Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 92 of 133
Found at i:18057585 original size:10 final size:10
Alignment explanation
Indices: 18057565--18057696 Score: 77
Period size: 12 Copynumber: 12.1 Consensus size: 10
18057555 AATTAGACCG
*
18057565 TATTCTATTA
1 TATTATATTA
* *
18057575 TTTTTTATTA
1 TATTATATTA
18057585 TATTATATTA
1 TATTATATTA
* *
18057595 TATTATAGTG
1 TATTATATTA
*
18057605 TCATTATCATAA
1 T-ATTAT-ATTA
*
18057617 TATTATTAGTA
1 TATTA-TATTA
*
18057628 TACTATA-TA
1 TATTATATTA
18057637 GTATTATATTA
1 -TATTATATTA
18057648 TTATTATTATTA
1 -TATTA-TATTA
18057660 TTATTATTATTA
1 -TATTA-TATTA
18057672 TTATTATTATTA
1 -TATTA-TATTA
18057684 TTATTATTATTA
1 -TATTA-TATTA
18057696 T
1 T
18057697 TATCATTATC
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
9 2 0.02
10 33 0.32
11 23 0.23
12 44 0.43
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (10 bp):
TATTATATTA
Found at i:18057598 original size:15 final size:16
Alignment explanation
Indices: 18057565--18057696 Score: 108
Period size: 18 Copynumber: 8.1 Consensus size: 16
18057555 AATTAGACCG
* *
18057565 TATTCTATTATT-TTT
1 TATTATATTATTATTA
18057580 TATTATATTA-TATTA
1 TATTATATTATTATTA
* * *
18057595 TATTATAGTGTCATTA
1 TATTATATTATTATTA
* *
18057611 TCATAATATTATTAGTA
1 T-ATTATATTATTATTA
* *
18057628 TACTATA-TAGTATTA
1 TATTATATTATTATTA
18057643 TATTATTATTATTATTA
1 TATTA-TATTATTATTA
18057660 TTATTATTATTATTATTA
1 -TATTA-TATTATTATTA
18057678 TTATTATTATTATTATTA
1 -TATTA-TATTATTATTA
18057696 T
1 T
18057697 TATCATTATC
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
14 1 0.01
15 29 0.31
16 11 0.12
17 19 0.20
18 35 0.37
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:18057651 original size:3 final size:3
Alignment explanation
Indices: 18057638--18057730 Score: 125
Period size: 3 Copynumber: 31.3 Consensus size: 3
18057628 TACTATATAG
18057638 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
18057685 TAT TAT TAT TAT TAT CAT TAT CAT CAT TAC TAT TGT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18057731 GTATTTCATT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:18058616 original size:13 final size:13
Alignment explanation
Indices: 18058600--18058652 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 13
18058590 TTCCCTTTTT
18058600 ATTTTATTTTTAA
1 ATTTTATTTTTAA
18058613 ATTTTATTTTTTATA
1 ATTTTA-TTTTTA-A
18058628 ATTTT-TTTCTTAA
1 ATTTTATTT-TTAA
18058641 ATTTATATTTTT
1 ATTT-TATTTTT
18058653 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 14 0.40
14 12 0.34
15 9 0.26
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATTTTTAA
Found at i:18058640 original size:28 final size:29
Alignment explanation
Indices: 18058600--18058665 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
18058590 TTCCCTTTTT
18058600 ATTTTATTTTTAAATTT-TATTTTTTATA
1 ATTTTATTTTTAAATTTATATTTTTTATA
18058628 ATTTT-TTTCTTAAATTTATATTTTTTAT-
1 ATTTTATTT-TTAAATTTATATTTTTTATA
*
18058656 TTTTTATTTT
1 ATTTTATTTT
18058666 ATTTCATTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 3 0.09
28 18 0.53
29 13 0.38
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (29 bp):
ATTTTATTTTTAAATTTATATTTTTTATA
Found at i:18058743 original size:13 final size:13
Alignment explanation
Indices: 18058727--18058759 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18058717 AAAATAATGA
*
18058727 AAAAATAAAAGAT
1 AAAAATAAAAAAT
18058740 AAAAATAAAAAAT
1 AAAAATAAAAAAT
18058753 AAAAATA
1 AAAAATA
18058760 TAATTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:18060006 original size:63 final size:60
Alignment explanation
Indices: 18059938--18060086 Score: 160
Period size: 60 Copynumber: 2.4 Consensus size: 60
18059928 ATAATTAATT
* * * *
18059938 AATTTAATTAAATAAT-TTACAAAATAATAGTAGAATATTATTAGATTAATTACA-TATTATTAA
1 AATTTAATTAAATAATATT--AAAATAATACTA-AAT-TAATTAAAATAATTACATTA-TATTAA
* *
18060001 AATTTAATTAAATAATATTAAGATAATACTAAATTAATTAAAATATTTACATTATATTAA
1 AATTTAATTAAATAATATTAAAATAATACTAAATTAATTAAAATAATTACATTATATTAA
18060061 AA-TTAATTAAATAATACTATAAAATA
1 AATTTAATTAAATAATA-T-TAAAATA
18060087 TTAAATTTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
59 14 0.19
60 22 0.29
61 11 0.15
62 10 0.13
63 16 0.21
64 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (60 bp):
AATTTAATTAAATAATATTAAAATAATACTAAATTAATTAAAATAATTACATTATATTAA
Found at i:18060026 original size:11 final size:10
Alignment explanation
Indices: 18060007--18060318 Score: 72
Period size: 10 Copynumber: 31.6 Consensus size: 10
18059997 TTAAAATTTA
18060007 ATTAAATAAT
1 ATTAAATAAT
18060017 ATTAAGATAAT
1 ATTAA-ATAAT
* *
18060028 ACTAAATTA-
1 ATTAAATAAT
18060037 ATT-AA-AAT
1 ATTAAATAAT
* *
18060045 ATTTACATTAT
1 A-TTAAATAAT
*
18060056 ATTAAA-ATT
1 ATTAAATAAT
18060065 AATTAAATAAT
1 -ATTAAATAAT
*
18060076 ACTATAA-AAT
1 ATTA-AATAAT
*
18060086 ATTAAAT-TT
1 ATTAAATAAT
*
18060095 ATT--TTAAT
1 ATTAAATAAT
* *
18060103 ATGAAATTTAT
1 ATTAAA-TAAT
*
18060114 ATTAAATTA-
1 ATTAAATAAT
*
18060123 AGTAAATAAT
1 ATTAAATAAT
*
18060133 ATTCAAT-AT
1 ATTAAATAAT
*
18060142 GATTAAATTA-
1 -ATTAAATAAT
* *
18060152 ATTAATTGAT
1 ATTAAATAAT
*
18060162 ATTAAAATAAG
1 ATT-AAATAAT
*
18060173 ATTAAA-ATT
1 ATTAAATAAT
*
18060182 ATCTGAATAAT
1 AT-TAAATAAT
** * *
18060193 ATTTATGTTAC
1 A-TTAAATAAT
*
18060204 ATTAAAT-TT
1 ATTAAATAAT
18060213 AATTAAATAAT
1 -ATTAAATAAT
18060224 ATTAAATTAA-
1 ATTAAA-TAAT
*
18060234 ATTAAATTA-
1 ATTAAATAAT
18060243 ATTAAATTAA-
1 ATTAAA-TAAT
*
18060253 ATTCAAATATT
1 ATT-AAATAAT
*
18060264 ATCAAATGAA-
1 ATTAAAT-AAT
*
18060274 A-TAAATATT
1 ATTAAATAAT
18060283 ATT-AA-AAT
1 ATTAAATAAT
18060291 ATT-AATAAATT
1 ATTAAAT-AA-T
18060302 CATTAAATAAT
1 -ATTAAATAAT
18060313 ATTAAA
1 ATTAAA
18060319 ATTATAAGAA
Statistics
Matches: 216, Mismatches: 51, Indels: 70
0.64 0.15 0.21
Matches are distributed among these distances:
7 2 0.01
8 14 0.06
9 45 0.21
10 95 0.44
11 51 0.24
12 6 0.03
13 3 0.01
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (10 bp):
ATTAAATAAT
Found at i:18060038 original size:30 final size:29
Alignment explanation
Indices: 18059986--18060345 Score: 198
Period size: 30 Copynumber: 12.1 Consensus size: 29
18059976 TATTAGATTA
* *
18059986 ATTACATATTATTAAAATTTAATTAAATAAT
1 ATTAAATAATATT-AAA-TTAATTAAATAAT
*
18060017 ATTAAGATAATACTAAATTAATT-AA-AAT
1 ATTAA-ATAATATTAAATTAATTAAATAAT
* *
18060045 ATTTACATTATATTAAAATTAATTAAATAAT
1 A-TTAAATAATATT-AAATTAATTAAATAAT
* * *
18060076 ACTATAA-AATATTAAATTTATT--TTAAT
1 ATTA-AATAATATTAAATTAATTAAATAAT
* * *
18060103 ATGAAATTTATATTAAATTAAGTAAATAAT
1 ATTAAA-TAATATTAAATTAATTAAATAAT
* * *
18060133 ATTCAAT-ATGATTAAATTAATTAATTGAT
1 ATTAAATAAT-ATTAAATTAATTAAATAAT
* *
18060162 ATTAAAATAAGATTAAAATT-ATCTGAATAAT
1 ATT-AAATAATATT-AAATTAAT-TAAATAAT
** * *
18060193 ATTTATGTTACATTAAATTTAATTAAATAAT
1 A-TTAAATAATATTAAA-TTAATTAAATAAT
18060224 ATTAAATTAA-ATTAAATTAATTAAATTAA-
1 ATTAAA-TAATATTAAATTAATTAAA-TAAT
* * * * *
18060253 ATTCAAATATTATCAAATGAAATAAATATT
1 ATT-AAATAATATTAAATTAATTAAATAAT
* * *
18060283 ATTAAAATATTAATAAATTCATTAAATAAT
1 ATT-AAATAATATTAAATTAATTAAATAAT
* ** *
18060313 ATTAAAATTATAAGAAAATTAATTAAATTAT
1 ATT-AAATAAT-ATTAAATTAATTAAATAAT
18060344 AT
1 AT
18060346 GGTAATAAGA
Statistics
Matches: 252, Mismatches: 53, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
26 2 0.01
27 6 0.02
28 24 0.10
29 58 0.23
30 93 0.37
31 59 0.23
32 10 0.04
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
ATTAAATAATATTAAATTAATTAAATAAT
Found at i:18060104 original size:58 final size:58
Alignment explanation
Indices: 18059986--18060133 Score: 151
Period size: 58 Copynumber: 2.5 Consensus size: 58
18059976 TATTAGATTA
*
18059986 ATTACA-TATTATTAAAATTTAATTAAATAATATTAAGATAATACTAAATTAATTAAAAT
1 ATTACATTA-TATTAAAA-TTAATTAAATAATACTAAGATAATACTAAATTAATTAAAAT
* * **
18060045 ATTTACATTATATTAAAATTAATTAAATAATACTATA-A-AATATTAAATTTATTTTAAT
1 A-TTACATTATATTAAAATTAATTAAATAATACTA-AGATAATACTAAATTAATTAAAAT
* * *
18060103 ATGAAATTTATATT-AAATTAAGTAAATAATA
1 ATTACA-TTATATTAAAATTAATTAAATAATA
18060134 TTCAATATGA
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
57 19 0.25
58 24 0.31
59 18 0.23
60 14 0.18
61 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (58 bp):
ATTACATTATATTAAAATTAATTAAATAATACTAAGATAATACTAAATTAATTAAAAT
Found at i:18060109 original size:17 final size:17
Alignment explanation
Indices: 18060083--18060118 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18060073 AATACTATAA
* *
18060083 AATATTAAATTTATTTT
1 AATATGAAATTTATATT
18060100 AATATGAAATTTATATT
1 AATATGAAATTTATATT
18060117 AA
1 AA
18060119 ATTAAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATATGAAATTTATATT
Found at i:18060232 original size:5 final size:5
Alignment explanation
Indices: 18060204--18060260 Score: 73
Period size: 5 Copynumber: 11.4 Consensus size: 5
18060194 TTTATGTTAC
*
18060204 ATTAA ATTTA ATTAA A-TAA TATTAA ATTAA ATTAA ATT-A ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA -ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
18060253 ATTCAA AT
1 ATT-AA AT
18060261 ATTATCAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
4 7 0.15
5 32 0.70
6 7 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATTAA
Found at i:18060245 original size:14 final size:14
Alignment explanation
Indices: 18060204--18060255 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
18060194 TTTATGTTAC
18060204 ATTAAATTTAATTAA
1 ATTAAA-TTAATTAA
18060219 A-TAATATTAAATTAA
1 ATTAA-ATT-AATTAA
18060234 ATTAAATTAATTAA
1 ATTAAATTAATTAA
18060248 ATTAAATT
1 ATTAAATT
18060256 CAAATATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 19 0.56
15 12 0.35
16 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATTAATTAA
Found at i:18060728 original size:11 final size:11
Alignment explanation
Indices: 18060712--18060753 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
18060702 TAATTACATA
18060712 ATATTATTATT
1 ATATTATTATT
18060723 ATATTATTATT
1 ATATTATTATT
* *
18060734 AAATTACTTA-A
1 ATATTA-TTATT
18060745 ATATTATTA
1 ATATTATTA
18060754 AAATAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 21 0.78
