Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 74 of 147
Found at i:13879080 original size:67 final size:67
Alignment explanation
Indices: 13878826--13879082 Score: 242
Period size: 67 Copynumber: 3.9 Consensus size: 67
13878816 TGGTTTGTTG
* * * ** *
13878826 GGCTTTCTTTACCTTTTGT-TTTCTTCA-ATTTAAAAGCAATATTTATGT-ATTAATTGTGT-TT
1 GGCTTTCTTTACCTTTTCTATTTCTTTAGTTTTAAAAATAATATTTAT-TAATTAATTATGTATT
13878887 TCTT
65 T-TT
* * * *
13878891 GGCTTTCTTTGCCTTTT-TATTTTTTTA-TTTTAAAAATAATATTTATTAATTAATTGTGTATCT
1 GGCTTTCTTTACCTTTTCTATTTCTTTAGTTTTAAAAATAATATTTATTAATTAATTATGTATTT
*
13878954 TC
66 TT
* * * * *
13878956 GGCTTTCTTTACCTTTTCTTTTTC-TTCGATTTTAAAAAGAAAATTTATTAATAAATTATGTATT
1 GGCTTTCTTTACCTTTTCTATTTCTTTAG-TTTTAAAAATAATATTTATTAATTAATTATGTATT
13879020 TTT
65 TTT
* ** *
13879023 TGCTTTCTTTTTCTTTTCAATTTCTTTAGTTTTAAAAATAATATTTATCT-ATTAATTATG
1 GGCTTTCTTTACCTTTTCTATTTCTTTAGTTTTAAAAATAATATTTAT-TAATTAATTATG
13879083 ATCATTGGTT
Statistics
Matches: 157, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
64 2 0.01
65 68 0.43
66 6 0.04
67 77 0.49
68 4 0.03
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (67 bp):
GGCTTTCTTTACCTTTTCTATTTCTTTAGTTTTAAAAATAATATTTATTAATTAATTATGTATTT
TT
Found at i:13879753 original size:4 final size:4
Alignment explanation
Indices: 13879738--13879793 Score: 85
Period size: 4 Copynumber: 14.0 Consensus size: 4
13879728 TATATAATCT
* *
13879738 TGTA TATA TGTA TGTA TTTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
13879786 TATA TGTA
1 TGTA TGTA
13879794 CATATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:13889643 original size:14 final size:14
Alignment explanation
Indices: 13889624--13889653 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13889614 GCAAAAAAAT
13889624 ATTGTTAAGATCTA
1 ATTGTTAAGATCTA
13889638 ATTGTTAAGATCTA
1 ATTGTTAAGATCTA
13889652 AT
1 AT
13889654 GTTGATGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (14 bp):
ATTGTTAAGATCTA
Found at i:13890124 original size:15 final size:15
Alignment explanation
Indices: 13890101--13890162 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
13890091 ATTTTTTTTA
* *
13890101 ATTTTTTTATATCTT
1 ATTTATTTATATATT
*
13890116 ATTTATTTATTTATT
1 ATTTATTTATATATT
13890131 ATTTATTAATATATATT
1 ATTTATT--TATATATT
*
13890148 A-TTATTTATCTATT
1 ATTTATTTATATATT
13890162 A
1 A
13890163 ATGTATATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.20
15 19 0.47
16 5 0.12
17 8 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATTTATATATT
Found at i:13890150 original size:24 final size:24
Alignment explanation
Indices: 13890123--13890217 Score: 97
Period size: 24 Copynumber: 3.9 Consensus size: 24
13890113 CTTATTTATT
*
13890123 TATTTATTATTTATTAATATATAT-
1 TATTT-TTATCTATTAATATATATA
*
13890147 TATTATTTATCTATTAATGTATATA
1 TATT-TTTATCTATTAATATATATA
* *
13890172 AATTTTTAT-TATTAACTAT-TATC
1 TATTTTTATCTATTAA-TATATATA
13890195 TATTCTTTATCTATTAATATATA
1 TATT-TTTATCTATTAATATATA
13890218 CATTTTATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
23 12 0.20
24 35 0.59
25 12 0.20
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (24 bp):
TATTTTTATCTATTAATATATATA
Found at i:13890180 original size:44 final size:42
Alignment explanation
Indices: 13890132--13890254 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 42
13890122 TTATTTATTA
13890132 TTTATTAATA-TATATTATTATTTATCTATTAATGTATATAAATT
1 TTTATTAATACTATATTATTATTTATCTATTAA--TATATAAA-T
* * *
13890176 TTTATTATTAACTATTATCTATTCTTTATCTATTAATATATACAT
1 TTTATTAAT-ACTA-TAT-TATTATTTATCTATTAATATATAAAT
* *
13890221 TTTATTGATATATTTTATTATTATTTATCTATTA
1 TTTATT-A-ATACTATATTATTATTTATCTATTA
13890255 TTTTTTTCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
44 23 0.35
45 11 0.17
46 12 0.18
47 4 0.06
48 16 0.24
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (42 bp):
TTTATTAATACTATATTATTATTTATCTATTAATATATAAAT
Found at i:13890181 original size:51 final size:45
Alignment explanation
Indices: 13890125--13890254 Score: 131
Period size: 48 Copynumber: 2.8 Consensus size: 45
13890115 TATTTATTTA
13890125 TTTATTATTTATTAATATATATTATTATTTATCTATTAATGTATATAAATT
1 TTTATTA-TTA-TAATAT-TATTATTATTTATCTATTAA--TATATAAA-T
* * *
13890176 TTTATTATTA-ACTATTATCTATTCTTTATCTATTAATATATACAT
1 TTTATTATTATAATATTAT-TATTATTTATCTATTAATATATAAAT
*
13890221 TTTATTGA-TAT-ATTTTATTATTATTTATCTATTA
1 TTTATT-ATTATAATATTATTATTATTTATCTATTA
13890255 TTTTTTTCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
44 15 0.21
45 14 0.20
46 8 0.11
47 3 0.04
48 20 0.29
50 3 0.04
51 7 0.10
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (45 bp):
TTTATTATTATAATATTATTATTATTTATCTATTAATATATAAAT
Found at i:13891045 original size:5 final size:5
Alignment explanation
Indices: 13891035--13891068 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
13891025 TTAGTATTCC
13891035 TTATT TTATT TTATTT TTATTT TTATT TTATT TT
1 TTATT TTATT TTA-TT TTA-TT TTATT TTATT TT
13891069 TTAAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:13891054 original size:6 final size:6
Alignment explanation
Indices: 13891038--13891069 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13891028 GTATTCCTTA
13891038 TTTTA- TTTTAT TTTTAT TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
13891070 TAAAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:13891054 original size:11 final size:11
Alignment explanation
Indices: 13891035--13891069 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13891025 TTAGTATTCC
13891035 TTATTTTA-TT
1 TTATTTTATTT
13891045 TTATTTTTATTT
1 TTA-TTTTATTT
13891057 TTATTTTATTT
1 TTATTTTATTT
13891068 TT
1 TT
13891070 TAAAATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 15 0.65
12 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:13891152 original size:30 final size:30
Alignment explanation
Indices: 13891118--13891210 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
13891108 TTTTAAGGAA
13891118 AAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
13891148 AAGTTTTCTAAA--A--AATATTT--TTGAGGAA-
1 AAG--TT-GAAAGTATCAAT-TTTCCTTGA-AAAT
13891176 AAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAGTTGAAAGTATCAATTTTCCTTGAAAAT
13891206 AAGTT
1 AAGTT
13891211 TTATAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 24
0.63 0.05 0.32
Matches are distributed among these distances:
25 3 0.06
26 2 0.04
27 1 0.02
28 10 0.21
29 10 0.21
30 15 0.32
31 1 0.02
32 2 0.04
33 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (30 bp):
AAGTTGAAAGTATCAATTTTCCTTGAAAAT
Found at i:13891157 original size:59 final size:58
Alignment explanation
Indices: 13891094--13891254 Score: 259
Period size: 58 Copynumber: 2.7 Consensus size: 58
13891084 TTAAACAAAA
13891094 TTCTAAAAAAAACATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
1 TTCTAAAAAAAA-ATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
* * *
13891153 TTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
1 TTCTAAAAAAAAATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
* *
13891211 TTATAAAAAAATATTTTCAAGGAAAAGTTGAAAGTATCAATTTT
1 TTCTAAAAAAAAATTTT-AAGGAAAAGTTGAAAGTATCAATTTT
13891255 TCTTATACAA
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
58 57 0.61
59 36 0.39
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
TTCTAAAAAAAAATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
Found at i:13891175 original size:58 final size:58
Alignment explanation
Indices: 13891094--13891254 Score: 259
Period size: 59 Copynumber: 2.7 Consensus size: 58
13891084 TTAAACAAAA
* *
13891094 TTCTAAAAAAAACATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
1 TTCTAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
*
13891153 TTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
1 TTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
* *
13891211 TTATAAAAAAATATTTTCAAGGAAAAGTTGAAAGTATCAATTTT
1 TTCT-AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
13891255 TCTTATACAA
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
58 47 0.49
59 48 0.51
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
TTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTT
Found at i:13893006 original size:15 final size:15
Alignment explanation
Indices: 13892988--13893022 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13892978 ATTTTTCTTC
*
13892988 TTTATCTTTTATGTA
1 TTTATCATTTATGTA
*
13893003 TTTATCATTTATTTA
1 TTTATCATTTATGTA
13893018 TTTAT
1 TTTAT
13893023 TATTACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTATCATTTATGTA
Found at i:13893018 original size:4 final size:4
Alignment explanation
Indices: 13892995--13893137 Score: 55
Period size: 4 Copynumber: 35.8 Consensus size: 4
13892985 TTCTTTATCT
* * * *
13892995 TTTA TGTA TTTA -TCA TTTA TTTA TTTA -TTA TTACTA TTTA TTAA TGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * * *
13893043 TGTT- TTTA TCTG TTAA TATA TTTA TATA TTTA --TA TGTTA -TTA TTTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
* * * * * *
13893089 TCTA TTAA TTAA TATA TTATC TTTT TTTA TATTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TT-TA TTTA TTTA T-TTA TTTA TTTA TTTA TTT
13893138 CTTTTCTTCC
Statistics
Matches: 100, Mismatches: 27, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
2 2 0.02
3 10 0.10
4 74 0.74
5 10 0.10
6 4 0.04
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:13894016 original size:6 final size:6
Alignment explanation
Indices: 13894005--13894058 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
13893995 TGTTTAATAC
* *
13894005 TTTTTA TTTTTA TTTTT- GTTTTA -TTTT- TCTTTA TTTTT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
13894049 ATTTTA TTTT
1 TTTTTA TTTT
13894059 CTTTAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
5 16 0.41
6 23 0.59
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:13894037 original size:27 final size:26
Alignment explanation
Indices: 13894007--13894063 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13893997 TTTAATACTT
*
13894007 TTTATTTTTATTTTT-GTTTTATTTTTC
1 TTTATTTTT-TTTTTAATTTTA-TTTTC
13894034 TTTATTTTTTTTTTAATTTTATTTTC
1 TTTATTTTTTTTTTAATTTTATTTTC
13894060 TTTA
1 TTTA
13894064 AATAAAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.81
Consensus pattern (26 bp):
TTTATTTTTTTTTTAATTTTATTTTC
Found at i:13894227 original size:59 final size:58
Alignment explanation
Indices: 13894076--13894533 Score: 537
Period size: 59 Copynumber: 7.7 Consensus size: 58
13894066 TAAAATTCAA
* **
13894076 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
13894134 TAAAAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTAAAAATAAGCTTTCC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATTTTC
*
13894193 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATTAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-TAAATTTTC
* *
13894252 AAAAAAGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAA--ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * * ** * *
13894312 AAAAAAGGTTTTTTTTTTTTA-AAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
