Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 39 of 318
Found at i:14619898 original size:4 final size:4
Alignment explanation
Indices: 14619889--14619919 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
14619879 TACATAATAT
*
14619889 TATG TATG TATG TATG TATA TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
14619920 CCAACTCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:14619906 original size:12 final size:12
Alignment explanation
Indices: 14619885--14619919 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14619875 TTTTTACATA
14619885 ATAT-TATGTAT
1 ATATGTATGTAT
*
14619896 GTATGTATGTAT
1 ATATGTATGTAT
14619908 ATATGTATGTAT
1 ATATGTATGTAT
14619920 CCAACTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (12 bp):
ATATGTATGTAT
Found at i:14626774 original size:70 final size:70
Alignment explanation
Indices: 14626687--14626828 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
14626677 TTAATAATGA
14626687 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
1 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
14626752 CCTGG
66 CCTGG
* *
14626757 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAGGAAACTGTCAATTGAAGAGCT
1 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
14626822 CCTGG
66 CCTGG
14626827 AA
1 AA
14626829 CATACTGCAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (70 bp):
AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
CCTGG
Found at i:14631367 original size:19 final size:21
Alignment explanation
Indices: 14631329--14631378 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
14631319 AATACATTAA
* *
14631329 ATTAAAAAATAACTCTTAATT
1 ATTAAAAAATAACACATAATT
14631350 -TTAAAAAATAA-ACATAATT
1 ATTAAAAAATAACACATAATT
14631369 ATCTAAAAAA
1 AT-TAAAAAA
14631379 ATTAAATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTAAAAAATAACACATAATT
Found at i:14633294 original size:29 final size:29
Alignment explanation
Indices: 14633251--14633310 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
14633241 AATACATTAA
14633251 ATCCAAACAGACCTAAGCAAACCTATCAT
1 ATCCAAACAGACCTAAGCAAACCTATCAT
* * *
14633280 ATCCAAACAGTCCTAGGCACACCTATCAT
1 ATCCAAACAGACCTAAGCAAACCTATCAT
14633309 AT
1 AT
14633311 AAGCTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.20
Consensus pattern (29 bp):
ATCCAAACAGACCTAAGCAAACCTATCAT
Found at i:14636414 original size:15 final size:15
Alignment explanation
Indices: 14636394--14636435 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
14636384 TGTCCTTGAA
14636394 GGATGTTCCCCATAT
1 GGATGTTCCCCATAT
14636409 GGATGTTCCCCATAT
1 GGATGTTCCCCATAT
14636424 GGATGTTCCCCA
1 GGATGTTCCCCA
14636436 GCAATGGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (15 bp):
GGATGTTCCCCATAT
Found at i:14645549 original size:15 final size:15
Alignment explanation
Indices: 14645515--14645548 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14645505 AATTCTAAAA
*
14645515 ATTTAAAAAAAATAT
1 ATTTTAAAAAAATAT
14645530 ATTTTAAAAAAATA-
1 ATTTTAAAAAAATAT
14645544 ATTTT
1 ATTTT
14645549 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAAAAAATAT
Found at i:14646122 original size:6 final size:7
Alignment explanation
Indices: 14646105--14646130 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14646095 CATTTAATAT
14646105 TTTTTTC
1 TTTTTTC
14646112 TTTTTTC
1 TTTTTTC
14646119 TTTTTTC
1 TTTTTTC
14646126 TTTTT
1 TTTTT
14646131 AAGTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:14651580 original size:2 final size:2
Alignment explanation
Indices: 14651573--14651612 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14651563 CGAATATCCC
14651573 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14651613 GTGCCTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14652941 original size:8 final size:8
Alignment explanation
Indices: 14652928--14652953 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14652918 ATTAATAATA
14652928 TATAAAAT
1 TATAAAAT
14652936 TATAAAAT
1 TATAAAAT
14652944 TATAAAAT
1 TATAAAAT
14652952 TA
1 TA
14652954 AATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:14658918 original size:25 final size:26
Alignment explanation
Indices: 14658857--14658920 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
14658847 TATCATTTTA
*
14658857 AATT-TATATA-TTACATATACAAAT
1 AATTATATATATTTACATATAAAAAT
*
14658881 AATTATATTTATTTA-ATATAAAAAT
1 AATTATATATATTTACATATAAAAAT
14658906 AA-TATGATATATTTA
1 AATTAT-ATATATTTA
14658921 TTCAAATGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 7 0.21
25 24 0.71
26 3 0.09
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTATATATATTTACATATAAAAAT
Found at i:14674214 original size:25 final size:25
Alignment explanation
Indices: 14674186--14674233 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14674176 GAGATTTTAG
14674186 AAAAGAGAAAAAAGAAGAGAGAGAA
1 AAAAGAGAAAAAAGAAGAGAGAGAA
* * *
14674211 AAAAGCGAGAAGAGAAGAGAGAG
1 AAAAGAGAAAAAAGAAGAGAGAG
14674234 TGAGAGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (25 bp):
AAAAGAGAAAAAAGAAGAGAGAGAA
Found at i:14674224 original size:16 final size:15
Alignment explanation
Indices: 14674184--14674226 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
14674174 GAGAGATTTT
14674184 AGAA-AAGAGAAAAA
1 AGAAGAAGAGAAAAA
14674198 AGAAGAGAGAGAAAAA
1 AGAAGA-AGAGAAAAA
*
14674214 AGCGAGAAGAGAA
1 AG-AAGAAGAGAA
14674227 GAGAGAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 4 0.16
15 1 0.04
16 17 0.68
17 3 0.12
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAGAAAAA
Found at i:14675200 original size:14 final size:14
Alignment explanation
Indices: 14675181--14675208 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14675171 TTTTTGGCCC
14675181 CCATAAATGATATA
1 CCATAAATGATATA
14675195 CCATAAATGATATA
1 CCATAAATGATATA
14675209 TTTTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
CCATAAATGATATA
Found at i:14676129 original size:22 final size:22
Alignment explanation
Indices: 14676104--14676146 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14676094 AGCATATGAG
14676104 AAAACTTGGTAAAAAATGTACT
1 AAAACTTGGTAAAAAATGTACT
14676126 AAAACTTGGTAAAAAATGTAC
1 AAAACTTGGTAAAAAATGTAC
14676147 AAGCTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (22 bp):
AAAACTTGGTAAAAAATGTACT
Found at i:14676904 original size:32 final size:31
Alignment explanation
Indices: 14676868--14676929 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
14676858 AAGTTAAGAG
* * *
14676868 AAAAATATTTTTAGATCCCTTAAAAATTAATA
1 AAAAAAATTTTT-GAACCCTTAAAAACTAATA
*
14676900 AAAAAAATTTTTGAACTCTTAAAAACTAAT
1 AAAAAAATTTTTGAACCCTTAAAAACTAAT
14676930 TTTTTTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAAAAATTTTTGAACCCTTAAAAACTAATA
Found at i:14683902 original size:26 final size:26
Alignment explanation
Indices: 14683864--14683921 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
14683854 CATGAAATTC
14683864 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14683890 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14683916 TTATCA
1 TTATCA
14683922 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14689668 original size:26 final size:26
Alignment explanation
Indices: 14689632--14689715 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14689622 CATGAAATTC
14689632 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14689658 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14689684 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14689710 TTATCA
1 TTATCA
