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (28 bp):
TGCCACTAACTTGTGGGCTTTGAAAGGT
Found at i:61496 original size:79 final size:77
Alignment explanation
Indices: 61398--61644 Score: 264
Period size: 79 Copynumber: 3.1 Consensus size: 77
61388 AACGGGGTTT
61398 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGATTTCAAAA
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTGT-AAAAATCGATG-TTTCAAAA
61463 TAAAATCGGGATTG
64 TAAAATCGGGATTG
* * * * * * ** *
61477 GAGTATCCCCTCGGAAATAACGGGGTTTGAGTATCCCCGACTATAAAAAATTAATGTTTTAGAAA
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTGT-AAAAATCGATGTTTCA-AAA
*
61542 TAAAATCGGGGTTG
64 TAAAATCGGGATTG
* * * **
61556 GAGTGTCCCCTTAAAAATAACAGGGTTGGAGTAT-CTCTGATTGTAAAAAGTCGATGTTTTGGAA
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTC-GATTGTAAAAA-TCGATG-TTTCAAA
*
61620 ATAAAATC-GGAGTTA
63 ATAAAATCGGGA-TTG
61635 GAGTATCCCC
1 GAGTATCCCC
61645 GATTATGGAA
Statistics
Matches: 136, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
78 13 0.10
79 120 0.88
80 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (77 bp):
GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTGTAAAAATCGATGTTTCAAAATA
AAATCGGGATTG
Found at i:61665 original size:51 final size:51
Alignment explanation
Indices: 61608--61746 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
61598 GTAAAAAGTC
* * *
61608 GATGTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATGGAAAATG
1 GATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATG
* * * * *
61659 GGTGTTTTAGAAATAAAATCAGAGTTGGAGTATCCTCGATTAAGAAAAATT
1 GATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATG
* *
61710 GATGTTTTGGAAATGAAACCGG-GATTGGAGTATCCCC
1 GATGTTTTGGAAATAAAATCGGAG-TTGGAGTATCCCC
61747 AAGATGAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 1 0.01
51 72 0.99
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (51 bp):
GATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATG
Found at i:65501 original size:134 final size:134
Alignment explanation
Indices: 65261--65662 Score: 732
Period size: 134 Copynumber: 3.0 Consensus size: 134
65251 GCCATCCGAC
* * *
65261 GCCCATTAGCATGCGCGCCGCAAATTCCATCATGAACTTCTTCTAAGATCCTTTTGGCTTTAAGA
1 GCCCATTAGCATGCGTGCCGCAAATTCCACCATGAACTTCTTCTAAGATCCTTTTGGCTTCAAGA
65326 GCATCGACACATCTGAGCAGCACTTGGTCGTAACTTTTCTTGTATAAAATTTCTCCGTCGAGAAC
66 GCATCGACACATCTGAGCAGCACTTGGTCGTAACTTTTCTTGTATAAAATTTCTCCGTCGAGAAC
65391 GAAT
131 GAAT
65395 GCCCATTAGCATGCGTGCCGCAAATTCCACCATGAACTTCTTCTAAGATCCTTTTGGCTTCAAGA
1 GCCCATTAGCATGCGTGCCGCAAATTCCACCATGAACTTCTTCTAAGATCCTTTTGGCTTCAAGA
65460 GCATCGACACATCTGAGCAGCACTTGGTCGTAACTTTTCTTGTATAAAATTTCTCCGTCGAGAAC
66 GCATCGACACATCTGAGCAGCACTTGGTCGTAACTTTTCTTGTATAAAATTTCTCCGTCGAGAAC
65525 GAAT
131 GAAT
65529 GCCCATTAGCATGCGTGCCGCAAATTCCACCATGAACTTCTTCTAAGATCCTTTTGGCTTCAAGA
1 GCCCATTAGCATGCGTGCCGCAAATTCCACCATGAACTTCTTCTAAGATCCTTTTGGCTTCAAGA
* * * * *
65594 GAATCGACATATCTGAGCAGCACTTAGTCGTAACTTTTCTTGTATAAAATTTCTTCGTCGAGAAT
66 GCATCGACACATCTGAGCAGCACTTGGTCGTAACTTTTCTTGTATAAAATTTCTCCGTCGAGAAC