1 AAAAAA-----ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
* *
13894375 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATTAATTTTCCTCAAAAATAAATTTT-
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
13894432 AAAAAAAGGTATTTTTG-GAGAAAAGTTTAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAA--TATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** *
13894492 AACAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AA-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
13894534 TCTGTACAAA
Statistics
Matches: 347, Mismatches: 37, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
57 7 0.02
58 58 0.17
59 166 0.48
60 22 0.06
61 43 0.12
62 32 0.09
63 19 0.05
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:13904998 original size:11 final size:11
Alignment explanation
Indices: 13904977--13905101 Score: 133
Period size: 11 Copynumber: 11.9 Consensus size: 11
13904967 ACTATGCTTG
13904977 AAAT-AAAAAA
1 AAATGAAAAAA
* *
13904987 AAAAGGAAAAA
1 AAATGAAAAAA
13904998 AAATGAAAATGAA
1 AAATGAAAA--AA
13905011 AAATG---AAA
1 AAATGAAAAAA
13905019 AAATG---AAA
1 AAATGAAAAAA
13905027 AAATG-AAAAA
1 AAATGAAAAAA
13905037 AAATGAAAAAA
1 AAATGAAAAAA
13905048 AAATG-AAAAA
1 AAATGAAAAAA
13905058 AAATGAAAAAA
1 AAATGAAAAAA
13905069 AAATGAAAAAA
1 AAATGAAAAAA
13905080 AAATGAAAAAGA
1 AAATGAAAAA-A
*
13905092 AAAAGAAAAA
1 AAATGAAAAA
13905102 GTGAATGAAA
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
8 15 0.15
10 22 0.22
11 48 0.47
12 10 0.10
13 7 0.07
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (11 bp):
AAATGAAAAAA
Found at i:13905006 original size:21 final size:21
Alignment explanation
Indices: 13904977--13905101 Score: 152
Period size: 21 Copynumber: 6.0 Consensus size: 21
13904967 ACTATGCTTG
* *
13904977 AAATAAAAAAAAAAGGAAAAA
1 AAATGAAAAAAAAATGAAAAA
13904998 AAATGAAAATGAAAAATG--AAA
1 AAATGAAAA--AAAAATGAAAAA
13905019 AAATG---AAAAAATGAAAAA
1 AAATGAAAAAAAAATGAAAAA
13905037 AAATGAAAAAAAAATGAAAAA
1 AAATGAAAAAAAAATGAAAAA
13905058 AAATGAAAAAAAAATGAAAAAA
1 AAATGAAAAAAAAATG-AAAAA
*
13905080 AAATGAAAAAGAAAAAGAAAAA
1 AAATGAAAAA-AAAATGAAAAA
13905102 GTGAATGAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 17
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.08
18 9 0.10
21 45 0.49
22 20 0.22
23 11 0.12
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (21 bp):
AAATGAAAAAAAAATGAAAAA
Found at i:13905018 original size:39 final size:36
Alignment explanation
Indices: 13904975--13905095 Score: 133
Period size: 32 Copynumber: 3.4 Consensus size: 36
13904965 ATACTATGCT
13904975 TGAAATAAAAAAAAAAGGAAAAAAAATGAAAATGAAAAA
1 TGAAA-AAAAAAAAAAGGAAAAAAAATGAAAA--AAAAA
* *
13905014 TGAAAAAATGAAAAAATGAAAAAAAATGAAAAAAAAA
1 TGAAAAAA-AAAAAAAGGAAAAAAAATGAAAAAAAAA
* *
13905051 TG----AAAAAAAATGAAAAAAAAATGAAAAAAAAA
1 TGAAAAAAAAAAAAAGGAAAAAAAATGAAAAAAAAA
*
13905083 TGAAAAAGAAAAA
1 TGAAAAAAAAAAA
13905096 GAAAAAGTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
32 26 0.37
33 2 0.03
36 6 0.09
37 7 0.10
38 3 0.04
39 26 0.37
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (36 bp):
TGAAAAAAAAAAAAAGGAAAAAAAATGAAAAAAAAA
Found at i:13905056 original size:50 final size:43
Alignment explanation
Indices: 13904977--13905101 Score: 138
Period size: 39 Copynumber: 3.0 Consensus size: 43
13904967 ACTATGCTTG
* *
13904977 AAATAAAAAAAAAAGGAAAAAAAATGAAAATGAAAAATG---AAA
1 AAATGAAAAAAAAATGAAAAAAAATGAAAA--AAAAATGAAAAAA
13905019 AAATG---AAAAAATGAAAAAAAATGAAAAAAAAATG-AAAAA
1 AAATGAAAAAAAAATGAAAAAAAATGAAAAAAAAATGAAAAAA
*
13905058 AAATGAAAAAAAAATGAAAAAAAAATGAAAAAGAAAAAGAAAAA
1 AAATGAAAAAAAAATG-AAAAAAAATGAAAAA-AAAATGAAAAA
13905102 GTGAATGAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
37 7 0.10
39 29 0.40
42 12 0.17
43 15 0.21
44 5 0.07
45 4 0.06
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (43 bp):
AAATGAAAAAAAAATGAAAAAAAATGAAAAAAAAATGAAAAAA
Found at i:13905089 original size:8 final size:8
Alignment explanation
Indices: 13904995--13905047 Score: 67
Period size: 8 Copynumber: 6.8 Consensus size: 8
13904985 AAAAAAGGAA
13904995 AAAAAATG
1 AAAAAATG
13905003 --AAAATG
1 AAAAAATG
13905009 -AAAAATG
1 AAAAAATG
13905016 AAAAAATG
1 AAAAAATG
13905024 AAAAAATG
1 AAAAAATG
13905032 AAAAAAAATG
1 --AAAAAATG
13905042 AAAAAA
1 AAAAAA
13905048 AAATGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.15
7 6 0.15
8 21 0.51
10 8 0.20
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:13905111 original size:12 final size:12
Alignment explanation
Indices: 13904993--13905114 Score: 107
Period size: 11 Copynumber: 10.4 Consensus size: 12
13904983 AAAAAAAAGG
13904993 AAAA-AAAATGA
1 AAAAGAAAATGA
*
13905004 AAATGAAAAATGAA
1 AAAAG-AAAATG-A
13905018 AAAATGAAAAAATG-
1 AAAA-G--AAAATGA
13905032 AAAA-AAAATGA
1 AAAAGAAAATGA
13905043 AAAA-AAAATG-
1 AAAAGAAAATGA
13905053 AAAA-AAAATGA
1 AAAAGAAAATGA
13905064 AAAA-AAAATGA
1 AAAAGAAAATGA
13905075 AAAA-AAAATGA
1 AAAAGAAAATGA
*
13905086 AAAAGAAAAAGA
1 AAAAGAAAATGA
**
13905098 AAAAGTGAATGA
1 AAAAGAAAATGA
13905110 AAAAG
1 AAAAG
13905115 GAAGACTCAA
Statistics
Matches: 97, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
10 16 0.16
11 39 0.40
12 20 0.21
13 6 0.06
14 8 0.08
15 1 0.01
16 7 0.07
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:13906136 original size:41 final size:40
Alignment explanation
Indices: 13906091--13906298 Score: 132
Period size: 44 Copynumber: 4.9 Consensus size: 40
13906081 AGGAGCAGTC
13906091 TATTTTTCAAAGTTGTGATGCCTCTGATTAGAGGAGCCATT
1 TATTTTTCAAAGTTGTGA-GCCTCTGATTAGAGGAGCCATT
* * * *
13906132 TATTTTCCAAAATCAT-TGAGCCTCTAATTAGAGAAGCCATT
1 TATTTTTCAAAGT--TGTGAGCCTCTGATTAGAGGAGCCATT
* * * **
13906173 TATTTTTCCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTGTT
1 TATTTTT-CAAAGTTG-TGAGCCTCTGATTAGAGGAGC--CATT
* * * **
13906217 TATCTTTCCAAAGTCGTTGAGCCTCT-ATTTAGAAGAGCTTTGTT
1 TAT-TTTTCAAAGTTG-TGAGCCTCTGA-TTAGAGGAGC--CATT
* *
13906261 TATCTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
1 TAT-TTTTCAAAGTTG-TGAGCCTCTGATTAGAGGAGC
13906299 TTTGTTTATT
Statistics
Matches: 141, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
41 37 0.26
42 25 0.18
43 1 0.01
44 74 0.52
45 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (40 bp):
TATTTTTCAAAGTTGTGAGCCTCTGATTAGAGGAGCCATT
Found at i:13906230 original size:44 final size:44
Alignment explanation
Indices: 13906171--13906319 Score: 244
Period size: 44 Copynumber: 3.4 Consensus size: 44
13906161 AGAGAAGCCA
*
13906171 TTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
*
13906215 TTTATCTTTCCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTG
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
* *
13906259 TTTATCTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
1 TTTATCTTTCCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
* *
13906303 TTTATTTTTTCAAAGTC
1 TTTATCTTTCCAAAGTC
13906320 AAGGAGCTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 98 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (44 bp):
TTTATCTTTCCAAAGTCGTTGAGCCTCTGTTTAGAAGAGCTTTG
Found at i:13906283 original size:88 final size:85
Alignment explanation
Indices: 13906130--13906320 Score: 249
Period size: 88 Copynumber: 2.2 Consensus size: 85
13906120 AGAGGAGCCA
* *
13906130 TTTATTTTCCAAAATCATTGAGCCTCTAATTAGAGAAGCCATTTATTTTTCCAAAGTCGTTGAGC
1 TTTATTTTCCAAAGTCATTGAGCCTCTAATTAGAGAAGCCATTTATCTTTCCAAAGTCGTTGAGC
*
13906195 CTCTGTTTAGAAGAGCTTTG
66 CTCTGATTAGAAGAGCTTTG
* * **
13906215 TTTATCTTTCCAAAGTCGTTGAGCCTCTATTTAGA-AGAGCTTTGTTTATCTTTCCAAAGTCGTT
1 TTTAT-TTTCCAAAGTCATTGAGCCTCTAATTAGAGA-AGC--CATTTATCTTTCCAAAGTCGTT
*
13906279 GAGCCTCTGATTAGAGGAGCTTTG
62 GAGCCTCTGATTAGAAGAGCTTTG
*
13906303 TTTATTTTTTCAAAGTCA
1 TTTA-TTTTCCAAAGTCA
13906321 AGGAGCTTTG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
85 6 0.07
86 29 0.32
88 55 0.60
89 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (85 bp):
TTTATTTTCCAAAGTCATTGAGCCTCTAATTAGAGAAGCCATTTATCTTTCCAAAGTCGTTGAGC
CTCTGATTAGAAGAGCTTTG
Found at i:13906354 original size:28 final size:28
Alignment explanation
Indices: 13906293--13906348 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
13906283 CTCTGATTAG
** *
13906293 AGGAGCTTTGTTTATTTTTTCAAAGTCA
1 AGGAGCTTTGTTTATCCTTCCAAAGTCA
13906321 AGGAGCTTTGTTTATCCTTCCAAAGTCA
1 AGGAGCTTTGTTTATCCTTCCAAAGTCA
13906349 TTGAGCCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (28 bp):
AGGAGCTTTGTTTATCCTTCCAAAGTCA
Found at i:13906371 original size:72 final size:72
Alignment explanation
Indices: 13906251--13906391 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
13906241 CTATTTAGAA
* * * * * *
13906251 GAGCTTTGTTTATCTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTTCAA
1 GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTAGTTTTTCAA
13906316 AGTCAAG
66 AGTCAAG
13906323 GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTAGTTTTTCAA
1 GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTAGTTTTTCAA
13906388 AGTC
66 AGTC
13906392 GTTGAGCCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (72 bp):
GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTAGTTTTTCAA
AGTCAAG
Found at i:13906389 original size:44 final size:46
Alignment explanation
Indices: 13906341--13906448 Score: 157
Period size: 44 Copynumber: 2.4 Consensus size: 46
13906331 TTTATCCTTC
*
13906341 CAAAGTCATTGAGCCTCTAATTAGAAGAGC-TTTATTTA-GTTTTT
1 CAAAGTCGTTGAGCCTCTAATTAGAAGAGCATTTATTTATGTTTTT
* * * *
13906385 CAAAGTCGTTGAGCCTTTGATTAGAGGAGCATTTGTTTATGTTTTT
1 CAAAGTCGTTGAGCCTCTAATTAGAAGAGCATTTATTTATGTTTTT
13906431 CAAAGTCGTTGAGCCTCT
1 CAAAGTCGTTGAGCCTCT
13906449 GCTTAGAGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 26 0.46
45 7 0.12
46 23 0.41
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (46 bp):
CAAAGTCGTTGAGCCTCTAATTAGAAGAGCATTTATTTATGTTTTT
Found at i:13906411 original size:116 final size:118
Alignment explanation
Indices: 13906207--13906437 Score: 378
Period size: 116 Copynumber: 2.0 Consensus size: 118
13906197 CTGTTTAGAA
* * * *
13906207 GAGCTTTGTTTATCTTTCCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTGTTTATCTTTCCAA
1 GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTATCTTTCCAA
13906272 AGTCGTTGAGCCTCTGATTAGAGGAGC-TTTGTTTAT-TTTTTCAAAGTCAAG
66 AGTCGTTGAGCCTCTGATTAGAGGAGCATTTGTTTATGTTTTTCAAAGTCAAG
*
13906323 GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTAGT-TTTTCA
1 GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTA-TCTTTCCA
*
13906387 AAGTCGTTGAGCCTTTGATTAGAGGAGCATTTGTTTATGTTTTTCAAAGTC
65 AAGTCGTTGAGCCTCTGATTAGAGGAGCATTTGTTTATGTTTTTCAAAGTC
13906438 GTTGAGCCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
116 84 0.79
117 10 0.09
118 12 0.11
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (118 bp):
GAGCTTTGTTTATCCTTCCAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTATCTTTCCAA
AGTCGTTGAGCCTCTGATTAGAGGAGCATTTGTTTATGTTTTTCAAAGTCAAG
Found at i:13906438 original size:46 final size:44
Alignment explanation