14689716 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14690625 original size:28 final size:26
Alignment explanation
Indices: 14690573--14690625 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
14690563 GGAAGATGAG
**
14690573 AGGAGAAGAGAATTTTTTTTTAAAAT
1 AGGAGAAGAGAATTTTTTTAAAAAAT
14690599 AGGAGAAGAATGAATTTTTTTAAAAAA
1 AGGAGAAG-A-GAATTTTTTTAAAAAA
14690626 AATTGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 1 0.04
28 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (26 bp):
AGGAGAAGAGAATTTTTTTAAAAAAT
Found at i:14691052 original size:15 final size:16
Alignment explanation
Indices: 14691032--14691076 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
14691022 TTCTTTATTA
*
14691032 AATATTATTATTTCT-
1 AATATTATTATTTATC
14691047 AATATTATTAATATTATC
1 AATATTATT-AT-TTATC
14691065 AATATTATTATT
1 AATATTATTATT
14691077 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 9 0.35
16 3 0.12
17 5 0.19
18 9 0.35
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTATTTATC
Found at i:14691058 original size:9 final size:9
Alignment explanation
Indices: 14691026--14691093 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
14691016 TTTTGTTTCT
14691026 TTATTAAATA
1 TTATT-AATA
14691036 TTATT-AT-
1 TTATTAATA
*
14691043 TT-CTAATA
1 TTATTAATA
14691051 TTATTAATA
1 TTATTAATA
*
14691060 TTATCAATA
1 TTATTAATA
*
14691069 TTATTATTA
1 TTATTAATA
* *
14691078 TTTTTTATA
1 TTATTAATA
14691087 -TATTAAT
1 TTATTAAT
14691094 GTATATTTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
8 9 0.20
9 26 0.58
10 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATTAATA
Found at i:14691061 original size:18 final size:18
Alignment explanation
Indices: 14691034--14691093 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
14691024 CTTTATTAAA
*
14691034 TATTATTATTTCTAATAT
1 TATTAATATTTCTAATAT
14691052 TATTAATATTATC-AATAT
1 TATTAATATT-TCTAATAT
* * *
14691070 TATTATTATTTTTTATA-
1 TATTAATATTTCTAATAT
14691087 TATTAAT
1 TATTAAT
14691094 GTATATTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 7 0.20
18 26 0.74
19 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTAATATTTCTAATAT
Found at i:14691167 original size:12 final size:11
Alignment explanation
Indices: 14691147--14691268 Score: 54
Period size: 12 Copynumber: 10.6 Consensus size: 11
14691137 TTTAATTTCA
14691147 TATTATTATTAT
1 TATTATTA-TAT
* *
14691159 TAGTATTATAA
1 TATTATTATAT
14691170 TATTA-TAT-T
1 TATTATTATAT
14691179 TATTATTAATAT
1 TATTATT-ATAT
*
14691191 TAGTATATATAT
1 TATTAT-TATAT
*
14691203 T-TTATTAT-G
1 TATTATTATAT
14691212 TATGTATATATAT
1 TAT-TAT-TATAT
* *
14691225 AATTTTTATAT
1 TATTATTATAT
** *
14691236 AGTATTATCGTTT
1 --TATTATTATAT
14691249 CTATTATTATATT
1 -TATTATTATA-T
14691262 TATTATT
1 TATTATT
14691269 TTCACTATTA
Statistics
Matches: 80, Mismatches: 19, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
9 6 0.08
10 8 0.10
11 19 0.24
12 37 0.46
13 10 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTATTATAT
Found at i:14691172 original size:23 final size:24
Alignment explanation
Indices: 14691146--14691243 Score: 87
Period size: 26 Copynumber: 4.0 Consensus size: 24
14691136 CTTTAATTTC
14691146 ATAT-TATTATTATTAGTATTATA
1 ATATATATTATTATTAGTATTATA
*
14691169 ATATTATATTTATTATTAATATTAGT-
1 ATA-TATA-TTATTATTAGTATTA-TA
14691195 ATATATATT-TTATTATGTATGTAT-
1 ATATATATTATTATTA-GTAT-TATA
*
14691219 ATATATAATTTTTATATAGTATTAT
1 ATATAT-ATTATTAT-TAGTATTAT
14691244 CGTTTCTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
23 9 0.14
24 13 0.20
25 14 0.22
26 25 0.39
27 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
ATATATATTATTATTAGTATTATA
Found at i:14691470 original size:38 final size:41
Alignment explanation
Indices: 14691419--14691501 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 41
14691409 TTAATACTCT
* * *
14691419 TATATTATGTATAT-TATTTTTT-TAATATTATATT-TTTA
1 TATATTACGTATATATATTTTTTAAAATATCATATTATTTA
14691457 TATATTACGTATATATATTTTTTAAAATATCATATTATTTA
1 TATATTACGTATATATATTTTTTAAAATATCATATTATTTA
14691498 TATA
1 TATA
14691502 CTTTATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 13 0.33
39 8 0.21
40 10 0.26
41 8 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (41 bp):
TATATTACGTATATATATTTTTTAAAATATCATATTATTTA
Found at i:14691512 original size:38 final size:35
Alignment explanation
Indices: 14691418--14691512 Score: 86
Period size: 38 Copynumber: 2.5 Consensus size: 35
14691408 TTTAATACTC
*
14691418 TTATATTATGTATATTAT-TTTTTTAATATTATATTT
1 TTATA-TAT-TATATTATATTTTTTAATATCATATTT
14691454 TTATATATTACGTATATATATTTTTTAAAATATCATATTAT
1 TTATATATTA--TAT-TATATTTTTT--AATATCATATT-T
14691495 TTATATACTT-TATTATAT
1 TTATATA-TTATATTATAT
14691513 AGGTGTATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
34 2 0.04
35 3 0.06
36 8 0.16
37 3 0.06
38 11 0.22
39 3 0.06
40 10 0.20
41 8 0.16
42 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (35 bp):
TTATATATTATATTATATTTTTTAATATCATATTT
Found at i:14691526 original size:21 final size:22
Alignment explanation
Indices: 14691496--14691551 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
14691486 TCATATTATT
*
14691496 TATATACTTTAT-TATATA-GGTG
1 TATAT-CTTTATATATATATAG-G
14691518 TATATCTTTAATATATATATAGG
1 TATATCTTT-ATATATATATAGG
14691541 TATATCTTTAT
1 TATATCTTTAT
14691552 GTAATATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.13
22 9 0.30
23 16 0.53
24 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (22 bp):
TATATCTTTATATATATATAGG
Found at i:14697769 original size:20 final size:19
Alignment explanation
Indices: 14697746--14697804 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
14697736 AAAATCTAAA
14697746 ATTTTATAAATTCATAATTT
1 ATTTTATAAATT-ATAATTT
14697766 ATTTTATAAAATTATAAATTT
1 ATTTTAT-AAATTAT-AATTT
*
14697787 TTTTTA-AAATTTATAATT
1 ATTTTATAAA-TTATAATT
14697805 ATGCGAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 7 0.20
20 13 0.37
21 15 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATAAATTATAATTT
Found at i:14697785 original size:21 final size:21
Alignment explanation
Indices: 14697746--14697802 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
14697736 AAAATCTAAA
14697746 ATTTTAT-AAATTCAT-AATTT
1 ATTTTATAAAATT-ATAAATTT
14697766 ATTTTATAAAATTATAAATTT
1 ATTTTATAAAATTATAAATTT
14697787 -TTTT-TAAAATTTATAA
1 ATTTTATAAAA-TTATAA
14697803 TTATGCGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.15
20 19 0.56
21 10 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTATAAAATTATAAATTT
Found at i:14698149 original size:18 final size:17
Alignment explanation
Indices: 14698109--14698152 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14698099 ATTTTTTGCA
*
14698109 TTTTTTAAAATTTTAAC
1 TTTTTTATAATTTTAAC
**
14698126 GATTTTATAATTTTAAAC
1 TTTTTTATAATTTT-AAC
14698144 TTTTTTATA
1 TTTTTTATA
14698153 TAGATAACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTTTATAATTTTAAC
Found at i:14699442 original size:18 final size:18
Alignment explanation
Indices: 14699419--14699455 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14699409 TTAATTCTAG
14699419 TTATTTGTAGTTATAATT
1 TTATTTGTAGTTATAATT
* *
14699437 TTATTTGTATTTGTAATT
1 TTATTTGTAGTTATAATT
14699455 T
1 T
14699456 ATAGACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (18 bp):
TTATTTGTAGTTATAATT
Found at i:14709423 original size:14 final size:12
Alignment explanation
Indices: 14709385--14709419 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14709375 TATAACCCTA
14709385 CATATATATATG
1 CATATATATATG
*
14709397 CACATATATATG
1 CATATATATATG
*
