Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 40 of 84
Found at i:9413166 original size:2 final size:2
Alignment explanation
Indices: 9413159--9413197 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9413149 TTAACACTCT
9413159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9413198 GACTGCTGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9414726 original size:55 final size:58
Alignment explanation
Indices: 9414637--9414753 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 58
9414627 GAAAGAGTTG
* *
9414637 AAAA-ATCAAATTTTTCTAAAAATGAATTTATTTT-AAGA-AT-TTAAGAAAAAAATT
1 AAAATATCAAATTTTTCTAAAAATGAAGTTATTTTAAAAAGATGTTAAGAAAAAAATT
* * * *
9414691 AAAATATCAAA-TTTTCTTTAAGATGAAGTTGTTTTAAAAAGATGTTAAGAAAAAAGTT
1 AAAATATCAAATTTTTC-TAAAAATGAAGTTATTTTAAAAAGATGTTAAGAAAAAAATT
9414749 AAAAT
1 AAAAT
9414754 TTTTTCTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
54 9 0.17
55 20 0.38
56 3 0.06
57 2 0.04
58 18 0.35
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.36
Consensus pattern (58 bp):
AAAATATCAAATTTTTCTAAAAATGAAGTTATTTTAAAAAGATGTTAAGAAAAAAATT
Found at i:9414940 original size:10 final size:10
Alignment explanation
Indices: 9414912--9414941 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9414902 TAAATAAATT
9414912 ATTTTTAAAA
1 ATTTTTAAAA
*
9414922 AATTTTAAAA
1 ATTTTTAAAA
9414932 ATTTTTAAAA
1 ATTTTTAAAA
9414942 CTTAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:9415942 original size:27 final size:26
Alignment explanation
Indices: 9415912--9415962 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
9415902 ATCAAATAAT
* *
9415912 TTTTTAATAATTCTTTTAAATTGAATA
1 TTTTGAATAATT-ATTTAAATTGAATA
*
9415939 TTTTGGATAATTATTTAAATTGAA
1 TTTTGAATAATTATTTAAATTGAA
9415963 AGCAATCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (26 bp):
TTTTGAATAATTATTTAAATTGAATA
Found at i:9417931 original size:26 final size:26
Alignment explanation
Indices: 9417881--9417931 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9417871 CAAATAAAAT
* *
9417881 TTAAATTCGATTCGATTATTATCGAG
1 TTAAATTCGATTCGAGTAATATCGAG
9417907 TTAAATTCGAATTCGAGTAAT-TCGA
1 TTAAATTCG-ATTCGAGTAATATCGA
9417932 TTTATCGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (26 bp):
TTAAATTCGATTCGAGTAATATCGAG
Found at i:9424102 original size:19 final size:20
Alignment explanation
Indices: 9424058--9424107 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
9424048 TATTTAATCG
9424058 AATTAATCAAATTAAATTACT
1 AATTAATC-AATTAAATTACT
* *
9424079 -TTTAATCAATTCAATTA-T
1 AATTAATCAATTAAATTACT
9424097 AATTAAT-AATT
1 AATTAATCAATT
9424108 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 5 0.20
19 14 0.56
20 6 0.24
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAATCAATTAAATTACT
Found at i:9425034 original size:50 final size:50
Alignment explanation
Indices: 9424936--9425036 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
9424926 GACAAACCAA
* * *
9424936 GTGAAGATAATGGTATTTTAATCATAACAAAAGAGGAAACGGTGAAACAC
1 GTGAAGATAATGGTATTTCAATCATAACAAAAGAGGAAACAGTAAAACAC
*
9424986 GTGAAGATAATGGTATTTCAATCATAACTAAAGA-GATAACAGTAAAACAC
1 GTGAAGATAATGGTATTTCAATCATAACAAAAGAGGA-AACAGTAAAACAC
9425036 G
1 G
9425037 AGCCCCTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 2 0.04
50 44 0.96
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.23
Consensus pattern (50 bp):
GTGAAGATAATGGTATTTCAATCATAACAAAAGAGGAAACAGTAAAACAC
Found at i:9425079 original size:12 final size:12
Alignment explanation
Indices: 9425062--9425110 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
9425052 TTTAATCCAG
9425062 TCTATATTTATA
1 TCTATATTTATA
**
9425074 TCTATACAATATA
1 TCTATA-TTTATA
9425087 TCTAT-TTCTATA
1 TCTATATT-TATA
9425099 TCTATATTTATA
1 TCTATATTTATA
9425111 CTCTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (12 bp):
TCTATATTTATA
Found at i:9425246 original size:28 final size:28
Alignment explanation
Indices: 9425192--9425246 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9425182 TTTAAAAACG
*
9425192 TATAATACTCAATATTTTATTTGATTTT
1 TATAATACTCAATATTTAATTTGATTTT
9425220 TATAATATCTC-ATATTTAAATTT-ATTT
1 TATAATA-CTCAATATTT-AATTTGATTT
9425247 ATTGATTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (28 bp):
TATAATACTCAATATTTAATTTGATTTT
Found at i:9426225 original size:25 final size:25
Alignment explanation
Indices: 9426176--9426241 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
9426166 TATTGGTATA
* *
9426176 TTTACTGTATT-GATTTTGGTTGTT
1 TTTACTATATTGGATATTGGTTGTT
9426200 TTTACTATATTGGATATTGGTTGTT
1 TTTACTATATTGGATATTGGTTGTT
* *
9426225 TTTACTATGTAGGATAT
1 TTTACTATATTGGATAT
9426242 ATAGAGAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 10 0.27
25 27 0.73
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.56
Consensus pattern (25 bp):
TTTACTATATTGGATATTGGTTGTT
Found at i:9428419 original size:102 final size:101
Alignment explanation
Indices: 9428297--9428547 Score: 350
Period size: 98 Copynumber: 2.5 Consensus size: 101
9428287 ATTTAATTTA
* *
9428297 AAAATTTAAATCCTTCAATCAATTAGTAGGATTGAAATTTTATTTTATTTTTAACAAAATTT-AT
1 AAAATTTAAAT-CTTCAATCATTTGGTAGGATTGAAATTTTATTTT-TTTTTAACAAAATTTCAT
*
9428361 TATGAAATTCTCCAATCATTTGGTAGAATTCATAATTC
64 TATGAAATTCTCCAATCATTTGGTAGAATTCATAACTC
* * *
9428399 AATATTTAAATCTTCTAATCATTTGGTAGGATTGAAA---T-TTTTTTTTTCACAAAATTTCGTT
1 AAAATTTAAATCTTC-AATCATTTGGTAGGATTGAAATTTTATTTTTTTTTAACAAAATTTCATT
9428460 ATGAAATTCTCCAATCATTTGGTAGAATTCATAACTC
65 ATGAAATTCTCCAATCATTTGGTAGAATTCATAACTC
*
9428497 AAAATTTAAAATCTTCCAATCATTTGGTAGGATTAAAATTTATATTTTTTT
1 AAAATTT-AAATCTT-CAATCATTTGGTAGGATTGAAATTT-TATTTTTTT
9428548 ATGTAACTTT
Statistics
Matches: 132, Mismatches: 8, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
97 14 0.11
98 48 0.36
99 28 0.21
100 1 0.01
101 4 0.03
102 29 0.22
103 1 0.01
104 7 0.05
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (101 bp):
AAAATTTAAATCTTCAATCATTTGGTAGGATTGAAATTTTATTTTTTTTTAACAAAATTTCATTA
TGAAATTCTCCAATCATTTGGTAGAATTCATAACTC
Found at i:9432464 original size:19 final size:18
Alignment explanation
Indices: 9432448--9432489 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
9432438 TCACTTTTGT
9432448 TTTCAAAGTTAGTTTTTA
1 TTTCAAAGTTAGTTTTTA
9432466 TTTCAAAGTTAGTTTTTA
1 TTTCAAAGTTAGTTTTTA
9432484 TGTTCA
1 T-TTCA
9432490 TTTGTTGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (18 bp):
TTTCAAAGTTAGTTTTTA
Found at i:9441203 original size:5 final size:5
Alignment explanation
Indices: 9441188--9441236 Score: 53
Period size: 5 Copynumber: 8.8 Consensus size: 5
9441178 AATGGGTTAA
9441188 AAAAGT AAAAT AAAAT AAAAT AAAAT CAAGAAAT AAAAAT AAAAT AAAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT --A-AAAT -AAAAT AAAAT AAAA
9441237 AAACCAAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 25 0.62
6 8 0.20
7 3 0.08
8 4 0.10
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:9441648 original size:21 final size:20
Alignment explanation
Indices: 9441613--9441664 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
9441603 TTCAAAAAAA
* **
9441613 TAAAAAAACCCAAAAATTTTT
1 TAAAAAAATCCAAAAA-AGTT
*
9441634 TAAAAAAATCTAAAAAAGTT
1 TAAAAAAATCCAAAAAAGTT
9441654 TAAAAAAATCC
1 TAAAAAAATCC
9441665 CAGATAGCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.25
Consensus pattern (20 bp):
TAAAAAAATCCAAAAAAGTT
Found at i:9444513 original size:13 final size:13
Alignment explanation
Indices: 9444495--9444534 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
9444485 TTGTTAGTTA
9444495 TTATATTTTATTG
1 TTATATTTTATTG
*
9444508 TTATATATTATTTG
1 TTATATTTTA-TTG
9444522 TTAATATTTTATT
1 TT-ATATTTTATT
9444535 ATTTCATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 9 0.39
14 7 0.30
15 7 0.30
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (13 bp):
TTATATTTTATTG
Found at i:9444514 original size:15 final size:15
Alignment explanation
Indices: 9444491--9444534 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
9444481 CATATTGTTA
9444491 GTTATTATATTTTATT
1 GTTA-TATATTTTATT
*
9444507 GTTATATATTAT-TT
1 GTTATATATTTTATT
9444521 GTTA-ATATTTTATT
1 GTTATATATTTTATT
9444535 ATTTCATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 7 0.28
16 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
GTTATATATTTTATT
Found at i:9444516 original size:30 final size:30
Alignment explanation
Indices: 9444465--9444534 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
9444455 TTATACAATT
* *
9444465 TTATTTTTTATTTTAGCATATTGTTAGTTA
1 TTATATTTTATTTTAGCATATTATTAGTTA
