Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 24 of 117
Found at i:6662635 original size:16 final size:16
Alignment explanation
Indices: 6662606--6662648 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
6662596 TATACAATTT
*
6662606 TTTTAATAT-TTTAAA
1 TTTTAATATAATTAAA
6662621 TTTTAATATAATTAAA
1 TTTTAATATAATTAAA
**
6662637 CATTAATATAAT
1 TTTTAATATAAT
6662649 ACACAGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAATATAATTAAA
Found at i:6672040 original size:14 final size:15
Alignment explanation
Indices: 6672021--6672049 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6672011 TACATAATTA
6672021 AAAAAATAAA-AAAT
1 AAAAAATAAAGAAAT
6672035 AAAAAATAAAGAAAT
1 AAAAAATAAAGAAAT
6672050 CAAATAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAGAAAT
Found at i:6672483 original size:19 final size:19
Alignment explanation
Indices: 6672455--6672517 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
6672445 ATTTAACTTA
* *
6672455 AAAAACCATAAAAACAAAAG
1 AAAAA-CATAAAAAAAAAAT
6672475 AAAAACATAAAAGAAAAAAT
1 AAAAACATAAAA-AAAAAAT
* *
6672495 AAAAAAATAAAAAGAAAAT
1 AAAAACATAAAAAAAAAAT
6672514 AAAA
1 AAAA
6672518 TAGAGTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.81, C:0.06, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAAACATAAAAAAAAAAT
Found at i:6672488 original size:13 final size:12
Alignment explanation
Indices: 6672464--6672498 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
6672454 AAAAAACCAT
*
6672464 AAAAACAAAAGA
1 AAAAATAAAAGA
6672476 AAAACATAAAAGA
1 AAAA-ATAAAAGA
6672489 AAAAATAAAA
1 AAAAATAAAA
6672499 AAATAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.83, C:0.06, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAATAAAAGA
Found at i:6672790 original size:22 final size:24
Alignment explanation
Indices: 6672753--6672814 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 24
6672743 AACTTAATTA
*
6672753 ATAAAA-TACATATAT-AT-AAAT
1 ATAAAATTAAATATATAATAAAAT
6672774 ATAAAATTAAATATATAATAAAAT
1 ATAAAATTAAATATATAATAAAAT
6672798 ATAGATAATTAAA-ATAT
1 ATA-A-AATTAAATATAT
6672815 TGTTTTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 6 0.17
22 8 0.23
23 2 0.06
24 7 0.20
25 5 0.14
26 7 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
ATAAAATTAAATATATAATAAAAT
Found at i:6672805 original size:14 final size:13
Alignment explanation
Indices: 6672751--6672814 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 13
6672741 ATAACTTAAT
*
6672751 TAATAAAATA-CA
1 TAATAAAATATAA
6672763 TATATATAAATATAA
1 TA-ATA-AAATATAA
*
6672778 -AATTAAATAT-A
1 TAATAAAATATAA
6672789 TAATAAAATATAGA
1 TAATAAAATATA-A
6672803 TAATTAAAATAT
1 TAA-TAAAATAT
6672815 TGTTTTAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.02
12 17 0.40
13 5 0.12
14 10 0.24
15 9 0.21
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (13 bp):
TAATAAAATATAA
Found at i:6673124 original size:15 final size:15
Alignment explanation
Indices: 6673090--6673139 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
6673080 TAAAATGTAA
6673090 TAAAAGAAAAAAAAG
1 TAAAAGAAAAAAAAG
* *
6673105 CAAAAGAAAAAAAGG
1 TAAAAGAAAAAAAAG
6673120 TAAAAAAGAAAAAAATAG
1 T--AAAAGAAAAAAA-AG
6673138 TA
1 TA
6673140 TCAAGTAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 13 0.46
16 1 0.04
17 12 0.43
18 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (15 bp):
TAAAAGAAAAAAAAG
Found at i:6673968 original size:19 final size:19
Alignment explanation
Indices: 6673941--6673980 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6673931 CCTAATGATG
*
6673941 AATTTTAAAAA-AAGAAAAA
1 AATTATAAAAAGAA-AAAAA
6673960 AATTATAAAAAGAAAAAAA
1 AATTATAAAAAGAAAAAAA
6673979 AA
1 AA
6673981 ACTGGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AATTATAAAAAGAAAAAAA
Found at i:6675104 original size:6 final size:6
Alignment explanation
Indices: 6675093--6675119 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6675083 TAGAGTCAAG
6675093 AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
6675120 TAGAGACTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:6675650 original size:12 final size:12
Alignment explanation
Indices: 6675635--6675847 Score: 58
Period size: 12 Copynumber: 17.2 Consensus size: 12
6675625 GTATTTTTTG
6675635 TATTTTATTATT
1 TATTTTATTATT
6675647 TATTATTATTA-T
1 TATT-TTATTATT
*
6675659 TATTATGTATTA-A
1 TATT-T-TATTATT
* *
6675672 TATATGTATATCTT
1 TAT-TTTAT-TATT
6675686 TA-TTTATTTATT
1 TATTTTA-TTATT
6675698 TA-TTTATT-TT
1 TATTTTATTATT
* *
6675708 T-TTCTATTA-A
1 TATTTTATTATT
*
6675718 TATTCCTATGTATT
1 TATT-TTAT-TATT
*
6675732 T-TATTTAGTTATA
1 TAT-TTTA-TTATT
6675745 TA-TTTATTATT
1 TATTTTATTATT
*
6675756 ATATTATAATTTATT
1 -TATT-TTA-TTATT
6675771 TATTATTATTA-T
1 TATT-TTATTATT
6675783 TATTTTA-TATT
1 TATTTTATTATT
6675794 T-TATTTATT-TT
1 TAT-TTTATTATT
6675805 TATATTT-TTATT
1 TAT-TTTATTATT
*
6675817 TATCTAATTATATATC
1 TAT-T--TTAT-TATT
*
6675833 TATTTTTTTATT
1 TATTTTATTATT
6675845 TAT
1 TAT
6675848 CCTATAATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
10 12 0.08
11 22 0.14
12 59 0.38
13 32 0.21
14 17 0.11
15 7 0.05
16 6 0.04
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (12 bp):
TATTTTATTATT
Found at i:6675693 original size:4 final size:4
Alignment explanation
Indices: 6675684--6675847 Score: 71
Period size: 4 Copynumber: 41.2 Consensus size: 4
6675674 TATGTATATC
* *
6675684 TTTA TTTA TTTA TTTA TTTA TTT- TTT- TCTA TTAATA TTCCTA TGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TT--TA TTTA
* *
6675730 TTTTA TTTA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTTA -TTA
1 -TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TTTA
*
6675776 -TTA -TTA -TTA TTT- TATA TTTTA TTTA -TT- TTTA TATT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
* * * * *
6675819 TCTA ATTA TATA TCTA TTTT TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
6675848 CCTATAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
3 28 0.22
4 72 0.58
5 15 0.12
6 10 0.08
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:6675698 original size:59 final size:62
Alignment explanation
Indices: 6675626--6675786 Score: 147
Period size: 65 Copynumber: 2.6 Consensus size: 62
6675616 TTTTTTTTTG
* * *
6675626 TATTTTTTGTATTTTA-TTATTTATTATTATTATTATTATGTATTA-ATATA-TGTATATCTT
1 TATTTATTATATTTTATTTATTTATTATTATTATTATTATGTATTATATATAGT-TATATATT
* * * *
6675686 TATTTATT-TA-TTTATTTATTT-TTTTCTATTAATATTCCTATGTATTTTATTTAGTTATATAT
1 TATTTATTATATTTTATTTATTTATTAT-TATTATTA-T--TATGTATTATATATAGTTATATAT
6675748 T
62 T
*
6675749 TA-TTATTATATTATAATTTATTTATTATTATTATTATT
1 TATTTATTATATT-TTATTTATTTATTATTATTATTATT
6675787 TTATATTTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
58 7 0.09
59 15 0.19
60 8 0.10
62 14 0.17
63 15 0.19
64 3 0.04
65 16 0.20
66 3 0.04
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (62 bp):
TATTTATTATATTTTATTTATTTATTATTATTATTATTATGTATTATATATAGTTATATATT
Found at i:6675785 original size:28 final size:28
Alignment explanation
Indices: 6675734--6675807 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
6675724 TATGTATTTT
*
6675734 ATTTAGTTATATATTTATTATTATATTATA
1 ATTTATTTAT-TA-TTATTATTATATTATA
*
6675764 ATTTATTTATTATTATTATTATTTTATA
1 ATTTATTTATTATTATTATTATATTATA
* *
6675792 TTTTATTTATTTTTAT
1 ATTTATTTATTATTAT
6675808 ATTTTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 29 0.73
29 2 0.05
30 9 0.22
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (28 bp):
ATTTATTTATTATTATTATTATATTATA
Found at i:6675797 original size:62 final size:58
Alignment explanation
Indices: 6675638--6675845 Score: 165
Period size: 62 Copynumber: 3.5 Consensus size: 58
6675628 TTTTTTGTAT
* * * *
6675638 TTTA-TTATTTATTATTATTATTATTATGTA-TTAATATATGTATATCTTTATTTATTTA
1 TTTATTTATTTATTATTATTATTATTTTGTATTTTATTTAT-TATATATTTA-TTATTTA
* *
6675696 TTTATTTATTT-TTTTCTATTAATATTCCTATGTATTTTATTTAGTTATATATTTATTATTATA
1 TTTATTTATTTATTAT-TATTATTATT--T-TGTATTTTATTTA-TTATATATTTATTATT-TA
* *
6675759 TTATAATTTATTTATTATTATTATTATTTTATATTTTATTTATTTTTATATTT-TTATTTA
1 TT-T-ATTTATTTATTATTATTATTATTTTGTATTTTATTTA-TTATATATTTATTATTTA
* * * *
6675819 TCTAATTATATATCTATT-TTTTTATTT
1 TTTATTTATTTAT-TATTATTATTATTT
6675846 ATCCTATAAT
Statistics
Matches: 123, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
58 23 0.19
59 20 0.16
60 3 0.02
61 5 0.04
62 30 0.24
63 20 0.16
64 2 0.02
65 17 0.14
66 3 0.02
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (58 bp):
TTTATTTATTTATTATTATTATTATTTTGTATTTTATTTATTATATATTTATTATTTA
Found at i:6675799 original size:50 final size:53
Alignment explanation
Indices: 6675745--6675843 Score: 132
Period size: 50 Copynumber: 1.9 Consensus size: 53
6675735 TTTAGTTATA
*
6675745 TATTTATTATTATATTATAATTTAT-TTATTAT-TAT-TATTATTTTATATTT
1 TATTTATTATTATATTATAATTTATCTAATTATATATCTATTATTTTATATTT
* * * *
6675795 TATTTATTTTTATATTTTTATTTATCTAATTATATATCTATTTTTTTAT
1 TATTTATTATTATATTATAATTTATCTAATTATATATCTATTATTTTAT
6675844 TTATCCTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 22 0.54
51 6 0.15
52 3 0.07
53 10 0.24
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (53 bp):
TATTTATTATTATATTATAATTTATCTAATTATATATCTATTATTTTATATTT