65659 GAAT
131 GAAT
65663 CCCGTAGCCA
Statistics
Matches: 260, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 260 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (134 bp):
GCCCATTAGCATGCGTGCCGCAAATTCCACCATGAACTTCTTCTAAGATCCTTTTGGCTTCAAGA
GCATCGACACATCTGAGCAGCACTTGGTCGTAACTTTTCTTGTATAAAATTTCTCCGTCGAGAAC
GAAT
Found at i:71957 original size:16 final size:16
Alignment explanation
Indices: 71936--71967 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
71926 GGGGACGAAT
71936 TCATAACTTTTTGTTA
1 TCATAACTTTTTGTTA
71952 TCATAACTTTTTGTTA
1 TCATAACTTTTTGTTA
71968 AGCCCGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
TCATAACTTTTTGTTA
Found at i:72169 original size:19 final size:18
Alignment explanation
Indices: 72145--72207 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
72135 AAACCGTAAC
72145 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
72164 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
72177 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
72196 TGTATCGATACA
1 TGTATCGATACA
72208 ATGTATTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:72182 original size:13 final size:13
Alignment explanation
Indices: 72164--72188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72154 ACATAAGTGT
72164 TGTATCGATACAA
1 TGTATCGATACAA
72177 TGTATCGATACA
1 TGTATCGATACA
72189 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:72186 original size:32 final size:32
Alignment explanation
Indices: 72145--72213 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
72135 AAACCGTAAC
72145 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
72177 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
72209 TGTAT
1 TGTAT
72214 TGCTACGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:72286 original size:20 final size:21
Alignment explanation
Indices: 72236--72292 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
72226 ACTGCCAAGA
72236 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
* *
72257 AAATGAATCGATACATTA-TG
1 AAATGTATCGATACATTACTC
72277 AAATGTATCGATACAT
1 AAATGTATCGATACAT
72293 GCAGGCAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:80930 original size:52 final size:52
Alignment explanation
Indices: 80782--80910 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
80772 CGAAATATGA
*
80782 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATATAATGTATCGATACATCTGGGC
*
80834 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATATAATGTATCGATACATCTGGGC
80886 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
80911 AAGATTAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTATATAATGTATCGATACATCTGGGC
Found at i:80937 original size:13 final size:13
Alignment explanation
Indices: 80919--80943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80909 CAAAGATTAG
80919 TGTATCGATACAA
1 TGTATCGATACAA
80932 TGTATCGATACA
1 TGTATCGATACA
80944 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:81002 original size:38 final size:38
Alignment explanation
