Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 15 of 17
Found at i:1542010 original size:20 final size:20
Alignment explanation
Indices: 1541985--1542024 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1541975 GGAGATAATT
1541985 TTATTAACGCTAAGCAGCAC
1 TTATTAACGCTAAGCAGCAC
1542005 TTATTAACGCTAAGCAGCAC
1 TTATTAACGCTAAGCAGCAC
1542025 CTCAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
TTATTAACGCTAAGCAGCAC
Found at i:1544836 original size:2 final size:2
Alignment explanation
Indices: 1544831--1544865 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1544821 TTCTCTCAAA
*
1544831 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1544866 GCATGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1549218 original size:2 final size:2
Alignment explanation
Indices: 1549206--1549243 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1549196 TTGATAAAAC
*
1549206 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1549244 GTTTCAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1550268 original size:17 final size:17
Alignment explanation
Indices: 1550217--1550278 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 17
1550207 TATATATTAG
* *
1550217 AAATTTTTAATATCAAAT
1 AAATATTTAATA-AAAAT
* *
1550235 AAATATTAAAT-ATAAT
1 AAATATTTAATAAAAAT
1550251 AAATATTTAATAAAAAT
1 AAATATTTAATAAAAAT
* *
1550268 ATACATTTAAT
1 AAATATTTAAT
1550279 TAAATGGCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 13 0.37
17 13 0.37
18 9 0.26
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATTTAATAAAAAT
Found at i:1551309 original size:17 final size:17
Alignment explanation
Indices: 1551264--1551301 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1551254 TTATTGAATT
*
1551264 TAATTATTAAAAT-AAA
1 TAATTATTAATATAAAA
1551280 TAATTATTAATATAAAA
1 TAATTATTAATATAAAA
1551297 TAATT
1 TAATT
1551302 TTTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATTATTAATATAAAA
Found at i:1551890 original size:17 final size:18
Alignment explanation
Indices: 1551861--1551911 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
1551851 ACTAATCAAC
1551861 TTTA-AAAATAAAATTAA
1 TTTATAAAATAAAATTAA
1551878 TTTATAAAA-AAAATTAA
1 TTTATAAAATAAAATTAA
* *
1551895 ATTATTAACATAAAATT
1 TTTA-TAAAATAAAATT
1551912 TTTATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 15 0.52
18 8 0.28
19 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTATAAAATAAAATTAA
Found at i:1554634 original size:8 final size:9
Alignment explanation
Indices: 1554597--1554631 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
1554587 TTGTATCTTT
1554597 ATATTTTTA
1 ATATTTTTA
*
1554606 TTATTTTTA
1 ATATTTTTA
1554615 ATATTTTTTA
1 ATA-TTTTTA
1554625 ATATTTT
1 ATATTTT
1554632 AATTCCTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATATTTTTA
Found at i:1558797 original size:36 final size:38
Alignment explanation
Indices: 1558716--1558797 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
1558706 AATTTTTCTG
* * *
1558716 ATAATTTATTTTAAAAATAATGCTCATAATTAAATACTA
1 ATAA-TTATTTTAAAAATAATGATAATAATTAAATACAA
*
1558755 AT-ATTATTTTAAAAATTATGATAAT-ATTAAATA-AA
1 ATAATTATTTTAAAAATAATGATAATAATTAAATACAA
1558790 ATAATTAT
1 ATAATTAT
1558798 AAATATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
35 3 0.08
36 13 0.34
37 19 0.50
38 1 0.03
39 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (38 bp):
ATAATTATTTTAAAAATAATGATAATAATTAAATACAA
Found at i:1559094 original size:14 final size:14
Alignment explanation
Indices: 1559077--1559117 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