12 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTATTATT
Found at i:18060871 original size:21 final size:21
Alignment explanation
Indices: 18060829--18060903 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
18060819 ACCAAAATAA
* *
18060829 TATTAAACTATTATTT-ATAAT
1 TATTAAATTAATATTTCA-AAT
18060850 TATTAAATTAATATTTCAAAT
1 TATTAAATTAATATTTCAAAT
* *
18060871 T-TT-TATTAAT-GTTCAATAT
1 TATTAAATTAATATTTCAA-AT
*
18060890 TATCAAATTAATAT
1 TATTAAATTAATAT
18060904 GTAATTTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 5 0.12
19 9 0.21
20 3 0.07
21 24 0.57
22 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (21 bp):
TATTAAATTAATATTTCAAAT
Found at i:18060916 original size:40 final size:42
Alignment explanation
Indices: 18060848--18060932 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 42
18060838 ATTATTTATA
* *
18060848 ATTATTAAATTAATATTTCAAA-TTTT-TATTAATGTTCAAT
1 ATTATCAAATTAATATGTCAAATTTTTATATTAATGTTCAAT
* *
18060888 ATTATCAAATTAATATGT-AATTTCTTTATATTAATGTTTAAT
1 ATTATCAAATTAATATGTCAAATT-TTTATATTAATGTTCAAT
18060930 ATT
1 ATT
18060933 TTTCAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 2 0.05
40 17 0.45
41 3 0.08
42 16 0.42
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (42 bp):
ATTATCAAATTAATATGTCAAATTTTTATATTAATGTTCAAT
Found at i:18060947 original size:20 final size:20
Alignment explanation
Indices: 18060848--18061071 Score: 91
Period size: 21 Copynumber: 10.7 Consensus size: 20
18060838 ATTATTTATA
18060848 ATTATTAAATTAATATTTCAA-
1 ATTATT-AATTAATATTT-AAT
* * *
18060869 ATT-TTTATTAATGTTCAAT
1 ATTATTAATTAATATTTAAT
* *
18060888 ATTATCAAATTAATATGTAAT
1 ATTAT-TAATTAATATTTAAT
* *
18060909 -TTCTTTATATTAATGTTTAAT
1 ATT-ATTA-ATTAATATTTAAT
*
18060930 ATTTTTCAA-TAATATTTAAT
1 ATTATT-AATTAATATTTAAT
18060950 ATTATTAATTAATATTAATTAAT
1 ATTATTAATTAATA-T--TTAAT
** * *
18060973 AAAATT-ATTAGTATTTACT
1 ATTATTAATTAATATTTAAT
*
18060992 ATCATTAATTTAATA-TTAATT
1 ATTATTAA-TTAATATTTAA-T
* * *
18061013 AATATTTAATCATGATATTAAATT
1 ATTA-TTAAT--TAATATTTAA-T
* *
18061037 GTTATTAATTAATTATTTATT
1 ATTATTAATTAA-TATTTAAT
*
18061058 TTTATTAATTAATA
1 ATTATTAATTAATA
18061072 ATTTCAATAA
Statistics
Matches: 152, Mismatches: 32, Indels: 39
0.68 0.14 0.17
Matches are distributed among these distances:
18 2 0.01
19 21 0.14
20 32 0.21
21 54 0.36
22 18 0.12
23 18 0.12
24 7 0.05
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTATTAATTAATATTTAAT
Found at i:18060966 original size:10 final size:10
Alignment explanation
Indices: 18060939--18061071 Score: 63
Period size: 10 Copynumber: 12.5 Consensus size: 10
18060929 TATTTTTCAA
18060939 TAATATTTAA-
1 TAATA-TTAAT
*
18060949 TATTATTAAT
1 TAATATTAAT
18060959 TAATATTAAT
1 TAATATTAAT
*
18060969 TAATA-AAAT
1 TAATATTAAT
* * *
18060978 TATTAGTATT
1 TAATATTAAT
18060988 TACTATCATTAATT
1 TA--AT-ATTAA-T
18061002 TAATATTAAT
1 TAATATTAAT
18061012 TAATATTTAAT
1 TAATA-TTAAT
*
18061023 CATGATATTAAAT
1 --TAATATT-AAT
**
18061036 TGTTATTAAT
1 TAATATTAAT
*
18061046 TAATTATTTAT
1 TAA-TATTAAT
**
18061057 TTTTATTAAT
1 TAATATTAAT
18061067 TAATA
1 TAATA
18061072 ATTTCAATAA
Statistics
Matches: 93, Mismatches: 19, Indels: 22
0.69 0.14 0.16
Matches are distributed among these distances:
9 11 0.12
10 41 0.44
11 23 0.25
12 5 0.05
13 10 0.11
14 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (10 bp):
TAATATTAAT
Found at i:18062216 original size:28 final size:27
Alignment explanation
Indices: 18062152--18062218 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
18062142 ATGGATGATA
*
18062152 ATATATAA-ATAAATATAAGTGTAATT
1 ATATATAATATAAATATAACTGTAATT
* *
18062178 ATTTTTTAATATAAATTATAACT-TAATT
1 A-TATATAATATAAA-TATAACTGTAATT
18062206 ATATATAAATATA
1 ATATAT-AATATA
18062219 TTTTTTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.03
27 8 0.25
28 17 0.53
29 6 0.19
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATATAATATAAATATAACTGTAATT
Found at i:18062833 original size:18 final size:18
Alignment explanation
Indices: 18062812--18062861 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
18062802 TAAGTTATAT
*
18062812 TTAAAAAATAAAAAAAAC
1 TTAAAAAATAAAAAAAAA
*
18062830 TTAAAAAAAAAAAAAAAA
1 TTAAAAAATAAAAAAAAA
* *
18062848 ATGAAAAATAAAAA
1 TTAAAAAATAAAAA
18062862 CTAAAGAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (18 bp):
TTAAAAAATAAAAAAAAA
Found at i:18062847 original size:19 final size:19
Alignment explanation
Indices: 18062814--18062861 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
18062804 AGTTATATTT
* * *
18062814 AAAAAATAAAAAAAACTTA
1 AAAAAAAAAAAAAAAATGA
18062833 AAAAAAAAAAAAAAAATGA
1 AAAAAAAAAAAAAAAATGA
18062852 AAAATAAAAA
1 AAAA-AAAAA
18062862 CTAAAGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.85, C:0.02, G:0.02, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAATGA
Found at i:18065424 original size:124 final size:126
Alignment explanation
Indices: 18065198--18065448 Score: 425
Period size: 124 Copynumber: 2.0 Consensus size: 126
18065188 ATCAACCAGC
* * *
18065198 TTTTCTGTTCATGAGAATGTATCCACATAAGCTATCATTAAAAATACACACCAAAACAAACATCA
1 TTTTCTGTTCATGAGAATATATCCACATAAGCTATCATTAAAAACACAAACCAAAACAAACATCA
*
18065263 TAAATGGACAGAAATGAGGAACTAGCAATAACTATGATTGTTATAAATAATCATAACTAAT
66 TAAATGGACAGAAATGAGGAACTAGCAAAAACTATGATTGTTATAAATAATCATAACTAAT
* *
18065324 TTTTCTGTTTATGAGAATATATCCACATAAGCTATCATTATAAACACAAACC-AAACAAAC-TCA
1 TTTTCTGTTCATGAGAATATATCCACATAAGCTATCATTAAAAACACAAACCAAAACAAACATCA
*
18065387 TAAATGGATAGAAATGAGGAACTAGCAAAAACTATGATTGTTATAAATAATCATAACTAAT
66 TAAATGGACAGAAATGAGGAACTAGCAAAAACTATGATTGTTATAAATAATCATAACTAAT
18065448 T
1 T
18065449 CAAATCAGCC
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
124 63 0.53
125 8 0.07
126 47 0.40
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (126 bp):
TTTTCTGTTCATGAGAATATATCCACATAAGCTATCATTAAAAACACAAACCAAAACAAACATCA
TAAATGGACAGAAATGAGGAACTAGCAAAAACTATGATTGTTATAAATAATCATAACTAAT
Found at i:18070244 original size:10 final size:9
Alignment explanation
Indices: 18070222--18070285 Score: 65
Period size: 10 Copynumber: 6.4 Consensus size: 9
18070212 TGTTAACATA
18070222 AAAAAATTTT
1 AAAAAA-TTT
*
18070232 AAAAACTTCT
1 AAAAAATT-T
18070242 AAAAAAATTT
1 -AAAAAATTT
18070252 AAAACAATTCT
1 AAAA-AATT-T
18070263 AAAAAATTT
1 AAAAAATTT
18070272 AAAAAAATTT
1 -AAAAAATTT
18070282 AAAA
1 AAAA
18070286 TTTTTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
9 11 0.23
10 24 0.51
11 12 0.26
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAAATTT
Found at i:18070280 original size:20 final size:20
Alignment explanation
Indices: 18070222--18070285 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
18070212 TGTTAACATA
* *
18070222 AAAAAATTTTAAAAACTTCT
1 AAAAAATTTAAAAAAATTCT
*
18070242 AAAAAAATTTAAAACAATTCT
1 -AAAAAATTTAAAAAAATTCT
18070263 AAAAAATTTAAAAAAATT-T
1 AAAAAATTTAAAAAAATTCT
18070282 AAAA
1 AAAA
18070286 TTTTTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.13
20 17 0.44
21 17 0.44
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATTTAAAAAAATTCT
Found at i:18070753 original size:11 final size:10
Alignment explanation
Indices: 18070737--18071027 Score: 130
Period size: 10 Copynumber: 28.6 Consensus size: 10
18070727 ATTCTTTTTG
18070737 AATTTTTTAA
1 AATTTTTTAA
18070747 AATTTTTCTAA
1 AATTTTT-TAA
18070758 AA--TTTTAA
1 AATTTTTTAA
*
18070766 AAATTTTTAA
1 AATTTTTTAA
*
18070776 AACTTTTTTTA
1 AA-TTTTTTAA
*
18070787 AATTACTTTAGA
1 AATT-TTTTA-A
*
18070799 AA-TTTTGAA
1 AATTTTTTAA
* *
18070808 ATTTTTTTAG
1 AATTTTTTAA
*
18070818 AATTTTTAAA
1 AATTTTTTAA
**
18070828 AGATTTTTTGG
1 A-ATTTTTTAA
* *
18070839 ATTTTTTTAT
1 AATTTTTTAA
*
18070849 TATTTTTTAA
1 AATTTTTTAA
* **
18070859 AAATTTTGGA
1 AATTTTTTAA
*
18070869 ATTTTTTTAA
1 AATTTTTTAA
*
18070879 AA-TTTTTAG
1 AATTTTTTAA
*
18070888 TATTTTTT-A
1 AATTTTTTAA
* **
18070897 TATTCTATTTTG
1 AATT-T-TTTAA
18070909 AA-TTTTT-A
1 AATTTTTTAA
*
18070917 ACTTTTTTGAA
1 AATTTTTT-AA
* *
18070928 AGTTTTTAAA
1 AATTTTTTAA
*
18070938 AATTTTTAAA
1 AATTTTTTAA
*
18070948 AATTATTTTAG
1 AATT-TTTTAA
* *
18070959 AATTTTTGAG
1 AATTTTTTAA
*
18070969 ATTTTTTTAA
1 AATTTTTTAA
*
18070979 AATTTTTTAG
1 AATTTTTTAA
18070989 AA-TTTTTAA
1 AATTTTTTAA
*
18070998 ATTTTTCTTTAA
1 A-ATTT-TTTAA
18071010 AATTTTTTCTAA
1 AA-TTTTT-TAA
18071022 AATTTT
1 AATTTT
18071028 CTTTTAATAA
Statistics
Matches: 209, Mismatches: 51, Indels: 41
0.69 0.17 0.14
Matches are distributed among these distances:
8 6 0.03
9 31 0.15
10 103 0.49
11 51 0.24
12 18 0.09
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.58
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:18070843 original size:31 final size:29
Alignment explanation
Indices: 18070747--18070886 Score: 115
Period size: 29 Copynumber: 4.7 Consensus size: 29
18070737 AATTTTTTAA
* **
18070747 AATTTTTCTAAAA-TTTTAAAAATTTTTAA
1 AATTTTTTTAAAATTTTTAAAAA-TTTTGG
* *
18070776 AACTTTTTTT-AAATTACTTTAGAAATTTTGA
1 AA-TTTTTTTAAAATT--TTTAAAAATTTTGG
*
18070807 AATTTTTTTAGAATTTTTAAAAGATTTTTTGG
1 AATTTTTTTAAAATTTTTAAAA-A--TTTTGG
* *
18070839 -ATTTTTTTATTATTTTTTAAAAATTTTGG
1 AATTTTTTTA-AAATTTTTAAAAATTTTGG
18070868 AATTTTTTTAAAATTTTTA
1 AATTTTTTTAAAATTTTTA
18070887 GTATTTTTTA
Statistics
Matches: 91, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
29 24 0.26
30 24 0.26
31 21 0.23
32 22 0.24
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (29 bp):
AATTTTTTTAAAATTTTTAAAAATTTTGG
Found at i:18070865 original size:20 final size:19
Alignment explanation
Indices: 18070842--18070896 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
18070832 TTTTTGGATT
18070842 TTTTTATTATTTTTTAAAAA
1 TTTTTA-TATTTTTTAAAAA
* *
18070862 TTTTGGA-ATTTTTTTAAAA
1 TTTT-TATATTTTTTAAAAA
18070881 TTTTTAGTATTTTTTA
1 TTTTTA-TATTTTTTA
18070897 TATTCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 11 0.39
21 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTATATTTTTTAAAAA
Found at i:18070985 original size:12 final size:12
Alignment explanation
Indices: 18070970--18071034 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 12
18070960 ATTTTTGAGA
18070970 TTTTTTTAAAA-
1 TTTTTTTAAAAT
*
18070981 -TTTTTTAGAA-