Indices: 13906341--13906459 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 44
13906331 TTTATCCTTC
* * *
13906341 CAAAGTCATTGAGCCTCTAATTAGAAGAGCTTTATTTAGTTTTT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTAGTTTTT
* *
13906385 CAAAGTCGTTGAGCCTTTGATTAGAGGAGCATTTGTTTATGTTTTT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TTTATTTA-GTTTTT
*
13906431 CAAAGTCGTTGAGCCTCTGCTTAGAGGAG
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAG
13906460 TTTTGATCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 26 0.39
45 7 0.11
46 33 0.50
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (44 bp):
CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTAGTTTTT
Found at i:13906727 original size:15 final size:15
Alignment explanation
Indices: 13906709--13906743 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13906699 ATTTTTCTTC
*
13906709 TTTATCTTTTATGTA
1 TTTATCATTTATGTA
*
13906724 TTTATCATTTATTTA
1 TTTATCATTTATGTA
13906739 TTTAT
1 TTTAT
13906744 TATTACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTATCATTTATGTA
Found at i:13906739 original size:4 final size:4
Alignment explanation
Indices: 13906716--13906880 Score: 58
Period size: 4 Copynumber: 41.8 Consensus size: 4
13906706 TTCTTTATCT
* * * *
13906716 TTTA TGTA TTTA -TCA TTTA TTTA TTTA -TTA TTACTA TTTA TTAA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * * *
13906764 TGTT- TTTA TCTG TTAA TATA TTTA TATA TTTA --TA TGTTA -TTA TTTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
* * * * * * * * *
13906810 TCT- GTTA ATTA -TTG TTTA TTTA TTAA TTAA TATA TTATC TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA
13906857 TATTA TTTA TTTA TTTA TTTA TTT
1 T-TTA TTTA TTTA TTTA TTTA TTT
13906881 TTTCTTTTCT
Statistics
Matches: 116, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
2 2 0.02
3 13 0.11
4 87 0.75
5 10 0.09
6 4 0.03
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:13906807 original size:14 final size:14
Alignment explanation
Indices: 13906780--13906822 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
13906770 TATCTGTTAA
13906780 TATAT-TTATATATT
1 TATATGTTAT-TATT
13906794 TATATGTTATTATT
1 TATATGTTATTATT
*
13906808 TATCTGTTAATTATT
1 TATATGTT-ATTATT
13906823 GTTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (14 bp):
TATATGTTATTATT
Found at i:13906821 original size:18 final size:18
Alignment explanation
Indices: 13906725--13906849 Score: 58
Period size: 18 Copynumber: 6.7 Consensus size: 18
13906715 TTTTATGTAT
* * *
13906725 TTATCATTTATTTATTTA
1 TTATTATTTATCTATTAA
* *
13906743 TTATTA-CTATTTATTAA
1 TTATTATTTATCTATTAA
* *
13906760 TATATGTTTTTATCTGTTAA
1 T-TAT-TATTTATCTATTAA
*
13906780 -TA-TATTTATATATTTATA
1 TTATTATTTATCTA-TTA-A
*
13906798 TGTTATTATTTATCTGTTAA
1 --TTATTATTTATCTATTAA
* *
13906818 TTATTGTTTATTTATTAA
1 TTATTATTTATCTATTAA
*
13906836 TTAATATATTATCT
1 TTATTAT-TTATCT
13906850 TTTTTTATAT
Statistics
Matches: 79, Mismatches: 18, Indels: 19
0.68 0.16 0.16
Matches are distributed among these distances:
16 7 0.09
17 13 0.16
18 31 0.39
19 6 0.08
20 9 0.11
21 5 0.06
22 8 0.10
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (18 bp):
TTATTATTTATCTATTAA
Found at i:13907733 original size:9 final size:10
Alignment explanation
Indices: 13907715--13907743 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
13907705 ATTTCTTTAT
13907715 TTATTTATTA
1 TTATTTATTA
13907725 TTA-TTATTA
1 TTATTTATTA
13907734 TTATTTATTA
1 TTATTTATTA
13907744 GATTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTTATTA
Found at i:13907934 original size:17 final size:17
Alignment explanation
Indices: 13907912--13907947 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13907902 GAAAAGTTGA
13907912 AAGTATCAATATTTCTT
1 AAGTATCAATATTTCTT
*
13907929 AAGTATCAATTTTTCTT
1 AAGTATCAATATTTCTT
13907946 AA
1 AA
13907948 AAATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (17 bp):
AAGTATCAATATTTCTT
Found at i:13908181 original size:58 final size:56
Alignment explanation
Indices: 13907929--13908238 Score: 300
Period size: 59 Copynumber: 5.3 Consensus size: 56
13907919 AATATTTCTT
* * *
13907929 AAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAGGGTTTTTATTTTTAGGAAAAGTTGA
1 AAGTATCAATTTTCCTT-AAAATAAATTTTCAAAAA-AG----TATTTTTGGGAAAAGTTGA
* * * * * *
13907991 AACTATTAATTTT-TTTCGAAATTAAAGTTTCCAAAAAAATATTTTTGGGGAAAAGTTGA
1 AAGTATCAATTTTCCTT--AAAATAAA-TTTTCAAAAAAGTATTTTT-GGGAAAAGTTGA
*
13908050 AAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAGGTATTTTTGGAGAAAAGTTGA
1 AAGTATCAATTTTCCT-TAAAATAAATTTTCAAAAAA-GTATTTTTGG-GAAAAGTTGA
* * * *
13908109 AAGTATCAATTTTCCTTAACAATAAATTTTCGACAAAGTTTTTTTGAGGAAAAATTGA
1 AAGTATCAATTTTCCTTAA-AATAAATTTTCAAAAAAGTATTTTTG-GGAAAAGTTGA
* * *
13908167 AAGTATCAATTTTCCTTGAAATTAAAGTTTCTAAAAAA-TATTTTAGGGAAAAGTTGA
1 AAGTATCAATTTTCCTT-AAAATAAATTTTC-AAAAAAGTATTTTTGGGAAAAGTTGA
13908224 AAGTATCAATTTTCC
1 AAGTATCAATTTTCC
13908239 CTGTACAAAA
Statistics
Matches: 209, Mismatches: 28, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
57 25 0.12
58 70 0.33
59 84 0.40
60 1 0.00
61 2 0.01
62 18 0.09
63 9 0.04
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (56 bp):
AAGTATCAATTTTCCTTAAAATAAATTTTCAAAAAAGTATTTTTGGGAAAAGTTGA
Found at i:13908758 original size:19 final size:19
Alignment explanation
Indices: 13908734--13908772 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13908724 CCTACGACTT
*
13908734 AATTAAAAATAATAAAATA
1 AATTAAAAATAAGAAAATA
*
13908753 AATTAAAGATAAGAAAATA
1 AATTAAAAATAAGAAAATA
13908772 A
1 A
13908773 CATGACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AATTAAAAATAAGAAAATA
Found at i:13909703 original size:208 final size:206
Alignment explanation
Indices: 13909430--13909974 Score: 641
Period size: 208 Copynumber: 2.6 Consensus size: 206
13909420 AAAGGGATGG
** * * * *
13909430 AAAACCATATGTCACAAGAAAATTAAAAGTAAAAAATATAAATGTTATAAAACCAAAGATTTGAT
1 AAAACCATAAATCACAAGAAAATCAAAAGTAAAAAATATAAATGTTACAAAATCAAAGGTTTGAT
* * * * *
13909495 TAATAAATTTTAACAGACAATGGTTTTAGAAAAAATGAATACAAGAAAATAAAAAATCGATAATT
66 TAATAAATTTTAACAAACAATGGTTTTA-AAAAAATGAATACAAAAAAATCAAAAGTCAATAATT
* ** *
13909560 AAAGTAATATGACAAATAAGAATTGGGAGAAAAAAGTGTAAAAGAGACATGAAAGAAACTCATAT
130 AAAGTAATATGACAAACAAGAATTGACAGAAAAAA--GTAAAAGAGACATAAAAGAAACTCATAT
*
13909625 AACTCTCAAT-GTT-
193 AACTCGC-ATCGTTA
* * * * *
13909638 AAAACCATAAATCACAATAAACTCAAAATTAAAAAATATAAATGTTACGAAATCGAAGGTTTGAT
1 AAAACCATAAATCACAAGAAAATCAAAAGTAAAAAATATAAATGTTACAAAATCAAAGGTTTGAT
*
13909703 TAATAAATTTTAACAAATAATGG-TTTAAATAAAATGAATACAAAAAAATCAAAAGTCAATAATT
66 TAATAAATTTTAACAAACAATGGTTTTAAA-AAAATGAATACAAAAAAATCAAAAGTCAATAATT
* * * * *
13909767 AAAGTAATATGACAAACAATAATTGACAGAAAAAAGTAACATATACATAAAAGACACTCATATAA
130 AAAGTAATATGACAAACAAGAATTGACAGAAAAAAGTAAAAGAGACATAAAAGAAACTCATATAA
*
13909832 CTCGCATCTTTA
195 CTCGCATCGTTA
** * *
13909844 AAAGAGATATAAGAATCACAAGAAAATCAAAAGTCAAAAATATAAATGTTACAAAATTAAAAGG-
1 AAA-A-CCAT-A-AATCACAAGAAAATCAAAAGTAAAAAATATAAATGTTACAAAA-TCAAAGGT
* * * *
13909908 TTAATCAATATATTTTAA-AAACAATAGTTTTAAAAAAATGAATACAAAAAAATCAAAAGTCAAT
61 TTGATTAATAAATTTTAACAAACAATGGTTTTAAAAAAATGAATACAAAAAAATCAAAAGTCAAT
13909972 AAT
126 AAT
13909975 CCAAATAAAT
Statistics
Matches: 286, Mismatches: 42, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
204 2 0.01
205 31 0.11
206 5 0.02
207 66 0.23
208 77 0.27
209 41 0.14
210 59 0.21
211 5 0.02
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.25
Consensus pattern (206 bp):
AAAACCATAAATCACAAGAAAATCAAAAGTAAAAAATATAAATGTTACAAAATCAAAGGTTTGAT
TAATAAATTTTAACAAACAATGGTTTTAAAAAAATGAATACAAAAAAATCAAAAGTCAATAATTA
AAGTAATATGACAAACAAGAATTGACAGAAAAAAGTAAAAGAGACATAAAAGAAACTCATATAAC
TCGCATCGTTA
Found at i:13910234 original size:176 final size:177
Alignment explanation
Indices: 13909940--13910274 Score: 566
Period size: 176 Copynumber: 1.9 Consensus size: 177
13909930 AATAGTTTTA
*
13909940 AAAAAATGAATACAAAAAAATCAAAAGTCAATAATCCAAATAAATATTAGACATTCAAAAGTTTA
1 AAAAAATGAATACAAAAAAATCAAAAGTCAATAATCCAAATAAATATTAGACAATCAAAAGTTTA
* *
13910005 TTGTGTTTTATGTAATAAAATTAAGATGTATGAATTTATAATTTATGTAAAAAAGACTTGGCA-T
66 TTGTGTTTTATGTAACAAAATTAAGATGTATAAATTTATAATTTATGTAAAAAAGACTTGGCATT
*
13910069 TATTACAACATATTTGAGTTATATATATAGATATATATAATGGTTTG
131 TATTACAAAATATTTGAGTTATATATATAGATATATATAATGGTTTG
*
13910116 AAAAAATGAATACAATAAAATCAAAAGTCAATAATCCAAATAAATATTAGACAATC-AAAGATTT
1 AAAAAATGAATACAAAAAAATCAAAAGTCAATAATCCAAATAAATATTAGACAATCAAAAG-TTT
13910180 ATTGTGTTTTATGTAACAAAATTAAGATGTATAAATTTATAATTTATGTAAAAAAGACTTGGCAT
65 ATTGTGTTTTATGTAACAAAATTAAGATGTATAAATTTATAATTTATGTAAAAAAGACTTGGCAT
* * * *
13910245 TTATTATAAAATTTTTGAGTTTTATGTATA
130 TTATTACAAAATATTTGAGTTATATATATA
13910275 TAATGATTAT
Statistics
Matches: 148, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
175 4 0.03
176 119 0.80
177 25 0.17
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (177 bp):
AAAAAATGAATACAAAAAAATCAAAAGTCAATAATCCAAATAAATATTAGACAATCAAAAGTTTA
TTGTGTTTTATGTAACAAAATTAAGATGTATAAATTTATAATTTATGTAAAAAAGACTTGGCATT
TATTACAAAATATTTGAGTTATATATATAGATATATATAATGGTTTG
Found at i:13910376 original size:22 final size:22
Alignment explanation
Indices: 13910351--13910465 Score: 95
Period size: 22 Copynumber: 5.2 Consensus size: 22
13910341 GTATACCAAA
*
13910351 GATAATTTAGCAGTAAATCATT
1 GATAATTTAGTAGTAAATCATT
* *
13910373 GATAATTCAATAGTAAATCATT
1 GATAATTTAGTAGTAAATCATT
* * *
13910395 GATAACTTAGTAGTAAATTAAT
1 GATAATTTAGTAGTAAATCATT
** * * *
13910417 GATAACATAATAATAAATCAAT
1 GATAATTTAGTAGTAAATCATT
* * * *
13910439 AATAATTTAATTGTCAATCATT
1 GATAATTTAGTAGTAAATCATT
13910461 GATAA
1 GATAA
13910466 CTTTCTTTTG
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATCATT
Found at i:13910399 original size:44 final size:44
Alignment explanation
Indices: 13910351--13910466 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
13910341 GTATACCAAA
* * * *
13910351 GATAATTTAGCAGTAAATCATTGATAA-TTCAATAGTAAATCATT
1 GATAATTTAGTAGTAAATCATTGATAACAT-AATAATAAATCAAT
* * *
13910395 GATAACTTAGTAGTAAATTAATGATAACATAATAATAAATCAAT
1 GATAATTTAGTAGTAAATCATTGATAACATAATAATAAATCAAT
* * * *
13910439 AATAATTTAATTGTCAATCATTGATAAC
1 GATAATTTAGTAGTAAATCATTGATAAC
13910467 TTTCTTTTGT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 56 0.98
45 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (44 bp):
GATAATTTAGTAGTAAATCATTGATAACATAATAATAAATCAAT
Found at i:13910421 original size:66 final size:66
Alignment explanation
Indices: 13910299--13910468 Score: 162
Period size: 66 Copynumber: 2.6 Consensus size: 66
13910289 AACTTAGTAT
* * * * * * ** *
13910299 TAAATCATCAATAA-TCAATAGTAATTGATTCATAAATTAGTAGTATACCAAAGATAATTTAGCA
1 TAAATCATTAATAATTCAATAGTAAATCATTGATAACTTAGTAGTAAACCAAAGATAACATAACA
*
13910363 G
66 A
* ** * *
13910364 TAAATCATTGATAATTCAATAGTAAATCATTGATAACTTAGTAGTAAATTAATGATAACATAATA
1 TAAATCATTAATAATTCAATAGTAAATCATTGATAACTTAGTAGTAAACCAAAGATAACATAACA
13910429 A
66 A
* * * *
13910430 TAAATCAATAATAATTTAATTGTCAATCATTGATAACTT
1 TAAATCATTAATAATTCAATAGTAAATCATTGATAACTT
13910469 TCTTTTGTAT
Statistics