Indices: 80951--81025 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
80941 ACATTTGAGT
80951 AATGTATCGATACATTTTTTGGCAGTAGCTTAAATTGA
1 AATGTATCGATACATTTTTTGGCAGTAGCTTAAATTGA
80989 AATGTATCGATACATTTTTTGGCAGTAGCTTAAATTG
1 AATGTATCGATACATTTTTTGGCAGTAGCTTAAATTG
81026 TATCGATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (38 bp):
AATGTATCGATACATTTTTTGGCAGTAGCTTAAATTGA
Found at i:81028 original size:33 final size:35
Alignment explanation
Indices: 80952--81035 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 35
80942 CATTTGAGTA
80952 ATGTATCGATACATTTTTTGGCAGTAGCTTAAATT
1 ATGTATCGATACATTTTTTGGCAGTAGCTTAAATT
80987 GAAATGTATCGATACATTTTTTGGCAGTAGCTTAAA-T
1 ---ATGTATCGATACATTTTTTGGCAGTAGCTTAAATT
81024 -TGTATCGATACA
1 ATGTATCGATACA
81036 AAATTTATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
33 12 0.26
37 1 0.02
38 33 0.72
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (35 bp):
ATGTATCGATACATTTTTTGGCAGTAGCTTAAATT
Found at i:81064 original size:20 final size:19
Alignment explanation
Indices: 81024--81076 Score: 88
Period size: 20 Copynumber: 2.7 Consensus size: 19
81014 TAGCTTAAAT
81024 TGTATCGATACAAAATTTA
1 TGTATCGATACAAAATTTA
*
81043 TGTATCGATACAATATTTTA
1 TGTATCGATACAA-AATTTA
81063 TGTATCGATACAAA
1 TGTATCGATACAAA
81077 TCATTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
TGTATCGATACAAAATTTA
Found at i:81680 original size:334 final size:334
Alignment explanation
Indices: 81063--81711 Score: 998
Period size: 334 Copynumber: 1.9 Consensus size: 334
81053 CAATATTTTA
* *
81063 TGTATCGATACAAATCATTGAAATTCAAAATTTTTAACCGTTGGGACCTTGTATCGATACATTCT
1 TGTATCAATACAAATCATTGAAATTCAAAATGTTTAACCGTTGGGACCTTGTATCGATACATTCT
*
81128 AACAATGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGCTTTTGAAACACCC
66 AACAATGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGCTTCTGAAACACCC
* * * * *
81193 TATCTCGACTAGGGACGATGGGAAATGGATTCGGGCTTAACGAAAAGTTATAAAAATCTAAAAAA
131 TATCTCGACTAAGGACGATAGGAAATAGATTCGGGCTTAACAAAAAGTCATAAAAATCTAAAAAA
* * *
81258 CCATTTTCGCCGGGCGCTGCTGCCGCCCGGCGAATTCGTCCCCACAAATGTCGAATCCTCCACCT
196 CCATTTTCGCCGGGCGCCGCTGCCGCCCGGCGAATTCGTCCCCACAAATGTCCAATCCTCCACCA
* *
81323 ACTAGCTAAGCCTCGAATTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACATATCGATACA
261 ACTAGCTAAGCCTCGAATTGTCGAAAATTGACCCAGACAAAATGAGGTGTCTACATATCGATACA
81388 TTTACTGTT
326 TTTACTGTT
** *
81397 TGTATCAATACAAATTGTTGAAATTCAAAATGTTTGACCGTTGGGACCTTGTATCGATACATTCT
1 TGTATCAATACAAATCATTGAAATTCAAAATGTTTAACCGTTGGGACCTTGTATCGATACATTCT
81462 AGA-AATGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGCCTTCTG-AACAC
66 A-ACAATGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTG-CTTCTGAAACAC
* * * ***
81525 TCTATCTCGACTAAGGATGATAGGAAATAGATTCGGGTTTAACAAAAAGTCATGCTAATCTAAAA
129 CCTATCTCGACTAAGGACGATAGGAAATAGATTCGGGCTTAACAAAAAGTCATAAAAATCTAAAA
* * * *
81590 AACCATTTTCGCTGGGCGCCGTTGGCGCCCGGCGAATTCGTCCCCACATATGTCCAATCCTCCAC
194 AACCATTTTCGCCGGGCGCCGCTGCCGCCCGGCGAATTCGTCCCCACAAATGTCCAATCCTCCAC
* *
81655 CAACTAGCTAGGCCTC-AAGTTGTCGAAAATTGACCCATACAAAATGAGGTGTCTACA
