Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 127 of 133
Found at i:24582453 original size:9 final size:9
Alignment explanation
Indices: 24582441--24582469 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
24582431 TAATTTCTTT
24582441 AATATGTTG
1 AATATGTTG
24582450 AATATGTTG
1 AATATGTTG
24582459 AATATGTTG
1 AATATGTTG
24582468 AA
1 AA
24582470 GAAGTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (9 bp):
AATATGTTG
Found at i:24582728 original size:27 final size:27
Alignment explanation
Indices: 24582690--24582799 Score: 184
Period size: 27 Copynumber: 4.1 Consensus size: 27
24582680 TATTATCACA
* *
24582690 AAGTTCTTTCAAGAACGTCTAGTTAGT
1 AAGTTCTTCCAAGAACGTCGAGTTAGT
* *
24582717 AAGTTCTTTCAAGAACGTCTAGTTAGT
1 AAGTTCTTCCAAGAACGTCGAGTTAGT
24582744 AAGTTCTTCCAAGAACGTCGAGTTAGT
1 AAGTTCTTCCAAGAACGTCGAGTTAGT
24582771 AAGTTCTTCCAAGAACGTCGAGTTAGT
1 AAGTTCTTCCAAGAACGTCGAGTTAGT
24582798 AA
1 AA
24582800 AGTCATAGAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (27 bp):
AAGTTCTTCCAAGAACGTCGAGTTAGT
Found at i:24584326 original size:60 final size:58
Alignment explanation
Indices: 24584244--24584466 Score: 286
Period size: 59 Copynumber: 3.7 Consensus size: 58
24584234 TTTTGTAGGA
24584244 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTCGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT--ATTTTCAAGG
* * *
24584304 AAAATTGATACTTTTAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTAT-AAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGAAAATTTATTT-TCAAGG
*
24584363 AAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTTGAAAATTTA-TTTTC----AAG
24584428 G
58 G
*
24584429 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT
24584467 ATTTTGGAAA
Statistics
Matches: 144, Mismatches: 8, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
59 38 0.26
60 31 0.22
61 31 0.22
62 3 0.02
63 5 0.03
66 36 0.25
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGG
Found at i:24584435 original size:66 final size:64
Alignment explanation
Indices: 24584244--24584501 Score: 277
Period size: 66 Copynumber: 4.1 Consensus size: 64
24584234 TTTTGTAGGA
*
24584244 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTCGA-TTTTC----AAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTT--ATTTTTCTTTTAAG
24584303 G
64 G
* * ** * *
24584304 AAAATTGATACTTTTAACTTTTCCTCAAAAATCCTTTTTTT-GAAA---ATTTAT-TTATAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
24584363 AAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGGAAATTTATTTTTCTTTTAAG
24584428 G
64 G
* *
24584429 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTGGAAATTTATTATTTTTATTTA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTT-TTTTGGAAATTTATT-TTTCT-TTTA
*
24584494 AAG
62 AGG
24584497 AAAAT
1 AAAAT
24584502 AAAATAATAA
Statistics
Matches: 168, Mismatches: 14, Indels: 24
0.82 0.07 0.12
Matches are distributed among these distances:
55 1 0.01
56 3 0.02
59 34 0.20
60 33 0.20
61 14 0.08
62 4 0.02
65 10 0.06
66 54 0.32
67 4 0.02
68 11 0.07
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (64 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
Found at i:24584574 original size:12 final size:12
Alignment explanation
Indices: 24584548--24584606 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
24584538 AACCTAATCT
*
24584548 AATAAATAA-AA
1 AATAAAAAATAA
24584559 AATAAAAAATAA
1 AATAAAAAATAA
24584571 AATAAACAAATAA
1 AATAAA-AAATAA
*
24584584 ACA-AAGAAATAA
1 A-ATAAAAAATAA
*
24584596 TAAAAAAAAAT
1 -AATAAAAAAT
24584607 TCAAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 8 0.20
12 15 0.38
13 16 0.40
14 1 0.03
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.15
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:24584581 original size:8 final size:7
Alignment explanation
Indices: 24584551--24584602 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
24584541 CTAATCTAAT
24584551 AAATAAA
1 AAATAAA
24584558 AAATAAA
1 AAATAAA
24584565 AAAT--A
1 AAATAAA
24584570 AAATAAA
1 AAATAAA
24584577 CAAATAAA
1 -AAATAAA
*
24584585 CAAAGAAA
1 -AAATAAA
*
24584593 TAATAAA
1 AAATAAA
24584600 AAA
1 AAA
24584603 AAATTCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 5 0.13
7 19 0.50
8 14 0.37
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:24585910 original size:1 final size:1
Alignment explanation
Indices: 24585900--24585981 Score: 65
Period size: 1 Copynumber: 82.0 Consensus size: 1
24585890 CAACTCAACA
* ** ** * * * * *
24585900 TTTTTATTTTTTTGATTTTTTTTTAATTTTTATTTTTTGTTTTTTGTTTTTTTGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
24585965 TTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTT
24585982 GCCGAAGTTC
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:24585918 original size:8 final size:8
Alignment explanation
Indices: 24585900--24585981 Score: 82
Period size: 8 Copynumber: 10.2 Consensus size: 8
24585890 CAACTCAACA
*
24585900 TTTTTATT
1 TTTTTGTT
24585908 TTTTTGATT
1 TTTTTG-TT
24585917 TTTTT-TT
1 TTTTTGTT
*
24585924 AATTTTT-AT
1 --TTTTTGTT
24585933 TTTTTG-T
1 TTTTTGTT
24585940 TTTTTGTT
1 TTTTTGTT
24585948 TTTTTGTT
1 TTTTTGTT
24585956 TTTTTGTTT
1 TTTTTG-TT
24585965 TTTTTGTT
1 TTTTTGTT
24585973 TTTTT-TT
1 TTTTTGTT
24585980 TT
1 TT
24585982 GCCGAAGTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
7 18 0.27
8 27 0.41
9 21 0.32
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.87
Consensus pattern (8 bp):
TTTTTGTT
Found at i:24585943 original size:32 final size:32
Alignment explanation
Indices: 24585899--24585981 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 32
24585889 TCAACTCAAC
24585899 ATTTTTAT-TTTTTTGATTTTTTT-TTAATTTT-T
1 ATTTTT-TGTTTTTTG-TTTTTTTGTT-ATTTTGT
*
24585931 ATTTTTTGTTTTTTGTTTTTTTGTTTTTTTGT
1 ATTTTTTGTTTTTTGTTTTTTTGTTATTTTGT
*
24585963 TTTTTTTGTTTTTT-TTTTT
1 ATTTTTTGTTTTTTGTTTTT
24585982 GCCGAAGTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
31 17 0.37
32 29 0.63
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (32 bp):
ATTTTTTGTTTTTTGTTTTTTTGTTATTTTGT
Found at i:24586075 original size:41 final size:41
Alignment explanation
Indices: 24585990--24586480 Score: 814
Period size: 42 Copynumber: 11.9 Consensus size: 41
24585980 TTGCCGAAGT
*
24585990 TCCTCTAAACAGAGGCACCACGACTTTCGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
*
24586032 TCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
*
24586073 TCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
24586114 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGC
24586154 TCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGC
24586196 TCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGC
24586238 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
24586279 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
24586321 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGC
*
24586361 TCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGC
* *
24586403 TCCTCTAAACAAAGGCACCACGACTTTGGAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
24586444 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAAT
24586481 ACTCCTAGAC
Statistics
Matches: 430, Mismatches: 9, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
39 6 0.01
40 84 0.20
41 155 0.36
42 185 0.43
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
Found at i:24586291 original size:165 final size:165
Alignment explanation
Indices: 24585990--24586480 Score: 850
Period size: 165 Copynumber: 3.0 Consensus size: 165
24585980 TTGCCGAAGT
*
24585990 TCCTCTAAACAGAGGCACCACGACTTTCGAAAAA-TAAATTGCTCCTCTCAACAGAGGCACCACG
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
24586054 ACTTTG-AAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
65 ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
24586118 CTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGC
130 CTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGC
24586154 TCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
24586219 CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
66 CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
24586284 TAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGC
131 TAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGC
*
24586321 TCCTCTAAACAGAGGCA--ACGAACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
24586383 ACTTTGAAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGGAAAGTAAATTGCTCCT
65 ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
24586448 CTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
130 CTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
24586481 ACTCCTAGAC
Statistics
Matches: 315, Mismatches: 5, Indels: 15
0.94 0.01 0.04
Matches are distributed among these distances:
163 20 0.06
164 67 0.21
165 183 0.58
166 11 0.03
167 34 0.11
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (165 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
TAAACAGAGGCAACGAACTTTGAAAAGTAAATTGC
Found at i:24587689 original size:1 final size:1
Alignment explanation
Indices: 24587685--24587741 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
24587675 TATTTTCTCA
* * * * * *
24587685 TTTTTTCTTTTTTTTTCTTTTTTTCTTTTTTTTTCTTTTTTCTTTTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24587742 CATCCATTGT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:24587692 original size:10 final size:9
Alignment explanation
Indices: 24587664--24587733 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
24587654 TCAATTTGGA
24587664 TCTCTTTTT
1 TCTCTTTTT
*
24587673 T-T-TATTT
1 TCTCTTTTT
24587680 TCTCATTTTT
1 TCTC-TTTTT
24587690 TCT-TTTTT
1 TCTCTTTTT
*
24587698 TTTCTTTTT
1 TCTCTTTTT
24587707 T-TCTTTTTT
1 TCTC-TTTTT
*
24587716 TTTCTTTTT
1 TCTCTTTTT
24587725 TCT-TTTTT
1 TCTCTTTTT
24587733 T
1 T
24587734 TTATTTTTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
