Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, 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: 5289199
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 23
Found at i:2697643 original size:9 final size:9
Alignment explanation
Indices: 2697465--2697644 Score: 55
Period size: 9 Copynumber: 19.9 Consensus size: 9
2697455 TTTAACGTTT
2697465 TTTATTTTA
1 TTTATTTTA
2697474 CTTTATTCTT-
1 -TTTATT-TTA
2697484 TTTATTTTCA
1 TTTATTTT-A
2697494 -TTATTATTA
1 TTTATT-TTA
*
2697503 -TTACATTT-
1 TTTA-TTTTA
2697511 TTTACTTATCTA
1 TTTA-TT-T-TA
*
2697523 TTTAATTTA
1 TTTATTTTA
2697532 TTATATTATTA
1 TT-TATT-TTA
*
2697543 -TTATATTA
1 TTTATTTTA
2697551 -TT-TTTTA
1 TTTATTTTA
* *
2697558 TATATTTTT
1 TTTATTTTA
2697567 TTTAATTTTA
1 TTT-ATTTTA
2697577 TTTA-TTT-
1 TTTATTTTA
2697584 TTTATTTTGA
1 TTTATTTT-A
2697594 CTTT-TTTT-
1 -TTTATTTTA
* **
2697602 TCTTCTTTCC
1 T-TTATTTTA
2697612 TTTGA-TTTA
1 TTT-ATTTTA
2697621 -TTATTTTA
1 TTTATTTTA
2697629 -TTATTTTA
1 TTTATTTTA
2697637 TTTATTTT
1 TTTATTTT
2697645 TCCCCCTAAT
Statistics
Matches: 132, Mismatches: 14, Indels: 49
0.68 0.07 0.25
Matches are distributed among these distances:
7 10 0.08
8 30 0.23
9 50 0.38
10 28 0.21
11 10 0.08
12 4 0.03
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (9 bp):
TTTATTTTA
Found at i:2698937 original size:20 final size:20
Alignment explanation
Indices: 2698901--2698939 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2698891 AATTAAAACA
*
2698901 TGTTTAAAGTATTTAAAATG
1 TGTTTAAAGTATATAAAATG
2698921 TGTTTAAAGCT-TATAAAAT
1 TGTTTAAAG-TATATAAAAT
2698940 ATGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTTTAAAGTATATAAAATG
Found at i:2700889 original size:49 final size:49
Alignment explanation
Indices: 2700804--2700917 Score: 158
Period size: 49 Copynumber: 2.3 Consensus size: 49
2700794 ATTGAAATTT
* * *
2700804 TTAT-TGTGGTTTAATGCTTTTTTTGGCACGAGATTTGAATATGATTAA
1 TTATATGTTGTTTGATGCTTTTTTGGGCACGAGATTTGAATATGATTAA
** *
2700852 TTATATGTTGTTTGATGCTTTTTTGGGCTTGAGATTTGAATGTGATTAA
1 TTATATGTTGTTTGATGCTTTTTTGGGCACGAGATTTGAATATGATTAA
*
2700901 TTATATGTTCTTTGATG
1 TTATATGTTGTTTGATG
2700918 TTTATTGATG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 4 0.07
49 54 0.93
ACGTcount: A:0.22, C:0.05, G:0.22, T:0.51
Consensus pattern (49 bp):
TTATATGTTGTTTGATGCTTTTTTGGGCACGAGATTTGAATATGATTAA
Found at i:2705189 original size:32 final size:32
Alignment explanation
Indices: 2705148--2705267 Score: 134
Period size: 32 Copynumber: 3.8 Consensus size: 32
2705138 CTAAGGTGAG
* * *
2705148 CTTGGGTAGGCTTTGAGGCCCCAAGGCATTTC
1 CTTGGGTAGGCTTTAAGGCCCCAAGGTACTTC
*
2705180 CTTGGGTAGGCTCTAAGGCCCCAAGGTACTTC
1 CTTGGGTAGGCTTTAAGGCCCCAAGGTACTTC
* * * *
2705212 CTTGGGTAGG-TTCTTAGGTCCTAAGGTACTAC
1 CTTGGGTAGGCTT-TAAGGCCCCAAGGTACTTC
* *
2705244 CTTGGGTAGGCTATCAGGCCCCAA
1 CTTGGGTAGGCTTTAAGGCCCCAA
2705268 TATATTCCCT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
31 1 0.01
32 71 0.97
33 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (32 bp):
CTTGGGTAGGCTTTAAGGCCCCAAGGTACTTC
Found at i:2718493 original size:6 final size:6
Alignment explanation
Indices: 2718475--2718528 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
2718465 TTTCAGAAAC
* * *
2718475 TTTCAT ATTTCAT TTTCAT CTTTCAC TTCCATT TTTCAT TTTCAT ATTCAT
1 TTTCAT -TTTCAT TTTCAT -TTTCAT TTTCA-T TTTCAT TTTCAT TTTCAT
2718526 TTT
1 TTT
2718529 TATATTTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
6 24 0.62
7 15 0.38
ACGTcount: A:0.19, C:0.20, G:0.00, T:0.61
Consensus pattern (6 bp):
TTTCAT
Found at i:2718493 original size:13 final size:13
Alignment explanation
Indices: 2718475--2718535 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
2718465 TTTCAGAAAC
2718475 TTTCATATTTCAT
1 TTTCATATTTCAT
* *
2718488 TTTCATCTTTCAC
1 TTTCATATTTCAT
* *
2718501 TTCCATTTTTCAT
1 TTTCATATTTCAT
2718514 TTTCATA-TTCAT
1 TTTCATATTTCAT
*
2718526 TTTTATATTT
1 TTTCATATTT
2718536 TAGATAATGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
12 11 0.28
13 28 0.72
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTCATATTTCAT
Found at i:2721717 original size:14 final size:14
Alignment explanation
Indices: 2721698--2721763 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 14
2721688 TTTGATTTTA
2721698 ATTTTAATATTAAT
1 ATTTTAATATTAAT
2721712 ATTTTAA-A-TAA-
1 ATTTTAATATTAAT
*
2721723 A-TTAAATATTAAT
1 ATTTTAATATTAAT
*
2721736 TTTTTAATATT-AT
1 ATTTTAATATTAAT
*
2721749 ATTATAGATATTAAT
1 ATTTTA-ATATTAAT
2721764 TTTAATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
10 4 0.10
11 2 0.05
12 6 0.15
13 7 0.17
14 20 0.49
15 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
ATTTTAATATTAAT
Found at i:2721746 original size:32 final size:32
Alignment explanation
Indices: 2721707--2721804 Score: 118
Period size: 32 Copynumber: 3.2 Consensus size: 32
2721697 AATTTTAATA
2721707 TTAATATTTTAAATAAATTAAATATTAATTTT
1 TTAATATTTTAAATAAATTAAATATTAATTTT
* * *
2721739 TTAATA--TTATAT-TA-TAGATATTAA--TT
1 TTAATATTTTAAATAAATTAAATATTAATTTT
*
2721765 TTAATTTTTTAAATAAATTAAATATTAATTTT
1 TTAATATTTTAAATAAATTAAATATTAATTTT
2721797 TTAATATT
1 TTAATATT
2721805 ATATTATAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
26 7 0.13
28 14 0.27
29 2 0.04
30 14 0.27
32 15 0.29
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (32 bp):
TTAATATTTTAAATAAATTAAATATTAATTTT
Found at i:2721760 original size:28 final size:28
Alignment explanation
Indices: 2721704--2721825 Score: 103
Period size: 28 Copynumber: 4.4 Consensus size: 28
2721694 TTTAATTTTA
*
2721704 ATATTAATATTTTAA-A-TAAATTA-A-
1 ATATTAATTTTTTAATATTAAATTATAG
*
2721728 ATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAATATTAAATTATAG
* * *
2721756 ATATTAA--TTTTAATTTTTTAAATAAATTAA
1 ATATTAATTTTTTAA--TATTAAAT-TA-TAG
*
2721786 ATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAATATTAAATTATAG
2721814 ATATTTAATTTT
1 ATA-TTAATTTT
2721826 ATATCATATA
Statistics
Matches: 77, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
24 14 0.18
25 1 0.01
26 12 0.16
27 1 0.01
28 18 0.23
29 10 0.13
30 15 0.19
32 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
ATATTAATTTTTTAATATTAAATTATAG
Found at i:2721769 original size:58 final size:59
Alignment explanation
Indices: 2721700--2721826 Score: 229
Period size: 58 Copynumber: 2.2 Consensus size: 59
2721690 TGATTTTAAT
*
2721700 TTTAATATTAATATTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
1 TTTAATTTTAATATTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
*
2721759 -TTAATTTTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
1 TTTAATTTTAATATTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
2721817 TTTAATTTTA
1 TTTAATTTTA
2721827 TATCATATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 56 0.86
59 9 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (59 bp):
TTTAATTTTAATATTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
Found at i:2721881 original size:20 final size:19
Alignment explanation
Indices: 2721821--2721882 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
2721811 TAGATATTTA
*
2721821 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
2721840 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
2721858 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
2721878 ATTTT
1 ATTTT
2721883 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:2722384 original size:31 final size:31
Alignment explanation
Indices: 2722349--2722408 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
2722339 TAGTTGTATG
* *
2722349 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
2722380 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
2722409 CTTTTAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:2722700 original size:20 final size:20
Alignment explanation
Indices: 2722675--2722721 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2722665 TAAGAGTTTT
2722675 GAAACTTTCATCAAAGTCTC
1 GAAACTTTCATCAAAGTCTC
* * * *
2722695 GAAACTTTGATTAAAGTTTT
1 GAAACTTTCATCAAAGTCTC
2722715 GAAACTT
1 GAAACTT
2722722 ATCCTAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
GAAACTTTCATCAAAGTCTC
Found at i:2722988 original size:13 final size:13
Alignment explanation
Indices: 2722965--2723022 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
2722955 GTCATAAATC
*
2722965 TATGACGTGCATT
1 TATGACATGCATT
*
2722978 TGTGACATGCATT
1 TATGACATGCATT
**
2722991 TATGACACACATT
1 TATGACATGCATT
* *
2723004 TATAACATGTATT
1 TATGACATGCATT
2723017 TATGAC
1 TATGAC
2723023 GAGCATTGCG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TATGACATGCATT
Found at i:2722994 original size:26 final size:26
Alignment explanation
Indices: 2722965--2723029 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
2722955 GTCATAAATC
* * *
2722965 TATGACGTGCATTTGTGACATGCATT
1 TATGACGAGCATTTATAACATGCATT
* *
2722991 TATGAC-ACACATTTATAACATGTATT
1 TATGACGA-GCATTTATAACATGCATT
2723017 TATGACGAGCATT
1 TATGACGAGCATT
2723030 GCGCGTCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (26 bp):
TATGACGAGCATTTATAACATGCATT
Found at i:2723184 original size:45 final size:45
Alignment explanation
Indices: 2723117--2723213 Score: 167
Period size: 45 Copynumber: 2.2 Consensus size: 45
2723107 CTTAAATTGC
*
2723117 GTGTCATTGAAGCCCCCATCATTAATGAAGATGACACACATTTGT
1 GTGTCATTAAAGCCCCCATCATTAATGAAGATGACACACATTTGT
* *
2723162 TTGTCATTAAAGCCCCCGTCATTAATGAAGATGACACACATTTGT
1 GTGTCATTAAAGCCCCCATCATTAATGAAGATGACACACATTTGT
2723207 GTGTCAT
1 GTGTCAT
2723214 AAATTTATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
GTGTCATTAAAGCCCCCATCATTAATGAAGATGACACACATTTGT
Found at i:2737249 original size:15 final size:15
Alignment explanation
Indices: 2737229--2737283 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
2737219 ATGTTTTCTT
2737229 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
2737244 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
* * *
2737259 TTTTATTCTTAGAAG
1 TTTTCTTCTTTGACG
*
2737274 TTGTCTTCTT
1 TTTTCTTCTT
2737284 ACCCCATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:2744919 original size:12 final size:12
Alignment explanation
Indices: 2744904--2744954 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
2744894 TTCAAAGAGG
2744904 TTTTATATTTAA
1 TTTTATATTTAA
2744916 TTTTATA-TTATA
1 TTTTATATTTA-A
*
2744928 TTTGAT-TTTAA
1 TTTTATATTTAA
2744939 TTTTA-ATATTAA
1 TTTTATAT-TTAA
2744951 TTTT
1 TTTT
2744955 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:2744958 original size:14 final size:14
Alignment explanation