Matches: 84, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
65 12 0.14
66 72 0.86
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.35
Consensus pattern (66 bp):
TAAATCATTAATAATTCAATAGTAAATCATTGATAACTTAGTAGTAAACCAAAGATAACATAACA
A
Found at i:13910859 original size:20 final size:21
Alignment explanation
Indices: 13910809--13910859 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
13910799 AATGGTTAAA
*
13910809 AAAAATATATCATAAGCTACC
1 AAAATTATATCATAAGCTACC
* * *
13910830 AAACTAATATCA-AAGGTACC
1 AAAATTATATCATAAGCTACC
13910850 AAAATTATAT
1 AAAATTATAT
13910860 TGAAAGTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (21 bp):
AAAATTATATCATAAGCTACC
Found at i:13915354 original size:12 final size:12
Alignment explanation
Indices: 13915339--13915377 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
13915329 TTTTTGTTAA
13915339 TTTTTGTTGAGT
1 TTTTTGTTGAGT
13915351 TTTTTGTTGAG-
1 TTTTTGTTGAGT
*
13915362 -TATTGTTGAGT
1 TTTTTGTTGAGT
13915373 TTTTT
1 TTTTT
13915378 TTTTATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (12 bp):
TTTTTGTTGAGT
Found at i:13915354 original size:22 final size:21
Alignment explanation
Indices: 13915329--13915392 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
13915319 TGTGTTCAAC
13915329 TTTTTGTTAATTTTTGTTGAGT
1 TTTTTGTT-ATTTTTGTTGAGT
* *
13915351 TTTTTGTTGAGTATTGTTGAGT
1 TTTTTGTT-ATTTTTGTTGAGT
13915373 TTTTT-TT-TTATTTGTTGAGT
1 TTTTTGTTATT-TTTGTTGAGT
13915393 ATTATTGAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 9 0.25
21 2 0.06
22 24 0.67
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.67
Consensus pattern (21 bp):
TTTTTGTTATTTTTGTTGAGT
Found at i:13926833 original size:9 final size:9
Alignment explanation
Indices: 13926819--13926843 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13926809 GTCGGAAAGA
13926819 TTTTTTAGT
1 TTTTTTAGT
13926828 TTTTTTAGT
1 TTTTTTAGT
13926837 TTTTTTA
1 TTTTTTA
13926844 TTGAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (9 bp):
TTTTTTAGT
Found at i:13927295 original size:26 final size:25
Alignment explanation
Indices: 13927241--13927295 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
13927231 CTCACCTAAG
*
13927241 AATTTTATAAAAATTTATCATTTGA
1 AATTTTATAAAAATTTATCATTGGA
*
13927266 AATTTCTAT-AAATTTTATCATTGGA
1 AATTT-TATAAAAATTTATCATTGGA
13927291 TAATT
1 -AATT
13927296 AATATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (25 bp):
AATTTTATAAAAATTTATCATTGGA
Found at i:13928183 original size:9 final size:9
Alignment explanation
Indices: 13928169--13928194 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13928159 AAAAGAAAAA
13928169 ATAAATAAC
1 ATAAATAAC
13928178 ATAAATAAC
1 ATAAATAAC
13928187 ATAAATAA
1 ATAAATAA
13928195 TAACCTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAAATAAC
Found at i:13929447 original size:21 final size:22
Alignment explanation
Indices: 13929404--13929459 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
13929394 TATAGTTTAT
*
13929404 TAATTGATTATTCAATGATGTAA
1 TAATTGATTATACAA-GATGTAA
13929427 TAATTGATTATACAA-ATGTAA
1 TAATTGATTATACAAGATGTAA
*
13929448 TACTTGATTATA
1 TAATTGATTATA
13929460 AGTAAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 17 0.55
23 14 0.45
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (22 bp):
TAATTGATTATACAAGATGTAA
Found at i:13931641 original size:63 final size:64
Alignment explanation
Indices: 13931560--13931777 Score: 211
Period size: 63 Copynumber: 3.5 Consensus size: 64
13931550 CTTGAAGGCA
*
13931560 TTTTTGGTC-AAACTCGCCTTCTA-TAATCCAATCAATAAATTGTTGTTGTGATTATTAAAGGTG
1 TTTTTGGTCGAAA-ACGCCTTCTAGTAATCCAATCAATAAATTGTTGTTGTGATTATTAAAGGTG
* * * * ** *
13931623 TTTTTTGTCGAAAACGCCTTC-AGTAATCC-AT-AGACAAA-AGTTGGAATG-GATGCTTGAAGG
1 TTTTTGGTCGAAAACGCCTTCTAGTAATCCAATCA-ATAAATTGTT-G-TTGTGATTATTAAAGG
**
13931683 CA
63 TG
* ** *
13931685 TTTTTGGCCGAACTCGCCTTCTA-TAATCCGATCAATAAATTGTTGTTGTGATTATTAAAGGTG
1 TTTTTGGTCGAAAACGCCTTCTAGTAATCCAATCAATAAATTGTTGTTGTGATTATTAAAGGTG
13931748 TTTTTGGTCGAAAACGCCTT-TAGTAATCCA
1 TTTTTGGTCGAAAACGCCTTCTAGTAATCCA
13931778 TAGACAAAAG
Statistics
Matches: 118, Mismatches: 26, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
61 4 0.03
62 44 0.37
63 63 0.53
64 7 0.06
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (64 bp):
TTTTTGGTCGAAAACGCCTTCTAGTAATCCAATCAATAAATTGTTGTTGTGATTATTAAAGGTG
Found at i:13931681 original size:125 final size:125
Alignment explanation
Indices: 13931550--13931817 Score: 482
Period size: 125 Copynumber: 2.1 Consensus size: 125
13931540 GTAGCCGACT
*
13931550 CTTGAAGGCATTTTTGGTCAAACTCGCCTTCTATAATCCAATCAATAAATTGTTGTTGTGATTAT
1 CTTGAAGGCATTTTTGGCCAAACTCGCCTTCTATAATCCAATCAATAAATTGTTGTTGTGATTAT
* *
13931615 TAAAGGTGTTTTTTGTCGAAAACGCCTTCAGTAATCCATAGACAAAAGTTGGAATGGATG
66 TAAAGGTGTTTTTGGTCGAAAACGCCTTCAGTAATCCATAGACAAAAGTTGGAACGGATG
* *
13931675 CTTGAAGGCATTTTTGGCCGAACTCGCCTTCTATAATCCGATCAATAAATTGTTGTTGTGATTAT
1 CTTGAAGGCATTTTTGGCCAAACTCGCCTTCTATAATCCAATCAATAAATTGTTGTTGTGATTAT
*
13931740 TAAAGGTGTTTTTGGTCGAAAACGCCTTTAGTAATCCATAGACAAAAGTTGGAACGGATG
66 TAAAGGTGTTTTTGGTCGAAAACGCCTTCAGTAATCCATAGACAAAAGTTGGAACGGATG
13931800 CTTGAAGGCATTTTTGGC
1 CTTGAAGGCATTTTTGGC
13931818 TTAAAATGAC
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 137 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (125 bp):
CTTGAAGGCATTTTTGGCCAAACTCGCCTTCTATAATCCAATCAATAAATTGTTGTTGTGATTAT
TAAAGGTGTTTTTGGTCGAAAACGCCTTCAGTAATCCATAGACAAAAGTTGGAACGGATG
Found at i:13931712 original size:62 final size:63
Alignment explanation
Indices: 13931631--13931817 Score: 188
Period size: 62 Copynumber: 3.0 Consensus size: 63
13931621 TGTTTTTTGT
13931631 CGAAAACGCCTTC-AGTAATCCATAGACAAAAGTTGGAATGGATGCTTGAAGGCATTTTTGGC
1 CGAAAACGCCTTCTAGTAATCCATAGACAAAAGTTGGAATGGATGCTTGAAGGCATTTTTGGC
** * * * ** * **
13931693 CGAACTCGCCTTCTA-TAATCCGATCA-ATAAATTGTT-G-TTGTGATTATTAAAGGTGTTTTTG
1 CGAAAACGCCTTCTAGTAATCC-AT-AGACAAA-AGTTGGAATG-GATGCTTGAAGGCATTTTTG
*
13931754 GT
62 GC
*
13931756 CGAAAACGCCTT-TAGTAATCCATAGACAAAAGTTGGAACGGATGCTTGAAGGCATTTTTGGC
1 CGAAAACGCCTTCTAGTAATCCATAGACAAAAGTTGGAATGGATGCTTGAAGGCATTTTTGGC
13931818 TTAAAATGAC
Statistics
Matches: 93, Mismatches: 23, Indels: 18
0.69 0.17 0.13
Matches are distributed among these distances:
61 4 0.04
62 44 0.47
63 41 0.44
64 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (63 bp):
CGAAAACGCCTTCTAGTAATCCATAGACAAAAGTTGGAATGGATGCTTGAAGGCATTTTTGGC
Found at i:13932335 original size:20 final size:21
Alignment explanation
Indices: 13932289--13932336 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
13932279 ATGCCCAGAA
*
13932289 AACATTTGATTTATACATGTG
1 AACATTTGATTTATACATATG
13932310 ATACATTTGA-TT-TACATAATG
1 A-ACATTTGATTTATACAT-ATG
13932331 AACATT
1 AACATT
13932337 GTTGTATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.42
21 6 0.25
22 8 0.33
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
AACATTTGATTTATACATATG
Found at i:13935715 original size:80 final size:80
Alignment explanation
Indices: 13935490--13935740 Score: 326
Period size: 80 Copynumber: 3.1 Consensus size: 80
13935480 AAACCACTCA
* * * *
13935490 AACAAACCATTCAGTATACGATTCAACCCCCCAATATCATACAAAACCATTCAGCAAAATAATAT
1 AACAAACCATTCAGTATACGATTCAGCCCTCTAATATCATACAATACCATTCAGCAAAATAATAT
*
13935555 CAGACAACAAGGTTT
66 CAGACAATAAGGTTT
* * * * ** *
13935570 AGCAAACCAAATT-AGCATATGATTCAG-CCTCCTAATATCATACAATGCCATTTGGCAAAACAA
1 AACAAACC--ATTCAGTATACGATTCAGCCCT-CTAATATCATACAATACCATTCAGCAAAATAA
*
13935633 TATCAGACAATAAGGTTC
63 TATCAGACAATAAGGTTT
*
13935651 AACAAACCATTCAGTATACGATTCAGCCCTCTAATATCATCCAATACCATTCAGCAAAATAATAT
1 AACAAACCATTCAGTATACGATTCAGCCCTCTAATATCATACAATACCATTCAGCAAAATAATAT
13935716 CAGACAATAAGGTTT
66 CAGACAATAAGGTTT
*
13935731 AGCAAACCAT
1 AACAAACCAT
13935741 AATATTTAAG
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
79 3 0.02
80 74 0.52
81 63 0.44
82 3 0.02
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (80 bp):
AACAAACCATTCAGTATACGATTCAGCCCTCTAATATCATACAATACCATTCAGCAAAATAATAT
CAGACAATAAGGTTT
Found at i:13936833 original size:147 final size:144
Alignment explanation
Indices: 13936629--13937066 Score: 617
Period size: 146 Copynumber: 3.0 Consensus size: 144
13936619 TTTTAGAAGG
* * *
13936629 AAATTAGTAAAGGCATTTATTATCAAT-AATGCCTTCACTATTTATGTAAAAAATTTAAAAGGAA
1 AAATTATTAAAGGCATTTATTATCAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAGGAA
13936693 TTATTAAAGGTGTTTGTCAGTAGAAGACATCTTTAATAATCCTAAAATTTTTTAGAGGGAAATTA
66 TTATTAAAGGTGTTTGTCAGTAGAAGACA-CTTTAATAATCC-AAAATTTTTTAGAGGGAAATTA
* *
13936758 CTAAAGATGTTTGTTG
129 CTAAAGACGTTTGTTA
* ** *
13936774 AAATTATTGAAGGTGTTTTATTATCAATAAATGCCTTCAATATTTATGTAGAAATTTTAAAAGGA
1 AAATTATTAAAGG-CATTTATTATCAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAGGA
* * * *
13936839 ATTATTGAAGGTGTTTGTCAGTAGAAAACGCCTTTAATAATTCCAAAATTTTTTAGAAGGAAATT
65 ATTATTAAAGGTGTTTGTCAGTAGAAGAC-ACTTTAATAA-TCCAAAATTTTTTAGAGGGAAATT
13936904 ACTAAAGACGTTTGTTA
128 ACTAAAGACGTTTGTTA
* *
13936921 AAATTATTAAAGGCATTTATTATCAATAAACGCCTTCAATATTTATGTAGAAAATTTAAAAAGAA
1 AAATTATTAAAGGCATTTATTATCAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAGGAA
* * *
13936986 TTATTAAAGGCGTTTGTCAGTAGAAGATACATTTAATAATCCCAAAATTTTTTAAAGGGAAATTA
66 TTATTAAAGGTGTTTGTCAGTAGAAGACAC-TTTAATAAT-CCAAAATTTTTTAGAGGGAAATTA
* * *
13937051 TTAAAGGCATTTGTTA
129 CTAAAGACGTTTGTTA
13937067 TTACCAAACG
Statistics
Matches: 258, Mismatches: 29, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
145 13 0.05
146 126 0.49
147 116 0.45
148 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (144 bp):
AAATTATTAAAGGCATTTATTATCAATAAATGCCTTCAATATTTATGTAGAAAATTTAAAAGGAA
TTATTAAAGGTGTTTGTCAGTAGAAGACACTTTAATAATCCAAAATTTTTTAGAGGGAAATTACT
AAAGACGTTTGTTA
Found at i:13945320 original size:33 final size:33
Alignment explanation
Indices: 13945259--13945325 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
13945249 GGCATCTCAA
* *
13945259 ATATACAAATGCCTTTAATATAGAGGCATTTTC
1 ATATACAAACGCCTCTAATATAGAGGCATTTTC
*
13945292 ATATACAAACGCCTCTAA-AGTAGCGGCATTTTC
1 ATATACAAACGCCTCTAATA-TAGAGGCATTTTC
13945325 A
1 A
13945326 ATTAGCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (33 bp):
ATATACAAACGCCTCTAATATAGAGGCATTTTC
Found at i:13945553 original size:17 final size:19
Alignment explanation
Indices: 13945521--13945555 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
13945511 TTTTTTAATA
13945521 TAAATATAATATATTAAAT
1 TAAATATAATATATTAAAT
13945540 TAAATA-AATA-ATTAAA
1 TAAATATAATATATTAAA
13945556 AATAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATATAATATATTAAAT
Found at i:13956435 original size:14 final size:13
Alignment explanation
Indices: 13956405--13956444 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
13956395 AATTACTTTG
*
13956405 AAAATAAATTAAA
1 AAAATAAATGAAA
13956418 AAAATAAATGACAA
1 AAAATAAATGA-AA
13956432 AAAATAAAT-AAA
1 AAAATAAATGAAA
13956444 A
1 A
13956445 TATATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 11 0.44
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAATAAATGAAA
Found at i:13958549 original size:63 final size:63
Alignment explanation
Indices: 13958446--13958577 Score: 257
Period size: 63 Copynumber: 2.1 Consensus size: 63
13958436 TTTCTGCTTG
13958446 AGCT-GTTTGAGTTAGTAAAATGGTGGTGGTGATGGGTCTTTGCTTTCTAGAAAAATTAGTGT
1 AGCTAGTTTGAGTTAGTAAAATGGTGGTGGTGATGGGTCTTTGCTTTCTAGAAAAATTAGTGT
13958508 AGCTAGTTTGAGTTAGTAAAATGGTGGTGGTGATGGGTCTTTGCTTTCTAGAAAAATTAGTGT
1 AGCTAGTTTGAGTTAGTAAAATGGTGGTGGTGATGGGTCTTTGCTTTCTAGAAAAATTAGTGT
13958571 AGCTAGT
1 AGCTAGT
13958578 CAACAACAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
62 4 0.06
63 65 0.94
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.38
Consensus pattern (63 bp):
AGCTAGTTTGAGTTAGTAAAATGGTGGTGGTGATGGGTCTTTGCTTTCTAGAAAAATTAGTGT
Found at i:13958786 original size:25 final size:25
Alignment explanation
Indices: 13958739--13958786 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
13958729 GTGATTGACT
*
13958739 GAAAAGAGAAATAGAAAGGGAAAAA
1 GAAAAGAGAAATAGAAAGAGAAAAA
*
13958764 GAAAAGAGGAAA-AGAGAGAGAAA
1 GAAAAGA-GAAATAGAAAGAGAAA
13958787 TAGTATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (25 bp):
GAAAAGAGAAATAGAAAGAGAAAAA
Found at i:13968163 original size:28 final size:28
Alignment explanation
Indices: 13968132--13968217 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
13968122 AATTTTTTTT
13968132 AAATTAAAAATCTAAAAAATTCAAAAAA
1 AAATTAAAAATCTAAAAAATTCAAAAAA
* **
13968160 AAATGTAAAATTCT-AAACCTTCAAAAAA
1 AAAT-TAAAAATCTAAAAAATTCAAAAAA
*
13968188 AAATTAAAAA-CTTAACAAAAGTCAAAAAA
1 AAATTAAAAATC-TAA-AAAATTCAAAAAA
13968217 A
1 A
13968218 TTATAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 6 0.13
28 21 0.45
29 19 0.40
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.21
Consensus pattern (28 bp):
AAATTAAAAATCTAAAAAATTCAAAAAA
Found at i:13968225 original size:9 final size:9
Alignment explanation
Indices: 13968213--13968247 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
13968203 CAAAAGTCAA
13968213 AAAAATTAT
1 AAAAATTAT
13968222 AAAAATTAT
1 AAAAATTAT
*
13968231 AAAAAATATT
1 AAAAATTA-T
13968241 AAAAATT
1 AAAAATT
13968248 TTTTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:13968260 original size:11 final size:11
Alignment explanation
Indices: 13968242--13968307 Score: 59
Period size: 10 Copynumber: 6.4 Consensus size: 11
13968232 AAAAATATTA
13968242 AAAATTTTTTT
1 AAAATTTTTTT
13968253 -AAATTTTTTT
1 AAAATTTTTTT
* *
13968263 AAAA-TATTCT
1 AAAATTTTTTT
*
13968273 AAAATGTTTTT
1 AAAATTTTTTT
* *
13968284 -AAA-TTTCTC
1 AAAATTTTTTT
13968293 AAAATTTTTTT
1 AAAATTTTTTT
13968304 AAAA
1 AAAA
13968308 ATTTAAAAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
9 3 0.07
10 24 0.59
11 14 0.34
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (11 bp):
AAAATTTTTTT
Found at i:13968277 original size:21 final size:21
Alignment explanation
Indices: 13968253--13968320 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 21
13968243 AAATTTTTTT
13968253 AAATTTTTTTAAAATATTCTA
1 AAATTTTTTTAAAATATTCTA
*
13968274 AAATGTTTTT-AAAT-TTCTCA
1 AAATTTTTTTAAAATATTCT-A
13968294 AAATTTTTTTAAAA-ATT-TA
1 AAATTTTTTTAAAATATTCTA
*
13968313 AAAATTTT
1 AAATTTTT
13968321 ATTATTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.29
20 15 0.37
21 14 0.34
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (21 bp):
AAATTTTTTTAAAATATTCTA
Found at i:13968297 original size:30 final size:30
Alignment explanation
Indices: 13968233--13968297 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
13968223 AAAATTATAA
* * *
13968233 AAAATATTAAAAATTTTTTTAAATTTTTTT
1 AAAATATTAAAAATGTTTTTAAATTTTCTC
*
13968263 AAAATATTCTAAAATGTTTTTAAA-TTTCTC
1 AAAATATT-AAAAATGTTTTTAAATTTTCTC
13968293 AAAAT
1 AAAAT
13968298 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.49
Consensus pattern (30 bp):
AAAATATTAAAAATGTTTTTAAATTTTCTC
Found at i:13968431 original size:29 final size:29
Alignment explanation
Indices: 13968397--13968480 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
13968387 AATTCTTTTT
13968397 GAATTTTTTAAAAATTTTAGAATTTTCTA
1 GAATTTTTTAAAAATTTTAGAATTTTCTA
* * *
13968426 GAA-TTTTTAGAAAATTTT-TATTTTTTTA
1 GAATTTTTTA-AAAATTTTAGAATTTTCTA
13968454 -AATATTTTTAAAAATTTTTAGAATTTT
1 GAAT-TTTTTAAAAA-TTTTAGAATTTT
13968481 TGATAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
27 2 0.04
28 17 0.38
29 21 0.47
30 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (29 bp):
GAATTTTTTAAAAATTTTAGAATTTTCTA
Found at i:13968481 original size:29 final size:28
Alignment explanation
Indices: 13968392--13968568 Score: 105
Period size: 28 Copynumber: 6.2 Consensus size: 28
13968382 TACTTAATTC
*
13968392 TTTTTGAAT-TTTTTAAAAA-TTTTAGAA
1 TTTTTAAATATTTTTAAAAATTTTTA-AA
* **
13968419 TTTTCTAGA-ATTTTTAGAAAATTTTTATT
1 TTTT-TAAATATTTTTA-AAAATTTTTAAA
13968448 TTTTTAAATATTTTTAAAAATTTTTAGAA
1 TTTTTAAATATTTTTAAAAATTTTTA-AA
* * * *
13968477 TTTTT-GATAATTTTCAAATTTCTTTAAA
1 TTTTTAAATATTTTTAAAAATT-TTTAAA
*
13968505 TTTTTAAAT-TTATT-AAAATTTATTAAAAA
1 TTTTTAAATATTTTTAAAAATTT-TT--AAA
** * * *
13968534 TTTTTTTATCTTTTTAAGAATTTTTTAA
1 TTTTTAAATATTTTTAAAAATTTTTAAA
13968562 TTGTTTA
1 TT-TTTA
13968569 TTTATTTTGG
Statistics
Matches: 115, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
26 1 0.01
27 11 0.10
28 47 0.41
29 39 0.34
30 11 0.10
31 6 0.05
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTTAAATATTTTTAAAAATTTTTAAA
Found at i:13968523 original size:18 final size:18
Alignment explanation
Indices: 13968457--13968531 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
13968447 TTTTTTAAAT
13968457 ATTTTTAAAAATTTTTAGA
1 ATTTTTAAAAATTTTTA-A
* * *
13968476 ATTTTTGATAATTTTCAA
1 ATTTTTAAAAATTTTTAA
*
13968494 ATTTCTT-TAAATTTTTAA
1 ATTT-TTAAAAATTTTTAA
13968512 ATTTATT-AAAATTTATTAA
1 ATTT-TTAAAAATTT-TTAA
13968531 A
1 A
13968532 AATTTTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 25 0.54
19 21 0.46
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTTTTAAAAATTTTTAA
Found at i:13968615 original size:39 final size:39
Alignment explanation
Indices: 13968578--13968688 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 39
13968568 ATTTATTTTG
13968578 GAATTTTCTAAAAAATTTTTAA-AATATTTTATAATTTTAA
1 GAATTTT-TAAAAAATTTTTAAGAAT-TTTTATAATTTTAA
* * * *
13968618 GAACTTTTGAAAAA-TTTTAATAATTTTTTTTAATTTTAA
1 GAATTTTTAAAAAATTTTTAAGAA-TTTTTATAATTTTAA
*
13968657 AAATTTTTAAAAAGATTATTTAAGAATTTTTA
1 GAATTTTTAAAAA-ATT-TTTAAGAATTTTTA
13968689 GAAAATTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
38 6 0.10
39 31 0.53
40 8 0.14
41 6 0.10
42 7 0.12
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (39 bp):
GAATTTTTAAAAAATTTTTAAGAATTTTTATAATTTTAA
Found at i:13968701 original size:11 final size:10
Alignment explanation
Indices: 13968401--13968699 Score: 64
Period size: 10 Copynumber: 30.6 Consensus size: 10
13968391 CTTTTTGAAT
13968401 TTTTTAAAAA
1 TTTTTAAAAA
*
13968411 -TTTT-AGAA
1 TTTTTAAAAA
*
13968419 TTTTCT-AGAA
1 TTTT-TAAAAA
13968429 TTTTTAGAAAA
1 TTTTTA-AAAA
**
13968440 TTTTT--ATT
1 TTTTTAAAAA
*
13968448 TTTTTAAATA
1 TTTTTAAAAA
13968458 TTTTTAAAAA
1 TTTTTAAAAA
*
13968468 TTTTT-AGAA
1 TTTTTAAAAA
* *
13968477 TTTTTGATAA
1 TTTTTAAAAA
*
13968487 -TTTT-CAAA
1 TTTTTAAAAA
*
13968495 TTTCTT-TAAA
1 TTT-TTAAAAA
13968505 TTTTT--AAA
1 TTTTTAAAAA
13968513 TTTATT-AAAA
1 TTT-TTAAAAA
13968523 TTTATTAAAAA
1 TTT-TTAAAAA
** **
13968534 TTTTTTTATC
1 TTTTTAAAAA
*
13968544 TTTTTAAGAA
1 TTTTTAAAAA
*
13968554 TTTTT--TAA
1 TTTTTAAAAA
***
13968562 TTGTTTATTTA
1 TT-TTTAAAAA
**
13968573 -TTTT-GGAA
1 TTTTTAAAAA
13968581 TTTTCTAAAAAA
1 TTTT-T-AAAAA
13968593 TTTTT-AAAA
1 TTTTTAAAAA
*
13968602 TATTTT-ATAA
1 T-TTTTAAAAA
*
13968612 -TTTTAAGAAC
1 TTTTTAA-AAA
*
13968622 TTTTGAAAAA
1 TTTTTAAAAA
*
13968632 -TTTTAATAA
1 TTTTTAAAAA
***
13968641 TTTTTTTTAA
1 TTTTTAAAAA
13968651 -TTTTAAAAA
1 TTTTTAAAAA
13968660 TTTTTAAAAAGA
1 TTTTT-AAAA-A
*
13968672 TTATTTAAGAA
1 TT-TTTAAAAA
13968683 TTTTTAGAAAA
1 TTTTTA-AAAA
13968694 TTTTTA
1 TTTTTA
13968700 GACTTCTTTA
Statistics
Matches: 219, Mismatches: 41, Indels: 57
0.69 0.13 0.18
Matches are distributed among these distances:
8 26 0.12
9 54 0.25
10 85 0.39
11 39 0.18
12 12 0.05
13 3 0.01
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:13968736 original size:19 final size:20
Alignment explanation
Indices: 13968714--13968757 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13968704 TCTTTAGCAG
* *
13968714 TTTTTTTAAC-TTTTTAAAA
1 TTTTTTGAACATTGTTAAAA
*
13968733 TTTTTTGAACATTGTTATAA
1 TTTTTTGAACATTGTTAAAA
13968753 TTTTT
1 TTTTT
13968758 AAAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTTGAACATTGTTAAAA
Found at i:13969645 original size:15 final size:16
Alignment explanation
Indices: 13969617--13969646 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13969607 GGAAATTAAA
13969617 ATTTTAACATTGTAAT
1 ATTTTAACATTGTAAT
13969633 ATTTTAA-ATTGTAA
1 ATTTTAACATTGTAA
13969647 ATAGGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (16 bp):
ATTTTAACATTGTAAT
Found at i:13969649 original size:16 final size:17
Alignment explanation
Indices: 13969613--13969649 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
13969603 ATATGGAAAT
13969613 TAAA-ATTTTAACATTG
1 TAAATATTTTAACATTG
13969629 T-AATATTTTAA-ATTG
1 TAAATATTTTAACATTG
13969644 TAAATA
1 TAAATA
13969650 GGTTTGTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (17 bp):
TAAATATTTTAACATTG
Found at i:13969713 original size:15 final size:14
Alignment explanation
Indices: 13969680--13969728 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
13969670 GTTCAATTAC
*
13969680 TTTGCATAATTATT
1 TTTGTATAATTATT
13969694 TTTGTATAATTATAT
1 TTTGTATAATTAT-T
13969709 TTTG--TAATTA-T
1 TTTGTATAATTATT
13969720 TTTGTATAA
1 TTTGTATAA
13969729 CTAATTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.16
13 9 0.29
14 12 0.39
15 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (14 bp):
TTTGTATAATTATT
Found at i:13969741 original size:24 final size:27
Alignment explanation
Indices: 13969687--13969742 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
13969677 TACTTTGCAT
* *
13969687 AATTATTTTTGTATAATTATATTTTGT
1 AATTATTTTTGTATAACTATATTTTGA
13969714 AATTA-TTTTGTATAACTA-A-TTTGA
1 AATTATTTTTGTATAACTATATTTTGA
13969738 AATTA
1 AATTA
13969743 AATTGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
26 12 0.44
27 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (27 bp):
AATTATTTTTGTATAACTATATTTTGA
Found at i:13970651 original size:14 final size:14
Alignment explanation
Indices: 13970614--13970653 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
13970604 ATTATTAAAA
13970614 TTTTAAATTATATT
1 TTTTAAATTATATT
*
13970628 ATTT---TTATATT
1 TTTTAAATTATATT
13970639 TTTTAAATTATATT
1 TTTTAAATTATATT
13970653 T
1 T
13970654 AAATTGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 6
0.72 0.07 0.21
Matches are distributed among these distances:
11 10 0.48
14 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTAAATTATATT
Found at i:13971112 original size:12 final size:13