1559067 AATATTTATC
1559077 TTTTATAAATAAAA
1 TTTTATAAATAAAA
* *
1559091 TTTTA-AATTTAAA
1 TTTTATAAATAAAA
1559104 TTTTATAAATAAAA
1 TTTTATAAATAAAA
1559118 AATTTATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTTATAAATAAAA
Found at i:1559131 original size:28 final size:27
Alignment explanation
Indices: 1559057--1559123 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
1559047 GTGATTAATT
**
1559057 TAAATAATTTAATATTTATCTTTTATAAA
1 TAAA-AATTTAA-ATTTAAATTTTATAAA
*
1559086 TAAAATTTTAAATTTAAATTTTATAAA
1 TAAAAATTTAAATTTAAATTTTATAAA
1559113 TAAAAAATTTA
1 T-AAAAATTTA
1559124 TCATTAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 15 0.45
28 14 0.42
29 4 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TAAAAATTTAAATTTAAATTTTATAAA
Found at i:1560237 original size:19 final size:19
Alignment explanation
Indices: 1560213--1560263 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
1560203 TTTAAATGTG
1560213 ATATAATTATAAAATATAA
1 ATATAATTATAAAATATAA
*
1560232 ATATAATTA-AAAAAATAA
1 ATATAATTATAAAATATAA
* *
1560250 GTA-AAATATAAAAT
1 ATATAATTATAAAAT
1560264 GATACAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.15
18 14 0.52
19 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
ATATAATTATAAAATATAA
Found at i:1561172 original size:2 final size:2
Alignment explanation
Indices: 1561165--1561202 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1561155 AACTTTATTT
*
1561165 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1561203 AAGAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1561974 original size:36 final size:36
Alignment explanation
Indices: 1561927--1562025 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 36
1561917 TTTATTTTAT
1561927 TATTTATTATATTATTAAAATAATATTTTAATAAAAA
1 TATTTA-TATATTATTAAAATAATATTTTAATAAAAA
* * *
1561964 TATTTATATATTTTTATAATTAA-ATTTAAATAAAAA
1 TATTTATATATTATTA-AAATAATATTTTAATAAAAA
* *
1562000 TAATT-T-TATTATT-AAATAATAATTTA
1 TATTTATATATTATTAAAATAATATTTTA
1562026 GATTAAATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
32 5 0.10
33 4 0.08
34 6 0.12
35 1 0.02
36 25 0.48
37 11 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
TATTTATATATTATTAAAATAATATTTTAATAAAAA
Found at i:1562224 original size:11 final size:11
Alignment explanation
Indices: 1562208--1562246 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1562198 TTTAGCTTAA
*
1562208 TAAATTTAATT
1 TAAATTTAAAT
1562219 TAAA-TTAAAT
1 TAAATTTAAAT
*
1562229 TAAATTTAAAA
1 TAAATTTAAAT
1562240 TAAATTT
1 TAAATTT
1562247 TTATAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:1562229 original size:16 final size:16
Alignment explanation
Indices: 1562206--1562246 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
1562196 TATTTAGCTT
1562206 AATAAATTTAATTTAA
1 AATAAATTTAATTTAA
* *
1562222 ATTAAATTAAATTTAA
1 AATAAATTTAATTTAA
1562238 AATAAATTT
1 AATAAATTT
1562247 TTATAATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTAATTTAA
Found at i:1562491 original size:3 final size:3
Alignment explanation
Indices: 1562483--1562523 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1562473 AAAATAAATA
1562483 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1562524 ACGCAAGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1562849 original size:19 final size:20
Alignment explanation
Indices: 1562827--1562874 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
1562817 ATTTAAGTTA
1562827 ATTTAAATTATTTT-TATAT
1 ATTTAAATTATTTTATATAT
*
1562846 ATTTAAATT-TTTTATTTAT
1 ATTTAAATTATTTTATATAT