7 5 0.10
8 17 0.33
9 20 0.39
10 9 0.18
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (9 bp):
TCTCTTTTT
Found at i:24587705 original size:25 final size:23
Alignment explanation
Indices: 24587668--24587730 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 23
24587658 TTTGGATCTC
*
24587668 TTTTTTTTATTTTCTCATTTTTTCT
1 TTTTTTTTCTTTTCTC-TTTTTT-T
*
24587693 TTTTTTTTCTTTTTTTCTTTTTTT
1 TTTTTTTTC-TTTTCTCTTTTTTT
24587717 TTCTTTTTTCTTTT
1 TT-TTTTTTCTTTT
24587731 TTTTTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 21 0.62
26 6 0.18
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (23 bp):
TTTTTTTTCTTTTCTCTTTTTTT
Found at i:24587709 original size:18 final size:18
Alignment explanation
Indices: 24587671--24587741 Score: 99
Period size: 18 Copynumber: 3.8 Consensus size: 18
24587661 GGATCTCTTT
24587671 TTTTTATTTTCTCATTTTTTC
1 TTTTT-TTTTCT--TTTTTTC
24587692 TTTTTTTTTCTTTTTTTC
1 TTTTTTTTTCTTTTTTTC
24587710 TTTTTTTTTC-TTTTTTC
1 TTTTTTTTTCTTTTTTTC
*
24587727 TTTTTTTTTATTTTT
1 TTTTTTTTTCTTTTT
24587742 CATCCATTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
17 16 0.33
18 21 0.44
20 6 0.12
21 5 0.10
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTTTC
Found at i:24587734 original size:10 final size:10
Alignment explanation
Indices: 24587671--24587735 Score: 73
Period size: 10 Copynumber: 6.6 Consensus size: 10
24587661 GGATCTCTTT
24587671 TTTTTATTTTC
1 TTTTT-TTTTC
**
24587682 TCATTTTTTC
1 TTTTTTTTTC
24587692 TTTTTTTTTC
1 TTTTTTTTTC
24587702 --TTTTTTTC
1 TTTTTTTTTC
24587710 TTTTTTTTTC
1 TTTTTTTTTC
24587720 TTTTTTCTTT-
1 TTTTTT-TTTC
24587730 TTTTTT
1 TTTTTT
24587736 ATTTTTCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
8 8 0.17
10 33 0.70
11 6 0.13
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:24587735 original size:17 final size:17
Alignment explanation
Indices: 24587666--24587741 Score: 100
Period size: 17 Copynumber: 4.4 Consensus size: 17
24587656 AATTTGGATC
* *
24587666 TCTTTTTT-TTATTTTC
1 TCTTTTTTCTTTTTTTT
24587682 TCATTTTTTCTTTTTTTT
1 TC-TTTTTTCTTTTTTTT
24587700 TCTTTTTTTCTTTTTTTT
1 TC-TTTTTTCTTTTTTTT
24587718 TCTTTTTTCTTTTTTTT
1 TCTTTTTTCTTTTTTTT
*
24587735 TATTTTT
1 TCTTTTT
24587742 CATCCATTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
16 2 0.04
17 27 0.50
18 25 0.46
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.86
Consensus pattern (17 bp):
TCTTTTTTCTTTTTTTT
Found at i:24591660 original size:60 final size:57
Alignment explanation
Indices: 24591585--24591885 Score: 361
Period size: 60 Copynumber: 4.9 Consensus size: 57
24591575 TTTTTTGTAG
24591585 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGGAAATTT--ATTTTCAA
** *
24591645 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTAT-AA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTTGGAAATTTATTT-TCAA
*
24591704 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAA-TTT-ATTTTCAA
24591764 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA---TTTTTTTGGAAATTTA-TTTTC----A
24591829 A
57 A
24591830 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTGGAAATTTATT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA--TTT-TTTTGGAAATTTATT
24591886 ATTTTTATTT
Statistics
Matches: 215, Mismatches: 8, Indels: 31
0.85 0.03 0.12
Matches are distributed among these distances:
58 11 0.05
59 47 0.22
60 64 0.30
61 18 0.08
62 8 0.04
63 11 0.05
65 10 0.05
66 46 0.21
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTTCAA
Found at i:24591709 original size:59 final size:60
Alignment explanation
Indices: 24591585--24591882 Score: 333
Period size: 59 Copynumber: 4.8 Consensus size: 60
24591575 TTTTTTGTAG
* *
24591585 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAA-TATTTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAAACTTTTTTTTTGAAAATTT-GATTTTCAA
**
24591645 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAACCCTTTTTTTGAAAATTT-ATTTAT-AA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAACTTTTTTTTTGAAAATTTGATTT-TCAA
* *
24591704 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA-TATTTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAACT-TTTTTTTTGAAAATTTGATTTTCAA
*
24591764 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTT-ATTTTTCTTTT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAA-ACTTTTTTTTTGAAAATTTGA-TTTTC----
24591828 AA
59 AA
*
24591830 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTATTTTGGAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAA-ACTTTTT-TTTTGAAAATTT
24591883 ATTATTTTTA
Statistics
Matches: 212, Mismatches: 9, Indels: 28
0.85 0.04 0.11
Matches are distributed among these distances:
58 1 0.00
59 58 0.27
60 57 0.27
61 22 0.10
62 20 0.09
63 1 0.00
65 8 0.04
66 45 0.21
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.45
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAACTTTTTTTTTGAAAATTTGATTTTCAA
Found at i:24591796 original size:119 final size:124
Alignment explanation
Indices: 24591585--24591869 Score: 438
Period size: 119 Copynumber: 2.3 Consensus size: 124
24591575 TTTTTTGTAG
24591585 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTGGAAATTTCGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTGGAAATTTCGATTTTCAAGGAA
*
24591649 AATTGATACTTTCAACTTTTCCTC-AAAA-ACCCTTTTTTT-GAAA-ATTTAT-TTATAA
65 AATTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGGAAATATTTATCTTATAA
* *
24591704 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTCGATTTTCAAGGAAA
** * *
24591769 ATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGGAAA--TATTTATCTTATAA
24591830 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
24591870 ATTTTGGAAA
Statistics
Matches: 151, Mismatches: 7, Indels: 9
0.90 0.04 0.05
Matches are distributed among these distances:
118 7 0.05
119 77 0.51
120 4 0.03
121 9 0.06
122 4 0.03
125 5 0.03
126 45 0.30
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (124 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTCGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGGAAATATTTATCTTATAA
Found at i:24591977 original size:12 final size:12
Alignment explanation
Indices: 24591951--24592008 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
24591941 AACCTAATCT
*
24591951 AATAAATAA-AA
1 AATAAAAAATAA
24591962 AATAAAAAATAA
1 AATAAAAAATAA
24591974 AATAAACAAATAA
1 AATAAA-AAATAA
*
24591987 ACA-AAGAAATAA
1 A-ATAAAAAATAA
24591999 TAA-AAAAAAT
1 -AATAAAAAAT
24592009 TCAAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 8 0.20
12 21 0.52
13 10 0.25
14 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:24591984 original size:8 final size:7
Alignment explanation
Indices: 24591954--24592005 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
24591944 CTAATCTAAT
24591954 AAATAAA
1 AAATAAA
24591961 AAATAAA
1 AAATAAA
24591968 AAAT--A
1 AAATAAA
24591973 AAATAAA
1 AAATAAA
24591980 CAAATAAA
1 -AAATAAA
*
24591988 CAAAGAAA
1 -AAATAAA
*
24591996 TAATAAA
1 AAATAAA
24592003 AAA
1 AAA
24592006 AATTCAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 5 0.13
7 19 0.50
8 14 0.37
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:24596065 original size:24 final size:24
Alignment explanation
Indices: 24596033--24596086 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
24596023 AAATAATAAT
*
24596033 AAAAA-TATTATAATTACGATTAA
1 AAAAATTATTATAATTACAATTAA
24596056 AAAAATTATTATAATTACAATTAA
1 AAAAATTATTATAATTACAATTAA
24596080 AAAAATT
1 AAAAATT
24596087 TAATGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAAATTATTATAATTACAATTAA
Found at i:24599636 original size:13 final size:13
Alignment explanation
Indices: 24599618--24599647 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24599608 CCTTACACGT
24599618 CACCACTACCACC
1 CACCACTACCACC
*
24599631 CACCACTGCCACC
1 CACCACTACCACC
24599644 CACC
1 CACC
24599648 CTGTCACCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.63, G:0.03, T:0.07
Consensus pattern (13 bp):
CACCACTACCACC
Found at i:24600783 original size:17 final size:18
Alignment explanation
Indices: 24600743--24600786 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
24600733 AAAATGCTTG
*
24600743 AAAAATAATAATTATAACTT
1 AAAAATAATAATAATAA--T
24600763 AAAAATAATAATAATAA-
1 AAAAATAATAATAATAAT
24600780 AAAAATA
1 AAAAATA
24600787 TTTTTTCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
20 16 0.70
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATAATAATAATAAT
Found at i:24601074 original size:30 final size:29
Alignment explanation
Indices: 24601039--24601138 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 29
24601029 TTAAATTTCA
24601039 AAACCCTAAAACCTCTTAATCTTTAAATCC
1 AAACCCTAAAACCTC-TAATCTTTAAATCC
* * *
24601069 AAACCCTAAAACC-CAAAATCCCTAAAATCC
1 AAACCCTAAAACCTC-TAAT-CTTTAAATCC
* * * *
24601099 AAACCCTTAAATCTCTAAACTTTAAAATCA
1 AAACCCTAAAACCTCTAATCTTT-AAATCC
*
24601129 AAATCCTAAA
1 AAACCCTAAA
24601139 CCTTTCATAC
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
29 6 0.11
30 47 0.87
31 1 0.02
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (29 bp):
AAACCCTAAAACCTCTAATCTTTAAATCC
Found at i:24601110 original size:14 final size:14
Alignment explanation
Indices: 24601063--24601111 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
24601053 CTTAATCTTT
24601063 AAATCCAAACCCTA
1 AAATCCAAACCCTA
*
24601077 AAACCCAAAATCCCTA
1 AAATCC-AAA-CCCTA
*
24601093 AAATCCAAACCCTT
1 AAATCCAAACCCTA
24601107 AAATC
1 AAATC
24601112 TCTAAACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 14 0.47
15 6 0.20
16 10 0.33
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:24606035 original size:52 final size:53
Alignment explanation
Indices: 24605973--24606078 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 53
24605963 CGTAAGAGTA
* * *
24605973 AATGTTTTTCAC-GACACGCTCAAGTCTTGCGAATGTCAAATATCCGGTATGC