259 CAACTAGCTAAGCCTCGAA-TTGTCGAAAATTGACCCAGACAAAATGAGGTGTCTACA
81712 GAGATGAATC
Statistics
Matches: 284, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
333 2 0.01
334 276 0.97
335 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (334 bp):
TGTATCAATACAAATCATTGAAATTCAAAATGTTTAACCGTTGGGACCTTGTATCGATACATTCT
AACAATGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGCTTCTGAAACACCC
TATCTCGACTAAGGACGATAGGAAATAGATTCGGGCTTAACAAAAAGTCATAAAAATCTAAAAAA
CCATTTTCGCCGGGCGCCGCTGCCGCCCGGCGAATTCGTCCCCACAAATGTCCAATCCTCCACCA
ACTAGCTAAGCCTCGAATTGTCGAAAATTGACCCAGACAAAATGAGGTGTCTACATATCGATACA
TTTACTGTT
Found at i:82502 original size:20 final size:21
Alignment explanation
Indices: 82479--82533 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
82469 ATAATAAGGT
82479 AATGTATTGATACATAAGT-A
1 AATGTATTGATACATAAGTGA
* **
82499 AATGTATTGATAAATACTTGA
1 AATGTATTGATACATAAGTGA
*
82520 AATGTATCGATACA
1 AATGTATTGATACA
82534 AGACCATGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGTATTGATACATAAGTGA
Found at i:82635 original size:52 final size:52
Alignment explanation
Indices: 82570--82685 Score: 164
Period size: 52 Copynumber: 2.2 Consensus size: 52
82560 CTAGAAAGAA
* * *
82570 AATGTATCGATACATTCTGGGTTTTTAACCCAAATGTATCGAA-ACATTGTTC
1 AATGTATCGATACATTCGGGGTTTTTAACCCAAATATATC-AATACATTCTTC
*
82622 -ATCGTATCGATACATTCGGGGTTTTTGACCCAAATATATCAATACATTCTTC
1 AAT-GTATCGATACATTCGGGGTTTTTAACCCAAATATATCAATACATTCTTC
82674 AATGTATCGATA
1 AATGTATCGATA
82686 TGTGTAGGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.07
52 51 0.89
53 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (52 bp):
AATGTATCGATACATTCGGGGTTTTTAACCCAAATATATCAATACATTCTTC
Found at i:86430 original size:21 final size:21
Alignment explanation
Indices: 86406--86452 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
86396 TAAATAAATA
* *
86406 AAAATTTTAATTT-TTACATTT
1 AAAATTATAATTTAATA-ATTT
86427 AAAATTATAATTTAATAATTT
1 AAAATTATAATTTAATAATTT
86448 AAAAT
1 AAAAT
86453 CAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATTATAATTTAATAATTT
Found at i:86462 original size:21 final size:21
Alignment explanation
Indices: 86423--86462 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86413 TAATTTTTAC
* * *
86423 ATTTAAAATTATAATTTAATA
1 ATTTAAAATCAAAAATTAATA
86444 ATTTAAAATCAAAAATTAA
1 ATTTAAAATCAAAAATTAA
86463 AAAAATAATA
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTAAAATCAAAAATTAATA
Found at i:86802 original size:19 final size:18
Alignment explanation
Indices: 86751--86803 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
86741 AAACTGTTAA
86751 AAAGAAAGAAAATGAATTGG
1 AAAGAAAGAAAA--AATTGG
*
86771 AAA-AAATATAAAAATTTGG
1 AAAGAAAGA-AAAAA-TTGG
86790 AAAGAAAGAAAAAA
1 AAAGAAAGAAAAAA
86804 AAAACCCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.07
19 16 0.57
20 10 0.36
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (18 bp):
AAAGAAAGAAAAAATTGG
Found at i:88408 original size:21 final size:21
Alignment explanation