Indices: 2744939--2744987 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
2744929 TTGATTTTAA
2744939 TTTTAATATTAATT
1 TTTTAATATTAATT
2744953 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
2744963 ATTAAATATTAATT
1 TTTTAATATTAATT
2744977 TTTTAATATTA
1 TTTTAATATTA
2744988 TATTATAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
10 4 0.15
11 1 0.04
12 6 0.22
13 1 0.04
14 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:2745068 original size:19 final size:20
Alignment explanation
Indices: 2745018--2745070 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
2745008 ATATCATATA
*
2745018 AATTA-TTTTATATATTATT
1 AATTATTTTTATTTATTATT
*
2745037 AA-AATTTTATATTTATT-TT
1 AATTATTTT-TATTTATTATT
2745056 AATTATTTTTATTTA
1 AATTATTTTTATTTA
2745071 AGTTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 12 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTATTTTTATTTATTATT
Found at i:2745076 original size:20 final size:20
Alignment explanation
Indices: 2745018--2745077 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 20
2745008 ATATCATATA
2745018 AATTATTTTATATATTA--TT
1 AATTATTTTATAT-TTAGTTT
* *
2745037 AA-AATTTTATATTTATTTT
1 AATTATTTTATATTTAGTTT
2745056 AATTATTTT-TATTTAAGTTT
1 AATTATTTTATATTT-AGTTT
2745076 AA
1 AA
2745078 ATATAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 11 0.32
20 11 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTATTTTATATTTAGTTT
Found at i:2745561 original size:31 final size:31
Alignment explanation
Indices: 2745524--2745583 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
2745514 TAGTTGAATG
* *
2745524 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
2745555 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
2745584 CTTTTAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:2745894 original size:20 final size:19
Alignment explanation
Indices: 2745845--2745916 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
2745835 TTTAAGTAAG
*
2745845 AGTTTTGAAACTTTCATCAA
1 AGTTTTGAAACTTT-ATTAA
* * *
2745865 AATCTCGAAACTTTGATTAA
1 AGTTTTGAAACTTT-ATTAA
2745885 AGTTTTGAAAC-TTATCCTAA
1 AGTTTTGAAACTTTAT--TAA
2745905 AGTTTTGAAACT
1 AGTTTTGAAACT
2745917 GCATGTGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 37 0.90
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
AGTTTTGAAACTTTATTAA
Found at i:2746160 original size:13 final size:13
Alignment explanation
Indices: 2746142--2746205 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
2746132 GTCATAAATC
*
2746142 TATGACGCGCATT
1 TATGACACGCATT
*
2746155 TGTGACACGCATT
1 TATGACACGCATT
2746168 TATGACA--CATTT
1 TATGACACGCA-TT
*
2746180 TATGACACGTATT
1 TATGACACGCATT
*
2746193 TATGACGCGCATT
1 TATGACACGCATT
2746206 GCGCGTCATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
11 2 0.05
12 9 0.21
13 30 0.71
14 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:2746183 original size:12 final size:13
Alignment explanation
Indices: 2746165--2746198 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
2746155 TGTGACACGC
2746165 ATTTATGACACAT
1 ATTTATGACACAT
*
2746178 -TTTATGACACGT
1 ATTTATGACACAT
2746190 ATTTATGAC
1 ATTTATGAC
2746199 GCGCATTGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (13 bp):
ATTTATGACACAT
Found at i:2746360 original size:45 final size:45
Alignment explanation
Indices: 2746294--2746389 Score: 149
Period size: 45 Copynumber: 2.1 Consensus size: 45
2746284 TTACATTGCA
* * *
2746294 TGTCATTGAAGTCTCCGTCATTAATGAAGATGACACACATTTGTT
1 TGTCATTGAAGTCCCCATCATTAATGAAGATGACACACATTTGTG
2746339 TGTCATTGAA-TCCCCTATCATTAATGAAGATGACACACATTTGTG
1 TGTCATTGAAGTCCCC-ATCATTAATGAAGATGACACACATTTGTG
2746384 TGTCAT
1 TGTCAT
2746390 AAATTTATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 4 0.09
45 43 0.91
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (45 bp):
TGTCATTGAAGTCCCCATCATTAATGAAGATGACACACATTTGTG
Found at i:2746375 original size:130 final size:130
Alignment explanation
Indices: 2746210--2746464 Score: 386
Period size: 130 Copynumber: 2.0 Consensus size: 130
2746200 CGCATTGCGC
*
2746210 GTCATTAAAGCCCCCATCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACGC
1 GTCATTAAAGCCCCCATCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACAC
** **
2746275 ATGTATAACTTACATTGCATGTCATTGAAGTC-TCCGTCATTAATGAAGATGACACACATTTGTT
66 ATGTATAACTTACATTGCATGTCATTGAAG-CAGACGTCATTAAAAAAGATGACACACATTTGTT
2746339 T
130 T
* * * *
2746340 GTCATTGAATCCCCTATCATTAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACAC
1 GTCATTAAAGCCCCCATCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACAC
* **
2746405 ATGTATGACTTACATTGTGTGTCATTGAAGCAGACGTCATTAAAAAAGATGACACACATT
66 ATGTATAACTTACATTGCATGTCATTGAAGCAGACGTCATTAAAAAAGATGACACACATT
2746465 CATGTGTCGT
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
129 1 0.01
130 111 0.99
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (130 bp):
GTCATTAAAGCCCCCATCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACAC
ATGTATAACTTACATTGCATGTCATTGAAGCAGACGTCATTAAAAAAGATGACACACATTTGTTT
Found at i:2746499 original size:2 final size:2
Alignment explanation
Indices: 2746492--2746518 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2746482 TGTCATAAAT
2746492 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 T
2746519 TGTAGATTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2759095 original size:80 final size:75
Alignment explanation
Indices: 2758957--2759100 Score: 166
Period size: 80 Copynumber: 1.9 Consensus size: 75
2758947 CAATAAAATA
* *
2758957 TTATTTAATTAGTTCAATTAAATATACATTAAAGACTTATAATCTGAATTATAATC-TTTAATGT
1 TTATTTAATTAGTTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGT
2759021 TATTTAAAAC
66 TATTTAAAAC
* * *
2759031 TTATTTAATTA-TTCTGAATTATATATATACCAATTAAAAGAGTTGTAATCTAAATTACATTCTT
1 TTATTTAATTAGTTC--AATTA-A-ATATA-C-ATT-AAAGACTTATAATCTAAATTACAATCTT
2759095 TTAATG
59 TTAATG
2759101 CTTACTTACT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
73 3 0.05
74 11 0.19
75 5 0.09
76 1 0.02
77 5 0.09
78 1 0.02
79 3 0.05
80 21 0.37
81 7 0.12
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (75 bp):
TTATTTAATTAGTTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGT
TATTTAAAAC
Found at i:2761934 original size:17 final size:17
Alignment explanation
Indices: 2761904--2761945 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2761894 CCATTCCCTT
*
2761904 TCTTT-GAGAGAAACTC
1 TCTTTCGAGAAAAACTC
2761920 TCTTTCGAGAAAAACTC
1 TCTTTCGAGAAAAACTC
2761937 -CTGTTCGAG
1 TCT-TTCGAG
2761946 CAACAAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (17 bp):
TCTTTCGAGAAAAACTC
Found at i:2773945 original size:25 final size:24
Alignment explanation
Indices: 2773917--2773963 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
2773907 ATTTCAAAAT
* *
2773917 TATTTGGAAAAGTAATTCTTATTAA
1 TATTTCGAAAACTAATT-TTATTAA
*
2773942 TATTTCTAAAACTAATTTTATT
1 TATTTCGAAAACTAATTTTATT
2773964 GGAAGACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (24 bp):
TATTTCGAAAACTAATTTTATTAA
Found at i:2777499 original size:30 final size:30
Alignment explanation
Indices: 2777465--2777526 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
2777455 TTTCTTTAGG
*
2777465 AATGAACAG-AGCATTC-CCCCTCGTACAAGC
1 AATGAA-AGAAGCA-TCGCCCCTAGTACAAGC
*
2777495 AATGAAGGAAGCATCGCCCCTAGTACAAGC
1 AATGAAAGAAGCATCGCCCCTAGTACAAGC
2777525 AA
1 AA
2777527 GGCATGGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (30 bp):
AATGAAAGAAGCATCGCCCCTAGTACAAGC
Found at i:2778094 original size:28 final size:27
Alignment explanation
Indices: 2777993--2778106 Score: 108
Period size: 28 Copynumber: 4.1 Consensus size: 27
2777983 AAACACTAAA
*
2777993 CTTTTATAAATTATGATA-AAAGACAAAT
1 CTTTTATAAATTA-CA-ACAAAGACAAAT
*
2778021 CTTTTGTAAATTACTATA-AAAGACAAAT
1 CTTTTATAAATTAC-A-ACAAAGACAAAT
* *
2778049 CTTTTA-ATATTACAACAAAGAATAAAT
1 CTTTTATAAATTACAACAAAG-ACAAAT
2778076 CTTTTATAAATTACAACAAATGACAATAT
1 CTTTTATAAATTACAACAAA-GACAA-AT
2778105 CT
1 CT
2778107 CACAAATTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.01
26 5 0.07
27 17 0.23
28 45 0.62
29 5 0.07
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.35
Consensus pattern (27 bp):
CTTTTATAAATTACAACAAAGACAAAT
Found at i:2779557 original size:23 final size:21
Alignment explanation
Indices: 2779526--2779577 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 21
2779516 CGTCCGAGTG
2779526 TTGTATTAATATATATATCATA
1 TTGTATTAATATAT-TATCATA
*
2779548 TATGTATTAATATATTATTATA
1 T-TGTATTAATATATTATCATA
2779570 TTGTATTA
1 TTGTATTA
2779578 TTTATAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 7 0.25
22 8 0.29
23 13 0.46
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (21 bp):
TTGTATTAATATATTATCATA
Found at i:2779664 original size:21 final size:21
Alignment explanation
Indices: 2779609--2779670 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
2779599 TTACAAAGTG
2779609 AGGCACACATGCCC-ATTTACGA
1 AGGCACACATGCCCGA-TTAC-A
2779631 GAGG-ACA-AT--CCGATTACA
1 -AGGCACACATGCCCGATTACA
*
2779649 AGGCACACATGCCCGACTACA
1 AGGCACACATGCCCGATTACA
2779670 A
1 A
2779671 CCAAGCCCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 8 0.24
20 1 0.03
21 11 0.33
22 3 0.09
23 3 0.09
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (21 bp):
AGGCACACATGCCCGATTACA
Found at i:2786354 original size:39 final size:39
Alignment explanation
Indices: 2786252--2786356 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 39
2786242 CAGTAAAGGT
* *
2786252 TGGGCCATGCTGAAAGCCCATTTCAGTCAGAAATAAAATA
1 TGGGACATGCTGGAAGCCCATTTCAGTCAGAAAT-AAATA
* *
2786292 TGGGACATGCTGGAAGCCTATTTCAGTCAGAAAT-AATCC
1 TGGGACATGCTGGAAGCCCATTTCAGTCAGAAATAAAT-A
* *
2786331 TGGGACATGTTGGAGGCCCATTTCAG
1 TGGGACATGCTGGAAGCCCATTTCAG
2786357 ACAAAAATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
38 3 0.05
39 23 0.40
40 31 0.54
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (39 bp):
TGGGACATGCTGGAAGCCCATTTCAGTCAGAAATAAATA
Found at i:2787163 original size:22 final size:22
Alignment explanation
Indices: 2787138--2787258 Score: 179
Period size: 22 Copynumber: 5.5 Consensus size: 22
2787128 ATCTACATTC
* *
2787138 TTCAAGGATAATATATTCTCTT
1 TTCAAGGATGATAGATTCTCTT
2787160 TTCAAGGATGATAGATTCTCTT
1 TTCAAGGATGATAGATTCTCTT
*
2787182 TTCAAAGATGATAGATTCTCTT
1 TTCAAGGATGATAGATTCTCTT
*
2787204 TTCAAGGATGATATATTCTCTT
1 TTCAAGGATGATAGATTCTCTT
* *
2787226 TTTAAAGATGATAGATTCTCTT
1 TTCAAGGATGATAGATTCTCTT
*
2787248 TTCAAAGATGA
1 TTCAAGGATGA
2787259 AAGCTTTATC