Found at i:6675888 original size:27 final size:26
Alignment explanation
Indices: 6675809--6675874 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
6675799 TATTTTTATA
*
6675809 TTTTTATTTAT-CTAATTATATATCTATT
1 TTTTTATTTATCCT-ATAATATATC--TT
6675837 TTTTTATTTATCCTATAATATATCTT
1 TTTTTATTTATCCTATAATATATCTT
6675863 TTTTTATTTATC
1 TTTTTATTTATC
6675875 TGTTCTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 14 0.39
28 20 0.56
29 2 0.06
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTTATTTATCCTATAATATATCTT
Found at i:6676761 original size:9 final size:9
Alignment explanation
Indices: 6676749--6676854 Score: 51
Period size: 9 Copynumber: 11.4 Consensus size: 9
6676739 TTTTTTGAAT
*
6676749 TTTTTTTTA
1 TTTTATTTA
6676758 TTTTATTTA
1 TTTTATTTA
**
6676767 TTAGA-TTA
1 TTTTATTTA
*
6676775 GATTTATTTAA
1 -TTTTATTT-A
6676786 TATTT-TTTA
1 T-TTTATTTA
6676795 TCTTTATCTTA
1 T-TTTAT-TTA
6676806 TTTTTATTT-
1 -TTTTATTTA
*
6676815 TTGT-TTTA
1 TTTTATTTA
*
6676823 CTTTTCTTTA
1 -TTTTATTTA
6676833 TTTT-TTTA
1 TTTTATTTA
6676841 TCTTTATTTA
1 T-TTTATTTA
6676851 TTTT
1 TTTT
6676855 CACTTTTATT
Statistics
Matches: 75, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.04
8 11 0.15
9 31 0.41
10 17 0.23
11 12 0.16
12 1 0.01
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:6676811 original size:17 final size:16
Alignment explanation
Indices: 6676789--6676854 Score: 59
Period size: 17 Copynumber: 4.2 Consensus size: 16
6676779 TATTTAATAT
6676789 TTTTTATCTTTATCTTA
1 TTTTTATCTTTAT-TTA
* *
6676806 TTTTTATTTTTGTTT-
1 TTTTTATCTTTATTTA
*
6676821 TACTTT-TCTTTA-TT-
1 T-TTTTATCTTTATTTA
6676835 TTTTTATCTTTATTTA
1 TTTTTATCTTTATTTA
6676851 TTTT
1 TTTT
6676855 CACTTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
13 3 0.08
14 9 0.23
15 7 0.18
16 9 0.23
17 11 0.28
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTATCTTTATTTA
Found at i:6676874 original size:22 final size:22
Alignment explanation
Indices: 6676836--6676877 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6676826 TTCTTTATTT
6676836 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
*
6676858 TTTTAT-TTTGTTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
6676878 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:6676972 original size:59 final size:58
Alignment explanation
Indices: 6676890--6677169 Score: 313
Period size: 59 Copynumber: 4.8 Consensus size: 58
6676880 TAAATAAAAA
*
6676890 TAAAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATT
1 TAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATT
* * * **
6676947 TAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAATATCAAATTTCCTTGGAAATCAAAGTT
1 T--AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAA-TT
* *
6677008 TCAAAAAAAATATTTTTGAGAAAAAGTTGAGAGTATCAATTTTCCTTAAAAATCAAATT
1 T-AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATT
*
6677067 TGAAAAAAAATA-TTTTGGGGAAAAG-TGAACAGTATCAAATTTTCCTTAAAAAT--AATT
1 T-AAAAAAAATATTTTTGAGGAAAAGTTGAA-AGTATC-AATTTTCCTTAAAAATCAAATT
**
6677124 TTCAAAAAATATTTTTGA-GAAAAGTCTTGGAAAGTATCAATTTTCC
1 TAAAAAAAATATTTTTGAGGAAAAG--TT-GAAAGTATCAATTTTCC
6677170 CTACACAAGA
Statistics
Matches: 190, Mismatches: 21, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
56 14 0.07
57 14 0.07
58 25 0.13
59 79 0.42
60 55 0.29
61 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (58 bp):
TAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATT
Found at i:6683863 original size:1 final size:1
Alignment explanation
Indices: 6683859--6683915 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
6683849 GATGGGGCAT
* * * * * *
6683859 AAAAAATAAAAAAAAAAATAAAAAAAAACAAAAAAAATAAAAAAAATAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6683916 GGGACATATT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.89, C:0.02, G:0.00, T:0.09
Consensus pattern (1 bp):
A
Found at i:6683873 original size:9 final size:9
Alignment explanation
Indices: 6683857--6683910 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
6683847 ATGATGGGGC
6683857 ATAAAAAATA
1 ATAAAAAA-A
*
6683867 AAAAAAAAA
1 ATAAAAAAA
6683876 ATAAAAAAAA
1 AT-AAAAAAA
*
6683886 ACAAAAAAA
1 ATAAAAAAA
6683895 ATAAAAAAA
1 ATAAAAAAA
6683904 ATAAAAA
1 ATAAAAA
6683911 TAAAAGGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
9 24 0.62
10 15 0.38
ACGTcount: A:0.89, C:0.02, G:0.00, T:0.09
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:6683881 original size:19 final size:18
Alignment explanation
Indices: 6683857--6683915 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 18
6683847 ATGATGGGGC
6683857 ATAAAAAATAAAAAAAAAA
1 ATAAAAAA-AAAAAAAAAA
6683876 ATAAAAAAAAACAAAAAAA
1 ATAAAAAAAAA-AAAAAAA
6683895 ATAAAAAAAATAAAAATAAA
1 ATAAAAAAAA-AAAAA-AAA
6683915 A
1 A
6683916 GGGACATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.08
19 29 0.78
20 5 0.14
ACGTcount: A:0.88, C:0.02, G:0.00, T:0.10
Consensus pattern (18 bp):
ATAAAAAAAAAAAAAAAA
Found at i:6685730 original size:41 final size:41
Alignment explanation
Indices: 6685619--6685736 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
6685609 GCATGTTTTT
* * *
6685619 AAAATTTTAAAGTCTCTGTTT-AAGAGAAACCGTTCTCAATC
1 AAAATTTTAAAGCCTCTGTTTAAAG-GGAACCATTCTCAATC
* * *
6685660 AAAATTTTAAAACATCTGTTTAAAAGGAACCAATT-TCAATC
1 AAAATTTTAAAGCCTCTGTTTAAAGGGAACC-ATTCTCAATC
* *
6685701 AAGATTTTAAAGCCTCTGTTTAAAGGGAACCTTTCT
1 AAAATTTTAAAGCCTCTGTTTAAAGGGAACCATTCT
6685737 TAGAAAAGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
40 2 0.03
41 57 0.90
42 4 0.06
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (41 bp):
AAAATTTTAAAGCCTCTGTTTAAAGGGAACCATTCTCAATC
Found at i:6685888 original size:23 final size:23
Alignment explanation
Indices: 6685855--6685956 Score: 99
Period size: 23 Copynumber: 4.7 Consensus size: 23
6685845 AAGATTTTGA
6685855 GATTCTGTAAGACCTCCGGACAT
1 GATTCTGTAAGACCTCCGGACAT
* * *
6685878 GATTCTATAAGACCTTCGGGCAT
1 GATTCTGTAAGACCTCCGGACAT
* *
6685901 GATT-TTTAAGACCTTCAGG---T
1 GATTCTGTAAGACC-TCCGGACAT
*
6685921 AATTCTGTAAGACCTCCGGACAT
1 GATTCTGTAAGACCTCCGGACAT
6685944 GATT-T-TAAGACCT
1 GATTCTGTAAGACCT
6685957 TCAGATAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.12
21 16 0.25
22 9 0.14
23 31 0.48
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCGGACAT
Found at i:6685913 original size:22 final size:22
Alignment explanation
Indices: 6685862--6686022 Score: 143
Period size: 22 Copynumber: 7.4 Consensus size: 22
6685852 TGAGATTCTG
* * *
6685862 TAAGACCTCCGGACATGATTCTA
1 TAAGACCTTCGGGCATGATT-TT
6685885 TAAGACCTTCGGGCATGATTTT
1 TAAGACCTTCGGGCATGATTTT
* * *
6685907 TAAGACCTTCAGG--TAATTCTG
1 TAAGACCTTCGGGCATGATT-TT
* *
6685928 TAAGACCTCCGGACATGA-TTT
1 TAAGACCTTCGGGCATGATTTT
* *
6685949 TAAGACCTTC-AG-ATAATTTT
1 TAAGACCTTCGGGCATGATTTT
*
6685969 GTAAGACCTTCGGGCATAATTTT
1 -TAAGACCTTCGGGCATGATTTT
* *
6685992 TAAGACTTTCGGGCATGATTTC
1 TAAGACCTTCGGGCATGATTTT
6686014 TAAGACCTT
1 TAAGACCTT
6686023 TGATATAAAT
Statistics
Matches: 111, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.03
20 7 0.06
21 31 0.28
22 42 0.38
23 28 0.25
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (22 bp):
TAAGACCTTCGGGCATGATTTT
Found at i:6685933 original size:21 final size:20
Alignment explanation
Indices: 6685902--6685979 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
6685892 TTCGGGCATG
*
6685902 ATTTTTAAGACCTTCAGGTA
1 ATTTGTAAGACCTTCAGGTA
*
6685922 ATTCTGTAAGACC-TCCGG-A
1 ATT-TGTAAGACCTTCAGGTA
* *
6685941 CATGATTTTAAGACCTTCAGATA
1 -AT--TTGTAAGACCTTCAGGTA
6685964 ATTTTGTAAGACCTTC
1 A-TTTGTAAGACCTTC
6685980 GGGCATAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 9 0.20
21 28 0.62
22 5 0.11
23 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTTGTAAGACCTTCAGGTA
Found at i:6685966 original size:42 final size:43
Alignment explanation
Indices: 6685879--6685997 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 43
6685869 TCCGGACATG
* *
6685879 ATTCTATAAGACCTTCGGGCATGATTTTTAAGACCTTCAGGTA
1 ATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCAGATA
* *
6685922 ATTCTGTAAGACCTCCGGACATGA-TTTTAAGACCTTCAGATA
1 ATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCAGATA
* *
6685964 ATTTTGTAAGACCTTCGGGCATAATTTTTAAGAC
1 ATTCTGTAAGACCTTCGGGCATGATTTTTAAGAC
6685998 TTTCGGGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 37 0.55
43 30 0.45
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (43 bp):
ATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCAGATA
Found at i:6686115 original size:23 final size:23
Alignment explanation
Indices: 6686093--6686308 Score: 168
Period size: 22 Copynumber: 9.8 Consensus size: 23
6686083 CAGTCAATTT
*
6686093 TGTAAGATCTCCGGGCATGATT-
1 TGTAAGACCTCCGGGCATGATTC
* * * * *
6686115 TTTAAGAGCTTC--GAATAATTC
1 TGTAAGACCTCCGGGCATGATTC
*
6686136 TATAAGACCTCCGGGCATGATTC
1 TGTAAGACCTCCGGGCATGATTC
*
6686159 TGTAAGACCTTCGGGCATGACTTC
1 TGTAAGACCTCCGGGCATGA-TTC
*
6686183 --TAAGACCTCCGGGTATGATT-
1 TGTAAGACCTCCGGGCATGATTC
* * * *
6686203 TTTAAGACCTTC--GAATAATTC
1 TGTAAGACCTCCGGGCATGATTC
*
6686224 TATAAGACCTCCGGGCATGATTC
1 TGTAAGACCTCCGGGCATGATTC
*