* *
9444495 TTATATTTTATTGTTA-TATATTATTTGTTA
1 TTATATTTTATT-TTAGCATATTATTAGTTA
9444525 --ATATTTTATT
1 TTATATTTTATT
9444535 ATTTCATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 10 0.29
30 22 0.63
31 3 0.09
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.66
Consensus pattern (30 bp):
TTATATTTTATTTTAGCATATTATTAGTTA
Found at i:9445032 original size:61 final size:62
Alignment explanation
Indices: 9444936--9445064 Score: 163
Period size: 61 Copynumber: 2.1 Consensus size: 62
9444926 TGATGTTTGA
* * * *
9444936 ATTTTAGTTTACTAAGTTTTATATATTTCATAATTCTATCATCTATGGT-TAGAATTTGTGAG
1 ATTTTAATTTACTAAGTTTTATATATTTCACAATTCCATCATCTATGGTGCA-AATTTGTGAG
* * * *
9444998 -TTTTAATTTACTAAGTTTTATGTATTTTACAATTCCATTATTTATGGTGCAAATTTGTGAG
1 ATTTTAATTTACTAAGTTTTATATATTTCACAATTCCATCATCTATGGTGCAAATTTGTGAG
9445059 ATTTTA
1 ATTTTA
9445065 CTAGATAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
61 51 0.89
62 6 0.11
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (62 bp):
ATTTTAATTTACTAAGTTTTATATATTTCACAATTCCATCATCTATGGTGCAAATTTGTGAG
Found at i:9447494 original size:21 final size:20
Alignment explanation
Indices: 9447455--9447494 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9447445 ATAAAATTAT
*
9447455 TAATTAATAAAATTGAATAG
1 TAATTAAAAAAATTGAATAG
*
9447475 TAATTAAAAATAATTTAATA
1 TAATTAAAAA-AATTGAATA
9447495 TAAAAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TAATTAAAAAAATTGAATAG
Found at i:9447549 original size:21 final size:21
Alignment explanation
Indices: 9447452--9447552 Score: 59
Period size: 21 Copynumber: 5.0 Consensus size: 21
9447442 ATTATAAAAT
* *
9447452 TATT-AATTAATAAAATTGAA
1 TATTAAATTAATAATATTAAA
* * *
9447472 TAGT-AATTAAAAATAATTTAA
1 TATTAAATTAATAAT-ATTAAA
* * *
9447493 TATAAAAATCA-AATATT-AA
1 TATTAAATTAATAATATTAAA
*
9447512 TATTAAATTAATCATATTAAA
1 TATTAAATTAATAATATTAAA
*
9447533 TATT-ATTTAAATAATATTAA
1 TATTAAATT-AATAATATTAA
9447553 TTCCACACTA
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
19 10 0.16
20 22 0.35
21 26 0.42
22 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TATTAAATTAATAATATTAAA
Found at i:9447736 original size:11 final size:11
Alignment explanation
Indices: 9447695--9447861 Score: 67
Period size: 11 Copynumber: 16.3 Consensus size: 11
9447685 AGTTAACAAA
*
9447695 TTTACTATTAT
1 TTTAATATTAT
*
9447706 TTTAATACTAT
1 TTTAATATTAT
* *
9447717 TTTATTATTGT
1 TTTAATATTAT
9447728 TTT-A-A-TA-
1 TTTAATATTAT
* *
9447735 TTCAATATTAA
1 TTTAATATTAT
*
9447746 TTTAATAATA-
1 TTTAATATTAT
*
9447756 TTT--TAGT-T
1 TTTAATATTAT
*
9447764 TTTAATAATAT
1 TTTAATATTAT
* *
9447775 TTTATTATTTAA
1 TTTAATA-TTAT
*
9447787 TTTAATAATAT
1 TTTAATATTAT
9447798 TTTAATATTAAT
1 TTTAATATT-AT
9447810 TATTAATA--A-
1 T-TTAATATTAT
9447819 TTTAATA-TA-
1 TTTAATATTAT
9447828 -TT-ATATTAT
1 TTTAATATTAT
** *
9447837 TTTCGTAGTAT
1 TTTAATATTAT
9447848 TTTAATATTAT
1 TTTAATATTAT
9447859 TTT
1 TTT
9447862 CCATCTTAAA
Statistics
Matches: 116, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
7 5 0.04
8 18 0.16
9 4 0.03
10 11 0.09
11 61 0.53
12 11 0.09
13 6 0.05
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:9447754 original size:21 final size:20
Alignment explanation
Indices: 9447730--9447826 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 20
9447720 ATTATTGTTT
9447730 TAATATTCAATATTAATTTAA
1 TAATATT-AATATTAATTTAA
*
9447751 TAATATT-TTAGTT--TTTAA
1 TAATATTAATA-TTAATTTAA
*
9447769 TAATATTTTATTATTTAATTTAA
1 TAATA--TTAATA-TTAATTTAA
9447792 TAATATTTTAATATTAATTATTAA
1 TAATA--TTAATATTAA-T-TTAA
9447816 TAAT-TTAATAT
1 TAATATTAATAT
9447827 ATTATATTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
18 10 0.15
19 2 0.03
20 4 0.06
21 19 0.29
22 4 0.06
23 18 0.28
24 8 0.12
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
TAATATTAATATTAATTTAA
Found at i:9447767 original size:18 final size:18
Alignment explanation
Indices: 9447700--9447787 Score: 79
Period size: 18 Copynumber: 4.6 Consensus size: 18
9447690 ACAAATTTAC
*
9447700 TATTATTTTAATACTATTT
1 TATTA-TTTAATAATATTT
** *
9447719 TATTATTGTTTTAATATTCAA
1 TATTATT-TAATAATATT--T
9447740 TATTAATTTAATAATATTT
1 TATT-ATTTAATAATATTT
9447759 TAGTT-TTTAATAATATTT
1 TA-TTATTTAATAATATTT
9447777 TATTATTTAAT
1 TATTATTTAAT
9447788 TTAATAATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.04
18 23 0.41
19 14 0.25
20 2 0.04
21 12 0.21
22 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTTAATAATATTT
Found at i:9447780 original size:23 final size:22
Alignment explanation
Indices: 9447754--9447819 Score: 53
Period size: 23 Copynumber: 2.8 Consensus size: 22
9447744 AATTTAATAA
9447754 TATTTTAGTTTTTAATAATATTT
1 TATTTTA-TTTTTAATAATATTT
*
9447777 TATTATT-TAATTTAATAATATTT
1 TATT-TTAT-TTTTAATAATATTT
* *
9447800 TAATATTAATTATTAATAAT
1 T-AT-TTTATTTTTAATAAT
9447820 TTAATATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
22 1 0.03
23 18 0.53
24 13 0.38
25 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTTATTTTTAATAATATTT
Found at i:9448093 original size:18 final size:18
Alignment explanation
Indices: 9448070--9448152 Score: 85
Period size: 18 Copynumber: 4.4 Consensus size: 18
9448060 AATTTAGTAT
*
9448070 TATTTTAATATTGAATAA
1 TATTTTAATATTTAATAA
* * *
9448088 TATTTTCATTTTTAAAAA
1 TATTTTAATATTTAATAA
9448106 TATTTTAATATTTAATAA
1 TATTTTAATATTTAATAA
* *
9448124 TATTAATTATTAATTTATTAA
1 TATT--TTAAT-ATTTAATAA
9448145 TATTTTAA
1 TATTTTAA
9448153 CAATTATTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
18 33 0.63
19 3 0.06
20 4 0.08
21 12 0.23
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (18 bp):
TATTTTAATATTTAATAA
Found at i:9448284 original size:25 final size:24
Alignment explanation
Indices: 9448256--9448339 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
9448246 TATTATTAAA
*
9448256 TATTTAATTTAATATTATTTAATTT
1 TATTTAATTTAATATTAATTAA-TT
* *
9448281 TATTAAAATTAATATTAATTAA-T
1 TATTTAATTTAATATTAATTAATT
* *
9448304 TATATAATTAAATATTGTAATTAATAT
1 TATTTAATTTAATA-T-TAATTAAT-T
9448331 TATTTAATT
1 TATTTAATT
9448340 AATTATAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 11 0.23
24 1 0.02
25 26 0.55
27 9 0.19
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (24 bp):
TATTTAATTTAATATTAATTAATT
Found at i:9448289 original size:60 final size:60
Alignment explanation
Indices: 9448200--9448339 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 60
9448190 ATTTATTAAA
* * * *
9448200 TAATTTAATA-TATTATACTATTTTCAAAA-T-ATTTTAATTTTAATTTTATTATTAAATATT-
1 TAATTTAATATTATT-TAAT-TTTTCAAAATTAATATTAA--TTAATTATATAATTAAATATTG
*
9448260 TAATTTAATATTATTTAATTTTATTAAAATTAATATTAATTAATTATATAATTAAATATTG
1 TAATTTAATATTATTTAATTTT-TCAAAATTAATATTAATTAATTATATAATTAAATATTG
9448321 TAA-TTAATATTATTTAATT
1 TAATTTAATATTATTTAATT
9448340 AATTATAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
59 3 0.04
60 53 0.76
61 8 0.11
62 6 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (60 bp):
TAATTTAATATTATTTAATTTTTCAAAATTAATATTAATTAATTATATAATTAAATATTG
Found at i:9448298 original size:12 final size:12
Alignment explanation
Indices: 9448239--9448377 Score: 58
Period size: 13 Copynumber: 11.2 Consensus size: 12
9448229 TATTTTAATT
* *
9448239 TTAATTTTATTA
1 TTAATATTATAA
9448251 TTAAATATT-TAA
1 TT-AATATTATAA
9448263 TTTAATATTATTTAA
1 -TTAATATTA--TAA
* *
9448278 TT-TTATTAAAA
1 TTAATATTATAA
9448289 TTAATA-T-TAA
1 TTAATATTATAA
9448299 TTAAT-TATATAA
1 TTAATAT-TATAA
*
9448311 TTAAATATTGTAA
1 TT-AATATTATAA
9448324 TTAATATTAT--
1 TTAATATTATAA
9448334 TTAATTAATTATAA
1 TTAA-T-ATTATAA
* *
9448348 TAAAATAATCATAA
1 T-TAAT-ATTATAA
*
9448362 TTAATCATAATAA
1 TTAAT-ATTATAA
9448375 TTA
1 TTA
9448378 GAATTAATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
10 11 0.11
11 7 0.07
12 29 0.30
13 33 0.34
14 13 0.13
15 5 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (12 bp):
TTAATATTATAA
Found at i:9448412 original size:30 final size:30
Alignment explanation
Indices: 9448368--9448437 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
9448358 ATAATTAATC
9448368 ATAATAATTAGAATTAATTAAATACAAAAGG
1 ATAA-AATTAGAATTAATTAAATACAAAAGG
* * * *
9448399 GTAAAATTGGAATTAATTAAATATATAAGG
1 ATAAAATTAGAATTAATTAAATACAAAAGG
9448429 ATAAAATTA
1 ATAAAATTA
9448438 TCCAATAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.31
Consensus pattern (30 bp):
ATAAAATTAGAATTAATTAAATACAAAAGG
Found at i:9449211 original size:3 final size:3
Alignment explanation
Indices: 9449203--9449250 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
9449193 CCTATACTGT
