Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 54 of 125
Found at i:10825369 original size:29 final size:30
Alignment explanation
Indices: 10825337--10825409 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
10825327 TTATTCAAAT
*
10825337 TTTAATAATTAAATTT-AAAATATTAATA-A
1 TTTAATAATT-AATTTAAAAATATAAATATA
* *
10825366 TTTAATGATTATTTTAAAAATATAAATATA
1 TTTAATAATTAATTTAAAAATATAAATATA
*
10825396 TTTAAATGATTAAT
1 TTT-AATAATTAAT
10825410 AATATAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.11
29 20 0.54
30 4 0.11
31 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTAATAATTAATTTAAAAATATAAATATA
Found at i:10825509 original size:28 final size:29
Alignment explanation
Indices: 10825478--10825545 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
10825468 TACAAAAAAT
**
10825478 TTAAAAATAAATTAT-TTA-ATTTTTTAAA
1 TTAAAAATAAATTATGTTATATTTGAT-AA
10825506 TTAAATAA-AAA-TATGTTATATTTGATAA
1 TTAAA-AATAAATTATGTTATATTTGATAA
10825534 TTAAAAATAAAT
1 TTAAAAATAAAT
10825546 AATTATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
27 5 0.15
28 21 0.64
29 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (29 bp):
TTAAAAATAAATTATGTTATATTTGATAA
Found at i:10839734 original size:18 final size:17
Alignment explanation
Indices: 10839670--10839735 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
10839660 GTTCGTGGTC
10839670 ATCTCTGTCGCGTCGGCG
1 ATCTCTGTCGCGTC-GCG
*
10839688 TTCTCTGTCGCGGTCGCG
1 ATCTCTGTCGC-GTCGCG
* * *
10839706 ATCACTCTCGCGTTCTCG
1 ATCTCTGTCGCG-TCGCG
*
10839724 GTCTCTGTCGCG
1 ATCTCTGTCGCG
10839736 GTCCCTCAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.03
18 34 0.89
19 3 0.08
ACGTcount: A:0.05, C:0.35, G:0.29, T:0.32
Consensus pattern (17 bp):
ATCTCTGTCGCGTCGCG
Found at i:10841365 original size:17 final size:18
Alignment explanation
Indices: 10841331--10841365 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10841321 TAATATTATA
*
10841331 AAAATTTAAAATTTAATT
1 AAAATTTAAAATTGAATT
10841349 AAAATTT-AAATTGAATT
1 AAAATTTAAAATTGAATT
10841366 TTTATTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAATTTAAAATTGAATT
Found at i:10841708 original size:14 final size:14
Alignment explanation
Indices: 10841686--10841715 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10841676 AACATTATAA
10841686 TTTTAGATTTTTTT
1 TTTTAGATTTTTTT
*
10841700 TTTTTGATTTTTTT
1 TTTTAGATTTTTTT
10841714 TT
1 TT
10841716 CTCTTTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTAGATTTTTTT
Found at i:10842854 original size:11 final size:11
Alignment explanation
Indices: 10842840--10842872 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10842830 TTTTTTTAAT
*
10842840 TATTTTTTATA
1 TATTTTATATA
10842851 TA-TTTATATA
1 TATTTTATATA
10842861 TATTTTATATA
1 TATTTTATATA
10842872 T
1 T
10842873 TTATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTTATATA
Found at i:10842856 original size:19 final size:20
Alignment explanation
Indices: 10842834--10842875 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
10842824 AAATTATTTT
*
10842834 TTTAAT-TATTTTTTATATA
1 TTTAATATATATTTTATATA
10842853 TTT-ATATATATTTTATATA
1 TTTAATATATATTTTATATA
10842872 TTTA
1 TTTA
10842876 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATATATATTTTATATA
Found at i:10842858 original size:8 final size:9
Alignment explanation
Indices: 10842844--10842878 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
10842834 TTTAATTATT
10842844 TTTTATATA
1 TTTTATATA
10842853 TTTATATATA
1 TTT-TATATA
10842863 TTTTATATA
1 TTTTATATA
10842872 -TTTATAT
1 TTTTATAT
10842879 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.28
9 9 0.36
10 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATATA
Found at i:10842898 original size:21 final size:22
Alignment explanation
Indices: 10842867--10842919 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
10842857 TATATATTTT
10842867 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
10842889 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
10842911 ATATTTTAT
1 ATATTTTAT
10842920 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:10846607 original size:34 final size:34
Alignment explanation
Indices: 10846542--10846607 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
10846532 ATGTTTTTTG
*
10846542 TTTTTATTTCTTATTTTTATTTTTTAGAAAATAA
1 TTTTTATTTCTTATTTTTATTTTCTAGAAAATAA
*
10846576 TTTTTATTTTCTGT-TTTTTGTTTTCTA-AAAAT
1 TTTTTA-TTTCT-TATTTTTATTTTCTAGAAAAT
10846608 GTATTTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 11 0.39
35 16 0.57
36 1 0.04
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (34 bp):
TTTTTATTTCTTATTTTTATTTTCTAGAAAATAA
Found at i:10848009 original size:87 final size:86
Alignment explanation
Indices: 10847892--10848062 Score: 306
Period size: 87 Copynumber: 2.0 Consensus size: 86
10847882 TATCCAAATC
10847892 TCTTAAATTTTGTCTTTGATTTTGTCTTGTAATAAATAACAAATTTAACACAATTATTTTTCATT
1 TCTTAAATTTTGTCTTTGATTTTGTCTTGTAATAAATAACAAATTTAACACAATTA-TTTTCATT
*
10847957 TTTCTATGAGTAATCGGACAAT
65 TTTCTATAAGTAATCGGACAAT
* *
10847979 TCTTAAATTTTGTCTTTGATTTTGTTTTGTAATAAATAACAATTTTAACACAATTATTTTCATTT
1 TCTTAAATTTTGTCTTTGATTTTGTCTTGTAATAAATAACAAATTTAACACAATTATTTTCATTT
10848044 TTCTATAAGTAATCGGACA
66 TTCTATAAGTAATCGGACA
10848063 TTGATCTCTT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 27 0.33
87 54 0.67
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (86 bp):
TCTTAAATTTTGTCTTTGATTTTGTCTTGTAATAAATAACAAATTTAACACAATTATTTTCATTT
TTCTATAAGTAATCGGACAAT
Found at i:10848021 original size:43 final size:42
Alignment explanation
Indices: 10847894--10848026 Score: 101
Period size: 43 Copynumber: 3.1 Consensus size: 42
10847884 TCCAAATCTC
* *
10847894 TTAAATTTTGTCTTTGATTTTGTCTTGTAATAAATAACAAAT
1 TTAAATTTTGTCTTTGATTTTGTTTTGTAATAAATAACAATT
** * * * * * *
10847936 TTAACACAATTATTTTTCATTTT-TCTATG-AGT-AATCGGACAATT
1 TTAA-A-TTTTGTCTTTGATTTTGT-TTTGTAATAAAT--AACAATT
10847980 CTTAAATTTTGTCTTTGATTTTGTTTTGTAATAAATAACAATT
1 -TTAAATTTTGTCTTTGATTTTGTTTTGTAATAAATAACAATT
10848023 TTAA
1 TTAA
10848027 CACAATTATT
Statistics
Matches: 64, Mismatches: 18, Indels: 18
0.64 0.18 0.18
Matches are distributed among these distances:
42 11 0.17
43 24 0.38
44 22 0.34
45 7 0.11
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (42 bp):
TTAAATTTTGTCTTTGATTTTGTTTTGTAATAAATAACAATT
Found at i:10848044 original size:43 final size:43
Alignment explanation
Indices: 10847910--10848044 Score: 100
Period size: 43 Copynumber: 3.1 Consensus size: 43
10847900 TTTGTCTTTG
* *
10847910 ATTTTGTCTTGTAATAAATAACAAATTTAACACAATTATTTTTC
1 ATTTTGTTTTGTAATAAATAACAATTTTAACACAATTA-TTTTC
* * * ** * *
10847954 ATTTT-TCTATG-AGT-AATCGGACAATTCTTAA-A-TTTTGTCTTTG
1 ATTTTGT-TTTGTAATAAAT--AACAATT-TTAACACAATTAT-TTTC
10847997 ATTTTGTTTTGTAATAAATAACAATTTTAACACAATTATTTTC
1 ATTTTGTTTTGTAATAAATAACAATTTTAACACAATTATTTTC
10848040 ATTTT
1 ATTTT
10848045 TCTATAAGTA
Statistics
Matches: 65, Mismatches: 16, Indels: 21
0.64 0.16 0.21
Matches are distributed among these distances:
42 8 0.12
43 31 0.48
44 19 0.29
45 7 0.11
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.49
Consensus pattern (43 bp):
ATTTTGTTTTGTAATAAATAACAATTTTAACACAATTATTTTC
Found at i:10848347 original size:7 final size:7
Alignment explanation
Indices: 10848337--10848376 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
10848327 ATATATATAC
*
10848337 TTTTACT
1 TTTTATT
*
10848344 TTTTGTT
1 TTTTATT
10848351 TTTTATT
1 TTTTATT
10848358 TTTTA-T
1 TTTTATT
10848364 TTTTATT
1 TTTTATT
10848371 TTTTAT
1 TTTTAT
10848377 AAAAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:10848359 original size:13 final size:13
Alignment explanation
Indices: 10848337--10848376 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
10848327 ATATATATAC
10848337 TTTTACTTTTTGT-T
1 TTTTA-TTTTT-TAT
10848351 TTTTATTTTTTAT
1 TTTTATTTTTTAT
10848364 TTTTATTTTTTAT
1 TTTTATTTTTTAT
10848377 AAAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 19 0.76
14 5 0.20
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:10848402 original size:15 final size:16
Alignment explanation
Indices: 10848375--10848404 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10848365 TTTATTTTTT
10848375 ATAAAAATAATAAAAC
1 ATAAAAATAATAAAAC
10848391 ATAAAAAT-ATAAAA
1 ATAAAAATAATAAAA
10848405 TCAAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAAATAATAAAAC
Found at i:10850192 original size:10 final size:9
Alignment explanation
Indices: 10850146--10850240 Score: 74
Period size: 9 Copynumber: 10.8 Consensus size: 9
10850136 TATTAGCATC
10850146 AAAAAATTT
1 AAAAAATTT
10850155 -AAAAA--T
1 AAAAAATTT