6686247 TGTAAGACCTTCGGGCATGATGTC
1 TGTAAGACCTCCGGGCATGAT-TC
*
6686271 --TAAGACCTCCGAGCATGACTTC
1 TGTAAGACCTCCGGGCATGA-TTC
*
6686293 --TAAGACCTCTGGGCAT
1 TGTAAGACCTCCGGGCAT
6686309 AAATTTGATT
Statistics
Matches: 156, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
20 12 0.08
21 21 0.13
22 66 0.42
23 52 0.33
24 5 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (23 bp):
TGTAAGACCTCCGGGCATGATTC
Found at i:6686148 original size:43 final size:44
Alignment explanation
Indices: 6686095--6686259 Score: 212
Period size: 43 Copynumber: 3.8 Consensus size: 44
6686085 GTCAATTTTG
* * *
6686095 TAAGATCTCCGGGCATGATT-TTTAAGAGCTTCGAATAATTCTA
1 TAAGACCTCCGGGCATGATTCTGTAAGACCTTCGAATAATTCTA
* *
6686138 TAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATGACTTC--
1 TAAGACCTCCGGGCATGATTCTGTAAGACCTTC--GAAT-AATTCTA
* *
6686183 TAAGACCTCCGGGTATGATT-TTTAAGACCTTCGAATAATTCTA
1 TAAGACCTCCGGGCATGATTCTGTAAGACCTTCGAATAATTCTA
6686226 TAAGACCTCCGGGCATGATTCTGTAAGACCTTCG
1 TAAGACCTCCGGGCATGATTCTGTAAGACCTTCG
6686260 GGCATGATGT
Statistics
Matches: 104, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
41 4 0.04
42 3 0.03
43 38 0.37
44 33 0.32
45 19 0.18
46 3 0.03
47 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
TAAGACCTCCGGGCATGATTCTGTAAGACCTTCGAATAATTCTA
Found at i:6686244 original size:88 final size:88
Alignment explanation
Indices: 6686095--6686300 Score: 342
Period size: 88 Copynumber: 2.3 Consensus size: 88
6686085 GTCAATTTTG
* *
6686095 TAAGATCTCCGGGCATGATTTTTAAGAGCTTCGAATAATTCTATAAGACCTCCGGGCATGATTCT
1 TAAGACCTCCGGGCATGATTTTTAAGACCTTCGAATAATTCTATAAGACCTCCGGGCATGATTCT
6686160 GTAAGACCTTCGGGCATGACT-TC
66 GTAAGACCTTCGGGCATGA-TGTC
*
6686183 TAAGACCTCCGGGTATGATTTTTAAGACCTTCGAATAATTCTATAAGACCTCCGGGCATGATTCT
1 TAAGACCTCCGGGCATGATTTTTAAGACCTTCGAATAATTCTATAAGACCTCCGGGCATGATTCT
6686248 GTAAGACCTTCGGGCATGATGTC
66 GTAAGACCTTCGGGCATGATGTC
* * *
6686271 TAAGACCTCCGAGCATGACTTCTAAGACCT
1 TAAGACCTCCGGGCATGATTTTTAAGACCT
6686301 CTGGGCATAA
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 1 0.01
88 109 0.99
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (88 bp):
TAAGACCTCCGGGCATGATTTTTAAGACCTTCGAATAATTCTATAAGACCTCCGGGCATGATTCT
GTAAGACCTTCGGGCATGATGTC
Found at i:6686405 original size:22 final size:23
Alignment explanation
Indices: 6686373--6686418 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
6686363 TTATTTCAAT
6686373 TGATTCTGTAAGACCTCCGGGCA
1 TGATTCTGTAAGACCTCCGGGCA
* *
6686396 TGATT-TGTAATACCTTCGGGCA
1 TGATTCTGTAAGACCTCCGGGCA
6686418 T
1 T
6686419 AAAATCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCCGGGCA
Found at i:6686464 original size:110 final size:110
Alignment explanation
Indices: 6686271--6686470 Score: 258
Period size: 110 Copynumber: 1.8 Consensus size: 110
6686261 GCATGATGTC
* * *
6686271 TAAGACCTCCGAGCATGACTTCTAAGACCTCTGGGCATAAATTTGATTCGCGGTGTTATCCCGAT
1 TAAGACCTCCGAGCATGACTTCTAAGACCTCTGGGCATAAAATCGATTCGCGATGTTATCCCGAT
***
6686336 AAATTTTTTATCTTTTGACTTGTGGTGTTATTTCAATTGATTCTG
66 AAATTCACTATCTTTTGACTTGTGGTGTTATTTCAATTGATTCTG
* * * * *
6686381 TAAGACCTCCGGGCATGATTTGTAATACCT-TCGGGCATAAAATCGATTCGCGATGTTATCTCGA
1 TAAGACCTCCGAGCATGACTTCTAAGACCTCT-GGGCATAAAATCGATTCGCGATGTTATCCCGA
** *
6686445 TCGATTCACTATTTTTTGACTTGTGG
65 TAAATTCACTATCTTTTGACTTGTGG
6686471 CATCAAATTT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
109 1 0.01
110 74 0.99
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (110 bp):
TAAGACCTCCGAGCATGACTTCTAAGACCTCTGGGCATAAAATCGATTCGCGATGTTATCCCGAT
AAATTCACTATCTTTTGACTTGTGGTGTTATTTCAATTGATTCTG
Found at i:6686560 original size:47 final size:48
Alignment explanation
Indices: 6686496--6686588 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 48
6686486 AGATGAAAAT
*
6686496 TTTTAAAGTTGTGGAGCCTCTGTTGAGAAGAGCTTTTCT-AGATGAGA
1 TTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAGCTTTTCTAAGATGAGA
* *
6686543 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCTAAGATGA
1 TTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAGCTTTTCTAAGATGA
6686589 AAATTTAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 36 0.86
48 6 0.14
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (48 bp):
TTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAGCTTTTCTAAGATGAGA
Found at i:6686665 original size:47 final size:47
Alignment explanation
Indices: 6686596--6687030 Score: 497
Period size: 47 Copynumber: 9.2 Consensus size: 47
6686586 TGAAAATTTA
6686596 AGCTTTTTT--AGATGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
1 AGCTTTTTTCAAGA-GA-ATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
6686643 AGCTTTTTTCAAGAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
1 AGCTTTTTTCAAGAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
*
6686690 AGCTTTTTTCAAGAGAATCTTAAAGTTGTGGAGCCTCTGCTGAGAGG
1 AGCTTTTTTCAAGAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
* * *
6686737 AACTTTTTTCAAGATAATATTAAAGTTGTGGAGCCTCTGCTGAGAGG
1 AGCTTTTTTCAAGAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
* * * * *
6686784 AGTTTTTTTTAAGAGGATTTTAAAGTTGTGAAACCTCTGCTGAGAGG
1 AGCTTTTTTCAAGAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
* * *
6686831 AGC--TTTTCCAGATGAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGG
1 AGCTTTTTTCAAGA-G-AATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
* * **
6686878 AGC-TTTTTCAAGATGAAAATTTTGAAGTTATTAAGCCTCTGCTGAGAGG
1 AGCTTTTTTCAAGA-G--AATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
* * * *
6686927 AGC-TTTTCCAAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTAAGAGA
1 AGCTTTTTTC-A-A-GAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
* * * * *
6686976 AAC-TTTTTCAAGAGAATTTTAAAGTTGTTGAACCTCTACTGAGAGA
1 AGCTTTTTTCAAGAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
6687022 AGTCTTTTT
1 AG-CTTTTT
6687031 AAAAGATCAC
Statistics
Matches: 338, Mismatches: 39, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
45 7 0.02
46 32 0.09
47 203 0.60
48 17 0.05
49 74 0.22
50 1 0.00
51 2 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (47 bp):
AGCTTTTTTCAAGAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
Found at i:6687604 original size:14 final size:14
Alignment explanation
Indices: 6687569--6687604 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6687559 ACACCACGCC
*
6687569 ACAAAGAACAGGAA
1 ACAAAAAACAGGAA
*
6687583 ACACAAAACAGGAA
1 ACAAAAAACAGGAA
6687597 ACAAAAAA
1 ACAAAAAA
6687605 AAAAGTCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (14 bp):
ACAAAAAACAGGAA
Found at i:6691261 original size:20 final size:20
Alignment explanation
Indices: 6691219--6691269 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
6691209 GTAAAAAAAT
*
6691219 TATAAAAAATAATTTTATAA
1 TATAAAAAAAAATTTTATAA
*
6691239 TATAAAATAAAAATTTTA-GA
1 TATAAAA-AAAAATTTTATAA
6691259 TATTAAAAAAA
1 TA-TAAAAAAA
6691270 TAAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TATAAAAAAAAATTTTATAA
Found at i:6691738 original size:20 final size:20
Alignment explanation
Indices: 6691693--6691735 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6691683 TAATGGTATG
*
6691693 ATTTATTAATAAAATATTAA
1 ATTTAATAATAAAATATTAA
*
6691713 ATTTAATAATAAAGT-TTAA
1 ATTTAATAATAAAATATTAA
6691732 ATTT
1 ATTT
6691736 TAAGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTTAATAATAAAATATTAA
Found at i:6693468 original size:27 final size:28
Alignment explanation
Indices: 6693438--6693493 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
6693428 TAAATTGTAA
*
6693438 TAAAA-TATTTAATATAATATATAAATT
1 TAAAAGTATTTAATATAATACATAAATT
* *
6693465 TAAAAGTTTTTTAATATGATACATAAATT
1 TAAAAG-TATTTAATATAATACATAAATT
6693494 ATGAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
29 19 0.79
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (28 bp):
TAAAAGTATTTAATATAATACATAAATT
Found at i:6695148 original size:2 final size:2
Alignment explanation
Indices: 6695135--6695185 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
6695125 GTAAAGTTGT
* * * *
6695135 TA TA TG TA TA TA TA CA CA CA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6695176 TA TA TA TA TA
1 TA TA TA TA TA
6695186 AATTTTGGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6698590 original size:76 final size:76
Alignment explanation
Indices: 6698464--6698690 Score: 400
Period size: 76 Copynumber: 3.0 Consensus size: 76
6698454 TCTGAACTCA
*
6698464 AAGGTAAATTCTTAAAAAAGAGATCCAGATATAAGGAAGTTCAGGATGTAATATACTCAACCTAC
1 AAGGTAAATTCTTAAAAAAGAGACCCAGATATAAGGAAGTTCAGGATGTAATATACTCAACCTAC
6698529 AGCAATTCTTG
66 AGCAATTCTTG
*
6698540 AAGGTAAATTCTTAAAAAAGAGACCCAGATGTAAGGAAGTTCAGGATGTAATATACTCAACCTAC
1 AAGGTAAATTCTTAAAAAAGAGACCCAGATATAAGGAAGTTCAGGATGTAATATACTCAACCTAC
6698605 AGCAATTCTTG
66 AGCAATTCTTG
* * *
6698616 AAAGTAAATTCTTAAAAAAGAGACGCAGATATAAGGAAGTTCAGGGTGTAATATACTCAACCTAC
1 AAGGTAAATTCTTAAAAAAGAGACCCAGATATAAGGAAGTTCAGGATGTAATATACTCAACCTAC
*
6698681 AACAATTCTT
66 AGCAATTCTT
6698691 AGTATGTTAC
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 144 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (76 bp):
AAGGTAAATTCTTAAAAAAGAGACCCAGATATAAGGAAGTTCAGGATGTAATATACTCAACCTAC