9449203 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9449251 ATACCGGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9450310 original size:12 final size:11
Alignment explanation
Indices: 9450288--9450361 Score: 50
Period size: 10 Copynumber: 7.0 Consensus size: 11
9450278 TCACCCATGC
9450288 ATAAATAAAAA
1 ATAAATAAAAA
9450299 ATAAACTAAAAA
1 ATAAA-TAAAAA
*
9450311 ATGAAAT--GAA
1 AT-AAATAAAAA
* *
9450321 GTAAATAAAAT
1 ATAAATAAAAA
9450332 A-AAAT-AAAA
1 ATAAATAAAAA
*
9450341 ATACA-AAAAA
1 ATAAATAAAAA
*
9450351 ATGAATAAAAA
1 ATAAATAAAAA
9450362 TGTGAACCGG
Statistics
Matches: 47, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
9 8 0.17
10 16 0.34
11 11 0.23
12 9 0.19
13 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:9455953 original size:5 final size:5
Alignment explanation
Indices: 9455943--9455986 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
9455933 AAATTATGTG
9455943 TTATT TTATT TTATT TTATT TT-TAT TTATCT TATATT TTATT TT
1 TTATT TTATT TTATT TTATT TTAT-T TTAT-T T-TATT TTATT TT
9455987 TAATAATAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
4 1 0.03
5 26 0.74
6 5 0.14
7 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:9455967 original size:16 final size:17
Alignment explanation
Indices: 9455944--9455986 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
9455934 AATTATGTGT
*
9455944 TATTTTATTTTATTTTA
1 TATTTTATTTTATCTTA
9455961 T-TTTTA-TTTATCTTA
1 TATTTTATTTTATCTTA
9455976 TATTTTATTTT
1 TATTTTATTTT
9455987 TAATAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTATTTTATCTTA
Found at i:9455979 original size:22 final size:20
Alignment explanation
Indices: 9455947--9455988 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
9455937 TATGTGTTAT
9455947 TTTATTTTATTTTATTTTTA
1 TTTATTTTATTTTATTTTTA
9455967 TTTATCTTATATTTTATTTTTA
1 TTTAT-TT-TATTTTATTTTTA
9455989 ATAATAGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTTATTTTATTTTTA
Found at i:9457608 original size:2 final size:2
Alignment explanation
Indices: 9457601--9457631 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9457591 GTATTTGTTT
9457601 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9457632 GAATGAATGA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9460072 original size:21 final size:21
Alignment explanation
Indices: 9460030--9460072 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9460020 ATGCATTTTG
* *
9460030 TATTGAATAAAAAATTTTAAT
1 TATTGAATAAAAAAATTAAAT
9460051 TATTG-ATAAATAAAATTAAAT
1 TATTGAATAAA-AAAATTAAAT
9460072 T
1 T
9460073 TTGTATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
TATTGAATAAAAAAATTAAAT
Found at i:9460182 original size:18 final size:20
Alignment explanation
Indices: 9460137--9460184 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
9460127 TATTTAGTAT
*
9460137 AAATAT-ATTATTATTAATA
1 AAATATCATAATTATTAATA
9460156 AAA-ATCATAATTA-TAA-A
1 AAATATCATAATTATTAATA
9460173 AAATATCATAAT
1 AAATATCATAAT
9460185 CATTTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.15
18 13 0.50
19 9 0.35
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATCATAATTATTAATA
Found at i:9466193 original size:64 final size:64
Alignment explanation
Indices: 9466092--9466219 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
9466082 ATAAATATGA
*
9466092 ATACAAATCCAATATTTTCCTATGTGAAACCAAAGCACCCAAAAAGATCACTCTAGCAACTCCC
1 ATACAAATCCAATATTTTCCCATGTGAAACCAAAGCACCCAAAAAGATCACTCTAGCAACTCCC
9466156 ATACAAATCCAATATTTTCCCATGTGAAACCAAAGCACCCAAAAAGATCACTCTAGCAACTCCC
1 ATACAAATCCAATATTTTCCCATGTGAAACCAAAGCACCCAAAAAGATCACTCTAGCAACTCCC
9466220 TCTGTCAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.41, C:0.30, G:0.08, T:0.21
Consensus pattern (64 bp):
ATACAAATCCAATATTTTCCCATGTGAAACCAAAGCACCCAAAAAGATCACTCTAGCAACTCCC
Found at i:9468341 original size:25 final size:25
Alignment explanation
Indices: 9468305--9468355 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
9468295 TGAAAGCAAA
9468305 AGTTGCACCAGAAACTATAGTTTTT
1 AGTTGCACCAGAAACTATAGTTTTT
*
9468330 AGTTGCATCAGAAACTATAGTTTTT
1 AGTTGCACCAGAAACTATAGTTTTT
9468355 A
1 A
9468356 TTAGTGAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (25 bp):
AGTTGCACCAGAAACTATAGTTTTT
Found at i:9485759 original size:6 final size:6
Alignment explanation
Indices: 9485741--9485790 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
9485731 CATTTAACCA
* * *
9485741 ATCTAT ATTTAT ATCTAT ACTATAT ATCTAT ATCTAT ATTTAT A-CTAT
1 ATCTAT ATCTAT ATCTAT A-TCTAT ATCTAT ATCTAT ATCTAT ATCTAT
9485789 AT
1 AT
9485791 ATGAAAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.75
7 5 0.14
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (6 bp):
ATCTAT
Found at i:9485772 original size:19 final size:18
Alignment explanation
Indices: 9485744--9485790 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
9485734 TTAACCAATC
*
9485744 TATATTTATATCTATACTA
1 TATATCTATATCTATA-TA
*
9485763 TATATCTATATCTATATT
1 TATATCTATATCTATATA
9485781 TATA-CTATAT
1 TATATCTATAT
9485791 ATGAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 6 0.23
18 5 0.19
19 15 0.58
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATCTATATCTATATA
Found at i:9485778 original size:25 final size:25
Alignment explanation
Indices: 9485741--9485792 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
9485731 CATTTAACCA
*
9485741 ATCTATATTTATATCTATACTATAT
1 ATCTATATCTATATCTATACTATAT
*
9485766 ATCTATATCTATATTTATACTATAT
1 ATCTATATCTATATCTATACTATAT
9485791 AT
1 AT
9485793 GAAAATAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.52
Consensus pattern (25 bp):
ATCTATATCTATATCTATACTATAT
Found at i:9489022 original size:18 final size:18
Alignment explanation
Indices: 9488999--9489040 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
9488989 TTTGAAATAA
9488999 TACTATTTTAATAATTTT
1 TACTATTTTAATAATTTT
9489017 TACTATTTTAATAATTTT
1 TACTATTTTAATAATTTT
*
9489035 AACTAT
1 TACTAT
9489041 AGGATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TACTATTTTAATAATTTT
Found at i:9489782 original size:15 final size:15
Alignment explanation
Indices: 9489762--9489798 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
9489752 CTAAATTTAC
*
9489762 TGTTTATGAAGTTTG
1 TGTTTATGAAATTTG
9489777 TGTTTATGAAATTTG
1 TGTTTATGAAATTTG
9489792 TGTTTAT
1 TGTTTAT
9489799 AAACTATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (15 bp):
TGTTTATGAAATTTG
Found at i:9490639 original size:63 final size:61
Alignment explanation
Indices: 9490509--9490679 Score: 143
Period size: 63 Copynumber: 2.8 Consensus size: 61
9490499 TTTATAAGGT
* * * *** *
9490509 GATTATTTAAGACGTTTTTACCAAAAATACCTTGAATAATCTCTTTTAATTTTTTATTAGA
1 GATTATTCAAGAAGTTTTTACCAAAAATACCTTGAATAATCTCTTTAAAAAATTTAATAGA
9490570 GATTATTCAAGAAGTTTTTACTCAGAAAATACCTTGAATAATC-CTTTACAAAAAATTTAATA-A
1 GATTATTCAAGAAGTTTTTAC-CA-AAAATACCTTGAATAATCTCTTT--AAAAAATTTAATAGA
* * * * *
9490633 GGTTATTGAAGGTA-TTTTTGACCAAAAATATC-TGTAATAATCCCTTT
1 GATTATTCAA-GAAGTTTTT-ACCAAAAATACCTTG-AATAATCTCTTT
9490680 TAATTTTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
61 21 0.23
62 20 0.22
63 38 0.42
64 12 0.13
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (61 bp):
GATTATTCAAGAAGTTTTTACCAAAAATACCTTGAATAATCTCTTTAAAAAATTTAATAGA
Found at i:9491953 original size:2 final size:2
Alignment explanation
Indices: 9491946--9491971 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9491936 GTACCGATTA
9491946 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
9491972 GAAAGCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9495418 original size:36 final size:38
Alignment explanation
Indices: 9495354--9495427 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 38
9495344 TTCAAATCCA
*
9495354 TATCTTTTTCAAGGCTTAAGATAGCAACCTCTCATTTCC
1 TATCTTTTT-AAGGCTTAAGATAGCAACCTCTAATTTCC
*
9495393 TATCTTTTT-AGGC-TAAGATATCAACCTCTAATTTC
1 TATCTTTTTAAGGCTTAAGATAGCAACCTCTAATTTC
9495428 TTACCTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 20 0.61
37 4 0.12
39 9 0.27
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (38 bp):
TATCTTTTTAAGGCTTAAGATAGCAACCTCTAATTTCC
Found at i:9498403 original size:10 final size:10
Alignment explanation
Indices: 9498388--9498432 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
9498378 TTAAAAATCA
9498388 TAAATCAAAT
1 TAAATCAAAT
9498398 TAAATC-AAT
1 TAAATCAAAT
* *
9498407 AAAATTAAAT
1 TAAATCAAAT
9498417 TCAAATCAAAT
1 T-AAATCAAAT
9498428 TAAAT
1 TAAAT
9498433 TATATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 7 0.24