Indices: 88366--88429 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
88356 TATTATACGG
*
88366 ATTGATAAATAAATATTTTTT
1 ATTGATAAATAAATATTATTT
*
88387 ATTGGTAATATAAAT-TTATTT
1 ATTGATAA-ATAAATATTATTT
* *
88408 ACATGTTAAATAAA-ATTATTT
1 A-TTGATAAATAAATATTATTT
88429 A
1 A
88430 ATTTAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (21 bp):
ATTGATAAATAAATATTATTT
Found at i:88456 original size:20 final size:21
Alignment explanation
Indices: 88413--88486 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 21
88403 TATTTACATG
88413 TTAAATAAAATTATTTAATTTAA
1 TTAAA-AAAATTATTTAA-TTAA
* **
88436 TTTAAATTATTATTTAA-TAA
1 TTAAAAAAATTATTTAATTAA
88456 TTAAAAAAATTATTTAAATTTAA
1 TTAAAAAAATTATTT-AA-TTAA
*
88479 TTATAAAA
1 TTAAAAAA
88487 TATATACATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 15 0.37
21 2 0.05
22 10 0.24
23 14 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAAAAATTATTTAATTAA
Found at i:94182 original size:2 final size:2
Alignment explanation
Indices: 94175--94210 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
94165 CTTTCTTAGA
*
94175 AT AT AT AT AC 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
94211 TTCTTGGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:95654 original size:2 final size:2
Alignment explanation
Indices: 95647--95683 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
95637 TCAGTAATTC
*
95647 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95684 TTCGTGGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:96524 original size:2 final size:2
Alignment explanation
Indices: 96517--96545 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96507 TTGCTAGTAG
96517 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96546 CATTTCAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102936 original size:2 final size:2
Alignment explanation
Indices: 102929--102963 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
102919 TTTTACATAC
102929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102964 AAAGAAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:103055 original size:16 final size:15
Alignment explanation
Indices: 103036--103092 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
103026 GATTTAGATC
103036 TTTTCAGGTTTAACTG
1 TTTT-AGGTTTAACTG
103052 TTTT-GGATTTTAACTG
1 TTTTAGG--TTTAACTG
* *
103068 TTTTGGGTTTAATCTA
1 TTTTAGGTTTAA-CTG
103084 TTTTAGGTT
1 TTTTAGGTT
103093 CAGTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 2 0.06
15 5 0.14
16 26 0.74
17 2 0.06
ACGTcount: A:0.18, C:0.07, G:0.19, T:0.56
Consensus pattern (15 bp):
TTTTAGGTTTAACTG
Found at i:104483 original size:30 final size:30
Alignment explanation
Indices: 104455--104518 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
104445 AGGATTTTAG
104455 TTAGATTTTATTAATTTTAGTTATTTTTAAA
1 TTAG-TTTTATTAATTTTAGTTATTTTTAAA
* * **
104486 TTAGTTTTATTTATTTTATTTATGATTAAA
1 TTAGTTTTATTAATTTTAGTTATTTTTAAA
104516 TTA
1 TTA
104519 TACACCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (30 bp):