10850161 AAAAAA--T
1 AAAAAATTT
* *
10850168 AAAAAAATC
1 AAAAAATTT
10850177 AGAAAAATTT
1 A-AAAAATTT
10850187 AAAAAATTT
1 AAAAAATTT
*
10850196 AAAAATTTT
1 AAAAAATTT
** *
10850205 TTAAAATTA
1 AAAAAATTT
10850214 AGAAAAATTT
1 A-AAAAATTT
10850224 AAAAAATTT
1 AAAAAATTT
10850233 AAAGAAAT
1 AAA-AAAT
10850241 CCAAAAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
6 1 0.01
7 12 0.17
8 5 0.07
9 33 0.48
10 18 0.26
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAAATTT
Found at i:10850441 original size:38 final size:38
Alignment explanation
Indices: 10850399--10850477 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
10850389 AAATTAAAAA
**
10850399 AAAAACAAAAGTATGAAAAATTAAAAA-TCCAAAAATTG
1 AAAAA-AAAAGTATGAAAAATTAAAAATTAAAAAAATTG
** *
10850437 AAAAAAAACTTTTGAAAAATTAAAAATTAAAAAAATTG
1 AAAAAAAAAGTATGAAAAATTAAAAATTAAAAAAATTG
10850475 AAA
1 AAA
10850478 GATAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.67, C:0.05, G:0.06, T:0.22
Consensus pattern (38 bp):
AAAAAAAAAGTATGAAAAATTAAAAATTAAAAAAATTG
Found at i:10850594 original size:30 final size:31
Alignment explanation
Indices: 10850537--10850626 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 31
10850527 TGAAAATTTT
*
10850537 TAAAATTTCCTAAAAAAT-TAAAAAAAAATACTACTC
1 TAAAATTT-TTAAAAAATCT-AAAAAAAA-AC--C-C
10850573 TAAAA-TTTTAAAAAAT-TAAAAAAAAACCC
1 TAAAATTTTTAAAAAATCTAAAAAAAAACCC
*
10850602 TAAAATTTTTCAAAAATCTAAAAAA
1 TAAAATTTTTAAAAAATCTAAAAAA
10850627 TTAAATAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
29 6 0.12
30 11 0.22
31 7 0.14
32 2 0.04
33 8 0.16
34 9 0.18
35 2 0.04
36 5 0.10
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (31 bp):
TAAAATTTTTAAAAAATCTAAAAAAAAACCC
Found at i:10850655 original size:38 final size:39
Alignment explanation
Indices: 10850581--10850658 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
10850571 TCTAAAATTT
* **
10850581 TAAAAAATTAAAAAAAAACCCTAAAATTTTTCAAAAATC
1 TAAAAAATTAAAAAAAAACCCCAAAATTTTGAAAAAATC
* **
10850620 TAAAAAATTAAATAAATTCCCCAAAA-TTTGAAAAAATC
1 TAAAAAATTAAAAAAAAACCCCAAAATTTTGAAAAAATC
10850658 T
1 T
10850659 GAACATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 11 0.33
39 22 0.67
ACGTcount: A:0.59, C:0.13, G:0.01, T:0.27
Consensus pattern (39 bp):
TAAAAAATTAAAAAAAAACCCCAAAATTTTGAAAAAATC
Found at i:10850896 original size:15 final size:16
Alignment explanation
Indices: 10850853--10850899 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
10850843 TTGAAACTTG
*
10850853 AAAAATT-AAAAATTA
1 AAAAATTGAAAAATCA
*
10850868 AAAAATTTGGAAAA-CA
1 AAAAA-TTGAAAAATCA
10850884 AAAAATTGAAAAATCA
1 AAAAATTGAAAAATCA
10850900 TACAGGGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 12 0.46
16 10 0.38
17 4 0.15
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAAATTGAAAAATCA
Found at i:10851062 original size:19 final size:18
Alignment explanation
Indices: 10851040--10851095 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
10851030 TTTTTAAAAA
10851040 ATATTTTTAGGATTTTTTT
1 ATATTTTTA-GATTTTTTT
*
10851059 ATA-TTTTAGATTTTTTA
1 ATATTTTTAGATTTTTTT
*
10851076 ATTTTATTTAGATTTTTTT
1 ATATT-TTTAGATTTTTTT
10851095 A
1 A
10851096 AAGTTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 10 0.31
18 6 0.19
19 16 0.50
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (18 bp):
ATATTTTTAGATTTTTTT
Found at i:10851111 original size:19 final size:18
Alignment explanation
Indices: 10851043--10851129 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 18
10851033 TTAAAAAATA
*
10851043 TTTTTAGGATTTTTTTA-T
1 TTTTTA-GATTTTTTAAGT
* *
10851061 ATTTTAGATTTTTTAATT
1 TTTTTAGATTTTTTAAGT
10851079 TTATTTAGATTTTTTTAAAGT
1 TT-TTTAGA-TTTTTT-AAGT
* * *
10851100 TTTTTGGA-TTTTAAAAT
1 TTTTTAGATTTTTTAAGT
*
10851117 TTTTTATATTTTT
1 TTTTTAGATTTTT
10851130 ATATTTTTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 18 0.33
18 15 0.27
19 6 0.11
20 11 0.20
21 5 0.09
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (18 bp):
TTTTTAGATTTTTTAAGT
Found at i:10851127 original size:17 final size:17
Alignment explanation
Indices: 10851091--10851138 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
10851081 ATTTAGATTT
* *
10851091 TTTTAAAGTTTTTTGGA
1 TTTTAAAATTTTTTAGA
*
10851108 TTTTAAAATTTTTTATA
1 TTTTAAAATTTTTTAGA
* *
10851125 TTTTTATATTTTTT
1 TTTTAAAATTTTTT
10851139 CATTTTTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTAAAATTTTTTAGA
Found at i:10851128 original size:8 final size:8
Alignment explanation
Indices: 10851117--10851163 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
10851107 ATTTTAAAAT
10851117 TTTTTATA
1 TTTTTATA
10851125 TTTTTATA
1 TTTTTATA
10851133 TTTTT-TCA
1 TTTTTAT-A
10851141 TTTTTTACTA
1 -TTTTTA-TA
10851151 TTTTTATA
1 TTTTTATA
*
10851159 ATTTT
1 TTTTT
10851164 CCTTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 1 0.03
8 20 0.59
9 11 0.32
10 1 0.03
11 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTATA
Found at i:10851137 original size:26 final size:26
Alignment explanation
Indices: 10851107--10851163 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
10851097 AGTTTTTTGG
10851107 ATTTTAAAATTTTTTA-TATTTTTATA
1 ATTTT-AAATTTTTTACTATTTTTATA
* **
10851133 TTTTTTCATTTTTTACTATTTTTATA
1 ATTTTAAATTTTTTACTATTTTTATA
10851159 ATTTT
1 ATTTT
10851164 CCTTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (26 bp):
ATTTTAAATTTTTTACTATTTTTATA
Found at i:10851145 original size:17 final size:18
Alignment explanation
Indices: 10851115--10851172 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 18
10851105 GGATTTTAAA
10851115 ATTTTTTATATTTTTA-T
1 ATTTTTTATATTTTTACT
10851132 ATTTTTTCAT-TTTTTACT
1 ATTTTTT-ATATTTTTACT
* *
10851150 A-TTTTTATAATTTTCCT
1 ATTTTTTATATTTTTACT
10851167 -TTTTTT
1 ATTTTTT
10851173 TTTTTTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 2 0.06
17 29 0.83
18 4 0.11
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTTATATTTTTACT
Found at i:10851156 original size:9 final size:8
Alignment explanation
Indices: 10851117--10851163 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 8
10851107 ATTTTAAAAT
10851117 TTTTTATA
1 TTTTTATA
10851125 TTTTTATA
1 TTTTTATA
10851133 TTTTT-TCA
1 TTTTTAT-A
10851141 TTTTTTACTA
1 -TTTTTA-TA
10851151 TTTTTATAA
1 TTTTTAT-A
10851160 TTTT
1 TTTT
10851164 CCTTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
7 1 0.03
8 15 0.44
9 16 0.47
10 1 0.03
11 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTATA
Found at i:10851170 original size:26 final size:25
Alignment explanation
Indices: 10851115--10851172 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
10851105 GGATTTTAAA
* *
10851115 ATTTTTTATATTTTTATATTTTTTC
1 ATTTTTTATATTTTTATAATTTTCC
10851140 ATTTTTTACTATTTTTATAATTTTCC
1 ATTTTTTA-TATTTTTATAATTTTCC
*
10851166 TTTTTTT
1 ATTTTTT
10851173 TTTTTTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (25 bp):
ATTTTTTATATTTTTATAATTTTCC
Found at i:10852495 original size:2 final size:2
Alignment explanation
Indices: 10852488--10852515 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10852478 CTGAAAATGA
10852488 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
10852516 TAAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10857277 original size:21 final size:21
Alignment explanation
Indices: 10857251--10857290 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10857241 TCTGAAATTT
10857251 TTAAAATT-AAATTTGTAATCA
1 TTAAAATTAAAATTT-TAATCA
10857272 TTAAAATTAAAATTTTAAT
1 TTAAAATTAAAATTTTAAT
10857291 ATTTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
TTAAAATTAAAATTTTAATCA
Found at i:10857599 original size:2 final size:2
Alignment explanation
Indices: 10857592--10857616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10857582 CAATGTAAGT
10857592 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 T
10857617 TTTGGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10858277 original size:122 final size:120
Alignment explanation
Indices: 10858052--10858324 Score: 419
Period size: 122 Copynumber: 2.3 Consensus size: 120
10858042 TAGTTATTTA
* * * * * *
10858052 TTTTTTGAGTTTAATGGGCTTCGGAGGTGTGAGGGACTATGAGTTGTTTTTTTGGTTAGATTTTG
1 TTTTTTTAGTTTAGTGGGCTTTGGAGGTGTAAGGGACTATGAGCTGTTTTTTTGGTTAGATTTTA
10858117 TTTATGAGAATTTGTTATTGTATAAGCTTTTTATGCATAACAATTGCCCTTTTTTTT
66 TTTATGAGAATTTGTTATTGTATAAGCTTTTTATGCATAACAATTGCCC--TTTTTT
10858174 TTTATTTTAGTTTAGTGGGCTTTGGAGGTGTAAGGGACTATGAGCT-TTTTTTTGGTTAGATTTT
1 TTT-TTTTAGTTTAGTGGGCTTTGGAGGTGTAAGGGACTATGAGCTGTTTTTTTGGTTAGATTTT
10858238 ATTTCA-GAGAATTTGTTATTGTATAAGCTTTTTATGCATAACAATTGCCCTTTTTT
65 ATTT-ATGAGAATTTGTTATTGTATAAGCTTTTTATGCATAACAATTGCCCTTTTTT