10 13 0.45
11 9 0.31
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAATCAAAT
Found at i:9500014 original size:8 final size:8
Alignment explanation
Indices: 9500001--9500030 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9499991 ATTTCATTGT
9500001 TTTTTTTC
1 TTTTTTTC
9500009 TTTTTTTC
1 TTTTTTTC
9500017 TTTTTTT-
1 TTTTTTTC
9500024 TTTTTTT
1 TTTTTTT
9500031 AACTTTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTTC
Found at i:9500022 original size:16 final size:15
Alignment explanation
Indices: 9500001--9500030 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
9499991 ATTTCATTGT
9500001 TTTTTTTCTTTTTTTC
1 TTTTTTT-TTTTTTTC
9500017 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
9500031 AACTTTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:9502459 original size:55 final size:55
Alignment explanation
Indices: 9502375--9502485 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
9502365 AAAACATAGC
9502375 AATCATACATAAAGCATAACAAGCAAATTAGCTACTAACAAATGAACAAATAAAT
1 AATCATACATAAAGCATAACAAGCAAATTAGCTACTAACAAATGAACAAATAAAT
* *
9502430 AATCATACATAAAGCATAACAAGCAAATTAGCTAGTAACAAATGATCAAATAAAT
1 AATCATACATAAAGCATAACAAGCAAATTAGCTACTAACAAATGAACAAATAAAT
9502485 A
1 A
9502486 TGTACAGGTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.56, C:0.15, G:0.08, T:0.21
Consensus pattern (55 bp):
AATCATACATAAAGCATAACAAGCAAATTAGCTACTAACAAATGAACAAATAAAT
Found at i:9503647 original size:27 final size:26
Alignment explanation
Indices: 9503587--9503651 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
9503577 TAAAATTTTC
* *
9503587 ATTTAT-TATAAAAAATTCAAATCGAA
1 ATTTATAT-TAAAAAATACAAATCAAA
9503613 ATCGTTATATTAAAAAATAACAAATCAAA
1 AT--TTATATTAAAAAAT-ACAAATCAAA
9503642 ATTTATATTA
1 ATTTATATTA
9503652 CCTAGAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 2 0.06
27 8 0.24
28 12 0.36
29 11 0.33
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (26 bp):
ATTTATATTAAAAAATACAAATCAAA
Found at i:9506870 original size:15 final size:15
Alignment explanation
Indices: 9506817--9506867 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
9506807 AAAATTTTTT
* *
9506817 ATTAAAAATAATTAA
1 ATTAAAATTAAATAA
9506832 ATTAAAATTAAATAA
1 ATTAAAATTAAATAA
*
9506847 ATTAAAATT-GATAA
1 ATTAAAATTAAATAA
9506861 ATTAAAA
1 ATTAAAA
9506868 ATTTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
ATTAAAATTAAATAA
Found at i:9507005 original size:24 final size:24
Alignment explanation
Indices: 9506961--9507010 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
9506951 TTATATTAAA
*
9506961 TTTTATTAATTTATTGATTTAAAAT
1 TTTTATTAAATTATT-ATTTAAAAT
9506986 TTTTATTAAATTA-TATTTTAAAAT
1 TTTTATTAAATTATTA-TTTAAAAT
9507010 T
1 T
9507011 CATAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 10 0.43
25 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTATTAAATTATTATTTAAAAT
Found at i:9510259 original size:25 final size:26
Alignment explanation
Indices: 9510225--9510276 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
9510215 AATTTAACAT
*
9510225 AATAAATAAATTTTATTA-ATAATAA
1 AATAAATAAAATTTATTATATAATAA
*
9510250 AATAAATAAAATTTATTATGTAATAA
1 AATAAATAAAATTTATTATATAATAA
9510276 A
1 A
9510277 CTTTTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
AATAAATAAAATTTATTATATAATAA
Found at i:9515884 original size:15 final size:16
Alignment explanation
Indices: 9515864--9515900 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
9515854 ACAACAAAAT
*
9515864 AAAAAATTT-TAATTA
1 AAAAAATTTACAATTA
9515879 AAAAAATTTACAATTA
1 AAAAAATTTACAATTA
9515895 AAAAAA
1 AAAAAA
9515901 AAAACTCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAAATTTACAATTA
Found at i:9523875 original size:3 final size:3
Alignment explanation
Indices: 9523867--9523894 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9523857 AGACGAAGGT
9523867 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
9523895 GAGGTGCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9526392 original size:203 final size:203
Alignment explanation
Indices: 9526043--9526446 Score: 781
Period size: 203 Copynumber: 2.0 Consensus size: 203
9526033 GCCGAAATCT
*
9526043 CCGGCATGACAACCTTGAACAATCTAAAATCATGAAGAACTCCACAAAGCTGCTTTAGAAAAACC
1 CCGGCATGACAACCTTGAACAATCTAAAACCATGAAGAACTCCACAAAGCTGCTTTAGAAAAACC
9526108 TAACCCAAAGTGGGTTTATTAGCAGATTTTATTGTACAAATAGGCTCAACAAAGCCACACTTTGT
66 TAACCCAAAGTGGGTTTATTAGCAGATTTTATTGTACAAATAGGCTCAACAAAGCCACACTTTGT
*
9526173 ATTCCAGAATTAGCCCTTTGGGAAGCCCTGACAAAAGCGTCGAGGCTGAGCTTGAAGACTGGCTC
131 ATTCCAGAATTAGCCCTTTGGGAAGCCCTGACAAAAGCGTCGAGGCAGAGCTTGAAGACTGGCTC
9526238 AAAAATAC
196 AAAAATAC
*
9526246 CCGGCATGACAACCTTGAACAATCTAAAACCATGAAGAACTCGACAAAGCTGCTTTAGAAAAACC
1 CCGGCATGACAACCTTGAACAATCTAAAACCATGAAGAACTCCACAAAGCTGCTTTAGAAAAACC
9526311 TAACCCAAAGTGGGTTTATTAGCAGATTTTATTGTACAAATAGGCTCAACAAAGCCACACTTTGT
66 TAACCCAAAGTGGGTTTATTAGCAGATTTTATTGTACAAATAGGCTCAACAAAGCCACACTTTGT
9526376 ATTCCAGAATTAGCCCTTTGGGAAGCCCTGACAAAAGCGTCGAGGCAGAGCTTGAAGACTGGCTC
131 ATTCCAGAATTAGCCCTTTGGGAAGCCCTGACAAAAGCGTCGAGGCAGAGCTTGAAGACTGGCTC
9526441 AAAAAT
196 AAAAAT
9526447 GGGAACAGAA
Statistics
Matches: 198, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
203 198 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (203 bp):
CCGGCATGACAACCTTGAACAATCTAAAACCATGAAGAACTCCACAAAGCTGCTTTAGAAAAACC
TAACCCAAAGTGGGTTTATTAGCAGATTTTATTGTACAAATAGGCTCAACAAAGCCACACTTTGT
ATTCCAGAATTAGCCCTTTGGGAAGCCCTGACAAAAGCGTCGAGGCAGAGCTTGAAGACTGGCTC
AAAAATAC
Found at i:9532425 original size:16 final size:18
Alignment explanation
Indices: 9532404--9532445 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
9532394 GGTTTACCGA
9532404 TTTTTAATTTT-TA-ATT
1 TTTTTAATTTTATATATT
9532420 TTTTTAATTTTATATATT
1 TTTTTAATTTTATATATT
*
9532438 ATTTTAAT
1 TTTTTAAT
9532446 ATAAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.48
17 2 0.09
18 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTTATATATT
Found at i:9551579 original size:20 final size:21
Alignment explanation
Indices: 9551551--9551597 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
9551541 TTTTAATTAT
*
9551551 AATACATAAAATTAAATTAA-A
1 AATA-ATAAAATAAAATTAATA
9551572 AATAATAAAATAAAATTAATA
1 AATAATAAAATAAAATTAATA
9551593 AATAA
1 AATAA
9551598 CAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAATAAAATAAAATTAATA
Found at i:9552200 original size:19 final size:18
Alignment explanation
Indices: 9552158--9552202 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
9552148 ATGTTAAATT
9552158 AATAAA-TATATTTTTATA
1 AATAAATTA-ATTTTTATA
*
9552176 AGTAAATTAATTTTTATA
1 AATAAATTAATTTTTATA
9552194 ATATAAATT
1 A-ATAAATT
9552203 TTTAAAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATAAATTAATTTTTATA
Found at i:9556265 original size:16 final size:16
Alignment explanation
Indices: 9556244--9556274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9556234 CTTTAATTTC
*
9556244 TAATTCAATCAAATAT
1 TAATTCAATAAAATAT
9556260 TAATTCAATAAAATA
1 TAATTCAATAAAATA
9556275 CTATAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATTCAATAAAATAT
Found at i:9561119 original size:21 final size:21
Alignment explanation
Indices: 9561082--9561121 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9561072 ATTTGTTTTG
9561082 ATAAGAAAAATGAGGCAACTT
1 ATAAGAAAAATGAGGCAACTT
*
9561103 ATAACGAAGAATG-GGCAAC
1 ATAA-GAAAAATGAGGCAAC
9561122 ATTCTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.15
Consensus pattern (21 bp):
ATAAGAAAAATGAGGCAACTT
Found at i:9572394 original size:15 final size:15
Alignment explanation
Indices: 9572374--9572405 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9572364 TTTTAATCCC
9572374 AAAAAAGAGAAAGAAA
1 AAAAAAGA-AAAGAAA
9572390 AAAAAAGAAAAGAAA
1 AAAAAAGAAAAGAAA
9572405 A
1 A
9572406 GACCCAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAA
Found at i:9572881 original size:1 final size:1
Alignment explanation
Indices: 9572875--9572904 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
9572865 TTTGATGCAT
*
9572875 AAAAAAAAAAAAAAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9572905 GAGAAGATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:9572897 original size:14 final size:14
Alignment explanation
Indices: 9572875--9572909 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9572865 TTTGATGCAT
9572875 AAAAA-AAAAAAAA
1 AAAAAGAAAAAAAA
9572888 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
*
9572902 AAAGAGAA
1 AAAAAGAA
9572910 GATACTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:9572905 original size:12 final size:12