1 AATGTTTTTCACAGACACACTCAAGTCTAGCGAATGTCAAATATCCAGTATGC
* *
24606025 AATGTTTTTCACAAGACGCACTTAAGTCTAGCGAATGTCAAATATCCAGTATGC
1 AATGTTTTTCAC-AGACACACTCAAGTCTAGCGAATGTCAAATATCCAGTATGC
24606079 CCTCTAGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 12 0.26
54 35 0.74
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (53 bp):
AATGTTTTTCACAGACACACTCAAGTCTAGCGAATGTCAAATATCCAGTATGC
Found at i:24610270 original size:25 final size:24
Alignment explanation
Indices: 24610232--24610282 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
24610222 CTAAAAAATA
*
24610232 AAAAGTATAGGTTTGAAAATTTTATT
1 AAAAGTATAAGTTTG-AAATTTT-TT
24610258 AAAA-TATAAGTTTGAAATTTTTT
1 AAAAGTATAAGTTTGAAATTTTTT
24610281 AA
1 AA
24610283 TTTTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 7 0.29
25 9 0.38
26 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (24 bp):
AAAAGTATAAGTTTGAAATTTTTT
Found at i:24610487 original size:21 final size:21
Alignment explanation
Indices: 24610463--24610506 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
24610453 TTTGATTGTG
*
24610463 TTATATATTAATTT-ATAATTT
1 TTATATA-AAATTTAATAATTT
24610484 TTATATAAAATTTAATAATTT
1 TTATATAAAATTTAATAATTT
24610505 TT
1 TT
24610507 TTTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATATAAAATTTAATAATTT
Found at i:24615791 original size:21 final size:21
Alignment explanation
Indices: 24615767--24615812 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
24615757 TATAATACCC
24615767 ATTTAAAAGTTTGCGTAATTG
1 ATTTAAAAGTTTGCGTAATTG
*
24615788 ATTTAAAAGTTTGGGTAATTG
1 ATTTAAAAGTTTGCGTAATTG
24615809 ATTT
1 ATTT
24615813 GTCAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (21 bp):
ATTTAAAAGTTTGCGTAATTG
Found at i:24616186 original size:2 final size:2
Alignment explanation
Indices: 24616179--24616207 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24616169 AATACCCACC
24616179 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
24616208 TTAAACTTTA
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:24620465 original size:19 final size:19
Alignment explanation
Indices: 24620441--24620479 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
24620431 AAGGATATTG
24620441 CTATATATCAATAATTAAT
1 CTATATATCAATAATTAAT
24620460 CTATATATCAATAATTAAT
1 CTATATATCAATAATTAAT
24620479 C
1 C
24620480 GTTGCATCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (19 bp):
CTATATATCAATAATTAAT
Found at i:24627809 original size:33 final size:34
Alignment explanation
Indices: 24627770--24627833 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
24627760 TGAAAAGATG
*
24627770 ATAAAATTAATTGTGA-TGAGATTGAAAATACTA
1 ATAAAATTAATTGTAATTGAGATTGAAAATACTA
* *
24627803 ATAAAATTTATTGTAATTGTGATTGAAAATA
1 ATAAAATTAATTGTAATTGAGATTGAAAATA
24627834 ATTTAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 14 0.52
34 13 0.48
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.38
Consensus pattern (34 bp):
ATAAAATTAATTGTAATTGAGATTGAAAATACTA
Found at i:24629424 original size:31 final size:31
Alignment explanation
Indices: 24629357--24629431 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
24629347 TGTATAAAAT
* * * *
24629357 ATAAAAATTTATATATTCTTATTTTATTTTAT
1 ATAAAAA-TTATATATTATAATTTTATTTAAC
24629389 ATAAAAATTATATATTATAA-TTTATATTAAC
1 ATAAAAATTATATATTATAATTTTAT-TTAAC
*
24629420 ATAAAAAATATA
1 ATAAAAATTATA
24629432 AAATATATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 5 0.14
31 25 0.68
32 7 0.19
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAAAATTATATATTATAATTTTATTTAAC
Found at i:24629458 original size:10 final size:10
Alignment explanation
Indices: 24629438--24629485 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
24629428 TATAAAATAT
24629438 ATTTT-TTAA
1 ATTTTATTAA
24629447 ATTTTATTAA
1 ATTTTATTAA
* *
24629457 ATTTAAATATA
1 ATTTTATTA-A
24629468 ATTATTATTAA
1 ATT-TTATTAA
24629479 ATTTTAT
1 ATTTTAT
24629486 ATTTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
9 5 0.16
10 15 0.47
11 8 0.25
12 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTATTAA
Found at i:24630428 original size:2 final size:2
Alignment explanation
Indices: 24630421--24630453 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24630411 CTTTTATCAG
24630421 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 T
24630454 CTAAGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24638211 original size:146 final size:146
Alignment explanation
Indices: 24637942--24638226 Score: 516
Period size: 146 Copynumber: 2.0 Consensus size: 146
24637932 GACTCATGGA
*
24637942 CAATATAGGTGATATATCAATCTTGGGCTTCTTGCCGATAACTCGTGGTCTAGTTTAGAGAATAG
1 CAATATAGGTGATATATCAATCTTGGGCTTATTGCCGATAACTCGTGGTCTAGTTTAGAGAATAG
* *
24638007 TGACAAGCCATATTGATAATGACTCATGGTCGAGGGTGGGCAATGCTGAAGATTCAAACGGTGGG
66 TGACAAGCCATATTGATAATGACTCATGGTCGAGGGTGGGCAATGCTGAAGAGTCAAACAGTGGG
24638072 GTACTTATATCCATCC
131 GTACTTATATCCATCC
* *
24638088 CAATGTAGGTGATATATCAATCTTGGGCTTATTGCTGATAACTCGTGGTCTAGTTTAGAGAATAG
1 CAATATAGGTGATATATCAATCTTGGGCTTATTGCCGATAACTCGTGGTCTAGTTTAGAGAATAG
*
24638153 TGATAAGCCATATTGATAATGACTCATGGTCGAGGGTGGGCAATGCTGAAGAGTCAAACAGTGGG
66 TGACAAGCCATATTGATAATGACTCATGGTCGAGGGTGGGCAATGCTGAAGAGTCAAACAGTGGG
24638218 GTACTTATA
131 GTACTTATA
24638227 ATCGGAGTTG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 133 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (146 bp):
CAATATAGGTGATATATCAATCTTGGGCTTATTGCCGATAACTCGTGGTCTAGTTTAGAGAATAG
TGACAAGCCATATTGATAATGACTCATGGTCGAGGGTGGGCAATGCTGAAGAGTCAAACAGTGGG
GTACTTATATCCATCC
Found at i:24642651 original size:2 final size:2
Alignment explanation
Indices: 24642646--24642672 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24642636 AACCCTTGTA
24642646 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 A
24642673 GTTTTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24643005 original size:13 final size:13
Alignment explanation
Indices: 24642987--24643011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24642977 TTGTCTGTCG
24642987 GGGTAAAAAGTCC
1 GGGTAAAAAGTCC
24643000 GGGTAAAAAGTC
1 GGGTAAAAAGTC
24643012 GGTTAATCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.32, T:0.16
Consensus pattern (13 bp):
GGGTAAAAAGTCC
Found at i:24643849 original size:24 final size:22
Alignment explanation
Indices: 24643810--24643861 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
24643800 TTTAATTATA
*
24643810 AAAAATATACATTAAAATAAAT
1 AAAAATATAAATTAAAATAAAT
*
24643832 AAAAATATAGAATATAAAATTAAT
1 AAAAATATA-AAT-TAAAATAAAT
*
24643856 TAAAAT
1 AAAAAT
24643862 CTCATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 14 0.56
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATATAAATTAAAATAAAT
Found at i:24644771 original size:23 final size:22
Alignment explanation
Indices: 24644708--24644772 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
24644698 TTCTCTTGAA
*
24644708 ATATTTTAAAATTAAGCTTTTTT
1 ATATTTTAAAATTAA-TTTTTTT
**
24644731 AT-TTTTAATTTTCAATTTTTTT
1 ATATTTTAAAATT-AATTTTTTT
24644753 ATATTTTAAAATTATATTTT
1 ATATTTTAAAATTA-ATTTT
24644773 ATGATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATTTTAAAATTAATTTTTTT
Found at i:24645502 original size:2 final size:2
Alignment explanation
Indices: 24645495--24645526 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24645485 CATTCATCAA
24645495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24645527 TTAAAGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24646521 original size:82 final size:82
Alignment explanation
Indices: 24646428--24646593 Score: 332
Period size: 82 Copynumber: 2.0 Consensus size: 82
24646418 TTTTCACTTA
24646428 AGATTTAACACAATATTCCTTAAAATTAAAATAACTCTCTTTGTAGAAGATAATTATTGGTGACT
1 AGATTTAACACAATATTCCTTAAAATTAAAATAACTCTCTTTGTAGAAGATAATTATTGGTGACT
24646493 CTCAAACATCTAGGTAG
66 CTCAAACATCTAGGTAG
24646510 AGATTTAACACAATATTCCTTAAAATTAAAATAACTCTCTTTGTAGAAGATAATTATTGGTGACT
1 AGATTTAACACAATATTCCTTAAAATTAAAATAACTCTCTTTGTAGAAGATAATTATTGGTGACT
24646575 CTCAAACATCTAGGTAG
66 CTCAAACATCTAGGTAG
24646592 AG
1 AG
24646594 TACCAAGAAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (82 bp):
AGATTTAACACAATATTCCTTAAAATTAAAATAACTCTCTTTGTAGAAGATAATTATTGGTGACT
CTCAAACATCTAGGTAG
Found at i:24647219 original size:30 final size:30
Alignment explanation
Indices: 24647167--24647370 Score: 188
Period size: 30 Copynumber: 6.9 Consensus size: 30
24647157 ACCAAATTTG
* *
24647167 GGGTTTTAGGTTTTGAATTTTAGGGTTCAAA
1 GGGTTTAAGGTTTTG-ATTTTAGGGTTTAAA
* *
24647198 GGGTTTAAGGTTTTGATTTTAGAGTTT--G
1 GGGTTTAAGGTTTTGATTTTAGGGTTTAAA
*
24647226 GGGTTTAAGGTTTTGATTTTAGGGTTCAAA
1 GGGTTTAAGGTTTTGATTTTAGGGTTTAAA
* **
24647256 -GGTTTTAGGATTTT-AGTTTTAGGGTTTTGA
1 GGGTTTAAGG-TTTTGA-TTTTAGGGTTTAAA
* * * * *
24647286 GGATTTAGGGTTTCGATTTTAAGGTTTGAA
1 GGGTTTAAGGTTTTGATTTTAGGGTTTAAA
*
24647316 GGGTTTAAGGTTTT-ATTTTAGGGTTTGAA
1 GGGTTTAAGGTTTTGATTTTAGGGTTTAAA
*
24647345 GGGTTT-AGGATTTT-ATTCTAGGGTTT
1 GGGTTTAAGG-TTTTGATTTTAGGGTTT
24647371 TGATTTTAGG
Statistics
Matches: 143, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
28 28 0.20
29 44 0.31
30 50 0.35
31 21 0.15
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (30 bp):
GGGTTTAAGGTTTTGATTTTAGGGTTTAAA
Found at i:24647226 original size:59 final size:57
Alignment explanation
Indices: 24647163--24647369 Score: 222
Period size: 59 Copynumber: 3.5 Consensus size: 57
24647153 GCATACCAAA
*
24647163 TTTGGGGTTTTAGGTTTTGAATTTTAGGGTTCAAAGGGTTTAAGGTTTTGATTTTAGAG
1 TTTGGGGTTTTAGGTTTTG-ATTTTAGGGTTCAAAGGGTTTAAGGTTTT-ATTTTAGGG
* *
24647222 TTTGGGGTTTAAGGTTTTGATTTTAGGGTTCAAA-GGTTTTAGGATTTTAGTTTTAGGG
1 TTTGGGGTTTTAGGTTTTGATTTTAGGGTTCAAAGGGTTTAAGG-TTTTA-TTTTAGGG
* * * * **
24647280 TTTTGAGGATTTAGGGTTTCGATTTTAAGGTTTGAAGGGTTTAAGGTTTTATTTTAGGG
1 -TTTGGGGTTTTA-GGTTTTGATTTTAGGGTTCAAAGGGTTTAAGGTTTTATTTTAGGG
*
24647339 TTTGAAGGG-TTTAGGATTTT-ATTCTAGGGTT