1 TTTTTTTAAAAT
18070991 -TT-TTT-AAAT
1 TTTTTTTAAAAT
18071000 TTTTCTTTAAAAT
1 TTTT-TTTAAAAT
*
18071013 TTTTTCTAAAAT
1 TTTTTTTAAAAT
18071025 TTTCTTTTAA
1 TTT-TTTTAA
18071035 TAATGTCGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 2 0.05
9 3 0.07
10 13 0.30
12 13 0.30
13 13 0.30
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (12 bp):
TTTTTTTAAAAT
Found at i:18071704 original size:15 final size:15
Alignment explanation
Indices: 18071684--18071715 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18071674 TTTGATGATT
*
18071684 TATTATCTAAAAATA
1 TATTATATAAAAATA
18071699 TATTATATAAAAATA
1 TATTATATAAAAATA
18071714 TA
1 TA
18071716 ATAATTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTATATAAAAATA
Found at i:18072198 original size:20 final size:19
Alignment explanation
Indices: 18072158--18072199 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18072148 TTTATATATA
*
18072158 TATATATATAATATTATGT
1 TATATATATAACATTATGT
18072177 TATAT-TATAACATATATAGT
1 TATATATATAACAT-TAT-GT
18072197 TAT
1 TAT
18072200 CAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (19 bp):
TATATATATAACATTATGT
Found at i:18072340 original size:12 final size:13
Alignment explanation
Indices: 18072307--18072340 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
18072297 TATTAATTTT
18072307 AAATTATTTATAA
1 AAATTATTTATAA
18072320 AAATATATTT-TAA
1 AAAT-TATTTATAA
18072333 AAATTATT
1 AAATTATT
18072341 AAATTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTATAA
Found at i:18074637 original size:15 final size:16
Alignment explanation
Indices: 18074609--18074638 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18074599 TATATTTAAA
18074609 TTTTTAAATGTTTATT
1 TTTTTAAATGTTTATT
18074625 TTTTTAAAT-TTTAT
1 TTTTTAAATGTTTAT
18074639 ATTAACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTAAATGTTTATT
Found at i:18075306 original size:16 final size:16
Alignment explanation
Indices: 18075285--18075318 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18075275 TCAATAAAGC
18075285 CAAATAAGATAATGGT
1 CAAATAAGATAATGGT
18075301 CAAATAAGATAATGGT
1 CAAATAAGATAATGGT
18075317 CA
1 CA
18075319 TTCTTGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.24
Consensus pattern (16 bp):
CAAATAAGATAATGGT
Found at i:18076068 original size:26 final size:26
Alignment explanation
Indices: 18076032--18076122 Score: 91
Period size: 26 Copynumber: 3.5 Consensus size: 26
18076022 ATTTTACTTA
18076032 TAAATAATATTATATTA-ATGAATAAT
1 TAAATAATATTATATTATAT-AATAAT
* *
18076058 TAAATAATATTATAATATATTATTAA-
1 TAAATAATATTATATTATA-TAATAAT
18076084 TAAATAATA-TACTATTATATAATATAT
1 TAAATAATATTA-TATTATATAATA-AT
*
18076111 T-AATAAAATTAT
1 TAAATAATATTAT
18076123 TAATAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
25 6 0.11
26 39 0.72
27 8 0.15
28 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAATAATATTATATTATATAATAAT
Found at i:18076082 original size:34 final size:34
Alignment explanation
Indices: 18076035--18076156 Score: 110
Period size: 34 Copynumber: 3.6 Consensus size: 34
18076025 TTACTTATAA
18076035 ATAATAT-TATATTAATGAATAATTA-AATAATATT
1 ATAATATAT-TATTAAT-AATAATTATAATAATATT
* *
18076069 ATAATATATTATTAATAAATAA-TATACTATTA-T
1 ATAATATATTATTAAT-AATAATTATAATAATATT
* * *
18076102 ATAATATATTAATAA-AATTATTAATAAAAATATT
1 ATAATATATTATTAATAATAATT-ATAATAATATT
*
18076136 ATAATATATTAATAAATAATA
1 ATAATATATT-ATTAATAATA
18076157 TAAAGAAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
31 4 0.06
32 1 0.01
33 23 0.33
34 35 0.50
35 4 0.06
36 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.43
Consensus pattern (34 bp):
ATAATATATTATTAATAATAATTATAATAATATT
Found at i:18076105 original size:15 final size:16
Alignment explanation
Indices: 18076068--18076109 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
18076058 TAAATAATAT
*
18076068 TATAATATATTATTAA
1 TATAATATACTATTAA
18076084 TAAATAATATACTATT-A
1 T--ATAATATACTATTAA
18076101 TATAATATA
1 TATAATATA
18076110 TTAATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 8 0.35
16 1 0.04
17 2 0.09
18 12 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATATACTATTAA
Found at i:18076305 original size:16 final size:16
Alignment explanation
Indices: 18076208--18076313 Score: 55
Period size: 15 Copynumber: 6.7 Consensus size: 16
18076198 TTAACATAAT
18076208 ATTTTAATATTAAATA
1 ATTTTAATATTAAATA
* *
18076224 TTATTATTAAGATATAACTA
1 --ATT-TTAATAT-TAAATA
*
18076244 TTTTTTAATATT-AATA
1 -ATTTTAATATTAAATA
* *
18076260 ATTTAAATAATAAATA
1 ATTTTAATATTAAATA
*
18076276 A-TTTCA-ATT---T-
1 ATTTTAATATTAAATA
18076286 ATTTTAATATTAAATA
1 ATTTTAATATTAAATA
18076302 ATTTTTAATATT
1 A-TTTTAATATT
18076314 TTAATAGTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
10 1 0.02
11 5 0.08
12 3 0.05
14 2 0.03
15 12 0.18
16 9 0.14
17 11 0.17
18 9 0.14
19 9 0.14
20 5 0.08
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (16 bp):
ATTTTAATATTAAATA
Found at i:18076319 original size:25 final size:24
Alignment explanation
Indices: 18076249--18076319 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
18076239 AACTATTTTT
* *
18076249 TAATATTAATAATTTAAATAATAAA
1 TAATTTTAAT-ATTTTAATAATAAA
* *
18076274 TAATTTCAATTTATTTTAATATTAAA
1 TAATTTTAA--TATTTTAATAATAAA
18076300 TAATTTTTAATATTTTAATA
1 TAA-TTTTAATATTTTAATA
18076320 GTTATATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 17 0.45
26 15 0.39
27 6 0.16
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATTTTAATATTTTAATAATAAA
Found at i:18079472 original size:29 final size:29
Alignment explanation
Indices: 18079426--18079510 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
18079416 AGCATTTACC
* *
18079426 TCATTTATATGTACATCATGAAAAAAGCA
1 TCATTCATATGTGCATCATGAAAAAAGCA
*
18079455 TCATTCATATGTGTATCATG-AAAAAG-A
1 TCATTCATATGTGCATCATGAAAAAAGCA
* * *
18079482 -CACTCACATGTGCATCATGAAAAAGGCA
1 TCATTCATATGTGCATCATGAAAAAAGCA
18079510 T
1 T
18079511 TCACATGTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
26 16 0.35
27 6 0.13
28 7 0.15
29 17 0.37
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (29 bp):
TCATTCATATGTGCATCATGAAAAAAGCA
Found at i:18079499 original size:26 final size:26
Alignment explanation
Indices: 18079434--18079520 Score: 102
Period size: 26 Copynumber: 3.2 Consensus size: 26
18079424 CCTCATTTAT
* *
18079434 ATGTACATCATGAAAAAAGCATCATTCAT
1 ATGTGCATCATG-AAAAAG-A-CATTCAC
* *
18079463 ATGTGTATCATGAAAAAGACACTCAC
1 ATGTGCATCATGAAAAAGACATTCAC
*
18079489 ATGTGCATCATGAAAAAGGCATTCAC
1 ATGTGCATCATGAAAAAGACATTCAC
18079515 ATGTGC
1 ATGTGC
18079521 GTCTATATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 34 0.67
27 1 0.02
28 6 0.12
29 10 0.20
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (26 bp):
ATGTGCATCATGAAAAAGACATTCAC
Found at i:18079639 original size:105 final size:105
Alignment explanation
Indices: 18079497--18079699 Score: 298
Period size: 105 Copynumber: 1.9 Consensus size: 105
18079487 ACATGTGCAT
* * *
18079497 CATGAAAAAGGCATTCACATGTGCGTCTATATCACAAGAAAAACATTCACATTTAAATCACTTGT
1 CATGAAAAAGGCATTCACATGTGCATCTACATCACAAGAAAAAAATTCACATTTAAATCACTTGT
*
18079562 ATGTGCATTGTCAGAAAGACATTTGATTTGTATGAGATAA
66 ATGTGCATTGTCAGAAAGACATTTGATCTGTATGAGATAA
* * * *
18079602 CATGAAAAAGGCATTCACATTTGCATCTGCATCACAAGAAAAAAATTCGCATTTAAATCATTTGT
1 CATGAAAAAGGCATTCACATGTGCATCTACATCACAAGAAAAAAATTCACATTTAAATCACTTGT
* * * *
18079667 ATGTTCATTGTTAGGAAGATATTTGATCTGTAT
66 ATGTGCATTGTCAGAAAGACATTTGATCTGTAT
18079700 AAGACAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 86 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (105 bp):
CATGAAAAAGGCATTCACATGTGCATCTACATCACAAGAAAAAAATTCACATTTAAATCACTTGT
ATGTGCATTGTCAGAAAGACATTTGATCTGTATGAGATAA
Found at i:18079715 original size:105 final size:106
Alignment explanation
Indices: 18079501--18079733 Score: 281
Period size: 105 Copynumber: 2.2 Consensus size: 106
18079491 GTGCATCATG
* * * *
18079501 AAAAAGGCATTCACATGTGCGTCTATATCACAAGAAAAACATTCACATTTAAATCACTTGTATGT
1 AAAAAGGCATTCACATTTGCATCTACATCACAAGAAAAAAATTCACATTTAAATCACTTGTATGT
* * * * **
18079566 GCATTGTCAGAAAGACATTTGATTTGTATGAGA-TAACATG
66 GCATTGTCAGAAAGACATTTGATCTGTATAAGACAAAAACA
* * *
18079606 AAAAAGGCATTCACATTTGCATCTGCATCACAAGAAAAAAATTCGCATTTAAATCATTTGTATGT
1 AAAAAGGCATTCACATTTGCATCTACATCACAAGAAAAAAATTCACATTTAAATCACTTGTATGT
* * * *
18079671 TCATTGTTAGGAAGATATTTGATCTGTATAAGACAAAAACA
66 GCATTGTCAGAAAGACATTTGATCTGTATAAGACAAAAACA
* *
18079712 AAAAAGTC-TTCATATTTGCATC
1 AAAAAGGCATTCACATTTGCATC
18079734 ACTTGCAGTC
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
105 98 0.91
106 10 0.09
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (106 bp):
AAAAAGGCATTCACATTTGCATCTACATCACAAGAAAAAAATTCACATTTAAATCACTTGTATGT
GCATTGTCAGAAAGACATTTGATCTGTATAAGACAAAAACA
Found at i:18080151 original size:22 final size:22
Alignment explanation
Indices: 18080126--18080167 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18080116 TAAAAGTTTT
*
18080126 CTGGGCATAATTTCAAAGACCA
1 CTGGGCATAATCTCAAAGACCA
*
18080148 CTGGGCATAATCTCTAAGAC
1 CTGGGCATAATCTCAAAGAC
18080168 TGCGGGCAAA
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:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (22 bp):
CTGGGCATAATCTCAAAGACCA
Found at i:18080283 original size:22 final size:22
Alignment explanation
Indices: 18080244--18080338 Score: 100
Period size: 22 Copynumber: 4.3 Consensus size: 22
18080234 TGAGATCTTT
* *
18080244 AAGACCTTCGAGCGTAATTTTC
1 AAGACCTTCGGGCATAATTTTC
* *
18080266 AAGGCCTTCGGGCATAATTTCTA
1 AAGACCTTCGGGCATAATTT-TC
** *
18080289 AAGATTTTTGGGCATAATTTTC
1 AAGACCTTCGGGCATAATTTTC
* *
18080311 AAGACCTTTGGGTATAATTTTC
1 AAGACCTTCGGGCATAATTTTC
18080333 AAGACC
1 AAGACC
18080339 CCTTAGCAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 43 0.72
23 17 0.28
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (22 bp):
AAGACCTTCGGGCATAATTTTC
Found at i:18080330 original size:192 final size:192
Alignment explanation
Indices: 18079979--18080338 Score: 420
Period size: 192 Copynumber: 1.9 Consensus size: 192
18079969 CTATACTAAA
* * *
18079979 GGGCAAAGCATTTTAAATTTTCAAAGTTTTAATGCTTCTAATACGAGGAACATTCAAAGATTCTA