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 90 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TTCAAGGATGATAGATTCTCTT
Found at i:2787890 original size:20 final size:20
Alignment explanation
Indices: 2787867--2787950 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
2787857 ATCATTTGGA
*
2787867 TCATTTCTAAATCCTTCGGG
1 TCATTTATAAATCCTTCGGG
* * *
2787887 TCATTTGTAAAGCCTTCGAG
1 TCATTTATAAATCCTTCGGG
* * *
2787907 TCATTTTTAAAACCTTCAGG
1 TCATTTATAAATCCTTCGGG
*
2787927 TAATTTATAAATCCTTCGGG
1 TCATTTATAAATCCTTCGGG
2787947 TCAT
1 TCAT
2787951 CTATCAAGCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (20 bp):
TCATTTATAAATCCTTCGGG
Found at i:2788155 original size:89 final size:85
Alignment explanation
Indices: 2788033--2788368 Score: 330
Period size: 89 Copynumber: 3.9 Consensus size: 85
2788023 AGATCAAAAT
*
2788033 CTGAACTCCACGGAAGAGTAGTGAAAAGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTA
1 CTGAACTCCACGGAAGAGTAGTGGAAAGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTA
*
2788098 GTAGAAGCAAATTCAATCATAAAA
66 GT-GAAG-AAATCCAA-CAT-AAA
* * *
2788122 CTGAACTCCATGGAAAAGTAGTGGAACA-TATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGT
1 CTGAACTCCACGGAAGAGTAGTGGAA-AGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGT
* *
2788186 AGCG--G-AA-GCAA-AT---
65 AGTGAAGAAATCCAACATAAA
* * * * * ** *
2788199 CTGAACTCCATGGAATAGTAGTGGAATGGATTTTTTAGCAAAGTATGAGAACTTTACGGAAGAGA
1 CTGAACTCCACGGAAGAGTAGTGGAAAGGATTTTTCAGCAAAGTATCA-AACTCCACGGAAGAGT
* *
2788264 AGTGAAGTAGTCCAACCATAAA
65 AGTGAAGAAATCCAA-CATAAA
* * * *
2788286 TTCGAACTCCACGGAAGAGTAGTGGAAAGGATTTTTCAGCAAAGTATCGAACTCAACAGAAGAGT
1 CT-GAACTCCACGGAAGAGTAGTGGAAAGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGT
2788351 AGTGGAAGCAAATCCAAC
65 AGT-GAAG-AAATCCAAC
2788369 TTTGAATCTG
Statistics
Matches: 202, Mismatches: 30, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
77 42 0.21
78 16 0.08
80 1 0.00
81 3 0.01
82 3 0.01
83 3 0.01
84 4 0.02
86 1 0.00
87 16 0.08
88 46 0.23
89 66 0.33
90 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (85 bp):
CTGAACTCCACGGAAGAGTAGTGGAAAGGATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTA
GTGAAGAAATCCAACATAAA
Found at i:2788350 original size:165 final size:166
Alignment explanation
Indices: 2788029--2788364 Score: 428
Period size: 165 Copynumber: 2.0 Consensus size: 166
2788019 AGCGAGATCA
2788029 AAATCTGAACTCCACGGAAGAGTAGTGAAAAGGATTTTTCAGCAAAGTATCAAACTCCACGGAAG
1 AAATCTGAACTCCACGGAAGAGTAGTGAAAAGGATTTTTCAGCAAAGTATCAAACTCCACGGAAG
* * * * *
2788094 AGTAGTAGAAGCAAATTCAATCATAAAACTGAACTCCATGGAAAAGTAGTGGAACATATTTTTCA
66 AGAAGTAGAAGCAAATCCAACCATAAAACTGAACTCCACGGAAAAGTAGTGGAACAGATTTTTCA
* *
2788159 GCAAAGTATCAAACTCCACGGAAGAGTAGCGGAAGC
131 GCAAAGTATCAAACTCAACAGAAGAGTAGCGGAAGC
* * * * * * **
2788195 AAATCTGAACTCCATGGAATAGTAGTGGAATGGATTTTTTAGCAAAGTATGAGAACTTTACGGAA
1 AAATCTGAACTCCACGGAAGAGTAGTGAAAAGGATTTTTCAGCAAAGTATCA-AACTCCACGGAA
* * * *
2788260 GAGAAGT-GAAG-TAGTCCAACCAT-AAATTCGAACTCCACGGAAGAGTAGTGGAA-AGGATTTT
65 GAGAAGTAGAAGCAAATCCAACCATAAAACT-GAACTCCACGGAAAAGTAGTGGAACA-GATTTT
* *
2788321 TCAGCAAAGTATCGAACTCAACAGAAGAGTAGTGGAAGC
128 TCAGCAAAGTATCAAACTCAACAGAAGAGTAGCGGAAGC
2788360 AAATC
1 AAATC
2788365 CAACTTTGAA
Statistics
Matches: 146, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
164 5 0.03
165 75 0.51
166 50 0.34
167 16 0.11
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (166 bp):
AAATCTGAACTCCACGGAAGAGTAGTGAAAAGGATTTTTCAGCAAAGTATCAAACTCCACGGAAG
AGAAGTAGAAGCAAATCCAACCATAAAACTGAACTCCACGGAAAAGTAGTGGAACAGATTTTTCA
GCAAAGTATCAAACTCAACAGAAGAGTAGCGGAAGC
Found at i:2788779 original size:23 final size:21
Alignment explanation
Indices: 2788746--2788796 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 21
2788736 TTCATCCGAG
2788746 TATTGTATTAATATATATATCA
1 TATTGTATTAATATAT-TATCA
*
2788768 TATATGTATTAATATATTATTA
1 TAT-TGTATTAATATATTATCA
2788790 TATTGTA
1 TATTGTA
2788797 CTATTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 10 0.37
23 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (21 bp):
TATTGTATTAATATATTATCA
Found at i:2791950 original size:8 final size:8
Alignment explanation
Indices: 2791930--2791967 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
2791920 GAGGAAAATG
2791930 TGAAGGAAA
1 TGAA-GAAA
2791939 -GAAGAAA
1 TGAAGAAA
2791946 TGAAGAAA
1 TGAAGAAA
2791954 TGAAGAAA
1 TGAAGAAA
*
2791962 AGAAGA
1 TGAAGA
2791968 TAGAGGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
7 4 0.15
8 23 0.85
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.08
Consensus pattern (8 bp):
TGAAGAAA
Found at i:2799343 original size:20 final size:21
Alignment explanation
Indices: 2799299--2799343 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
2799289 AAAATATGAA
2799299 ATAAAATGTATAAATAATATG
1 ATAAAATGTATAAATAATATG
* * *
2799320 ATAAAA-GTATTAATATTATT
1 ATAAAATGTATAAATAATATG
2799340 ATAA
1 ATAA
2799344 TTATAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
ATAAAATGTATAAATAATATG
Found at i:2799663 original size:15 final size:15
Alignment explanation
Indices: 2799643--2799673 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2799633 GAAGTTTCAA
2799643 AATATTTTAATAAAT
1 AATATTTTAATAAAT
2799658 AATATTTTAATAAAT
1 AATATTTTAATAAAT
2799673 A
1 A
2799674 TGATAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTTAATAAAT
Found at i:2802081 original size:15 final size:15
Alignment explanation
Indices: 2802061--2802091 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2802051 GGTTGGTCGA
2802061 TGTGAAGACCAAAGT
1 TGTGAAGACCAAAGT
*
2802076 TGTGAAGACGAAAGT
1 TGTGAAGACCAAAGT
2802091 T
1 T
2802092 AATCCCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.23
Consensus pattern (15 bp):
TGTGAAGACCAAAGT
Found at i:2804477 original size:11 final size:12
Alignment explanation
Indices: 2804455--2804486 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
2804445 ATTTATTAAT
2804455 TATTTAACTATG
1 TATTTAACTATG
2804467 TATTTAA-TATG
1 TATTTAACTATG
2804478 TATTTAACT
1 TATTTAACT
2804487 TACATGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (12 bp):
TATTTAACTATG
Found at i:2804562 original size:18 final size:19
Alignment explanation
Indices: 2804541--2804582 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2804531 TAATATGTAT
2804541 TTAATTAT-TAACTAATTA
1 TTAATTATGTAACTAATTA
**
2804559 TTAA-TATGTATTTAATTA
1 TTAATTATGTAACTAATTA
2804577 TTAATT
1 TTAATT
2804583 TTACTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 16 0.80
19 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAATTATGTAACTAATTA
Found at i:2804574 original size:11 final size:11
Alignment explanation
Indices: 2804515--2804545 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2804505 CCACATTAGT
2804515 TATTTAACTATG
1 TATTTAA-TATG
2804527 TATTTAATATG
1 TATTTAATATG
2804538 TATTTAAT
1 TATTTAAT
2804546 TATTAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (11 bp):
TATTTAATATG
Found at i:2804881 original size:21 final size:19
Alignment explanation
Indices: 2804868--2804915 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
2804858 AATTAATTTG
2804868 TTAATATTTTAAATTAAAT
1 TTAATATTTTAAATTAAAT
* *
2804887 TTAATATTTTTAATT-AGT
1 TTAATATTTTAAATTAAAT
*
2804905 TAAATATTTTA
1 TTAATATTTTA
2804916 TATTGTGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAATATTTTAAATTAAAT
Found at i:2805637 original size:27 final size:27
Alignment explanation
Indices: 2805607--2805662 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2805597 ATGTGTCTTC
*
2805607 ATATAATTGGATGATTAAATTTATTTA
1 ATATAATTGAATGATTAAATTTATTTA
2805634 ATATAATTGAATGATTAAATTTATTTA
1 ATATAATTGAATGATTAAATTTATTTA
2805661 AT
1 AT
2805663 TAACTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (27 bp):
ATATAATTGAATGATTAAATTTATTTA
Found at i:2809043 original size:20 final size:21
Alignment explanation
Indices: 2809000--2809043 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2808990 AGATAAACAA
* *
2809000 AAACAATGAAAAAAAACCCTT
1 AAACAACGAAAAAAAACCCAT
*
2809021 AAACAACGACAAAAAA-CCAT
1 AAACAACGAAAAAAAACCCAT
2809041 AAA
1 AAA
2809044 AGGAAGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.66, C:0.20, G:0.05, T:0.09
Consensus pattern (21 bp):
AAACAACGAAAAAAAACCCAT
Found at i:2809152 original size:11 final size:10
Alignment explanation
Indices: 2809125--2809151 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2809115 TATTTTTATT
2809125 AAAAAAACTA
1 AAAAAAACTA
2809135 AAAAAAACTA
1 AAAAAAACTA
2809145 AAAAAAA
1 AAAAAAA
2809152 AAAAGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAACTA
Found at i:2811147 original size:21 final size:23
Alignment explanation
Indices: 2811121--2811165 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2811111 TAAATCATAT
2811121 TATTAA-T-TTAATTTGAAATAA
1 TATTAATTATTAATTTGAAATAA
*
2811142 TATTAATTATTTATTTGAAATAA
1 TATTAATTATTAATTTGAAATAA
2811165 T
1 T
2811166 TTCATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 14 0.67
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTAATTATTAATTTGAAATAA
Found at i:2811150 original size:25 final size:24
Alignment explanation
Indices: 2811099--2811165 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
2811089 TTTAAAAAAT
* *
2811099 TTATTTAATTTTTAAATCATATT-A
1 TTATTTAA-TTTGAAATAATATTAA
2811123 TTAATTTAATTTGAAATAATATTAA
1 TT-ATTTAATTTGAAATAATATTAA
2811148 TTATTT-ATTTGAAATAAT
1 TTATTTAATTTGAAATAAT
2811166 TTCATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.31
24 18 0.46
25 9 0.23
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (24 bp):
TTATTTAATTTGAAATAATATTAA
Found at i:2811186 original size:19 final size:19
Alignment explanation
Indices: 2811160--2811201 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2811150 ATTTATTTGA
*
2811160 AATA-ATTTCATTTTAAAT
1 AATATATTTAATTTTAAAT
*
2811178 TATATATTTAATTTTAAAT
1 AATATATTTAATTTTAAAT
2811197 AATAT
1 AATAT
2811202 TGCATGAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATATTTAATTTTAAAT
Found at i:2812895 original size:30 final size:29
Alignment explanation
Indices: 2812859--2812920 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
2812849 TAATTATTTA
*
2812859 TTATATTTTAAACT-ATTAAAATAATATATT
1 TTATATTTTAAA-TAATT-AAAGAATATATT
2812889 TTATATTTTAAATAATTAAAGAATATATT
1 TTATATTTTAAATAATTAAAGAATATATT
2812918 TTA
1 TTA
2812921 ATAATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TTATATTTTAAATAATTAAAGAATATATT
Found at i:2812923 original size:21 final size:22
Alignment explanation
Indices: 2812890--2812934 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2812880 TAATATATTT