Alignment explanation
Indices: 9572875--9572906 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
9572865 TTTGATGCAT
9572875 AAAAAAA-AAAA
1 AAAAAAAGAAAA
9572886 AAAAAAAGAAAA
1 AAAAAAAGAAAA
9572898 AAAAAAAGA
1 AAAAAAAGA
9572907 GAAGATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:9574553 original size:58 final size:58
Alignment explanation
Indices: 9574463--9574579 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
9574453 AAGTGATGAC
9574463 TTCAACAGTTTCTAAAACCTAATGATTCCTAGATAGAGGATACAGAAAAGCATTTAGA
1 TTCAACAGTTTCTAAAACCTAATGATTCCTAGATAGAGGATACAGAAAAGCATTTAGA
* * *
9574521 TTCAACAGTTTCTAAAACCTGATGATTCCTAGATGGAGGATACAGAAAAGCGTTTAGA
1 TTCAACAGTTTCTAAAACCTAATGATTCCTAGATAGAGGATACAGAAAAGCATTTAGA
9574579 T
1 T
9574580 ATGAAGTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (58 bp):
TTCAACAGTTTCTAAAACCTAATGATTCCTAGATAGAGGATACAGAAAAGCATTTAGA
Found at i:9577906 original size:20 final size:20
Alignment explanation
Indices: 9577877--9577930 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
9577867 TGATGTGATC
* *
9577877 ATTAATTTTATTGATATAAT
1 ATTAATTTTATTAACATAAT
* *
9577897 GTTGATTTTATTAACATAAT
1 ATTAATTTTATTAACATAAT
9577917 ATTAATTTTATTAA
1 ATTAATTTTATTAA
9577931 TTTGATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTAATTTTATTAACATAAT
Found at i:9578229 original size:20 final size:20
Alignment explanation
Indices: 9578189--9578230 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9578179 TTTTTGGAAA
*
9578189 TTTTTAAAATAAAATTTTAT
1 TTTTTAAAATAAAATTATAT
9578209 TTTTTAAAA-AAAATTAATAT
1 TTTTTAAAATAAAATT-ATAT
9578229 TT
1 TT
9578231 CAATTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTTAAAATAAAATTATAT
Found at i:9578643 original size:21 final size:21
Alignment explanation
Indices: 9578619--9578667 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9578609 AATAACATAA
* * *
9578619 AAAAATATGTAAATTTTTTTT
1 AAAAATATATAAACTCTTTTT
*
9578640 AAAAATTTATAAACTCTTTTT
1 AAAAATATATAAACTCTTTTT
9578661 AAAAATA
1 AAAAATA
9578668 CAAAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (21 bp):
AAAAATATATAAACTCTTTTT
Found at i:9578703 original size:30 final size:30
Alignment explanation
Indices: 9578669--9578733 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
9578659 TTAAAAATAC
*
9578669 AAAAAA-TAAAAAATATATAAAATATTTATTA
1 AAAAAATTAAAAAATATAGAAAAT-TTTA-TA
*
9578700 AAAAAATTATAAAATATAGAAAATTTTATA
1 AAAAAATTAAAAAATATAGAAAATTTTATA
9578730 AAAA
1 AAAA
9578734 TTTTAAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 6 0.19
31 10 0.32
32 15 0.48
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAAATTAAAAAATATAGAAAATTTTATA
Found at i:9579811 original size:11 final size:11
Alignment explanation
Indices: 9579778--9579811 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9579768 TGAACCTTTC
9579778 GTTTTTCTTTTT
1 GTTTTT-TTTTT
*
9579790 GTTTTTGTTTT
1 GTTTTTTTTTT
9579801 GTTTTTTTTTT
1 GTTTTTTTTTT
9579812 CAGTGAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:9581964 original size:21 final size:22
Alignment explanation
Indices: 9581940--9581991 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
9581930 TCTAAAATTA
9581940 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
9581961 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
9581983 AT-AAATATT
1 ATAAAATATT
9581992 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:9582002 original size:16 final size:16
Alignment explanation
Indices: 9581975--9582013 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9581965 AATATTATTT
9581975 TTTAAA-ATATAAATA
1 TTTAAATATATAAATA
*
9581990 TTTAAATATATAATTA
1 TTTAAATATATAAATA
*
9582006 TATAAATA
1 TTTAAATA
9582014 AAAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:9582692 original size:6 final size:6
Alignment explanation
Indices: 9582681--9582718 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
9582671 ATATTATTTT
*
9582681 TAAATA TAAATA TAAA-A T-TATA TAAATA TAAATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
9582719 ATTAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
4 1 0.04
5 4 0.14
6 23 0.82
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAATA
Found at i:9582706 original size:22 final size:22
Alignment explanation
Indices: 9582681--9582727 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9582671 ATATTATTTT
*
9582681 TAAATATAAATATAAAATTATA
1 TAAATATAAATATAAAATTAAA
9582703 TAAATATAAATATAAAATTAAA
1 TAAATATAAATATAAAATTAAA
9582725 TAA
1 TAA
9582728 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAATATAAATATAAAATTAAA
Found at i:9582727 original size:16 final size:17
Alignment explanation
Indices: 9582681--9582718 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
9582671 ATATTATTTT
9582681 TAAATATAAATATAAAA
1 TAAATATAAATATAAAA
*
9582698 T-TATATAAATATAAATA
1 TAAATATAAATATAAA-A
9582715 TAAA
1 TAAA
9582719 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 3
0.77 0.09 0.14
Matches are distributed among these distances:
16 13 0.76
17 3 0.18
18 1 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATATAAATATAAAA
Found at i:9585111 original size:34 final size:34
Alignment explanation
Indices: 9585068--9585134 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
9585058 TGTCAAGCTT
9585068 GCAATGTATTTTTAAAAATTAAAAAATAATAAAA
1 GCAATGTATTTTTAAAAATTAAAAAATAATAAAA
9585102 GCAATGTATTTTTAAAAATTAAAAAATAATAAA
1 GCAATGTATTTTTAAAAATTAAAAAATAATAAA
9585135 GGTATAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (34 bp):
GCAATGTATTTTTAAAAATTAAAAAATAATAAAA
Found at i:9592095 original size:3 final size:3
Alignment explanation
Indices: 9592087--9592116 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9592077 TGAGGTCAGT
9592087 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
9592117 AAGTTTGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:9593291 original size:28 final size:28
Alignment explanation
Indices: 9593249--9593302 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
9593239 GAATAGAGCA
9593249 TTCCTATTTGCTGGATGACAAGTATAGT
1 TTCCTATTTGCTGGATGACAAGTATAGT
*
9593277 TTCCTATTTGGTGGATGACAAGTATA
1 TTCCTATTTGCTGGATGACAAGTATA
9593303 CTTTAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (28 bp):
TTCCTATTTGCTGGATGACAAGTATAGT
Found at i:9593367 original size:11 final size:11
Alignment explanation
Indices: 9593351--9593390 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
9593341 AATCCCATAA
9593351 GAGATTTGTTT
1 GAGATTTGTTT
*
9593362 GAGATTTGTTA
1 GAGATTTGTTT
9593373 GAGATTTGTTT
1 GAGATTTGTTT
*
9593384 GGGATTT
1 GAGATTT
9593391 ATCAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:9593505 original size:52 final size:52
Alignment explanation
Indices: 9593449--9593573 Score: 169
Period size: 52 Copynumber: 2.4 Consensus size: 52
9593439 AGAGAAAGAA
**
9593449 GATTCTTAATAGGTAAGTTTGACTTGTAAGAGAAGAATTCTAAAAGGAAAGG
1 GATTCTTAATAGGTAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGG
* * * *
9593501 GATTCTTAATAGGTAAGTTTGACTTACAGGAGAAGAATTCTAAGAGGAGATG
1 GATTCTTAATAGGTAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGG
* * *
9593553 GATTTTTAATGGGCAAGTTTG
1 GATTCTTAATAGGTAAGTTTG
9593574 TATGGTTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (52 bp):
GATTCTTAATAGGTAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGG
Found at i:9593791 original size:139 final size:139
Alignment explanation
Indices: 9593541--9593820 Score: 515
Period size: 139 Copynumber: 2.0 Consensus size: 139
9593531 AGAAGAATTC
* * *
9593541 TAAGAGGAGATGGATTTTTAATGGGCAAGTTTGTATGGTTATAAATAGGTGAAGTCTCTACAGGG
1 TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
*
9593606 TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTGTGGGATAGACACCCCATAGGAGTA
66 TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTATGGGATAGACACCCCATAGGAGTA
9593671 TTGGGGCTT
131 TTGGGGCTT
9593680 TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
1 TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
*
9593745 TTAGTTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTATGGGATAGACACCCCATAGGAGTA
66 TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTATGGGATAGACACCCCATAGGAGTA
9593810 TTGGGGCTT
131 TTGGGGCTT
9593819 TA
1 TA
9593821 CGTCTTATGG
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.30
Consensus pattern (139 bp):
TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTATGGGATAGACACCCCATAGGAGTA
TTGGGGCTT
Found at i:9594169 original size:25 final size:23