1 GGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATACGAGGAACATTCAAAGATTCTA
* * *
18080044 AGATATTTTAGACCTCTAGGCGTAATTTTCAAAACCTTCGAGCATAATTTCTAAAGATCTCAATG
66 AGATATTTAAGACCTCGAGGCGTAATTTTCAAAACCTTCGAGCATAATTTCTAAAGATCTCAAGG
**
18080109 AATAATTTAAAAGTTTTCTGGGCATAA-TTTCAAAGACCACTGGGCATAATCTCTAAGACTGC
131 AATAATTTAAAAGCCTTCTGGGCATAATTTTC-AAGACCACTGGGCATAATCTCTAAGACTGC
* * * * * * * *
18080171 GGGCAAAATATTTTAAATTTTTAAAGTTTCAATGCCTCTAATATGATGAGCATTTAAAGATTTTG
1 GGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATACGAGGAACATTCAAAGATTCTA
* ** * * ***
18080236 AGATCTTTAAGACCTTCGA-GCGTAATTTTCAAGGCCTTCGGGCATAATTTCTAAAGATTTTTGG
66 AGATATTTAAGACC-TCGAGGCGTAATTTTCAAAACCTTCGAGCATAATTTCTAAAGATCTCAAG
* ** *
18080300 GCATAATTTTCAAGACCTT-TGGGTATAATTTTCAAGACC
130 GAATAATTTAAAAG-CCTTCTGGGCATAATTTTCAAGACC
18080339 CCTTAGCAAA
Statistics
Matches: 137, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
192 128 0.93
193 9 0.07
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (192 bp):
GGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATACGAGGAACATTCAAAGATTCTA
AGATATTTAAGACCTCGAGGCGTAATTTTCAAAACCTTCGAGCATAATTTCTAAAGATCTCAAGG
AATAATTTAAAAGCCTTCTGGGCATAATTTTCAAGACCACTGGGCATAATCTCTAAGACTGC
Found at i:18080464 original size:22 final size:23
Alignment explanation
Indices: 18080439--18080487 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
18080429 AATTTTAAAG
18080439 ACCTCTAGA-CATAATCTCCAAA
1 ACCTCTAGAGCATAATCTCCAAA
* *
18080461 ACCT-TCGAGCATAATCTCTAAA
1 ACCTCTAGAGCATAATCTCCAAA
18080483 ACCTC
1 ACCTC
18080488 AAAGCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.37, C:0.33, G:0.06, T:0.24
Consensus pattern (23 bp):
ACCTCTAGAGCATAATCTCCAAA
Found at i:18080806 original size:16 final size:16
Alignment explanation
Indices: 18080781--18080823 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
18080771 AAAAAAAGGC
*
18080781 AAAACAAAAACATAAA
1 AAAAAAAAAACATAAA
* *
18080797 AAAAAAAAAAAATGAA
1 AAAAAAAAAACATAAA
*
18080813 AGAAAAAAAAC
1 AAAAAAAAAAC
18080824 TTTTGACTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.84, C:0.07, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAAAAACATAAA
Found at i:18083252 original size:21 final size:21
Alignment explanation
Indices: 18083228--18083267 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18083218 TTAAAAACCA
* *
18083228 AAAACTCTAACATCAAACTTT
1 AAAACCCTAAAATCAAACTTT
18083249 AAAACCCTAAAATCAAACT
1 AAAACCCTAAAATCAAACT
18083268 CCAAAATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAACCCTAAAATCAAACTTT
Found at i:18083273 original size:21 final size:21
Alignment explanation
Indices: 18083228--18083273 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
18083218 TTAAAAACCA
* * **
18083228 AAAACTCTAACATCAAACTTT
1 AAAACCCTAAAATCAAACTCC
18083249 AAAACCCTAAAATCAAACTCC
1 AAAACCCTAAAATCAAACTCC
18083270 AAAA
1 AAAA
18083274 TCTTAAACCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAACCCTAAAATCAAACTCC
Found at i:18083288 original size:15 final size:15
Alignment explanation
Indices: 18083248--18083302 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
18083238 CATCAAACTT
18083248 TAAAACCCTAAAATC
1 TAAAACCCTAAAATC
18083263 --AAACTCC-AAAATC
1 TAAAAC-CCTAAAATC
* *
18083276 TTAAACCTTAAAATC
1 TAAAACCCTAAAATC
18083291 TAAAACCCTAAA
1 TAAAACCCTAAA
18083303 CCTTGAAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 10 0.30
14 3 0.09
15 20 0.61
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAAACCCTAAAATC
Found at i:18083381 original size:18 final size:17
Alignment explanation
Indices: 18083332--18083381 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
18083322 ATATTCATCA
*
18083332 AAACCCTAAATCTAACCT
1 AAACCCTAAATC-AACAT
18083350 AAACCCTAAAATCAACAT
1 AAACCCT-AAATCAACAT
*
18083368 GCAACCCTAAATCA
1 -AAACCCTAAATCA
18083382 TCACCAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (17 bp):
AAACCCTAAATCAACAT
Found at i:18088664 original size:40 final size:40
Alignment explanation
Indices: 18088580--18088665 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 40
18088570 TTTCTTAGAT
* * * * *
18088580 TTTAAATTTAAAGTTTTATTGCCTCTGATCAGATGAGCCT
1 TTTAAATTAAAAGTTTCATTGCCTCTGATCAAAGGAGCCA
18088620 TTTAAATTCAAAAGTTTCATTGCCTCT-AGTCAAAGGAG-CA
1 TTTAAATT-AAAAGTTTCATTGCCTCTGA-TCAAAGGAGCCA
18088660 TTTAAA
1 TTTAAA
18088666 GTTTCATTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 16 0.41
41 23 0.59
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (40 bp):
TTTAAATTAAAAGTTTCATTGCCTCTGATCAAAGGAGCCA
Found at i:18088774 original size:41 final size:41
Alignment explanation
Indices: 18088662--18088801 Score: 169
Period size: 41 Copynumber: 3.4 Consensus size: 41
18088652 AAGGAGCATT
* *
18088662 TAAAGTTTCATTACCTTTGGTCAGAA-AAGCCTTTTAAATT-
1 TAAAATTTCATTGCCTTTGGTCA-AAGAAGCCTTTTAAATTC
* * * *
18088702 TAATATTTTATAGCCTTTGG-CTAAAGTAGCCTTTTAAATTC
1 TAAAATTTCATTGCCTTTGGTC-AAAGAAGCCTTTTAAATTC
*
18088743 TAAAATTTCATTGCCTTTGGTCAAAGAAGCCTTATAAATTC
1 TAAAATTTCATTGCCTTTGGTCAAAGAAGCCTTTTAAATTC
*
18088784 TAAAGTTTCATTGCCTTT
1 TAAAATTTCATTGCCTTT
18088802 AGTTAGATGA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
39 3 0.04
40 29 0.35
41 51 0.61
42 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (41 bp):
TAAAATTTCATTGCCTTTGGTCAAAGAAGCCTTTTAAATTC
Found at i:18088815 original size:41 final size:41
Alignment explanation
Indices: 18088662--18088835 Score: 151
Period size: 41 Copynumber: 4.2 Consensus size: 41
18088652 AAGGAGCATT
* *
18088662 TAAAGTTTCATTACCTTTGGTCAGAA-AAGCCTTTTAAATT-
1 TAAAGTTTCATTGCCTTTAGTCA-AAGAAGCCTTTTAAATTC
* * * *
18088702 TAATA-TTTTATAGCCTTT-GGCTAAAGTAGCCTTTTAAATTC
1 TAA-AGTTTCATTGCCTTTAGTC-AAAGAAGCCTTTTAAATTC
* * *
18088743 TAAAATTTCATTGCCTTTGGTCAAAGAAGCCTTATAAATTC
1 TAAAGTTTCATTGCCTTTAGTCAAAGAAGCCTTTTAAATTC
* * * *
18088784 TAAAGTTTCATTGCCTTTAGTTAGATG-AGCCTTTTGAATTTT
1 TAAAGTTTCATTGCCTTTAGTCA-AAGAAGCCTTTT-AAATTC
18088826 TAAAGTTTCA
1 TAAAGTTTCA
18088836 AAACCTCTGT
Statistics
Matches: 109, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 28 0.26
41 59 0.54
42 18 0.17
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (41 bp):
TAAAGTTTCATTGCCTTTAGTCAAAGAAGCCTTTTAAATTC
Found at i:18088906 original size:42 final size:43
Alignment explanation
Indices: 18088854--18088947 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
18088844 GTTAAAAGAA
* * * **
18088854 CCTTTTAAATTTTCAAAAATTATATAGCCTCTGTTTAGAGGAG
1 CCTTTCAAATTTTCAAAAATTATAGAGCATCTACTTAGAGGAG
* * *
18088897 -CTTTCAAATTTTTAAAAGTTATCGAGCATCTACTTAGAGGAG
1 CCTTTCAAATTTTCAAAAATTATAGAGCATCTACTTAGAGGAG
18088939 CCTTTCAAA
1 CCTTTCAAA
18088948 AAAAAAAGAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 34 0.81
43 8 0.19
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (43 bp):
CCTTTCAAATTTTCAAAAATTATAGAGCATCTACTTAGAGGAG
Found at i:18089451 original size:19 final size:18
Alignment explanation
Indices: 18089429--18089482 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
18089419 AAAAAAAAAA
18089429 AAAAACCAAAAAAAATTCC
1 AAAAA-CAAAAAAAATTCC
*
18089448 AAAAACAAAAAAAATTTC
1 AAAAACAAAAAAAATTCC
*
18089466 AAAAATAAAAAAAATTC
1 AAAAACAAAAAAAATTC
18089483 TCGATCTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 27 0.84
19 5 0.16
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAACAAAAAAAATTCC
Found at i:18090933 original size:17 final size:17
Alignment explanation
Indices: 18090908--18090955 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
18090898 TAGGATTTTT
* *
18090908 AAGACTTTGGATTTTAA
1 AAGATTTTGAATTTTAA
*
18090925 AAGATTTTGAATTTTAG
1 AAGATTTTGAATTTTAA
*
18090942 GAGATTTTGAATTT
1 AAGATTTTGAATTT
18090956 CTAGGGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (17 bp):
AAGATTTTGAATTTTAA
Found at i:18090966 original size:17 final size:17
Alignment explanation
Indices: 18090926--18090960 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
18090916 GGATTTTAAA
18090926 AGATTTTGAATTTTAGG
1 AGATTTTGAATTTTAGG
18090943 AGATTTTGAATTTCTAGG
1 AGATTTTGAATTT-TAGG
18090961 GGTTTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.46
Consensus pattern (17 bp):
AGATTTTGAATTTTAGG
Found at i:18091351 original size:22 final size:23
Alignment explanation
Indices: 18091311--18091354 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
18091301 TTATTATTAT
*
18091311 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
18091334 TAATAA-ATTTAAACATTTATC
1 TAATAACAATTAAACATTTATC
18091355 ATGCATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:18092977 original size:34 final size:33
Alignment explanation
Indices: 18092907--18092979 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
18092897 TAACAACAAT
* *
18092907 AATCGAGATTAAAAAGATCGGGATTGAACCGCG
1 AATCGAGAATAAAAAGATCGGGATTAAACCGCG
* * *
18092940 AATCAGAGAATAAAAAGATTGGGATTAAATCGTG
1 AATC-GAGAATAAAAAGATCGGGATTAAACCGCG
18092974 AATCGA
1 AATCGA
18092980 AAGATAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 6 0.18
34 28 0.82
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.21
Consensus pattern (33 bp):
AATCGAGAATAAAAAGATCGGGATTAAACCGCG
Found at i:18092987 original size:87 final size:87
Alignment explanation
Indices: 18092835--18093006 Score: 229
Period size: 87 Copynumber: 2.0 Consensus size: 87
18092825 AAATATTAAG
* * *
18092835 GATCAGGATTAAACCACGAATTAAAGAATAAAAAGATCGTGATTAAATCGTAAATCAGGAAATAA
1 GATCAGGATTAAACCACGAATCAAAGAATAAAAAGATCGGGATTAAATCGTAAATCAGAAAATAA
*
18092900 CAACAATAATCGAGATTAAAAA
66 CAACAACAATCGAGATTAAAAA
* * * * * *
18092922 GATCGGGATTGAACCGCGAATCAGAGAATAAAAAGATTGGGATTAAATCGTGAATC-GAAAGATA
1 GATCAGGATTAAACCACGAATCAAAGAATAAAAAGATCGGGATTAAATCGTAAATCAGAAA-ATA
*
18092986 ACAATAACAATCGAGATTAAA
65 ACAACAACAATCGAGATTAAA
18093007 TTACGATTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 3 0.04
87 70 0.96
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (87 bp):
GATCAGGATTAAACCACGAATCAAAGAATAAAAAGATCGGGATTAAATCGTAAATCAGAAAATAA
CAACAACAATCGAGATTAAAAA
Found at i:18093038 original size:105 final size:105
Alignment explanation
Indices: 18092914--18093405 Score: 727