AGCAATTCTTG
Found at i:6701559 original size:60 final size:62
Alignment explanation
Indices: 6701416--6701571 Score: 182
Period size: 60 Copynumber: 2.6 Consensus size: 62
6701406 GTTTGAAAAT
* *
6701416 TTTTTATTTT-AAAGAAAATTGACACTTTCAACTTTTTCTTAAAATATATATATTTTTTAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAATATATATATTTTTTAAA
* * *
6701477 -TTTTAATTTCGAGAAAAATTGATACTTTCAAC-TTTTCTCT-AAA-ATAT-T-TTTTTTAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCT-TAAAATATATATATTTTTTAAA
*
6701534 CCTTTTTATTTTCAAGGGAAATTGATACTTTCAACTTT
1 --TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTT
6701572 ATCCCAAAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
57 9 0.11
58 1 0.01
59 4 0.05
60 45 0.56
61 21 0.26
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (62 bp):
TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAATATATATATTTTTTAAA
Found at i:6701711 original size:60 final size:57
Alignment explanation
Indices: 6701610--6701835 Score: 210
Period size: 60 Copynumber: 3.9 Consensus size: 57
6701600 TTTTAGAAAC
* * *
6701610 TTTATTTT-TAAGAAAAATTGATGCTTTCAACTTT-TTCCTAAAAATATATTTTTTAACCTT
1 TTTATTTTCAAAG-AAAATTGATACTTTCAACTTTCCT-CTAAAAATATATTTTTT-A--TT
* * **
6701670 TTTATTTTTAAAGAAAATTGATGCTTTCAACTTTCCTCTAAAAACCTATTTTTTATT
1 TTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCTCTAAAAATATATTTTTTATT
** * * * *
6701727 TTGGTGTTCAAAGGAAATTGATACATTT-AACTTTCCTTTAAAAATAT-TATTTTA-T
1 TTTATTTTCAAAGAAAATTGATAC-TTTCAACTTTCCTCTAAAAATATATTTTTTATT
* * * *
6701782 TTTATTTTCAAAAAAAATTGGTACTTTCAACTTTTCTTTAAAAATATATTTTTT
1 TTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCTCTAAAAATATATTTTTT
6701836 TGAAAATTTT
Statistics
Matches: 139, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
54 3 0.02
55 37 0.27
56 11 0.08
57 36 0.26
58 3 0.02
59 1 0.01
60 44 0.32
61 4 0.03
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (57 bp):
TTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCTCTAAAAATATATTTTTTATT
Found at i:6701814 original size:55 final size:55
Alignment explanation
Indices: 6701669--6701833 Score: 192
Period size: 55 Copynumber: 3.0 Consensus size: 55
6701659 TTTTTAACCT
* * *
6701669 TTTTATTTTTAAAGAAAATTGATGCTTTCAACTTTCCTCTAAAAACCTATT-TTTTA
1 TTTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCTTTAAAAA--TATTATTTTA
* * *
6701725 TTTTGGTGTTCAAAGGAAATTGATACATTT-AACTTTCCTTTAAAAATATTATTTTA
1 TTTT-ATTTTCAAAGAAAATTGATAC-TTTCAACTTTCCTTTAAAAATATTATTTTA
* * *
6701781 TTTTATTTTCAAAAAAAATTGGTACTTTCAACTTTTCTTTAAAAATA-TATTTT
1 TTTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCTTTAAAAATATTATTTT
6701834 TTTGAAAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
54 9 0.10
55 37 0.40
56 13 0.14
57 31 0.33
58 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (55 bp):
TTTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCTTTAAAAATATTATTTTA
Found at i:6702422 original size:24 final size:24
Alignment explanation
Indices: 6702381--6702427 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
6702371 CGAAATATGG
* **
6702381 AAATTTGGCAAATTTTCCAAAAAA
1 AAATTTGCCAAAAATTCCAAAAAA
*
6702405 AAATTTGCCAAAAATTCCTAAAA
1 AAATTTGCCAAAAATTCCAAAAA
6702428 TATCTTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (24 bp):
AAATTTGCCAAAAATTCCAAAAAA
Found at i:6702961 original size:44 final size:44
Alignment explanation
Indices: 6702920--6703211 Score: 313
Period size: 44 Copynumber: 6.7 Consensus size: 44
6702910 TCTTCTAAGT
* *
6702920 AGAGGCTCAACGACTTTAAAAAAATAAACAAAGCTCCTCTAAAC
1 AGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAAC
* * * *
6702964 AGAGGCTCAATAACTTTAAAAAAATAAATAAAACTCTTCTAAAT
1 AGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAAC
* * *
6703008 AGAGGCTCAACAACTTTGAAAAGATAAATTAAGCTCCTCTAAAC
1 AGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAAC
* * * * * *
6703052 ATAAGCTCAACGACTTTGAAAAAAATAAACAAAACTCCTTTAAAC
1 AGAGGCTCAACAACTTT-AAAAAAATAAATAAAGCTCCTCTAAAC
6703097 AGAGGCTCAACAAC-TT-AAAAAATAAATAAATTGCTCCTCTAAAC
1 AGAGGCTCAACAACTTTAAAAAAATAAATAAA--GCTCCTCTAAAC
* * * * * *
6703141 AGAGGCACCACCACTTTAGAAAAATAAAT--TGCTCATCTAAAC
1 AGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAAC
* * *
6703183 AGAGGCACCACAACTTTGAAAAAATAAAT
1 AGAGGCTCAACAACTTTAAAAAAATAAAT
6703212 TGCATCTTGA
Statistics
Matches: 206, Mismatches: 37, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
42 50 0.24
44 112 0.54
45 34 0.17
46 10 0.05
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (44 bp):
AGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAAC
Found at i:6703090 original size:133 final size:130
Alignment explanation
Indices: 6702924--6703210 Score: 357
Period size: 133 Copynumber: 2.2 Consensus size: 130
6702914 CTAAGTAGAG
* *
6702924 GCTCAACGACTTT-AAAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATAACTTTAAAAAAA
1 GCTCAACGACTTTGAAAAAAATAAACAAAACTCCTCTAAACAGAGGCTCAACAAC-TT-AAAAAA
* * * *
6702988 TAAATAAA-ACTCTTCTAAATAGAGGCTCAACAACTTT-GAAAAGATAAATTAAGCTCCTCTAAA
64 TAAATAAATACTCCTCTAAACAGAGGCACAACAACTTTAGAAAA-ATAAATT--GCTCATCTAAA
*
6703051 CATAA
126 CAGAA
*
6703056 GCTCAACGACTTTGAAAAAAATAAACAAAACTCCTTTAAACAGAGGCTCAACAACTTAAAAAATA
1 GCTCAACGACTTTGAAAAAAATAAACAAAACTCCTCTAAACAGAGGCTCAACAACTTAAAAAATA
* * *
6703121 AATAAATTGCTCCTCTAAACAGAGGCACCACCACTTTAGAAAAATAAATTGCTCATCTAAACAGA
66 AATAAA-TACTCCTCTAAACAGAGGCACAACAACTTTAGAAAAATAAATTGCTCATCTAAACAGA
*
6703186 G
130 A
* * *
6703187 GCACCACAACTTTG-AAAAAATAAA
1 GCTCAACGACTTTGAAAAAAATAAA
6703211 TTGCATCTTG
Statistics
Matches: 136, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
130 10 0.07
131 38 0.28
132 15 0.11
133 68 0.50
134 5 0.04
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (130 bp):
GCTCAACGACTTTGAAAAAAATAAACAAAACTCCTCTAAACAGAGGCTCAACAACTTAAAAAATA
AATAAATACTCCTCTAAACAGAGGCACAACAACTTTAGAAAAATAAATTGCTCATCTAAACAGAA
Found at i:6703498 original size:16 final size:16
Alignment explanation
Indices: 6703477--6703509 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6703467 ATATGCTATA
6703477 CGAAATACAATGCATG
1 CGAAATACAATGCATG
*
6703493 CGAAATTCAATGCATG
1 CGAAATACAATGCATG
6703509 C
1 C
6703510 TATGCAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (16 bp):
CGAAATACAATGCATG
Found at i:6709443 original size:15 final size:15
Alignment explanation
Indices: 6709423--6709452 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6709413 CATATATTGT
*
6709423 ATTATTATTATTAAA
1 ATTATTAATATTAAA
6709438 ATTATTAATATTAAA
1 ATTATTAATATTAAA
6709453 TTGAAATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATTAATATTAAA
Found at i:6717170 original size:59 final size:58
Alignment explanation
Indices: 6717072--6717207 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 58
6717062 TTTTAAAGCA
* * * * *
6717072 TTTGAAAATTTTTTATTTTAAAGAAAATTGATAGTTTCAACTTTTTCGTAAAATATTTTTT
1 TTTG-AAA-TTTTTATTTCAAAAAAAATTAATACTTTCAACTTTTCCGTAAAATA-TTTTT
* *
6717133 TTTGAAATTTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTTAAAATATTTTT
1 TTTGAAATTTTTATTTCAAAAAAAATTAATACTTTCAACTTTTCCGTAAAATATTTTT
*
6717191 CTTGATAATTTTTATTT
1 TTTGA-AATTTTTATTT
6717208 TATAAATTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 9 0.14
59 49 0.75
60 3 0.05
61 4 0.06
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.52
Consensus pattern (58 bp):
TTTGAAATTTTTATTTCAAAAAAAATTAATACTTTCAACTTTTCCGTAAAATATTTTT
Found at i:6717228 original size:74 final size:72
Alignment explanation
Indices: 6717137--6717329 Score: 246
Period size: 72 Copynumber: 2.7 Consensus size: 72
6717127 TTTTTTTTTG
* * * *
6717137 AAATTTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTT--AAAATATTTTTCTTGATAAT
1 AAATTTTATTTTTAAAAAAAATTGATACTTTCAACTTTT--TTCAAAAATA-TTTT-TTGAAAAT
*
6717200 TTTTATTTTAT
62 TTTTATTTTAA
* *
6717211 AAATTTTATTTTTAAAAAAAATTGATACTTTTAAGTTTTTTCAAAAATATTTTTTGAAAATTTTT
1 AAATTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTGAAAATTTTT
6717276 ATTTTAA
66 ATTTTAA
* * *
6717283 AAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTTCCAAAA
1 AAATTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTTTCAAAAA
6717330 GCCTATTTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
72 61 0.58
73 4 0.04
74 40 0.38
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (72 bp):
AAATTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTGAAAATTTTT
ATTTTAA
Found at i:6717417 original size:55 final size:53
Alignment explanation
Indices: 6717287--6717451 Score: 188
Period size: 55 Copynumber: 3.0 Consensus size: 53
6717277 TTTTAAAAAC
* *
6717287 TTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTTCCAAAAGCCTA-TTTTTTAT
1 TTTATTTTCAAA-AAAATTGATACTTTCAACTTTTTT-CAAAA--ATATTTTTTTAT
* * *
6717343 TTTGATGTTCAAAAGAAATTGATACATTCAACTTTCCTTCAAAAATATTTTTTTAT
1 TTT-ATTTTCAAAA-AAATTGATACTTTCAACTTT-TTTCAAAAATATTTTTTTAT
*
6717399 TTTATTTTCAAGAAAAATTGATACTTTCAATTTTTTCTCAAAAATATTTTTTT
1 TTTATTTTCAA-AAAAATTGATACTTTCAACTTTTT-TCAAAAATATTTTTTT
6717452 TGAAAATTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.01
55 43 0.46
56 17 0.18
57 31 0.33
58 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (53 bp):
TTTATTTTCAAAAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAT
Found at i:6718000 original size:10 final size:11
Alignment explanation
Indices: 6717977--6718003 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6717967 ACTGAAATCT
6717977 AAAAATTTCAA
1 AAAAATTTCAA
6717988 AAAAATTTCAA
1 AAAAATTTCAA
6717999 AAAAA
1 AAAAA
6718004 AATTCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAATTTCAA
Found at i:6718001 original size:12 final size:12
Alignment explanation
Indices: 6717977--6718029 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
6717967 ACTGAAATCT
6717977 AAAAATTTC-AA
1 AAAAATTTCAAA
6717988 AAAAATTTCAAA
1 AAAAATTTCAAA
* **
6718000 AAAAAATTCATT
1 AAAAATTTCAAA
* *
6718012 AAAAATTCCTAA
1 AAAAATTTCAAA
6718024 AAAAAT
1 AAAAAT
6718030 CTTAAAATCA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATTTCAAA
Found at i:6718004 original size:23 final size:24
Alignment explanation
Indices: 6717977--6718029 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6717967 ACTGAAATCT
*
6717977 AAAAATTTCA-AAAAAATTTCAAA
1 AAAAATTTCATAAAAAATTCCAAA
* * *
6718000 AAAAAATTCATTAAAAATTCCTAA
1 AAAAATTTCATAAAAAATTCCAAA
6718024 AAAAAT
1 AAAAAT
6718030 CTTAAAATCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAAATTTCATAAAAAATTCCAAA
Found at i:6718317 original size:3 final size:3
Alignment explanation
Indices: 6718309--6718350 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6718299 ATAAATCAAA
6718309 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6718351 GAAAATGGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6720016 original size:22 final size:22
Alignment explanation
Indices: 6719989--6720046 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
6719979 CACATCATCG
6719989 TATTATTAAA-AAATTAATTATT
1 TATTA-TAAATAAATTAATTATT
*
6720011 TATTATAAATTAATTAATTAATT
1 TATTATAAATAAATTAATT-ATT
*
6720034 AATTA-AAATAAAT
1 TATTATAAATAAAT
6720047 ATTTACTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 20 0.65
23 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTATAAATAAATTAATTATT
Found at i:6721637 original size:21 final size:19
Alignment explanation
Indices: 6721596--6721645 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
6721586 AATAGAGATC
*
6721596 ATTACAAAAT-TTTATAAT
1 ATTAAAAAATATTTATAAT
6721614 ATTAAAAAATATTTATCAAAT
1 ATTAAAAAATATTTAT--AAT
6721635 ATTAAAAAATA
1 ATTAAAAAATA
6721646 AATAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 5 0.18
21 14 0.50
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAAAATATTTATAAT
Found at i:6721650 original size:4 final size:4
Alignment explanation
Indices: 6721637--6721672 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
6721627 TATCAAATAT
*
6721637 TAAA -AAA TAAA TAAA TAAA TAAA CAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
6721673 GACTTGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:6722095 original size:20 final size:20
Alignment explanation
Indices: 6722049--6722097 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6722039 ATTATTTGCT
*
6722049 GCATTTTTTTGTTATTTGAG
1 GCATTTTTTGGTTATTTGAG
6722069 GCA-TTTTTGGTTATTT-AG
1 GCATTTTTTGGTTATTTGAG
*
6722087 GATATTTTTTG
1 G-CATTTTTTG
6722098 ATAAAAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.16, C:0.04, G:0.20, T:0.59
Consensus pattern (20 bp):
GCATTTTTTGGTTATTTGAG
Found at i:6723805 original size:15 final size:15
Alignment explanation
Indices: 6723785--6723817 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6723775 CAATTGGCAG
6723785 ACTAATCATCCCTTT
1 ACTAATCATCCCTTT
6723800 ACTAATCATCCCTTT
1 ACTAATCATCCCTTT
6723815 ACT
1 ACT
6723818 GAGTCTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTAATCATCCCTTT
Found at i:6725637 original size:21 final size:23
Alignment explanation
Indices: 6725613--6725654 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
6725603 ACAACTAATG
6725613 TATTAATAA-TTAT-TATTATGT
1 TATTAATAATTTATCTATTATGT
*
6725634 TATTACTAATTTATCTATTAT
1 TATTAATAATTTATCTATTAT
6725655 TTAGTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTAATAATTTATCTATTATGT
Found at i:6729771 original size:17 final size:17
Alignment explanation
Indices: 6729749--6729783 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6729739 GCACTTTTTG
*
6729749 AGTTTAATTATAAAAAA
1 AGTTTAATAATAAAAAA
6729766 AGTTTAATAATAAAAAA
1 AGTTTAATAATAAAAAA
6729783 A
1 A
6729784 AAATTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
AGTTTAATAATAAAAAA
Found at i:6738712 original size:17 final size:18
Alignment explanation
Indices: 6738680--6738713 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6738670 TTATTTAATT
*
6738680 AAAAAAAAGTACAAAAAC
1 AAAAAAAAATACAAAAAC
6738698 AAAAAAAAATA-AAAAA
1 AAAAAAAAATACAAAAA
6738714 TAATAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAAAAAAATACAAAAAC
Found at i:6739116 original size:13 final size:14
Alignment explanation
Indices: 6739113--6739149 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6739103 AGAAAAATAA
6739113 AAAAAGTAAAAAAT-
1 AAAAA-TAAAAAATG
6739127 AAAAATAAAAAATG
1 AAAAATAAAAAATG
6739141 -AAAATAAAA
1 AAAAATAAAA
6739150 TAAAACTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (14 bp):
AAAAATAAAAAATG
Found at i:6739117 original size:22 final size:21
Alignment explanation
Indices: 6739092--6739138 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
6739082 AAAACAAAAG
*
6739092 AAAAACGT-AAAAGAAAAATA
1 AAAAAAGTAAAAAGAAAAATA
*
6739112 AAAAAAGTAAAAAATAAAAATA
1 AAAAAAGT-AAAAAGAAAAATA
6739134 AAAAA
1 AAAAA
6739139 TGAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
22 16 0.70
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (21 bp):
AAAAAAGTAAAAAGAAAAATA
Found at i:6739642 original size:21 final size:21
Alignment explanation
Indices: 6739618--6739662 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6739608 AATATTTATT
*
6739618 AAATATATAAAAA-TAATAAAA
1 AAATATA-AAAAAGTAAAAAAA
*
6739639 AAATGTAAAAAAGTAAAAAAA
1 AAATATAAAAAAGTAAAAAAA
6739660 AAA
1 AAA
6739663 AAACAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (21 bp):
AAATATAAAAAAGTAAAAAAA
Found at i:6739778 original size:118 final size:117
Alignment explanation
Indices: 6739571--6739784 Score: 254
Period size: 119 Copynumber: 1.8 Consensus size: 117
6739561 TATTTTAAGA
** * * * *
6739571 ATCAAGTGAGTCATACAAAAAATTTTAAAATCATTAAAATATTTATTAAATATATAAAAATAATA
1 ATCAAGTGAGTCATACAAAAAATTTTAAAATCAAAAAAATATTTATAAAATATAAAAAAAAAAAA
* * *
6739636 AAAAAATGTAAAAAAGTAAAAAAAAAAAAACAAATACATGATATAACTTTCAT
66 AAAAAAAGAAAAAAAGT-AAAAAAAGAAAACAAATACATGATATAACTTTCAT
* *
6739689 ATCATGTGAGTTCATA-AAAAAA-TTTAAAATCTAAAAAAATATTTATAAAAATGTAAAAAAAAA
1 ATCAAGTGAG-TCATACAAAAAATTTTAAAATC-AAAAAAATATTTAT-AAAATATAAAAAAAAA
6739752 AAAAAACAAAAGAAAAAAAGGT-AAAAAAGAAAA
63 AAAAAA-AAAAGAAAAAAA-GTAAAAAAAGAAAA
6739785 ATTAGGATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
117 9 0.11
118 27 0.34
119 32 0.40
120 10 0.12
121 2 0.03
ACGTcount: A:0.64, C:0.06, G:0.07, T:0.24
Consensus pattern (117 bp):
ATCAAGTGAGTCATACAAAAAATTTTAAAATCAAAAAAATATTTATAAAATATAAAAAAAAAAAA
AAAAAAAGAAAAAAAGTAAAAAAAGAAAACAAATACATGATATAACTTTCAT
Found at i:6739779 original size:17 final size:16
Alignment explanation
Indices: 6739735--6739785 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
6739725 AAATATTTAT
*
6739735 AAAAATGTAAAAAA-A
1 AAAAAAGTAAAAAAGA
6739750 AAAAAA--AACAAAAGA
1 AAAAAAGTAA-AAAAGA
6739765 AAAAAAGGTAAAAAAGA
1 AAAAAA-GTAAAAAAGA
6739782 AAAA
1 AAAA
6739786 TTAGGATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 2 0.07
14 4 0.13
15 12 0.40
17 10 0.33
18 2 0.07
ACGTcount: A:0.82, C:0.02, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAAAGTAAAAAAGA
Found at i:6741122 original size:22 final size:22
Alignment explanation
Indices: 6741079--6741122 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6741069 ACCACACTTA
* ** *
6741079 TGATGATTTATTATTAATTTAT
1 TGATGATTTAATAAAAAATTAT
6741101 TGATGATTTAATAAAAAATTAT
1 TGATGATTTAATAAAAAATTAT
6741123 CAATGATTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
TGATGATTTAATAAAAAATTAT
Found at i:6741215 original size:11 final size:11
Alignment explanation
Indices: 6741171--6741217 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
6741161 TACAATTAAC
6741171 TTATTAGTAA-
1 TTATTAGTAAG
* *
6741181 TTATTACTATG
1 TTATTAGTAAG
*
6741192 TTATTAGTGAG
1 TTATTAGTAAG
*
6741203 TTATTATTAAG
1 TTATTAGTAAG
6741214 TTAT
1 TTAT
6741218 CAATTTATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (11 bp):
TTATTAGTAAG
Found at i:6741216 original size:22 final size:21
Alignment explanation
Indices: 6741165--6741244 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 21
6741155 CTTATTTACA
*
6741165 ATTAACTTATTAGTAATTATT
1 ATTAAGTTATTAGTAATTATT
* * *
6741186 ACTATGTTATTAGTGAGTTATT
1 ATTAAGTTATTAGT-AATTATT
* *
6741208 ATTAAGTTATCA--ATTTATT
1 ATTAAGTTATTAGTAATTATT
* *
6741227 ATTAAATTATTAATAATT
1 ATTAAGTTATTAGTAATT
6741245 TACTATTATA
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
19 16 0.36
21 14 0.31
22 15 0.33
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTAAGTTATTAGTAATTATT
Found at i:6741245 original size:22 final size:22