Alignment explanation
Indices: 9594140--9594221 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 23
9594130 TAAAACGTAA
*
9594140 GAAGAGTTGAAGATTCAAGATGTG
1 GAAGAGTTGAAG-TTCGAGATGTG
** *
9594164 GAAAGAGCCGAAGGTTCGAGACGTG
1 G-AAGAGTTGAA-GTTCGAGATGTG
*
9594189 GAAGAGTTGACAGTTCGAGATATGG
1 GAAGAGTTGA-AGTTCGAGATGT-G
9594214 GAAGAGTT
1 GAAGAGTT
9594222 TGGTTTGAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
24 17 0.37
25 28 0.61
26 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.37, T:0.21
Consensus pattern (23 bp):
GAAGAGTTGAAGTTCGAGATGTG
Found at i:9594468 original size:11 final size:11
Alignment explanation
Indices: 9594452--9594491 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
9594442 AATCCCATAA
9594452 GAGATTTGTTT
1 GAGATTTGTTT
*
9594463 GAGATTTGTTA
1 GAGATTTGTTT
9594474 GAGATTTGTTT
1 GAGATTTGTTT
9594485 GAGATTT
1 GAGATTT
9594492 ATCAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:9594605 original size:52 final size:52
Alignment explanation
Indices: 9594518--9594674 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
9594508 TGGACAAGAA
* *
9594518 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGTAAGTTT
* * *
9594570 GACTTGTAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
* * * * *
9594622 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTTTTAATGGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
9594674 G
1 G
9594675 CATGGTTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 86 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:9594892 original size:139 final size:139
Alignment explanation
Indices: 9594642--9594921 Score: 533
Period size: 139 Copynumber: 2.0 Consensus size: 139
9594632 AGAAGAATTC
* *
9594642 TAAGAGGAGAGGGATTTTTAATGGGTAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
1 TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
9594707 TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTGTGGGATAGACACCCCATAGGAGTA
66 TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTGTGGGATAGACACCCCATAGGAGTA
9594772 TTGGGGCTT
131 TTGGGGCTT
9594781 TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
1 TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
*
9594846 TTAGGTATGAGAAAAAGATGTAAGGGAGTTGTAGGGTTTTGTGGGATAGACACCCCATAGGAGTA
66 TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTGTGGGATAGACACCCCATAGGAGTA
9594911 TTGGGGCTT
131 TTGGGGCTT
9594920 TA
1 TA
9594922 CGTCTTATGG
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 138 1.00
ACGTcount: A:0.30, C:0.08, G:0.33, T:0.29
Consensus pattern (139 bp):
TAAGAGGAGAGGGATTCTTAATGGGCAAGTTTGCATGGTTATAAATAGGTGAAGTCTCTACAGGG
TTAGGTATGAGAAAAAGATGTAAGAGAGTTGTAGGGTTTTGTGGGATAGACACCCCATAGGAGTA
TTGGGGCTT
Found at i:9614135 original size:18 final size:18
Alignment explanation
Indices: 9614112--9614146 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9614102 TTTTTTTAAA
*
9614112 AAAATTATTATTATTATT
1 AAAATTATTAATATTATT
9614130 AAAATTATTAATATTAT
1 AAAATTATTAATATTAT
9614147 ACTGAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATTATTAATATTATT
Found at i:9614676 original size:133 final size:134
Alignment explanation
Indices: 9614510--9614758 Score: 392
Period size: 134 Copynumber: 1.9 Consensus size: 134
9614500 TGCTCGGAGG
* * *
9614510 TCTTATAGAATCATGTCTGAAGGTCTTACAGAATCGACT-GGATAACACCATAAGTCAAAAGATA
1 TCTTACAGAATCATGTCCGAAGGTCTTACAGAATCGACTAGGATAACACCACAAGTCAAAAGATA
* *
9614574 AAGAATTGATCAGAATAACATCGCGAATCAAAATTATACCCGAAGGTCTTACAAAATTGATCTCA
66 AAGAATTGATCAGAATAACACCGCAAATCAAAATTATACCCGAAGGTCTTACAAAATTGATCTCA
9614639 GAGA
131 GAGA
*
9614643 TCTTACAGAATCATGTCCGAAGGTTTTACAGAATCGACTAGGATAACACCACAAGTCAAAAGATA
1 TCTTACAGAATCATGTCCGAAGGTCTTACAGAATCGACTAGGATAACACCACAAGTCAAAAGATA
* * * * *
9614708 AAGAATTGATCGGAATAACACCGTAAATCAAAATTATGCTCGGAGGTCTTA
66 AAGAATTGATCAGAATAACACCGCAAATCAAAATTATACCCGAAGGTCTTA
9614759 GAAATCATGC
Statistics
Matches: 104, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
133 36 0.35
134 68 0.65
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (134 bp):
TCTTACAGAATCATGTCCGAAGGTCTTACAGAATCGACTAGGATAACACCACAAGTCAAAAGATA
AAGAATTGATCAGAATAACACCGCAAATCAAAATTATACCCGAAGGTCTTACAAAATTGATCTCA
GAGA
Found at i:9614768 original size:22 final size:22
Alignment explanation
Indices: 9614738--9614785 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9614728 CCGTAAATCA
* * *
9614738 AAATTATGCTCGGAGGTCTTAG
1 AAATCATGCCCGGAGGTCTTAC
9614760 AAATCATGCCCGGAGGTCTTAC
1 AAATCATGCCCGGAGGTCTTAC
9614782 AAAT
1 AAAT
9614786 TGATCTGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (22 bp):
AAATCATGCCCGGAGGTCTTAC
Found at i:9614834 original size:108 final size:108
Alignment explanation
Indices: 9614625--9614894 Score: 310
Period size: 108 Copynumber: 2.5 Consensus size: 108
9614615 GAAGGTCTTA
* * * * * *
9614625 CAAAATTGATCTCAGAGATCTTACAGAATCATGTCCGAAGGTTTTACAGAATCGACTAGGATAAC
1 CAAAATT-ATCTCGGAGGTCTTAGA-AATCATGCCCGGAGGTCTTACA-AATCGACTAGGATAAC
*
9614690 ACCACAAGTCAAAAGATAAAGAATTGATCGGAATAACACCGTAAAT
63 ACCACAAGTCAAAAGATAAAGAATCGATCGGAATAACACCGTAAAT
*
9614736 CAAAATTATGCTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATTGATCT-GGATAACA
1 CAAAATTAT-CTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATCGA-CTAGGATAACA
** * * *
9614800 CCGTAAGTCAAAA-ATAAAGAATCGATCGGGATAACATCGTGAAT
64 CCACAAGTCAAAAGATAAAGAATCGATCGGAATAACACCGTAAAT
* * * * *
9614844 CAAAATTATATCCGGAGGCCTTAGAAATCATGCTCGGAGATCTTAGAAATC
1 CAAAATTATCT-CGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATC
9614895 ATGTCCGGAG
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
107 1 0.01
108 70 0.51
109 24 0.18
110 23 0.17
111 19 0.14
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (108 bp):
CAAAATTATCTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATCGACTAGGATAACACC
ACAAGTCAAAAGATAAAGAATCGATCGGAATAACACCGTAAAT
Found at i:9614881 original size:22 final size:22
Alignment explanation
Indices: 9614854--9614910 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
9614844 CAAAATTATA
*
9614854 TCCGGAGGCCTTAGAAATCATG
1 TCCGGAGGTCTTAGAAATCATG
*
9614876 -CTCGGAGATCTTAGAAATCATG
1 TC-CGGAGGTCTTAGAAATCATG
9614898 TCCGGAGGTCTTA
1 TCCGGAGGTCTTA
9614911 CAGAATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (22 bp):
TCCGGAGGTCTTAGAAATCATG
Found at i:9614993 original size:132 final size:130
Alignment explanation
Indices: 9614737--9614975 Score: 345
Period size: 130 Copynumber: 1.8 Consensus size: 130
9614727 ACCGTAAATC
* * *
9614737 AAAATTATGCTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATTGATCTGGATAACACC
1 AAAATCATGCTCGGAGATCTTAGAAATCATGCCCGGAGGTCTTACAAATCGATCTGGATAACACC
** * * *
9614802 GTAAGTCAAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATATCCGGAGGCCTTA
66 ACAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCGAATCAAAATTATATCCGGAGGCCTTA
* *
9614867 GAAATCATGCTCGGAGATCTTAGAAATCATGTCCGGAGGTCTTACAGAATCGAT-TAGGATAACA
1 AAAATCATGCTCGGAGATCTTAGAAATCATGCCCGGAGGTCTTACA-AATCGATCT-GGATAACA
*
9614931 TCACAAGTCAAAAAATAAAAAATCGATCGAGATAACATCGCGAAT
64 CCACAAGTC-AAAAATAAAAAATCGATCGAGATAACATCGCGAAT
9614976 TGAGATTATG
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
130 43 0.45
131 20 0.21
132 32 0.34
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (130 bp):
AAAATCATGCTCGGAGATCTTAGAAATCATGCCCGGAGGTCTTACAAATCGATCTGGATAACACC
ACAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCGAATCAAAATTATATCCGGAGGCCTTA
Found at i:9615020 original size:132 final size:130
Alignment explanation
Indices: 9614737--9615020 Score: 349
Period size: 132 Copynumber: 2.2 Consensus size: 130
9614727 ACCGTAAATC
*
9614737 AAAATTATGCTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATTGATCTGGATAACACC
1 AAAATTATGCTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATCGATCTGGATAACACC
** * * *
9614802 GTAAGTCAAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATATCCGGAGGCCTTA
66 ACAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCGAATCAAAATTATATCCGGAGGCCTTA
* * * *
9614867 GAAATCATGCTCGGAGATCTTAGAAATCATGTCCGGAGGTCTTACAGAATCGAT-TAGGATAACA
1 AAAATTATGCTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACA-AATCGATCT-GGATAACA
* ** * * *
9614931 TCACAAGTCAAAAAATAAAAAATCGATCGAGATAACATCGCGAATTGAGATTAT-GCTCGGAGGT
64 CCACAAGTC-AAAAATAAAAAATCGATCGAGATAACATCGCGAATCAAAATTATATC-CGGAGGC
9614995 CTTA
127 CTTA
*
9614999 AAAATTATG-TCTGAAGGTCTTA
1 AAAATTATGCTC-GGAGGTCTTA
9615021 CAGAATTGAT
Statistics
Matches: 129, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
130 43 0.33