1 TTTG--GGGTTTTAGG-TTTTGATTTTAGGGTT
24647370 TTGATTTTAG
Statistics
Matches: 125, Mismatches: 15, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
57 9 0.07
58 41 0.33
59 42 0.34
60 25 0.20
61 8 0.06
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (57 bp):
TTTGGGGTTTTAGGTTTTGATTTTAGGGTTCAAAGGGTTTAAGGTTTTATTTTAGGG
Found at i:24647263 original size:88 final size:88
Alignment explanation
Indices: 24647168--24647369 Score: 241
Period size: 88 Copynumber: 2.3 Consensus size: 88
24647158 CCAAATTTGG
* *
24647168 GGTTTTAGG-TTTTGAATTTTAGGGTTCAAAGGGTTTAAGGTTTTGATTTT-AGAGTTTG-GGGT
1 GGTTTTAGGATTTT-AATTTTAGGGTTCAAAGGATTTAAGGTTTCGATTTTAAG-GTTTGAGGGT
24647230 TTAAGGTTTTGATTTTAGGGTTCAAA
64 TTAAGGTTTT-ATTTTAGGGTTCAAA
* *** *
24647256 GGTTTTAGGATTTTAGTTTTAGGGTTTTGAGGATTTAGGGTTTCGATTTTAAGGTTTGAAGGGTT
1 GGTTTTAGGATTTTAATTTTAGGGTTCAAAGGATTTAAGGTTTCGATTTTAAGGTTTG-AGGGTT
**
24647321 TAAGGTTTTATTTTAGGGTTTGAA
65 TAAGGTTTTATTTTAGGGTTCAAA
* *
24647345 GGGTTTAGGATTTT-ATTCTAGGGTT
1 GGTTTTAGGATTTTAATTTTAGGGTT
24647370 TTGATTTTAG
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
88 52 0.53
89 32 0.33
90 14 0.14
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (88 bp):
GGTTTTAGGATTTTAATTTTAGGGTTCAAAGGATTTAAGGTTTCGATTTTAAGGTTTGAGGGTTT
AAGGTTTTATTTTAGGGTTCAAA
Found at i:24647333 original size:29 final size:29
Alignment explanation
Indices: 24647167--24647370 Score: 184
Period size: 29 Copynumber: 6.9 Consensus size: 29
24647157 ACCAAATTTG
* **
24647167 GGGTTTTAGGTTTTGAATTTTAGGGTTCAAA
1 GGGTTTAAGGTTTT--ATTTTAGGGTTTGAA
*
24647198 GGGTTTAAGGTTTTGATTTTAGAGTTTG--
1 GGGTTTAAGGTTTT-ATTTTAGGGTTTGAA
*
24647226 GGGTTTAAGGTTTTGATTTTAGGG-TTCAA
1 GGGTTTAAGGTTTT-ATTTTAGGGTTTGAA
* *
24647255 AGGTTTTAGGATTTTAGTTTTAGGGTTTTG-A
1 GGGTTTAAGG-TTTTA-TTTTAGGG-TTTGAA
* * * *
24647286 GGATTTAGGGTTTCGATTTTAAGGTTTGAA
1 GGGTTTAAGGTTT-TATTTTAGGGTTTGAA
24647316 GGGTTTAAGGTTTTATTTTAGGGTTTGAA
1 GGGTTTAAGGTTTTATTTTAGGGTTTGAA
*
24647345 GGGTTT-AGGATTTTATTCTAGGGTTT
1 GGGTTTAAGG-TTTTATTTTAGGGTTT
24647371 TGATTTTAGG
Statistics
Matches: 143, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.01
28 26 0.18
29 48 0.34
30 44 0.31
31 21 0.15
32 2 0.01
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (29 bp):
GGGTTTAAGGTTTTATTTTAGGGTTTGAA
Found at i:24647382 original size:14 final size:14
Alignment explanation
Indices: 24647201--24647443 Score: 91
Period size: 14 Copynumber: 16.8 Consensus size: 14
24647191 GTTCAAAGGG
*
24647201 TTTAAGGTTTTGAT
1 TTTAGGGTTTTGAT
* * **
24647215 TTTAGAGTTTGGGG
1 TTTAGGGTTTTGAT
*
24647229 TTTAAGGTTTTGAT
1 TTTAGGGTTTTGAT
** *
24647243 TTTAGGGTTCAAAGGT
1 TTTAGGGTT--TTGAT
*
24647259 TTTAGGATTTT-AGT
1 TTTAGGGTTTTGA-T
*
24647273 TTTAGGGTTTTGAGGA
1 TTTAGGGTTTTGA--T
*
24647289 TTTAGGGTTTCGAT
1 TTTAGGGTTTTGAT
* *
24647303 TTTAAGG-TTTGAAGGG
1 TTTAGGGTTTTG-A--T
*
24647319 TTTAAGGTTTT-AT
1 TTTAGGGTTTTGAT
*
24647332 TTTAGGG-TTTGAAGGG
1 TTTAGGGTTTTG-A--T
*
24647348 TTTAGGATTTT-AT
1 TTTAGGGTTTTGAT
*
24647361 TCTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
24647375 TTTAGGGTTTGGAG
1 TTTAGGGTTTTGAT
* * *
24647389 ATTAGGATTTGGAT
1 TTTAGGGTTTTGAT
** *
24647403 TTTAGGGTTTAAAAGG
1 TTTAGGGTTT-TGA-T
24647419 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
*
24647433 TTTAGAGTTTT
1 TTTAGGGTTTT
24647444 AGTTTTTAAA
Statistics
Matches: 165, Mismatches: 47, Indels: 34
0.67 0.19 0.14
Matches are distributed among these distances:
12 3 0.02
13 18 0.11
14 87 0.53
15 5 0.03
16 46 0.28
17 6 0.04
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:24647409 original size:42 final size:41
Alignment explanation
Indices: 24647319--24647412 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 41
24647309 GTTTGAAGGG
* * * *
24647319 TTTAAGGTTTTATTTTAGGGTTTGAAGGGTTTAGGATTTTAT
1 TTTAGGGTTTTATTTTAGGGTTTG-AGAGATTAGGATTTGAT
*
24647361 TCTAGGGTTTTGATTTTAGGGTTTG-GAGATTAGGATTTGGAT
1 TTTAGGGTTTT-ATTTTAGGGTTTGAGAGATTAGGATTT-GAT
24647403 TTTAGGGTTT
1 TTTAGGGTTT
24647413 AAAAGGTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 11 0.25
42 20 0.45
43 13 0.30
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (41 bp):
TTTAGGGTTTTATTTTAGGGTTTGAGAGATTAGGATTTGAT
Found at i:24647752 original size:3 final size:3
Alignment explanation
Indices: 24647744--24647803 Score: 57
Period size: 3 Copynumber: 18.3 Consensus size: 3
24647734 TAGGACTTTT
* *
24647744 TTA TTA TTA TTC TCTT TTA TTTA TTAA TTAA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA -TTA TT-A TT-A TT-A TTA TTA TTA TTA
24647791 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
24647804 AAAATAACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
3 35 0.69
4 16 0.31
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:24649095 original size:13 final size:13
Alignment explanation
Indices: 24649047--24649096 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
24649037 ACTTTTTTTT
*
24649047 TTAATTTTAATTT
1 TTAATTTTAATTA
24649060 TTAATTTTTTAA-TA
1 TTAA--TTTTAATTA
24649074 TT-ATATTTAATTA
1 TTAAT-TTTAATTA
24649087 TTAATTTTAA
1 TTAATTTTAA
24649097 CAAATTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
11 1 0.03
12 5 0.16
13 14 0.45
14 5 0.16
15 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTTTAATTA
Found at i:24649507 original size:70 final size:71
Alignment explanation
Indices: 24649427--24649608 Score: 208
Period size: 70 Copynumber: 2.6 Consensus size: 71
24649417 TGAGTAAGAG
* * *
24649427 AATATCAATGA-TAGGGATTAAATTACGAGTTAAAAAATAAAGACAATTGGGATTAAATCAAAAG
1 AATAACAATGACTAGAGATTAAATTACGAGTTAAAAAATAAAGACAATCGGGATTAAATCAAAAG
24649491 TCAAAA
66 TCAAAA
* * * * * **
24649497 AATAATAATGACTA-AAATTGAATCACGAGTTAAAAAATAAAGGCAATCGGGATTAAATCGCAAG
1 AATAACAATGACTAGAGATTAAATTACGAGTTAAAAAATAAAGACAATCGGGATTAAATCAAAAG
24649561 TCAAAA
66 TCAAAA
* * * *
24649567 TATAACAACGACT-GAGATTAAACTACGAGTCAAAAAAATAAA
1 AATAACAATGACTAGAGATTAAATTACGAGT-TAAAAAATAAA
24649609 AATGATCGAA
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
70 79 0.87
71 12 0.13
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.22
Consensus pattern (71 bp):
AATAACAATGACTAGAGATTAAATTACGAGTTAAAAAATAAAGACAATCGGGATTAAATCAAAAG
TCAAAA
Found at i:24649634 original size:71 final size:71
Alignment explanation
Indices: 24649559--24649942 Score: 225
Period size: 71 Copynumber: 5.4 Consensus size: 71
24649549 TTAAATCGCA
* *
24649559 AGTCA-AAATATAACAACGACTGAGATTAAACTACGAGTCAAAAAAATAAAAATGATCGAAATTA
1 AGTCAGAAA-ATAACAACGACTGAGATTAAACTGCGAGTCAAAAAAATAAAAATGATCGAGATTA
24649623 AACCATG
65 AACCATG
* * * * * ** *
24649630 AGTCAGAGAATAGCAACAACT-AGGATTGAATCT-CTAACCAGAAAAATAAAAATGATCGAGATT
1 AGTCAGAAAATAACAACGACTGA-GATT-AAACTGCGAGTCAAAAAAATAAAAATGATCGAGATT
*
24649693 AGACCAT-
64 AAACCATG
* * * * * * * * *
24649700 AGGTTAGAAAATAACAAAGACTGGGATTGAACCGCAAGT-TAGAAAATAAAAATGATCGGGATTA
1 A-GTCAGAAAATAACAACGACTGAGATTAAACTGCGAGTCAAAAAAATAAAAATGATCGAGATTA
*
24649764 AACTATG
65 AACCATG
* * * * * * * *
24649771 AGTTAGAGAATAACAATGATTGGGATTAAACTGTGAGTCAAAAAAATAAAAACGATTGAGATTAA
1 AGTCAGAAAATAACAACGACTGAGATTAAACTGCGAGTCAAAAAAATAAAAATGATCGAGATTAA
*
24649836 A-TA-G
66 ACCATG
* * * * * * * *
24649840 CAAGTTTA-AAAATAAAAATGATCT-AGATTAAATTGTGAGTC-AGAGAATAATAATGA-CTGAG
1 --AG-TCAGAAAATAACAACGA-CTGAGATTAAACTGCGAGTCAAAAAAATAAAAATGATC-GAG
*
24649901 ATTAAACCGTG
61 ATTAAACCATG
*
24649912 AGTCAGAAAAATAAAAACGA-TCGAGATTAAA
1 AGTCAG-AAAATAACAACGACT-GAGATTAAA
24649943 TCGTAAGTTA
Statistics
Matches: 240, Mismatches: 54, Indels: 38
0.72 0.16 0.11
Matches are distributed among these distances:
69 4 0.02
70 83 0.35
71 142 0.59
72 11 0.05
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (71 bp):
AGTCAGAAAATAACAACGACTGAGATTAAACTGCGAGTCAAAAAAATAAAAATGATCGAGATTAA
ACCATG
Found at i:24649799 original size:35 final size:35
Alignment explanation
Indices: 24649672--24649942 Score: 142
Period size: 35 Copynumber: 7.7 Consensus size: 35
24649662 TCTAACCAGA
* * *
24649672 AAAATAAAAATGATCGAGATTAGACCAT-AGGTTAG
1 AAAATAAAAATGATCGGGATTAAACTATGA-GTTAG
* ****
24649707 AAAATAACAAA-GA-CTGGGATTGAACCGCAAGTTAG
1 AAAATAA-AAATGATC-GGGATTAAACTATGAGTTAG
24649742 AAAATAAAAATGATCGGGATTAAACTATGAGTTAG
1 AAAATAAAAATGATCGGGATTAAACTATGAGTTAG
* * * * * *
24649777 AGAATAACAATGATTGGGATTAAACTGTGAGTCAAA
1 AAAATAAAAATGATCGGGATTAAACTATGAGT-TAG
* * *
24649813 AAAATAAAAACGATTGAGATTAAA-TA-GCAAGTTTA-
1 AAAATAAAAATGATCGGGATTAAACTATG--AG-TTAG
** * * *
24649848 AAAATAAAAATGATCTAGATTAAATTGTGAGTCAG
1 AAAATAAAAATGATCGGGATTAAACTATGAGTTAG
* * * ** *
24649883 AGAATAATAATGA-CTGAGATTAAACCGTGAGTCAG
1 AAAATAAAAATGATC-GGGATTAAACTATGAGTTAG
* *
24649918 AAAAATAAAAACGATCGAGATTAAA
1 -AAAATAAAAATGATCGGGATTAAA
24649943 TCGTAAGTTA
Statistics
Matches: 186, Mismatches: 35, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
34 8 0.04
35 126 0.68
36 49 0.26
37 3 0.02
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.23
Consensus pattern (35 bp):
AAAATAAAAATGATCGGGATTAAACTATGAGTTAG
Found at i:24649852 original size:106 final size:106
Alignment explanation
Indices: 24649733--24649960 Score: 314
Period size: 106 Copynumber: 2.2 Consensus size: 106
24649723 GGATTGAACC
* * * *
24649733 GCAAGTTAGAAAATAAAAATGATCGGGATTAAACTATGAGTTAGAGAATAACAATGATTGGGATT
1 GCAAGTTAGAAAATAAAAATGATCGAGATTAAACTATGAGTCAGAGAATAACAATGACTGAGATT
* *
24649798 AAACTGTGAGTCAAAAAAATAAAAACGATTGAGATTAAATA
66 AAACCGTGAGTCAAAAAAATAAAAACGATCGAGATTAAATA
* * * *
24649839 GCAAGTTTA-AAAATAAAAATGATCTAGATTAAATTGTGAGTCAGAGAATAATAATGACTGAGAT
1 GCAAG-TTAGAAAATAAAAATGATCGAGATTAAACTATGAGTCAGAGAATAACAATGACTGAGAT
* *
24649903 TAAACCGTGAGTCAGAAAAATAAAAACGATCGAGATTAAATC
65 TAAACCGTGAGTCAAAAAAATAAAAACGATCGAGATTAAATA
* *
24649945 GTAAGTTAGAGAATAA
1 GCAAGTTAGAAAATAA
24649961 CCATAAGTCA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
105 3 0.03
106 100 0.94
107 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (106 bp):