Alignment explanation
Indices: 6741128--6741260 Score: 76
Period size: 22 Copynumber: 6.2 Consensus size: 22
6741118 ATTATCAATG
6741128 ATTAATTAATTTATTATTAAATT
1 ATTAA-TAATTTATTATTAAATT
* * * ** *
6741151 ATCACTTATTTACAATTAACTT
1 ATTAATAATTTATTATTAAATT
* * **
6741173 ATTAGTAA-TTATTACTATGTT
1 ATTAATAATTTATTATTAAATT
* * * *
6741194 ATTAGTGAGTTATTATTAAGTT
1 ATTAATAATTTATTATTAAATT
*
6741216 A-T--CAATTTATTATTAAATT
1 ATTAATAATTTATTATTAAATT
* *
6741235 ATTAATAATTTACTATTATATT
1 ATTAATAATTTATTATTAAATT
6741257 ATTA
1 ATTA
6741261 TGTATTTACT
Statistics
Matches: 82, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
19 14 0.17
20 1 0.01
21 16 0.20
22 48 0.59
23 3 0.04
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (22 bp):
ATTAATAATTTATTATTAAATT
Found at i:6741267 original size:22 final size:22
Alignment explanation
Indices: 6741219--6741280 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
6741209 TTAAGTTATC
* *
6741219 AATTTATTATTAAATTATTAAT
1 AATTTACTATTATATTATTAAT
6741241 AATTTACTATTATATTATT-AT
1 AATTTACTATTATATTATTAAT
* *
6741262 GTATTTACTACTATATTAT
1 -AATTTACTATTATATTAT
6741281 CATTGATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 33 0.94
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTACTATTATATTATTAAT
Found at i:6741289 original size:22 final size:22
Alignment explanation
Indices: 6741242--6741292 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
6741232 ATTATTAATA
* *
6741242 ATTTACTATTATATTATTATGT
1 ATTTACTACTATATTATCATGT
6741264 ATTTACTACTATATTATCAT-T
1 ATTTACTACTATATTATCATGT
6741285 GATTTACT
1 -ATTTACT
6741293 GCTTGCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTACTACTATATTATCATGT
Found at i:6741404 original size:22 final size:21
Alignment explanation
Indices: 6741321--6741456 Score: 78
Period size: 22 Copynumber: 6.2 Consensus size: 21
6741311 TATCACAAAA
* * *
6741321 TTATTATAGATTTTATTACTAAA
1 TTATTAT-GA-TTTAATATTAAG
* * *
6741344 TTATTTATGATTCACTATCAAG
1 TTA-TTATGATTTAATATTAAG
* *
6741366 TTATTACTGAATT-ATATTAAA
1 TTATTA-TGATTTAATATTAAG
6741387 TTATCTATGATTTAATATTAAG
1 TTAT-TATGATTTAATATTAAG
*
6741409 TTATAACTGA-TTAACTATTAAG
1 TTATTA-TGATTTAA-TATTAAG
* * *
6741431 TTATCGATAATTTACTATTAAG
1 TTAT-TATGATTTAATATTAAG
6741453 TTAT
1 TTAT
6741457 ATTAATTTAC
Statistics
Matches: 89, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
21 22 0.25
22 54 0.61
23 9 0.10
24 4 0.04
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
TTATTATGATTTAATATTAAG
Found at i:6741444 original size:44 final size:43
Alignment explanation
Indices: 6741363--6741457 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 43
6741353 ATTCACTATC
* * *
6741363 AAGTTATTACTGAATTATATTAAATTATCTATGATTTAATATT
1 AAGTTATAACTGAATTATATTAAATTATCGATAATTTAATATT
* *
6741406 AAGTTATAACTG-ATTAACTATTAAGTTATCGATAATTTACTATT
1 AAGTTATAACTGAATT-A-TATTAAATTATCGATAATTTAATATT
6741450 AAGTTATA
1 AAGTTATA
6741458 TTAATTTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 3 0.07
43 12 0.27
44 30 0.67
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (43 bp):
AAGTTATAACTGAATTATATTAAATTATCGATAATTTAATATT
Found at i:6741630 original size:11 final size:11
Alignment explanation
Indices: 6741599--6741654 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
6741589 CATATTTACT
6741599 ATTAAATTATC
1 ATTAAATTATC
* * *
6741610 AGTAATTTATT
1 ATTAAATTATC
6741621 ATTAAATTATC
1 ATTAAATTATC
*
6741632 ATTAATTTATC
1 ATTAAATTATC
* *
6741643 ACTAAGTTATC
1 ATTAAATTATC
6741654 A
1 A
6741655 ATAATAAACT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (11 bp):
ATTAAATTATC
Found at i:6741641 original size:22 final size:22
Alignment explanation
Indices: 6741592--6741659 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
6741582 ACATAAACAT
* *
6741592 ATTTACTATTAAATTATCAGTA
1 ATTTATTATTAAATTATCAATA
*
6741614 ATTTATTATTAAATTATCATTA
1 ATTTATTATTAAATTATCAATA
* * *
6741636 ATTTATCACTAAGTTATCAATA
1 ATTTATTATTAAATTATCAATA
6741658 AT
1 AT
6741660 AAACTACCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (22 bp):
ATTTATTATTAAATTATCAATA
Found at i:6741806 original size:22 final size:23
Alignment explanation
Indices: 6741745--6741806 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 23
6741735 TATTATAATT
* *
6741745 GATTTGCTACTAAATTATTATTC
1 GATTTACTACTAAATTATTATCC
* * **
6741768 -ATTTATTATTACGTTATTA-CC
1 GATTTACTACTAAATTATTATCC
6741789 GATTTACTACTAAATTAT
1 GATTTACTACTAAATTAT
6741807 CAATTATTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 3
0.68 0.24 0.07
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (23 bp):
GATTTACTACTAAATTATTATCC
Found at i:6742721 original size:26 final size:25
Alignment explanation
Indices: 6742691--6742751 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
6742681 GTTTGTTTAT
6742691 TATTCATGAATGTATTCATTTATATA
1 TATTCATGAATGTATTCATTTA-ATA
* * *
6742717 TATTCATAAATATATTTATTTAATA
1 TATTCATGAATGTATTCATTTAATA
6742742 T-TT-ATGAATG
1 TATTCATGAATG
6742752 AGTTCGTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.17
24 2 0.07
25 4 0.13
26 19 0.63
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.51
Consensus pattern (25 bp):
TATTCATGAATGTATTCATTTAATA
Found at i:6743239 original size:115 final size:115
Alignment explanation
Indices: 6743120--6743465 Score: 647
Period size: 115 Copynumber: 3.0 Consensus size: 115
6743110 CCGTCTAAAA
* ** *
6743120 ATTTGAAAATTTGAAATATATATTTATAAAATTTAAAAAAAATCTGAATAAATAAATAGAAAAAG
1 ATTTGAAAATTTGAAAAATATATTTATAAAATTTTTAAAAAATCTGAATAAAAAAATAGAAAAAG
*
6743185 GAAAAAACGGCAAGAAGATAAGTTGTGCCACGTGGGAAGAAAAGGGCAAC
66 GAAAAAACGGCAAGAAGATAAGTTGTGCCACGTGGGAAGAAAAGGGAAAC
6743235 ATTTGAAAATTTGAAAAATATATTTATAAAATTTTTAAAAAATCTGAATAAAAAAATAGAAAAAG
1 ATTTGAAAATTTGAAAAATATATTTATAAAATTTTTAAAAAATCTGAATAAAAAAATAGAAAAAG
6743300 GAAAAAACGGCAAGAAGATAAGTTGTGCCACGTGGGAAGAAAAGGGAAAC
66 GAAAAAACGGCAAGAAGATAAGTTGTGCCACGTGGGAAGAAAAGGGAAAC
6743350 ATTTGAAAATTTGAAAAATATATTTATAAAATTTTTAAAAAATCTGAATAAAAAAATAGAAAAAG
1 ATTTGAAAATTTGAAAAATATATTTATAAAATTTTTAAAAAATCTGAATAAAAAAATAGAAAAAG
6743415 GAAAAAACGGCAAGAAGATAAGTTGTGCCACGTGGGAAGAAAAGGGAAAC
66 GAAAAAACGGCAAGAAGATAAGTTGTGCCACGTGGGAAGAAAAGGGAAAC
6743465 A
1 A
6743466 ATGTGGCTGG
Statistics
Matches: 226, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 226 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.23
Consensus pattern (115 bp):
ATTTGAAAATTTGAAAAATATATTTATAAAATTTTTAAAAAATCTGAATAAAAAAATAGAAAAAG
GAAAAAACGGCAAGAAGATAAGTTGTGCCACGTGGGAAGAAAAGGGAAAC
Found at i:6744419 original size:6 final size:6
Alignment explanation
Indices: 6744408--6744468 Score: 97
Period size: 6 Copynumber: 10.2 Consensus size: 6
6744398 GGATAGGGTC
6744408 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AA-AGAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA
*
6744456 AAGAAA AGGAAA A
1 AAGAAA AAGAAA A
6744469 TAGAGACTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
5 1 0.02
6 50 0.96
7 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:6748797 original size:21 final size:20
Alignment explanation
Indices: 6748773--6748829 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
6748763 GTAAAAAAAT
6748773 TATAAAAAAATAATTTTATAA
1 TATAAAAAAATAATTTTA-AA
* *
6748794 TATAAAAAATAAAAATTTTAGA
1 TAT-AAAAA-AATAATTTTAAA
6748816 TATTAAAAAAATAA
1 TA-TAAAAAAATAA
6748830 AATATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 7 0.23
22 13 0.43
23 10 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TATAAAAAAATAATTTTAAA
Found at i:6748810 original size:23 final size:24
Alignment explanation
Indices: 6748771--6748831 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
6748761 AAGTAAAAAA
* *
6748771 ATTATAAAAA-AATAATTTTATAAT
1 ATTAAAAAAATAAAAATTTTA-AAT
*
6748795 A-T-AAAAAATAAAAATTTTAGAT
1 ATTAAAAAAATAAAAATTTTAAAT
6748817 ATTAAAAAAATAAAA
1 ATTAAAAAAATAAAA
6748832 TATAATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 8 0.26
23 11 0.35
24 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAAAAAATAAAAATTTTAAAT
Found at i:6749909 original size:7 final size:7
Alignment explanation
Indices: 6749897--6749923 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6749887 TCAAAACAAG
6749897 TTGCAAC
1 TTGCAAC
6749904 TTGCAAC
1 TTGCAAC
6749911 TTGCAAC
1 TTGCAAC
6749918 TTGCAA
1 TTGCAA
6749924 GGCTCTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (7 bp):
TTGCAAC
Found at i:6758440 original size:17 final size:17
Alignment explanation
Indices: 6758420--6758479 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
6758410 TCTACAACTT
6758420 GGAATCGGCCAATGAAA
1 GGAATCGGCCAATGAAA
* **
6758437 GGAATCGTGACCTAATCATT
1 GGAATCG-G-CC-AATGAAA
6758457 GGAATCGGCCAATGAAA
1 GGAATCGGCCAATGAAA
6758474 GGAATC
1 GGAATC
6758480 ATGACGAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 17 0.50
18 3 0.09
19 3 0.09
20 11 0.32
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (17 bp):
GGAATCGGCCAATGAAA
Found at i:6780985 original size:18 final size:17
Alignment explanation
Indices: 6780946--6780983 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6780936 AAAAATTTTT
*
6780946 AAAATTTATATATTATA