1562865 ATTT-AATTAT
1 ATTTAAATTAT
1562875 AAATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTAAATTATTTTATATAT
Found at i:1563471 original size:15 final size:13
Alignment explanation
Indices: 1563414--1563476 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
1563404 AATAGTAATA
*
1563414 ATTATATTTTTAT
1 ATTATATTTATAT
1563427 ATTATATTTATAT
1 ATTATATTTATAT
1563440 ATTTTATTATTTAATAT
1 A--TTA-TATTT-ATAT
*
1563457 ATTAATAATT-TAT
1 ATT-ATATTTATAT
1563470 ATTATAT
1 ATTATAT
1563477 AAATTTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
12 3 0.07
13 19 0.45
15 9 0.21
16 6 0.14
17 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATTTATAT
Found at i:1563492 original size:25 final size:26
Alignment explanation
Indices: 1563410--1563499 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 26
1563400 CGAAAATAGT
* * * *
1563410 AATAATTATATTTTTATATTATATTTA
1 AATATTTATA-TTATATAATATATTAA
* *
1563437 TATATTT-TATTATTTAATATATTAA
1 AATATTTATATTATATAATATATTAA
* *
1563462 TA-ATTTATATTATATAA-ATTTTAA
1 AATATTTATATTATATAATATATTAA
1563486 AATATTTATATTAT
1 AATATTTATATTAT
1563500 GATTTACTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
24 11 0.21
25 34 0.65
26 2 0.04
27 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
AATATTTATATTATATAATATATTAA
Found at i:1563977 original size:18 final size:18
Alignment explanation
Indices: 1563936--1563974 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1563926 ATTTTTGTTA
1563936 TTAAT-ATATAATAATTT
1 TTAATAATATAATAATTT
*
1563953 TTAATAATATGATAATTAT
1 TTAATAATATAATAATT-T
1563972 TTA
1 TTA
1563975 TAAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAATAATATAATAATTT
Found at i:1564854 original size:32 final size:35
Alignment explanation
Indices: 1564817--1564885 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 35
1564807 TGAGTACATG
1564817 AATATATTGAAAA-ATATATAAA-ATA-AAT-TATT
1 AATATATT-AAAATATATATAAATATATAATATATT
*
1564849 AATATATTAAAATTTATATAAATATATAATATATT
1 AATATATTAAAATATATATAAATATATAATATATT
1564884 AA
1 AA
1564886 ATTTAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 4 0.12
32 16 0.50
33 3 0.09
34 3 0.09
35 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (35 bp):
AATATATTAAAATATATATAAATATATAATATATT
Found at i:1564899 original size:27 final size:27
Alignment explanation
Indices: 1564839--1564890 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1564829 AATATATAAA
1564839 ATAAAT-TATTAATATATTAAAATTTAT
1 ATAAATATA-TAATATATTAAAATTTAT
1564866 ATAAATATATAATATATT-AAATTTA
1 ATAAATATATAATATATTAAAATTTA
1564891 ATTATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.29
27 15 0.62
28 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATAAATATATAATATATTAAAATTTAT
Found at i:1564906 original size:27 final size:27
Alignment explanation
Indices: 1564849--1564906 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
1564839 ATAAATTATT
* *
1564849 AATATATTAAAATTTATATAAATATAT
1 AATATATTAAAATTTATATAAATAAAA
1564876 AATATATT-AAATTTA-ATTATAATAAAA
1 AATATATTAAAATTTATA-TA-AATAAAA
1564903 AATA
1 AATA
1564907 ATACGAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 9 0.33
27 17 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AATATATTAAAATTTATATAAATAAAA
Found at i:1566188 original size:20 final size:20
Alignment explanation
Indices: 1566163--1566203 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1566153 TTTTATATTT
1566163 GTTTGTCATATATCTAAATA
1 GTTTGTCATATATCTAAATA
*
1566183 GTTTGTTATATATCTAAATA
1 GTTTGTCATATATCTAAATA
1566203 G
1 G