Alignment explanation
Indices: 13971085--13971116 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13971075 TAATATTTGA
13971085 ATTTT-TTTATGT
1 ATTTTATTTATGT
13971097 ATTTTATTTATG-
1 ATTTTATTTATGT
13971109 ATTTTATT
1 ATTTTATT
13971117 ATAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (13 bp):
ATTTTATTTATGT
Found at i:13971148 original size:20 final size:21
Alignment explanation
Indices: 13971103--13971154 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
13971093 ATGTATTTTA
*
13971103 TTTATGATTTTATTATAAAAT
1 TTTATAATTTTATTATAAAAT
* *
13971124 ATTAT-ATTTTACTTA-AAATT
1 TTTATAATTTTA-TTATAAAAT
13971144 TTTATAATTTT
1 TTTATAATTTT
13971155 TAATGAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTATAATTTTATTATAAAAT
Found at i:13972479 original size:25 final size:25
Alignment explanation
Indices: 13972423--13972481 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
13972413 AATATCATAG
*
13972423 AATAA-TTTTTTAAAAAATAAATAT
1 AATAAGTTATTTAAAAAATAAATAT
*
13972447 AATTAAGTTATTTAAAAATTAAAATAT
1 AA-TAAGTTATTTAAAAAAT-AAATAT
13972474 AA-AAGTTA
1 AATAAGTTA
13972482 AATGAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 2 0.07
25 9 0.30
26 11 0.37
27 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (25 bp):
AATAAGTTATTTAAAAAATAAATAT
Found at i:13973784 original size:16 final size:15
Alignment explanation
Indices: 13973765--13973815 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
13973755 AAATTTGGGG
13973765 TTTTCAGAATTTTGGA
1 TTTT-AGAATTTTGGA
13973781 TTTTA-AAGTTTTGGA
1 TTTTAGAA-TTTTGGA
* *
13973796 TTTTAAGAGTTTGGGA
1 TTTT-AGAATTTTGGA
13973812 TTTT
1 TTTT
13973816 GGATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 2 0.07
15 12 0.40
16 15 0.50
17 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.53
Consensus pattern (15 bp):
TTTTAGAATTTTGGA
Found at i:13973794 original size:15 final size:16
Alignment explanation
Indices: 13973774--13973815 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
13973764 GTTTTCAGAA
13973774 TTTTGGATTTTAA-AG
1 TTTTGGATTTTAAGAG
13973789 TTTTGGATTTTAAGAG
1 TTTTGGATTTTAAGAG
*
13973805 TTTGGGATTTT
1 TTTTGGATTTT
13973816 GGATTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (16 bp):
TTTTGGATTTTAAGAG
Found at i:13973872 original size:23 final size:22
Alignment explanation
Indices: 13973840--13973888 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
13973830 TTTTAGAAAC
*
13973840 TTGGACTTTTTTGGTTTTGGATT
1 TTGGACTTTTTGGGTTTT-GATT
*
13973863 TTGGATTTTTTGGGTTTTGATT
1 TTGGACTTTTTGGGTTTTGATT
13973885 TTGG
1 TTGG
13973889 GGATTAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.08, C:0.02, G:0.29, T:0.61
Consensus pattern (22 bp):
TTGGACTTTTTGGGTTTTGATT
Found at i:13974384 original size:36 final size:36
Alignment explanation
Indices: 13974344--13974413 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
13974334 AGTTGACCAA
* * *
13974344 GATAACACTATGAGT-GAAAATTAAAGAATTGATCGG
1 GATAACACCATAAGTCG-AAATTAAAGAATCGATCGG
*
13974380 GATAACACCGTAAGTCGAAATTAAAGAATCGATC
1 GATAACACCATAAGTCGAAATTAAAGAATCGATC
13974414 AAGATCAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.97
37 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (36 bp):
GATAACACCATAAGTCGAAATTAAAGAATCGATCGG
Found at i:13974466 original size:36 final size:36
Alignment explanation
Indices: 13974420--13974492 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
13974410 GATCAAGATC
*
13974420 AAAGAATCGATCGGGACAACATCGCGAATCGAAATT
1 AAAGAATCGATCGGGACAACATCGCGAATAGAAATT
* * * *
13974456 AAAGATTCGATTGGGACAACATTGTGAATAGAAATT
1 AAAGAATCGATCGGGACAACATCGCGAATAGAAATT
13974492 A
1 A
13974493 TGCTCAGAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (36 bp):
AAAGAATCGATCGGGACAACATCGCGAATAGAAATT
Found at i:13974702 original size:88 final size:88
Alignment explanation
Indices: 13974481--13974716 Score: 242
Period size: 88 Copynumber: 2.7 Consensus size: 88
13974471 ACAACATTGT
* * * *
13974481 GAATAGAAATTATGCTC-AGAGGTCTTACAGAATCAACTGGGATAATACCGAAAGTCAAAAAATA
1 GAATCGAAATTATGCCCGA-AGGTCTTACAGAATCGACTGGGATAACACCGAAAGTCAAAAAATA
* *
13974545 AGAAATCGATCAGGATAATATCGC
65 AGAAATCGATCAGGATAATACCAC
* * * * * * * ** * *
13974569 AAATCGAAATTATGCCTGGAGGTCTCACAAAATTGATTGAAATAACACC-ACAAGTCGAAAGATA
1 GAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGA-AAGTCAAAAAATA
* * *
13974633 AGGAATTGATCGGGATAATACCAC
65 AGAAATCGATCAGGATAATACCAC
* *
13974657 GAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACATCGTAAGTCAAAA
1 GAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGAAAGTCAAAA
13974717 TTAAAGAATC
Statistics
Matches: 113, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
87 1 0.01
88 112 0.99
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (88 bp):
GAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGAAAGTCAAAAAATAA
GAAATCGATCAGGATAATACCAC
Found at i:13974779 original size:22 final size:21
Alignment explanation
Indices: 13974749--13974792 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
13974739 ATCGTGAATC
13974749 AAAAAAATGCATGGAGGTCTT
1 AAAAAAATGCATGGAGGTCTT
*
13974770 AAAAATAATGCTTGGAGGTCTT
1 AAAAA-AATGCATGGAGGTCTT
13974792 A
1 A
13974793 CAGAATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (21 bp):
AAAAAAATGCATGGAGGTCTT
Found at i:13974974 original size:110 final size:110
Alignment explanation
Indices: 13974662--13974995 Score: 393
Period size: 110 Copynumber: 3.0 Consensus size: 110
13974652 ACCACGAATC
* * *
13974662 GAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACATCGTAAGTC-AAA-ATTAAAGAA
1 GAAATTATGCCTGGAGGTCTTACAGAATCGACTGGGATAACATCGTAAGTCGAAAGA-TAAGGAA
** *
13974725 TCGATTGGGATAACATCGTGAATCAAAAAAATGCATGGAGGTCTTA
65 TCGATTGGGATAACATCGTGAATCAAAATTATGCACGGAGGTCTTA
* * * * * *
13974771 AAAATAATGCTTGGAGGTCTTACAGAATCAACTAGAATAACATCGTAAGTCGAAAGATAAGGAAT
1 GAAATTATGCCTGGAGGTCTTACAGAATCGACTGGGATAACATCGTAAGTCGAAAGATAAGGAAT
* * * ** * * *
13974836 AGATCGGGATAACATCGCGAATTGAAATTACGCCCAGAGGTCTTA
66 CGATTGGGATAACATCGTGAATCAAAATTATGCACGGAGGTCTTA
* * * *
13974881 GAAATTATGCCTGGAGATCTTACAAAATCGACTGGGATAACACCGCAAGTCGAAAGATAAGGAAT
1 GAAATTATGCCTGGAGGTCTTACAGAATCGACTGGGATAACATCGTAAGTCGAAAGATAAGGAAT
* * **
13974946 CGATTGGGATAATACCGTGAATCAAAATTATGTTCGGAGGTCTTA
66 CGATTGGGATAACATCGTGAATCAAAATTATGCACGGAGGTCTTA
13974991 GAAAT
1 GAAAT
13974996 CACGTTCGGA
Statistics
Matches: 182, Mismatches: 41, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
109 43 0.24
110 138 0.76
111 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (110 bp):
GAAATTATGCCTGGAGGTCTTACAGAATCGACTGGGATAACATCGTAAGTCGAAAGATAAGGAAT
CGATTGGGATAACATCGTGAATCAAAATTATGCACGGAGGTCTTA
Found at i:13975350 original size:41 final size:41
Alignment explanation
Indices: 13975289--13975393 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
13975279 TTCTGAAGAA
13975289 GGTTCCTTCTAAACAAAGGCTTTGAAATCTCAATT-AAAATT
1 GGTTCCTTCTAAACAAAGGCTTTGAAATCTCAATTGAAAA-T
* **
13975330 GGTTCC-TCTTAAACATAGGCTTTGAAATCTTGATTGAAAAT
1 GGTTCCTTC-TAAACAAAGGCTTTGAAATCTCAATTGAAAAT
* * *
13975371 GGTTCCTTTTGAACAAAGACTTT
1 GGTTCCTTCTAAACAAAGGCTTT
13975394 AAAACTTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 2 0.04
41 47 0.87
42 5 0.09
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (41 bp):
GGTTCCTTCTAAACAAAGGCTTTGAAATCTCAATTGAAAAT
Found at i:13975983 original size:33 final size:33
Alignment explanation
Indices: 13975946--13976094 Score: 138
Period size: 33 Copynumber: 4.5 Consensus size: 33
13975936 GCTTTAACAA
* ** *
13975946 ATAAACTAGGCTTAAAACTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAACTTCATCAAGGGCCAG
* *
13975979 ATAAATTGGGCTT-AAATTTCATCAAGGGCCAG
1 ATAAACTGGGCTTAAAACTTCATCAAGGGCCAG
* * ** * *
13976011 TTAAACTGGGTTTAAAACTTCATTGATGTCCAG
1 ATAAACTGGGCTTAAAACTTCATCAAGGGCCAG
* * * * *
13976044 CTAAATTGGGCTTCAAATTTCATCAAGGGCCAA
1 ATAAACTGGGCTTAAAACTTCATCAAGGGCCAG
13976077 ATAAACTGGGCTTAAAAC
1 ATAAACTGGGCTTAAAAC
13976095 ATCAATATCT
Statistics
Matches: 87, Mismatches: 28, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
32 25 0.29
33 62 0.71
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAACTTCATCAAGGGCCAG
Found at i:13976051 original size:65 final size:66
Alignment explanation
Indices: 13975943--13976094 Score: 243
Period size: 65 Copynumber: 2.3 Consensus size: 66
13975933 TAGGCTTTAA
*
13975943 CAAATAAACTAGGCTTAAAACTTCATTGATGGCCAGATAAATTGGGCTT-AAATTTCATCAAGGG
1 CAAATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAATTGGGCTTCAAATTTCATCAAGGG
13976007 C
66 C
** * * *
13976008 CAGTTAAACTGGGTTTAAAACTTCATTGATGTCCAGCTAAATTGGGCTTCAAATTTCATCAAGGG
1 CAAATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAATTGGGCTTCAAATTTCATCAAGGG
13976073 C
66 C
13976074 CAAATAAACTGGGCTTAAAAC
1 CAAATAAACTGGGCTTAAAAC
13976095 ATCAATATCT
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 43 0.56
66 34 0.44
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (66 bp):
CAAATAAACTGGGCTTAAAACTTCATTGATGGCCAGATAAATTGGGCTTCAAATTTCATCAAGGG
C
Found at i:13976158 original size:152 final size:150
Alignment explanation
Indices: 13975954--13976239 Score: 412
Period size: 152 Copynumber: 1.9 Consensus size: 150
13975944 AAATAAACTA
* *
13975954 GGCTTAAAACTTCATTGATGGCCAGATAAATTGGGCTTAAATTTCATCAAGGGCCAGTTAAACTG
1 GGCTTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATTTCATCAAGGGCCAGATAAACTG
** * *
13976019 GGTTTAAAACTTCATTGATGTCCAGCTAAATTGGGCTTCAAATTTCATCAAGGGCCAAATAAACT
66 GACTTAAAACTTCATTGATGGCCAACTAAATTGGGCTTC-AATTTCAT-AAGGGCCAAATAAACT
13976084 GGGCTTAAAACATCAATATCTG
129 GGGCTTAAAACATCAATATCTG
* * * *
13976106 GGCTTAAAACTTCATTGATGGCCA-ACTAAACTGGGTTTCAATTTCATTAAGGGTCAGATAAACT
1 GGCTTAAAACTTCATTGATGGCCAGA-TAAACTGGGCTTAAATTTCATCAAGGGCCAGATAAACT
* ** *
13976170 GGACTTAAAACTTCATTGATGGCCAACTAAATTGGGCTTCAATTTCATTAGGGCCAGCTAAATTG
65 GGACTTAAAACTTCATTGATGGCCAACTAAATTGGGCTTCAATTTCATAAGGGCCAAATAAACTG
13976235 GGCTT
130 GGCTT
13976240 CAATTTTTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
150 18 0.15
151 9 0.08
152 92 0.77
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (150 bp):
GGCTTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATTTCATCAAGGGCCAGATAAACTG
GACTTAAAACTTCATTGATGGCCAACTAAATTGGGCTTCAATTTCATAAGGGCCAAATAAACTGG
GCTTAAAACATCAATATCTG
Found at i:13976231 original size:31 final size:32
Alignment explanation
Indices: 13976116--13976245 Score: 129
Period size: 32 Copynumber: 4.1 Consensus size: 32
13976106 GGCTTAAAAC
* *
13976116 TTCATTGATGGCCAACTAAACTGGGTTTCAAT
1 TTCATTGAGGGCCAACTAAACTGGGCTTCAAT
* * * * *
13976148 TTCATTAAGGGTCAGA-TAAACTGGACTTAAAAC
1 TTCATTGAGGGCCA-ACTAAACTGGGCTT-CAAT
* *
13976181 TTCATTGATGGCCAACTAAATTGGGCTTCAAT
1 TTCATTGAGGGCCAACTAAACTGGGCTTCAAT
* *
13976213 TTCATT-AGGGCCAGCTAAATTGGGCTTCAAT
1 TTCATTGAGGGCCAACTAAACTGGGCTTCAAT
13976244 TT
1 TT
13976246 TTTAAAAAAT
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
31 25 0.32
32 30 0.38
33 24 0.30
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (32 bp):
TTCATTGAGGGCCAACTAAACTGGGCTTCAAT