*
10858294 TTTTTTTAGTTAAGTGGGCTTT-GAGG-GTAAG
1 TTTTTTTAGTTTAGTGGGCTTTGGAGGTGTAAG
10858325 AGAATGAGGG
Statistics
Matches: 142, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
117 5 0.04
118 4 0.03
119 18 0.13
120 9 0.06
122 68 0.48
123 38 0.27
ACGTcount: A:0.21, C:0.07, G:0.23, T:0.49
Consensus pattern (120 bp):
TTTTTTTAGTTTAGTGGGCTTTGGAGGTGTAAGGGACTATGAGCTGTTTTTTTGGTTAGATTTTA
TTTATGAGAATTTGTTATTGTATAAGCTTTTTATGCATAACAATTGCCCTTTTTT
Found at i:10861307 original size:30 final size:30
Alignment explanation
Indices: 10861253--10861325 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
10861243 TGAGGGTTGG
** *
10861253 TTTTAGGGTTTAGAGTATTTTAGGG-CTTGAA
1 TTTTAGGGTTT-GAAAAGTTTAGGGTCTTG-A
*
10861284 TTTTAGGGTTTGAAAAGTTTAGGGTTTTGA
1 TTTTAGGGTTTGAAAAGTTTAGGGTCTTGA
10861314 TTTTAGGGTTTG
1 TTTTAGGGTTTG
10861326 GGGATTAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 23 0.62
31 14 0.38
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (30 bp):
TTTTAGGGTTTGAAAAGTTTAGGGTCTTGA
Found at i:10861320 original size:14 final size:14
Alignment explanation
Indices: 10861301--10861352 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
10861291 GTTTGAAAAG
10861301 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* **
10861315 TTTAGGGTTTGGGG
1 TTTAGGGTTTTGAT
* **
10861329 ATTAGTTTTTTGAT
1 TTTAGGGTTTTGAT
10861343 TTTAGGGTTT
1 TTTAGGGTTT
10861353 AAAGGGTTTA
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:10861459 original size:31 final size:30
Alignment explanation
Indices: 10861394--10861464 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
10861384 AAGTCTCGAT
* *
10861394 TTTAGGGTTTGAAGGTTTTGGGATTTCGAT
1 TTTAGGGTTTGAAGGTTTTGGGATTTAGAA
* *
10861424 TTTAGGGTTTTAAGGATTTT-GGCTTTAGAAA
1 TTTAGGGTTTGAAGG-TTTTGGGATTTAG-AA
10861455 TTTAGGGTTT
1 TTTAGGGTTT
10861465 CAATTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.57
31 15 0.43
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.48
Consensus pattern (30 bp):
TTTAGGGTTTGAAGGTTTTGGGATTTAGAA
Found at i:10861489 original size:15 final size:15
Alignment explanation
Indices: 10861424--10861489 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
10861414 GGATTTCGAT
10861424 TTTAGGGTTTT-AAGGA
1 TTTAGGGTTTTGAA--A
* * *
10861440 TTTTGGCTTTAGAAA
1 TTTAGGGTTTTGAAA
* *
10861455 TTTAGGG-TTTCAAT
1 TTTAGGGTTTTGAAA
10861469 TTTAGGGTTTTGAAA
1 TTTAGGGTTTTGAAA
10861484 TTTAGG
1 TTTAGG
10861490 ATTTGGATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
14 11 0.29
15 17 0.45
16 8 0.21
17 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTTGAAA
Found at i:10861489 original size:29 final size:29
Alignment explanation
Indices: 10861451--10861507 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10861441 TTTGGCTTTA
* *
10861451 GAAATTTAGGGTTTCAATTTTAGGGTTTT
1 GAAATTTAGGATTTCAATTTTAAGGTTTT
**
10861480 GAAATTTAGGATTTGGATTTTAAGGTTT
1 GAAATTTAGGATTTCAATTTTAAGGTTT
10861508 AAAGAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (29 bp):
GAAATTTAGGATTTCAATTTTAAGGTTTT
Found at i:10861994 original size:18 final size:16
Alignment explanation
Indices: 10861941--10861988 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 16
10861931 TCAACATAGC
*
10861941 AAAAATAATAATATAA
1 AAAAATAAAAATATAA
*
10861957 AAAAATTAAAAATTTTTAA
1 AAAAA-TAAAAA--TATAA
10861976 AAAAATAAAAATA
1 AAAAATAAAAATA
10861989 CCTAAACTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
18 6 0.23
19 9 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATAAAAATATAA
Found at i:10863513 original size:37 final size:37
Alignment explanation
Indices: 10863458--10863554 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
10863448 GAAAAATGAT
* *
10863458 CGGGACAACACCGTGAGTC-AAAAAGTAAAGAATCGAC
1 CGGGACAACACCGCGAGTCGAAAAA-TAAAGAATCAAC
* *
10863495 CGGGATAATACCGCGAGTCGAAAAATAAAGAATCAAC
1 CGGGACAACACCGCGAGTCGAAAAATAAAGAATCAAC
* * *
10863532 CGGAACAACACCACGAGTTGAAA
1 CGGGACAACACCGCGAGTCGAAA
10863555 TTATGCCCGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 45 0.90
38 5 0.10
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (37 bp):
CGGGACAACACCGCGAGTCGAAAAATAAAGAATCAAC
Found at i:10863580 original size:22 final size:22
Alignment explanation
Indices: 10863552--10863643 Score: 103
Period size: 22 Copynumber: 4.2 Consensus size: 22
10863542 CCACGAGTTG
10863552 AAATTATGCCCGAAGGTCTTAA
1 AAATTATGCCCGAAGGTCTTAA
*** *
10863574 AAATTATGTTAGAAGGTCTTAG
1 AAATTATGCCCGAAGGTCTTAA
* *
10863596 AGATTATGCCCGAAGGTCTTAG
1 AAATTATGCCCGAAGGTCTTAA
* * *
10863618 AGATTATGCTCGAAGGTCTTGA
1 AAATTATGCCCGAAGGTCTTAA
10863640 AAAT
1 AAAT
10863644 AATGTTCGGA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (22 bp):
AAATTATGCCCGAAGGTCTTAA
Found at i:10863624 original size:44 final size:44
Alignment explanation
Indices: 10863554--10863637 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
10863544 ACGAGTTGAA
*
10863554 ATTATGCCCGAAGGTCTTAAAAATTATGTTAGAAGGTCTTAGAG
1 ATTATGCCCGAAGGTCTTAAAAATTATGCTAGAAGGTCTTAGAG
* * *
10863598 ATTATGCCCGAAGGTCTTAGAGATTATGCTCGAAGGTCTT
1 ATTATGCCCGAAGGTCTTAAAAATTATGCTAGAAGGTCTT
10863638 GAAAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (44 bp):
ATTATGCCCGAAGGTCTTAAAAATTATGCTAGAAGGTCTTAGAG
Found at i:10863683 original size:21 final size:21
Alignment explanation
Indices: 10863659--10863698 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10863649 TCGGAAGTCT
*
10863659 TAAAGTGTATTAAATGATTAA
1 TAAAATGTATTAAATGATTAA
10863680 TAAAATGTATTAAATGATT
1 TAAAATGTATTAAATGATT
10863699 TACTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (21 bp):
TAAAATGTATTAAATGATTAA
Found at i:10868338 original size:20 final size:20
Alignment explanation
Indices: 10868313--10868373 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
10868303 CTAATATTGG
10868313 AAGAGAATATATTACCACCA
1 AAGAGAATATATTACCACCA
* *
10868333 AAGAG-ACA-GTTA--ACC-
1 AAGAGAATATATTACCACCA
10868348 AAGAGAATATATTACCACCA
1 AAGAGAATATATTACCACCA
10868368 AAGAGA
1 AAGAGA
10868374 CAATTAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 3 0.09
18 3 0.09
19 5 0.16
20 11 0.34
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (20 bp):
AAGAGAATATATTACCACCA
Found at i:10868359 original size:35 final size:35
Alignment explanation
Indices: 10868313--10868383 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
10868303 CTAATATTGG
*
10868313 AAGAGAATATATTACCACCAAAGAGACAGTTAACC
1 AAGAGAATATATTACCACCAAAGAGACAATTAACC
10868348 AAGAGAATATATTACCACCAAAGAGACAATTAACC
1 AAGAGAATATATTACCACCAAAGAGACAATTAACC
10868383 A
1 A
10868384 TGGTGTGGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.17
Consensus pattern (35 bp):
AAGAGAATATATTACCACCAAAGAGACAATTAACC
Found at i:10868383 original size:19 final size:19
Alignment explanation
Indices: 10868326--10868383 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
10868316 AGAATATATT
*
10868326 ACCACCAAAGAGACAGTTA
1 ACCACCAAAGAGACAATTA
* *
10868345 ACCA--AGAGA-ATATATT-
1 ACCACCAAAGAGACA-ATTA
10868361 ACCACCAAAGAGACAATTA
1 ACCACCAAAGAGACAATTA
10868380 ACCA
1 ACCA
10868384 TGGTGTGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 7 0.24
19 10 0.34
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (19 bp):
ACCACCAAAGAGACAATTA
Found at i:10878139 original size:16 final size:16
Alignment explanation
Indices: 10878115--10878156 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
10878105 TTTTTTCTTT
* *
10878115 TTTGCTTTTTTTAATC
1 TTTGATTTTTTTTATC
*
10878131 TTT-ATTTTTTTTATT
1 TTTGATTTTTTTTATC
10878146 TTTGATTTTTT
1 TTTGATTTTTT
10878157 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTGATTTTTTTTATC
Found at i:10882531 original size:14 final size:14
Alignment explanation
Indices: 10882512--10882541 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10882502 TTCTGGTTTA
10882512 TCCTTTTCCAGTAT
1 TCCTTTTCCAGTAT
*
10882526 TCCTTTTCCTGTAT
1 TCCTTTTCCAGTAT
10882540 TC
1 TC
10882542 AGGAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.30, G:0.07, T:0.53
Consensus pattern (14 bp):
TCCTTTTCCAGTAT
Found at i:10883315 original size:23 final size:23
Alignment explanation
Indices: 10883285--10883333 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
10883275 AATATGGTTG
* *
10883285 ATACTGAATAAAATAGTTTAGAT
1 ATACTGAATAAAACAGCTTAGAT
10883308 ATACTGAATAAAACAGCTTAGAT
1 ATACTGAATAAAACAGCTTAGAT
10883331 ATA
1 ATA
10883334 AGAATTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (23 bp):
ATACTGAATAAAACAGCTTAGAT
Found at i:10884628 original size:304 final size:303
Alignment explanation
Indices: 10884101--10884665 Score: 925