Period size: 105 Copynumber: 4.7 Consensus size: 105
18092904 AATAATCGAG
* * * *
18092914 ATTAAAAAGATCGGGATTGAACCGCGAATCAGAGAATAAAAAGATTGGGATTAAATCGTGAATC-
1 ATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCGTGAATCA
* *
18092978 GAAAGATAACAATAACAATCGAGATTAAATTACGATTTTAA
66 G-AAGATAACAATAACAATCGAGATTAAACTATGATTTTAA
* * * * * *
18093019 ATTAAAGAGATCGGGATTGAATCGCGAATCAGAGAAT-AAAAGATTGGGATTAAACCATGAATCA
1 ATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCGTGAATCA
* *
18093083 GAAGATAACAATAACAATCGAGATTAAACTGTAATTTTAA
66 GAAGATAACAATAACAATCGAGATTAAACTATGATTTTAA
* **
18093123 ATTAAAGAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCACGAATCA
1 ATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCGTGAATCA
* * * *
18093188 GAAGATAACAATAATAATCAAGATTAAACTATGACTTTGA
66 GAAGATAACAATAACAATCGAGATTAAACTATGATTTTAA
* * * *
18093228 ATTAAAGAGATCGAGATTGAATCGTGAATCAGAGAATAAAAAGATAGAGATTAAATCGCGAATCA
1 ATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCGTGAATCA
*
18093293 GAAGATAACAATAACAATCGAGATTAAACTGTGATTTTAA
66 GAAGATAACAATAACAATCGAGATTAAACTATGATTTTAA
18093333 ATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCGTGAATCA
1 ATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCGTGAATCA
18093398 GAAGATAA
66 GAAGATAA
18093406 AAAGATCGAG
Statistics
Matches: 352, Mismatches: 33, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
104 93 0.26
105 259 0.74
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.23
Consensus pattern (105 bp):
ATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAATCGTGAATCA
GAAGATAACAATAACAATCGAGATTAAACTATGATTTTAA
Found at i:18093378 original size:139 final size:139
Alignment explanation
Indices: 18093230--18093544 Score: 524
Period size: 139 Copynumber: 2.3 Consensus size: 139
18093220 GACTTTGAAT
* * *
18093230 TAAAGAGATCGAGATTGAATCGTGAATCAG-AGAATAAAAAGATAGAGATTAAATCGCGAATCAG
1 TAAAAAGATCGAGATTAAATCGTGAATCAGAAG-ATAAAAAGATAGAGATTAAATCGCGAATCAA
* * *
18093294 AAGATAACAATAACAATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCGGGATTGAACCGTG
65 AAGATAACAATAACAATCAAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAACCGCG
18093359 AATCAGAGAA
130 AATCAGAGAA
* *
18093369 TAAAAAGATCGAGATTAAATCGTGAATCAGAAGATAAAAAGATCGAGATTAAATCGTGAATCAAA
1 TAAAAAGATCGAGATTAAATCGTGAATCAGAAGATAAAAAGATAGAGATTAAATCGCGAATCAAA
*
18093434 AGATAACAATAACAATCAAGATTAAATTATGATTTTAAATTAAAGAGATCGGGATTGAACCGCGA
66 AGATAACAATAACAATCAAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAACCGCGA
18093499 ATCAGAGAA
131 ATCAGAGAA
*
18093508 TAAAAAGATCGAGATTAAATCGCGAATCAGAAGATAA
1 TAAAAAGATCGAGATTAAATCGTGAATCAGAAGATAA
18093545 CAACAATAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
139 163 0.99
140 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.22
Consensus pattern (139 bp):
TAAAAAGATCGAGATTAAATCGTGAATCAGAAGATAAAAAGATAGAGATTAAATCGCGAATCAAA
AGATAACAATAACAATCAAGATTAAACTATGATTTTAAATTAAAGAGATCGGGATTGAACCGCGA
ATCAGAGAA
Found at i:18093412 original size:244 final size:244
Alignment explanation
Indices: 18093125--18093650 Score: 820
Period size: 244 Copynumber: 2.2 Consensus size: 244
18093115 AATTTTAAAT
* * * *
18093125 TAAAGAGATCGAGATTGAACCGTGAATCAG-AGAATAAAAAGATCGAGATTAAATCACGAATCAG
1 TAAAAAGATCGAGATTAAATCGTGAATCAGAAG-ATAAAAAGATCGAGATTAAATCACGAATCAA
* * * *
18093189 AAGATAACAATAATAATCAAGATTAAACTATGACTTTGAATTAAAGAGATCGAGATTGAATCGTG
65 AAGATAACAATAACAATCAAGATTAAACTATGACTTTAAATTAAAGAGATCGAGATTGAACCGCG
*
18093254 AATCAGAGAATAAAAAGATAGAGATTAAATCGCGAATCAGAAGATAACAATAACAATCGAGATTA
130 AATCAGAGAATAAAAAGATAGAGATTAAATCGCGAATCAGAAGATAACAACAACAATCGAGATTA
* * **
18093319 AACTGTGATTTTAAATTAAAGAGATCGGGATTGAACCGTGAATCAGAGAA
195 AACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCACGAATCAGAGAA
**
18093369 TAAAAAGATCGAGATTAAATCGTGAATCAGAAGATAAAAAGATCGAGATTAAATCGTGAATCAAA
1 TAAAAAGATCGAGATTAAATCGTGAATCAGAAGATAAAAAGATCGAGATTAAATCACGAATCAAA
* * *
18093434 AGATAACAATAACAATCAAGATTAAATTATGATTTTAAATTAAAGAGATCGGGATTGAACCGCGA
66 AGATAACAATAACAATCAAGATTAAACTATGACTTTAAATTAAAGAGATCGAGATTGAACCGCGA
* *
18093499 ATCAGAGAATAAAAAGATCGAGATTAAATCGCGAATCAGAAGATAACAACAATAATCGAGATTAA
131 ATCAGAGAATAAAAAGATAGAGATTAAATCGCGAATCAGAAGATAACAACAACAATCGAGATTAA
* *
18093564 ACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCACGAATCATAGAA
196 ACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCACGAATCAGAGAA
*
18093613 TAAAAAGATCGGGATTGAAATCGTGAATCAGAAGATAA
1 TAAAAAGATCGAGATT-AAATCGTGAATCAGAAGATAA
18093651 CAACAATAAT
Statistics
Matches: 257, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
244 234 0.91
245 23 0.09
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (244 bp):
TAAAAAGATCGAGATTAAATCGTGAATCAGAAGATAAAAAGATCGAGATTAAATCACGAATCAAA
AGATAACAATAACAATCAAGATTAAACTATGACTTTAAATTAAAGAGATCGAGATTGAACCGCGA
ATCAGAGAATAAAAAGATAGAGATTAAATCGCGAATCAGAAGATAACAACAACAATCGAGATTAA
ACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCACGAATCAGAGAA
Found at i:18093483 original size:105 final size:105
Alignment explanation
Indices: 18093369--18094069 Score: 971
Period size: 105 Copynumber: 6.7 Consensus size: 105
18093359 AATCAGAGAA
* * * * *
18093369 TAAAAAGATCGAGATTAAATCGTGAATCAGA-AGATAAAAAGATCGAGATTAAATCGTGAATCAA
1 TAAAGAGATCGAGATTGAACCGTGAATCAGAGA-ATAAAAAGATCGAGATTAAACCGTGAATCAG
* * * * *
18093433 AAGATAACAATAACAATCAAGATTAAATTATGATTTTAAAT
65 AAGATAACAACAATAATCGAGATTAAACTATGACTTTAAAT
* * * *
18093474 TAAAGAGATCGGGATTGAACCGCGAATCAGAGAATAAAAAGATCGAGATTAAATCGCGAATCAGA
1 TAAAGAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATCAGA
* *
18093539 AGATAACAACAATAATCGAGATTAAACTGTGACTTTGAAT
66 AGATAACAACAATAATCGAGATTAAACTATGACTTTAAAT
** * * *
18093579 TAAAGAGATCGAGATTGAACCACGAATCATAGAATAAAAAGATCGGGATTGAAATCGTGAATCAG
1 TAAAGAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATT-AAACCGTGAATCAG
* *
18093644 AAGATAACAACAATAATCGAGATTAAACTGTGACTTTGAAT
65 AAGATAACAACAATAATCGAGATTAAACTATGACTTTAAAT
*
18093685 TAAAGAGATCAAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATCAGA
1 TAAAGAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATCAGA
* * * *
18093750 AGATAACAATAACAATCGAGATTAAATTATGATTTTAAAT
66 AGATAACAACAATAATCGAGATTAAACTATGACTTTAAAT
* * *
18093790 TAAAGAGATC-AGGATTGAACTGTGAATCAGAGAATAAAAAGATCGAGATTACACCATGAATCAG
1 TAAAGAGATCGA-GATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATCAG
*
18093854 AAGATAACAACAATAATCGAGATTAAACTGTGACTTTAAAT
65 AAGATAACAACAATAATCGAGATTAAACTATGACTTTAAAT
* *
18093895 TAAAGAGATCGAGATTGAACCGCGAATCAGAGAATAAAAAGATC-AGGATTAAACTGTGAATCAG
1 TAAAGAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGA-GATTAAACCGTGAATCAG
*
18093959 AAGATAACAACAATAATCGAGATTAAACTATGACTTTGAAT
65 AAGATAACAACAATAATCGAGATTAAACTATGACTTTAAAT
* * * *
18094000 TAAA-AGATCGGGATTGAACCGTAAATTAGAGAATAAAAAGATCGGGATTAAACCGTGAATCA-A
1 TAAAGAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATCAGA
18094063 AGGATAA
66 A-GATAA
18094070 AGATGATTGG
Statistics
Matches: 537, Mismatches: 52, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
103 2 0.00
104 58 0.11
105 376 0.70
106 101 0.19
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (105 bp):
TAAAGAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATCAGA
AGATAACAACAATAATCGAGATTAAACTATGACTTTAAAT
Found at i:18093819 original size:316 final size:313
Alignment explanation
Indices: 18093366--18094069 Score: 1133
Period size: 316 Copynumber: 2.2 Consensus size: 313
18093356 GTGAATCAGA
* * * *
18093366 GAATAAAAAGATCGAGATTAAATCGTGAATCAGA-AGATAAAAAGATCGAGATTAAATCGTGAAT
1 GAATTAAAAGATCGAGATTGAACCGTGAATCAGAGA-ATAAAAAGATCGAGATTAAACCGTGAAT
*
18093430 CAAAAGATAACAATAACAATCAAGATTAAATTATGATTTTAAATTAAAGAGATCGGGATTGAACC
65 C-AAAGATAACAATAACAATCAAGATTAAATTATGATTTTAAATTAAAGAGATCAGGATTGAACC
* *
18093495 GCGAATCAGAGAATAAAAAGATCGAGATTAAATCGCGAATCAGAAGATAACAACAATAATCGAGA
129 GCGAATCAGAGAATAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAATAATCGAGA
* * *
18093560 TTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCACGAATCATAGAATAAAAAGATCGG
194 TTAAACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCACGAATCAGAGAATAAAAAGATCAG
*
18093625 GATTGAAA-TCGTGAATCAGAAGATAACAACAATAATCGAGATTAAACTGTGACTTT
259 GATT-AAACT-GTGAATCAGAAGATAACAACAATAATCGAGATTAAACTATGACTTT
*
18093681 GAATTAAAGAGATCAAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAAT
1 GAATTAAA-AGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAAT
* *
18093746 CAGAAGATAACAATAACAATCGAGATTAAATTATGATTTTAAATTAAAGAGATCAGGATTGAACT
65 CA-AAGATAACAATAACAATCAAGATTAAATTATGATTTTAAATTAAAGAGATCAGGATTGAACC
* * *
18093811 GTGAATCAGAGAATAAAAAGATCGAGATTACACCATGAATCAGAAGATAACAACAATAATCGAGA
129 GCGAATCAGAGAATAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAATAATCGAGA
*
18093876 TTAAACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCGCGAATCAGAGAATAAAAAGATCAG
194 TTAAACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCACGAATCAGAGAATAAAAAGATCAG
18093941 GATTAAACTGTGAATCAGAAGATAACAACAATAATCGAGATTAAACTATGACTTT
259 GATTAAACTGTGAATCAGAAGATAACAACAATAATCGAGATTAAACTATGACTTT
* * * *
18093996 GAATTAAAAGATCGGGATTGAACCGTAAATTAGAGAATAAAAAGATCGGGATTAAACCGTGAATC
1 GAATTAAAAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATC
18094061 AAAGGATAA
66 AAA-GATAA
18094070 AGATGATTGG
Statistics
Matches: 361, Mismatches: 23, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
313 2 0.01
314 58 0.16
315 64 0.18
316 236 0.65
317 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (313 bp):
GAATTAAAAGATCGAGATTGAACCGTGAATCAGAGAATAAAAAGATCGAGATTAAACCGTGAATC
AAAGATAACAATAACAATCAAGATTAAATTATGATTTTAAATTAAAGAGATCAGGATTGAACCGC
GAATCAGAGAATAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAATAATCGAGATT
AAACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCACGAATCAGAGAATAAAAAGATCAGGA
TTAAACTGTGAATCAGAAGATAACAACAATAATCGAGATTAAACTATGACTTT
Found at i:18093938 original size:139 final size:137
Alignment explanation
Indices: 18093230--18093965 Score: 495
Period size: 139 Copynumber: 5.3 Consensus size: 137
18093220 GACTTTGAAT
* * * *
18093230 TAAAGAGATC-GAGATTGAA-TCGTGAATCAGAGAATAAAAAGATAGAGATTAAATCGCGAATCA