2812890 TATATTTTAAATAAT-TAAAGAA
1 TATATTTTAAATAATATAAA-AA
2812912 TATATTTT-AATAATATAAAAA
1 TATATTTTAAATAATATAAAAA
2812933 TA
1 TA
2812935 AAAATCTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATTTTAAATAATATAAAAA
Found at i:2813642 original size:17 final size:16
Alignment explanation
Indices: 2813620--2813653 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2813610 TAAAGACAGT
2813620 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
2813637 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
2813653 A
1 A
2813654 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:2814172 original size:24 final size:24
Alignment explanation
Indices: 2814128--2814177 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2814118 ATAAAGAACC
*
2814128 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
2814152 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
2814176 AA
1 AA
2814178 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:2817464 original size:20 final size:20
Alignment explanation
Indices: 2817441--2817483 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2817431 GAGAAAAGGT
2817441 AAAAGTTAAAATGAAAGAGA
1 AAAAGTTAAAATGAAAGAGA
* * *
2817461 AAAATTTATAATGAAAGATA
1 AAAAGTTAAAATGAAAGAGA
2817481 AAA
1 AAA
2817484 GAAAAAGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.21
Consensus pattern (20 bp):
AAAAGTTAAAATGAAAGAGA
Found at i:2823742 original size:17 final size:16
Alignment explanation
Indices: 2823711--2823753 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
2823701 GAAAAATGGT
*
2823711 AAAGACAAT-AAATAA
1 AAAGAAAATAAAATAA
2823726 AAAGATAAATAAAATAA
1 AAAGA-AAATAAAATAA
*
2823743 GAAGAAAATAA
1 AAAGAAAATAA
2823754 TCCTCACGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 10 0.42
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAGAAAATAAAATAA
Found at i:2824272 original size:24 final size:24
Alignment explanation
Indices: 2824228--2824277 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2824218 ATAAAGAACC
*
2824228 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
2824252 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
2824276 AA
1 AA
2824278 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:2847896 original size:57 final size:57
Alignment explanation
Indices: 2847788--2847901 Score: 140
Period size: 57 Copynumber: 2.0 Consensus size: 57
2847778 CACACGAATA
* * *
2847788 TGTGTCATCTTTTTTAATGACGTGCGTTTCAATGACACGCAATGTAAGTCATAAATG
1 TGTGTCATCTTTTTTAATGACGGGCGCTTCAATGACACGCAATGCAAGTCATAAATG
* ** **
2847845 TGTGTCATCTTTATTT-ATGACGGGGGCTTCAATGACGTGCAATGCGCGTCATAAATG
1 TGTGTCATCTTT-TTTAATGACGGGCGCTTCAATGACACGCAATGCAAGTCATAAATG
2847902 AGTGCCATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 45 0.94
58 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (57 bp):
TGTGTCATCTTTTTTAATGACGGGCGCTTCAATGACACGCAATGCAAGTCATAAATG
Found at i:2854501 original size:32 final size:32
Alignment explanation
Indices: 2854419--2854504 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 32
2854409 GGGTGTTACA
*
2854419 AGTGTTGT-ATTTAGATAATGCACAACAGAGTT
1 AGTGTT-TCATTTAGATAATGCACAACAGAGTC
* * * * *
2854451 AGTATTGCATTCATATAATGCACAAGA-ATGTC
1 AGTGTTTCATTTAGATAATGCACAACAGA-GTC
2854483 AGTGTTTCATTTAGATAATGCA
1 AGTGTTTCATTTAGATAATGCA
2854505 AAACGATTAC
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
31 1 0.02
32 41 0.98
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (32 bp):
AGTGTTTCATTTAGATAATGCACAACAGAGTC
Found at i:2858146 original size:47 final size:47
Alignment explanation
Indices: 2858077--2858167 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
2858067 TCTTAGTAGA
*
2858077 ATAAACAAGGTTATCTTAGCTATTCTTTGAGGGCTAGGGTCAGACTC
1 ATAAACAAGGTTACCTTAGCTATTCTTTGAGGGCTAGGGTCAGACTC
2858124 ATAAACAAGGTTACCTTAGCTATTCTTTGAGGGCTAGGGTCAGA
1 ATAAACAAGGTTACCTTAGCTATTCTTTGAGGGCTAGGGTCAGA
2858168 ATCAGTAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (47 bp):
ATAAACAAGGTTACCTTAGCTATTCTTTGAGGGCTAGGGTCAGACTC
Found at i:2871828 original size:41 final size:41
Alignment explanation
Indices: 2871752--2871944 Score: 152
Period size: 41 Copynumber: 4.7 Consensus size: 41
2871742 ATCTTGGAAG
* * * * *
2871752 CATGCACTAATTCACGATTCGATTCAGTTCAATCATGGCAA
1 CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAA
* * * *
2871793 CATGCAATAATTCACCATTCAAATCAATTTGATCATGGCAT
1 CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAA
* * * * **
2871834 CATGGAATAATCCATAATTCAATTCAATTCGGTCATGGTGA
1 CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAA
** * ** * * *
2871875 CATGCCTTTATTCACAAACCAATTTAATTAGATCATGGTAA
1 CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAA
* * *
2871916 CATGTATTAATTCACAATCCAATTCAATT
1 CATGCAATAATTCACAATTCAATTCAATT
2871945 TAAATCAAGG
Statistics
Matches: 117, Mismatches: 35, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
41 117 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (41 bp):
CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAA
Found at i:2876146 original size:162 final size:164
Alignment explanation
Indices: 2875965--2876561 Score: 623
Period size: 162 Copynumber: 3.6 Consensus size: 164
2875955 GTACTAGAAG
* * * * * * * *
2875965 CACTATTTGTCAAACTCACGGAATTCTTCCTGTTTTGATTAACAACCATATAGGCACTATGTGTG
1 CACTATTTGTGAAACTCACGGAATTCATCATGTGTTAATGAACAACCGTACAGGCACTATGTGTG
*
2876030 CAACTCACGA-AATTCATCATGTGTTGATGAACAACCATACAAGAACTATGTGTGCAACTCACAG
66 CAACTCACGAGAATTCATCATGTGTTGATGAACAACCATACAAGCACTATGTGTGCAACTCACAG
* *
2876094 AACTCATCATCTGTTGATGAACAACCGTACA-GA
131 AATTCATCATGTGTTGATGAACAACCGTACATGA
* * * * * *
2876127 CACTATTTGTGAAACTCACGAAATTCATCACGTGTTGATGAACAACTGTATAGGCACTACGTGTG
1 CACTATTTGTGAAACTCACGGAATTCATCATGTGTTAATGAACAACCGTACAGGCACTATGTGTG
* ** * * *
2876192 CAACTCA-GAGAATTCATCATGTGTCGATGAACAACTGTACATGCACTATTTGTGCAACTCACGG
66 CAACTCACGAGAATTCATCATGTGTTGATGAACAACCATACAAGCACTATGTGTGCAACTCACAG
2876256 AATTCATCATGTGTTGATGAACAACCGTACATGAACAATCGTACA
131 AATTCATCATGTGTTGATGAACAACCG----T--AC-AT-G---A
* * * * * *
2876301 TGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACCGTACAAGAACTATTTT
1 --CACTATTTGTGAAACTCACGGAATTCATCATGTGTTAATGAACAACCGTACAGGCACTATGTG
* * *
2876366 TGCAACTCACGA-AATTCATCATGTGTTGATGAACAACCATATAGGCACTATGTGTGAAACTCA-
64 TGCAACTCACGAGAATTCATCATGTGTTGATGAACAACCATACAAGCACTATGTGTGCAACTCAC
* *
2876429 AGGAATTCATCATGAGTTGATTAACAACCGTACATG-
129 A-GAATTCATCATGTGTTGATGAACAACCGTACATGA
* * * * * * *
2876465 CATTATATGTGCAACTCATGGAATTCATCATGTGTTAATGAACAACCGTACATGCACAATTTGTG
1 CACTATTTGTGAAACTCACGGAATTCATCATGTGTTAATGAACAACCGTACAGGCACTATGTGTG
* * *
2876530 TAACTAAC-AGAATTCATAATGTGTTGATGAAC
66 CAACTCACGAGAATTCATCATGTGTTGATGAAC
2876562 GACCGTACGT
Statistics
Matches: 365, Mismatches: 52, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
161 3 0.01
162 218 0.60
166 1 0.00
168 3 0.01
169 3 0.01
170 2 0.01
171 1 0.00
172 1 0.00
174 1 0.00
176 130 0.36
177 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (164 bp):
CACTATTTGTGAAACTCACGGAATTCATCATGTGTTAATGAACAACCGTACAGGCACTATGTGTG
CAACTCACGAGAATTCATCATGTGTTGATGAACAACCATACAAGCACTATGTGTGCAACTCACAG
AATTCATCATGTGTTGATGAACAACCGTACATGA
Found at i:2876155 original size:108 final size:107
Alignment explanation
Indices: 2875962--2876569 Score: 590
Period size: 108 Copynumber: 5.5 Consensus size: 107
2875952 TATGTACTAG
* * * * * * * * *
2875962 AAGCACTATTTGT-CAAACTCACGGAATTCTTCCTGTTTTGATTAACAACCATATAGGCACTATG
1 AAGCACTATGTGTGC-AACTCACAGAATTCATCATGTGTTGATGAACAACCGTACA-GCACTATT
2876026 TGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATAC
64 TGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATAC
* * *
2876070 AAGAACTATGTGTGCAACTCACAGAACTCATCATCTGTTGATGAACAACCGTACAGACACTATTT
1 AAGCACTATGTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACAG-CACTATTT
* * ** *
2876135 GTGAAACTCACGAAATTCATCACGTGTTGATGAACAACTGTAT
65 GTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATAC
* * * * *
2876178 AGGCACTACGTGTGCAACTCAGAGAATTCATCATGTGTCGATGAACAACTGTACATGCACTATTT
1 AAGCACTATGTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACA-GCACTATTT
*
2876243 GTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACATGAACAATC
65 GTGCAACTCACGAAATTCATCATGTGTTGATGAACAA-C---CAT-----A-C
* * * * *
2876296 GTACATGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACCGTACAAGAACT
1 --A-A-GCACTATGTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTAC-AGCACT
* *
2876361 ATTTTTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATAT
61 ATTTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATAC
* * * * * *
2876408 AGGCACTATGTGTGAAACTCA-AGGAATTCATCATGAGTTGATTAACAACCGTACATGCATTATA
1 AAGCACTATGTGTGCAACTCACA-GAATTCATCATGTGTTGATGAACAACCGTACA-GCACTATT
* * * *
2876472 TGTGCAACTCATGGAATTCATCATGTGTTAATGAACAACCGTAC
64 TGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATAC
* * * * * * *
2876516 ATGCACAATTTGTGTAACTAACAGAATTCATAATGTGTTGATGAACGACCGTAC
1 AAGCACTATGTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTAC
2876570 GTGTGCAACT
Statistics
Matches: 411, Mismatches: 68, Indels: 42
0.79 0.13 0.08
Matches are distributed among these distances:
107 2 0.00
108 308 0.75
109 4 0.01
110 1 0.00
112 1 0.00
113 1 0.00
117 1 0.00
118 3 0.01
120 1 0.00
121 1 0.00
122 87 0.21
123 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (107 bp):
AAGCACTATGTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACAGCACTATTTG
TGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATAC
Found at i:2876288 original size:54 final size:54
Alignment explanation
Indices: 2875964--2876286 Score: 380
Period size: 54 Copynumber: 6.0 Consensus size: 54
2875954 TGTACTAGAA
* * * * * * *
2875964 GCACTATTTGT-CAAACTCACGGAATTCTTCCTGTTTTGATTAACAACCATATAG
1 GCACTATGTGTGC-AACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAG
* * *
2876018 GCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATACAA
1 GCACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAG
* * * *
2876072 GAACTATGTGTGCAACTCACAGAACTCATCATCTGTTGATGAACAACCGTACAG
1 GCACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAG
* * * * * * *
2876126 ACACTATTTGTGAAACTCACGAAATTCATCACGTGTTGATGAACAACTGTATAG
1 GCACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAG
* * * *
2876180 GCACTACGTGTGCAACTCA-GAGAATTCATCATGTGTCGATGAACAACTGTACAT
1 GCACTATGTGTGCAACTCACG-GAATTCATCATGTGTTGATGAACAACCGTACAG
*
2876234 GCACTATTTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACA
1 GCACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACA
2876287 TGAACAATCG
Statistics
Matches: 227, Mismatches: 39, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
53 1 0.00
54 224 0.99
55 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (54 bp):
GCACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAG
Found at i:2876291 original size:14 final size:14
Alignment explanation
Indices: 2876272--2876302 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2876262 TCATGTGTTG
2876272 ATGAACAACCGTAC
1 ATGAACAACCGTAC
*
2876286 ATGAACAATCGTAC
1 ATGAACAACCGTAC
2876300 ATG
1 ATG
2876303 CACTATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (14 bp):
ATGAACAACCGTAC
Found at i:2876327 original size:68 final size:68
Alignment explanation
Indices: 2876218--2876359 Score: 241
Period size: 68 Copynumber: 2.1 Consensus size: 68
2876208 TCATGTGTCG
* *
2876218 ATGAACAACTGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCG
1 ATGAACAACTGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACCG
2876283 TAC
66 TAC
2876286 ATGAACAA-TCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACC
1 ATGAACAACT-GTACATGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACC
2876350 GTAC
65 GTAC
*
2876354 AAGAAC
1 ATGAAC
2876360 TATTTTTGCA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 1 0.01
68 69 0.99
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (68 bp):
ATGAACAACTGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACCG
TAC
Found at i:2876370 original size:54 final size:54
Alignment explanation
Indices: 2876286--2876569 Score: 343
Period size: 54 Copynumber: 5.3 Consensus size: 54
2876276 ACAACCGTAC
* * *
2876286 ATGAACAATCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTA
1 ATGAACAACCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTG
* * * *
2876340 ATGAACAACCGTACAAGAACTATTTTTGCAACTCACGAAATTCATCATGTGTTG
1 ATGAACAACCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTG
* * * * * * *
2876394 ATGAACAACCATATAGGCACTATGTGTGAAACTCAAGGAATTCATCATGAGTTG
1 ATGAACAACCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTG
* * * * *
2876448 ATTAACAACCGTACATGCATTATATGTGCAACTCATGGAATTCATCATGTGTTA
1 ATGAACAACCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTG
* * * * *
2876502 ATGAACAACCGTACATGCACAATTTGTGTAACTAACAGAATTCATAATGTGTTG
1 ATGAACAACCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTG
*
2876556 ATGAACGACCGTAC
1 ATGAACAACCGTAC
2876570 GTGTGCAACT
Statistics
Matches: 192, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 192 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (54 bp):
ATGAACAACCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTG
Found at i:2876416 original size:176 final size:176
Alignment explanation
Indices: 2876110--2876464 Score: 471
Period size: 176 Copynumber: 2.0 Consensus size: 176
2876100 TCATCTGTTG
* * *
2876110 ATGAACAACCGTACAGACACTATTTGTGAAACTCACGAAATTCATCACGTGTTGATGAACAACTG
1 ATGAACAACCGTACAGACACTATTTGTGAAACTCACGAAATTCATCACGAGTTAATGAACAACCG
* * * ** *
2876175 TATAGGCACTACGTGTGCAACTCAGAGAATTCATCATGTGTCGATGAACAACTGTACATGCACTA
66 TACAAGAACTACGTGTGCAACTCAGAGAATTCATCATGTGTCGATGAACAACCATACAGGCACTA
* * * *
2876240 TTTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTAC
131 TGTGTGAAACTCAAGGAATTCATCATGAGTTGATGAACAACCGTAC
* * * *
2876286 ATGAACAATCGTACATG-CACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACC
1 ATGAACAACCGTACA-GACACTATTTGTGAAACTCACGAAATTCATCACGAGTTAATGAACAACC
** * * *
2876350 GTACAAGAACTATTTTTGCAACTCACGA-AATTCATCATGTGTTGATGAACAACCATATAGGCAC
65 GTACAAGAACTACGTGTGCAACTCA-GAGAATTCATCATGTGTCGATGAACAACCATACAGGCAC
*
2876414 TATGTGTGAAACTCAAGGAATTCATCATGAGTTGATTAACAACCGTAC
129 TATGTGTGAAACTCAAGGAATTCATCATGAGTTGATGAACAACCGTAC
2876462 ATG
1 ATG
2876465 CATTATATGT
Statistics
Matches: 154, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
176 151 0.98
177 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (176 bp):
ATGAACAACCGTACAGACACTATTTGTGAAACTCACGAAATTCATCACGAGTTAATGAACAACCG
TACAAGAACTACGTGTGCAACTCAGAGAATTCATCATGTGTCGATGAACAACCATACAGGCACTA
TGTGTGAAACTCAAGGAATTCATCATGAGTTGATGAACAACCGTAC
Found at i:2876464 original size:230 final size:230
Alignment explanation
Indices: 2876056--2876524 Score: 672
Period size: 230 Copynumber: 2.0 Consensus size: 230
2876046 TCATGTGTTG
* * *
2876056 ATGAACAACCATACAAGAACTATGTGTGCAACTCACAGAACTCATCATCTGTTGATGAACAACCG
1 ATGAACAATCATACAAGAACTATGTGTGCAACTCACAGAACTCATCATCAGTTAATGAACAACCG
**
2876121 TACAGACACTATTTGTGAAACTCACGAAATTCATCACGTGTTGATGAACAACTGTATAGGCACTA
66 TACAGACACTATTTGTGAAACTCACGAAATTCATCACGTGTTGATGAACAACCATATAGGCACTA
* * * *
2876186 CGTGTGCAACTCAGAGAATTCATCATGTGTCGATGAACAACTGTACATGCACTATTTGTGCAACT
131 CGTGTGAAACTCAGAGAATTCATCATGAGTCGATGAACAACCGTACATGCACTATATGTGCAACT
*
2876251 CACGGAATTCATCATGTGTTGATGAACAACCGTAC
196 CACGGAATTCATCATGTGTTAATGAACAACCGTAC
* * * * * * *
2876286 ATGAACAATCGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACCG
1 ATGAACAATCATACAAGAACTATGTGTGCAACTCACAGAACTCATCATCAGTTAATGAACAACCG
* * *
2876351 TACAAGA-ACTATTTTTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATATAGGCACT
66 TAC-AGACACTATTTGTGAAACTCACGAAATTCATCACGTGTTGATGAACAACCATATAGGCACT
* * * *
2876415 ATGTGTGAAACTCA-AGGAATTCATCATGAGTTGATTAACAACCGTACATGCATTATATGTGCAA
130 ACGTGTGAAACTCAGA-GAATTCATCATGAGTCGATGAACAACCGTACATGCACTATATGTGCAA
*
2876479 CTCATGGAATTCATCATGTGTTAATGAACAACCGTAC
194 CTCACGGAATTCATCATGTGTTAATGAACAACCGTAC
*
2876516 ATGCACAAT
1 ATGAACAAT
2876525 TTGTGTAACT
Statistics
Matches: 211, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
229 1 0.00
230 207 0.98
231 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (230 bp):
ATGAACAATCATACAAGAACTATGTGTGCAACTCACAGAACTCATCATCAGTTAATGAACAACCG
TACAGACACTATTTGTGAAACTCACGAAATTCATCACGTGTTGATGAACAACCATATAGGCACTA
CGTGTGAAACTCAGAGAATTCATCATGAGTCGATGAACAACCGTACATGCACTATATGTGCAACT
CACGGAATTCATCATGTGTTAATGAACAACCGTAC
Found at i:2876529 original size:284 final size:284
Alignment explanation
Indices: 2876018--2876569 Score: 775
Period size: 284 Copynumber: 1.9 Consensus size: 284
2876008 AACCATATAG
* *
2876018 GCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCATACAAGAACTATGTGT
1 GCACTATGTGTGCAACTCACGAAATTCATCATGAGTTAATGAACAACCATACAAGAACTATGTGT
* * *
2876083 GCAACTCACAGAACTCATCATCTGTTGATGAACAACCGTACAGACACTATTTGTGAAACTCACGA
66 GCAACTCACAGAACTCATCATCTGTTGATGAACAACCATACAGACACTATGTGTGAAACTCAAGA
* * * *
2876148 AATTCATCACGTGTTGATGAACAACTGTATAGGCACTACGTGTGCAACTCAGAGAATTCATCATG
131 AATTCATCACGAGTTGATGAACAACCGTACAGGCACTACATGTGCAACTCAGAGAATTCATCATG
* * * * * *
2876213 TGTCGATGAACAACTGTACATGCACTATTTGTGCAACTCACGGAATTCATCATGTGTTGATGAAC
196 TGTCAATGAACAACCGTACATGCACAATTTGTGCAACTAACAGAATTCATAATGTGTTGATGAAC
2876278 AACCGTACATGAACAATCGTACAT
261 AACCGTACATGAACAATCGTACAT
* * * * *
2876302 GCACTATTTGTGCAACTCACGGAATTCATCATGAGTTAATGAACAACCGTACAAGAACTATTTTT
1 GCACTATGTGTGCAACTCACGAAATTCATCATGAGTTAATGAACAACCATACAAGAACTATGTGT
* * * *
2876367 GCAACTCAC-GAAATTCATCATGTGTTGATGAACAACCATATAGGCACTATGTGTGAAACTCAAG
66 GCAACTCACAG-AACTCATCATCTGTTGATGAACAACCATACAGACACTATGTGTGAAACTCAAG
* * * * * *
2876431 GAATTCATCATGAGTTGATTAACAACCGTACATGCATTATATGTGCAACTCATG-GAATTCATCA
130 AAATTCATCACGAGTTGATGAACAACCGTACAGGCACTACATGTGCAACTCA-GAGAATTCATCA
* *
2876495 TGTGTTAATGAACAACCGTACATGCACAATTTGTGTAACTAACAGAATTCATAATGTGTTGATGA
194 TGTGTCAATGAACAACCGTACATGCACAATTTGTGCAACTAACAGAATTCATAATGTGTTGATGA
*
2876560 ACGACCGTAC
259 ACAACCGTAC
2876570 GTGTGCAACT
Statistics
Matches: 233, Mismatches: 33, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
283 1 0.00
284 231 0.99
285 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (284 bp):
GCACTATGTGTGCAACTCACGAAATTCATCATGAGTTAATGAACAACCATACAAGAACTATGTGT
GCAACTCACAGAACTCATCATCTGTTGATGAACAACCATACAGACACTATGTGTGAAACTCAAGA
AATTCATCACGAGTTGATGAACAACCGTACAGGCACTACATGTGCAACTCAGAGAATTCATCATG
TGTCAATGAACAACCGTACATGCACAATTTGTGCAACTAACAGAATTCATAATGTGTTGATGAAC
AACCGTACATGAACAATCGTACAT
Found at i:2877088 original size:161 final size:161
Alignment explanation
Indices: 2876901--2877219 Score: 577
Period size: 161 Copynumber: 2.0 Consensus size: 161
2876891 AATGAAAATA
*
2876901 CATAGTGGTATATTAATGGTATATAAGGTGTCACTCATGATAATTATAAAAGATAAAGGAACATT
1 CATAGCGGTATATTAATGGTATATAAGGTGTCACTCATGATAATTATAAAAGATAAAGGAACATT
*
2876966 TGGCACTTTGGTGCAATACATGTACAGTACTTTCTCATTTAACATACATAGGGAAAATAAAGAAT
66 TGGCACTTTGGTGCAATACATGTACAATACTTTCTCATTTAACATACATA-GGAAAATAAAGAAT
2877031 AATTGGG-AAAATATATAGAAGGATAGGTTTT
130 AATTGGGAAAAATATATAGAAGGATAGGTTTT
* *
2877062 CATAGCGGTATATTATTGGTATATAAGGTGTCACTCATGATAATTATAAAAGATAAAGGAGCATT
1 CATAGCGGTATATTAATGGTATATAAGGTGTCACTCATGATAATTATAAAAGATAAAGGAACATT
*
2877127 TGGCACTTTGGTGCAATACATGTACAATACTTTCTCATTTAACGTACATAGGAAAATAAAGAATA
66 TGGCACTTTGGTGCAATACATGTACAATACTTTCTCATTTAACATACATAGGAAAATAAAGAATA
2877192 ATTGGGAAAAATATATAGAAGGATAGGT
131 ATTGGGAAAAATATATAGAAGGATAGGT
2877220 ATGCTGGGAC
Statistics
Matches: 152, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
160 21 0.14
161 131 0.86
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (161 bp):
CATAGCGGTATATTAATGGTATATAAGGTGTCACTCATGATAATTATAAAAGATAAAGGAACATT
TGGCACTTTGGTGCAATACATGTACAATACTTTCTCATTTAACATACATAGGAAAATAAAGAATA
ATTGGGAAAAATATATAGAAGGATAGGTTTT
Found at i:2889586 original size:54 final size:54
Alignment explanation
Indices: 2889516--2889899 Score: 536
Period size: 54 Copynumber: 7.1 Consensus size: 54
2889506 GCACTGTTAA
* * *
2889516 TGCAACTCACGAAATTCATCATGTGTAGATGAACAACCGTATAGGCACTATGTG
1 TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
* * *
2889570 TGCAACTCACGGAATTCATCATGTGTTGATGAACAATCGTACATGCACTATATG
1 TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
* * * * * *
2889624 TGCAACTCACGGAATTCATCATATATTAATGAACAACCGTACATGCACTATTTT
1 TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
* * * *
2889678 TGCAACTCACGGAATTTATCATGTGTTGATGAAAAACAGTATAGGCACTATGTG
1 TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
*
2889732 TGTAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
1 TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
* * * *
2889786 TACAACTCACGGAATTCATCATGTGTTGATGAACAATCGTACATGCACAATGTG
1 TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
* * * *
2889840 TGCAACTCACGAAATTCATCATGTGTTG-TGAACGACCGTATAGGCACTACGTG
1 TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
2889893 TGCAACT
1 TGCAACT
2889900 TAATAAAATG
Statistics
Matches: 290, Mismatches: 40, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
53 26 0.09
54 264 0.91