Period size: 303 Copynumber: 1.9 Consensus size: 303
10884091 TACTGGGTAA
* *
10884101 GTTGAATTCCACTTCAAAATTTTCATTTTTGTTTGCAATTTCGAAAACTAATTTTGGGTATTGGG
1 GTTGAATTCCACTTCAAAATTTTCATTTTTGTTTGCAATTTCGAAAACTAATGTTGGGTATTAGG
* *
10884166 TGTTGAATGACTTTATCTGCTCTCAATTTTTACTTTTTTAATCTTACGATTCTATTTATTTGCAG
66 TGTTGAATGACTTTATCTACTCTCAATTTTCACTTTTTTAATCTTACGATTCTATTTATTTGCAG
**
10884231 TATTAGTCTTTTAACTATTTTTGCTCCGTTTCAATGAATTGTAAAGAAACGATTTTATACTCTGT
131 TATTAGTCTTTTAACTATTTTTGCTCCGTTTCAATGAATTGTAAAGAAACGATTTTATACAATGT
*
10884296 CTTCCTTTAGTTTGGATGTGTTTCATATTATAAAGTTCTTTTAGC-TTGTATGTATTTTTAGGAT
196 CTTCCTTTAGTTTGGAAGTGTTTCATATTATAAAGTTCTTTTA-CTTTGTATGTATTTTTAGGAT
10884360 TTGCTTTCCATCTCAATCAAATTTTATGATTTTAAGGTAATTTT
260 TTGCTTTCCATCTCAATCAAATTTTATGATTTTAAGGTAATTTT
* * * * *
10884404 GTTGAATTCCACTTCAAAATTTTCATTTTTGTTTGTAGTTTTGGATACTAATGTTGGGTATTAGG
1 GTTGAATTCCACTTCAAAATTTTCATTTTTGTTTGCAATTTCGAAAACTAATGTTGGGTATTAGG
* * *
10884469 TGTTGAATGACTTTATCTACTCTCAATTTTCACTTTTTTAATCTTAGGGTTCTGTTTATTTGCAG
66 TGTTGAATGACTTTATCTACTCTCAATTTTCACTTTTTTAATCTTACGATTCTATTTATTTGCAG
* * * *
10884534 TATTAGTCTTTTAATTGTTGTTTGCTCTGTTTCAATGAATTGTAAAGAAATGATTTTATACAATG
131 TATTAGTCTTTTAACTATT-TTTGCTCCGTTTCAATGAATTGTAAAGAAACGATTTTATACAATG
*
10884599 TCTTCCTTTAGTTTGGAAGTGTTTCATATTATAAAGTTCTTTTACTTTGTATGTATTTTTGGGAT
195 TCTTCCTTTAGTTTGGAAGTGTTTCATATTATAAAGTTCTTTTACTTTGTATGTATTTTTAGGAT
10884664 TT
260 TT
10884666 TGGTGTTGGA
Statistics
Matches: 240, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
303 136 0.57
304 104 0.43
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (303 bp):
GTTGAATTCCACTTCAAAATTTTCATTTTTGTTTGCAATTTCGAAAACTAATGTTGGGTATTAGG
TGTTGAATGACTTTATCTACTCTCAATTTTCACTTTTTTAATCTTACGATTCTATTTATTTGCAG
TATTAGTCTTTTAACTATTTTTGCTCCGTTTCAATGAATTGTAAAGAAACGATTTTATACAATGT
CTTCCTTTAGTTTGGAAGTGTTTCATATTATAAAGTTCTTTTACTTTGTATGTATTTTTAGGATT
TGCTTTCCATCTCAATCAAATTTTATGATTTTAAGGTAATTTT
Found at i:10889241 original size:32 final size:32
Alignment explanation
Indices: 10889205--10889275 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
10889195 AGGAATCGAA
*
10889205 TACCTTTAACAAACCCTACTATTAGCAATGTC
1 TACCTTTAACAAACCCTACTAATAGCAATGTC
* * *
10889237 TACCTCTAACGAACCTTACTAATAGCAATGTC
1 TACCTTTAACAAACCCTACTAATAGCAATGTC
10889269 TA-CTTTA
1 TACCTTTA
10889276 GTTATGGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (32 bp):
TACCTTTAACAAACCCTACTAATAGCAATGTC
Found at i:10890937 original size:17 final size:16
Alignment explanation
Indices: 10890893--10890945 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
10890883 TTCTGCTATA
*
10890893 TTTTCTATTTCCTTTG
1 TTTTCTATTTCTTTTG
*
10890909 -TTTCTCTTTCTTTTG
1 TTTTCTATTTCTTTTG
10890924 TTTTCTATTTTCTTTTG
1 TTTTCTA-TTTCTTTTG
*
10890941 ATTTC
1 TTTTC
10890946 GTTGTTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 13 0.42
16 5 0.16
17 13 0.42
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (16 bp):
TTTTCTATTTCTTTTG
Found at i:10892333 original size:27 final size:27
Alignment explanation
Indices: 10892303--10892360 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
10892293 TTATAAATAT
10892303 TTTTAAAAACTTTTATTTGAAAAGATG
1 TTTTAAAAACTTTTATTTGAAAAGATG
** * * *
10892330 TTTTTTATATTTTTATTTGAAAAGATT
1 TTTTAAAAACTTTTATTTGAAAAGATG
10892357 TTTT
1 TTTT
10892361 TATTTGAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (27 bp):
TTTTAAAAACTTTTATTTGAAAAGATG
Found at i:10892359 original size:26 final size:27
Alignment explanation
Indices: 10892313--10892363 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
10892303 TTTTAAAAAC
10892313 TTTTATTTGAAAAGATGTTTTTTATAT
1 TTTTATTTGAAAAGATGTTTTTTATAT
10892340 TTTTATTTGAAAAGAT-TTTTTTAT
1 TTTTATTTGAAAAGATGTTTTTTAT
10892364 TTGAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (27 bp):
TTTTATTTGAAAAGATGTTTTTTATAT
Found at i:10892476 original size:19 final size:19
Alignment explanation
Indices: 10892449--10892488 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10892439 CAGAAAAAAT
*
10892449 AAAATAAAATAGAAT-AAA
1 AAAATAAAATAAAATGAAA
10892467 AAAATAAAAATAAAATGAAA
1 AAAAT-AAAATAAAATGAAA
10892487 AA
1 AA
10892489 GGAAAAACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAATAAAATAAAATGAAA
Found at i:10893336 original size:3 final size:3
Alignment explanation
Indices: 10893328--10893428 Score: 71
Period size: 3 Copynumber: 31.7 Consensus size: 3
10893318 TAAATAAATA
* * *
10893328 AAT AAT AAT AAT AAC CAT AGT AAAT AAT ATAT AAT ATAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT A-AT AAT A-AT AAT
* *
10893377 AAT AAT AACT -AT AGT GTAT AAT -AT AAT ATAT AAT ATAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT -AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT
10893424 AAT AA
1 AAT AA
10893429 CTATAGTGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
2 3 0.04
3 56 0.72
4 19 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:10893363 original size:7 final size:7
Alignment explanation
Indices: 10893351--10893462 Score: 90
Period size: 7 Copynumber: 15.9 Consensus size: 7
10893341 ACCATAGTAA
10893351 ATAATAT
1 ATAATAT
10893358 ATAATAT
1 ATAATAT
10893365 ATAATAT
1 ATAATAT
10893372 ATAATA-
1 ATAATAT
10893378 ATAATAACT
1 ATAAT-A-T
* *
10893387 ATAGTGT
1 ATAATAT
10893394 AT-A-AT
1 ATAATAT
10893399 ATAATAT
1 ATAATAT
10893406 ATAATAT
1 ATAATAT
10893413 ATAATA-
1 ATAATAT
10893419 ATAATA-
1 ATAATAT
10893425 ATAACTAT
1 ATAA-TAT
*
10893433 AGTGTATAAT
1 A-T-AAT-AT
*
10893443 ATAATGT
1 ATAATAT
10893450 ATAATAT
1 ATAATAT
*
10893457 ACAATA
1 ATAATA
10893463 ATACTATAGT
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
5 3 0.03
6 16 0.19
7 53 0.62
8 3 0.03
9 7 0.08
10 4 0.05
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:10893399 original size:19 final size:20
Alignment explanation
Indices: 10893351--10893470 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 20
10893341 ACCATAGTAA
10893351 ATAATATATAATATATAATAT
1 ATAATA-ATAATATATAATAT
* *
10893372 ATAATAATAATAACTATAGTGT
1 ATAATAATAAT-A-TATAATAT
10893394 ATAAT-ATAATATATAATAT
1 ATAATAATAATATATAATAT
10893413 ATAATAATAATA-ATAACTAT
1 ATAATAATAATATATAA-TAT
* *
10893433 AGTGTATAATATAATGTATAATAT
1 A-T-AAT-A-ATAATATATAATAT
* *
10893457 ACAATAATACTATA
1 ATAATAATAATATA
10893471 GTATACTAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 19
0.73 0.09 0.17
Matches are distributed among these distances:
19 15 0.19
20 22 0.28
21 14 0.17
22 15 0.19
23 1 0.01
24 9 0.11
25 4 0.05
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.38
Consensus pattern (20 bp):
ATAATAATAATATATAATAT
Found at i:10893435 original size:44 final size:44
Alignment explanation
Indices: 10893321--10893465 Score: 192
Period size: 44 Copynumber: 3.4 Consensus size: 44
10893311 GTAAATGTAA
* **
10893321 ATAA-ATA-AATAATAATAATAACCATAGTAAATAATAT-ATA-
1 ATAATATATAATAATAATAATAACTATAGTGTATAATATAATAT
10893361 AT-ATATAATATATAATAATAATAACTATAGTGTATAATATAATAT
1 ATAATAT-ATA-ATAATAATAATAACTATAGTGTATAATATAATAT
*
10893406 ATAATATATAATAATAATAATAACTATAGTGTATAATATAATGT
1 ATAATATATAATAATAATAATAACTATAGTGTATAATATAATAT
*
10893450 ATAATATACAATAATA
1 ATAATATATAATAATA
10893466 CTATAGTATA
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.01
40 4 0.04
41 1 0.01
42 1 0.01
43 26 0.28
44 51 0.55
45 5 0.05
46 4 0.04
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (44 bp):
ATAATATATAATAATAATAATAACTATAGTGTATAATATAATAT
Found at i:10893454 original size:37 final size:38
Alignment explanation
Indices: 10893404--10893494 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 38
10893394 ATAATATAAT
* *
10893404 ATATAATATATAATA-ATAATAATAACTATAGTGTA-TA
1 ATATAATATATAATATACAATAAT-ACTATAGTATACTA
*
10893441 ATATAATGTATAATATACAATAATACTATAGTATACTA
1 ATATAATATATAATATACAATAATACTATAGTATACTA
*
10893479 ATAAAAGTA-ATAATAT
1 ATATAA-TATATAATAT
10893495 CCCCAACTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 24 0.52
38 21 0.46
39 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (38 bp):
ATATAATATATAATATACAATAATACTATAGTATACTA
Found at i:10893941 original size:83 final size:83
Alignment explanation
Indices: 10893786--10893950 Score: 188
Period size: 83 Copynumber: 2.0 Consensus size: 83
10893776 CGCAAGTCTA
* * ** *
10893786 AAGATGATCTGACCTAAGTCAAGATCAGATGATTAGGACGATGCCGTGAGTCTGAAGACGACCAA
1 AAGATAATCTGACCTAAGCCAAGATCAGATGATTAGGACGATGCCACGAGTCTAAAGACGACCAA
* *
10893851 GACTGAGTCGAGGTCGTG
66 AACTGAGTCAAGGTCGTG
* ** * * *
10893869 AAGATAATCTGACCTGAGCCAAGATTGGATGATTAGGACGATGTCACGAGTCTAAA-AGTGATCA
1 AAGATAATCTGACCTAAGCCAAGATCAGATGATTAGGACGATGCCACGAGTCTAAAGA-CGACCA
*
10893933 AAATTGAGTCAAGGTCGT
65 AAACTGAGTCAAGGTCGT