14709409 CATTTATATAT
1 CATATATATAT
14709420 ATGCCATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (12 bp):
CATATATATATG
Found at i:14710474 original size:21 final size:21
Alignment explanation
Indices: 14710441--14710482 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14710431 AACATTGGTT
* *
14710441 ATAATATACAAAAATTAATAA
1 ATAAGATACAAAAAATAATAA
*
14710462 ATAAGATATAAAAAATAATAA
1 ATAAGATACAAAAAATAATAA
14710483 TATATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
ATAAGATACAAAAAATAATAA
Found at i:14716327 original size:20 final size:20
Alignment explanation
Indices: 14716302--14716341 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14716292 TAACCCATTA
*
14716302 CTTACTCCCAGAGCCTTACT
1 CTTACTCCCACAGCCTTACT
*
14716322 CTTACTCCCACAGGCTTACT
1 CTTACTCCCACAGCCTTACT
14716342 TATTCTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.40, G:0.10, T:0.30
Consensus pattern (20 bp):
CTTACTCCCACAGCCTTACT
Found at i:14727577 original size:25 final size:25
Alignment explanation
Indices: 14727548--14727598 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
14727538 CAAAGGAAAA
**
14727548 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
14727573 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
14727598 T
1 T
14727599 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:14730619 original size:3 final size:3
Alignment explanation
Indices: 14730611--14730639 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14730601 TAAACACAAA
14730611 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
14730640 ACAACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:14735627 original size:38 final size:37
Alignment explanation
Indices: 14735572--14735646 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
14735562 CGATCATGGC
14735572 ATAGTCAAGTGGAACACCCCAAAGGCAAGGAAATATA
1 ATAGTCAAGTGGAACACCCCAAAGGCAAGGAAATATA
14735609 ATAGTCAAGCTGGAACACCCCAAAGGCAAGGAAATATA
1 ATAGTCAAG-TGGAACACCCCAAAGGCAAGGAAATATA
14735647 GGAAATCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 9 0.24
38 28 0.76
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (37 bp):
ATAGTCAAGTGGAACACCCCAAAGGCAAGGAAATATA
Found at i:14754776 original size:22 final size:22
Alignment explanation
Indices: 14754725--14754785 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
14754715 ATAAGTAAAT
* *
14754725 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
14754746 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
14754768 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
14754786 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:14754885 original size:3 final size:3
Alignment explanation
Indices: 14754877--14754916 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
14754867 AAAGTAGTGC
*
14754877 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14754917 CTATTAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14755024 original size:16 final size:16
Alignment explanation
Indices: 14755005--14755036 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14754995 TTATAATAAT
14755005 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
14755021 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
14755037 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:14755290 original size:3 final size:3
Alignment explanation
Indices: 14755282--14755335 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
14755272 CTACCATATT
14755282 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14755330 ATA ATA
1 ATA ATA
14755336 TAGAAATACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14755983 original size:23 final size:21
Alignment explanation
Indices: 14755932--14755988 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
14755922 TCGAAAAAAG
* *
14755932 AAAAATCCCCTCTTGAATCTC
1 AAAAATCTCTTCTTGAATCTC
14755953 AAAAATCTCTTCTTGAATCTC
1 AAAAATCTCTTCTTGAATCTC
14755974 AAAAAAATCTCTTCT
1 --AAAAATCTCTTCT
14755989 ATCCAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 19 0.59
23 13 0.41
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAAATCTCTTCTTGAATCTC
Found at i:14770000 original size:21 final size:21
Alignment explanation
Indices: 14769974--14770035 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
14769964 ATCTGCTCAA
14769974 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTTTGGAGTAC
14769995 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTTTGGAGTAC
* *
14770016 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGTTTTGGAGTA
14770036 TTGCTCGTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (21 bp):
ACTCCACCTGTTTTGGAGTAC
Found at i:14774186 original size:17 final size:16
Alignment explanation
Indices: 14774166--14774197 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
14774156 AATTTTAAAA
14774166 TTTTAAAAATATATAAT
1 TTTTAAAAAT-TATAAT
14774183 TTTTAAAAATTATAA
1 TTTTAAAAATTATAA
14774198 AAAAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAAAAATTATAAT
Found at i:14774189 original size:25 final size:25
Alignment explanation
Indices: 14774151--14774208 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
14774141 GTCAGTATTT
* *
14774151 AATTAAATTTT-AAAATTTTAAAAA
1 AATTAATTTTTAAAAATTATAAAAA
*
14774175 TATATAATTTTTAAAAATTATAAAAA
1 AAT-TAATTTTTAAAAATTATAAAAA
14774201 AATTAATT
1 AATTAATT
14774209 AAATGATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.07
25 12 0.43
26 14 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTAATTTTTAAAAATTATAAAAA
Found at i:14774606 original size:35 final size:35
Alignment explanation
Indices: 14774565--14774636 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
14774555 CTTAGTACCA
*
14774565 TTGTTCAACCAGATATGTCAATAAATTACCATTCT
1 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
14774600 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
1 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
14774635 TT
1 TT
14774637 CGATCTCCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (35 bp):
TTGTTCAACCAAATATGTCAATAAATTACCATTCT
Found at i:14779926 original size:29 final size:30
Alignment explanation
Indices: 14779879--14779946 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
14779869 TGGCCCAAGA
* *
14779879 GTAAATACTCAAAATTTGAAGGATTAA-AGC
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGC
* *
14779909 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGC
14779939 GTAAATAT
1 GTAAATAT
14779947 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGC
Found at i:14782073 original size:46 final size:46
Alignment explanation
Indices: 14782021--14782248 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
14782011 AGTGTGCTCT
* *
14782021 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
14782067 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
14782113 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
14782159 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
14782205 ATGATA-GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
14782249 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:14782555 original size:16 final size:17
Alignment explanation
Indices: 14782534--14782566 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14782524 ATGATGGAGC
14782534 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
14782550 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
14782567 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:14784638 original size:27 final size:24
Alignment explanation
Indices: 14784607--14784674 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 24