Found at i:13977136 original size:20 final size:21
Alignment explanation
Indices: 13977098--13977155 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
13977088 TTTCCACCCA
*
13977098 TTCATTTCTTT-TCTTTTTCC-
1 TTCATTT-TTTCTTTTTTTCCT
13977118 TTC-TTTTATTCTTTTTTTCCT
1 TTCATTTT-TTCTTTTTTTCCT
13977139 TTCATTTTTTCTTTTTT
1 TTCATTTTTTCTTTTTT
13977156 CTTTCGTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 11 0.33
21 12 0.36
22 4 0.12
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCATTTTTTCTTTTTTTCCT
Found at i:13977156 original size:20 final size:19
Alignment explanation
Indices: 13977106--13977160 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
13977096 CATTCATTTC
13977106 TTTTC-TTTTTCC-TTCTT
1 TTTTCTTTTTTCCTTTCTT
13977123 TTATTCTTTTTTTCCTTTCATT
1 TT-TTC-TTTTTTCCTTTC-TT
13977145 TTTTCTTTTTT-CTTTC
1 TTTTCTTTTTTCCTTTC
13977161 GTGTTCCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 5 0.15
20 13 0.39
21 6 0.18
22 4 0.12
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTTTCCTTTCTT
Found at i:13978340 original size:18 final size:18
Alignment explanation
Indices: 13978317--13978351 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13978307 AGACTCACAA
*
13978317 CTTTTTTTTTCTTTTTTC
1 CTTTTTTTTACTTTTTTC
13978335 CTTTTTTTTACTTTTTT
1 CTTTTTTTTACTTTTTT
13978352 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (18 bp):
CTTTTTTTTACTTTTTTC
Found at i:13978357 original size:18 final size:18
Alignment explanation
Indices: 13978318--13978360 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13978308 GACTCACAAC
* *
13978318 TTTTTTTTTCTTTTTTCC
1 TTTTTTTTACTTTTTTCA
*
13978336 TTTTTTTTACTTTTTTTA
1 TTTTTTTTACTTTTTTCA
13978354 TTTTTTT
1 TTTTTTT
13978361 AAGACATTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTTACTTTTTTCA
Found at i:13981967 original size:16 final size:17
Alignment explanation
Indices: 13981939--13981970 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13981929 AGGGCTTAGG
13981939 TTTAAGGGATTTTAGAT
1 TTTAAGGGATTTTAGAT
13981956 TTTAAGGG-TTTTAGA
1 TTTAAGGGATTTTAGA
13981971 ATCCTAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (17 bp):
TTTAAGGGATTTTAGAT
Found at i:13982486 original size:18 final size:19
Alignment explanation
Indices: 13982437--13982488 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
13982427 ATCATGCATG
*
13982437 AATATATAAAAAAAATACTC
1 AATATAT-AAAAAAATAATC
13982457 AA-A-ATAACAAAAATAAT-
1 AATATATAA-AAAAATAATC
13982474 AATATATAAAAAAAT
1 AATATATAAAAAAAT
13982489 TCAAAAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 4 0.14
18 17 0.61
19 5 0.18
20 2 0.07
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (19 bp):
AATATATAAAAAAATAATC
Found at i:13984182 original size:35 final size:36
Alignment explanation
Indices: 13984143--13984214 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
13984133 TGGGTCGATA
13984143 AAATAAAGA-GATCGGGATTAAACCT-CAAGTCAAAG
1 AAATAAAGATGATCGGGATTAAA-CTACAAGTCAAAG
* *
13984178 AAATAATGATGATCGGGATTAAACTACGAGTCAAAG
1 AAATAAAGATGATCGGGATTAAACTACAAGTCAAAG
13984214 A
1 A
13984215 TTAAAGACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 10 0.30
36 23 0.70
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.19
Consensus pattern (36 bp):
AAATAAAGATGATCGGGATTAAACTACAAGTCAAAG
Found at i:13984314 original size:38 final size:35
Alignment explanation
Indices: 13984270--13984419 Score: 106
Period size: 35 Copynumber: 4.1 Consensus size: 35
13984260 TCAGGATTAG
13984270 ACCACAAGTCAGGAAACCATAAAAATGATCGGGATTGA
1 ACCACAAGTCA-GAAA--ATAAAAATGATCGGGATTGA
* ** * * *
13984308 ACCACAAGTCA-AAGATTAACGACGA-CTGAGACTGA
1 ACCACAAGTCAGAA-AATAAAAATGATC-GGGATTGA
* * *
13984343 ACCACAAGTCAGAAAATAGAAATGACCGGGATTAA
1 ACCACAAGTCAGAAAATAAAAATGATCGGGATTGA
* * *
13984378 ACCGCGAGTCAAGAAACTATAAAAATGATCGGGGTTGA
1 ACCACAAGTC-AGAAA--ATAAAAATGATCGGGATTGA
13984416 ACCA
1 ACCA
13984420 TGAGTTAAAG
Statistics
Matches: 84, Mismatches: 21, Indels: 14
0.71 0.18 0.12
Matches are distributed among these distances:
34 1 0.01
35 42 0.50
36 10 0.12
37 1 0.01
38 30 0.36
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.15
Consensus pattern (35 bp):
ACCACAAGTCAGAAAATAAAAATGATCGGGATTGA
Found at i:13984440 original size:108 final size:108
Alignment explanation
Indices: 13984157--13984573 Score: 321
Period size: 108 Copynumber: 3.9 Consensus size: 108
13984147 AAAGAGATCG
* ** * *
13984157 GGATTAAACCTCAAGTCAA-AGAA--ATAATGATGATCGGGATTAAACTACGAGTCAAAGATTAA
1 GGATTAAACCACAAGTCAAGA-AACCATAAAAATGATCGGGATTGAACCACGAGTCAAAGATTAA
* * * * *
13984219 AGACAACT-AGGACTAAACCGTAAGTTAGAAAATAGAAACAATCA
65 AGACGACTGA-GACTGAACCGCAAGTCAGAAAATAGAAACAACCA
* * * *
13984263 GGATTAGACCACAAGTCAGGAAACCATAAAAATGATCGGGATTGAACCACAAGTCAAAGATTAAC
1 GGATTAAACCACAAGTCAAGAAACCATAAAAATGATCGGGATTGAACCACGAGTCAAAGATTAAA
* ** *
13984328 GACGACTGAGACTGAACCACAAGTCAGAAAATAGAAATGACCG
66 GACGACTGAGACTGAACCGCAAGTCAGAAAATAGAAACAACCA
* * * * * * *
13984371 GGATTAAACCGCGAGTCAAGAAACTATAAAAATGATCGGGGTTGAACCATGAGTTAAAGATTAAT
1 GGATTAAACCACAAGTCAAGAAACCATAAAAATGATCGGGATTGAACCACGAGTCAAAGATTAAA
* * * * * *** *
13984436 GACGATTGAAACTGAATCGCAAGTCAGGAAACA-AAGTTA-CT
66 GACGACTGAGACTGAACCGCAAGTCAGAAAATAGAAACAACCA
* * * * * ** *
13984477 GAGATTAAACCACAAGTCGA-AAACTATAGAAATGA-CTAGGATTAAACCATAAGCCAAAAGATT
1 G-GATTAAACCACAAGTCAAGAAACCATAAAAATGATC-GGGATTGAACCACGAGTC-AAAGATT
* *
13984540 AACA-ATGACTGGGACTGAACCGCAAGTCAGAAAA
63 AA-AGACGACTGAGACTGAACCGCAAGTCAGAAAA
13984574 CTATAAAAAT
Statistics
Matches: 249, Mismatches: 54, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
105 1 0.00
106 46 0.18
107 53 0.21
108 148 0.59
109 1 0.00
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (108 bp):
GGATTAAACCACAAGTCAAGAAACCATAAAAATGATCGGGATTGAACCACGAGTCAAAGATTAAA
GACGACTGAGACTGAACCGCAAGTCAGAAAATAGAAACAACCA
Found at i:13984598 original size:180 final size:181
Alignment explanation
Indices: 13984363--13984787 Score: 504
Period size: 180 Copynumber: 2.4 Consensus size: 181
13984353 AGAAAATAGA
* * * * * * *
13984363 AATGACCGGGATTAAACCGCGAGTCA-AGAAACTATAAAAATGATCGGGGTTGAACCATGAGTTA
1 AATGACTGGGACTGAACCGCAAGTCAGA-AAACTATAAAAATGATCGGGATTGAACCACGAGTCA
* ** * *
13984427 AAGATTAATGACGATTGAAACTGAATCGCAAGTC-AGGAAA-CAAAGTTACTGAGATTAAACCAC
65 AAGATTAATGACGATTGAAACTGAATCGCAAATCAAAAAAATAAAAGTGACTGAGATTAAACCAC
* * *
13984490 AAGTCGAAAACTATAGAAATGACTAG-GATTAAACCATAAGCCAAAAGATTAAC
130 AAGTCGAAAACTATAGAAATAAC-AGAGATTAAACAACAAGCC-AAAGATTAAC
13984543 AATGACTGGGACTGAACCGCAAGTCAGAAAACTATAAAAATGATCGGGATTGAACCACGAGTCAA
1 AATGACTGGGACTGAACCGCAAGTCAGAAAACTATAAAAATGATCGGGATTGAACCACGAGTCAA
* * *
13984608 AGATTAATGACGATTGAGACTGAATCGTAAATCAAAAAAATAAAAGTGACTGGGATTAAACCACA
66 AGATTAATGACGATTGAAACTGAATCGCAAATCAAAAAAATAAAAGTGACTGAGATTAAACCACA
* * *
13984673 AGTCGAAAACTATAGAAATAACCGAGATTAAACAACGAGCCAAATATTAAC
131 AGTCGAAAACTATAGAAATAACAGAGATTAAACAACAAGCCAAAGATTAAC
* * * * * * * *
13984724 AATAACTAGGACTGAATCGCAAATCAGGAAA--ATAAAAATGA-CTGGCATTAAACCACAAGTCA
1 AATGACTGGGACTGAACCGCAAGTCAGAAAACTATAAAAATGATC-GGGATTGAACCACGAGTCA
13984786 AA
65 AA
13984788 AAATAAAAAT
Statistics
Matches: 211, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
178 1 0.00
179 28 0.13
180 86 0.41
181 41 0.19
182 55 0.26
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (181 bp):
AATGACTGGGACTGAACCGCAAGTCAGAAAACTATAAAAATGATCGGGATTGAACCACGAGTCAA
AGATTAATGACGATTGAAACTGAATCGCAAATCAAAAAAATAAAAGTGACTGAGATTAAACCACA
AGTCGAAAACTATAGAAATAACAGAGATTAAACAACAAGCCAAAGATTAAC
Found at i:13984722 original size:108 final size:108
Alignment explanation
Indices: 13984543--13984873 Score: 382
Period size: 108 Copynumber: 3.1 Consensus size: 108
13984533 AAAGATTAAC
* * * * * *
13984543 AATGACTGGGACTGAACCGCAAGTCAGAAAACTATAAAAATGATCGGGATTGAACCACGAGTCAA
1 AATGACTGGGATTAAACCACAAGTC-GAAAACTATAAAAATGATCGAGATTAAACCACGAGCCAA
* * * *
13984608 AGATTAATGACGATTGAGACTGAATCGTAAATCAAAAAAATAAA
65 ATATTAATAATGACTGAGACTGAATCGTAAATCAAAAAAATAAA
* * * * *
13984652 AGTGACTGGGATTAAACCACAAGTCGAAAACTATAGAAATAACCGAGATTAAACAACGAGCCAAA
1 AATGACTGGGATTAAACCACAAGTCGAAAACTATAAAAATGATCGAGATTAAACCACGAGCCAAA
* * * **
13984717 TATTAACAATAACT-AGGACTGAATCGCAAATCAGGAAAATAAA
66 TATTAATAATGACTGA-GACTGAATCGTAAATCAAAAAAATAAA
* *
13984760 AATGACTGGCATTAAACCACAAGTC-AAAA-AATAAAAATGATCGAGATTAAACCACGAGCCAAA
1 AATGACTGGGATTAAACCACAAGTCGAAAACTATAAAAATGATCGAGATTAAACCACGAGCCAAA
* * *
13984823 TATTAATAATGACTGGGACTGAACCATAAATCAAAAAAATAAA
66 TATTAATAATGACTGAGACTGAATCGTAAATCAAAAAAATAAA
13984866 TAA-GACTG
1 -AATGACTG
13984874 AGCTATGAGT
Statistics
Matches: 184, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
106 68 0.37
107 7 0.04
108 88 0.48
109 21 0.11
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (108 bp):
AATGACTGGGATTAAACCACAAGTCGAAAACTATAAAAATGATCGAGATTAAACCACGAGCCAAA
TATTAATAATGACTGAGACTGAATCGTAAATCAAAAAAATAAA
Found at i:13984791 original size:35 final size:34
Alignment explanation
Indices: 13984474--13984873 Score: 111
Period size: 36 Copynumber: 11.1 Consensus size: 34
13984464 AAACAAAGTT
* *
13984474 ACTGAGATTAAACCACAAGTCGAAAACTATAGAAATG
1 ACTG-GATTAAACCACAAGTC-AAAA-AATAAAAATG
* * * *
13984511 ACTAGGATTAAACCATAAGCCAAAAGATTAACAATG
1 ACT-GGATTAAACCACAAGTCAAAA-AATAAAAATG
* * *
13984547 ACTGGGACTGAACCGCAAGTCAGAAAACTATAAAAATG
1 ACT-GGATTAAACCACAAGTCA-AAAA--ATAAAAATG
* * * * * ** *
13984585 ATCGGGATTGAACCACGAGTCAAAGATTAATGACG
1 A-CTGGATTAAACCACAAGTCAAAAAATAAAAATG
* * * * ** * *
13984620 ATTGAGACTGAATCGTAAATCAAAAAAATAAAAGTG
1 ACTG-GATTAAACCACAAGTC-AAAAAATAAAAATG
* * *
13984656 ACTGGGATTAAACCACAAGTCGAAAACTATAGAAATA
1 ACT-GGATTAAACCACAAGTC-AAAA-AATAAAAATG
* * * * * * * *
13984693 ACCGAGATTAAACAACGAGCCAAATATTAACAATA
1 ACTG-GATTAAACCACAAGTCAAAAAATAAAAATG
* * * * * *
13984728 ACTAGGACTGAATCGCAAATCAGGAAAATAAAAATG
1 ACT-GGATTAAACCACAAGTCA-AAAAATAAAAATG
13984764 ACTGGCATTAAACCACAAGTCAAAAAATAAAAATG
1 ACTGG-ATTAAACCACAAGTCAAAAAATAAAAATG
* * * * *
13984799 A-TCGAGATTAAACCACGAGCCAAATATTAATAATG
1 ACT-G-GATTAAACCACAAGTCAAAAAATAAAAATG
* * * *
13984834 ACTGGGACTGAACCATAAATCAAAAAAATAAATAA-G
1 ACT-GGATTAAACCACAAGTC-AAAAAATAAA-AATG
13984870 ACTG
1 ACTG
13984874 AGCTATGAGT
Statistics
Matches: 251, Mismatches: 94, Indels: 38
0.66 0.25 0.10
Matches are distributed among these distances:
34 2 0.01
35 85 0.34
36 92 0.37
37 47 0.19
38 24 0.10
39 1 0.00
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (34 bp):
ACTGGATTAAACCACAAGTCAAAAAATAAAAATG
Found at i:13984810 original size:288 final size:287
Alignment explanation
Indices: 13984274--13984847 Score: 649
Period size: 288 Copynumber: 2.0 Consensus size: 287
13984264 GATTAGACCA
*
13984274 CAAGTCAGGAAACCATAAAAATGATCGGGATTGAACCACAAGTCAAAGATTAACGACGACTGAGA
1 CAAGTCAGAAAACCATAAAAATGATCGGGATTGAACCACAAGTCAAAGATTAACGACGACTGAGA
* * * *
13984339 CTGAACCACAAGTCAGAAAATAGAAATGACCGGGATTAAACCGCGAGTCAAGAAACTATAAAAAT
66 CTGAACCACAAATCAAAAAATAGAAATGACCGGGATTAAACCACAAGTCAAGAAACTATAAAAAT
* * * * * * * ** ** * * * *
13984404 GATCGGGGTTGAACCATGAGTTAAAGATTAATGACGATTGAAACTGAATCGCAAGTCAGGAAACA