1 TAAAAAGATCAGAGATT-AACTCGTGAATCAGA-AATAAAAAGATCGAGATTAAACCGTGAATCA
*
18093293 GAAGATAACAATAACAATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCGGGATTGAACCGT
64 GAAGATAACAA-AA-AATCGAGATTAAACTGTGAATTTAAATTAAAGAGATCGGGATTGAACCGT
18093358 GAATCAGAGAA
127 GAATCAGAGAA
* * *
18093369 TAAAAAGATC-GAGATTAAATCGTGAATCAGAAGATAAAAAGATCGAGATTAAATCGTGAATCAA
1 TAAAAAGATCAGAGATTAACTCGTGAATCAGAA-ATAAAAAGATCGAGATTAAACCGTGAATCAG
* * * * *
18093433 AAGATAACAATAACAATCAAGATTAAATTATGATTTTAAATTAAAGAGATCGGGATTGAACCGCG
65 AAGATAACAA-AA-AATCGAGATTAAACTGTGAATTTAAATTAAAGAGATCGGGATTGAACCGTG
18093498 AATCAGAGAA
128 AATCAGAGAA
* * * * *
18093508 TAAAAAGATC-GAGATTAAATCGCGAATCAGAAGATAACAACAATAATCGAGATTAAACTGTGAC
1 TAAAAAGATCAGAGATTAACTCGTGAATCAGAA-AT-A-AA-AA-GATCGAGATTAAACCGTGAA
** * * * * *** * *
18093572 TTTG-A-ATTA-AAGAGATCGAGATTGAACCACGAATCATAGAA-TAAAAAGATCGGGATTGAAA
61 TCAGAAGATAACAAAAAATCGAGATTAAACTGTGAAT-TTA-AATTAAAGAGATCGGGATTG-AA
*
18093633 TCGTGAATCAGA-AGA
123 CCGTGAATCAGAGA-A
* * ** * * * *
18093648 TAACAACA-ATAATCGAGATTAAACT-GTGACTTTGAATTAAAGAGATCAAGATTGAACCGTGAA
1 TAA-AA-AGATCA--GAGATT-AACTCGTGAATCAGAAATAAAAAGATCGAGATTAAACCGTGAA
* * ** * * * *
18093711 TCAG-AGA-ATA-AAAAGATCGAGATTAAACCGTGAATCAGAAGATAACAATAACAATCGAGATT
61 TCAGAAGATA-ACAAAAAATCGAGATTAAACTGTGAAT-TTAA-ATTA-AA-GA-GATCGGGATT
* *** * * *
18093773 AAATTATGATTTTA-A-AT
120 GAACCGTGA-ATCAGAGAA
* * *
18093790 TAAAGAGATCAG-GATTGAACT-GTGAATCAGAGAATAAAAAGATCGAGATTACACCATGAATCA
1 TAAAAAGATCAGAGATT-AACTCGTGAATCAGA-AATAAAAAGATCGAGATTAAACCGTGAATCA
* * *
18093853 GAAGATAACAACAATAATCGAGATTAAACTGTGACTTTAAATTAAAGAGATCGAGATTGAACCGC
64 GAAGATAACAA-AA-AATCGAGATTAAACTGTGAATTTAAATTAAAGAGATCGGGATTGAACCGT
18093918 GAATCAGAGAA
127 GAATCAGAGAA
18093929 TAAAAAGATCAG-GATTAAACT-GTGAATCAGAAGATAA
1 TAAAAAGATCAGAGATT-AACTCGTGAATCAGAA-ATAA
18093966 CAACAATAAT
Statistics
Matches: 474, Mismatches: 89, Indels: 68
0.75 0.14 0.11
Matches are distributed among these distances:
137 2 0.00
138 47 0.10
139 261 0.55
140 56 0.12
141 22 0.05
142 14 0.03
143 46 0.10
144 23 0.05
145 3 0.01
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (137 bp):
TAAAAAGATCAGAGATTAACTCGTGAATCAGAAATAAAAAGATCGAGATTAAACCGTGAATCAGA
AGATAACAAAAAATCGAGATTAAACTGTGAATTTAAATTAAAGAGATCGGGATTGAACCGTGAAT
CAGAGAA
Found at i:18095225 original size:10 final size:10
Alignment explanation
Indices: 18095212--18095279 Score: 60
Period size: 10 Copynumber: 7.4 Consensus size: 10
18095202 TCCTTTCTCA
18095212 TTTTTTCA-T
1 TTTTTTCATT
18095221 TTTTTT-A--
1 TTTTTTCATT
18095228 TTTTTTCATT
1 TTTTTTCATT
*
18095238 TTTTTGT-ATA
1 TTTTT-TCATT
18095248 TTTTTTC--T
1 TTTTTTCATT
*
18095256 TCTTTTCATT
1 TTTTTTCATT
18095266 TTTTTTCATT
1 TTTTTTCATT
18095276 TTTT
1 TTTT
18095280 AAGCAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
7 6 0.12
8 8 0.17
9 7 0.15
10 26 0.54
11 1 0.02
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:18095232 original size:16 final size:16
Alignment explanation
Indices: 18095211--18095242 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18095201 TTCCTTTCTC
18095211 ATTTTTTCATTTTTTT
1 ATTTTTTCATTTTTTT
18095227 ATTTTTTCATTTTTTT
1 ATTTTTTCATTTTTTT
18095243 GTATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTTTCATTTTTTT
Found at i:18095279 original size:8 final size:8
Alignment explanation
Indices: 18095209--18095241 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
18095199 ACTTCCTTTC
18095209 TCATTTTT
1 TCATTTTT
18095217 TCATTTTT
1 TCATTTTT
*
18095225 TTATTTTT
1 TCATTTTT
18095233 TCATTTTT
1 TCATTTTT
18095241 T
1 T
18095242 TGTATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (8 bp):
TCATTTTT
Found at i:18095279 original size:28 final size:27
Alignment explanation
Indices: 18095212--18095279 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
18095202 TCCTTTCTCA
18095212 TTTTTTCA-TTTTTTTATTTTTTCATT
1 TTTTTTCATTTTTTTTATTTTTTCATT
* *
18095238 TTTTTGT-ATATTTTTTCTTCTTTTCATT
1 TTTTT-TCATTTTTTTTATT-TTTTCATT
18095266 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
18095280 AAGCAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 6 0.17
27 10 0.29
28 19 0.54
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTTTTCATTTTTTTTATTTTTTCATT
Found at i:18106628 original size:17 final size:17
Alignment explanation
Indices: 18106603--18106650 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
18106593 TAGGATTTTT
* *
18106603 AAGACTTTGGATTTTAA
1 AAGATTTTGAATTTTAA
*
18106620 AAGATTTTGAATTTTAG
1 AAGATTTTGAATTTTAA
*
18106637 GAGATTTTGAATTT
1 AAGATTTTGAATTT
18106651 CTAGGGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (17 bp):
AAGATTTTGAATTTTAA
Found at i:18106661 original size:17 final size:17
Alignment explanation
Indices: 18106621--18106655 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
18106611 GGATTTTAAA
18106621 AGATTTTGAATTTTAGG
1 AGATTTTGAATTTTAGG
18106638 AGATTTTGAATTTCTAGG
1 AGATTTTGAATTT-TAGG
18106656 GGTTTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.46
Consensus pattern (17 bp):
AGATTTTGAATTTTAGG
Found at i:18106984 original size:23 final size:24
Alignment explanation
Indices: 18106957--18107002 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
18106947 ATTTTAAAAA
18106957 TATATTATTTTTA-GTTATTATTT
1 TATATTATTTTTATGTTATTATTT
*
18106980 TATATTATTTTTATTTTATTATT
1 TATATTATTTTTATGTTATTATT
18107003 ATTAATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TATATTATTTTTATGTTATTATTT
Found at i:18107045 original size:22 final size:23
Alignment explanation
Indices: 18107005--18107048 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
18106995 TTATTATTAT
*
18107005 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
18107028 TAATAA-ATTTAAACATTTATC
1 TAATAACAATTAAACATTTATC
18107049 ATGCATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:18108163 original size:3 final size:3
Alignment explanation
Indices: 18108151--18108187 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
18108141 AATTAATATA
*
18108151 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18108188 ATATACTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18109648 original size:14 final size:14
Alignment explanation
Indices: 18109629--18109660 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18109619 ATAAACATGA
18109629 TCTAAAAATCATTT
1 TCTAAAAATCATTT
18109643 TCTAAAAATCATTT
1 TCTAAAAATCATTT
18109657 TCTA
1 TCTA
18109661 TGAAACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (14 bp):
TCTAAAAATCATTT
Found at i:18112933 original size:21 final size:23
Alignment explanation
Indices: 18112900--18112943 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
18112890 AAAATTTAAG
18112900 TTTTAATATTTATAATTTTTTAT
1 TTTTAATATTTATAATTTTTTAT
*
18112923 TTTTAA-A-TTATGATTTTTTAT
1 TTTTAATATTTATAATTTTTTAT
18112944 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTAATATTTATAATTTTTTAT
Found at i:18116782 original size:13 final size:13
Alignment explanation
Indices: 18116749--18116783 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18116739 TTAATGAAAA
*
18116749 TATTTTTCATATT
1 TATTTTTTATATT
*
18116762 TATTTTTTATTTT
1 TATTTTTTATATT
18116775 TATTTTTTA
1 TATTTTTTA
18116784 AAAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTTTATATT
Found at i:18116793 original size:27 final size:27
Alignment explanation
Indices: 18116763--18116814 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18116753 TTTCATATTT
* **
18116763 ATTTTTTATTTTTATTTTTTAAAAATA
1 ATTTTTAATTTTTAAATTTTAAAAATA
18116790 ATTTTTAATTTTTAAATTTTAAAAA
1 ATTTTTAATTTTTAAATTTTAAAAA
18116815 ACATATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTTAATTTTTAAATTTTAAAAATA
Found at i:18117758 original size:2 final size:2
Alignment explanation
Indices: 18117751--18117778 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18117741 GAAAAATTAA
18117751 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18117779 TAGCAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18117976 original size:22 final size:22
Alignment explanation
Indices: 18117929--18117976 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
18117919 TTTATTTTCA
*
18117929 TTTTCATTTTTCAAAAAATAA-
1 TTTTCATTTTTCAAAAAACAAG
* *
18117950 TTTTTATTTTTCAACCAAACAAG
1 TTTTCATTTTTCAA-AAAACAAG
18117973 TTTT
1 TTTT
18117977 TTCACTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 13 0.59
22 5 0.23
23 4 0.18
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTCATTTTTCAAAAAACAAG
Found at i:18118190 original size:20 final size:21
Alignment explanation
Indices: 18118165--18118204 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
18118155 ATTTTTAAAT
18118165 AATATTAAAATAA-TTATTAA
1 AATATTAAAATAATTTATTAA
18118185 AATATTAAAATAATTTATTA
1 AATATTAAAATAATTTATTA
18118205 TTAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATTAAAATAATTTATTAA
Found at i:18118208 original size:16 final size:16
Alignment explanation
Indices: 18118187--18118283 Score: 63
Period size: 17 Copynumber: 5.6 Consensus size: 16
18118177 ATTATTAAAA
18118187 TATTAAAATAATTTAT
1 TATTAAAATAATTTAT
*
18118203 TATTAAAATATATTGAAAT
1 TATTAAAATA-ATT--TAT
* *
18118222 TATTAAAATTA-TTAA
1 TATTAAAATAATTTAT
18118237 TATTTAAGAATAA-TTAT
1 TA-TTAA-AATAATTTAT
*
18118254 ATATTAATAATAATATTTAA
1 -TATTAA-AAT-A-ATTTAT
18118274 TATTAAAATA
1 TATTAAAATA
18118284 TCATATTAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.05
16 14 0.22
17 19 0.30
18 7 0.11
19 18 0.28
20 3 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TATTAAAATAATTTAT
Found at i:18118226 original size:55 final size:55
Alignment explanation
Indices: 18118165--18118283 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 55
18118155 ATTTTTAAAT
18118165 AATATTAAAATAATTATTAAAATATTAA-AATAATT-TATTATTAA-AAT-ATATTGA
1 AATATTAAAATAATTATTAAAAT-TTAAGAATAATTATA-TATTAATAATAATATT-A
* *
18118219 AATTATT--AA-AATTATTAATATTTAAGAATAATTATATATTAATAATAATATTT
1 AA-TATTAAAATAATTATTAAAATTTAAGAATAATTATATATTAATAATAATATTA
18118272 AATATTAAAATA
1 AATATTAAAATA
18118284 TCATATTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
51 4 0.07
52 28 0.51
53 9 0.16
54 9 0.16