GCAAGTTAGAAAATAAAAATGATCGAGATTAAACTATGAGTCAGAGAATAACAATGACTGAGATT
AAACCGTGAGTCAAAAAAATAAAAACGATCGAGATTAAATA
Found at i:24650062 original size:71 final size:71
Alignment explanation
Indices: 24649959--24650123 Score: 210
Period size: 71 Copynumber: 2.4 Consensus size: 71
24649949 GTTAGAGAAT
* * *
24649959 AACCATAAGTC--AAAAATAAAAATGATCGAGATTAAAACACAAGTCAGAGAATAACAACGACT-
1 AACCATAAGTCAGAAAAATAAAAACGATCAAGATTAAAACACAAGTCAGAGAATAACAAAGACTG
*
24650021 AGGATTG
66 A-AATTG
* * * *
24650028 AACCATGAGTCAGAAAAACAAAAACGATCAAGATTAAACCATAAGTCAGAGAATAACAAAGACTG
1 AACCATAAGTCAGAAAAATAAAAACGATCAAGATTAAAACACAAGTCAGAGAATAACAAAGACTG
24650093 AAATTG
66 AAATTG
* *
24650099 AACCGTAAGTTAGAAAAATAAAAAC
1 AACCATAAGTCAGAAAAATAAAAAC
24650124 AACTCGTAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 10 0.12
71 70 0.86
72 1 0.01
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.16
Consensus pattern (71 bp):
AACCATAAGTCAGAAAAATAAAAACGATCAAGATTAAAACACAAGTCAGAGAATAACAAAGACTG
AAATTG
Found at i:24650073 original size:123 final size:123
Alignment explanation
Indices: 24649847--24650084 Score: 325
Period size: 123 Copynumber: 1.9 Consensus size: 123
24649837 TAGCAAGTTT
* ***** * * *
24649847 AAAAATAAAAATGATCTAGATTAAATTGTGAGTCAGAGAATAATAATGACTGAGATTAAACCGTG
1 AAAAATAAAAATGATCGAGATTAAAACACAAGTCAGAGAATAACAACGACTGAGATTAAACCATG
* * * * *
24649912 AGTCAGAAAAATAAAAACGATCGAGATTAAATCGTAAGTTAGAGAATAACCATAAGTC
66 AGTCAGAAAAACAAAAACGATCAAGATTAAACCATAAGTCAGAGAATAACCATAAGTC
*
24649970 AAAAATAAAAATGATCGAGATTAAAACACAAGTCAGAGAATAACAACGACT-AGGATTGAACCAT
1 AAAAATAAAAATGATCGAGATTAAAACACAAGTCAGAGAATAACAACGACTGA-GATTAAACCAT
24650034 GAGTCAGAAAAACAAAAACGATCAAGATTAAACCATAAGTCAGAGAATAAC
65 GAGTCAGAAAAACAAAAACGATCAAGATTAAACCATAAGTCAGAGAATAAC
24650085 AAAGACTGAA
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
122 1 0.01
123 98 0.99
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (123 bp):
AAAAATAAAAATGATCGAGATTAAAACACAAGTCAGAGAATAACAACGACTGAGATTAAACCATG
AGTCAGAAAAACAAAAACGATCAAGATTAAACCATAAGTCAGAGAATAACCATAAGTC
Found at i:24650175 original size:61 final size:60
Alignment explanation
Indices: 24650069--24650182 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 60
24650059 GATTAAACCA
* *
24650069 TAAGTCAGAGAATAACAAAGACTGAAATTGAACCGTAAGTTAGAAAAATAAAAACAACTCG
1 TAAGTCAGAGAATAACAAAGACTGAAATTGAACCGCAAGTCAG-AAAATAAAAACAACTCG
* * * *
24650130 TAAGTCAGAGAATAACCACGACT-AAGATTGGATCGCAAGTCAGAAAATAAAAA
1 TAAGTCAGAGAATAACAAAGACTGAA-ATTGAACCGCAAGTCAGAAAATAAAAA
24650183 TAATTGAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 12 0.26
61 34 0.74
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.18
Consensus pattern (60 bp):
TAAGTCAGAGAATAACAAAGACTGAAATTGAACCGCAAGTCAGAAAATAAAAACAACTCG
Found at i:24650280 original size:70 final size:70
Alignment explanation
Indices: 24650149--24650307 Score: 178
Period size: 70 Copynumber: 2.3 Consensus size: 70
24650139 GAATAACCAC
* * * * * *
24650149 GACTAAGATTGGATCGCAAGTCAGAAAATAAAAATAATTGAGATTAAACTAGGAGTAAAAAAA-A
1 GACTAAGATTGAATCACAAGTCAAAAAATAAAAATAATCGAAATTAAACTAGGAATAAAAAAATA
24650213 AACAAT
66 AA-AAT
* * * *
24650219 GACTGAGATTGAATCACAAGTCAAAAAATAAAAATGATCGAAATTAAA-TCGTGAATTAAAAAAT
1 GACTAAGATTGAATCACAAGTCAAAAAATAAAAATAATCGAAATTAAACTAG-GAATAAAAAAAT
24650283 AAAAAT
65 AAAAAT
* *
24650289 AACTAAGATTAAATCACAA
1 GACTAAGATTGAATCACAA
24650308 ATAAGGGAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
69 2 0.03
70 69 0.93
71 3 0.04
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (70 bp):
GACTAAGATTGAATCACAAGTCAAAAAATAAAAATAATCGAAATTAAACTAGGAATAAAAAAATA
AAAAT
Found at i:24650440 original size:36 final size:37
Alignment explanation
Indices: 24650315--24650440 Score: 118
Period size: 36 Copynumber: 3.5 Consensus size: 37
24650305 CAAATAAGGG
* * *
24650315 AATAAAAATGAT-TGGGATTGAACCGCTAGTCAAAAA
1 AATAAAAATGATCTAGGATTGAACTGCGAGTCAAAAA
* * *
24650351 AATGAAAATGA-CTATGATTGAACTGTGAGTC-AAAA
1 AATAAAAATGATCTAGGATTGAACTGCGAGTCAAAAA
* * * * *
24650386 AATAACAA-CAACTGGGATTGAATTGCGAGTCAAAAA
1 AATAAAAATGATCTAGGATTGAACTGCGAGTCAAAAA
24650422 AATAAAAATGATC-AGGATT
1 AATAAAAATGATCTAGGATT
24650441 AAATTGCAAG
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
34 1 0.01
35 26 0.38
36 40 0.58
37 2 0.03
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (37 bp):
AATAAAAATGATCTAGGATTGAACTGCGAGTCAAAAA
Found at i:24650453 original size:71 final size:70
Alignment explanation
Indices: 24650327--24650515 Score: 191
Period size: 71 Copynumber: 2.7 Consensus size: 70
24650317 TAAAAATGAT
* * * * * **
24650327 TGGGATTGAACCGCTAGTCAAAAAAATGAAAATGACTATGATTGAACTGTGAGTCAAAAAATAAC
1 TGGGATTGAATCGCGAGTCAAAAAAATAAAAATGAC-ATGATTAAATTGCAAGTCAAAAAATAAC
24650392 AACAAC
65 AACAAC
* * * *
24650398 TGGGATTGAATTGCGAGTCAAAAAAATAAAAATGATCAGGATTAAATTGCAAGTCAGAGAATAAC
1 TGGGATTGAATCGCGAGTCAAAAAAATAAAAATGA-CATGATTAAATTGCAAGTCAAAAAATAAC
* *
24650463 AACTAT
65 AACAAC
* * * *
24650469 TGAGATTTAATCACGAGTC-AAAAAATAAAAACGACCATGATTAAATT
1 TGGGATTGAATCGCGAGTCAAAAAAATAAAAATGA-CATGATTAAATT
24650516 ACGAGTTAGA
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
70 25 0.26
71 71 0.73
72 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.23
Consensus pattern (70 bp):
TGGGATTGAATCGCGAGTCAAAAAAATAAAAATGACATGATTAAATTGCAAGTCAAAAAATAACA
ACAAC
Found at i:24650520 original size:35 final size:35
Alignment explanation
Indices: 24650377--24650521 Score: 94
Period size: 35 Copynumber: 4.1 Consensus size: 35
24650367 ATTGAACTGT
* * ** * *
24650377 GAGTCAAAAAATAACAACAACTGGGATTGAATTGC
1 GAGTCAAAAAATAAAAACGACCAGGATTAAATTAC
* * *
24650412 GAGTCAAAAAAATAAAAATGATCAGGATTAAATTGC
1 GAGTC-AAAAAATAAAAACGACCAGGATTAAATTAC
* * * * * ** * *
24650448 AAGTCAGAGAATAACAACTA-TTGAGATTTAATCAC
1 GAGTCAAAAAATAAAAACGACCAG-GATTAAATTAC
*
24650483 GAGTCAAAAAATAAAAACGACCATGATTAAATTAC
1 GAGTCAAAAAATAAAAACGACCAGGATTAAATTAC
24650518 GAGT
1 GAGT
24650522 TAGAGAATAA
Statistics
Matches: 79, Mismatches: 28, Indels: 6
0.70 0.25 0.05
Matches are distributed among these distances:
34 1 0.01
35 51 0.65
36 27 0.34
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (35 bp):
GAGTCAAAAAATAAAAACGACCAGGATTAAATTAC
Found at i:24650562 original size:70 final size:70
Alignment explanation
Indices: 24650401--24650568 Score: 176
Period size: 70 Copynumber: 2.4 Consensus size: 70
24650391 CAACAACTGG
* * * * *
24650401 GATTGAATTGCGAGTCAAAAAAATAAAAATGATCAGGATTAAATTGCAAGTCAGAGAATAACAAC
1 GATTGAATCGCGAGT-TAAAAAATAAAAACGACCAGGATTAAATTACAAGTCAGAGAATAACAAC
* **
24650466 TATTGA
65 GATCAA
* * * * * * *
24650472 GATTTAATCACGAGTCAAAAAATAAAAACGACCATGATTAAATTACGAGTTAGAGAATAACGA-G
1 GATTGAATCGCGAGTTAAAAAATAAAAACGACCAGGATTAAATTACAAGTCAGAGAATAACAACG
24650536 ATCAA
66 ATCAA
*
24650541 GATTGAATCGTGAGTTAAAAAATAAAAA
1 GATTGAATCGCGAGTTAAAAAATAAAAA
24650569 GACTGGGATT
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
69 27 0.34
70 40 0.51
71 12 0.15
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.23
Consensus pattern (70 bp):
GATTGAATCGCGAGTTAAAAAATAAAAACGACCAGGATTAAATTACAAGTCAGAGAATAACAACG
ATCAA
Found at i:24650617 original size:34 final size:33
Alignment explanation
Indices: 24650553--24650635 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 33
24650543 TTGAATCGTG
* * * *
24650553 AGTTAAAAAATAAAAAGACTGGGATTGAACTGTA
1 AGTT-AAAAATAAAGAGACTAGGATCGAACTGCA
*
24650587 AGTTAAAGAATAAAGAGATTAGGATCGAACTGCA
1 AGTTAAA-AATAAAGAGACTAGGATCGAACTGCA
*
24650621 AGTCAAAAATAAAGA
1 AGTTAAAAATAAAGA
24650636 TGACCAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 11 0.26
34 31 0.74
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.20
Consensus pattern (33 bp):
AGTTAAAAATAAAGAGACTAGGATCGAACTGCA
Found at i:24652749 original size:115 final size:115
Alignment explanation
Indices: 24652547--24652782 Score: 355
Period size: 115 Copynumber: 2.1 Consensus size: 115
24652537 AACAATACCC
*
24652547 ATTTAAAGTTTTCGAGGTTATAGGTCCACTCACATCCATTTTTCACATAAAGAAAGGCTATGACA
1 ATTTAAAGTTTTCGAGGTTATAGGTCCACTCACATCCATTTTTCACATAAAGAAAGGCCATGACA
*** *
24652612 GTGTCAAAACATGTAGTGAGATTGGAGGGGTATAAATTTTATCCATATAA
66 GTGTCAAAACATGTAGTGAGATTGGAAAAGAATAAATTTTATCCATATAA
* * * **
24652662 ATTTAAAGTTTTCGGGGTTATAGGTTCACTTACATCCATTTTTCACATAAAGAAAGGCCATGGTA
1 ATTTAAAGTTTTCGAGGTTATAGGTCCACTCACATCCATTTTTCACATAAAGAAAGGCCATGACA
* * *
24652727 GTGTCAAGACATGTAGTGAGATTGGAAAAGAATGAATTTTATCCGTATAA
66 GTGTCAAAACATGTAGTGAGATTGGAAAAGAATAAATTTTATCCATATAA
24652777 ATTTAA
1 ATTTAA
24652783 CATTTATGGC
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
115 108 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (115 bp):
ATTTAAAGTTTTCGAGGTTATAGGTCCACTCACATCCATTTTTCACATAAAGAAAGGCCATGACA
GTGTCAAAACATGTAGTGAGATTGGAAAAGAATAAATTTTATCCATATAA
Found at i:24654445 original size:23 final size:22
Alignment explanation
Indices: 24654419--24654475 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
24654409 CTTTTTCTTC
*
24654419 ATTTTATTTTTATTTTTTTTTGT
1 ATTTTATTTTTA-TTTTATTTGT
* *
24654442 ATTTGCATTTGTATTTTATTTGT
1 ATTT-TATTTTTATTTTATTTGT
24654465 ATTATTATTTT
1 ATT-TTATTTT
24654476 ATATATGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.74
Consensus pattern (22 bp):
ATTTTATTTTTATTTTATTTGT
Found at i:24654518 original size:17 final size:17
Alignment explanation
Indices: 24654419--24654515 Score: 65
Period size: 17 Copynumber: 5.5 Consensus size: 17
24654409 CTTTTTCTTC
* *
24654419 ATTTTATTTTTATTTTT
1 ATTTTATTTGTATTATT
* *
24654436 TTTTGTATTTGCATT-TGT
1 ATTT-TATTTGTATTAT-T
24654454 ATTTTATTTGTATTATT
1 ATTTTATTTGTATTATT
24654471 ATTTTATATATGTA-TATT
1 ATTTTAT-T-TGTATTATT
* *
24654489 -TTTTTTCTTTTATTATT
1 ATTTTAT-TTGTATTATT
24654506 ATTGTTATTT
1 ATT-TTATTT
24654516 TATCTTAGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
16 3 0.05
17 31 0.49
18 22 0.35
19 7 0.11