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
TGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTG
Found at i:2889794 original size:162 final size:162
Alignment explanation
Indices: 2889516--2889899 Score: 590
Period size: 162 Copynumber: 2.4 Consensus size: 162
2889506 GCACTGTTAA
*
2889516 TGCAACTCACGAAATTCATCATGTGTAGATGAACAACCGTATAGGCACTATGTGTGCAACTCACG
1 TGCAACTCACGAAATTCATCATGTGTTGATGAACAACCGTATAGGCACTATGTGTGCAACTCACG
* * *
2889581 GAATTCATCATGTGTTGATGAACAATCGTACATGCACTATATGTGCAACTCACGGAATTCATCAT
66 GAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATATGTACAACTCACGGAATTCATCAT
* * *
2889646 ATATTAATGAACAACCGTACATGCACTATTTT
131 ATATTAATGAACAACCGTACATGCACAATGTG
* * * * *
2889678 TGCAACTCACGGAATTTATCATGTGTTGATGAAAAACAGTATAGGCACTATGTGTGTAACTCACG
1 TGCAACTCACGAAATTCATCATGTGTTGATGAACAACCGTATAGGCACTATGTGTGCAACTCACG
*
2889743 GAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTGTACAACTCACGGAATTCATCAT
66 GAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATATGTACAACTCACGGAATTCATCAT
* * * *
2889808 GTGTTGATGAACAATCGTACATGCACAATGTG
131 ATATTAATGAACAACCGTACATGCACAATGTG
* *
2889840 TGCAACTCACGAAATTCATCATGTGTTG-TGAACGACCGTATAGGCACTACGTGTGCAACT
1 TGCAACTCACGAAATTCATCATGTGTTGATGAACAACCGTATAGGCACTATGTGTGCAACT
2889900 TAATAAAATG
Statistics
Matches: 198, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
161 27 0.14
162 171 0.86
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (162 bp):
TGCAACTCACGAAATTCATCATGTGTTGATGAACAACCGTATAGGCACTATGTGTGCAACTCACG
GAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATATGTACAACTCACGGAATTCATCAT
ATATTAATGAACAACCGTACATGCACAATGTG
Found at i:2895349 original size:54 final size:54
Alignment explanation
Indices: 2895260--2895929 Score: 704
Period size: 54 Copynumber: 12.4 Consensus size: 54
2895250 TTATGTGTAC
* * * * *
2895260 TACAGGTACTATTTGTGCAATTAACGGAATTCATCATGTGTTGATGAACAACCG
1 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
* * * * * *
2895314 TATAGGCACTATATATGCAACTCACGAAATTCATCATGTCTTGATAAACAACCA
1 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
**
2895368 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGACAAACAACCG
1 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
* * * *
2895422 TACATGCACTATTTGTGTAACTCACAGAAA-TCATCATGTGTTGATGAACAACCA
1 TACAGGCACTATGTGTGCAACTCAC-GAAATTCATCATGTGTTGATGAACAACCG
* *
2895476 TATAGGCACTATGTGTGCAACTCAC-AGAAGTCATCATGTGTTGATGAACAACCG
1 TACAGGCACTATGTGTGCAACTCACGA-AATTCATCATGTGTTGATGAACAACCG
* * * * *
2895530 TACAGGAACTATGTGTGAAACTCAAGGAATTCATCATGTCTTGATGAACAACCG
1 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
* * * * * *
2895584 TACATGCACTATTTGTGCAACTTACGGAAGTCATAATGTGTTGATGAACAACCG
1 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
* * * * * *
2895638 TACAGGAACTATTTGTGCAACTCATGGAATTCATCATGTGTTGATGAAAAACCA
1 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
* * * *
2895692 TACAGGCACTATTTGTGCAACTCAC-AGAATTCATCATATCTTCATGAACAACCG
1 TACAGGCACTATGTGTGCAACTCACGA-AATTCATCATGTGTTGATGAACAACCG
* * * * **
2895746 TATAGGCACTATGTGTGCAACTCA-TAGAATTCAACACGTGTTGATGAACAATTG
1 TACAGGCACTATGTGTGCAACTCACGA-AATTCATCATGTGTTGATGAACAACCG
* * * * *
2895800 TACATGCACTATGTGTACAACTCACGGAATTCATCATGTGTTGATGAACAATCA
1 TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
* * * ** *
2895854 TACATGG-GCTATGTTTACAACTCACGGAAA-TCATCATGTGTTGATGAATGACCA
1 TACA-GGCACTATGTGTGCAACTCAC-GAAATTCATCATGTGTTGATGAACAACCG
* * *
2895908 TATAGGCACTACGTGTGGAACT
1 TACAGGCACTATGTGTGCAACT
2895930 TAATGAAATG
Statistics
Matches: 516, Mismatches: 90, Indels: 20
0.82 0.14 0.03
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 503 0.97
55 8 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (54 bp):
TACAGGCACTATGTGTGCAACTCACGAAATTCATCATGTGTTGATGAACAACCG
Found at i:2895543 original size:162 final size:162
Alignment explanation
Indices: 2895267--2895901 Score: 781
Period size: 162 Copynumber: 3.9 Consensus size: 162
2895257 TACTACAGGT
* * * * * *
2895267 ACTATTTGTGCAATTAACGGAATTCATCATGTGTTGATGAACAACCGTATAGGCACTATATATGC
1 ACTATTTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTGTGC
* * *
2895332 AACTCACGAAATTCATCATGTCTTGATAAACAACCATACAGGCACTATGTGTGCAACTCACGAAA
66 AACTCACGGAATTCATCATGTGTTGATGAACAACCATACAGGCACTATGTGTGCAACTCACGAAA
* **
2895397 TTCATCATGTGTTGACAAACAACCGTACATGC
131 TTCATCATGTCTTGATGAACAACCGTACATGC
* * * *
2895429 ACTATTTGTGTAACTCACAGAAATCATCATGTGTTGATGAACAACCATATAGGCACTATGTGTGC
1 ACTATTTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTGTGC
* * * * * * *
2895494 AACTCACAGAAGTCATCATGTGTTGATGAACAACCGTACAGGAACTATGTGTGAAACTCAAGGAA
66 AACTCACGGAATTCATCATGTGTTGATGAACAACCATACAGGCACTATGTGTGCAACTCACGAAA
2895559 TTCATCATGTCTTGATGAACAACCGTACATGC
131 TTCATCATGTCTTGATGAACAACCGTACATGC
* * * * * *
2895591 ACTATTTGTGCAACTTACGGAAGTCATAATGTGTTGATGAACAACCGTACAGGAACTATTTGTGC
1 ACTATTTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTGTGC
* * *
2895656 AACTCATGGAATTCATCATGTGTTGATGAAAAACCATACAGGCACTATTTGTGCAACTCAC-AGA
66 AACTCACGGAATTCATCATGTGTTGATGAACAACCATACAGGCACTATGTGTGCAACTCACGA-A
* * * *
2895720 ATTCATCATATCTTCATGAACAACCGTATAGGC
130 ATTCATCATGTCTTGATGAACAACCGTACATGC
* * * * ** * *
2895753 ACTATGTGTGCAACTCATAGAATTCAACACGTGTTGATGAACAATTGTACATGCACTATGTGTAC
1 ACTATTTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTGTGC
* * * *
2895818 AACTCACGGAATTCATCATGTGTTGATGAACAATCATACATGG-GCTATGTTTACAACTCACGGA
66 AACTCACGGAATTCATCATGTGTTGATGAACAACCATACA-GGCACTATGTGTGCAACTCAC-GA
*
2895882 AA-TCATCATGTGTTGATGAA
129 AATTCATCATGTCTTGATGAA
2895902 TGACCATATA
Statistics
Matches: 401, Mismatches: 68, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
162 396 0.99
163 4 0.01
164 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (162 bp):
ACTATTTGTGCAACTCACAGAATTCATCATGTGTTGATGAACAACCGTACAGGCACTATGTGTGC
AACTCACGGAATTCATCATGTGTTGATGAACAACCATACAGGCACTATGTGTGCAACTCACGAAA
TTCATCATGTCTTGATGAACAACCGTACATGC
Found at i:2902865 original size:41 final size:41
Alignment explanation
Indices: 2902775--2902948 Score: 145
Period size: 41 Copynumber: 4.2 Consensus size: 41
2902765 CACTAATTAA
* * **
2902775 CAATTCAATTCAATCATAGCAA-CATGAAATAATTCACCATT
1 CAATTCAATTCAATCAT-GGAAGCATGCAATAATTCATAATT
** * * * * * *
2902816 TGACTCAATTCGATAATGGTAGCATGTAGTAATTCATAATT
1 CAATTCAATTCAATCATGGAAGCATGCAATAATTCATAATT
* * * *
2902857 CAATTCAATTAAATCATGGCAGCATGCAATAATTAACAATT
1 CAATTCAATTCAATCATGGAAGCATGCAATAATTCATAATT
* * *
2902898 CAACTT-AATTCAATCATGAAAGCATGGAATAATCCATAATT
1 CAA-TTCAATTCAATCATGGAAGCATGCAATAATTCATAATT
2902939 CAATTCAATT
1 CAATTCAATT
2902949 TGGTCATGAC
Statistics
Matches: 101, Mismatches: 29, Indels: 6
0.74 0.21 0.04
Matches are distributed among these distances:
40 4 0.04
41 95 0.94
42 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (41 bp):
CAATTCAATTCAATCATGGAAGCATGCAATAATTCATAATT
Found at i:2902888 original size:82 final size:82
Alignment explanation
Indices: 2902775--2902948 Score: 204
Period size: 82 Copynumber: 2.1 Consensus size: 82
2902765 CACTAATTAA
* * * ** * **
2902775 CAATTCAATTCAATCATAGCAACATGAAATAATTCACCATTTGACTCAATTCGATAATGGTAGCA
1 CAATTCAATTAAATCATAGCAACATGAAATAATTAACAATTCAACTCAATTCAATAATGAAAGCA
* * *
2902840 TGTAGTAATTCATAATT
66 TGGAATAATCCATAATT
* * * * *
2902857 CAATTCAATTAAATCATGGCAGCATGCAATAATTAACAATTCAACTTAATTCAATCATGAAAGCA
1 CAATTCAATTAAATCATAGCAACATGAAATAATTAACAATTCAACTCAATTCAATAATGAAAGCA
2902922 TGGAATAATCCATAATT
66 TGGAATAATCCATAATT
2902939 CAATTCAATT
1 CAATTCAATT
2902949 TGGTCATGAC
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (82 bp):
CAATTCAATTAAATCATAGCAACATGAAATAATTAACAATTCAACTCAATTCAATAATGAAAGCA
TGGAATAATCCATAATT
Found at i:2904306 original size:14 final size:14
Alignment explanation
Indices: 2904283--2904316 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2904273 CTTTGGACTT
2904283 TCAA-TTTTTTCTC
1 TCAATTTTTTTCTC
2904296 TCAATTTTTTTCTC
1 TCAATTTTTTTCTC
2904310 TCAATTT
1 TCAATTT
2904317 GGGTCACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (14 bp):
TCAATTTTTTTCTC
Found at i:2914237 original size:31 final size:28
Alignment explanation
Indices: 2914186--2914246 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 28
2914176 TAATTGCAAG
*
2914186 CATGAATTCAACTTCCTAACATCAAATT
1 CATGAATTCAACTTCATAACATCAAATT
2914214 CATGATATTCTAACCTTCATAACATCAAATT
1 CATGA-ATTC-AA-CTTCATAACATCAAATT
2914245 CA
1 CA
2914247 ATCAAAATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 5 0.17
29 4 0.14
30 2 0.07
31 18 0.62
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.33
Consensus pattern (28 bp):
CATGAATTCAACTTCATAACATCAAATT
Found at i:2914747 original size:15 final size:15
Alignment explanation
Indices: 2914727--2914757 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2914717 TAATTACATT
*
2914727 TTCCATTGAAATATC
1 TTCCATTAAAATATC
2914742 TTCCATTAAAATATC
1 TTCCATTAAAATATC
2914757 T
1 T
2914758 CATAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (15 bp):
TTCCATTAAAATATC
Found at i:2919208 original size:24 final size:24
Alignment explanation
Indices: 2919176--2919247 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
2919166 TCGAATATGT
2919176 TTAGTGCATT-TGTGCACTCCAGTA
1 TTAGTGCATTGT-TGCACTCCAGTA
*
2919200 TTAGTGCATTGATTGCACT-CATGTT
1 TTAGTGCATTG-TTGCACTCCA-GTA
*
2919225 TTAGTGCCTTGTTGCACTCCAGT
1 TTAGTGCATTGTTGCACTCCAGT
2919248 TATAGTTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 21 0.50
25 20 0.48
26 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (24 bp):
TTAGTGCATTGTTGCACTCCAGTA
Found at i:2919253 original size:24 final size:25
Alignment explanation
Indices: 2919188--2919253 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
2919178 AGTGCATTTG
2919188 TGCACTCCAG-TATTAGTGCATTGAT
1 TGCACTCCAGTTA-TAGTGCATTGAT
* *
2919213 TGCACT-CATGTTTTAGTGCCTTG-T
1 TGCACTCCA-GTTATAGTGCATTGAT
2919237 TGCACTCCAGTTATAGT
1 TGCACTCCAGTTATAGT
2919254 TTGTTCGTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
24 16 0.46
25 18 0.51
26 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (25 bp):
TGCACTCCAGTTATAGTGCATTGAT
Found at i:2919361 original size:24 final size:24
Alignment explanation
Indices: 2919311--2919366 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
2919301 TGCATATGTT
* * *
2919311 TACTCATGTATTAGTACCTTTGGG
1 TACTCTTGTATTAGTACATTCGGG
* *
2919335 TACTCTTGTGTTAGTACATTCGTG
1 TACTCTTGTATTAGTACATTCGGG
2919359 TACTCTTG
1 TACTCTTG
2919367 GCACTATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (24 bp):
TACTCTTGTATTAGTACATTCGGG