131 AACCGAGATTAAACAACGAGCCAAAGATTAACAACAATAGAAACTGAATCGCAAATCAGGAAAAA
* * * * * *
13984469 AAGTTACTGAGATTAAACCACAAGTCGAAAACTATAGAAATGACTAGGATTAAACCATAAGCCAA
196 AAATGACTGAGATTAAACCACAAGTCGAAAACAATAAAAATGACGAGGATTAAACCACAAGCC-A
13984534 AAGATTAACAATGACTGGGACTGAACCG
260 AAGATTAACAATGACTGGGACTGAACCG
* * * *
13984562 CAAGTCAGAAAACTATAAAAATGATCGGGATTGAACCACGAGTCAAAGATTAATGACGATTGAGA
1 CAAGTCAGAAAACCATAAAAATGATCGGGATTGAACCACAAGTCAAAGATTAACGACGACTGAGA
* ** * * *
13984627 CTGAATCGTAAATCAAAAAAATA-AAAGTGACTGGGATTAAACCACAAGTCGA-AAACTATAGAA
66 CTGAACCACAAATC-AAAAAATAGAAA-TGACCGGGATTAAACCACAAGTCAAGAAACTATAAAA
* * *
13984690 ATAACCGAGATTAAACAACGAGCCAAATATTAACAATAACTAG-GACTGAATCGCAAATCAGGAA
129 ATAACCGAGATTAAACAACGAGCCAAAGATTAACAACAA-TAGAAACTGAATCGCAAATCAGG-A
13984754 AATAAAAATGACTG-GCATTAAACCACAAGTC-AAAA-AATAAAAATGATCGA-GATTAAACCAC
192 AA-AAAAATGACTGAG-ATTAAACCACAAGTCGAAAACAATAAAAATGA-CGAGGATTAAACCAC
* * *
13984815 GAGCCAAATATTAATAATGACTGGGACTGAACC
254 AAGCCAAAGATTAACAATGACTGGGACTGAACC
13984848 ATAAATCAAA
Statistics
Matches: 237, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
287 26 0.11
288 148 0.62
289 40 0.17
290 23 0.10
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (287 bp):
CAAGTCAGAAAACCATAAAAATGATCGGGATTGAACCACAAGTCAAAGATTAACGACGACTGAGA
CTGAACCACAAATCAAAAAATAGAAATGACCGGGATTAAACCACAAGTCAAGAAACTATAAAAAT
AACCGAGATTAAACAACGAGCCAAAGATTAACAACAATAGAAACTGAATCGCAAATCAGGAAAAA
AAATGACTGAGATTAAACCACAAGTCGAAAACAATAAAAATGACGAGGATTAAACCACAAGCCAA
AGATTAACAATGACTGGGACTGAACCG
Found at i:13986670 original size:63 final size:65
Alignment explanation
Indices: 13986595--13986741 Score: 183
Period size: 63 Copynumber: 2.3 Consensus size: 65
13986585 ATATAATTGG
* * * *
13986595 TAACTTATTAATTAATTATTAAAAACTTAAAAGTAATTAAT-ATAACTTAGTAG-AAA-TCATCG
1 TAACTTAATAATTAATTAGTAAAAACTTAAAAGTAAATAATGATAACTTAGTAGTAAATTAAT-G
13986657 A
65 A
* * *
13986658 TAACTTAATAATTAATTAGTAATAACTTAACAGTAAATCATGGATAACTTAGTAGTAAATTAATG
1 TAACTTAATAATTAATTAGTAAAAACTTAAAAGTAAATAAT-GATAACTTAGTAGTAAATTAATG
13986723 A
65 A
*
13986724 TAACTTAATAATAAATTA
1 TAACTTAATAATTAATTA
13986742 ATGATAATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 35 0.49
65 12 0.17
66 22 0.31
67 3 0.04
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (65 bp):
TAACTTAATAATTAATTAGTAAAAACTTAAAAGTAAATAATGATAACTTAGTAGTAAATTAATGA
Found at i:13986704 original size:22 final size:22
Alignment explanation
Indices: 13986618--13986748 Score: 83
Period size: 22 Copynumber: 6.1 Consensus size: 22
13986608 AATTATTAAA
*
13986618 AACTTAAAAGT-AATTAAT-AT
1 AACTTAACAGTAAATTAATGAT
** *
13986638 AACTTAGTAG-AAA-TCATCGAT
1 AACTTAACAGTAAATTAAT-GAT
* * * * *
13986659 AACTTAATAATTAATTAGTAAT
1 AACTTAACAGTAAATTAATGAT
*
13986681 AACTTAACAGTAAA-TCATGGAT
1 AACTTAACAGTAAATTAAT-GAT
**
13986703 AACTTAGTAGTAAATTAATGAT
1 AACTTAACAGTAAATTAATGAT
* *
13986725 AACTTAATAATAAATTAATGAT
1 AACTTAACAGTAAATTAATGAT
13986747 AA
1 AA
13986749 TTTAGTAGTC
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
19 3 0.04
20 10 0.12
21 12 0.14
22 54 0.64
23 5 0.06
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.34
Consensus pattern (22 bp):
AACTTAACAGTAAATTAATGAT
Found at i:13986771 original size:66 final size:66
Alignment explanation
Indices: 13986595--13986793 Score: 181
Period size: 66 Copynumber: 3.1 Consensus size: 66
13986585 ATATAATTGG
* * * * * * *
13986595 TAACTTATTAATTAATTATTAAAAACTTAAAAGTAATTAAT--ATAACTTAGTAG-AAA-TCATC
1 TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAAT-
13986656 GA
65 GA
* * * *
13986658 TAACTTAATAATTAATTAGTAATAACTTAACAGTAAATCATGGATAACTTAGTAGTAAATTAATG
1 TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAATG
13986723 A
66 A
* * ** * * * * *
13986724 TAACTTAATAATAAATTAATGATAATTTAGTAGTCAATAATTCATAACTTAGTAATAAATCAATA
1 TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAATG
13986789 A
66 A
13986790 TAAC
1 TAAC
13986794 ATGTAGTAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
63 35 0.31
65 12 0.11
66 62 0.55
67 3 0.03
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (66 bp):
TAACTTAATAATAAATTAATAATAACTTAACAGTAAATAATGCATAACTTAGTAGTAAATTAATG
A
Found at i:13986792 original size:22 final size:22
Alignment explanation
Indices: 13986636--13986944 Score: 96
Period size: 22 Copynumber: 14.2 Consensus size: 22
13986626 AGTAATTAAT
* *
13986636 ATAACTTAGT-AGAAATC-ATCG
1 ATAACTTAGTAATAAATCAAT-A
* * * *
13986657 ATAACTTAATAATTAATTAGTA
1 ATAACTTAGTAATAAATCAATA
** * *
13986679 ATAACTTAACAGTAAATC-ATGG
1 ATAACTTAGTAATAAATCAAT-A
* * *
13986701 ATAACTTAGTAGTAAATTAATG
1 ATAACTTAGTAATAAATCAATA
* * *
13986723 ATAACTTAATAATAAATTAATG
1 ATAACTTAGTAATAAATCAATA
* * * *
13986745 ATAATTTAGTAGTCAAT-AATTC
1 ATAACTTAGTAATAAATCAA-TA
13986767 ATAACTTAGTAATAAATCAATA
1 ATAACTTAGTAATAAATCAATA
* * * **
13986789 ATAACAT-GTAGTAATTGTATA
1 ATAACTTAGTAATAAATCAATA
* * * *
13986810 ATAATTTAGTAGTAAATTAATT
1 ATAACTTAGTAATAAATCAATA
* *
13986832 ACAA-TATAGTTATAAATGC-ATA
1 ATAACT-TAGTAATAAAT-CAATA
* * * * *
13986854 ACAACATAATAGTAAATCAATG
1 ATAACTTAGTAATAAATCAATA
*
13986876 ATAACTTATTAA-AAAT-AAGTA
1 ATAACTTAGTAATAAATCAA-TA
* * * * * *
13986897 AAAATTTAGTAGTTAATCATTG
1 ATAACTTAGTAATAAATCAATA
* *
13986919 ATAACTTAATAATAAATGAATA
1 ATAACTTAGTAATAAATCAATA
13986941 ATAA
1 ATAA
13986945 TTTAATAGTA
Statistics
Matches: 207, Mismatches: 67, Indels: 27
0.69 0.22 0.09
Matches are distributed among these distances:
20 2 0.01
21 42 0.20
22 157 0.76
23 6 0.03
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAATAAATCAATA
Found at i:13986921 original size:43 final size:44
Alignment explanation
Indices: 13986860--13986957 Score: 128
Period size: 43 Copynumber: 2.2 Consensus size: 44
13986850 CATAACAACA
*
13986860 TAATAGTAAATCAATGATAACTTATTAA-AAAT-AAGTAAAAATT
1 TAATAGTAAATCAATGATAACTTAATAATAAATGAA-TAAAAATT
* * * *
13986903 TAGTAGTTAATCATTGATAACTTAATAATAAATGAATAATAATT
1 TAATAGTAAATCAATGATAACTTAATAATAAATGAATAAAAATT
13986947 TAATAGTAAAT
1 TAATAGTAAAT
13986958 TAGTGATAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 24 0.52
44 20 0.43
45 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (44 bp):
TAATAGTAAATCAATGATAACTTAATAATAAATGAATAAAAATT
Found at i:13986965 original size:44 final size:44
Alignment explanation
Indices: 13986636--13986957 Score: 192
Period size: 44 Copynumber: 7.4 Consensus size: 44
13986626 AGTAATTAAT
* * * * *
13986636 ATAACTTAGTAG-AAATC-ATCGATAACTTAATAATTAATTAGTA
1 ATAACTTAATAGTAAATCAAT-GATAACTTAGTAATAAATGAATA
* * * *
13986679 ATAACTTAACAGTAAATC-ATGGATAACTTAGTAGTAAATTAATG
1 ATAACTTAATAGTAAATCAAT-GATAACTTAGTAATAAATGAATA
* * * * * *
13986723 ATAACTTAATAATAAATTAATGATAATTTAGTAGTCAAT-AATTC
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAA-TA
* * * * * * *
13986767 ATAACTTAGTAATAAATCAATAATAACAT-GTAGTAATTGTATA
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAATA
* * * * * * *
13986810 ATAATTTAGTAGTAAATTAATTACAA-TATAGTTATAAATGCATA
1 ATAACTTAATAGTAAATCAATGATAACT-TAGTAATAAATGAATA
* * *
13986854 ACAACATAATAGTAAATCAATGATAACTTATTAA-AAAT-AAGTA
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAA-TA
* * * * * *
13986897 AAAATTTAGTAGTTAATCATTGATAACTTAATAATAAATGAATA
1 ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAATA
*
13986941 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
13986958 TAGTGATAGT
Statistics
Matches: 216, Mismatches: 53, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.00
43 75 0.35
44 135 0.62
45 5 0.02
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (44 bp):
ATAACTTAATAGTAAATCAATGATAACTTAGTAATAAATGAATA
Found at i:13986999 original size:22 final size:23
Alignment explanation
Indices: 13986948--13986999 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
13986938 ATAATAATTT
*
13986948 AATAGTAAATTAGTGATAGTTTG
1 AATAGTAAATTAGTGATAGCTTG
* * *
13986971 -ATTGTAAATTAGT-TTTGCTTG
1 AATAGTAAATTAGTGATAGCTTG
13986992 AATAGTAA
1 AATAGTAA
13987000 TTAATTGATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (23 bp):
AATAGTAAATTAGTGATAGCTTG
Found at i:13987039 original size:22 final size:22
Alignment explanation
Indices: 13987023--13987064 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13987013 GTAAATCATA
* *
13987023 AATAATTTAGTGGTAAATAAGT
1 AATAACTTAGTAGTAAATAAGT
13987045 AATAACTTAGTAGTAAATAA
1 AATAACTTAGTAGTAAATAA
13987065 TGGTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.33
Consensus pattern (22 bp):
AATAACTTAGTAGTAAATAAGT
Found at i:13987069 original size:32 final size:32
Alignment explanation
Indices: 13987033--13987097 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13987023 AATAATTTAG
13987033 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
1 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
13987065 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
1 TGGTAAATAAGTAATAACTTAGTAGTAAATAA
13987097 T
1 T
13987098 TAAAAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.32
Consensus pattern (32 bp):
TGGTAAATAAGTAATAACTTAGTAGTAAATAA
Found at i:13987072 original size:54 final size:54
Alignment explanation
Indices: 13987007--13987170 Score: 143
Period size: 54 Copynumber: 3.0 Consensus size: 54
13986997 TAATTAATTG
* * * *
13987007 ATAATAGTAAATCA-TAAATAATTTAGTGGTAAATAAGTAATAACTTAGTAGTAA
1 ATAATAGTAAATAAGT-AATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGTAA
* * * **
13987061 ATAATGGTAAATAAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTG
1 ATAATAGTAAATAAGTAATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGTAA
* * * *
13987115 ATCACT-GAAAATTTAAAAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGT
1 AT-AATAGTAAA--T--AAGTAATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGT
13987171 TGATCATTGA
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
54 49 0.53
55 3 0.03
56 1 0.01
58 40 0.43
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.34
Consensus pattern (54 bp):
ATAATAGTAAATAAGTAATAACTTAGTAGTAAATAAGTAAAAACTTAGTAGTAA
Found at i:13987093 original size:22 final size:22
Alignment explanation
Indices: 13987067--13987112 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13987057 GTAAATAATG
*
13987067 GTAAATAAGTAATAACTTAGTA
1 GTAAATAAGTAAAAACTTAGTA
* *
13987089 GTAAATAATTAAAAATTTAGTA
1 GTAAATAAGTAAAAACTTAGTA
13987111 GT
1 GT
13987113 TGATCACTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (22 bp):
GTAAATAAGTAAAAACTTAGTA
Found at i:13987146 original size:58 final size:58
Alignment explanation
Indices: 13987073--13987194 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
13987063 AATGGTAAAT
13987073 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
1 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
*
13987131 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCATTGAAAATTTAA
1 AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
13987189 AAGTAA
1 AAGTAA
13987195 ATCAATAGCT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.34
Consensus pattern (58 bp):
AAGTAATAACTTAGTAGTAAATAATTAAAAATTTAGTAGTTGATCACTGAAAATTTAA
Done.