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.72
Consensus pattern (17 bp):
ATTTTATTTGTATTATT
Found at i:24655519 original size:14 final size:14
Alignment explanation
Indices: 24655500--24655639 Score: 54
Period size: 14 Copynumber: 9.3 Consensus size: 14
24655490 TCGGGTTTTT
*
24655500 TTTTTATTTGTTTA
1 TTTTTATTTATTTA
24655514 TTTTTATTTATTTA
1 TTTTTATTTATTTA
*
24655528 TTTATTAGATTAGGTTTA
1 TTT-TTA-TTTA--TTTA
* *
24655546 TTTAATATTCTTTTTA
1 TTT-TTATT-TATTTA
*
24655562 TCTTTATTTTATTTTTA
1 TTTTTA-TTTA--TTTA
* *
24655579 TTTTTGTTTTACTT-
1 TTTTT-ATTTATTTA
24655593 TTTTT-TTTATTTA
1 TTTTTATTTATTTA
*
24655606 TTTTCACTTTTATTT-
1 TTTTTA--TTTATTTA
24655621 TGTTTTA-TTATTCTA
1 T-TTTTATTTATT-TA
24655636 TTTT
1 TTTT
24655640 CTTTAAATAA
Statistics
Matches: 96, Mismatches: 14, Indels: 32
0.68 0.10 0.23
Matches are distributed among these distances:
12 6 0.06
13 9 0.09
14 25 0.26
15 10 0.10
16 22 0.23
17 13 0.14
18 11 0.11
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:24655523 original size:18 final size:18
Alignment explanation
Indices: 24655496--24655609 Score: 60
Period size: 18 Copynumber: 6.2 Consensus size: 18
24655486 CGCTTCGGGT
* *
24655496 TTTTTTTTTATTTGTTTA
1 TTTTTATTTATTTATTTA
24655514 TTTTTATTTATTTATTTA
1 TTTTTATTTATTTATTTA
* *
24655532 TTAGATTAGGTTTATTTA-ATA
1 TT--TTTA--TTTATTTATTTA
*
24655553 TTCTTT-TTATCTTTATTTTA
1 TT-TTTATT-TATTTA-TTTA
24655573 TTTTTATTT-TTGT-TTTA
1 TTTTTATTTATT-TATTTA
*
24655590 CTTTT-TTT-TTTATTTA
1 TTTTTATTTATTTATTTA
24655606 TTTT
1 TTTT
24655610 CACTTTTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
15 1 0.01
16 12 0.16
17 10 0.13
18 25 0.33
19 5 0.07
20 11 0.14
21 4 0.05
22 8 0.11
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTTTATTTATTTATTTA
Found at i:24655578 original size:17 final size:17
Alignment explanation
Indices: 24655556--24655639 Score: 75
Period size: 17 Copynumber: 4.9 Consensus size: 17
24655546 TTTAATATTC
*
24655556 TTTTTATCTTTATTTTA
1 TTTTTATTTTTATTTTA
*
24655573 TTTTTATTTTTGTTTTA
1 TTTTTATTTTTATTTTA
24655590 CTTTTT-TTTTTA-TTTA
1 -TTTTTATTTTTATTTTA
* *
24655606 TTTTCACTTTTATTTT-
1 TTTTTATTTTTATTTTA
*
24655622 GTTTTATTATTCTATTTT
1 TTTTTATT-TT-TATTTT
24655640 CTTTAAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
15 4 0.07
16 14 0.26
17 25 0.46
18 11 0.20
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTTATTTTA
Found at i:24655617 original size:12 final size:12
Alignment explanation
Indices: 24655557--24655621 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 12
24655547 TTAATATTCT
*
24655557 TTTTATCTTTA-
1 TTTTATTTTTAC
24655568 TTTTATTTTTA-
1 TTTTATTTTTAC
24655579 TTTT-TGTTTTAC
1 TTTTAT-TTTTAC
*
24655591 TTTTTTTTTTA-
1 TTTTATTTTTAC
*
24655602 -TTTATTTTCAC
1 TTTTATTTTTAC
24655613 TTTTATTTT
1 TTTTATTTT
24655622 GTTTTATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 9 0.20
11 19 0.41
12 17 0.37
13 1 0.02
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTAC
Found at i:24655627 original size:22 final size:21
Alignment explanation
Indices: 24655557--24655629 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
24655547 TTAATATTCT
*
24655557 TTTTATCTTTA-TTTTATTTTTAT
1 TTTTAT-TTTACTTTTA-TTTT-G
* *
24655580 TTTTGTTTTACTTTT-TTTTT
1 TTTTATTTTACTTTTATTTTG
24655600 TATTTATTTTCACTTTTATTTTG
1 T-TTTATTTT-ACTTTTATTTTG
24655623 TTTTATT
1 TTTTATT
24655630 ATTCTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.05
21 11 0.26
22 16 0.37
23 14 0.33
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTATTTTACTTTTATTTTG
Found at i:24655731 original size:59 final size:58
Alignment explanation
Indices: 24655663--24655933 Score: 334
Period size: 59 Copynumber: 4.6 Consensus size: 58
24655653 TAAAAAATAT
* *
24655663 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTTTCCAAAGA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATTAAAGTTTCAAAAAA
* * * *
24655722 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAGTTTC-AAAAAA
* * *
24655781 ATCAACTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTC-AAAAA
1 AT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATTAAAG-TTTCAAAAAA
* *
24655842 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT--AA-TAAATTTTCAAAAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAGTTTCAAAAAA
*
24655897 ATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
24655934 TCTACACAAA
Statistics
Matches: 184, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
54 4 0.02
55 10 0.05
56 2 0.01
57 31 0.17
58 12 0.07
59 75 0.41
61 39 0.21
62 7 0.04
63 4 0.02
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.37
Consensus pattern (58 bp):
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAGTTTCAAAAAA
Found at i:24655778 original size:120 final size:115
Alignment explanation
Indices: 24655654--24655933 Score: 434
Period size: 120 Copynumber: 2.4 Consensus size: 115
24655644 AAATAAAAAT
* *
24655654 AAAAAATATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTTTCCAA
1 AAAAAA-ATA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTCCAA
*
24655719 AGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
64 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTT---AATAAATTTTC
* *
24655774 AAAAAAAATCAACTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTCAA
1 -AAAAAAAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTCCAA
*
24655839 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAATAAATTTTC
64 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAATAAATTTTC
24655891 AAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAAAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
24655934 TCTACACAAA
Statistics
Matches: 150, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
116 41 0.27
117 11 0.07
120 91 0.61
121 7 0.05
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (115 bp):
AAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTCCAAAA
AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAATAAATTTTC
Found at i:24668615 original size:2 final size:2
Alignment explanation
Indices: 24668608--24668635 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24668598 GCTTTGTAAA
24668608 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
24668636 TTAAGCTCTT
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:24671743 original size:27 final size:27
Alignment explanation
Indices: 24671713--24671765 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24671703 CTTAGCTACA
*
24671713 ACTGTTGAAGCTA-ATGGGGCTGCTGCG
1 ACTGATGAAGC-AGATGGGGCTGCTGCG
*
24671740 ACTGATGAAGCAGCTGGGGCTGCTGC
1 ACTGATGAAGCAGATGGGGCTGCTGC
24671766 ACCCAATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.23
Consensus pattern (27 bp):
ACTGATGAAGCAGATGGGGCTGCTGCG
Found at i:24674531 original size:10 final size:10
Alignment explanation
Indices: 24674518--24674547 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24674508 ATTGAGTTTT
24674518 TATATTTTAA
1 TATATTTTAA
24674528 TATATTTTAA
1 TATATTTTAA
24674538 T-TATTTTAA
1 TATATTTTAA
24674547 T
1 T
24674548 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:24674544 original size:9 final size:9
Alignment explanation
Indices: 24674520--24674549 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
24674510 TGAGTTTTTA
24674520 TATTTTAAT
1 TATTTTAAT
24674529 ATATTTTAAT
1 -TATTTTAAT
24674539 TATTTTAAT
1 TATTTTAAT
24674548 TA
1 TA
24674550 ATAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:24676142 original size:2 final size:2
Alignment explanation
Indices: 24676135--24676164 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24676125 GAATTGATTC
*
24676135 GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
24676165 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24677265 original size:17 final size:18
Alignment explanation
Indices: 24677238--24677273 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24677228 TTATAATAAA
24677238 ATAAGATAAAATAATATT
1 ATAAGATAAAATAATATT
*
24677256 ATAA-ATAAAATTATATT
1 ATAAGATAAAATAATATT
24677273 A
1 A
24677274 AATAATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAGATAAAATAATATT
Found at i:24677276 original size:27 final size:26
Alignment explanation
Indices: 24677222--24677281 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
24677212 TACTTGGTAT
*
24677222 ATAAGATTATAATAAAATAAGATAAA
1 ATAATATTATAATAAAATAAGATAAA
* * *
24677248 ATAATATTATAAATAAAATTATATTAA
1 ATAATATTAT-AATAAAATAAGATAAA
24677275 ATAATAT
1 ATAATAT
24677282 GATTTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (26 bp):
ATAATATTATAATAAAATAAGATAAA
Found at i:24677337 original size:22 final size:22
Alignment explanation
Indices: 24677312--24677356 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24677302 GAGTGAAAAA
24677312 ATTATAATAAAA-TAATTTATTT
1 ATTA-AATAAAATTAATTTATTT
* *
24677334 ATTAATTAAAATTAATTTTTTT
1 ATTAAATAAAATTAATTTATTT
24677356 A
1 A
24677357 ATTTATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTAAATAAAATTAATTTATTT
Found at i:24695819 original size:25 final size:26
Alignment explanation
Indices: 24695774--24695842 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
24695764 ATCCAAACAA
**
24695774 TAAAA-AATAAATAATTGAATTATAT
1 TAAAATAATAAATAATAAAATTATAT
24695799 TAAAATAATAAATAA-AAAATTATAT
1 TAAAATAATAAATAATAAAATTATAT
* *
24695824 TCAAATAATGAAAAAATAA
1 TAAAATAAT-AAATAATAA
24695843 TAAAGTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 21 0.57
26 14 0.38
27 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (26 bp):
TAAAATAATAAATAATAAAATTATAT
Found at i:24699450 original size:58 final size:58
Alignment explanation
Indices: 24699224--24699658 Score: 601
Period size: 57 Copynumber: 7.5 Consensus size: 58
24699214 TTAGCCTTTA
**
24699224 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTC-AAAAAAGGTTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTT
* * *