14784597 AAAAAGTGTC
*
14784607 AAATTCAAATATCAAATTGAGATAAAA
1 AAATT-AAATATCAAATT-A-AGAAAA
*
14784634 AAATTTAAATACCAAATTAAGAAAA
1 AAA-TTAAATATCAAATTAAGAAAA
*
14784659 ATATTAAA-ATCAAATT
1 AAATTAAATATCAAATT
14784675 TAAATACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 7 0.19
24 5 0.14
25 7 0.19
26 1 0.03
27 14 0.39
28 2 0.06
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.28
Consensus pattern (24 bp):
AAATTAAATATCAAATTAAGAAAA
Found at i:14795375 original size:13 final size:13
Alignment explanation
Indices: 14795357--14795381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14795347 ATAGAACTAA
14795357 AAAAATAAAAAAT
1 AAAAATAAAAAAT
14795370 AAAAATAAAAAA
1 AAAAATAAAAAA
14795382 CCTATTCGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:14795748 original size:22 final size:23
Alignment explanation
Indices: 14795701--14795748 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
14795691 CTTCAGAGTG
* *
14795701 AAAATATTTATATAAAAATTTTT
1 AAAATATTTATATAAAAATCTAT
14795724 AAAA-ATTTAATATAAAAA-CTAT
1 AAAATATTT-ATATAAAAATCTAT
14795746 AAA
1 AAA
14795749 TGATTTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATTTATATAAAAATCTAT
Found at i:14797898 original size:30 final size:32
Alignment explanation
Indices: 14797854--14797919 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 32
14797844 TAATAAAAAT
14797854 AAATTTATATTTT-AATCTTCTAAAATTAATAA
1 AAATTTATATTTTAAAT-TTCTAAAATTAATAA
* *
14797886 AAATTTA-A-TTTAAATTTTTAAAATTTATAA
1 AAATTTATATTTTAAATTTCTAAAATTAATAA
14797916 AAAT
1 AAAT
14797920 AAATATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 20 0.65
31 4 0.13
32 7 0.23
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATTTATATTTTAAATTTCTAAAATTAATAA
Found at i:14798141 original size:15 final size:16
Alignment explanation
Indices: 14798115--14798144 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14798105 ACTTTTTTAT
14798115 TTTATAATAAATAAAA
1 TTTATAATAAATAAAA
14798131 TTTAT-ATAAATAAA
1 TTTATAATAAATAAA
14798145 TTAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATAATAAATAAAA
Found at i:14798168 original size:23 final size:23
Alignment explanation
Indices: 14798124--14798186 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
14798114 TTTTATAATA
* *
14798124 AATAAAATTT-ATATAAATAAATT
1 AATAAAATTTCAAATATATAAA-T
14798147 AATAAAATTTCAAATATA-AAAT
1 AATAAAATTTCAAATATATAAAT
* *
14798169 AGTAAAATATACAAATAT
1 AATAAAAT-TTCAAATAT
14798187 GAGGCACACG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.24
23 21 0.62
24 5 0.15
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAAAATTTCAAATATATAAAT
Found at i:14798174 original size:22 final size:23
Alignment explanation
Indices: 14798140--14798186 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14798130 ATTTATATAA
* *
14798140 ATAAATTAATAAAAT-TTCAAAT
1 ATAAAATAATAAAATATACAAAT
*
14798162 ATAAAATAGTAAAATATACAAAT
1 ATAAAATAATAAAATATACAAAT
14798185 AT
1 AT
14798187 GAGGCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAAATAATAAAATATACAAAT
Found at i:14808606 original size:9 final size:9
Alignment explanation
Indices: 14808592--14808631 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
14808582 TCTTCATATC
14808592 TTTATTATT
1 TTTATTATT
14808601 TTTATTATT
1 TTTATTATT
*
14808610 TTTATCATTT
1 TTTATTA-TT
*
14808620 TTTATTCTT
1 TTTATTATT
14808629 TTT
1 TTT
14808632 GGGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTATTATT
Found at i:14809876 original size:18 final size:18
Alignment explanation
Indices: 14809836--14809878 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14809826 AGAATTTTAT
*
14809836 ATTTTTTAATTTTTAAAA
1 ATTTATTAATTTTTAAAA
*
14809854 TTTTATTAA-TTTTAAATA
1 ATTTATTAATTTTTAAA-A
14809872 ATTTATT
1 ATTTATT
14809879 TGTTTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTATTAATTTTTAAAA
Found at i:14811912 original size:123 final size:120
Alignment explanation
Indices: 14811756--14811991 Score: 289
Period size: 123 Copynumber: 1.9 Consensus size: 120
14811746 AACCAAACCA
* *
14811756 AACCACAATTATCAGTTTATGATATTTTAATTTTTATTCTATAC-GATTTCAATTTCAAAAGTAA
1 AACCACAATTATCAGTTTATGATATTTCAATTTTTATTCTATACTG-TTACAATTTC--AAG-AA
* *
14811820 AAAATT-GAATAAAATGATTTAATTTATTTTTTATCTAAAAATCAAATTAAATTAAACTG
62 AAAATTAGAATAAAATAATTTAA-TTATTTTTTATCCAAAAATCAAATTAAATTAAACTG
* * **
14811879 AACCATAATTATCAGTTTCA-GATATTTCGATTTTTATTCTATACTGTTACAATTTCAAGAATGA
1 AACCACAATTATCAGTTT-ATGATATTTCAATTTTTATTCTATACTGTTACAATTTCAAGAAAAA
* * *
14811943 TTTACGAATAAAATAATTTAATTATTTTTTATCCAAAATTTAAATTAAA
65 ATTA-GAATAAAATAATTTAATTATTTTTTATCCAAAAATCAAATTAAA
14811992 CCAAACCGAG
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
120 5 0.05
121 28 0.29
122 15 0.15
123 48 0.49
124 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.43
Consensus pattern (120 bp):
AACCACAATTATCAGTTTATGATATTTCAATTTTTATTCTATACTGTTACAATTTCAAGAAAAAA
TTAGAATAAAATAATTTAATTATTTTTTATCCAAAAATCAAATTAAATTAAACTG
Found at i:14818095 original size:46 final size:46
Alignment explanation
Indices: 14818045--14818173 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
14818035 TGATTGAGCA
*
14818045 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
14818091 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
14818137 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14818174 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:14825620 original size:46 final size:46
Alignment explanation
Indices: 14825570--14825745 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
14825560 TGATTGAGCA
14825570 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
14825616 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
14825661 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
14825709 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14825746 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:14825726 original size:93 final size:93
Alignment explanation
Indices: 14825567--14825738 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
14825557 GGATGATTGA
*
14825567 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
14825632 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
14825660 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
14825724 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
14825739 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:14827616 original size:64 final size:64
Alignment explanation
Indices: 14827535--14827671 Score: 260
Period size: 64 Copynumber: 2.2 Consensus size: 64
14827525 CAGTCAGCAA
14827535 GACAG-TG-GTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTT
1 GACAGTTGTGTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTT
14827597 GACAGTTGTGTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTT
1 GACAGTTGTGTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTT
14827661 GACAGTTGTGT
1 GACAGTTGTGT
14827672 TTACTTTAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 5 0.07
63 2 0.03
64 66 0.90
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (64 bp):
GACAGTTGTGTACAAGAGGTTTGATTCCTTTATGACTTCTCATGATTTTAAAAGAAGTAGTTTT
Found at i:14838486 original size:12 final size:12
Alignment explanation
Indices: 14838469--14838511 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
14838459 TTATTTTTAA
14838469 AAAATTAATAAT
1 AAAATTAATAAT
14838481 AAAATTAACTAA-
1 AAAATTAA-TAAT
*
14838493 AAAA-TAATCAT
1 AAAATTAATAAT
14838504 AAAATTAA
1 AAAATTAA
14838512 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.07