TTAGTTTTATTAATTTTAGTTATTTTTAAA
Found at i:105888 original size:115 final size:112
Alignment explanation
Indices: 105769--106030 Score: 282
Period size: 115 Copynumber: 2.3 Consensus size: 112
105759 ATGAAAATGT
* *
105769 TAAAATGGTACTAAAATGCATGGAATTGCATAATAATA-C-CAAAACATAGAC-AATAACTAAAA
1 TAAAATGATACAAAAATGCATGGAATTGCATAATAATAGCTCAAAACAT-GACAAATAACTAAAA
*** *
105831 TGGTCCTAAAATGCATGAAACTGCATAAAAATCTCTAAAACATGACAAATTAA
65 TCACCCT-AAATGCATGAAACTGCAT--AAA-C-ATAAAACATGACAAATTAA
* * * * *
105884 TAAAATGATCCCAAAATACATGGAATTGCAT-A-AATAGCTTTAAAACATGACAAATTACTAAAA
1 TAAAATGATACAAAAATGCATGGAATTGCATAATAATAGC-TCAAAACATGACAAATAACTAAAA
* * *
105947 TCACCCTAAATGCATGAAATTGCATAAACATAAAACATGGCAAATTAC
65 TCACCCTAAATGCATGAAACTGCATAAACATAAAACATGACAAATTAA
* *
105995 TAAAATGATACAAAAATGCATGAAATTACATAATAA
1 TAAAATGATACAAAAATGCATGGAATTGCATAATAA
106031 CCCCTAAATC
Statistics
Matches: 123, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
111 42 0.34
112 2 0.02
113 9 0.07
114 2 0.02
115 47 0.38
116 21 0.17
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (112 bp):
TAAAATGATACAAAAATGCATGGAATTGCATAATAATAGCTCAAAACATGACAAATAACTAAAAT
CACCCTAAATGCATGAAACTGCATAAACATAAAACATGACAAATTAA
Found at i:105900 original size:58 final size:56
Alignment explanation
Indices: 105779--106143 Score: 260
Period size: 58 Copynumber: 6.4 Consensus size: 56
105769 TAAAATGGTA
* * *
105779 CTAAAATGCATGGAATTGCATAATAATACC-AAAACATAGAC-AA-TAACTAAAATGGTC
1 CTAAAATGCATGAAATTGCATAAAAAT-CCTAAAACAT-GACAAATTAA-TAAAAT-GAC
*
105836 CTAAAATGCATGAAACTGCATAAAAATCTCTAAAACATGACAAATTAATAAAATGATC
1 CTAAAATGCATGAAATTGCATAAAAATC-CTAAAACATGACAAATTAATAAAATGA-C
* * * * * * * *
105894 CCAAAATACATGGAATTGCATAAATAGCTTTAAAACATGACAAATTACTAAAATCACC
1 CTAAAATGCATGAAATTGCATAAAAATC-CTAAAACATGACAAATTAATAAAATGA-C
* * * *
105952 CT-AAATGCATGAAATTGCAT--AAA-CATAAAACATGGCAAATTACTAAAATGATA
1 CTAAAATGCATGAAATTGCATAAAAATCCTAAAACATGACAAATTAATAAAATGA-C
* * ** * * *
106005 CAAAAATGCATGAAATTACATAATAACCCCTAAATCATGTA-AAGTTATTAAAATGAC
1 CTAAAATGCATGAAATTGCATAA-AAATCCTAAAACATG-ACAAATTAATAAAATGAC
* * * ** * *
106062 CTTAAAATACAGGAAAATGCATAAATGGTCCTAAAACATGGCAAATTAATAGAATGAC
1 C-TAAAATGCATGAAATTGCATAAA-AATCCTAAAACATGACAAATTAATAAAATGAC
* *
106120 CTTAAAATGCATAAAATTACATAA
1 C-TAAAATGCATGAAATTGCATAA
106144 TAACCCTTAA
Statistics
Matches: 244, Mismatches: 50, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
53 25 0.10
54 18 0.07
55 2 0.01
56 1 0.00
57 49 0.20
58 146 0.60
59 3 0.01
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.24
Consensus pattern (56 bp):
CTAAAATGCATGAAATTGCATAAAAATCCTAAAACATGACAAATTAATAAAATGAC
Found at i:106013 original size:169 final size:170
Alignment explanation
Indices: 105824--106143 Score: 371
Period size: 169 Copynumber: 1.9 Consensus size: 170
105814 ATAGACAATA
* * * * * *
105824 ACTAAAATGGTCCTAAAATGCATGAAACTGCATAAAAATCTCTAAAACATG-ACAAATTAATAAA
1 ACTAAAATGATACAAAAATGCATGAAACTACATAAAAACCCCTAAAACATGTA-AAATTAATAAA
* * *
105888 ATGATCC-CAAAATACATGG-AATTGCATAAATAGCT-TTAAAACATGACAAATTACTAAAATCA