10893951 AAATAAATGA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
82 1 0.01
83 66 0.99
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.22
Consensus pattern (83 bp):
AAGATAATCTGACCTAAGCCAAGATCAGATGATTAGGACGATGCCACGAGTCTAAAGACGACCAA
AACTGAGTCAAGGTCGTG
Found at i:10894084 original size:114 final size:114
Alignment explanation
Indices: 10893867--10894074 Score: 249
Period size: 114 Copynumber: 1.8 Consensus size: 114
10893857 GTCGAGGTCG
* * * *
10893867 TGAAGATAATCTGACCTGAGCCAAGATTGGATGATTAGGACGATGTCACGAGTCTAAAAGTGATC
1 TGAAGATAATCTGACCTGAGCCAAGATTAGATGATTAGGACGATGCCAAGAGTCTAAAAGTGACC
* *
10893932 AAAATTGAGTCAAGGTCGTAAATAAATGACCAAACTGATGTTGCAAGTC
66 AAAATCGAGTCAAGGTCATAAATAAATGACCAAACTGATGTTGCAAGTC
* * * * * * *
10893981 TGAAGATGATTTGACCTGAGTCGAGATTAGATGATTGGGACGATGCCATAG-GTCTGAAGGTGAC
1 TGAAGATAATCTGACCTGAGCCAAGATTAGATGATTAGGACGATGCCA-AGAGTCTAAAAGTGAC
* *
10894045 CAAGATCGAGTCGAA-GTCATAGATAAATGA
65 CAAAATCGAGTC-AAGGTCATAAATAAATGA
10894075 TTGAACTGAT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
114 74 0.96
115 3 0.04
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (114 bp):
TGAAGATAATCTGACCTGAGCCAAGATTAGATGATTAGGACGATGCCAAGAGTCTAAAAGTGACC
AAAATCGAGTCAAGGTCATAAATAAATGACCAAACTGATGTTGCAAGTC
Found at i:10902008 original size:47 final size:47
Alignment explanation
Indices: 10901937--10902028 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
10901927 AAAAAGAAGG
* *
10901937 AAAAATAAAATATTTACCCTTTAAAAATTCAACAAAAGTTAACTTAC
1 AAAAATAAAATATTTACCCCTTAAAAATTCAACAAAAGTCAACTTAC
10901984 AAAAATAAAATATTTACCCCTTAAAAATTCAACAAAAGTCAACTT
1 AAAAATAAAATATTTACCCCTTAAAAATTCAACAAAAGTCAACTT
10902029 TTATTTATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.28
Consensus pattern (47 bp):
AAAAATAAAATATTTACCCCTTAAAAATTCAACAAAAGTCAACTTAC
Found at i:10905562 original size:19 final size:18
Alignment explanation
Indices: 10905540--10905579 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10905530 AAATCAAATC
* *
10905540 AAATCAAATCAAAAAATAA
1 AAATAAAAT-AAAAAAGAA
10905559 AAATAAAATAAAAAAGAA
1 AAATAAAATAAAAAAGAA
10905577 AAA
1 AAA
10905580 ACCAGCGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (18 bp):
AAATAAAATAAAAAAGAA
Found at i:10906439 original size:3 final size:3
Alignment explanation
Indices: 10906431--10906583 Score: 102
Period size: 3 Copynumber: 49.3 Consensus size: 3
10906421 TAAATAAATA
* * * *
10906431 AAT AAT AAT AAT AGT AAT AAC CAT ATT ATAT AAT ATAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT A-AT AAT A-AT AAT
*
10906479 AAT AA- AAT AAT AAT AACT -AT AGT ATAT AAT -AT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
10906522 AAT AAT AAT AACT -AT AGT GTAT AAT -AT AAT ATAT AAT ATAT AAT ATAT
1 AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT A-AT AAT A-AT AAT A-AT
10906570 AAT ATAT AAT AAT A
1 AAT A-AT AAT AAT A
10906584 CTATAGTATA
Statistics
Matches: 119, Mismatches: 14, Indels: 34
0.71 0.08 0.20
Matches are distributed among these distances:
2 10 0.08
3 84 0.71
4 25 0.21
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:10906469 original size:7 final size:7
Alignment explanation
Indices: 10906457--10906580 Score: 116
Period size: 7 Copynumber: 17.3 Consensus size: 7
10906447 ATAACCATAT
10906457 TATATAA
1 TATATAA
10906464 TATATAA
1 TATATAA
10906471 TATATAA
1 TATATAA
10906478 TA-ATAA
1 TATATAA
10906484 -A-ATAA
1 TATATAA
10906489 TA-ATAA
1 TATATAA
10906495 CTATAGTATA
1 -TATA-TA-A
10906505 TAATATAA
1 T-ATATAA
10906513 TATAATAA
1 TAT-ATAA
10906521 TA-ATAA
1 TATATAA
10906527 TA-ATAA
1 TATATAA
*
10906533 CTATAGTGTA
1 -TATA-T-AA
10906543 TAATATAA
1 T-ATATAA
10906551 TATATAA
1 TATATAA
10906558 TATATAA
1 TATATAA
10906565 TATATAA
1 TATATAA
10906572 TATATAA
1 TATATAA
10906579 TA
1 TA
10906581 ATACTATAGT
Statistics
Matches: 103, Mismatches: 2, Indels: 24
0.80 0.02 0.19
Matches are distributed among these distances:
5 5 0.05
6 19 0.18
7 51 0.50
8 12 0.12
9 8 0.08
10 8 0.08
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (7 bp):
TATATAA
Found at i:10913283 original size:21 final size:18
Alignment explanation
Indices: 10913238--10913285 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
10913228 AAATATAATT
10913238 TTTTATTTAAGTGATATA
1 TTTTATTTAAGTGATATA
*
10913256 TGATTATATTAAGTGATATGTA
1 T-TTTAT-TTAAGTGATA--TA
10913278 TTTTATTT
1 TTTTATTT
10913286 GGATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 1 0.04
19 4 0.17
20 12 0.50
21 4 0.17
22 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (18 bp):
TTTTATTTAAGTGATATA
Found at i:10922583 original size:19 final size:20
Alignment explanation
Indices: 10922554--10922593 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10922544 CGATTGCACG
10922554 AAATATTAAAAACTTCAAAA
1 AAATATTAAAAACTTCAAAA
**
10922574 AAAT-TTAAAATTTTCAAAA
1 AAATATTAAAAACTTCAAAA
10922593 A
1 A
10922594 TTTTCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATATTAAAAACTTCAAAA
Found at i:10922593 original size:10 final size:10
Alignment explanation
Indices: 10922580--10922633 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
10922570 AAAAAAATTT
10922580 AAAATTTTCA
1 AAAATTTTCA
10922590 AAAATTTTCA
1 AAAATTTTCA
*
10922600 AAAAGATTT-A
1 AAAA-TTTTCA
*
10922610 AACATTTTC-
1 AAAATTTTCA
*
10922619 AAAATTTTCT
1 AAAATTTTCA
10922629 AAAAT
1 AAAAT
10922634 ATTAATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 11 0.30
10 23 0.62
11 3 0.08
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (10 bp):
AAAATTTTCA
Found at i:10922599 original size:29 final size:29
Alignment explanation
Indices: 10922567--10922632 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
10922557 TATTAAAAAC
10922567 TTCAAAAAAATTTAAA-ATTTTCAAAAATT
1 TTCAAAAAAATTTAAACATTTTC-AAAATT
*
10922596 TTCAAAAAGATTTAAACATTTTCAAAATT
1 TTCAAAAAAATTTAAACATTTTCAAAATT
*
10922625 TTCTAAAA
1 TTCAAAAA
10922633 TATTAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (29 bp):
TTCAAAAAAATTTAAACATTTTCAAAATT
Found at i:10922687 original size:19 final size:21
Alignment explanation
Indices: 10922645--10922687 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
10922635 TTAATAAATT
* *
10922645 AAAATATATGAAATATTTTTA
1 AAAATATATGAAAAATTTTAA
10922666 AAAAT-TAT-AAAAATTTTAA
1 AAAATATATGAAAAATTTTAA
10922685 AAA
1 AAA
10922688 TTCAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 3 0.15
21 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATATATGAAAAATTTTAA
Found at i:10922919 original size:28 final size:28
Alignment explanation
Indices: 10922889--10922962 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
10922879 TTGTTCGATT
* *
10922889 TTTTAAAAATTCTAAAAAAATAAAA-AA
1 TTTTAAAAATTTTAAAAAAACAAAACAA
* *
10922916 TTTTAAAAATTTTGAAATAACAAAACAA
1 TTTTAAAAATTTTAAAAAAACAAAACAA
10922944 TTTTAAAAATTTTAAAAAA
1 TTTTAAAAATTTTAAAAAA
10922963 TTATGAGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (28 bp):
TTTTAAAAATTTTAAAAAAACAAAACAA
Found at i:10922923 original size:9 final size:9
Alignment explanation
Indices: 10922889--10922961 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
10922879 TTGTTCGATT
10922889 TTTTAAAAA
1 TTTTAAAAA
*
10922898 TTCTAAAAA
1 TTTTAAAAA
** *
10922907 AATAAAAAA
1 TTTTAAAAA
10922916 TTTTAAAAA
1 TTTTAAAAA
10922925 TTTTGAAATAA
1 TTTT-AAA-AA
**
10922936 --CAAAACAA
1 TTTTAAA-AA
10922944 TTTTAAAAA
1 TTTTAAAAA
10922953 TTTTAAAAA
1 TTTTAAAAA
10922962 ATTATGAGAA
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
8 5 0.11
9 34 0.72
10 6 0.13
11 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:10923033 original size:28 final size:29
Alignment explanation
Indices: 10922972--10923041 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
10922962 ATTATGAGAA
*
10922972 ATAAAAAATAAAAATTTTACTAAAAATCC
1 ATAAAAAATTAAAATTTTACTAAAAATCC
* *
10923001 A-AAAAAATTCAAAA-TTT-CTTAAAATTC
1 ATAAAAAATT-AAAATTTTACTAAAAATCC
*
10923028 ATAAAATATTAAAA
1 ATAAAAAATTAAAA
10923042 CATTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 13 0.37
28 17 0.49
29 5 0.14
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (29 bp):
ATAAAAAATTAAAATTTTACTAAAAATCC
Found at i:10923243 original size:10 final size:9
Alignment explanation
Indices: 10923221--10923253 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
10923211 TTTATTAAAC
10923221 TTTTT-AAT
1 TTTTTGAAT
10923229 TTTTTGAACT
1 TTTTTGAA-T
10923239 TTTTTGAAT
1 TTTTTGAAT
10923248 TTTTTG
1 TTTTTG
10923254 GATATTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 9 0.39
10 9 0.39
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.70
Consensus pattern (9 bp):
TTTTTGAAT
Found at i:10923381 original size:30 final size:31