11 7 0.26
12 15 0.56
13 3 0.11
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATTAATAAT
Found at i:14838494 original size:23 final size:23
Alignment explanation
Indices: 14838467--14838519 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
14838457 AATTATTTTT
*
14838467 AAAAAATTAATAATAAAATTAAC
1 AAAAAAATAATAATAAAATTAAC
* *
14838490 TAAAAAATAATCATAAAATTAAC
1 AAAAAAATAATAATAAAATTAAC
14838513 AAAAAAA
1 AAAAAAA
14838520 AATTGTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAAAATAATAATAAAATTAAC
Found at i:14838518 original size:11 final size:11
Alignment explanation
Indices: 14838467--14838518 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
14838457 AATTATTTTT
*
14838467 AAAAAATTAAT
1 AAAAAATTAAC
14838478 AATAAAATTAAC
1 AA-AAAATTAAC
14838490 TAAAAAA-TAATC
1 -AAAAAATTAA-C
*
14838502 ATAAAATTAAC
1 AAAAAATTAAC
14838513 AAAAAA
1 AAAAAA
14838519 AAATTGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
11 16 0.47
12 16 0.47
13 2 0.06
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTAAC
Found at i:14838876 original size:21 final size:21
Alignment explanation
Indices: 14838852--14838893 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14838842 GTCAGTGTAA
14838852 AAAGACATGGATTAAGTGCGC
1 AAAGACATGGATTAAGTGCGC
14838873 AAAGACATGGATTAAGTGCGC
1 AAAGACATGGATTAAGTGCGC
14838894 TGCAATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (21 bp):
AAAGACATGGATTAAGTGCGC
Found at i:14840086 original size:26 final size:27
Alignment explanation
Indices: 14840040--14840093 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
14840030 ATTAATATAC
*
14840040 TAATAAATAAATTATTGAAGTAA-ATA
1 TAATAAATAAATTATTAAAGTAAGATA
*
14840066 TAATAATTATAATT-TTAAAGTAAGATA
1 TAATAAATA-AATTATTAAAGTAAGATA
14840093 T
1 T
14840094 CTATTGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (27 bp):
TAATAAATAAATTATTAAAGTAAGATA
Found at i:14842880 original size:14 final size:15
Alignment explanation
Indices: 14842857--14842885 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14842847 TTAGATTATA
14842857 TTATATAAAAAATAT
1 TTATATAAAAAATAT
14842872 TTATA-AAAAAATAT
1 TTATATAAAAAATAT
14842886 AAAAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTATATAAAAAATAT
Found at i:14851515 original size:23 final size:22
Alignment explanation
Indices: 14851442--14851529 Score: 83
Period size: 21 Copynumber: 4.1 Consensus size: 22
14851432 TACCTGATCA
*
14851442 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
14851463 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* **
14851484 G-CTGTGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
14851505 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
14851528 GA
1 GA
14851530 TCAGTAAAGC
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 9 0.17
21 26 0.50
22 1 0.02
23 16 0.31
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:14851526 original size:44 final size:41
Alignment explanation
Indices: 14851448--14851528 Score: 99
Period size: 44 Copynumber: 1.9 Consensus size: 41
14851438 ATCAGAATAC
* * *
14851448 GACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTGT
1 GACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTGT
*
14851489 GACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 GACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
14851529 ATCAGTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 8 0.24
42 7 0.21
43 2 0.06
44 16 0.48
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (41 bp):
GACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTGT
Found at i:14851746 original size:23 final size:24
Alignment explanation
Indices: 14851720--14851814 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
14851710 AAATGTCCAA
14851720 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
14851743 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
14851771 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
14851800 CCAAAACACACCAGA
1 CCAAAACACACCAGA
14851815 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:14851816 original size:29 final size:28
Alignment explanation
Indices: 14851734--14851817 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
14851724 AACACACCAG
* *
14851734 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
14851762 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
14851790 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
14851818 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:14853519 original size:46 final size:46
Alignment explanation
Indices: 14853466--14853641 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
14853456 TGGTTGAGCA
14853466 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
14853512 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
14853557 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
14853605 CCCGAGCTCGTTGAGTTGAATCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14853642 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:14853622 original size:93 final size:93
Alignment explanation
Indices: 14853463--14853634 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
14853453 GGATGGTTGA
* * *
14853463 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
14853528 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAATCCGAGTTCGTGAGATGTAACTAG
*
14853556 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
14853621 TGAATCCGAGTTCG
66 TGAATCCGAGTTCG
14853635 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAATCCGAGTTCGTGAGATGTAACTAG
Found at i:14858900 original size:25 final size:24
Alignment explanation
Indices: 14858861--14858914 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
14858851 TTTGACATTG
*
14858861 ATAAAAAATATAACTCAGTACAAA
1 ATAAAAAATACAACTCAGTACAAA
*
14858885 ATAAAACAATACAACTCAGTGCAAA
1 ATAAAA-AATACAACTCAGTACAAA
14858910 ATAAA
1 ATAAA
14858915 CTTCGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.19
Consensus pattern (24 bp):
ATAAAAAATACAACTCAGTACAAA
Found at i:14860702 original size:25 final size:25
Alignment explanation
Indices: 14860618--14860725 Score: 104
Period size: 22 Copynumber: 4.6 Consensus size: 25
14860608 TTATTATGCA
* *
14860618 CTAATGAA-CAGAGAGCACTAAAGTA
1 CTAAT-AATCAGAGAGCACTAATGTG
*
14860643 CT-AT-A-CAGAGAGCACGAATGTG
1 CTAATAATCAGAGAGCACTAATGTG
*
14860665 CT-A-AA-CGGAGAGCACTAATGTG
1 CTAATAATCAGAGAGCACTAATGTG
* *
14860687 TTAATAATCAGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTAATGTG
14860712 CTAATAATCAGAGA
1 CTAATAATCAGAGA
14860726 ACGCGCTAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
22 35 0.50
23 1 0.01
24 4 0.06
25 30 0.43
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAATGTG
Found at i:14861881 original size:19 final size:18
Alignment explanation
Indices: 14861857--14861901 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
14861847 TGTTTTATTT
*
14861857 TAATAATGTATTATAATAA
1 TAATAATGT-TAATAATAA
14861876 TAATAAT-TTAATAATAA
1 TAATAATGTTAATAATAA
14861893 -AATAATGTT
1 TAATAATGTT
14861902 TACTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 1 0.04
19 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAATAATGTTAATAATAA
Found at i:14873517 original size:22 final size:22
Alignment explanation
Indices: 14873478--14873522 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
14873468 TGTTTATAAA
14873478 TTTTTTATTTATCCTTTTTTTAG
1 TTTTTTATTTAT-CTTTTTTTAG
*
14873501 TTTTTTATTTGATTTTTTTTTA
1 TTTTTTATTT-ATCTTTTTTTA
14873523 AATTCATCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTTATTTATCTTTTTTTAG
Found at i:14876074 original size:7 final size:7
Alignment explanation
Indices: 14876058--14876090 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
14876048 AAAAATTTAA
14876058 TTTT-TT
1 TTTTCTT
14876064 TTTTCTT
1 TTTTCTT
14876071 TTTTCTT
1 TTTTCTT
14876078 TTTTCTT
1 TTTTCTT
14876085 TTTTCT
1 TTTTCT
14876091 CAGTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:14878090 original size:7 final size:6
Alignment explanation
Indices: 14878071--14878101 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
14878061 TCAATTAGAG
14878071 AAGAAA AAGAAA AAGAAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA
14878102 GTTATGTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:14878092 original size:13 final size:13
Alignment explanation
Indices: 14878074--14878101 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14878064 ATTAGAGAAG
14878074 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
14878087 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
14878100 AA
1 AA
14878102 GTTATGTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:14879918 original size:12 final size:11
Alignment explanation
Indices: 14879907--14879970 Score: 62
Period size: 12 Copynumber: 5.9 Consensus size: 11
14879897 TAAGCATTTA
14879907 AATAATTTTTT
1 AATAATTTTTT
*
14879918 AA-AATTTTTA
1 AATAATTTTTT
*
14879928 AAAAATATTTTT
1 AATAAT-TTTTT
*
14879940 TATAATTTATTT
1 AATAATTT-TTT
14879952 AATAA--TTTT
1 AATAATTTTTT
14879961 AATAATTTTT
1 AATAATTTTT
14879971 AATTTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 8 0.19
10 10 0.23
11 10 0.23
12 15 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATAATTTTTT
Found at i:14879927 original size:21 final size:21
Alignment explanation
Indices: 14879903--14879972 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
14879893 CAAATAAGCA
14879903 TTTAAATAATTTTTTAAAATT
1 TTTAAATAATTTTTTAAAATT
* *
14879924 TTTAAAAAATATTTTTTATAATT
1 TTT-AAATA-ATTTTTTAAAATT
*
14879947 TATTTAATAA--TTTTAATAATT
1 T-TTAAATAATTTTTTAA-AATT
14879968 TTTAA
1 TTTAA
14879973 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 8 0.21
21 8 0.21
22 5 0.13
23 16 0.41
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAATAATTTTTTAAAATT
Found at i:14879984 original size:29 final size:30
Alignment explanation
Indices: 14879952--14880017 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
14879942 TAATTTATTT
14879952 AATAATTTTAATAA-TTTTTAATTTTTAAA
1 AATAATTTTAATAATTTTTTAATTTTTAAA
* * *
14879981 AATAGTTTTTATAATTTTTTTCATTTTTAAA
1 AATAATTTTAATAA-TTTTTTAATTTTTAAA
14880012 ATATAA
1 A-ATAA
14880018 AAATTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 12 0.40
31 15 0.50
32 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
AATAATTTTAATAATTTTTTAATTTTTAAA
Found at i:14884667 original size:3 final size:3
Alignment explanation
Indices: 14884659--14884685 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14884649 ACATAAAAAG
14884659 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
14884686 GGCGTGCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14886161 original size:14 final size:14
Alignment explanation
Indices: 14886142--14886168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14886132 TAAATAAAAT
14886142 TTTAAAAACTAAAG
1 TTTAAAAACTAAAG
14886156 TTTAAAAACTAAA
1 TTTAAAAACTAAA
14886169 TATTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (14 bp):
TTTAAAAACTAAAG
Found at i:14886528 original size:19 final size:19
Alignment explanation
Indices: 14886504--14886540 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14886494 GTAATTTTTT
*
14886504 AAAATTTTAAAAAAATATA
1 AAAATTTCAAAAAAATATA
14886523 AAAATTTCAAAAAAATAT
1 AAAATTTCAAAAAAATAT
14886541 TTAAAAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTTCAAAAAAATATA
Found at i:14889773 original size:20 final size:20
Alignment explanation
Indices: 14889736--14889774 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14889726 GAATTTTTTT
*
14889736 TTTTGAGAAATTTTGTTTAA
1 TTTTGAGAAATTTAGTTTAA
14889756 TTTTGA-AAATTTGAGTTTA
1 TTTTGAGAAATTT-AGTTTA
14889775 GAATTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTTGAGAAATTTAGTTTAA
Found at i:14893186 original size:61 final size:62
Alignment explanation
Indices: 14893087--14893232 Score: 231
Period size: 62 Copynumber: 2.4 Consensus size: 62
14893077 GATAAAATCT
* * *
14893087 CTAGAAAGCTTTAAATGGTTTTAAGATCAGTTGAATTGTGAATACT-GGGACAATTAGGGTCC
1 CTAGAAAGCTCT-AATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGAGTCC
* *
14893149 CTAGAAAGCTCTAATAGTTTTAAGATCAGTTGGATTGTGAATACTAGGAACAATTAGAGTCC
1 CTAGAAAGCTCTAATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGAGTCC
14893211 CTAGAAAGCTCTAATGGTTTTA
1 CTAGAAAGCTCTAATGGTTTTA
14893233 TTTATAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
61 31 0.40
62 46 0.60
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (62 bp):
CTAGAAAGCTCTAATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGAGTCC
Found at i:14898666 original size:28 final size:28
Alignment explanation
Indices: 14898625--14898681 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
14898615 AGAAAGAATG
*
14898625 ATATCTAGCTTTATACTATAATCCTTTT
1 ATATCTAGCATTATACTATAATCCTTTT
14898653 ATATCTAGCATTATACTATAATCCTTTT
1 ATATCTAGCATTATACTATAATCCTTTT
14898681 A
1 A
14898682 CTCCATTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (28 bp):
ATATCTAGCATTATACTATAATCCTTTT
Found at i:14899013 original size:3 final size:3
Alignment explanation
Indices: 14899005--14899033 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14898995 ATCACATGTT
14899005 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14899034 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14903373 original size:3 final size:3
Alignment explanation
Indices: 14903365--14903405 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14903355 ATCACATGTT
14903365 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14903406 TGGATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14906802 original size:29 final size:29
Alignment explanation
Indices: 14906760--14906815 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
14906750 AGTACATGGC
14906760 TTTATAAATTTCGGTACAATTTCACCATT
1 TTTATAAATTTCGGTACAATTTCACCATT
14906789 TTTATAAATTTCGGTACAATTTCACCA
1 TTTATAAATTTCGGTACAATTTCACCA
14906816 CTTAGAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (29 bp):
TTTATAAATTTCGGTACAATTTCACCATT
Found at i:14909594 original size:132 final size:131
Alignment explanation
Indices: 14909440--14909810 Score: 437
Period size: 131 Copynumber: 2.8 Consensus size: 131
14909430 AAACATGAGG
* **
14909440 GAAATTCTAAAGGGGATGTTCGATTATTTTGAACCAATA-G-GAAATTGCAACCCAGCATGATAG
1 GAAATTC-AAAAGGGACCTTCGATTATTTTGAA-CAA-ACGAGAAATTGCAACCCAGCATGATAG
* * *
14909503 GGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGTTTTGGA-GAGTTTTTAGAAA-A
63 GGCACGATTCCTCGAATTGCCAAATATCGAACATCACCTTCG-TTTGAAGGA-TTTTTA-AAAGA
14909566 CATAAGT
125 CATAAGT
* *
14909573 GTAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGC
1 GAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCATGATAGGGC
* * * * *
14909638 ACTATTCCGCGAATTGTCGAATATCGAACATCACCTTCGTTTGAAGGATTTTTAAAAGACATAGG
66 ACGATTCCTCGAATTGCCAAATATCGAACATCACCTTCGTTTGAAGGATTTTTAAAAGACATAAG
14909703 T
131 T
* * * * * * *
14909704 GAAATTCTAGAGGGACCCTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACT-TTAGGG
1 GAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCA-TGATAGGG
* * *
14909768 CACGATTCCTCGAATTGCCAAATATCGGATATCGCCTTCGTTT