1566204 CTCAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (20 bp):
GTTTGTCATATATCTAAATA
Found at i:1567473 original size:24 final size:24
Alignment explanation
Indices: 1567444--1567492 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
1567434 TAATTTTTTA
1567444 AATTTTTTTATTTTAAATC-AATT
1 AATTTTTTTATTTTAAATCAAATT
*
1567467 AATTTTTTTATTTTAAGTCAAATT
1 AATTTTTTTATTTTAAATCAAATT
1567491 AA
1 AA
1567493 ACTAGCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTTTTTTATTTTAAATCAAATT
Found at i:1567544 original size:21 final size:21
Alignment explanation
Indices: 1567518--1567567 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
1567508 TTTGACGAAG
*
1567518 AGACTTGGACTTGGTACTGGT
1 AGACTTGGACTTGGTACTAGT
1567539 AGACTTGGACTTGGTACTAGT
1 AGACTTGGACTTGGTACTAGT
1567560 AGA-TTGGA
1 AGACTTGGA
1567568 TTGACCAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (21 bp):
AGACTTGGACTTGGTACTAGT
Found at i:1568201 original size:11 final size:11
Alignment explanation
Indices: 1568182--1568212 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1568172 AGTTATGATT
*
1568182 ATATGATATAA
1 ATATAATATAA
1568193 ATATAATATAA
1 ATATAATATAA
1568204 ATATAATAT
1 ATATAATAT
1568213 TATATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
ATATAATATAA
Found at i:1568241 original size:17 final size:16
Alignment explanation
Indices: 1568192--1568242 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
1568182 ATATGATATA
1568192 AATA-TAATATAAATAT
1 AATATTAATATAAA-AT
*
1568208 AATATTATATAAAAAAT
1 AATATTA-ATATAAAAT
1568225 AATATTAATATATAAAT
1 AATATTAATATA-AAAT
1568242 A
1 A
1568243 TTTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.27
17 16 0.53
18 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATTAATATAAAAT
Found at i:1568242 original size:14 final size:14
Alignment explanation
Indices: 1568225--1568295 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
1568215 TATAAAAAAT
1568225 AATATTAATATATA
1 AATATTAATATATA
1568239 AATATT--T-TA-A
1 AATATTAATATATA
1568249 AAT-TTATATTATATA
1 AATATTA-A-TATATA
1568264 AATTATTAATATATTA
1 AA-TATTAATATA-TA
1568280 AA-ATT--TATATA
1 AATATTAATATATA
1568291 AATAT
1 AATAT
1568296 AATTTATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 22
0.68 0.00 0.32
Matches are distributed among these distances:
9 2 0.04
10 4 0.09
11 6 0.13
12 7 0.15
13 1 0.02
14 11 0.23
15 7 0.15
16 6 0.13
17 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTAATATATA
Found at i:1568250 original size:28 final size:29
Alignment explanation
Indices: 1568182--1568276 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 29
1568172 AGTTATGATT
* *
1568182 ATATGATATAAATATAATA-TAA-ATATA
1 ATATTATATAAAAATAATATTAATATATA
1568209 ATATTATATAAAAAATAATATTAATATATAA
1 ATATTATAT-AAAAATAATATTAATATAT-A
* *
1568240 ATATT-T-TAAAATTTATATT-ATATA-A
1 ATATTATATAAAAATAATATTAATATATA
1568265 ATTATTAATATA
1 A-TATT-ATATA
1568277 TTAAAATTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
25 2 0.04
26 4 0.07
27 13 0.23
28 20 0.36
29 6 0.11
30 5 0.09
31 6 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
ATATTATATAAAAATAATATTAATATATA
Found at i:1568296 original size:20 final size:19
Alignment explanation
Indices: 1568233--1568295 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
1568223 ATAATATTAA
*
1568233 TATATAAATATTTTAAAATT
1 TATAT-AATATATTAAAATT
1568253 TATAT--TATA-T-AAA-T
1 TATATAATATATTAAAATT
1568267 TAT-TAATATATTAAAATT
1 TATATAATATATTAAAATT
1568285 TATATAA-ATAT
1 TATATAATATAT
1568296 AATTTATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 1 0.03