24699280 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCCAAAAAATATTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTT
* * *
24699337 TGGGAAAAAGTAGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAATATTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTT
24699394 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTT
* *
24699452 TGGGGAAAAGTTGAAAGTATCAATTTTCCTAAAAAATAAATTTTCAAAAAAAAAAGATTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC---AAAAAAATATTTT
* * * *
24699513 TGAGGAAAAGTTGAAAGTATCAATTTCCCTTGAAAATCAAAGTTTCAAAAAAAAATATTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC--AAAAAAATATTTT
** * * *
24699574 TGAAGAAAAGTTGGAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAAAGTATTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA-TATTTT
24699633 T-GGGAAAAGTTGAAAGTATCAATTTT
1 TGGGGAAAAGTTGAAAGTATCAATTTT
24699659 TCCTACACAA
Statistics
Matches: 341, Mismatches: 30, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
56 42 0.12
57 99 0.29
58 89 0.26
59 7 0.02
60 6 0.02
61 91 0.27
62 7 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (58 bp):
TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATATTTT
Found at i:24702580 original size:22 final size:23
Alignment explanation
Indices: 24702555--24702597 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24702545 TGGATGAAAA
*
24702555 ATGAAAAA-AAAGAAAAAAGATG
1 ATGAAAAATAAAAAAAAAAGATG
24702577 ATGAAAAATAAAAAAAAAAGA
1 ATGAAAAATAAAAAAAAAAGA
24702598 AAGAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (23 bp):
ATGAAAAATAAAAAAAAAAGATG
Found at i:24702581 original size:29 final size:28
Alignment explanation
Indices: 24702547--24702636 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 28
24702537 ATCAACACTG
24702547 GATGAAAAATGAAAAAAAAGAAAAAAGA
1 GATGAAAAATGAAAAAAAAGAAAAAAGA
*
24702575 TGATGAAAAATAAAAAAAAAAGAAAGAAAGA
1 -GATGAAAAAT-GAAAAAAAAGAAA-AAAGA
* * *
24702606 -AGGAAAAAATGAGAAAAATGAAAAAAGA
1 GATG-AAAAATGAAAAAAAAGAAAAAAGA
24702634 GAT
1 GAT
24702637 TCAAATTGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
28 5 0.10
29 23 0.45
30 18 0.35
31 5 0.10
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (28 bp):
GATGAAAAATGAAAAAAAAGAAAAAAGA
Found at i:24702594 original size:30 final size:30
Alignment explanation
Indices: 24702547--24702605 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
24702537 ATCAACACTG
*
24702547 GATGAAAAATGAAAAAAAAGAAA-AAAGAT
1 GATGAAAAATAAAAAAAAAGAAAGAAAGAT
24702576 GATGAAAAATAAAAAAAAAAGAAAGAAAGA
1 GATGAAAAAT-AAAAAAAAAGAAAGAAAGA
24702606 AGGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
30 12 0.44
31 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (30 bp):
GATGAAAAATAAAAAAAAAGAAAGAAAGAT
Found at i:24702614 original size:30 final size:29
Alignment explanation
Indices: 24702550--24702634 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 29
24702540 AACACTGGAT
* *
24702550 GAAAAAT-GAAAAAAAAGAAAAAAGATGA
1 GAAAAATAAAAAAAAAAGAAAAAAGAGGA
24702578 TGAAAAATAAAAAAAAAAGAAAGAAAGAAGGA
1 -GAAAAATAAAAAAAAAAGAAA-AAAG-AGGA
* * *
24702610 -AAAAAT-GAGAAAAATGAAAAAAGAG
1 GAAAAATAAAAAAAAAAGAAAAAAGAG
24702635 ATTCAAATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 17 0.35
30 18 0.38
31 4 0.08
32 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (29 bp):
GAAAAATAAAAAAAAAAGAAAAAAGAGGA
Found at i:24703978 original size:83 final size:82
Alignment explanation
Indices: 24703869--24704045 Score: 275
Period size: 83 Copynumber: 2.1 Consensus size: 82
24703859 GTCAAGGAGT
* *
24703869 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTGGT
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAACAATTTACTTTTCAAAA-TCGTGAT
*
24703933 GCCTCTGTTTAAAAGAAC
65 ACCTCTGTTTAAAAGAAC
24703951 AATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAACAATTTACTTTTTCAAAATCGTGA
1 AATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAACAATTTAC-TTTTCAAAATCGTGA
* *
24704016 TACCTCTGTTTAGAGGAAC
64 TACCTCTGTTTAAAAGAAC
24704035 AATTTACTTTT
1 AATTTACTTTT
24704046 TTCAATTAGA
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
82 12 0.14
83 35 0.40
84 32 0.37
85 8 0.09
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (82 bp):
AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAACAATTTACTTTTCAAAATCGTGATA
CCTCTGTTTAAAAGAAC
Found at i:24704046 original size:42 final size:42
Alignment explanation
Indices: 24703869--24704045 Score: 279
Period size: 42 Copynumber: 4.3 Consensus size: 42
24703859 GTCAAGGAGT
*
24703869 AATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
* *
24703910 AATTTAC-TTTCAAAAGTCGTGGTGCCTCTGTTTAAAAGAAC
1 AATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
24703951 AATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
1 AATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
* *
24703993 AATTTACTTTTTCAAAA-TCGTGATACCTCTGTTTAGAGGAAC
1 AATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
24704035 AATTTACTTTT
1 AATTTACTTTT
24704046 TTCAATTAGA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
40 4 0.03
41 44 0.35
42 69 0.55
43 9 0.07
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (42 bp):
AATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
Found at i:24724895 original size:16 final size:15
Alignment explanation
Indices: 24724876--24724905 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24724866 AAATTTCAAA
24724876 AAATATATATATCATG
1 AAATATATAT-TCATG
24724892 AAATATATATTCAT
1 AAATATATATTCAT
24724906 ACTTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
AAATATATATTCATG
Found at i:24725724 original size:25 final size:25
Alignment explanation
Indices: 24725696--24725753 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
24725686 AAATAATAAT
24725696 AAAATTTTTTATAATTATGATTGAAA
1 AAAATTTTTTATAATTATGATT-AAA
* *
24725722 AAAA-TTATTGTAATTATGATTAAA
1 AAAATTTTTTATAATTATGATTAAA
24725746 AAAATTTT
1 AAAATTTT
24725754 AATAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.25
25 17 0.61
26 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (25 bp):
AAAATTTTTTATAATTATGATTAAA
Found at i:24725802 original size:28 final size:28
Alignment explanation
Indices: 24725748--24725807 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
24725738 TGATTAAAAA
*
24725748 AATTTTAATAAAATTTTTATATTAATTT
1 AATTTTAATAAAATTTATATATTAATTT
* *
24725776 AATTTTATTAAAATTTATGT-TTGAATTT
1 AATTTTAATAAAATTTATATATT-AATTT
24725804 AATT
1 AATT
24725808 AAAAGTACGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
AATTTTAATAAAATTTATATATTAATTT
Found at i:24768429 original size:21 final size:23
Alignment explanation
Indices: 24768403--24768449 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
24768393 AACTTAATTT
24768403 TTTATACAATTTTT-ATTT-TAA
1 TTTATACAATTTTTAATTTATAA
* *
24768424 TTTATATATTTTTTAATTTATAA
1 TTTATACAATTTTTAATTTATAA
24768447 TTT
1 TTT
24768450 TTATATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 4 0.18
23 6 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATACAATTTTTAATTTATAA
Found at i:24768447 original size:23 final size:21
Alignment explanation
Indices: 24768403--24768455 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
24768393 AACTTAATTT
* *
24768403 TTTATACAATTTTTATTTTAA
1 TTTATATATTTTTTATTTTAA
24768424 TTTATATATTTTTTAATTTATAA
1 TTTATATATTTTTT-ATTT-TAA
*
24768447 TTTTTATAT
1 TTTATATAT
24768456 ACATATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 12 0.44
22 4 0.15
23 11 0.41
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTATATATTTTTTATTTTAA
Found at i:24768452 original size:14 final size:16
Alignment explanation
Indices: 24768418--24768451 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
24768408 ACAATTTTTA
24768418 TTTTAATTTATATATT
1 TTTTAATTTATATATT
24768434 TTTTAATTTATA-ATT
1 TTTTAATTTATATATT
24768449 TTT
1 TTT
24768452 ATATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTATATATT
Found at i:24770521 original size:17 final size:17
Alignment explanation
Indices: 24770492--24770525 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24770482 CCTATCAATA
24770492 AATATATTTATTAATTT
1 AATATATTTATTAATTT
24770509 AATA-ATTTAATTAATTT
1 AATATATTT-ATTAATTT
24770526 TATTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATATTTATTAATTT
Found at i:24770619 original size:18 final size:18
Alignment explanation
Indices: 24770588--24770629 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24770578 CAACCTTAAA
*
24770588 ATTATTAATTTGTATAATT
1 ATTA-TAATATGTATAATT
*
24770607 ATTATAATATGTATGATT
1 ATTATAATATGTATAATT
24770625 ATTAT
1 ATTAT
24770630 CGTATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (18 bp):
ATTATAATATGTATAATT
Found at i:24771327 original size:14 final size:15
Alignment explanation
Indices: 24771297--24771334 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
24771287 TTTGAGAAAA
24771297 AAAATTATAAATATT
1 AAAATTATAAATATT
*
24771312 AAAATT-TAAATCTT
1 AAAATTATAAATATT
*
24771326 AAACTTATA
1 AAAATTATA
24771335 GAATGCTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:24771881 original size:20 final size:21
Alignment explanation
Indices: 24771848--24771889 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
24771838 TTATGCCATA
*
24771848 GTTGTTTTATCATAAGAAGGG
1 GTTGTTTTACCATAAGAAGGG
24771869 GTTG-TTTACCATAAGAAGGG
1 GTTGTTTTACCATAAGAAGGG
24771889 G
1 G
24771890 CCATGGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.33
Consensus pattern (21 bp):
GTTGTTTTACCATAAGAAGGG
Found at i:24780369 original size:16 final size:16
Alignment explanation
Indices: 24780338--24780380 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
24780328 GATAATTTAA
24780338 AATATAATATAATAATAT
1 AATATAA-A-AATAATAT
24780356 AATATAAAAATAATAT
1 AATATAAAAATAATAT
*
24780372 AATTTAAAA
1 AATATAAAA
24780381 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.67