65 CACGATTCCTCGAATTGCCAAATATCGAACATCACCTTCGTTT
14909811 TAAAGAATTT
Statistics
Matches: 204, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
130 4 0.02
131 112 0.55
132 82 0.40
133 6 0.03
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (131 bp):
GAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCATGATAGGGC
ACGATTCCTCGAATTGCCAAATATCGAACATCACCTTCGTTTGAAGGATTTTTAAAAGACATAAG
T
Found at i:14915443 original size:30 final size:31
Alignment explanation
Indices: 14915386--14915445 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
14915376 TTAACAAGCA
*
14915386 AATGTCTCTAAAATAATAAAAAAAATTAACG
1 AATGCCTCTAAAATAATAAAAAAAATTAACG
*
14915417 AATGCCTCTAAAATAAT-AAGAAAATTAAC
1 AATGCCTCTAAAATAATAAAAAAAATTAAC
14915446 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.25
Consensus pattern (31 bp):
AATGCCTCTAAAATAATAAAAAAAATTAACG
Found at i:14929587 original size:3 final size:3
Alignment explanation
Indices: 14929567--14929643 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
14929557 CCCACTTTAT
* * *
14929567 TTA TTA TCA TCA TCA TTA TTA TTGA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * * *
14929612 TTG TTA CTTT TTA TCA CTA TTA TCA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
14929644 ATCATTACTA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
2 1 0.02
3 55 0.93
4 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:14930338 original size:27 final size:25
Alignment explanation
Indices: 14930308--14930377 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
14930298 TTCATTTAAC
14930308 ATATTATTTATTTGAAATTTGCCTTAT
1 ATATTATTTATTTGAAA-TTG-CTTAT
** *
14930335 ATATTATTTTATTCCAAATTGTTTAT
1 ATATTA-TTTATTTGAAATTGCTTAT
*
14930361 ATTTTATTTATGTTGAA
1 ATATTATTTAT-TTGAA
14930378 TTTTTTTCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.14
26 12 0.34
27 9 0.26
28 9 0.26
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (25 bp):
ATATTATTTATTTGAAATTGCTTAT
Found at i:14931993 original size:47 final size:48
Alignment explanation
Indices: 14931924--14932076 Score: 188
Period size: 47 Copynumber: 3.2 Consensus size: 48
14931914 TTCGGAGAAA
*
14931924 TGTGATATGTGCTTCCGTATAAGACCATATGC-GGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATGCTGGGATATGGCATCGG
* *
14931971 TGTGATATGTGCTACTGTATAAGACCATAT-CTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATGCTGGGATATGGCATCGG
* * * * *
14932018 TGTGATATGTGAT-CCGTGTAAGACCAT-GGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATGCTGGGATATGGCATCGG
14932064 TATGTGATATGTG
1 --TGTGATATGTG
14932077 ACTATGTGCA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
46 27 0.29
47 54 0.59
48 11 0.12
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (48 bp):
TGTGATATGTGCTACCGTATAAGACCATATGCTGGGATATGGCATCGG
Found at i:14935970 original size:24 final size:22
Alignment explanation
Indices: 14935929--14936001 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 22
14935919 TTAAAGATAA
**
14935929 GAAAATACAGCACTATGTGTGC
1 GAAAATATTGCACTATGTGTGC
**
14935951 GAAGCTATGTGGCACTATGTGTGC
1 GAAAATAT-T-GCACTATGTGTGC
14935975 GAGAAAATATTGCACTATGTGTGC
1 --GAAAATATTGCACTATGTGTGC
14935999 GAA
1 GAA
14936002 TAAGTAAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
22 8 0.20
24 26 0.63
25 1 0.02
26 6 0.15
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (22 bp):
GAAAATATTGCACTATGTGTGC
Found at i:14936937 original size:14 final size:13
Alignment explanation
Indices: 14936918--14936949 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
14936908 ACATTGTGTG
14936918 TTTTTTATTTTTAT
1 TTTTTTA-TTTTAT
14936932 TTTTTTATTTTAT
1 TTTTTTATTTTAT
14936945 TTTTT
1 TTTTT
14936950 CACAAGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:14944269 original size:26 final size:27
Alignment explanation
Indices: 14944214--14944287 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 27
14944204 TTTAAATACC
*
14944214 TTTTTATAATTTTTTTACAAAAAAATA
1 TTTTTATAAATTTTTTACAAAAAAATA
*
14944241 TTTTTA-AAATTTTTTAAAAAATACAAT-
1 TTTTTATAAATTTTTTACAAAA-A-AATA
*
14944268 TTTTTTTATAA-TTTTTACAA
1 TTTTTATA-AATTTTTTACAA
14944288 TTTTTTCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 13 0.33
27 12 0.31
28 12 0.31
29 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTTTATAAATTTTTTACAAAAAAATA
Found at i:14944319 original size:19 final size:19
Alignment explanation
Indices: 14944295--14944331 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14944285 CAATTTTTTC
14944295 ATTTTTAATAATATTATTA
1 ATTTTTAATAATATTATTA
* *
14944314 ATTTTTTATAATCTTATT
1 ATTTTTAATAATATTATT
14944332 GTATTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTAATAATATTATTA
Found at i:14945682 original size:20 final size:20
Alignment explanation
Indices: 14945657--14945694 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14945647 TACAAGTAGG
14945657 TATGAAGCTGCCAACACAAA
1 TATGAAGCTGCCAACACAAA
14945677 TATGAAGCTGCCAACACA
1 TATGAAGCTGCCAACACA
14945695 TATACTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (20 bp):
TATGAAGCTGCCAACACAAA
Found at i:14947127 original size:8 final size:8
Alignment explanation
Indices: 14947114--14947141 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14947104 CATACTATTT
14947114 TAATTTGA
1 TAATTTGA
14947122 TAATTTGA
1 TAATTTGA
14947130 TAATTTGA
1 TAATTTGA
14947138 TAAT
1 TAAT
14947142 ACCGCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
TAATTTGA
Found at i:14958057 original size:18 final size:18
Alignment explanation
Indices: 14958034--14958087 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
14958024 CCACCACCAA
14958034 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
14958052 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
14958064 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
14958082 CTCCAC
1 CTCCAC
14958088 CATCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:14958060 original size:30 final size:30
Alignment explanation
Indices: 14958024--14958089 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
14958014 CTAACCTTTG
14958024 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
14958054 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
14958084 CCACCA
1 CCACCA
14958090 TCACTTGTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.52, G:0.06, T:0.15
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:14958689 original size:25 final size:25
Alignment explanation
Indices: 14958568--14958774 Score: 87
Period size: 23 Copynumber: 8.6 Consensus size: 25
14958558 TTTTTTTTGT
* *
14958568 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
* *
14958591 TATTATATATAT-TCTTT--TAATA
1 TATTATGTATATATCTTTAATACTA
* ** *
14958613 TATTAGGTATAT-TC-CAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* * *
14958636 TATTACGTATATAT-ATT-ATATTA
1 TATTATGTATATATCTTTAATACTA
*
14958659 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
* * **
14958684 TATTATTTATATATTTTTTTCTACATGTTA
1 TATTATGTATATA---TCTT-TA-ATACTA
*
14958714 TCTTATGTATATAT-TTTAAT--TA
1 TATTATGTATATATCTTTAATACTA
* * * *
14958736 TATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATCTTTAATACTA
*
14958761 TATTATGTACATAT
1 TATTATGTATATAT
14958775 TTTTTTTATA
Statistics
Matches: 139, Mismatches: 29, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
22 30 0.22
23 42 0.30
24 12 0.09
25 32 0.23
26 2 0.01
27 1 0.01
28 3 0.02
29 2 0.01
30 15 0.11
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:14958736 original size:22 final size:22
Alignment explanation