65 ATGA-CCTCAAAATACA-GGAAAATGCATAAAT-GCTCCTAAAACATGACAAATTAATAAAATCA
* *
105950 CCCT-AAATGCATGAAATTGCATAAACATAAAACATGGCAAATT
127 CCCTAAAATGCATAAAATTACATAAACATAAAACATGGCAAATT
* * * * *
105993 ACTAAAATGATACAAAAATGCATGAAATTACATAATAACCCCTAAATCATGTAAAGTTATTAAAA
1 ACTAAAATGATACAAAAATGCATGAAACTACATAAAAACCCCTAAAACATGTAAAATTAATAAAA
* * * * * *
106058 TGACCTTAAAATACAGGAAAATGCATAAATGGTCCTAAAACATGGCAAATTAATAGAATGACCTT
66 TGACCTCAAAATACAGGAAAATGCATAAATGCTCCTAAAACATGACAAATTAATAAAATCACCCT
106123 AAAATGCATAAAATTACATAA
131 AAAATGCATAAAATTACATAA
106144 TAACCCTTAA
Statistics
Matches: 124, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
168 6 0.05
169 99 0.80
170 19 0.15
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (170 bp):
ACTAAAATGATACAAAAATGCATGAAACTACATAAAAACCCCTAAAACATGTAAAATTAATAAAA
TGACCTCAAAATACAGGAAAATGCATAAATGCTCCTAAAACATGACAAATTAATAAAATCACCCT
AAAATGCATAAAATTACATAAACATAAAACATGGCAAATT
Found at i:108754 original size:21 final size:21
Alignment explanation
Indices: 108730--108800 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
108720 ATTTCTCCAA
108730 ATTTTATCTAATCTTCACTTG
1 ATTTTATCTAATCTTCACTTG
** **
108751 ATTTTATGCTTTAATAATC-C-AA
1 ATTTTAT-C--TAATCTTCACTTG
108773 ATTTTATCTAATCTTCACTTG
1 ATTTTATCTAATCTTCACTTG
108794 ATTTTAT
1 ATTTTAT
108801 GCTTTAATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
19 6 0.16
20 1 0.03
21 15 0.41
22 8 0.22
23 1 0.03
24 6 0.16
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTTATCTAATCTTCACTTG
Found at i:108786 original size:43 final size:43
Alignment explanation
Indices: 108725--108812 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
108715 TCTCTATTTC
108725 TCCAAATTTTATCTAATCTTCACTTGATTTTATGCTTTAATAA
1 TCCAAATTTTATCTAATCTTCACTTGATTTTATGCTTTAATAA
108768 TCCAAATTTTATCTAATCTTCACTTGATTTTATGCTTTAATAA
1 TCCAAATTTTATCTAATCTTCACTTGATTTTATGCTTTAATAA
108811 TC
1 TC
108813 GTTTAAGTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.49
Consensus pattern (43 bp):
TCCAAATTTTATCTAATCTTCACTTGATTTTATGCTTTAATAA
Found at i:111238 original size:28 final size:28
Alignment explanation
Indices: 111206--111305 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
111196 GATAAAAATA
*
111206 GGGTTGAAGTATCCCCTCAGAAATAACG
1 GGGTTGAAGTATCCCCTCGGAAATAACG
* *
111234 GGGTTTG-ATTATCCCTTCGGAAATAACG
1 GGG-TTGAAGTATCCCCTCGGAAATAACG
* *
111262 GGGTT-AGATTATCCCTTCGGAAATAACG
1 GGGTTGA-AGTATCCCCTCGGAAATAACG
*
111290 GGGTTGGAGTATCCCC
1 GGGTTGAAGTATCCCC
111306 AATGGTGGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
27 2 0.03
28 57 0.92
29 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (28 bp):
GGGTTGAAGTATCCCCTCGGAAATAACG
Found at i:111433 original size:79 final size:80
Alignment explanation
Indices: 111277--111433 Score: 219
Period size: 79 Copynumber: 2.0 Consensus size: 80
111267 AGATTATCCC
* * * *
111277 TTCGGAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAAATCGATGTTGTGAAAATAAAATCG
1 TTCGAAAATAACGGGGTTGGAGTATCCCCAATGATGGAAAAATCGATATTGTGAAAATAAAACCG
111342 AGGTTGGAGTATCTA