Found at i:2925042 original size:20 final size:21
Alignment explanation
Indices: 2925019--2925057 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2925009 CTTATACTTG
2925019 AAATT-CAGCATTCAAGTAAT
1 AAATTCCAGCATTCAAGTAAT
*
2925039 AAATTCCAGCATTCTAGTA
1 AAATTCCAGCATTCAAGTA
2925058 TCATACTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (21 bp):
AAATTCCAGCATTCAAGTAAT
Found at i:2926394 original size:30 final size:30
Alignment explanation
Indices: 2926360--2926430 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
2926350 AAATTACCTT
* *
2926360 TTTAGTCC-TTAAACTTTTCAAAATTTATAC
1 TTTAGTCCACTAAAC-TTTCAAAACTTATAC
*
2926390 TTTAG-CCACTAAACTTTCAAAACTTATAT
1 TTTAGTCCACTAAACTTTCAAAACTTATAC
2926419 TTTAGT-CACTAA
1 TTTAGTCCACTAA
2926431 CCAAAGTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 26 0.72
30 10 0.28
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.42
Consensus pattern (30 bp):
TTTAGTCCACTAAACTTTCAAAACTTATAC
Found at i:2926417 original size:29 final size:30
Alignment explanation
Indices: 2926369--2926430 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
2926359 TTTTAGTCCT
*
2926369 TAAACTTTTCAAAATTTATACTTTAGCCAC
1 TAAACTTTTCAAAACTTATACTTTAGCCAC
* *
2926399 TAAAC-TTTCAAAACTTATATTTTAGTCAC
1 TAAACTTTTCAAAACTTATACTTTAGCCAC
2926428 TAA
1 TAA
2926431 CCAAAGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.40
Consensus pattern (30 bp):
TAAACTTTTCAAAACTTATACTTTAGCCAC
Found at i:2938560 original size:7 final size:7
Alignment explanation
Indices: 2938543--2938609 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
2938533 TAGTGAGCCT
*
2938543 TAAACCC
1 TAAACCA
*
2938550 TAAACTA
1 TAAACCA
*
2938557 TAAACAA
1 TAAACCA
*
2938564 TAAACCC
1 TAAACCA
2938571 TAAACCA
1 TAAACCA
*
2938578 TAAACTA
1 TAAACCA
2938585 TAAATCC-
1 TAAA-CCA
2938592 TAAACCA
1 TAAACCA
*
2938599 TAAACCT
1 TAAACCA
2938606 TAAA
1 TAAA
2938610 TCGTACTTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
6 2 0.04
7 46 0.94
8 1 0.02
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:2938569 original size:21 final size:21
Alignment explanation
Indices: 2938543--2938603 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
2938533 TAGTGAGCCT
*
2938543 TAAACCCTAAACTATAAACAA
1 TAAACCCTAAACCATAAACAA
*
2938564 TAAACCCTAAACCATAAACTA
1 TAAACCCTAAACCATAAACAA
*
2938585 TAAATCCTAAACCATAAAC
1 TAAACCCTAAACCATAAAC
2938604 CTTAAATCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACAA
Found at i:2938611 original size:21 final size:21
Alignment explanation
Indices: 2938540--2938609 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
2938530 GTGTAGTGAG
*
2938540 CCTTAAACCCTAAACTATAAA
1 CCTTAAACCCTAAACCATAAA
**
2938561 CAATAAACCCTAAACCATAAA
1 CCTTAAACCCTAAACCATAAA
*
2938582 -CTATAAATCCTAAACCATAAA
1 CCT-TAAACCCTAAACCATAAA
2938603 CCTTAAA
1 CCTTAAA
2938610 TCGTACTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 39 0.95
22 2 0.05
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.21
Consensus pattern (21 bp):
CCTTAAACCCTAAACCATAAA
Found at i:2944148 original size:20 final size:20
Alignment explanation
Indices: 2944123--2944161 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2944113 TATGTTAGTT
*
2944123 ATTAAATAGGATCAGTTTTA
1 ATTAAATAGAATCAGTTTTA
2944143 ATTAAATAGAATCAGTTTT
1 ATTAAATAGAATCAGTTTT
2944162 TTATTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
ATTAAATAGAATCAGTTTTA
Found at i:2948779 original size:20 final size:20
Alignment explanation
Indices: 2948754--2948792 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2948744 TCTGTTAGTT
*
2948754 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
2948774 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
2948793 TTATTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:2948829 original size:31 final size:31
Alignment explanation
Indices: 2948774--2948837 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 31
2948764 ATCAGTTTTA
2948774 ATTAGATAGAATCAGTTTTTTATTCTGTTAGTT
1 ATTAGATAGAATCAG-TTTTTATTCTGTT-GTT
*
2948807 ATTAGATAGGATCAG-TTTTATTCTGTTGTT
1 ATTAGATAGAATCAGTTTTTATTCTGTTGTT
2948837 A
1 A
2948838 ATTTTATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.13
31 12 0.40
33 14 0.47
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (31 bp):
ATTAGATAGAATCAGTTTTTATTCTGTTGTT
Found at i:2950929 original size:57 final size:57
Alignment explanation
Indices: 2950831--2950996 Score: 192
Period size: 57 Copynumber: 2.9 Consensus size: 57
2950821 TGTGAAGCTT
* *
2950831 CTCTTCAACAGCTTTCTTCTTAGTTGCTTC--CACAGTCTTCCTACGCTTCTCTAGTTTAGC
1 CTCTTCAACAGC---CTTCTTAGTTTCTTCAGC-CA-TCTTCCTACGCTCCTCTAGTTTAGC
** *
2950891 CTCTTCAACAGCCTTCTTAGTTTCTTCAGCCATCTTCCTTTGCTCCTCTAGTTTGGC
1 CTCTTCAACAGCCTTCTTAGTTTCTTCAGCCATCTTCCTACGCTCCTCTAGTTTAGC
* * **
2950948 CTATTCAACAGCCTTCTTAGTTTCTTCAGCAATCTTCCTTTGCTCCTCT
1 CTCTTCAACAGCCTTCTTAGTTTCTTCAGCCATCTTCCTACGCTCCTCT
2950997 GCCTCAGCCA
Statistics
Matches: 97, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
57 82 0.85
58 2 0.02
59 1 0.01
60 12 0.12
ACGTcount: A:0.14, C:0.33, G:0.11, T:0.42
Consensus pattern (57 bp):
CTCTTCAACAGCCTTCTTAGTTTCTTCAGCCATCTTCCTACGCTCCTCTAGTTTAGC
Found at i:2951057 original size:84 final size:82
Alignment explanation
Indices: 2950951--2951294 Score: 253
Period size: 84 Copynumber: 4.2 Consensus size: 82
2950941 GTTTGGCCTA
2950951 TTCAACAGCCTTCTT-AGTTTCTTCAGCAATCTTCCTTTGCTCCT-CTGCCTCAGCCATCTC-AA
1 TTCAACAGCCTTCTTCAGTTTCTTCAGCAATCTTCCTTTGCT-CTGCTGCCTCAGCCATCTCTAA
**
2951013 ACTCAGCTTGTTTTCTTAC
65 A-TCAGCAAGTTTTCTTAC
* *
2951032 TTCAACAGCCTTCTTCATGTTTTCTTCAGCAATCTTCCTTTGCTCTGCTGCTTCTGCCATCTCTA
1 TTCAACAGCCTTCTTCA-G-TTTCTTCAGCAATCTTCCTTTGCTCTGCTGCCTCAGCCATCTCTA
* *
2951097 TATCAGCAAGTTTTCTTTC
64 AATCAGCAAGTTTTCTTAC
* * * * * * * *
2951116 TCCAACTGCCTTCTTCTTAGTTCCATT-AGCAACCTTCCTCTGCTC--C-ACTTTAGCCATCT-T
1 TTCAACAGCCTTCTTC--AGTTTC-TTCAGCAATCTTCCTTTGCTCTGCTGCCTCAGCCATCTCT
*
2951176 CAAATCAGCACA-TTTT-TTTC
63 -AAATCAGCA-AGTTTTCTTAC
* * * *** * * *
2951196 GTCAACAGCCTTTTTCTTAGTTTCTTCTGCAATCTTCCTCAACTC-CCTTGCTTTAGCCATCTCT
1 TTCAACAGCCTTCTTC--AGTTTCTTCAGCAATCTTCCTTTGCTCTGC-TGCCTCAGCCATCTCT
*
2951260 AAATC-GACAAGTTTTCTTTC
63 AAATCAG-CAAGTTTTCTTAC
*
2951280 TTCAACTGCCTTCTT
1 TTCAACAGCCTTCTT
2951295 TTTCTCTTCT
Statistics
Matches: 217, Mismatches: 28, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.01
80 38 0.18
81 38 0.18
82 5 0.02
83 26 0.12
84 102 0.47
85 5 0.02
86 1 0.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (82 bp):
TTCAACAGCCTTCTTCAGTTTCTTCAGCAATCTTCCTTTGCTCTGCTGCCTCAGCCATCTCTAAA
TCAGCAAGTTTTCTTAC
Found at i:2955704 original size:20 final size:19
Alignment explanation
Indices: 2955679--2955723 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2955669 TACTATGCTG
*
2955679 GAAATTAACGTTATAGTGTT
1 GAAATTAACGTTATAATG-T
* *
2955699 GAAATTGATGTTATAATGT
1 GAAATTAACGTTATAATGT
2955718 GAAATT
1 GAAATT
2955724 GGATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (19 bp):
GAAATTAACGTTATAATGT
Found at i:2957293 original size:86 final size:86
Alignment explanation
Indices: 2957139--2957305 Score: 194
Period size: 86 Copynumber: 1.9 Consensus size: 86
2957129 TGTATATAGG
* * * * * * *
2957139 ACCGTACTAAAGGATATCTAGTGATGGTCAGTACTAAAGGATACCTAGTGTTGATGGTGGGCACG
1 ACCGTACTAAAGGATACCTAGTGACGGCCACTACTAAAGGATACCTAGTGCTGATGGCGGACACG
*
2957204 ACCTTATGTGTCATATTTGAT
66 ACCTCATGTGTCATATTTGAT
* *
2957225 ACCGTACTAAAGGATACCTAGTG-CGAGCCACTACTAAATGATACCTAGTGCT-ATTGGCGGATA
1 ACCGTACTAAAGGATACCTAGTGACG-GCCACTACTAAAGGATACCTAGTGCTGA-TGGCGGACA
* *
2957288 TGACCTCCTGTGTCATAT
64 CGACCTCATGTGTCATAT
2957306 CAGTTTAGCA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 2 0.03
86 65 0.97
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (86 bp):
ACCGTACTAAAGGATACCTAGTGACGGCCACTACTAAAGGATACCTAGTGCTGATGGCGGACACG
ACCTCATGTGTCATATTTGAT
Found at i:2960537 original size:64 final size:65
Alignment explanation
Indices: 2960463--2960618 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 65
2960453 ACACCCTAAT
* * *
2960463 TCGAATGCATTTTGTGTACCGATGCACA-ACCATGCATCGATGCACTCCCGATTTTTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGAATCGATGCACTCCCGACTCTTTTGAAACA
* * * * * * *
2960527 TCGAATGCATTTTATGTACTGATGCACAGATCATGAATCGGTGCACTCCTGGCTCTTTTGAAACT
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGAATCGATGCACTCCCGACTCTTTTGAAACA
* * * *
2960592 TCGAATGTAATTAGTGTACCGACGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
2960619 CCCTATTGTA
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
64 26 0.35
65 49 0.65
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATGAATCGATGCACTCCCGACTCTTTTGAAACA
Found at i:2966819 original size:19 final size:21
Alignment explanation
Indices: 2966792--2966833 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
2966782 AAAAAAATTG
2966792 TTTTGATTTAA-T-TGTTGTT
1 TTTTGATTTAATTATGTTGTT
*
2966811 TTTTTATTTAATTATGTTGTT
1 TTTTGATTTAATTATGTTGTT
2966832 TT
1 TT
2966834 CATGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 1 0.05
21 9 0.45
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (21 bp):
TTTTGATTTAATTATGTTGTT
Found at i:2966886 original size:12 final size:13
Alignment explanation
Indices: 2966857--2966894 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
2966847 TGTATCACAA
*
2966857 ATTTTTAAACATT
1 ATTTTCAAACATT
*
2966870 GTTTTCAAA-ATT
1 ATTTTCAAACATT
2966882 ATTTTCAAACATT
1 ATTTTCAAACATT
2966895 GTCTATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTTTCAAACATT
Found at i:2968362 original size:29 final size:28
Alignment explanation
Indices: 2968328--2968394 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
2968318 TTTTTAAAAC
* *
2968328 ATTTTGAATATTTGGCTTT-GTTTGTTTGG
1 ATTTTGAATATTTAG-TTTGGATTGTTT-G
2968357 ATTTTGAATATTTAGTTTGGATTGTTTG
1 ATTTTGAATATTTAGTTTGGATTGTTTG
2968385 -TTTTGAATAT
1 ATTTTGAATAT
2968395 ATTTTGGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 10 0.29
28 4 0.11
29 21 0.60
ACGTcount: A:0.19, C:0.01, G:0.21, T:0.58
Consensus pattern (28 bp):
ATTTTGAATATTTAGTTTGGATTGTTTG
Found at i:2968412 original size:25 final size:27
Alignment explanation
Indices: 2968349--2968412 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
2968339 TTGGCTTTGT
2968349 TTGTTTGGATTTTGAATATTTAGTTTGGA
1 TTGTTTGG-TTTTGAATA-TTAGTTTGGA
*
2968378 TTGTTT-GTTTTGAATA-TATTTTGGA
1 TTGTTTGGTTTTGAATATTAGTTTGGA
2968403 -TGTTTGGTTT
1 TTGTTTGGTTT
2968413 GTTTGAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.15
25 12 0.36
27 9 0.27
28 1 0.03