Alignment explanation
Indices: 10923338--10923396 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
10923328 TTTTATTATT
*
10923338 TTTAAAAATATTTTAG-ATTTTTTATGAAAAA
1 TTTAAAAATATTTTAGCAATTTTTA-GAAAAA
10923369 TTTAAAAA-ATTTTAGCAATTTTTAGAAA
1 TTTAAAAATATTTTAGCAATTTTTAGAAA
10923397 TTATGTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (31 bp):
TTTAAAAATATTTTAGCAATTTTTAGAAAAA
Found at i:10923868 original size:22 final size:23
Alignment explanation
Indices: 10923843--10923886 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10923833 AAAAAATCAA
**
10923843 TTATTACATTTAATATA-AATTT
1 TTATTACAAATAATATATAATTT
10923865 TTATTACAAATAATATATAATT
1 TTATTACAAATAATATATAATT
10923887 AATCTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATTACAAATAATATATAATTT
Found at i:10925803 original size:22 final size:20
Alignment explanation
Indices: 10925775--10925831 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
10925765 GAAAGGGGAA
10925775 GAAGAAAAAGAAAGGAAAGAAG
1 GAAG-AAAAGAAAGGAAA-AAG
10925797 GAAGAAAAGAAA-GAAAAAG
1 GAAGAAAAGAAAGGAAAAAG
10925816 G-AG-AAAGAAAGGAAAA
1 GAAGAAAAGAAAGGAAAA
10925832 TAAAAAGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.21
18 7 0.21
19 4 0.12
20 4 0.12
21 8 0.24
22 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
GAAGAAAAGAAAGGAAAAAG
Found at i:10928595 original size:37 final size:37
Alignment explanation
Indices: 10928522--10928665 Score: 105
Period size: 37 Copynumber: 3.9 Consensus size: 37
10928512 TATTTCATTA
* * * *
10928522 ACATCATAATAAGATAGTGCATGCATCTCATTTCATGC
1 ACATCTTAAT-AGATAATACATGCATCTCATCTCATGC
* * * *
10928560 ATATTTTAATGGATAATACATGCATTTCATCTCATGC
1 ACATCTTAATAGATAATACATGCATCTCATCTCATGC
* *
10928597 ACATCTTAATAGATAA-ATATGTAATC-CATCTCA-GAC
1 ACATCTTAATAGATAATACATG-CATCTCATCTCATG-C
* * * *
10928633 ACATCATAATAAGATAATATATGCGTTTCATCT
1 ACATCTTAAT-AGATAATACATGCATCTCATCT
10928666 TAGACATTGA
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
35 1 0.01
36 21 0.25
37 44 0.53
38 17 0.20
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (37 bp):
ACATCTTAATAGATAATACATGCATCTCATCTCATGC
Found at i:10928665 original size:38 final size:37
Alignment explanation
Indices: 10928566--10928671 Score: 108
Period size: 36 Copynumber: 2.9 Consensus size: 37
10928556 ATGCATATTT
* * *
10928566 TAATGGATAATACATGCATTTCATCTCATG-CACATCT
1 TAATAGATAATATATGCATTTCATCTCA-GACACATCA
* * *
10928603 TAATAGATAA-ATATGTAATCCATCTCAGACACATCA
1 TAATAGATAATATATGCATTTCATCTCAGACACATCA
* *
10928639 TAATAAGATAATATATGCGTTTCATCTTAGACA
1 TAAT-AGATAATATATGCATTTCATCTCAGACA
10928672 TTGATAGTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
35 1 0.02
36 23 0.42
37 15 0.27
38 16 0.29
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (37 bp):
TAATAGATAATATATGCATTTCATCTCAGACACATCA
Found at i:10935809 original size:43 final size:44
Alignment explanation
Indices: 10935725--10935830 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 44
10935715 TTGATATTCG
* *
10935725 AGTATCCAAGTTTAAATTTGCATTTCACTCGATCGTAATATCTA
1 AGTATCCATGTTTAAATTTGCATTTCACTCGATCGTAATATCCA
* * * *
10935769 AGTATCCATGTTTGAATTTGCA-TTCACTTGATGGTGATATCCA
1 AGTATCCATGTTTAAATTTGCATTTCACTCGATCGTAATATCCA
**
10935812 AGTATCCATGCCTAAATTT
1 AGTATCCATGTTTAAATTT
10935831 ACATCCTTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 33 0.62
44 20 0.38
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (44 bp):
AGTATCCATGTTTAAATTTGCATTTCACTCGATCGTAATATCCA
Found at i:10936033 original size:44 final size:44
Alignment explanation
Indices: 10935966--10936104 Score: 167
Period size: 44 Copynumber: 3.2 Consensus size: 44
10935956 TCCAAAGATT
* **
10935966 ATTTACATTT-ACTTGATGGTGATATTTGGGTATCTAAGTTTGA
1 ATTTGCATTTCACTTGATGGTGATATTTGAATATCTAAGTTTGA
*
10936009 ATTTGCATTTCACTT-AGTGGTGATATTCGAATATCTAAGTTTGA
1 ATTTGCATTTCACTTGA-TGGTGATATTTGAATATCTAAGTTTGA
* * * *
10936053 ATTTGCATTTCACTCGATGGTGATATTTGACTATCCATA-TATGA
1 ATTTGCATTTCACTTGATGGTGATATTTGAATATCTA-AGTTTGA
10936097 ATTTGCAT
1 ATTTGCAT
10936105 CATTCCTCGA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
43 10 0.12
44 71 0.86
45 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.44
Consensus pattern (44 bp):
ATTTGCATTTCACTTGATGGTGATATTTGAATATCTAAGTTTGA
Found at i:10936337 original size:43 final size:43
Alignment explanation
Indices: 10936256--10936357 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
10936246 TATAGATTTC
*
10936256 TTTTTAAAGTTGTCGAGCCTCTATTAAAAGGAGTTTTTTCAAA
1 TTTTTAAAGTTGTCGAGCCTCTATTAAAAGGAGCTTTTTCAAA
* * * *
10936299 TTTTTAAAGTTGTCGAGTCTTTATTTAGAA-GAGCTTTTTCAAG
1 TTTTTAAAGTTGTCGAGCCTCTA-TTAAAAGGAGCTTTTTCAAA
10936342 TTTTTAAAGTTGTCGA
1 TTTTTAAAGTTGTCGA
10936358 ACTTTTGTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
43 48 0.91
44 5 0.09
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (43 bp):
TTTTTAAAGTTGTCGAGCCTCTATTAAAAGGAGCTTTTTCAAA
Found at i:10936606 original size:21 final size:21
Alignment explanation
Indices: 10936580--10936647 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
10936570 ACAAATGAAC
10936580 AAAAAAATCCAAAAGAATTAG
1 AAAAAAATCCAAAAGAATTAG
* *
10936601 AAAAAAATCCAAAAAAATGAAG
1 AAAAAAATCCAAAAGAAT-TAG
*
10936623 AAAAGAAAT--AAAAGAAATA-
1 AAAA-AAATCCAAAAGAATTAG
10936642 AAAAAA
1 AAAAAA
10936648 TTTTCAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 1 0.03
21 23 0.57
22 6 0.15
23 4 0.10
ACGTcount: A:0.75, C:0.06, G:0.09, T:0.10
Consensus pattern (21 bp):
AAAAAAATCCAAAAGAATTAG
Found at i:10937925 original size:21 final size:21
Alignment explanation
Indices: 10937892--10937946 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
10937882 CAAGAGGAAT
* *
10937892 AAGA-AAAAAAGAAAGAGAAG
1 AAGATAAAAGAGAAAAAGAAG
*
10937912 AGGA-AGAAAGAGAAAAAGAAG
1 AAGATA-AAAGAGAAAAAGAAG
10937933 AAGATAAAAGAGAA
1 AAGATAAAAGAGAA
10937947 GCCAGTGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (21 bp):
AAGATAAAAGAGAAAAAGAAG
Found at i:10937932 original size:15 final size:15
Alignment explanation
Indices: 10937893--10937947 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
10937883 AAGAGGAATA
10937893 AGAAAAA-AAGAAAG
1 AGAAAAAGAAGAAAG
* *
10937907 AGAAGAGGAAGAAAG
1 AGAAAAAGAAGAAAG
10937922 AGAAAAAGAAG-AAG
1 AGAAAAAGAAGAAAG
*
10937936 ATAAAAGAGAAG
1 AGAAAA-AGAAG
10937948 CCAGTGGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 13 0.38
15 21 0.62
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (15 bp):
AGAAAAAGAAGAAAG
Found at i:10940339 original size:63 final size:63
Alignment explanation
Indices: 10940270--10940422 Score: 164
Period size: 63 Copynumber: 2.4 Consensus size: 63
10940260 TATACAGGTG
* ** *
10940270 TTTTAAAAAAATTACAATAAACAATTACTACGTCTAGTTTCAAAGAAACT-CAATAATTAATTA
1 TTTTAAAAAAATTACAATGAACAATTACTACGTCTAACTTCAAA-AAAATACAATAATTAATTA
* * * ** * * *
10940333 TTTTAAAAAACTCACAATGAATAATTACTGGGTTTAACTTCAAAAAAATATAATATTTAATTA
1 TTTTAAAAAAATTACAATGAACAATTACTACGTCTAACTTCAAAAAAATACAATAATTAATTA
* *
10940396 TTTTAAATAAATTACAATGATCAATTA
1 TTTTAAAAAAATTACAATGAACAATTA
10940423 TTGTGTTTAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
62 4 0.06
63 68 0.94
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.36
Consensus pattern (63 bp):
TTTTAAAAAAATTACAATGAACAATTACTACGTCTAACTTCAAAAAAATACAATAATTAATTA
Found at i:10940431 original size:63 final size:62
Alignment explanation
Indices: 10940321--10940574 Score: 222
Period size: 63 Copynumber: 3.9 Consensus size: 62
10940311 AAAGAAACTC
* * *
10940321 AATAATTAATTATTTTAAAAAACTCACAATGAATAATTACTGGGTTTAACTTCAAAAAAATAT
1 AATAATTAATTATTTTAAAAAA-TTACAATGAATAATTATTGTGTTTAACTTCAAAAAAATAT
* * * *
10940384 AATATTTAATTATTTTAAATAAATTACAATG-ATCAATTATTGTGTTTATCATCAAAGAAACGTG
1 AATAATTAATTATTTTAAA-AAATTACAATGAAT-AATTATTGTGTTTAACTTCAAA-AAA-AT-
10940448 AT
61 AT
* * * * *
10940450 AATTAAACTTTTTATATATCTTTAAAAAATTATAATAAATAATTATTGCGTTTAATTTCAAAAAA
1 AA-T-AA---TTAAT-TAT-TTTAAAAAATTACAATGAATAATTATTGTGTTTAACTTCAAAAAA
10940515 ATAT
59 ATAT
** * * *
10940519 GGTAATTAATTATTTTTAAAAAATTACATTGTATAATTATTGTGTTTAGCTTCAAA
1 AATAATTAATTA-TTTTAAAAAATTACAATGAATAATTATTGTGTTTAACTTCAAA
10940575 TAAACACAGT
Statistics
Matches: 151, Mismatches: 26, Indels: 28
0.74 0.13 0.14
Matches are distributed among these distances:
62 2 0.01
63 80 0.53
64 11 0.07
65 1 0.01
66 4 0.03
67 3 0.02
68 2 0.01
69 2 0.01
70 1 0.01
71 7 0.05
72 30 0.20
73 8 0.05
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (62 bp):
AATAATTAATTATTTTAAAAAATTACAATGAATAATTATTGTGTTTAACTTCAAAAAAATAT
Found at i:10940743 original size:16 final size:16
Alignment explanation