131 23 0.18
132 63 0.49
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (130 bp):
AAAATTATGCTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAATCGATCTGGATAACACC
ACAAGTCAAAAATAAAAAATCGATCGAGATAACATCGCGAATCAAAATTATATCCGGAGGCCTTA
Found at i:9615113 original size:109 final size:110
Alignment explanation
Indices: 9614880--9615117 Score: 255
Period size: 109 Copynumber: 2.2 Consensus size: 110
9614870 ATCATGCTCG
* * *
9614880 GAGATCTTAGAAATCATGTCCGGAGGTCTTACAGAATCGATTAGGATAACATCACAAGTCAAAAA
1 GAGATCTTAGAAATTATGTCCGAAGGTCTTACAGAATCGATTAGGATAACACCACAAGTCAAAAA
* * ** * * *
9614945 ATAAAAAATCGATCGAGATAACATCGCGAATTGAGATTATGCTCG
66 ATAAAAAATCGATCGAGATAACACCGCAAATCAAAATTATGCCCA
* * * * * * *
9614990 GAGGTCTTAAAAATTATGTCTGAAGGTCTTACAGAATTGA-TCGGCATAACACCGCAAGTC-AGA
1 GAGATCTTAGAAATTATGTCCGAAGGTCTTACAGAATCGATTAGG-ATAACACCACAAGTCAAAA
* * * *
9615053 AATAAAGAATCGATTGGGATAACACCGTAAATCAAAATTATGCCCA
65 AATAAAAAATCGATCGAGATAACACCGCAAATCAAAATTATGCCCA
*
9615099 GAGACCTTAGAAATTATGT
1 GAGATCTTAGAAATTATGT
9615118 GAGGTCTTAG
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
109 56 0.54
110 47 0.46
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (110 bp):
GAGATCTTAGAAATTATGTCCGAAGGTCTTACAGAATCGATTAGGATAACACCACAAGTCAAAAA
ATAAAAAATCGATCGAGATAACACCGCAAATCAAAATTATGCCCA
Found at i:9615282 original size:216 final size:218
Alignment explanation
Indices: 9614999--9615455 Score: 616
Period size: 219 Copynumber: 2.1 Consensus size: 218
9614989 GGAGGTCTTA
* * *
9614999 AAAATTATGTCTGAAGGTCTTACAGAATTGATCGGCATAACACCGCAAGTCAGAAATAAAGAATC
1 AAAATTATGTCCGAAGGTCTTACAGAATTGACCGGCATAACACCGCAAGTCAAAAATAAAGAATC
* ** * *
9615064 GATTGGGATAACACCGTAAATCAAAATTATGCCCAGAGACCTTAGAAATTATG-T-GAGGTCTTA
66 GATCGGGATAACACCACAAATCAAAATTATACCCAGAGACCTTAGAAATCATGCTCGAGGTCTTA
* * *
9615127 GAAATCATG-TCCGGAGGTCTTACAAAATCTACTGGGATAACACCACAAGTCGAAAGATAAAGAA
131 GAAATCATGCT-CAGAGGTCTTACAAAATCGACTGGGATAACACCACAAGTCGAAAGATAAAAAA
* *
9615191 TCGATCGAGATAATATCGTGAATC
195 TCGATCGAGATAACATCGTAAATC
* * * *
9615215 AAAATTATGCCCGAAGATCTTATAGAATTGACCGAG-ATAACACCGCAAGTTAAAAATAAAGAAT
1 AAAATTATGTCCGAAGGTCTTACAGAATTGACCG-GCATAACACCGCAAGTCAAAAATAAAGAAT
* * *** **
9615279 CGATCGGGATAACACCACGAATTAAAATTATACTTGGAGGTCTTAGAAATCATGCTCGGAGGTCT
65 CGATCGGGATAACACCACAAATCAAAATTATACCCAGAGACCTTAGAAATCATGCTC-GAGGTCT
* *
9615344 TAGAAATCATGCTCAGAGGTCTTACAGAATCGATTGGGATAACACCACAAGTCGAAAGATAAAAA
129 TAGAAATCATGCTCAGAGGTCTTACAAAATCGACTGGGATAACACCACAAGTCGAAAGATAAAAA
*
9615409 ATCGATCGGGATAACATCGTAAATC
194 ATCGATCGAGATAACATCGTAAATC
9615434 AAAATTATGTCCGAAGGTCTTA
1 AAAATTATGTCCGAAGGTCTTA
9615456 GAAATCATGC
Statistics
Matches: 207, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
216 97 0.47
217 2 0.01
219 107 0.52
220 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.24
Consensus pattern (218 bp):
AAAATTATGTCCGAAGGTCTTACAGAATTGACCGGCATAACACCGCAAGTCAAAAATAAAGAATC
GATCGGGATAACACCACAAATCAAAATTATACCCAGAGACCTTAGAAATCATGCTCGAGGTCTTA
GAAATCATGCTCAGAGGTCTTACAAAATCGACTGGGATAACACCACAAGTCGAAAGATAAAAAAT
CGATCGAGATAACATCGTAAATC
Found at i:9615339 original size:22 final size:22
Alignment explanation
Indices: 9615314--9615367 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
9615304 AATTATACTT
9615314 GGAGGTCTTAGAAATCATGCTC
1 GGAGGTCTTAGAAATCATGCTC
9615336 GGAGGTCTTAGAAATCATGCTC
1 GGAGGTCTTAGAAATCATGCTC
*
9615358 AGAGGTCTTA
1 GGAGGTCTTA
9615368 CAGAATCGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (22 bp):
GGAGGTCTTAGAAATCATGCTC
Found at i:9615638 original size:22 final size:22
Alignment explanation
Indices: 9615582--9615651 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
9615572 TACCTAAAAA
*
9615582 TCTTGAAAGTTATGCCC-GAAG
1 TCTTGAAAGTTATGCCCGGAGG
* *
9615603 ACTTTAAAGATTATGCCCGGAGG
1 TCTTGAAAG-TTATGCCCGGAGG
*
9615626 TCTTGAAAGTTATGCTCGGAGG
1 TCTTGAAAGTTATGCCCGGAGG
9615648 TCTT
1 TCTT
9615652 ATAAATCTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 7 0.17
22 24 0.59
23 10 0.24
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (22 bp):
TCTTGAAAGTTATGCCCGGAGG
Found at i:9615839 original size:41 final size:41
Alignment explanation
Indices: 9615775--9615886 Score: 156
Period size: 41 Copynumber: 2.7 Consensus size: 41
9615765 AGGTCTTTTC
*
9615775 TGAGAAAGGTTCC-CTCTAAACAGAGGCTTTGAAATCTTGAT
1 TGAGAACGGTTCCTCT-TAAACAGAGGCTTTGAAATCTTGAT
*
9615816 TGA-AATTGGTTCCTCTTAAACAGAGGCTTTGAAATCTTGAT
1 TGAGAA-CGGTTCCTCTTAAACAGAGGCTTTGAAATCTTGAT
* *
9615857 TGAGAACGGTTCCTCTTAAATAGAGACTTT
1 TGAGAACGGTTCCTCTTAAACAGAGGCTTT
9615887 AAAACTTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
40 2 0.03
41 58 0.91
42 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (41 bp):
TGAGAACGGTTCCTCTTAAACAGAGGCTTTGAAATCTTGAT
Found at i:9625482 original size:21 final size:21
Alignment explanation
Indices: 9625455--9625499 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
9625445 TTTTTGTTTT
*
9625455 TTATATTTTTATATAATTAATAA
1 TTAT-TTTTTAAATAA-TAATAA
9625478 TTATTTTTTAAATAATAATAA
1 TTATTTTTTAAATAATAATAA
9625499 T
1 T
9625500 ATTATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTTTTTAAATAATAATAA
Found at i:9627503 original size:19 final size:19
Alignment explanation
Indices: 9627479--9627518 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
9627469 ACATCCTTAA
9627479 ATACTCATATAAAATAATT
1 ATACTCATATAAAATAATT
9627498 ATACTCATATAAAATAATT
1 ATACTCATATAAAATAATT
9627517 AT
1 AT
9627519 TTCTAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
ATACTCATATAAAATAATT
Found at i:9628076 original size:253 final size:252
Alignment explanation
Indices: 9627593--9628101 Score: 851
Period size: 253 Copynumber: 2.0 Consensus size: 252
9627583 AAAAAATCAC
* *
9627593 AATTATAATAAGAAAAAATGTTATAACAAAAACATGTATCATATAATAAGCAAATACTCACATAA
1 AATTATAATAAGAAAAAATGTTATAACAAAAACATGTAACACATAATAAGCAAATACTCACATAA
*
9627658 AATAATTATTTATAATAATAATTTTTCTTAAAATATATAAGATATATTAATAATATATAAAAAAA
66 AATAATTATTTATAATAATAATTTTTCTTAAAATATATAAAATATATTAATAATATATAAAAAAA
* * * *
9627723 TTTTAGGTGCAATATATAAAAAAAAATTCAAAATTATAATAAGAAAAAAATGTTATAATACGAAC
131 ATTTAGGTGCAACATATAAAAAAAAATTCAAAATTATAATAAGAAAAAAACGTTATAATAAGAAC
*
9627788 ATGTAACAAATAATAAGAAAAAATATTTTGTTGAAAAAAATGTTATTTATAATTGTG
196 ATGTAACAAATAATAAGAAAAAATATTTGGTTGAAAAAAATGTTATTTATAATTGTG
* *
9627845 AATTATAATAAGAAAAAATGTTATAATAAGAACATGTAACACATAATAAGCAAATACTCACATAA
1 AATTATAATAAGAAAAAATGTTATAACAAAAACATGTAACACATAATAAGCAAATACTCACATAA
*
9627910 AATAATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATATATTATTAATATATAAAAAA
66 AATAATTATTTATAATAATAA-TTTTTCTTAAAATATATAAAATATATTAATAATATAT-AAAAA
*
9627975 AAATTTATGTGCAACATATAAAAATAAAATTCAAAATTATAAT-A-AAAAAAACGTTATAATAAG
129 AAATTTAGGTGCAACATATAAAAA-AAAATTCAAAATTATAATAAGAAAAAAACGTTATAATAAG
* *
9628038 AACATGTAACATATAATAAGATAAAATATTTGGTTGAAAAAAATGTTATTTATAATTGTG
193 AACATGTAACAAATAATAAGAAAAAATATTTGGTTGAAAAAAATGTTATTTATAATTGTG
9628098 AATT
1 AATT
9628102 TTGTTTTTGT
Statistics
Matches: 240, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
252 82 0.34
253 113 0.47
254 27 0.11
255 18 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (252 bp):
AATTATAATAAGAAAAAATGTTATAACAAAAACATGTAACACATAATAAGCAAATACTCACATAA
AATAATTATTTATAATAATAATTTTTCTTAAAATATATAAAATATATTAATAATATATAAAAAAA
ATTTAGGTGCAACATATAAAAAAAAATTCAAAATTATAATAAGAAAAAAACGTTATAATAAGAAC
ATGTAACAAATAATAAGAAAAAATATTTGGTTGAAAAAAATGTTATTTATAATTGTG
Found at i:9629570 original size:21 final size:22
Alignment explanation
Indices: 9629531--9629571 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9629521 GATATATTTT
*
9629531 AATTTTAATTTTTTTAAAAAAA
1 AATTTTAATTTTTTGAAAAAAA
*
9629553 AATTTTTA-TTTTTGAAAAA
1 AATTTTAATTTTTTGAAAAA
9629572 TTGTTAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
AATTTTAATTTTTTGAAAAAAA
Found at i:9631332 original size:92 final size:92
Alignment explanation
Indices: 9631220--9631394 Score: 323
Period size: 92 Copynumber: 1.9 Consensus size: 92
9631210 TTACAATTAT
9631220 TGAACTAGTTAATTCTTCTTATCCTTAACCAATGACCAGAAATTCCTGGTTCAGATTCTAGAGCT
1 TGAACTAGTTAATTCTTCTTATCCTTAACCAATGACCAGAAATTCCTGGTTCAGATTCTAGAGCT
*
9631285 AGTCTGACCTTAGAAATTGGAACATAC
66 AGTCTGACCCTAGAAATTGGAACATAC
* *
9631312 TGAACTAGTTGATTCTTCTTATCCTTAACCAATGACCGGAAATTCCTGGTTCAGATTCTAGAGCT
1 TGAACTAGTTAATTCTTCTTATCCTTAACCAATGACCAGAAATTCCTGGTTCAGATTCTAGAGCT
9631377 AGTCTGACCCTAGAAATT
66 AGTCTGACCCTAGAAATT
9631395 ATTCTACCAT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (92 bp):
TGAACTAGTTAATTCTTCTTATCCTTAACCAATGACCAGAAATTCCTGGTTCAGATTCTAGAGCT