1 AAAATTTATATAATATA
*
6780963 AAAATTTATTTAATATA
1 AAAATTTATATAATATA
6780980 AAAA
1 AAAA
6780984 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTTATATAATATA
Found at i:6781092 original size:28 final size:29
Alignment explanation
Indices: 6781057--6781116 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
6781047 ATGATATCTC
6781057 ATTTTAAAAA-TTTTAATATAATAAATAA
1 ATTTTAAAAATTTTTAATATAATAAATAA
* *
6781085 ATTTTAAAAATTTTTAATATGATACATAA
1 ATTTTAAAAATTTTTAATATAATAAATAA
6781114 ATT
1 ATT
6781117 ATGATACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTTAAAAATTTTTAATATAATAAATAA
Found at i:6787061 original size:6 final size:6
Alignment explanation
Indices: 6787046--6787102 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
6787036 TCAGTCTCTA
* *
6787046 TTTTCC TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCC TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
6787094 TTTTCT TTT
1 TTTTCT TTT
6787103 CTTGACCCTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:6790175 original size:18 final size:20
Alignment explanation
Indices: 6790152--6790188 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6790142 TTTTTTAATT
6790152 TTTTG-TTTTAT-GTTTTTC
1 TTTTGTTTTTATGGTTTTTC
6790170 TTTTGTTTTTATGGTTTTT
1 TTTTGTTTTTATGGTTTTT
6790189 TAAGTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.05, C:0.03, G:0.14, T:0.78
Consensus pattern (20 bp):
TTTTGTTTTTATGGTTTTTC
Found at i:6790435 original size:162 final size:163
Alignment explanation
Indices: 6790139--6790474 Score: 611
Period size: 162 Copynumber: 2.1 Consensus size: 163
6790129 TATTTTCTTT
* * * *
6790139 TTCTTTTTTAATTTTTTGTTTTATGTTTTTCTTTTGTTTTTATGGTTTTTTAAGTTAAATTATTT
1 TTCTTATTT-ATTTTTTCTTTTATGTTTTTCTTTCGTTTTTATGGTTTTTTAAGTTAAATTAATT
6790204 TATGAAAAAAAAATGAGGACAATAGAAATGGCCACGTGACACTCTCAATTTTTAATTAGATAAAA
65 TATGAAAAAAAAATGAGGACAATAGAAATGGCCACGTGACACTCTCAATTTTTAATTAGATAAAA
6790269 TAAAAAATGTTAATCGATAAAGATGTTAAAATAA
130 TAAAAAATGTTAATCGATAAAGATGTTAAAATAA
6790303 TTCTTATTTATTTTTTCTTTTATGTTTTTCTTTCGTTTTTATGGTTTTTTAAGTTAAATTAATTT
1 TTCTTATTTATTTTTTCTTTTATGTTTTTCTTTCGTTTTTATGGTTTTTTAAGTTAAATTAATTT
*
6790368 ATG-AAAAAAAATGAGGACAATAGAAATGGCCACGTGACACTCTGAATTTTTAATTAGATAAAAT
66 ATGAAAAAAAAATGAGGACAATAGAAATGGCCACGTGACACTCTCAATTTTTAATTAGATAAAAT
6790432 AAAAAATGTTAATCGATAAAGATGTTAAAATAA
131 AAAAAATGTTAATCGATAAAGATGTTAAAATAA
6790465 TTCTTATTTA
1 TTCTTATTTA
6790475 ACAAATTTCA
Statistics
Matches: 167, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
162 103 0.62
163 56 0.34
164 8 0.05
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (163 bp):
TTCTTATTTATTTTTTCTTTTATGTTTTTCTTTCGTTTTTATGGTTTTTTAAGTTAAATTAATTT
ATGAAAAAAAAATGAGGACAATAGAAATGGCCACGTGACACTCTCAATTTTTAATTAGATAAAAT
AAAAAATGTTAATCGATAAAGATGTTAAAATAA
Found at i:6790843 original size:25 final size:25
Alignment explanation
Indices: 6790793--6790850 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
6790783 TAAATTTTAC
* * *
6790793 AATAAAAATTGATAATAAAAATAAA
1 AATAAAAATTGACAAAAAAAAGAAA
6790818 AATAAAAATT-ACAAAAAGAAAGAAA
1 AATAAAAATTGACAAAAA-AAAGAAA
*
6790843 AAAAAAAA
1 AATAAAAA
6790851 ACTCTATTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (25 bp):
AATAAAAATTGACAAAAAAAAGAAA
Found at i:6791419 original size:2 final size:2
Alignment explanation
Indices: 6791412--6791441 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6791402 GGTTCGTTAA
6791412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6791442 TGGGAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6791591 original size:19 final size:19
Alignment explanation
Indices: 6791524--6791583 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
6791514 AACTAAATAG
*
6791524 TAAAT-ATTTATTTTAATAAA
1 TAAATAATTAATTTT-AT-AA
*
6791544 TAAATTAACT-ATTTTATAA
1 TAAA-TAATTAATTTTATAA
6791563 TAAATAATTAATTTT-TAA
1 TAAATAATTAATTTTATAA
6791581 TAA
1 TAA
6791584 TTTAATTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 10 0.29
19 11 0.31
20 6 0.17
21 6 0.17
22 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATAATTAATTTTATAA
Found at i:6797837 original size:66 final size:65
Alignment explanation
Indices: 6797732--6797860 Score: 186
Period size: 66 Copynumber: 2.0 Consensus size: 65
6797722 GGAGGGTGAT
**
6797732 GGCTTGGTGAAAGATGGGAAGAGTGGCAGAAAGAAGAAATGTTTGGCCAAGAGCTTAACCATAAC
1 GGCTTGGTGAAAGATGGGAAGAGTGGCAGAAAGAAGAAATGTTCAGCCAAGAGCTTAACCATAAC
* * * * *
6797797 GGCTTGGCTGAAAGATGTGAAGAGTGGGAGGAGGAAGAAATGTTCAGCCAAGAGTTTAACCATA
1 GGCTTGG-TGAAAGATGGGAAGAGTGGCAGAAAGAAGAAATGTTCAGCCAAGAGCTTAACCATA
6797861 CCCACCACCT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
65 7 0.12
66 49 0.88
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.19
Consensus pattern (65 bp):
GGCTTGGTGAAAGATGGGAAGAGTGGCAGAAAGAAGAAATGTTCAGCCAAGAGCTTAACCATAAC
Found at i:6802062 original size:22 final size:23
Alignment explanation
Indices: 6802037--6802098 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 23
6802027 TTAATAATTG
*
6802037 ATAATTTAATAGTAAATCG-GTA
1 ATAATTTAATAGTAAATCGCATA
** *
6802059 ATAACGTAATAATAAAT-GCATA
1 ATAATTTAATAGTAAATCGCATA
* *
6802081 ATAATTTAGTAGCAAATC
1 ATAATTTAATAGTAAATC
6802099 AATTATAATA
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (23 bp):
ATAATTTAATAGTAAATCGCATA
Found at i:6802209 original size:22 final size:22
Alignment explanation
Indices: 6802137--6802425 Score: 98
Period size: 22 Copynumber: 13.2 Consensus size: 22
6802127 AATATAGCAA
* *
6802137 TAAATCAATGATAACTTATTA-
1 TAAATTAATGATAACTTAATAG
* * **
6802158 TAAAATATGTGATAACTTGGTAG
1 TAAATTA-ATGATAACTTAATAG
** * *
6802181 TTTATTATTGATAACTTAATGG
1 TAAATTAATGATAACTTAATAG
*
6802203 TAAATTAATGATAATTTAATAG
1 TAAATTAATGATAACTTAATAG
* ** *
6802225 TAAA-T-ATGTTTATGTTTAATAC
1 TAAATTAATG-ATA-ACTTAATAG
6802247 T-AATTAATTGATAA--TACATAG
1 TAAATTAA-TGATAACTTA-ATAG
* * *
6802268 TAAA--ACATAAATAA-TTTATGGG
1 TAAATTA-AT-GATAACTTAAT-AG
* * * *
6802290 TAAATCAATGATAACATAGTAA
1 TAAATTAATGATAACTTAATAG
* *
6802312 TAAA-TAATTGATAATTTAATAC
1 TAAATTAA-TGATAACTTAATAG
* * * * *
6802334 TTAATTATTGAAAACATAAAAG
1 TAAATTAATGATAACTTAATAG
*
6802356 TAATTTAAT-ATAACTTAATAG
1 TAAATTAATGATAACTTAATAG
6802377 TAAATT-ATCGATAACTTAATAG
1 TAAATTAAT-GATAACTTAATAG
* * * *
6802399 TTAATCAGTGATAACTTAATAT
1 TAAATTAATGATAACTTAATAG
6802421 TAAAT
1 TAAAT
6802426 CATAGATAAT
Statistics
Matches: 191, Mismatches: 56, Indels: 41
0.66 0.19 0.14
Matches are distributed among these distances:
20 9 0.05
21 37 0.19
22 128 0.67
23 14 0.07
24 3 0.02
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAATTAATGATAACTTAATAG
Found at i:6802418 original size:44 final size:43
Alignment explanation
Indices: 6802365--6802463 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 43
6802355 GTAATTTAAT
* * *
6802365 ATAACTTAATAGTAAATTATCGATAACTTAATAGTTAA-TCAGTG
1 ATAACTTAATAGTAAATCATAGATAACTTAATA--TAATTCAGTA
* *
6802409 ATAACTTAATATTAAATCATAGATAATTTAATATAATTCAGTA
1 ATAACTTAATAGTAAATCATAGATAACTTAATATAATTCAGTA
*
6802452 ATAACTTGATAG
1 ATAACTTAATAG
6802464 CGAATCCTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 3 0.06
43 15 0.32
44 29 0.62
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.37
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCATAGATAACTTAATATAATTCAGTA
Found at i:6802426 original size:22 final size:22
Alignment explanation
Indices: 6802365--6802458 Score: 88
Period size: 22 Copynumber: 4.3 Consensus size: 22
6802355 GTAATTTAAT
* * *
6802365 ATAACTTAATAGTAAATTATCG
1 ATAACTTAATATTAAATCATAG
6802387 ATAACTTAATAGTT-AATCAGT-G
1 ATAACTTAATA-TTAAATCA-TAG
6802409 ATAACTTAATATTAAATCATAG
1 ATAACTTAATATTAAATCATAG
* *
6802431 ATAATTTAATA-TAATTCAGTA-
1 ATAACTTAATATTAAATCA-TAG
6802452 ATAACTT
1 ATAACTT
6802459 GATAGCGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
21 15 0.24
22 45 0.73
23 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAACTTAATATTAAATCATAG
Found at i:6802556 original size:22 final size:22
Alignment explanation
Indices: 6802541--6802601 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
6802531 TAAATCAATG
6802541 ATAATATAATAGTAAATACATA
1 ATAATATAATAGTAAATACATA
*
6802563 ATAATATAATAGTAAATTA-TTA
1 ATAATATAATAGTAAA-TACATA
* *
6802585 ATAATTTAATAATAAAT
1 ATAATATAATAGTAAAT
6802602 TGATAACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.91
23 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (22 bp):
ATAATATAATAGTAAATACATA
Found at i:6804068 original size:14 final size:15
Alignment explanation
Indices: 6804052--6804086 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6804042 CTTTTTTACC
6804052 TTTTTTTCTTTTGCT
1 TTTTTTTCTTTTGCT
6804067 TTTTTTTCTTTT--T
1 TTTTTTTCTTTTGCT
6804080 TTTTTTT
1 TTTTTTT
6804087 ACATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
15 12 0.60
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTTTCTTTTGCT
Found at i:6804068 original size:23 final size:22
Alignment explanation
Indices: 6804038--6804095 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
6804028 TTATCCTAAA
6804038 TTTTCTTTTTTACCTTTTTTTC
1 TTTTCTTTTTTACCTTTTTTTC
** *
6804060 TTTTGCTTTTTTTTCTTTTTTTT
1 TTTT-CTTTTTTACCTTTTTTTC