14 4 0.11
15 7 0.19
16 2 0.06
17 6 0.17
18 8 0.22
19 3 0.08
20 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATAATATATTAAAATT
Found at i:1568303 original size:33 final size:32
Alignment explanation
Indices: 1568223--1568303 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
1568213 TATATAAAAA
* * *
1568223 ATAATATTAATATATAAATATTTTAAAATTTAT
1 ATAATA-TAATTTATTAATATATTAAAATTTAT
* *
1568256 ATTATATAAATTATTAATATATTAAAATTTAT
1 ATAATATAATTTATTAATATATTAAAATTTAT
1568288 ATAAATATAATTTATT
1 AT-AATATAATTTATT
1568304 TTAAACACAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 24 0.60
33 16 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTAATATATTAAAATTTAT
Found at i:1568838 original size:17 final size:17
Alignment explanation
Indices: 1568816--1568853 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1568806 ATGCATCTTC
*
1568816 AAATAACCCGATAGATT
1 AAATAACCCGATAGAAT
*
1568833 AAATAACTCGATAGAAT
1 AAATAACCCGATAGAAT
1568850 AAAT
1 AAAT
1568854 CTACTAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (17 bp):
AAATAACCCGATAGAAT
Found at i:1570392 original size:21 final size:19
Alignment explanation
Indices: 1570368--1570439 Score: 74
Period size: 18 Copynumber: 3.7 Consensus size: 19
1570358 AAATAATAAG
1570368 TTATTAATATAATAATATTA
1 TTATT-ATATAATAATATTA
* * * *
1570388 TTTATTATTTGATAAAAGTA
1 -TTATTATATAATAATATTA
1570408 TT-TTATATAATAATATTA
1 TTATTATATAATAATATTA
*
1570426 TTATTCTATAATAA
1 TTATTATATAATAA
1570440 ATTGTGACAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
18 14 0.34
19 12 0.29
20 10 0.24
21 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (19 bp):
TTATTATATAATAATATTA
Found at i:1570982 original size:30 final size:30
Alignment explanation
Indices: 1570946--1571024 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
1570936 AAAAAATTAT
* * *
1570946 TTTAATAATTATATATTAATAGAATTAATA
1 TTTAATAATAATATATGAATAGAAATAATA
* *
1570976 TTTAATAAAAATATATGAATATAAATAATA
1 TTTAATAATAATATATGAATAGAAATAATA
1571006 TTTAATAATAAT-TAT-AATA
1 TTTAATAATAATATATGAATA
1571025 TTTTAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 4 0.09
29 3 0.07
30 36 0.84
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTAATAATAATATATGAATAGAAATAATA
Found at i:1571053 original size:16 final size:15
Alignment explanation
Indices: 1571014--1571055 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
1571004 TATTTAATAA
1571014 TAATTA-TAATATTT
1 TAATTATTAATATTT
1571028 TAATTATTAATATTAT
1 TAATTATTAATATT-T
1571044 TAAGTT-TTAATA
1 TAA-TTATTAATA
1571056 ATAAAAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.24
15 7 0.28
16 10 0.40
17 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TAATTATTAATATTT
Found at i:1576371 original size:2 final size:2
Alignment explanation
Indices: 1576364--1576392 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1576354 TCGGTATACA
1576364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1576393 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1576397 original size:2 final size:2
Alignment explanation
Indices: 1576392--1576426 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1576382 ATATATATAT
1576392 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1576427 CGTAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1580956 original size:2 final size:2
Alignment explanation
Indices: 1580943--1580975 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1580933 TACAAATTAC
*