66 AGGTTGGAGTATCTA
* * * *
111357 TTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGG-AAAATCGATATT-TTAGAAATAAAGCC
1 TTCGAAAATAACGGGGTTGGAGTATCCCCAATGATGGAAAAATCGATATTGTGA-AAATAAAACC
111420 GAGGTTGGAGTATC
65 GAGGTTGGAGTATC
111434 CTCAATTGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
78 2 0.03
79 33 0.49
80 33 0.49
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (80 bp):
TTCGAAAATAACGGGGTTGGAGTATCCCCAATGATGGAAAAATCGATATTGTGAAAATAAAACCG
AGGTTGGAGTATCTA
Found at i:111449 original size:51 final size:51
Alignment explanation
Indices: 111371--111467 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
111361 AAAATAACGG
* *
111371 GGTTGGAGTATCCCCGATTATGGAAAATCGATATTTTAGAAATAAAGCCGA
1 GGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAAGCCGA
* * *
111422 GGTTGGAGTATCCTCAATTGTGAAAAATCGATGTTTTAGAAATAAA
1 GGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAA
111468 AATCAGGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAAGCCGA
Found at i:111521 original size:80 final size:80
Alignment explanation
Indices: 111422--111628 Score: 253
Period size: 79 Copynumber: 2.6 Consensus size: 80
111412 ATAAAGCCGA
111422 GGTTGGAGTATCCTCAATTGTGAAAAATCGATGTTTTAGAAATAAAAATCAGGGTTGGAGTATCC
1 GGTTGGAGTATCCTCAATTGTGAAAAATCGATGTTTTAGAAATAAAAATCAGGGTTGGAGTATCC
111487 CCTCAAAAATAATC-G
66 CCTCAAAAATAA-CGG
* * * *
111502 GGTTGAAGTATCC-CTAATTGTGAAAAAT-TAGTGTTTT-GAAA-ATAAAATGAGGTTTGGAGTA
1 GGTTGGAGTATCCTC-AATTGTGAAAAATCGA-TGTTTTAGAAATA-AAAATCAGGGTTGGAGTA
* *
111563 TCCTCTCAGAAATAACGG
63 TCCCCTCAAAAATAACGG
* * * *
111581 GGTTGGAGTATCCTCGATGGTGAAAAATCGGTATTTTAGAAATAAAAA
1 GGTTGGAGTATCCTCAATTGTGAAAAATCGATGTTTTAGAAATAAAAA
111629 CATCAATGAA
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
78 2 0.02
79 64 0.60
80 40 0.37
81 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (80 bp):
GGTTGGAGTATCCTCAATTGTGAAAAATCGATGTTTTAGAAATAAAAATCAGGGTTGGAGTATCC
CCTCAAAAATAACGG
Found at i:111529 original size:131 final size:131
Alignment explanation
Indices: 111291--111529 Score: 306
Period size: 131 Copynumber: 1.8 Consensus size: 131
111281 GAAATAACGG
*
111291 GGTTGGAGTATCCCCAATGGTGGAAAAATCGATGTTGTGAAAATAAAATCGAGGTTGGAGTATCT
1 GGTTGGAGTATCCCCAATGGTGGAAAAATCGATGTTGTGAAAATAAAATCGAGGTTGGAGTATCC
* * * * *
111356 ATTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATATTTTAGAAATAAAGCCG
66 ACTCAAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAAGCCG
111421 A
131 A
* * *
111422 GGTTGGAGTATCCTCAATTGT-GAAAAATCGATGTT-TTAGAAATAAAAATC-AGGGTTGGAGTA
1 GGTTGGAGTATCCCCAATGGTGGAAAAATCGATGTTGTGA-AAAT-AAAATCGA-GGTTGGAGTA
* * *
111484 TCCCCTCAAAAATAATC-GGGTTGAAGTATCCCTAATTGTGAAAAAT
63 TCCACTCAAAAATAA-CGGGGTTGAAGTATCCCCAATTATGAAAAAT
111530 TAGTGTTTTG
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
129 2 0.02
130 19 0.21
131 70 0.76
132 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (131 bp):
GGTTGGAGTATCCCCAATGGTGGAAAAATCGATGTTGTGAAAATAAAATCGAGGTTGGAGTATCC
ACTCAAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAAGCCG
A
Done.