AGTCTGACCCTAGAAATTGGAACATAC
Found at i:9634646 original size:5 final size:5
Alignment explanation
Indices: 9634627--9634659 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
9634617 TTCCCAACAT
*
9634627 TTTTA TTTT- TATTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
9634660 GATAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:9634703 original size:18 final size:18
Alignment explanation
Indices: 9634664--9634710 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
9634654 TATTTTGATA
*
9634664 AAATAAAAAAAGTGAAAC
1 AAATAAAAAAAGTAAAAC
*
9634682 AAATAAATAAAA-TAAAAT
1 AAATAAA-AAAAGTAAAAC
9634700 AAATACAAAAA
1 AAATA-AAAAA
9634711 TTCAAAAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (18 bp):
AAATAAAAAAAGTAAAAC
Found at i:9635432 original size:16 final size:16
Alignment explanation
Indices: 9635411--9635498 Score: 85
Period size: 16 Copynumber: 5.6 Consensus size: 16
9635401 AAAATAAAAA
* *
9635411 AGATAAATATATTAAT
1 AGATAAATAAAATAAT
9635427 AGATAAA-AAAATAATT
1 AGATAAATAAAATAA-T
*
9635443 AGATAAATAAAAAAAT
1 AGATAAATAAAATAAT
9635459 AGATAAATAATAATAAT
1 AGATAAATAA-AATAAT
* *
9635476 A-AAAAAT-AAA-AGT
1 AGATAAATAAAATAAT
9635489 AGATAAATAA
1 AGATAAATAA
9635499 TAAAAATATT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.05
14 7 0.12
15 7 0.12
16 31 0.52
17 12 0.20
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (16 bp):
AGATAAATAAAATAAT
Found at i:9635440 original size:24 final size:24
Alignment explanation
Indices: 9635404--9635553 Score: 72
Period size: 20 Copynumber: 6.5 Consensus size: 24
9635394 ATTAATCAAA
9635404 ATAAAAAAGATAAATATATTAATAG
1 ATAAAAAA-ATAAATATATTAATAG
* *
9635429 ATAAAAAAAT-AAT-TA--GATAA
1 ATAAAAAAATAAATATATTAATAG
* *
9635449 ATAAAAAAATAGATA-AATAATA-
1 ATAAAAAAATAAATATATTAATAG
*
9635471 AT-AATAAA-AAATA-A--AAGTAG
1 ATAAAAAAATAAATATATTAA-TAG
* *
9635491 AT-AAATAATAAAAATATTAATAG
1 ATAAAAAAATAAATATATTAATAG
* *
9635514 ATAAACAAATAAGAATATATATTAATAA
1 AT-AA-AAA-AATAA-ATATATTAATAG
*
9635542 ATAAACAAATAA
1 ATAAAAAAATAA
9635554 TAAAATAAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 24 0.25
21 12 0.13
22 5 0.05
23 11 0.12
24 4 0.04
25 13 0.14
26 4 0.04
27 6 0.06
28 12 0.13
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.25
Consensus pattern (24 bp):
ATAAAAAAATAAATATATTAATAG
Found at i:9635449 original size:32 final size:34
Alignment explanation
Indices: 9635424--9635501 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 34
9635414 TAAATATATT
9635424 AATAGATAAA-AA-AATAATTAGATAAATAAAAA
1 AATAGATAAATAATAATAATTAGATAAATAAAAA
*
9635456 AATAGATAAATAATAATAA-TA-A-AAA-ATAAA
1 AATAGATAAATAATAATAATTAGATAAATAAAAA
*
9635486 AGTAGATAAATAATAA
1 AATAGATAAATAATAA
9635502 AAATATTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 19 0.45
31 3 0.07
32 11 0.26
33 4 0.10
34 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (34 bp):
AATAGATAAATAATAATAATTAGATAAATAAAAA
Found at i:9635473 original size:46 final size:49
Alignment explanation
Indices: 9635403--9635506 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 49
9635393 AATTAATCAA
* *
9635403 AATAAAAA-AGATAAATATATTAATAGATAAAAAA-ATAATTAGATAAAT
1 AATAAAAATAGATAAATATATTAATA-ATAAAAAATAAAAGTAGATAAAT
9635451 AA-AAAAATAGATAAATA-A-TAATAATAAAAAATAAAAGTAGATAAAT
1 AATAAAAATAGATAAATATATTAATAATAAAAAATAAAAGTAGATAAAT
9635497 AATAAAAATA
1 AATAAAAATA
9635507 TTAATAGATA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
45 8 0.16
46 19 0.37
47 13 0.25
48 11 0.22
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (49 bp):
AATAAAAATAGATAAATATATTAATAATAAAAAATAAAAGTAGATAAAT
Found at i:9635494 original size:30 final size:29
Alignment explanation
Indices: 9635424--9635575 Score: 96
Period size: 32 Copynumber: 5.0 Consensus size: 29
9635414 TAAATATATT
*
9635424 AATAGATAAAAAAATAATTAGATAAATAAAAA
1 AATAGAT-AAATAATAA-TA-ATAAATAAAAA
9635456 AATAGATAAATAATAATAATAAA-AAATAA
1 AATAGATAAATAATAATAATAAATAAA-AA
* * *
9635485 AAGTAGATAAATAATAAAAATATTAATAGATA
1 AA-TAGATAAATAATAATAATA--AATAAAAA
* * * *
9635517 AACAAATAAGAATATATATTAATAAATAAACA
1 AATAGAT-A-AATA-ATAATAATAAATAAAAA
*
9635549 AATA-AT-AA-AATAAAAATAAAATAAAAA
1 AATAGATAAATAATAATAAT-AAATAAAAA
9635576 TAAAAATCAA
Statistics
Matches: 97, Mismatches: 14, Indels: 23
0.72 0.10 0.17
Matches are distributed among these distances:
26 6 0.06
27 9 0.09
28 5 0.05
29 9 0.09
30 20 0.21
31 13 0.13
32 22 0.23
33 6 0.06
34 7 0.07
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (29 bp):
AATAGATAAATAATAATAATAAATAAAAA
Found at i:9635544 original size:85 final size:83
Alignment explanation
Indices: 9635413--9635569 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 83
9635403 AATAAAAAAG
* ** * *
9635413 ATAAATATATTAATAGATAAAAAAATAATTAGATAAATAAAAAAATAGATAAATAATAATAATAA
1 ATAAAAATATTAATAGATAAAAAAATAAGAAGATAAATAAAAAAATAAACAAATAATAA-AAT-A
9635478 AAAATAAAAGTAGATAAATA
64 AAAATAAAAGTAGATAAATA
* * * * *
9635498 ATAAAAATATTAATAGATAAACAAATAAGAATATATATTAATAAATAAACAAATAATAAAATAAA
1 ATAAAAATATTAATAGATAAAAAAATAAGAAGATAAATAAAAAAATAAACAAATAATAAAATAAA
9635563 AATAAAA
66 AATAAAA
9635570 TAAAAATAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
83 10 0.16
84 3 0.05
85 49 0.79
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (83 bp):
ATAAAAATATTAATAGATAAAAAAATAAGAAGATAAATAAAAAAATAAACAAATAATAAAATAAA
AATAAAAGTAGATAAATA
Found at i:9635566 original size:11 final size:11
Alignment explanation
Indices: 9635552--9635580 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
9635542 ATAAACAAAT
9635552 AATAAAATAAA
1 AATAAAATAAA
9635563 AATAAAATAAA
1 AATAAAATAAA
9635574 AATAAAA
1 AATAAAA
9635581 ATCAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:9636500 original size:1 final size:1
Alignment explanation
Indices: 9636494--9636524 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
9636484 CAGAACTCAA
9636494 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9636525 ATAGTGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9639886 original size:63 final size:63
Alignment explanation
Indices: 9639816--9639946 Score: 185
Period size: 63 Copynumber: 2.1 Consensus size: 63
9639806 ATTACTTTTA
**
9639816 TTTATGTAATTTTGCAGTTTTTTTTTTGTTATTTTTT-TTAATTTATAAAAAAGAAAGGG-AAAT
1 TTTATGTAATTTTGCAG--TTTTTTTTGTTATTTTTTAAAAATTTATAAAAAAGAAAGGGAAAAT
* *
9639879 TTTATGTAATTTTGCAGTTTTTTTTGTTATTTTTTAAAAAATTTATACAGAAGAAAGGGAAAAT
1 TTTATGTAATTTTGCAGTTTTTTTTGTTATTTTTT-AAAAATTTATAAAAAAGAAAGGGAAAAT
9639943 TTTA
1 TTTA
9639947 GTGGAAGGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
61 18 0.30
63 35 0.57
64 8 0.13
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (63 bp):
TTTATGTAATTTTGCAGTTTTTTTTGTTATTTTTTAAAAATTTATAAAAAAGAAAGGGAAAAT
Found at i:9643698 original size:15 final size:15
Alignment explanation
Indices: 9643678--9643709 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9643668 ACAAAGGTCC
9643678 TGAATGACAGTCAGA
1 TGAATGACAGTCAGA
9643693 TGAATGACAGTCAGA
1 TGAATGACAGTCAGA
9643708 TG
1 TG
9643710 GAAGGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (15 bp):
TGAATGACAGTCAGA
Found at i:9644371 original size:13 final size:13
Alignment explanation
Indices: 9644337--9644373 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
9644327 ATGATTGATG
*
9644337 ATAAATTATTATT
1 ATAAATTAATATT
9644350 ATGAAATTAATATT
1 AT-AAATTAATATT
9644364 ATAAATTAAT
1 ATAAATTAAT
9644374 CTAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
ATAAATTAATATT
Found at i:9647816 original size:25 final size:21
Alignment explanation
Indices: 9647767--9647809 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9647757 CGAAATTAAC
9647767 AAAATATTATTTTTTAAATAT
1 AAAATATTATTTTTTAAATAT
9647788 AAAATATTA-TTTTT-AATAT
1 AAAATATTATTTTTTAAATAT
9647807 AAA
1 AAA
9647810 TATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.36
20 5 0.23
21 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATATTATTTTTTAAATAT
Found at i:9651550 original size:37 final size:37
Alignment explanation
Indices: 9651497--9651573 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
9651487 GACTATTTTA
* * * *
9651497 GGGTCGATTTTTTTTTTCAAAAAT-TGGGTTTCGGGTC
1 GGGTCGAATTTATTTTT-AAAAATGTCGGATTCGGGTC
*
9651534 GGGTCGAATTTATTTTTTAAAATGTCGGATTCGGGTC
1 GGGTCGAATTTATTTTTAAAAATGTCGGATTCGGGTC
9651571 GGG
1 GGG
9651574 GTCGGGTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 5 0.15
37 29 0.85
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.42
Consensus pattern (37 bp):
GGGTCGAATTTATTTTTAAAAATGTCGGATTCGGGTC
Done.