1580943 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1580976 CACACGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1581529 original size:15 final size:15
Alignment explanation
Indices: 1581511--1581557 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
1581501 TAAATGATAT
*
1581511 ATAAATATGATATAA
1 ATAAATATTATATAA
1581526 ATAAA-ATTATA-AA
1 ATAAATATTATATAA
1581539 ATATAATATTATATAA
1 ATA-AATATTATATAA
1581555 ATA
1 ATA
1581558 TATTATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 11 0.39
16 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAAATATTATATAA
Found at i:1581568 original size:11 final size:12
Alignment explanation
Indices: 1581544--1581581 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
1581534 ATAAAATATA
1581544 ATATTATATAAAT
1 ATATTATAT-AAT
1581557 ATATTAT-TAAT
1 ATATTATATAAT
1581568 AT-TTATATAAT
1 ATATTATATAAT
1581579 ATA
1 ATA
1581582 AATTATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.17
11 11 0.48
12 1 0.04
13 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTATATAAT
Found at i:1581570 original size:22 final size:22
Alignment explanation
Indices: 1581534--1581599 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 22
1581524 AAATAAAATT
*
1581534 ATAAAATA-TAATATTATATAA
1 ATAAATTATTAATATTATATAA
*
1581555 ATATATTATTAATATTTATATAA
1 ATAAATTATTAATA-TTATATAA
1581578 TATAAATTATTAAT-TTAT-TAA
1 -ATAAATTATTAATATTATATAA
1581599 A
1 A
1581600 ATTTGATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 9 0.23
22 9 0.23
23 8 0.21
24 12 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTAATATTATATAA
Found at i:1581600 original size:61 final size:64
Alignment explanation
Indices: 1581530--1581662 Score: 145
Period size: 61 Copynumber: 2.1 Consensus size: 64
1581520 ATATAAATAA
* *
1581530 AATTA-TAAAATATAATAT-TATATAAATATATTATTAA-TAT-TTAT-ATAATAT-AAAT-TAT
1 AATTATTAAAATATAATATAAATATAAA-ATATT-TTAATTATATTATAATAAAATAAAATATAT
1581588 T
64 T
* *
1581589 AATTTATTAAAATTTGATATAAATATAAAATATTTTAATTATAATTATAATAAAATAAAATATAT
1 AA-TTATTAAAATATAATATAAATATAAAATATTTTAATTAT-ATTATAATAAAATAAAATATAT
1581654 T
64 T
1581655 AATTATTA
1 AATTATTA
1581663 TATATATACA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
59 2 0.03
60 7 0.11
61 19 0.31
62 7 0.11
63 4 0.07
64 6 0.10
65 10 0.16
66 6 0.10
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (64 bp):
AATTATTAAAATATAATATAAATATAAAATATTTTAATTATATTATAATAAAATAAAATATATT
Found at i:1582002 original size:22 final size:23
Alignment explanation
Indices: 1581975--1582025 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1581965 TTTTAAATTT
1581975 ATATATATATAATT-ATATTATTAA
1 ATATATATA-AATTAAT-TTATTAA
1581999 ATATA-ATAAATTAATTTATTAA
1 ATATATATAAATTAATTTATTAA
1582021 A-ATAT
1 ATATAT
1582026 CAATTTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 3 0.12
22 12 0.48
23 5 0.20
24 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATATAAATTAATTTATTAA
Found at i:1585188 original size:3 final size:3
Alignment explanation
Indices: 1585180--1585204 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1585170 TTAGAGATGG
1585180 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1585205 AGTATCCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1585922 original size:48 final size:48
Alignment explanation
Indices: 1585846--1585968 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 48
1585836 AGTTGACTTA
* *
1585846 ATTTAAGTT-TTT-AAATTTTAAATCATTTTATA-TTTAAATTATT-TAG
1 ATTTAAATTATTTCAAA-TTTAAATTATTTTA-AGTTTAAATTATTCTAG
* * * *
1585892 AGTTTGAATTATTTCAAGTTTAATTTATTTTAAGTTTAAATTATTCTTG