55 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (55 bp):
AATATTAAAATAATTATTAAAATTTAAGAATAATTATATATTAATAATAATATTA
Found at i:18118230 original size:9 final size:9
Alignment explanation
Indices: 18118176--18118236 Score: 65
Period size: 9 Copynumber: 7.0 Consensus size: 9
18118166 ATATTAAAAT
18118176 AATTATTAA
1 AATTATTAA
18118185 AA-TATTAA
1 AATTATTAA
*
18118193 AATAATT--
1 AATTATTAA
*
18118200 TATTATTAA
1 AATTATTAA
*
18118209 AATATATTGA
1 AAT-TATTAA
18118219 AATTATTAA
1 AATTATTAA
18118228 AATTATTAA
1 AATTATTAA
18118237 TATTTAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 5 0.12
8 8 0.19
9 21 0.50
10 8 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
AATTATTAA
Found at i:18118292 original size:19 final size:17
Alignment explanation
Indices: 18118164--18118299 Score: 97
Period size: 19 Copynumber: 7.6 Consensus size: 17
18118154 TATTTTTAAA
18118164 TAATATTAAAATAATTAT
1 TAATATTAAAATAA-TAT
18118182 TAAAATATTAAAATAAT-T
1 T--AATATTAAAATAATAT
*
18118200 TATTATTAAAAT-ATAT
1 TAATATTAAAATAATAT
18118216 TGAAATTATTAAAAT--TAT
1 T--AA-TATTAAAATAATAT
18118234 TAATATTTAAGAAT-A-AT
1 TAATA-TTAA-AATAATAT
18118251 TATATATTAATAATAATATT
1 TA-ATATTAA-AATAATA-T
18118271 TAATATTAAAATATCATAT
1 TAATATTAAAATA--ATAT
18118290 TAATA-TAAAA
1 TAATATTAAAA
18118300 AACTTAAAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 30
0.75 0.02 0.23
Matches are distributed among these distances:
15 4 0.04
16 18 0.18
17 14 0.14
18 21 0.21
19 24 0.24
20 19 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TAATATTAAAATAATAT
Found at i:18118396 original size:23 final size:24
Alignment explanation
Indices: 18118361--18118433 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 24
18118351 TAAAATAGAA
* *
18118361 TTATTATTCTTAAAATACTAAT-T
1 TTATTAATATTAAAATACTAATAT
*
18118384 TTATTAATATTAAAATAGTAATAT
1 TTATTAATATTAAAATACTAATAT
* * *
18118408 TTA-TACTA-TAAAATATTTATAT
1 TTATTAATATTAAAATACTAATAT
18118430 TTAT
1 TTAT
18118434 ATTAAAAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 15 0.36
23 23 0.55
24 4 0.10
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (24 bp):
TTATTAATATTAAAATACTAATAT
Found at i:18120571 original size:18 final size:20
Alignment explanation
Indices: 18120550--18120586 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18120540 TTTAATTAAA
18120550 ATTAA-ATAA-AATATTTTT
1 ATTAATATAATAATATTTTT
18120568 ATTAATATAATAATATTTT
1 ATTAATATAATAATATTTT
18120587 AAGTAGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAATATAATAATATTTTT
Found at i:18125003 original size:3 final size:3
Alignment explanation
Indices: 18124997--18125138 Score: 137
Period size: 3 Copynumber: 48.0 Consensus size: 3
18124987 AAAATATATA
* * * *
18124997 AAT AAT AAT AAT AAT ACT AA- AAT GAT AAAT AA- AAA AAT -AT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * * * * * * *
18125040 AAT AAT AAC AAT AAC AAC AAT AAC AAC AAC AAC GAG AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18125088 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18125136 AAT
1 AAT
18125139 TATTATTATT
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
2 6 0.05
3 112 0.93
4 2 0.02
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:18125143 original size:3 final size:3
Alignment explanation
Indices: 18125137--18125174 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18125127 AATAATAATA
18125137 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18125175 GAGATATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18135299 original size:24 final size:25
Alignment explanation
Indices: 18135253--18135299 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18135243 AATGCAACCT
*
18135253 AACTTTTCAAATATGAGGCTTTTAA
1 AACTTTTCAAATATGAGACTTTTAA
*
18135278 AACTTTTCAAAT-TGAGATTTTT
1 AACTTTTCAAATATGAGACTTTT
18135300 TTAAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (25 bp):
AACTTTTCAAATATGAGACTTTTAA
Found at i:18135463 original size:51 final size:51
Alignment explanation
Indices: 18135279--18135606 Score: 301
Period size: 50 Copynumber: 6.5 Consensus size: 51
18135269 GGCTTTTAAA
* * * * *
18135279 ACTTTTCAAATTGAGATTTTTTTAAAATTCACTT-CTTTATGTCTACAGGATC
1 ACTTTTCAAATTGAGATTTTTTT-AAAGTCACTTGC-CTATGTCTATAAGAGC
* *
18135331 ACTTTTCAAATTGAGA-TTTTTTAAAGTCACTTGCCTATTTCTAT-AGAAGT
1 ACTTTTCAAATTGAGATTTTTTTAAAGTCACTTGCCTATGTCTATAAG-AGC
* * * * * *
18135381 AGTTTTCGAATTGAGA-GTTTTTAAAATCACTTGTCTATGTCTTTAAGAGC
1 ACTTTTCAAATTGAGATTTTTTTAAAGTCACTTGCCTATGTCTATAAGAGC
* * *
18135431 ACTTTTCAAATTAAGATTTTTTTAAAGTCACTTGCTTATATCTATAAGAGC
1 ACTTTTCAAATTGAGATTTTTTTAAAGTCACTTGCCTATGTCTATAAGAGC
* * * * *
18135482 ACTTGTCAAAGCT-AAATTTTTTTAAAGTCACTTGCCTATGTCTATAGGAAC
1 ACTTTTCAAA-TTGAGATTTTTTTAAAGTCACTTGCCTATGTCTATAAGAGC
* * * * * **
18135533 ACTTTTTAATTTGAGA-TTTTTTATAGTCACTTGACTATATCTATACTAGC
1 ACTTTTCAAATTGAGATTTTTTTAAAGTCACTTGCCTATGTCTATAAGAGC
18135583 ACTTCTT-AAATTGAGAATTTTTTT
1 ACTT-TTCAAATTGAG-ATTTTTTT
18135607 TTTAAAAAAT
Statistics
Matches: 224, Mismatches: 43, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.00
50 109 0.49
51 91 0.41
52 23 0.10
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (51 bp):
ACTTTTCAAATTGAGATTTTTTTAAAGTCACTTGCCTATGTCTATAAGAGC
Found at i:18135503 original size:101 final size:100
Alignment explanation
Indices: 18135279--18135606 Score: 302
Period size: 101 Copynumber: 3.2 Consensus size: 100
18135269 GGCTTTTAAA
* * * * * * *
18135279 ACTTTTCAAATTGAGATTTTTTTAAAATTCACTTCTTTATGTCTACAGGATCACTTTTCAAATTG
1 ACTTGTCAAACTGAAATTTTTTTAAAA-TCACTTGTCTATGTCTATAGGAACACTTTTCAAATTG
* *
18135344 AGATTTTTTAAAGTCACTTGCCTATTTCTAT-AGAAGT
65 AGATTTTTTAAAGTCACTTG-CTATATCTATAAG-AGC
* * * * * * * * * *
18135381 AGTTTTCGAATTGAGA-GTTTTTAAAATCACTTGTCTATGTCTTTAAGAGCACTTTTCAAATTAA
1 ACTTGTCAAACTGAAATTTTTTTAAAATCACTTGTCTATGTCTATAGGAACACTTTTCAAATTGA
18135445 GATTTTTTTAAAGTCACTTGCTTATATCTATAAGAGC
66 GA-TTTTTTAAAGTCACTTGC-TATATCTATAAGAGC
* * * *
18135482 ACTTGTCAAAGCT-AAATTTTTTTAAAGTCACTTGCCTATGTCTATAGGAACACTTTTTAATTTG
1 ACTTGTCAAA-CTGAAATTTTTTTAAAATCACTTGTCTATGTCTATAGGAACACTTTTCAAATTG
* **
18135546 AGATTTTTTATAGTCACTTGACTATATCTATACTAGC
65 AGATTTTTTAAAGTCACTTG-CTATATCTATAAGAGC
* * *
18135583 ACTTCTTAAATTGAGAATTTTTTT
1 ACTTGTCAAACTGA-AATTTTTTT
18135607 TTTAAAAAAT
Statistics
Matches: 186, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
100 35 0.19
101 83 0.45
102 68 0.37
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (100 bp):
ACTTGTCAAACTGAAATTTTTTTAAAATCACTTGTCTATGTCTATAGGAACACTTTTCAAATTGA
GATTTTTTAAAGTCACTTGCTATATCTATAAGAGC
Found at i:18135555 original size:152 final size:152
Alignment explanation
Indices: 18135279--18135606 Score: 362
Period size: 152 Copynumber: 2.2 Consensus size: 152
18135269 GGCTTTTAAA
* * * * * *
18135279 ACTTTTCAAATTGAGATTTTTTTAAAATTCACTTCTTTATGTCTACAGGATCACTTTTCAAATTG
1 ACTTTTCAAATTGAGATTTTTTTAAAAGTCACTTCTTTATATCTACAAGAGCACTTGTCAAACTG
* * * *
18135344 AGATTTTTTAAAGTCACTTGCCTATTTCTATAGAAGTAGTTTTCGAATTGAGAGTTTTTAAAATC
66 AAATTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCGAATTGAGAGTTTTTAAAATC
* * *
18135409 ACTTGTCTATGTCTTTAAGAGC
131 ACTTGACTATATCTATAAGAGC
* *
18135431 ACTTTTCAAATTAAGATTTTTTT-AAAGTCACTTGC-TTATATCTATAAGAGCACTTGTCAAAGC
1 ACTTTTCAAATTGAGATTTTTTTAAAAGTCACTT-CTTTATATCTACAAGAGCACTTGTCAAA-C
* *
18135494 T-AAATTTTTTTAAAGTCACTTGCCTATGTCTATAGGAA-CACTTTT-TAATTTGAGATTTTTTA
64 TGAAA-TTTTTTAAAGTCACTTGCCTATGTCTATA-GAAGCACTTTTCGAA-TTGAGAGTTTTTA
* * **
18135556 TAGTCACTTGACTATATCTATACTAGC
126 AAATCACTTGACTATATCTATAAGAGC
18135583 ACTTCTT-AAATTGAGAATTTTTTT
1 ACTT-TTCAAATTGAG-ATTTTTTT
18135607 TTTAAAAAAT
Statistics
Matches: 147, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
151 34 0.23
152 100 0.68
153 13 0.09
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (152 bp):
ACTTTTCAAATTGAGATTTTTTTAAAAGTCACTTCTTTATATCTACAAGAGCACTTGTCAAACTG
AAATTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCGAATTGAGAGTTTTTAAAATC
ACTTGACTATATCTATAAGAGC
Found at i:18138170 original size:19 final size:19
Alignment explanation
Indices: 18138148--18138199 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
18138138 ACCACCCTCT
*
18138148 AAACCCTAAACCACACATG
1 AAACCTTAAACCACACATG
*
18138167 AAA-CTTAGAACCACCCATG
1 AAACCTTA-AACCACACATG
18138186 AAACCTTAAACCAC
1 AAACCTTAAACCAC
18138200 TCATAGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 3 0.10
19 22 0.76
20 4 0.14
ACGTcount: A:0.46, C:0.35, G:0.06, T:0.13
Consensus pattern (19 bp):
AAACCTTAAACCACACATG
Found at i:18138209 original size:19 final size:18
Alignment explanation
Indices: 18138149--18138209 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
18138139 CCACCCTCTA
*
18138149 AACCCTAAACCACACATG
1 AACCTTAAACCACACATG
* *
18138167 AAACTTAGAACCACCCATG
1 AACCTTA-AACCACACATG
*
18138186 AAACCTTAAACCACTCATAG
1 -AACCTTAAACCACACAT-G
18138206 AACC
1 AACC
18138210 AAACGACTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.14
19 23 0.66
20 7 0.20
ACGTcount: A:0.44, C:0.34, G:0.07, T:0.15
Consensus pattern (18 bp):
AACCTTAAACCACACATG
Found at i:18138268 original size:19 final size:18
Alignment explanation
Indices: 18138243--18138342 Score: 85
Period size: 19 Copynumber: 5.2 Consensus size: 18
18138233 CACCCATGAA
18138243 AAACCAAATCTTAAACCCT
1 AAACCAAATC-TAAACCCT
* *
18138262 GAACCAAACCCTAAACCCT
1 AAACCAAA-TCTAAACCCT
18138281 AAACCCTAAATC-AAACCCT
1 AAA-CC-AAATCTAAACCCT
* *
18138300 AAACCAAACTCCAAACCCC
1 AAACCAAA-TCTAAACCCT
18138319 AAACCCTGAAATCTAAACCCT
1 AAA-CC--AAATCTAAACCCT
18138340 AAA
1 AAA
18138343 TTAAACCCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.05
18 4 0.06
19 36 0.55
20 6 0.09
21 14 0.21
22 3 0.05
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.14
Consensus pattern (18 bp):
AAACCAAATCTAAACCCT
Found at i:18138270 original size:12 final size:12
Alignment explanation
Indices: 18138255--18138367 Score: 88
Period size: 12 Copynumber: 9.0 Consensus size: 12
18138245 ACCAAATCTT
*
18138255 AAACCCTGAACC
1 AAACCCTAAACC
18138267 AAACCCTAAACCC
1 AAACCCTAAA-CC
*
18138280 TAAACCCTAAATC
1 -AAACCCTAAACC
18138293 AAACCCTAAACC
1 AAACCCTAAACC