Indices: 10940711--10940746 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10940701 ATTGTTCAAC
**
10940711 AAAATTAAAATTGAAA
1 AAAATTAAAATCCAAA
10940727 AAAATTAAAATCCAAA
1 AAAATTAAAATCCAAA
10940743 AAAA
1 AAAA
10940747 AAAAAGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATTAAAATCCAAA
Found at i:10945252 original size:2 final size:2
Alignment explanation
Indices: 10945245--10945273 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10945235 ATATCAATTC
10945245 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
10945274 GAGAGAGAGA
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:10945506 original size:2 final size:2
Alignment explanation
Indices: 10945499--10945529 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10945489 CAATATAAAA
10945499 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10945530 TATAGCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10946198 original size:16 final size:16
Alignment explanation
Indices: 10946177--10946214 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10946167 TAACCACAAG
10946177 CACATACACAAATTCA
1 CACATACACAAATTCA
10946193 CACATACACAAATTCA
1 CACATACACAAATTCA
10946209 CACATA
1 CACATA
10946215 TGCTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (16 bp):
CACATACACAAATTCA
Found at i:10949768 original size:13 final size:14
Alignment explanation
Indices: 10949750--10949778 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10949740 ATTATATCAA
10949750 TTAATAAAATT-TT
1 TTAATAAAATTCTT
10949763 TTAATAAAATTCTT
1 TTAATAAAATTCTT
10949777 TT
1 TT
10949779 TTTGAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATAAAATTCTT
Found at i:10951714 original size:13 final size:13
Alignment explanation
Indices: 10951696--10951722 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10951686 TAGAAAAACC
10951696 AAACAAAATAAAA
1 AAACAAAATAAAA
10951709 AAACAAAATAAAA
1 AAACAAAATAAAA
10951722 A
1 A
10951723 CCACACAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAACAAAATAAAA
Found at i:10951715 original size:17 final size:18
Alignment explanation
Indices: 10951681--10951715 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10951671 ACCCCAACAC
*
10951681 CAAAATAGAAAAACCAAA
1 CAAAATAGAAAAAACAAA
10951699 CAAAATA-AAAAAACAAA
1 CAAAATAGAAAAAACAAA
10951716 ATAAAAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.14, G:0.03, T:0.06
Consensus pattern (18 bp):
CAAAATAGAAAAAACAAA
Found at i:10951721 original size:18 final size:18
Alignment explanation
Indices: 10951681--10951721 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10951671 ACCCCAACAC
* *
10951681 CAAAATAGAAAAACCAAA
1 CAAAATAAAAAAACAAAA
10951699 CAAAATAAAAAAACAAAA
1 CAAAATAAAAAAACAAAA
*
10951717 TAAAA
1 CAAAA
10951722 ACCACACAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.78, C:0.12, G:0.02, T:0.07
Consensus pattern (18 bp):
CAAAATAAAAAAACAAAA
Found at i:10952654 original size:27 final size:27
Alignment explanation
Indices: 10952594--10952655 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 27
10952584 AAAAACTTTT
*
10952594 CAATACAATAAAAATTTTCTTTTTGTTAA
1 CAATA-AA-AAAAATTTTCTTTTTATTAA
10952623 CAATAAAAAAAATTTAT-TTATTTATTAA
1 CAATAAAAAAAATTT-TCTT-TTTATTAA
10952651 -AATAA
1 CAATAA
10952656 TAATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 15 0.50
28 10 0.33
29 5 0.17
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (27 bp):
CAATAAAAAAAATTTTCTTTTTATTAA
Found at i:10963836 original size:13 final size:14
Alignment explanation
Indices: 10963818--10963852 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
10963808 TATTTTGCTT
10963818 AAAAAAAAAG-AAG
1 AAAAAAAAAGAAAG
10963831 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
10963845 AGAAAAAA
1 A-AAAAAA
10963853 TGATGACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 4 0.20
15 6 0.30
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:10963837 original size:16 final size:16
Alignment explanation
Indices: 10963818--10963852 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10963808 TATTTTGCTT
10963818 AAAAAA-AAAGAAGAAA
1 AAAAAAGAAAG-AGAAA
10963834 AAAAAAGAAAGAGAAA
1 AAAAAAGAAAGAGAAA
10963850 AAA
1 AAA
10963853 TGATGACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAGAGAAA
Found at i:10964708 original size:55 final size:53
Alignment explanation
Indices: 10964648--10964979 Score: 223
Period size: 49 Copynumber: 6.7 Consensus size: 53
10964638 GATGAAAAGA
* * *
10964648 TTTTAAAGTTGTTGAGTCTTTGTTGAAAGGAGCCTTTTTAAAGATGAGAATTTTT
1 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAG-CTTTTTAAAGATGAGAA-TTTT
* * *
10964703 TTTTAAAGTTGTGGAGCCTTTGCTGAGAGGAGCTTTTCCAAA-ACGAGAA----
1 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTT-TAAAGATGAGAATTTT
* *
10964752 TTTTAAAGTTGTTGAGCCTTTACTGAGAGGAGCTTTTTCAAGATGAGAA----
1 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTAAAGATGAGAATTTT
* * * * * *
10964801 TTTTAAAATTGTTGAGTCTCTACTGAGATGAGCTTTTCCAAA-ATGAG-A--TT
1 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTT-TAAAGATGAGAATTTT
* * **
10964851 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG-TTTTTTTA-A-GAGAA----
1 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTAAAGATGAGAATTTT
* * * *
10964897 TTTTAAAGTTGTTAAGCCTTTACTGAGATGAGCTTTTT-CA-A-GAGAA----
1 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTAAAGATGAGAATTTT
* *
10964943 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTT
1 TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTT
10964980 AAAAAATATA
Statistics
Matches: 238, Mismatches: 32, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
46 69 0.29
47 8 0.03
48 6 0.03
49 83 0.35
50 30 0.13
54 11 0.05
55 31 0.13
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (53 bp):
TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTAAAGATGAGAATTTT
Found at i:10964769 original size:49 final size:48
Alignment explanation
Indices: 10964703--10964979 Score: 319
Period size: 49 Copynumber: 5.8 Consensus size: 48
10964693 GAGAATTTTT
* * *
10964703 TTTTAAAGTTGTGGAGCCTTTGCTGAGAGGAGCTTTTCCAAAACGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAAA-GAGAA
* * *
10964752 TTTTAAAGTTGTTGAGCCTTTACTGAGAGGAGCTTTTTCAAGATGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAA-AAGAGAA
* * * *
10964801 TTTTAAAATTGTTGAGTCTCTACTGAGATGAGCTTTTCCAAAATGAGATT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAAA-GAGA-A
* * ***
10964851 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG-TTTT-TTTAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAAAGAGAA
* * * *
10964897 TTTTAAAGTTGTTAAGCCTTTACTGAGATGAGCTTTTTC--AAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAAAGAGAA
10964943 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTT
10964980 AAAAAATATA
Statistics
Matches: 196, Mismatches: 27, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
46 69 0.35
47 8 0.04
48 3 0.02
49 87 0.44
50 29 0.15
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAAAGAGAA
Found at i:10964920 original size:145 final size:145
Alignment explanation
Indices: 10964701--10964979 Score: 411
Period size: 145 Copynumber: 1.9 Consensus size: 145
10964691 ATGAGAATTT
* * *
10964701 TTTTTTAAAGTTGTGGAGCCTTTGCTGAGAGGAGCTTTTCCAAAACGAGAATTTTAAAGTTGTTG
1 TTTTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAGCTTTTCCAAAACGAGAATTTTAAAGTTGTTA
* *
10964766 AGCCTTTACTGAGAGGAGCTTTTTCAAGATGAGAATTTTAAAATTGTTGAGTCTCTACTGAGATG
66 AGCCTTTACTGAGAGGAGCTTTTTC-A-A-GAGAATTTTAAAATTGTTGAGCCTCTACTGAGAGG
10964831 AGCTTTTCCAAAATGAGA
128 AGCTTTTCCAAAATGAGA
* ***
10964849 TTTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG-TTTT-TTTAA-GAGAATTTTAAAGTTGTTA
1 TTTTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAGCTTTTCCAAAACGAGAATTTTAAAGTTGTTA
* *
10964911 AGCCTTTACTGAGATGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC
66 AGCCTTTACTGAGAGGAGCTTTTTCAAGAGAATTTTAAAATTGTTGAGCCTCTACTGAGAGGAGC
10964976 TTTT
131 TTTT
10964980 AAAAAATATA
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
142 39 0.32
143 1 0.01
144 1 0.01
145 42 0.35
146 2 0.02
147 4 0.03
148 31 0.26
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (145 bp):
TTTTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAGCTTTTCCAAAACGAGAATTTTAAAGTTGTTA
AGCCTTTACTGAGAGGAGCTTTTTCAAGAGAATTTTAAAATTGTTGAGCCTCTACTGAGAGGAGC
TTTTCCAAAATGAGA
Found at i:10965204 original size:3 final size:3
Alignment explanation
Indices: 10965190--10965232 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
10965180 ATTTCCAGTT
* **
10965190 TAA TAT TAA TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10965233 TAAAAAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:10965210 original size:12 final size:12