29 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.59
Consensus pattern (27 bp):
TTGTTTGGTTTTGAATATTAGTTTGGA
Found at i:2973254 original size:6 final size:6
Alignment explanation
Indices: 2973243--2973283 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
2973233 TGGAAGCCTT
2973243 TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAG
1 TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAG
2973284 TTCAAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (6 bp):
TGAAGA
Found at i:2973290 original size:18 final size:18
Alignment explanation
Indices: 2973243--2973290 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
2973233 TGGAAGCCTT
*
2973243 TGAAGATGAAGATGAAGA
1 TGAAGATCAAGATGAAGA
*
2973261 TGAAGATGAAGATGAAGA
1 TGAAGATCAAGATGAAGA
*
2973279 TGAAGTTCAAGA
1 TGAAGATCAAGA
2973291 AAGGGGACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.48, C:0.02, G:0.31, T:0.19
Consensus pattern (18 bp):
TGAAGATCAAGATGAAGA
Found at i:2974006 original size:17 final size:17
Alignment explanation
Indices: 2973982--2974020 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2973972 AAAATATTAT
2973982 ATTA-TATTATTATTTA
1 ATTATTATTATTATTTA
*
2973998 TTTATTATTATTATTTA
1 ATTATTATTATTATTTA
2974015 ATTATT
1 ATTATT
2974021 TAATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTATTATTATTTA
Found at i:2974026 original size:13 final size:13
Alignment explanation
Indices: 2973990--2974034 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
2973980 ATATTATATT
2973990 ATTATTT-ATTT-
1 ATTATTTAATTTA
*
2974001 ATTATTATTATTTA
1 ATTATT-TAATTTA
2974015 ATTATTTAATTTA
1 ATTATTTAATTTA
2974028 ATT-TTTA
1 ATTATTTA
2974035 TTTTTTGCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 6 0.20
12 5 0.17
13 13 0.43
14 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTATTTAATTTA
Found at i:2980492 original size:106 final size:106
Alignment explanation
Indices: 2980278--2981023 Score: 1224
Period size: 106 Copynumber: 7.0 Consensus size: 106
2980268 ATATCGTGCC
* *
2980278 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
* *
2980342 GATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2980383 ACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
2980448 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * **
2980489 ACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAACAACCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC--AACAAACAATTTC
* *
2980554 CCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
64 TCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2980597 ACTCCAGACAACGCAAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
2980662 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2980703 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
2980768 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2980809 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
*
2980874 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
2980915 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
* * * *
2980980 AGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
2981021 ACT
1 ACT
2981024 TAGAACAATA
Statistics
Matches: 602, Mismatches: 36, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
105 53 0.09
106 450 0.75
108 99 0.16
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2981462 original size:83 final size:82
Alignment explanation
Indices: 2981222--2981463 Score: 267
Period size: 83 Copynumber: 3.0 Consensus size: 82
2981212 TCTGCTAACA
* *
2981222 AAAGACCTTTGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTGCAGCATAGCTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGAAGCATAGCTTAAGTCG
2981286 AGAAGGGCTATC--TGCC
65 AGAAGGGCTATCTGTGCC
** * * * * * * * * *
2981302 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTT-ACAGCATAACTCAAGGC
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGA-AGCATAGCTTAAGTC
* * *
2981366 TACAAGGGTTATCTGTGACC
64 GAGAAGGGCTATCTGTG-CC
*
2981386 AAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGAAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGAAGCATAGCTTAAGTCGA
2981451 GAAGGGCTATCTG
66 GAAGGGCTATCTG
2981464 CCAACCGAAG
Statistics
Matches: 124, Mismatches: 31, Indels: 11
0.75 0.19 0.07
Matches are distributed among these distances:
80 24 0.19
81 33 0.27
82 1 0.01
83 39 0.31
84 27 0.22
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (82 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGAAGCATAGCTTAAGTCGA
GAAGGGCTATCTGTGCC
Found at i:2981481 original size:84 final size:82
Alignment explanation
Indices: 2981223--2981485 Score: 273
Period size: 84 Copynumber: 3.2 Consensus size: 82
2981213 CTGCTAACAA
* *
2981223 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGAAGCATAGCTTAAGTCGA
2981287 GAAGGGCTATCTGCCA--
65 GAAGGGCTATCTGCCACC
** * * * * * * * * * *
2981303 AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTATATCATTT-ACAGCATAACTCAAGGCT
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGA-AGCATAGCTTAAGTCG
* * **
2981367 ACAAGGGTTATCTGTGACC
64 AGAAGGGCTATCTGCCACC
*
2981386 AAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGAAGCATAGCTTAAGTCGA
1 -AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGAAGCATAGCTTAAGTCGA
2981451 GAAGGGCTATCTGCCAACC
65 GAAGGGCTATCTGCC-ACC
2981470 GAAGACCTTCGAGTTC
1 -AAGACCTTCGAGTTC
2981486 AATTACACTC
Statistics
Matches: 138, Mismatches: 37, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
80 23 0.17
81 36 0.26
82 1 0.01
83 37 0.27
84 41 0.30
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (82 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGAAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCACC
Found at i:2981831 original size:14 final size:14
Alignment explanation
Indices: 2981807--2981863 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 14
2981797 AAAAACATTA
2981807 TATTATATTATTATT
1 TATT-TATTATTATT
2981822 TATTTATTATTA-T
1 TATTTATTATTATT
2981835 TATTTA--ATTATT
1 TATTTATTATTATT
*
2981847 TAATT-TTATT-TT
1 TATTTATTATTATT
2981859 TATTT
1 TATTT
2981864 TTTTGCAGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 4 0.11
12 11 0.30
13 10 0.27
14 8 0.22
15 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTATTATTATT
Found at i:2981832 original size:17 final size:17
Alignment explanation
Indices: 2981808--2981846 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2981798 AAAACATTAT
2981808 ATTA-TATTATTATTTA
1 ATTATTATTATTATTTA
*
2981824 TTTATTATTATTATTTA
1 ATTATTATTATTATTTA
2981841 ATTATT
1 ATTATT
2981847 TAATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTATTATTATTTA
Found at i:2985464 original size:81 final size:81
Alignment explanation
Indices: 2985347--2985612 Score: 320
Period size: 82 Copynumber: 3.3 Consensus size: 81
2985337 ATTTAGCAAC
* * * * * * *
2985347 GTTTTTATATAAATGCCGTAATATGGTTAATATATAGTGGCTTTTTTTAACAAACGCCGCAACAG
1 GTTTTTATACAAACGCCGCAATAGGGTT-ATATATAGTGGCATTTTTCAACAAACGCCGCAATAG
2985412 AGTAGT-CTTTAACGGT
65 AGTAGTACTTTAACGGT
* *
2985428 GTTATTATACAAACGCCGCAATAGGGTTAGTATATAGTGGCATTTTTCAACAAACACCGCAATAG
1 GTTTTTATACAAACGCCGCAATAGGGTTA-TATATAGTGGCATTTTTCAACAAACGCCGCAATAG
*
2985493 AGTAGTAATTTAA-GGAT
65 AGTAGTACTTTAACGG-T
* * * * *
2985510 GTTTTTATACAAATGCCGAAATAGGGTTCATCTATAGTGACATTTTTCAACAAACGCTGCAATAG
1 GTTTTTATACAAACGCCGCAATAGGGTT-ATATATAGTGGCATTTTTCAACAAACGCCGCAATAG
* *
2985575 AGTAGTACTTTAGCGGC
65 AGTAGTACTTTAACGGT
*
2985592 ATTTTTATACAAACGCCGCAA
1 GTTTTTATACAAACGCCGCAA
2985613 AGAGTAAAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 62 0.39
82 91 0.58
83 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (81 bp):
GTTTTTATACAAACGCCGCAATAGGGTTATATATAGTGGCATTTTTCAACAAACGCCGCAATAGA
GTAGTACTTTAACGGT
Found at i:2985522 original size:41 final size:39
Alignment explanation
Indices: 2985390--2985618 Score: 130
Period size: 41 Copynumber: 5.7 Consensus size: 39
2985380 ATAGTGGCTT
* *
2985390 TTTTTAACAAACGCCGCAACAGAGTAGTCTTTAACGG-TG
1 TTTTTAACAAACGCCGCAATAGAGTAGTATTTAA-GGATG
* * * *
2985429 TTATTATACAAACGCCGCAATAGGGTTAGTATATAGTGGCAT-
1 TTTTTA-ACAAACGCCGCAATAGAG-TAGTATTTA-AGG-ATG
* *
2985471 TTTTCAACAAACACCGCAATAGAGTAGTAATTTAAGGATG
1 TTTTTAACAAACGCCGCAATAGAGTAGT-ATTTAAGGATG
* * * * **
2985511 TTTTTATACAAATGCCGAAATAGGGT--TCATCTATAGTGACA
1 TTTTTA-ACAAACGCCGCAATAGAGTAGT-ATTTA-AG-GATG
* *
2985552 TTTTTCAACAAACGCTGCAATAGAGTAGTACTTTAGCGGCA--
1 TTTTT-AACAAACGCCGCAATAGAGTAGTA-TTTA-AGG-ATG
2985593 TTTTTATACAAACGCCGCAA-AGAGTA
1 TTTTTA-ACAAACGCCGCAATAGAGTA
2985619 AAATGTATTT
Statistics
Matches: 145, Mismatches: 29, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
39 12 0.08
40 36 0.25
41 83 0.57
42 7 0.05
43 7 0.05
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (39 bp):
TTTTTAACAAACGCCGCAATAGAGTAGTATTTAAGGATG
Found at i:2985757 original size:17 final size:17
Alignment explanation
Indices: 2985735--2985770 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2985725 AAAATTCTCT
2985735 TAATTTAGTGGCGTTTG
1 TAATTTAGTGGCGTTTG
* *
2985752 TAATTTTGTGGTGTTTG
1 TAATTTAGTGGCGTTTG
2985769 TA
1 TA
2985771 TACAAACGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.53
Consensus pattern (17 bp):
TAATTTAGTGGCGTTTG
Found at i:2985824 original size:40 final size:40
Alignment explanation
Indices: 2985769--2985845 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
2985759 GTGGTGTTTG
2985769 TATACAAACGCCGCTATAAACTAGTACTTTAGCGGCGTTA
1 TATACAAACGCCGCTATAAACTAGTACTTTAGCGGCGTTA
* * * *
2985809 TATACAAATGCCGCTATAAACTCGTATTTTAGTGGCG
1 TATACAAACGCCGCTATAAACTAGTACTTTAGCGGCG
2985846 GTTTTGTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (40 bp):
TATACAAACGCCGCTATAAACTAGTACTTTAGCGGCGTTA
Found at i:2985961 original size:44 final size:42
Alignment explanation
Indices: 2985836--2985991 Score: 129
Period size: 42 Copynumber: 3.7 Consensus size: 42
2985826 AAACTCGTAT
* * *
2985836 TTTAGTGGCGGTTTTGT--TCAAACGTCGCAATAGTCAA-GTAC
1 TTTAGTGGCGTTTTTGTAAT-AAACGCCGCAATAGT-AATGTAA
* * * *
2985877 TTTAGTGGCGTTTTTGTAATAAACTCCGTAATAATCATGTAA
1 TTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTAATGTAA
* *
2985919 TTTAGTGGTGTTTTTTTGTAATAAACGCCGCAATAGTAATGTAC
1 TTTAGTGGCG--TTTTTGTAATAAACGCCGCAATAGTAATGTAA
* * * * *
2985963 CTTAATGGCGTTTGTATTATAAACGCCGC
1 TTTAGTGGCGTTTTTGTAATAAACGCCGC
2985992 TATTGTCCAA
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 17 0.19
42 39 0.43
43 1 0.01
44 34 0.37
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (42 bp):
TTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTAATGTAA
Done.