18138305 AAACTCC-AAACCCC
1 AAAC-CCTAAA--CC
*
18138319 AAACCCTGAAATCT
1 AAACCCT-AAA-CC
**
18138333 AAACCCTAAATT
1 AAACCCTAAACC
18138345 AAACCC-AAACC
1 AAACCCTAAACC
18138356 -AACCCTCAAACC
1 AAACCCT-AAACC
18138368 CTAAAATTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 18
0.76 0.07 0.16
Matches are distributed among these distances:
10 5 0.06
11 3 0.04
12 39 0.46
13 10 0.12
14 24 0.29
15 3 0.04
ACGTcount: A:0.46, C:0.40, G:0.02, T:0.12
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:18138277 original size:7 final size:7
Alignment explanation
Indices: 18138254--18138342 Score: 68
Period size: 7 Copynumber: 13.6 Consensus size: 7
18138244 AACCAAATCT
18138254 TAAACCC
1 TAAACCC
*
18138261 TGAA-CC
1 TAAACCC
18138267 -AAACCC
1 TAAACCC
18138273 TAAACCC
1 TAAACCC
18138280 TAAACCC
1 TAAACCC
*
18138287 TAAA-TC
1 TAAACCC
18138293 -AAACCC
1 TAAACCC
18138299 TAAA-CC
1 TAAACCC
18138305 -AAACTCC
1 TAAAC-CC
18138312 -AAACCC
1 TAAACCC
*
18138318 CAAACCC
1 TAAACCC
*
18138325 TGAAA-TC
1 T-AAACCC
18138332 TAAACCC
1 TAAACCC
18138339 TAAA
1 TAAA
18138343 TTAAACCCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
5 8 0.12
6 13 0.20
7 42 0.64
8 3 0.05
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.13
Consensus pattern (7 bp):
TAAACCC
Found at i:18138283 original size:26 final size:26
Alignment explanation
Indices: 18138254--18138355 Score: 88
Period size: 26 Copynumber: 4.0 Consensus size: 26
18138244 AACCAAATCT
*
18138254 TAAACCCTGAACCAAACCCTAAACCC
1 TAAACCCTAAACCAAACCCTAAACCC
*
18138280 TAAACCCTAAATCAAACCCTAAA-CC
1 TAAACCCTAAACCAAACCCTAAACCC
*
18138305 -AAACTCC-AAACCCCAAACCCTGAAA-TC
1 TAAAC-CCTAAA--CCAAACCCT-AAACCC
**
18138332 TAAACCCTAAATTAAACCC-AAACC
1 TAAACCCTAAACCAAACCCTAAACC
18138356 AACCCTCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
24 10 0.16
25 4 0.06
26 35 0.56
27 6 0.10
28 7 0.11
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.14
Consensus pattern (26 bp):
TAAACCCTAAACCAAACCCTAAACCC
Found at i:18140943 original size:21 final size:23
Alignment explanation
Indices: 18140892--18140943 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
18140882 TCCCCTTGTA
*
18140892 TATATTATTGTAATAGTACAGTAT
1 TATATTATAGTAATAGTA-AGTAT
* *
18140916 AACATTATAGTAATA-T-AGTAT
1 TATATTATAGTAATAGTAAGTAT
18140937 TATATTA
1 TATATTA
18140944 GTATAGTAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 10 0.43
23 1 0.04
24 12 0.52
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (23 bp):
TATATTATAGTAATAGTAAGTAT
Found at i:18140975 original size:27 final size:25
Alignment explanation
Indices: 18140919--18141020 Score: 66
Period size: 27 Copynumber: 3.9 Consensus size: 25
18140909 ACAGTATAAC
*
18140919 ATTATAGTAATATAGTATTATAT--T
1 ATTATA-TAATATATTATTATATCAT
* *
18140943 AGTATAGTAGTACTATTATTATATCAT
1 ATTATA-TAATA-TATTATTATATCAT
18140970 ATTATATAATATAATGTATTATATCGTAT
1 ATTATATAATAT-AT-TATTATATC--AT
**
18140999 ATTAT-TAGCACTATTATTATAT
1 ATTATATAATA-TATTATTATAT
18141021 TTTTTTACTA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
24 10 0.16
25 11 0.17
26 6 0.10
27 23 0.37
28 5 0.08
29 8 0.13
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (25 bp):
ATTATATAATATATTATTATATCAT
Found at i:18141084 original size:3 final size:3
Alignment explanation
Indices: 18141076--18141114 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
18141066 ATTACAAATA
*
18141076 TAT TAT TAT TGT TAT TA- TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18141115 GTTTTTTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18141094 original size:17 final size:17
Alignment explanation
Indices: 18141074--18141110 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18141064 CTATTACAAA
*
18141074 TATATTATTATTGTTAT
1 TATATTATTATTATTAT
18141091 TATATTATTATTATTAT
1 TATATTATTATTATTAT
18141108 TAT
1 TAT
18141111 TATTGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TATATTATTATTATTAT
Found at i:18141099 original size:20 final size:20
Alignment explanation
Indices: 18141076--18141113 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18141066 ATTACAAATA
*
18141076 TATTATTATTGTTATTATAT
1 TATTATTATTATTATTATAT
18141096 TATTATTATTATTATTAT
1 TATTATTATTATTATTAT
18141114 TGTTTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TATTATTATTATTATTATAT
Found at i:18141637 original size:12 final size:12
Alignment explanation
Indices: 18141620--18141648 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18141610 TTGGGAAAAC
18141620 ATGAATTTTTCA
1 ATGAATTTTTCA
18141632 ATGAATTTTTCA
1 ATGAATTTTTCA
18141644 ATGAA
1 ATGAA
18141649 AGGTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (12 bp):
ATGAATTTTTCA
Found at i:18142285 original size:18 final size:17
Alignment explanation
Indices: 18142258--18142291 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18142248 ATTTTCTCAA
*
18142258 AAAAATAAAAATTAAAGT
1 AAAAACAAAAA-TAAAGT
18142276 AAAAACAAAAATAAAG
1 AAAAACAAAAATAAAG
18142292 ATAATTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAACAAAAATAAAGT
Found at i:18144908 original size:17 final size:17
Alignment explanation
Indices: 18144864--18144908 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18144854 AACTAAATTG
* *
18144864 AAAATAAATAGAAACTT
1 AAAAGAAATAAAAACTT
18144881 -AAAGAACATAAAAACTT
1 AAAAGAA-ATAAAAACTT
18144898 AAAAGAAATAA
1 AAAAGAAATAA
18144909 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 5 0.21
17 13 0.54
18 6 0.25
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (17 bp):
AAAAGAAATAAAAACTT
Found at i:18145273 original size:40 final size:40
Alignment explanation
Indices: 18145218--18145297 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
18145208 TAGTAAAAAA
18145218 GATAAATTTTGAAATCTTGAAAGATGGCTGGTTCGATTTT
1 GATAAATTTTGAAATCTTGAAAGATGGCTGGTTCGATTTT
*
18145258 GATAAATTTTGAAATCTTGAAAGATGGTTGGTTCGATTTT
1 GATAAATTTTGAAATCTTGAAAGATGGCTGGTTCGATTTT
18145298 AAGATCTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (40 bp):
GATAAATTTTGAAATCTTGAAAGATGGCTGGTTCGATTTT
Found at i:18148977 original size:22 final size:22
Alignment explanation
Indices: 18148937--18148980 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18148927 AATATGCATA
* **
18148937 AAAAAATGATAAATGAATTATC
1 AAAAAATGACAAAAAAATTATC
18148959 AAAAAATGACAAAAAAATTATC
1 AAAAAATGACAAAAAAATTATC
18148981 CAATGTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAAAATGACAAAAAAATTATC
Found at i:18149327 original size:19 final size:19
Alignment explanation
Indices: 18149290--18149327 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18149280 TTTGGACTTG
* *
18149290 AAAGCCCAAAGTTAGTATT
1 AAAGCCCAAAGTCAATATT
18149309 AAAGCCCAAAGTCAATATT
1 AAAGCCCAAAGTCAATATT
18149328 GACACCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (19 bp):
AAAGCCCAAAGTCAATATT
Found at i:18149437 original size:29 final size:30
Alignment explanation
Indices: 18149367--18149438 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
18149357 AGACAAAAAT
*
18149367 AAAATA-AAAAAAATGATGAATAATTTTAA
1 AAAATACAAAAAAATGATAAATAATTTTAA
* *
18149396 AAAATTCACAAAAAT-A-AAATAAATTTTAA
1 AAAATACAAAAAAATGATAAAT-AATTTTAA
18149425 AAAATACAAAAAAA
1 AAAATACAAAAAAA
18149439 GGGTAAGAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.08
29 26 0.72
30 7 0.19
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (30 bp):
AAAATACAAAAAAATGATAAATAATTTTAA
Found at i:18150895 original size:3 final size:3
Alignment explanation
Indices: 18150877--18150934 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
18150867 ATGAAAAAAT
*
18150877 ATA A-A ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
18150924 ATA ACA ATA AT
1 ATA ATA ATA AT
18150935 GAAAATCTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:18151103 original size:19 final size:20
Alignment explanation
Indices: 18151081--18151118 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18151071 TATTTGTATA
*
18151081 AAATAAT-AATATTAAAAAT
1 AAATAATAAATAATAAAAAT
18151100 AAATAATAAATAATAAAAA
1 AAATAATAAATAATAAAAA
18151119 ATGTGAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAATAAATAATAAAAAT
Found at i:18165027 original size:16 final size:15
Alignment explanation
Indices: 18165006--18165044 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
18164996 TATTTCCATT
18165006 CTTTTTTTTTTTTTAC
1 CTTTTTTTTTTTTT-C
*
18165022 CTTTTTAGTTTTTTTC
1 CTTTTT-TTTTTTTTC
18165038 CTTTTTT
1 CTTTTTT
18165045 AAAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (15 bp):
CTTTTTTTTTTTTTC
Found at i:18165053 original size:11 final size:11
Alignment explanation
Indices: 18165039--18165080 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18165029 GTTTTTTTCC
*
18165039 TTTTTTAAAAA
1 TTTTTTAAATA
18165050 TTTTTT-AATA
1 TTTTTTAAATA
**
18165060 TTTAATAAATA
1 TTTTTTAAATA
18165071 TTTTTTAAAT
1 TTTTTTAAAT
18165081 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:18165085 original size:21 final size:21
Alignment explanation
Indices: 18165044--18165082 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18165034 TTTCCTTTTT
18165044 TAAAAATTTTTTAATATTTAA
1 TAAAAATTTTTTAATATTTAA
*
18165065 TAAATATTTTTTAA-ATTT
1 TAAAAATTTTTTAATATTT
18165083 TAAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAAAATTTTTTAATATTTAA
Found at i:18165394 original size:27 final size:27
Alignment explanation
Indices: 18165359--18165411 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
18165349 ATTTAATTAG
*
18165359 ATAA-ATTTTGCAACAAAAAACTAATAA
1 ATAATATTTTG-AAAAAAAAACTAATAA
* *
18165386 ATAATTTTTTGAAAAAAAAATTAATA
1 ATAATATTTTGAAAAAAAAACTAATA
18165412 GAGGTATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (27 bp):
ATAATATTTTGAAAAAAAAACTAATAA
Found at i:18172716 original size:18 final size:18
Alignment explanation
Indices: 18172693--18172727 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18172683 ACTAAGACTG
18172693 CAAAAG-CAAAAGTAAAAA
1 CAAAAGCCAAAAG-AAAAA
18172711 CAAAAGCCAAAAGAAAA
1 CAAAAGCCAAAAGAAAA
18172728 GATAACTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.71, C:0.14, G:0.11, T:0.03
Consensus pattern (18 bp):
CAAAAGCCAAAAGAAAAA
Done.