Alignment explanation
Indices: 10965190--10965235 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10965180 ATTTCCAGTT
10965190 TAATATTAATAA
1 TAATATTAATAA
*
10965202 TAATTTTAATAA
1 TAATATTAATAA
*
10965214 TAATAATAATAA
1 TAATATTAATAA
10965226 TAATAATTAA
1 TAAT-ATTAA
10965236 AAAAAAGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:10966255 original size:3 final size:3
Alignment explanation
Indices: 10966225--10966290 Score: 89
Period size: 3 Copynumber: 21.7 Consensus size: 3
10966215 AAAATATTTT
* *
10966225 TTA TATA TTA TTT TTG TTA TT- TTAA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
10966271 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
10966291 TATGCATGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.04
3 50 0.88
4 5 0.09
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10967015 original size:21 final size:22
Alignment explanation
Indices: 10966974--10967018 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
10966964 AAAAAGTTTT
*
10966974 AATTTATTTTTCTCAAGAATAA
1 AATTTATTTTTCTCAAAAATAA
10966996 AATTT-TTTTTCT-AATAAATAA
1 AATTTATTTTTCTCAA-AAATAA
10967017 AA
1 AA
10967019 AATCAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 14 0.67
22 5 0.24
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTTATTTTTCTCAAAAATAA
Found at i:10969569 original size:26 final size:27
Alignment explanation
Indices: 10969540--10969594 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
10969530 TAAATGATCC
10969540 AAATTATCCAAAA-ATCTAA-ACACAGT
1 AAATTATCCAAAATA-CTAACACACAGT
*
10969566 AAATTATTCAAAATACTAACACACAGT
1 AAATTATCCAAAATACTAACACACAGT
10969593 AA
1 AA
10969595 CACACTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.24
Consensus pattern (27 bp):
AAATTATCCAAAATACTAACACACAGT
Found at i:10972907 original size:31 final size:31
Alignment explanation
Indices: 10972870--10972932 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
10972860 TTTTTATAAA
* * *
10972870 ATAAAGTATATAAAATATTTAGAATAAATAT
1 ATAAAGTACATAAAAGATGTAGAATAAATAT
* *
10972901 ATAAAGTACATGAAAGATGTAGAATAAGTAT
1 ATAAAGTACATAAAAGATGTAGAATAAATAT
10972932 A
1 A
10972933 CTGTTTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.30
Consensus pattern (31 bp):
ATAAAGTACATAAAAGATGTAGAATAAATAT
Found at i:10974294 original size:11 final size:12
Alignment explanation
Indices: 10974269--10974298 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10974259 TTTTGATTTA
*
10974269 TTTTATGTTATT
1 TTTTATGCTATT
10974281 TTTTATGCTATT
1 TTTTATGCTATT
10974293 TTTTAT
1 TTTTAT
10974299 ATAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTATGCTATT
Found at i:10974317 original size:3 final size:3
Alignment explanation
Indices: 10974303--10974341 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
10974293 TTTTATATAA
*
10974303 TAT TAT TGT TAT TAT TAT TAT TAT TAT T-T TA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10974342 CTAGTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10974359 original size:22 final size:21
Alignment explanation
Indices: 10974311--10974359 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
10974301 AATATTATTG
* * *
10974311 TTATTATTATTATTATTATTT
1 TTATTATTACTATAATAATTT
10974332 TATATTATTACTAGTAATAATTT
1 T-TATTATTACTA-TAATAATTT
10974355 TTATT
1 TTATT
10974360 TCTTTAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 8 0.35
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTATTACTATAATAATTT
Found at i:10974457 original size:18 final size:20
Alignment explanation
Indices: 10974417--10974454 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10974407 AATAAAGATC
10974417 TAAAAAATATAATATATAAA
1 TAAAAAATATAATATATAAA
*
10974437 TAAAAAATTTAATA-ATAA
1 TAAAAAATATAATATATAA
10974455 TAATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAATATAATATATAAA
Found at i:10975186 original size:3 final size:3
Alignment explanation
Indices: 10975178--10975210 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10975168 TAAAATACGA
10975178 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10975211 GTTAATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10993079 original size:26 final size:26
Alignment explanation
Indices: 10993050--10993099 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10993040 TGAAAAATTA
**
10993050 AAATAAAAGGAATTAAATTAAATATC
1 AAATAAAACCAATTAAATTAAATATC
*
10993076 AAATAAAACCAATTAAATTCAATA
1 AAATAAAACCAATTAAATTAAATA
10993100 ACTATTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.26
Consensus pattern (26 bp):
AAATAAAACCAATTAAATTAAATATC
Found at i:10994318 original size:22 final size:21
Alignment explanation
Indices: 10994297--10994355 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
10994287 TTTGACTTTA
10994297 AGGTTTTGGATTTTAGGGTTT
1 AGGTTTTGGATTTTAGGGTTT
* *
10994318 AGGATTTTGAATCTTAGGGTTT
1 AGG-TTTTGGATTTTAGGGTTT
*
10994340 TGGTTTT-GAGTTTTAG
1 AGGTTTTGGA-TTTTAG
10994356 ATTTTGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 12 0.39
22 18 0.58
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.51
Consensus pattern (21 bp):
AGGTTTTGGATTTTAGGGTTT
Found at i:10994420 original size:29 final size:29
Alignment explanation
Indices: 10994388--10994538 Score: 89
Period size: 29 Copynumber: 5.2 Consensus size: 29
10994378 TTAGTTTCAA
10994388 GGTTTGGAGTGTTTAGGAGTTAG-TTTTAG
1 GGTTTGGAG-GTTTAGGAGTTAGATTTTAG
* * *
10994417 GGTTTGAAGGTTTGATGCA-TT-GATTTTAA
1 GGTTTGGAGGTTT-A-GGAGTTAGATTTTAG
* *
10994446 GGTTTGGAATGTTTAGG-GTTTGATTTTAG
1 GGTTTGG-AGGTTTAGGAGTTAGATTTTAG
* *** *
10994475 GATTCAAAGGATTTAGG-GTTTTGATTTTAG
1 GGTTTGGAGG-TTTAGGAG-TTAGATTTTAG
* *
10994505 GGTTCGGAGGGTTTAGGAATTAG-TTTTAG
1 GGTTTGGA-GGTTTAGGAGTTAGATTTTAG
10994534 GGTTT
1 GGTTT
10994539 AAAGGGTTGG
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
28 10 0.11
29 50 0.53
30 32 0.34
31 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (29 bp):
GGTTTGGAGGTTTAGGAGTTAGATTTTAG
Found at i:10994459 original size:58 final size:59
Alignment explanation
Indices: 10994386--10994543 Score: 169
Period size: 59 Copynumber: 2.7 Consensus size: 59
10994376 GATTAGTTTC
* *
10994386 AAGGTTTGGAGTGTTTAGGAGTTAGTTTTAGGGTTTGAAGG-TTT-GATGCATTGATTTT
1 AAGGTTTGGAGTGTTTAGGAGTTAGTTTTAGGGTTTAAAGGATTTAG-GGCATTGATTTT
* * * * **
10994444 AAGGTTTGGAATGTTTAGG-GTTTGATTTTAGGATTCAAAGGATTTAGGGTTTTGATTTT
1 AAGGTTTGGAGTGTTTAGGAGTTAG-TTTTAGGGTTTAAAGGATTTAGGGCATTGATTTT
* * * *
10994503 AGGGTTCGGAGGGTTTAGGAATTAGTTTTAGGGTTTAAAGG
1 AAGGTTTGGAGTGTTTAGGAGTTAGTTTTAGGGTTTAAAGG
10994544 GTTGGAGTTC
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
57 4 0.05
58 31 0.39
59 41 0.51
60 4 0.05
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (59 bp):
AAGGTTTGGAGTGTTTAGGAGTTAGTTTTAGGGTTTAAAGGATTTAGGGCATTGATTTT
Found at i:10994520 original size:30 final size:29
Alignment explanation
Indices: 10994436--10994521 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 29
10994426 GTTTGATGCA
* * **
10994436 TTGATTTTAAGGTTTGGAATGTTTAGGGT
1 TTGATTTTAGGGTTCGGAGGGTTTAGGGT
* ** *
10994465 TTGATTTTAGGATTCAAAGGATTTAGGGTT
1 TTGATTTTAGGGTTCGGAGGGTTTAGGG-T
10994495 TTGATTTTAGGGTTCGGAGGGTTTAGG
1 TTGATTTTAGGGTTCGGAGGGTTTAGG
10994522 AATTAGTTTT
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 20 0.45
30 24 0.55
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (29 bp):
TTGATTTTAGGGTTCGGAGGGTTTAGGGT
Found at i:10994687 original size:29 final size:29
Alignment explanation
Indices: 10994609--10994737 Score: 102
Period size: 29 Copynumber: 4.4 Consensus size: 29
10994599 TAGGGATTTG
*
10994609 ATTTTAGGGTTT-GGAGGATTTAAGGTTTCA
1 ATTTTAGGGTTTAGAAGG-TTTAAGGTTT-A
* * *
10994639 TTTTTAAGGTTCA-AAGGGTTTAAGGTTTA
1 ATTTTAGGGTTTAGAA-GGTTTAAGGTTTA
*
10994668 ATTTTAGGGTTTAGAAGGTTTATGGTTTA
1 ATTTTAGGGTTTAGAAGGTTTAAGGTTTA
* * * * **
10994697 GTTTTAAGATTTTG-AGGTTTGGGGTTTA
1 ATTTTAGGGTTTAGAAGGTTTAAGGTTTA
10994725 ATTTCTAGGGTTT
1 ATTT-TAGGGTTT
10994738 CAATTTTTAG
Statistics
Matches: 78, Mismatches: 17, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
28 15 0.19
29 39 0.50
30 22 0.28
31 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.47
Consensus pattern (29 bp):
ATTTTAGGGTTTAGAAGGTTTAAGGTTTA
Found at i:10994760 original size:14 final size:14
Alignment explanation
Indices: 10994743--10994780 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
10994733 GGTTTCAATT
*
10994743 TTTAGGTTTTGAAA
1 TTTAGGATTTGAAA
*
10994757 TTTAGGATTTGAAT
1 TTTAGGATTTGAAA
10994771 TTTAGGATTT
1 TTTAGGATTT
10994781 AAAAAAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (14 bp):
TTTAGGATTTGAAA
Done.