Indices: 14958711--14958777 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 22
14958701 TTTCTACATG
*
14958711 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
14958733 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
14958758 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
14958778 TTTTATATCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:14958815 original size:77 final size:73
Alignment explanation
Indices: 14958645--14958815 Score: 162
Period size: 77 Copynumber: 2.2 Consensus size: 73
14958635 ATATTACGTA
* * * *
14958645 TATATATTATATTATTTTATGTATATATCTTTAATACTATATTATTTATATATTTTTTTCTACAT
1 TATATATTATA-TA--TTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATACAT
*
14958710 GTTATCTTATG
63 GTTATCATATG
* * *
14958721 TATATATTTTAATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTTTATAT
1 TATATA--TT-A-TATATTATGTATATATCTTTAACACTATATTATGTACATA-TTTTTTTATA-
*
14958786 CTATTTTATACATATG
60 C-ATGTTAT-CATATG
14958802 TATATATTATATAT
1 TATATATTATATAT
14958816 ATCTTAACAT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
76 6 0.08
77 35 0.45
78 12 0.15
79 6 0.08
80 8 0.10
81 11 0.14
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (73 bp):
TATATATTATATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATACATGTT
ATCATATG
Found at i:14964586 original size:13 final size:13
Alignment explanation
Indices: 14964568--14964592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14964558 CTTTTTATTA
14964568 TTTTGTTTCTTTC
1 TTTTGTTTCTTTC
14964581 TTTTGTTTCTTT
1 TTTTGTTTCTTT
14964593 TATATATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTGTTTCTTTC
Found at i:14975067 original size:52 final size:49
Alignment explanation
Indices: 14974982--14975348 Score: 431
Period size: 46 Copynumber: 7.6 Consensus size: 49
14974972 TTTGAGTACT
* **
14974982 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
14975028 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
14975080 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14975126 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
14975172 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14975224 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
14975276 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14975322 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
14975349 GCTACACTTA
Statistics
Matches: 291, Mismatches: 16, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:14975330 original size:196 final size:196
Alignment explanation
Indices: 14974996--14975348 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
14974986 ATCAAGTGAT
* * *
14974996 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * * *
14975061 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
14975126 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
14975191 G
196 G
* *
14975192 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
14975257 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
14975322 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
14975349 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:14975356 original size:37 final size:37
Alignment explanation
Indices: 14975312--14975421 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
14975302 GATAGCTTTA
14975312 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
14975349 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
14975386 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
14975422 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:14975385 original size:150 final size:149
Alignment explanation
Indices: 14974982--14975337 Score: 458
Period size: 150 Copynumber: 2.4 Consensus size: 149
14974972 TTTGAGTACT
* * * * *
14974982 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
14975047 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
*
14975105 TTATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
14975126 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
14975191 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
14975255 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
14975276 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
14975338 AGTGATAAGT
Statistics
Matches: 191, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 90 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:14976169 original size:29 final size:30
Alignment explanation
Indices: 14976110--14976167 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14976100 TCCGAGCCTT
*
14976110 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* * *
14976140 GGGGTAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
14976168 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:14976397 original size:13 final size:13
Alignment explanation
Indices: 14976379--14976410 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14976369 TTTCCAGCAA
14976379 TTATGAATTTATT
1 TTATGAATTTATT
14976392 TTATGAATTTATT
1 TTATGAATTTATT
*
14976405 TGATGA
1 TTATGA
14976411 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:14976618 original size:50 final size:50
Alignment explanation
Indices: 14976505--14976746 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
14976495 ATTTGGGTAA
* * *
14976505 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCCTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA--C-G
*
14976561 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
14976611 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGTGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
14976661 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
14976711 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
14976747 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
50 90 0.55
51 30 0.18
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:14976695 original size:100 final size:103
Alignment explanation
Indices: 14976505--14976754 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
14976495 ATTTGGGTAA
*
14976505 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCCTGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGT-AGA--CTGAGAGGTCCC
* *
14976570 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* *
14976611 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CCGT-GA-TGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGTAGACTGAGAGGTCCCCTA
14976673 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
14976711 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
14976755 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 37 0.28
103 2 0.02
105 3 0.02
106 40 0.30
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGTAGACTGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:14983760 original size:73 final size:73
Alignment explanation
Indices: 14983666--14983833 Score: 255
Period size: 73 Copynumber: 2.3 Consensus size: 73
14983656 CAATTTCCGT
* * * **
14983666 TTTTTAAATTTATGCTTTTCAAAAATCAACTCATATTGCGGGAGGTGAGCTGAGCCTCGGGGCAC
1 TTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAAGGCAC
14983731 GCCGAGGTA
65 GCCGAGGTA
*
14983740 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACG
1 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAAGGCACG
*
14983805 CTGAGGTA
66 CCGAGGTA
*
14983813 TTTTCAATTTCTGTTTTTCAA
1 TTTTTAATTTCTGTTTTTCAA
14983834 TTTTTGCCTT
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 81 0.94
74 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (73 bp):
TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAAGGCACG
CCGAGGTA
Done.