17 1 0.04
18 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAAAAATAATAT
Found at i:24780370 original size:11 final size:12
Alignment explanation
Indices: 24780329--24780373 Score: 65
Period size: 13 Copynumber: 3.8 Consensus size: 12
24780319 ATTAAATTTG
*
24780329 ATAATTTAAAAT
1 ATAATATAAAAT
24780341 ATAATATAATAAT
1 ATAATATAA-AAT
24780354 ATAATATAAAA-
1 ATAATATAAAAT
24780365 ATAATATAA
1 ATAATATAA
24780374 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 9 0.29
12 10 0.32
13 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:24790282 original size:20 final size:20
Alignment explanation
Indices: 24790238--24790282 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
24790228 TATCAAAGTA
*
24790238 AAAG-AAAAAAACAAGAAAG
1 AAAGAAAAAAAACAAGAAAC
* *
24790257 AGAGAAAAAAAACATGAAAC
1 AAAGAAAAAAAACAAGAAAC
24790277 AAAGAA
1 AAAGAA
24790283 TAAGGAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAAAACAAGAAAC
Found at i:24792279 original size:22 final size:23
Alignment explanation
Indices: 24792253--24792308 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
24792243 TTTAATATTT
*
24792253 AAATTTAATTTAAA-CTAATAAA
1 AAATTTAATTTAAATCAAATAAA
24792275 AAA-TTAATTTAAATCAAATAAA
1 AAATTTAATTTAAATCAAATAAA
*
24792297 ATATTATAATTT
1 AAATT-TAATTT
24792309 TAAGTCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 10 0.34
22 12 0.41
23 1 0.03
24 6 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATTTAATTTAAATCAAATAAA
Found at i:24792550 original size:20 final size:18
Alignment explanation
Indices: 24792515--24792561 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
24792505 TTATTATAAT
*
24792515 AAAATTATTTAAAAAATA
1 AAAATTATATAAAAAATA
24792533 AAAATTAGTATAATAAAATA
1 AAAATTA-TATAA-AAAATA
24792553 AAAA-TATAT
1 AAAATTATAT
24792562 GATAATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 6 0.23
20 10 0.38
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAATTATATAAAAAATA
Found at i:24792567 original size:21 final size:20
Alignment explanation
Indices: 24792515--24792557 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24792505 TTATTATAAT
*
24792515 AAAATTA-TTTAA-AAAATA
1 AAAATTAGTATAATAAAATA
24792533 AAAATTAGTATAATAAAATA
1 AAAATTAGTATAATAAAATA
24792553 AAAAT
1 AAAAT
24792558 ATATGATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATTAGTATAATAAAATA
Found at i:24795362 original size:29 final size:23
Alignment explanation
Indices: 24795319--24795381 Score: 63
Period size: 29 Copynumber: 2.4 Consensus size: 23
24795309 TAATTATTAA
24795319 TTTATCATTTTGTTTGCCAGTTATTACT
1 TTTATC-TTTTGTTTG--AGTTATT--T
24795347 TGTTATCTTTTGGTTTGAGTTATTT
1 T-TTATCTTTT-GTTTGAGTTATTT
24795372 TTTATCTTTT
1 TTTATCTTTT
24795382 AACATTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 9 0.27
25 2 0.06
27 7 0.21
28 5 0.15
29 10 0.30
ACGTcount: A:0.14, C:0.10, G:0.13, T:0.63
Consensus pattern (23 bp):
TTTATCTTTTGTTTGAGTTATTT
Found at i:24803162 original size:109 final size:109
Alignment explanation
Indices: 24802971--24803174 Score: 311
Period size: 109 Copynumber: 1.9 Consensus size: 109
24802961 TTCTGCATAT
* *
24802971 ACATTATGAAAGCATGTTAAAGTGATATAATATTACATCTAATAAATATTTAATTTTTTATAATC
1 ACATTATGAAAACATGTTAAAGTGATATAATATCACATCTAATAAATATTTAATTTTTTATAATC
24803036 TTATATTCAAATGGGATAATTTCACTTATTCCATCTCCATTTAC
66 TTATATTCAAATGGGATAATTTCACTTATTCCATCTCCATTTAC
* * * *
24803080 ACATTATGAAAACCTGTTAAAGT-ACTGTAATCTCACATTTAATAAATATTTAATTTTTTATAAT
1 ACATTATGAAAACATGTTAAAGTGA-TATAATATCACATCTAATAAATATTTAATTTTTTATAAT
* * *
24803144 CTTATATTCATATTGGATAATTTCATTTATT
65 CTTATATTCAAATGGGATAATTTCACTTATT
24803175 ATCAATTAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 1 0.01
109 84 0.99
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (109 bp):
ACATTATGAAAACATGTTAAAGTGATATAATATCACATCTAATAAATATTTAATTTTTTATAATC
TTATATTCAAATGGGATAATTTCACTTATTCCATCTCCATTTAC
Found at i:24803553 original size:206 final size:205
Alignment explanation
Indices: 24803197--24803595 Score: 690
Period size: 206 Copynumber: 1.9 Consensus size: 205
24803187 TAAATTGGAT
* *
24803197 ACAAGTATTATAAATAAAATTAACCCTTTGAATAATTAAAAAATATAGTTCAGTGAATATTCATT
1 ACAAGTATTATAAATAAAATTAACCCTTTGAATAATTAAAAAAAATAATTCAGTGAATATTCATT
24803262 TGCTTATTTGAAATGAGTAGAGTAATATAATGTGGAACAACTCCTTGCATTATCCCAAATCTTGT
66 TGCTTATTTGAAATGAGTAGAGTAATATAATGTGGAACAACTCCTTGCATTATCCCAAATCTTGT
* * *
24803327 CTTTAATACTTGAAATTGGAACATTGATTTTAAAATTAAAAAATATATACAATCAAATATACAAG
131 CTTCAATACTTGAAATTGGAACATTGATTTTAAAATTAAAAAA-AAAAACAATCAAATATACAAG
24803392 CTTAACACCAA
195 CTTAACACCAA
*
24803403 ACAAGTATTATAAATAAAATTAACCCTTTGAATAATTAAAAAAAATAATTCATTGAATATTCATT
1 ACAAGTATTATAAATAAAATTAACCCTTTGAATAATTAAAAAAAATAATTCAGTGAATATTCATT
* * * *
24803468 TGTTTATTTGCAATGAGTTGAGTAATATAATGTGGAATAACTCCTTGCATTATCCCAAATCTTGT
66 TGCTTATTTGAAATGAGTAGAGTAATATAATGTGGAACAACTCCTTGCATTATCCCAAATCTTGT
*
24803533 CTTCAATACTTGACATTGGAACATTGATTTTAAAATTAAAAAAAAAAACAATCAAATATACAA
131 CTTCAATACTTGAAATTGGAACATTGATTTTAAAATTAAAAAAAAAAACAATCAAATATACAA
24803596 TAAAATCATT
Statistics
Matches: 182, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
205 18 0.10
206 164 0.90
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (205 bp):
ACAAGTATTATAAATAAAATTAACCCTTTGAATAATTAAAAAAAATAATTCAGTGAATATTCATT
TGCTTATTTGAAATGAGTAGAGTAATATAATGTGGAACAACTCCTTGCATTATCCCAAATCTTGT
CTTCAATACTTGAAATTGGAACATTGATTTTAAAATTAAAAAAAAAAACAATCAAATATACAAGC
TTAACACCAA
Found at i:24814823 original size:30 final size:30
Alignment explanation
Indices: 24814740--24814836 Score: 96
Period size: 29 Copynumber: 3.4 Consensus size: 30
24814730 AAATTTTAAA
24814740 TTTAAAAAATTAA--TAAA-TCAAATCAA-
1 TTTAAAAAATTAATTTAAATTCAAATCAAT
* * * * *
24814766 TTGATAAAATTTATTTTAGATT-GAATCAAT
1 TTTA-AAAAATTAATTTAAATTCAAATCAAT
24814796 TTTAAAAAATTAATTTAAATTCAAATCAAT
1 TTTAAAAAATTAATTTAAATTCAAATCAAT
*
24814826 TTTTAAAAATT
1 TTTAAAAAATT
24814837 TATAATATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
26 3 0.06
27 7 0.13
29 23 0.43
30 21 0.39
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (30 bp):
TTTAAAAAATTAATTTAAATTCAAATCAAT
Found at i:24824759 original size:32 final size:32
Alignment explanation
Indices: 24824699--24824760 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
24824689 TGATTATTCG
*
24824699 TGTATCTATATCATATAAAATATTAAAATTTA
1 TGTATCTATATCATATAAAATATAAAAATTTA
* ***
24824731 TGTATTTATATCATATTTTATATAAAAATT
1 TGTATCTATATCATATAAAATATAAAAATT
24824761 ATACGTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (32 bp):
TGTATCTATATCATATAAAATATAAAAATTTA
Found at i:24830812 original size:21 final size:22
Alignment explanation
Indices: 24830788--24830830 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24830778 TTCCTAACTG
*
24830788 AAAATTGA-ACAAAAAAATGGA
1 AAAATTAAGACAAAAAAATGGA
24830809 AAAATTAAGACAAAAAAATGGA
1 AAAATTAAGACAAAAAAATGGA
24830831 GATAGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAATTAAGACAAAAAAATGGA
Found at i:24831297 original size:26 final size:25
Alignment explanation
Indices: 24831236--24831303 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
24831226 ATTTGTCTCG
24831236 ATTTTATATTTATAATTTTTAAATT
1 ATTTTATATTTATAATTTTTAAATT
**
24831261 -TGATATAATTTGAT-ATTTTTAAAATT
1 ATTTTAT-ATTT-ATAATTTTT-AAATT
24831287 ATTTTATATTTA-AATTT
1 ATTTTATATTTATAATTT
24831304 AATTAGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
24 4 0.12
25 15 0.44
26 11 0.32
27 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (25 bp):
ATTTTATATTTATAATTTTTAAATT
Found at i:24832117 original size:2 final size:2
Alignment explanation
Indices: 24832110--24832137 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24832100 TGATATTTGC
24832110 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
24832138 TAATAGTTCA
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:24835934 original size:21 final size:21
Alignment explanation
Indices: 24835894--24835935 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24835884 TGTATATCTC
* *
24835894 TTCATAAAAATTACATATTTA
1 TTCATAAAAAATACAAATTTA
*
24835915 TTCATAAAAAATCCAAATTTA
1 TTCATAAAAAATACAAATTTA
24835936 ATTTCGTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
TTCATAAAAAATACAAATTTA
Found at i:24838354 original size:17 final size:17
Alignment explanation
Indices: 24838332--24838370 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
24838322 CGAAATCAAG
24838332 AAAATAAA-AAAGAAAGA
1 AAAATAAAGAAAGAAA-A
*
24838349 AAAATAAAGAAATAAAA
1 AAAATAAAGAAAGAAAA
24838366 AAAAT
1 AAAAT
24838371 GTTAAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAATAAAGAAAGAAAA
Found at i:24862682 original size:18 final size:18
Alignment explanation
Indices: 24862659--24862694 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24862649 GTTCCATGCT
24862659 CCCTTTCCTCAGAAGGCA
1 CCCTTTCCTCAGAAGGCA
24862677 CCCTTTCCTCAGAAGGCA
1 CCCTTTCCTCAGAAGGCA
24862695 ATGTAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (18 bp):
CCCTTTCCTCAGAAGGCA
Found at i:24877796 original size:24 final size:24
Alignment explanation
Indices: 24877734--24877796 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
24877724 AAATAATAAT
*
24877734 AAAATTTATTATAATTATAATTAAAA
1 AAAATTTA--ATAAATATAATTAAAA
* ** *
24877760 AAAATATCGTAAATATGATTAAAA
1 AAAATTTAATAAATATAATTAAAA
24877784 AAAATTTAATAAA
1 AAAATTTAATAAA
24877797 AAATTTATGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 23 0.79
26 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (24 bp):
AAAATTTAATAAATATAATTAAAA
Found at i:24878681 original size:2 final size:2
Alignment explanation
Indices: 24878669--24878698 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
24878659 AGGACCACAA
24878669 AT AT CAT 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
24878699 AAAAAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.