*
6804083 TTTTACATTTTTA
1 TTTT-CTTTTTTA
6804096 TAAATATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTCTTTTTTACCTTTTTTTC
Found at i:6804084 original size:15 final size:15
Alignment explanation
Indices: 6804038--6804086 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
6804028 TTATCCTAAA
*
6804038 TTTTCTTTTTTACCTTT
1 TTTTCTTTTTT--TTTT
**
6804055 TTTTCTTTTGCTTTT
1 TTTTCTTTTTTTTTT
6804070 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
6804085 TT
1 TT
6804087 ACATTTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 18 0.67
17 9 0.33
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:6804271 original size:118 final size:115
Alignment explanation
Indices: 6804052--6804276 Score: 260
Period size: 118 Copynumber: 1.9 Consensus size: 115
6804042 CTTTTTTACC
* * * **
6804052 TTTTTTTCTTTTGCTTTTTTTTCTTTTTTTTTTTTACATTTTTATAAATATTTTTTTAGATTTTA
1 TTTTTTTCTTTTACTTTTTTTTCTTTTTTATTTTTACATTTTAATAAATATTTTAATAGATTTTA
*
6804117 AATTTTTTTATGAACTCACATGATATGAAAGTTATATCATGTATTTGTTT
66 AATTTTTTTATGAACTCACATGATATGAAAGATATATCATGTATTTGTTT
* *
6804167 TTTTTTTTTTTTACTTTTTTCATT-TTTTATTATTTTTATATATTTAATAAATATTTTAAT-GAT
1 TTTTTTTCTTTTACTTTTTT--TTCTTTT-TTATTTTTACAT-TTTAATAAATATTTTAATAGAT
* * *
6804230 TTTAAAATTTTTTGTATG-ACTCACTTGATTCTTAAA-ATATATCATGT
62 TTT-AAATTTTTT-TATGAACTCACATGA-TATGAAAGATATATCATGT
6804277 GTTAAGTCAT
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
115 18 0.20
116 4 0.04
117 18 0.20
118 43 0.47
119 9 0.10
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (115 bp):
TTTTTTTCTTTTACTTTTTTTTCTTTTTTATTTTTACATTTTAATAAATATTTTAATAGATTTTA
AATTTTTTTATGAACTCACATGATATGAAAGATATATCATGTATTTGTTT
Found at i:6804702 original size:13 final size:13
Alignment explanation
Indices: 6804684--6804735 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 13
6804674 GTGAGTTTTA
6804684 TTTTATTTTCATT
1 TTTTATTTTCATT
*
6804697 TTTTATTTTTATT
1 TTTTATTTTCATT
6804710 TTTTACTTTTTTTCATT
1 TTTTA----TTTTCATT
6804727 TTTTATTTT
1 TTTTATTTT
6804736 ACGTTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 21 0.64
17 12 0.36
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTTTCATT
Found at i:6804704 original size:7 final size:7
Alignment explanation
Indices: 6804684--6804735 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
6804674 GTGAGTTTTA
6804684 TTTTA-T
1 TTTTATT
*
6804690 TTTCATT
1 TTTTATT
6804697 TTTTA-T
1 TTTTATT
6804703 TTTTATT
1 TTTTATT
6804710 TTTTACTTT
1 TTTTA--TT
6804719 TTTTCATT
1 TTTT-ATT
6804727 TTTTATT
1 TTTTATT
6804734 TT
1 TT
6804736 ACGTTTTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 10 0.26
7 16 0.41
8 6 0.15
9 6 0.15
10 1 0.03
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:6804728 original size:22 final size:22
Alignment explanation
Indices: 6804684--6804743 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
6804674 GTGAGTTTTA
*
6804684 TTTTATTTT-CATTTTTTATTT
1 TTTTATTTTACGTTTTTTATTT
*
6804705 TTATT-TTTTACTTTTTTTCA-TT
1 TT-TTATTTTACGTTTTTT-ATTT
6804727 TTTTATTTTACGTTTTT
1 TTTTATTTTACGTTTTT
6804744 CTTTTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 8 0.24
22 24 0.73
23 1 0.03
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTATTTTACGTTTTTTATTT
Found at i:6804743 original size:30 final size:30
Alignment explanation
Indices: 6804679--6804748 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
6804669 ACCCAGTGAG
* *
6804679 TTTTATTTTATTTTCATTTTTTATTTTTATT
1 TTTTACTTT-TTTTCATTTTTTATTTTTAGT
6804710 TTTTACTTTTTTTCATTTTTTA-TTTTACGT
1 TTTTACTTTTTTTCATTTTTTATTTTTA-GT
6804740 TTTT-CTTTT
1 TTTTACTTTT
6804749 GTTTTTATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 10 0.28
30 18 0.50
31 8 0.22
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (30 bp):
TTTTACTTTTTTTCATTTTTTATTTTTAGT
Found at i:6805046 original size:2 final size:2
Alignment explanation
Indices: 6805039--6805078 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
6805029 TTTTTACGTG
*
6805039 TA TA TA TA TA TA TA TA TG TA TA T- TA T- TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6805078 T
1 T
6805079 TTTAAATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (2 bp):
TA
Found at i:6806052 original size:15 final size:15
Alignment explanation
Indices: 6806032--6806061 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6806022 ATTTTATACA
6806032 ATTTTTTCATTTTTT
1 ATTTTTTCATTTTTT
*
6806047 ATTTTTTTATTTTTT
1 ATTTTTTCATTTTTT
6806062 TAATTTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTCATTTTTT
Found at i:6806062 original size:8 final size:8
Alignment explanation
Indices: 6806032--6806073 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
6806022 ATTTTATACA
*
6806032 ATTTTTTC
1 ATTTTTTT
6806040 A-TTTTTT
1 ATTTTTTT
6806047 ATTTTTTT
1 ATTTTTTT
6806055 ATTTTTTT
1 ATTTTTTT
* *
6806063 AATTTTGT
1 ATTTTTTT
6806071 ATT
1 ATT
6806074 CTGATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:6806846 original size:4 final size:4
Alignment explanation
Indices: 6806837--6806863 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6806827 AAGCAGCAAA
6806837 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
6806864 GGAAAAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6807714 original size:24 final size:24
Alignment explanation
Indices: 6807686--6807734 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6807676 AATGGATAGG
*
6807686 AGGTAAATCTATTGGGATACTGAA
1 AGGTAAACCTATTGGGATACTGAA
*
6807710 AGGTAAACCTATTGGGATAGTGAA
1 AGGTAAACCTATTGGGATACTGAA
6807734 A
1 A
6807735 TTTAGTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (24 bp):
AGGTAAACCTATTGGGATACTGAA
Found at i:6816796 original size:22 final size:23
Alignment explanation
Indices: 6816771--6816851 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 23
6816761 TTAATAATTG
*
6816771 ATAATTTAGTAGTAAATCG-GTA
1 ATAATTTAGTAGTAAATCGAATA
** * *
6816793 ATAACGTAATAATAAAT-GAATA
1 ATAATTTAGTAGTAAATCGAATA
* *
6816815 ATAATTTAGTAGCAAATC-AATT
1 ATAATTTAGTAGTAAATCGAATA
* *
6816837 ATAATATAGTTGTAA
1 ATAATTTAGTAGTAA
6816852 TGTAAAACAA
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
21 1 0.02
22 42 0.98
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (23 bp):
ATAATTTAGTAGTAAATCGAATA
Found at i:6816940 original size:11 final size:11
Alignment explanation
Indices: 6816919--6816957 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6816909 TTGGTAGTTT
*
6816919 ATTATTGATAA
1 ATTAATGATAA
*
6816930 CTTAATGATAA
1 ATTAATGATAA
6816941 ATTAATGATAA
1 ATTAATGATAA
*
6816952 TTTAAT
1 ATTAAT
6816958 AGTAAATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (11 bp):
ATTAATGATAA
Found at i:6817127 original size:22 final size:21
Alignment explanation
Indices: 6817099--6817205 Score: 90
Period size: 22 Copynumber: 5.0 Consensus size: 21
6817089 GTAAATTAAT
*
6817099 ATAACTTAATAGTAAATTATCG
1 ATAACTTAATAGTAAATCAT-G
* *
6817121 ATAACTTAATAGTTAATCAGTT
1 ATAACTTAATAGTAAATCA-TG
*
6817143 ATAACTTAATATTAAATCATAG
1 ATAACTTAATAGTAAATCAT-G
* * *
6817165 ATAATTTAATA-TAATTCAGTA
1 ATAACTTAATAGTAAATCA-TG
* *
6817186 ATAACTTGATAGTGAATCAT
1 ATAACTTAATAGTAAATCAT
6817206 AAATAATTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
21 17 0.25
22 50 0.74
23 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (21 bp):
ATAACTTAATAGTAAATCATG
Found at i:6817151 original size:44 final size:43
Alignment explanation
Indices: 6817098--6817211 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 43
6817088 AGTAAATTAA
* *
6817098 TATAACTTAATAGTAAATTATCGATAACTTAATAGTTAA-TCAGT
1 TATAACTTAATAGTAAATCATAGATAACTTAATA--TAATTCAGT
* *
6817142 TATAACTTAATATTAAATCATAGATAATTTAATATAATTCAGT
1 TATAACTTAATAGTAAATCATAGATAACTTAATATAATTCAGT
* * * *
6817185 AATAACTTGATAGTGAATCATAAATAA
1 TATAACTTAATAGTAAATCATAGATAA
6817212 TTTAGTAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
42 3 0.05
43 27 0.45
44 30 0.50
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (43 bp):
TATAACTTAATAGTAAATCATAGATAACTTAATATAATTCAGT
Found at i:6817204 original size:43 final size:43
Alignment explanation
Indices: 6817099--6817215 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
6817089 GTAAATTAAT
* * * *
6817099 ATAACTTAATAGTAAATTATCGATAACTTAATAGTTAATCAGTT
1 ATAACTTAATAGTAAATCATAGATAATTTAATAG-TAATCAGTA
*
6817143 ATAACTTAATATTAAATCATAGATAATTTAATA-TAATTCAGTA
1 ATAACTTAATAGTAAATCATAGATAATTTAATAGTAA-TCAGTA
* * *
6817186 ATAACTTGATAGTGAATCATAAATAATTTA
1 ATAACTTAATAGTAAATCATAGATAATTTA
6817216 GTAATAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 3 0.05
43 31 0.49
44 29 0.46
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCATAGATAATTTAATAGTAATCAGTA
Found at i:6817287 original size:22 final size:22
Alignment explanation
Indices: 6817274--6817334 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
6817264 TAAATCAATG
*
6817274 ATAATATAGTAGTAAATACATA
1 ATAATATAATAGTAAATACATA
*
6817296 ATAATATAATAGTAAATTA-TTA
1 ATAATATAATAGTAAA-TACATA
* *
6817318 ATAATTTAATAATAAAT
1 ATAATATAATAGTAAAT
6817335 TGATAACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.91
23 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAATATAATAGTAAATACATA
Done.