1 A-TTTAAATTATTTCAAATTTAAATTATTTTAAGTTTAAATTATTCTAG
*
1585941 ATTTAAATTATTTTAAATTTAAATTATT
1 ATTTAAATTATTTCAAATTTAAATTATT
1585969 CAGTTTTAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
46 1 0.02
47 7 0.11
48 49 0.79
49 5 0.08
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (48 bp):
ATTTAAATTATTTCAAATTTAAATTATTTTAAGTTTAAATTATTCTAG
Found at i:1585945 original size:16 final size:17
Alignment explanation
Indices: 1585856--1585969 Score: 80
Period size: 16 Copynumber: 7.0 Consensus size: 17
1585846 ATTTAAGTTT
*
1585856 TTAAATTTTAAATCATT-
1 TTAAA-TTTAAATTATTC
*
1585873 TTATATTTAAATTA-T-
1 TTAAATTTAAATTATTC
* *
1585888 TTAGAGTTTGAATTATT-
1 TTA-AATTTAAATTATTC
* * *
1585905 TCAAGTTTAATTTATT-
1 TTAAATTTAAATTATTC
*
1585921 TTAAGTTTAAATTATTC
1 TTAAATTTAAATTATTC
*
1585938 TT-GATTTAAATTATT-
1 TTAAATTTAAATTATTC
1585953 TTAAATTTAAATTATTC
1 TTAAATTTAAATTATTC
1585970 AGTTTTAAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
15 6 0.08
16 64 0.81
17 9 0.11
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (17 bp):
TTAAATTTAAATTATTC
Found at i:1588142 original size:26 final size:27
Alignment explanation
Indices: 1588113--1588164 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
1588103 TTGTAATCTT
*
1588113 ATTTAAGATATTAAT-ACTTATATAAA
1 ATTTAAAATATTAATAACTTATATAAA
*
1588139 ATTTAAAATATTAATAATTTATATAA
1 ATTTAAAATATTAATAACTTATATAA
1588165 CATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTTAAAATATTAATAACTTATATAAA
Found at i:1588207 original size:19 final size:18
Alignment explanation
Indices: 1588185--1588227 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
1588175 AATGTATTCG
1588185 TATTTTCATATTATATTAA
1 TATTTTCATATTATATT-A
* *
1588204 TATTTTTATTTTATATTA
1 TATTTTCATATTATATTA
1588222 TATTTT
1 TATTTT
1588228 AATTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTCATATTATATTA
Found at i:1588238 original size:11 final size:12
Alignment explanation
Indices: 1588185--1588247 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
1588175 AATGTATTCG
1588185 TATTTTCATATTA
1 TATTTT-ATATTA
* *
1588198 TA-TTAATATTTT
1 TATTTTATA-TTA
1588210 TATTTTATATTA
1 TATTTTATATTA
1588222 TATTTTA-ATTA
1 TATTTTATATTA
* *
1588233 TTTTTTATATCA
1 TATTTTATATTA
1588245 TAT
1 TAT
1588248 ATAAAGTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
11 13 0.32
12 20 0.50
13 7 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTTATATTA
Found at i:1592644 original size:16 final size:15
Alignment explanation
Indices: 1592623--1592679 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 15
1592613 AATAATTTAC
1592623 TATATTTTTACTATTT
1 TATA-TTTTACTATTT
1592639 TATA-TTTACT-TATT
1 TATATTTTACTAT-TT
1592653 TATATGTTTACTATTTT
1 TATAT-TTTACTA-TTT
1592670 TAATATTTTA
1 T-ATATTTTA
1592680 TTTTTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.03
14 12 0.34
16 10 0.29
17 7 0.20
18 5 0.14
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (15 bp):
TATATTTTACTATTT
Found at i:1592648 original size:14 final size:14
Alignment explanation
Indices: 1592629--1592689 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 14
1592619 TTACTATATT
1592629 TTTACTATTTTATA
1 TTTACTATTTTATA
*
1592643 TTTACTTATTTATATG
1 TTTAC-TATTT-TATA
1592659 TTTACTATTTTTAATA
1 TTTACTA-TTTT-ATA
1592675 TTT--TATTTT-TA
1 TTTACTATTTTATA
1592686 TTTA
1 TTTA
1592690 TTTGAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
11 5 0.12
13 4 0.10
14 7 0.17
15 8 0.20
16 16 0.40
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTACTATTTTATA
Found at i:1592716 original size:15 final size:15
Alignment explanation
Indices: 1592698--1592740 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
1592688 TATTTGAAGT
1592698 TTAAAATTT-TAGATA
1 TTAAAATTTATA-ATA
*
1592713 TTAAATATTTATAATT
1 TTAAA-ATTTATAATA
1592729 TTAAAATTTATA
1 TTAAAATTTATA
1592741 TTTTCATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAAAATTTATAATA
Found at i:1593007 original size:2 final size:2
Alignment explanation
Indices: 1593000--1593032 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1592990 AACTTACATA
1593000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1593033 AAGAAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1593239 original size:16 final size:15
Alignment explanation
Indices: 1593218--1593256 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
1593208 AGACTTAATC
1593218 AAATAATTTAATTTAT
1 AAATAATTTAATTT-T
1593234 AAATAAATTTAATTTT
1 AAAT-AATTTAATTTT
1593250 AAATAAT
1 AAATAAT
1593257 ATATGTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATAATTTAATTTT
Found at i:1593244 original size:17 final size:16
Alignment explanation
Indices: 1593218--1593255 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1593208 AGACTTAATC
1593218 AAAT-AATTTAATTTAT
1 AAATAAATTTAATTT-T
1593234 AAATAAATTTAATTTT
1 AAATAAATTTAATTTT
1593250 AAATAA
1 AAATAA
1593256 TATATGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATAAATTTAATTTT
Found at i:1593688 original size:27 final size:28
Alignment explanation
Indices: 1593635--1593690 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
1593625 AACTTAATTC
**
1593635 AAATTATAATTTAATAAAATTTTTATTT
1 AAATTATAATTTAATAAAATTAATATTT
1593663 AAATT-TAATTATAA-AAAATTAATATTT
1 AAATTATAATT-TAATAAAATTAATATTT
1593690 A
1 A
1593691 TATAACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATTATAATTTAATAAAATTAATATTT
Found at i:1594151 original size:21 final size:22
Alignment explanation
Indices: 1594094--1594154 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 22
1594084 ATTGAATGGA
* *
1594094 TAAAAATTAATTTATATATATTT
1 TAAAATTTTATTT-TATATATTT
1594117 TAAAATTTTA-TTTATA-ATTT
1 TAAAATTTTATTTTATATATTT
1594137 TAAAATTTTATTTTATAT
1 TAAAATTTTATTTTATAT
1594155 TAAAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 14 0.41
21 10 0.29
22 2 0.06
23 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAAATTTTATTTTATATATTT
Found at i:1594162 original size:19 final size:21
Alignment explanation
Indices: 1594094--1594167 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
1594084 ATTGAATGGA
*
1594094 TAAAAA-TTAATTTATATATATT
1 TAAAAATTTTATTT-TATA-ATT
*
1594116 TTAAAATTTTA-TTTATAATT
1 TAAAAATTTTATTTTATAATT
*
1594136 TTAAAATTTTATTTTAT-A-T
1 TAAAAATTTTATTTTATAATT
*
1594155 TAAAAATTATATT
1 TAAAAATTTTATT
1594168 ATTAAGTTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 12 0.26
20 15 0.33
21 9 0.20
22 7 0.15
23 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TAAAAATTTTATTTTATAATT
Found at i:1596553 original size:20 final size:20
Alignment explanation
Indices: 1596506--1596556 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1596496 GTTGGGCACA
* *
1596506 ATGTATCAATACAATTTACC
1 ATGTATCGATACAATGTACC
*
1596526 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTACC
1596546 ATGTATCGATA
1 ATGTATCGATA
1596557 TCTTTCACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1596606 original size:13 final size:13
Alignment explanation
Indices: 1596588--1596614 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1596578 TGTCAGTTTC
1596588 ATGTATCGATACA
1 ATGTATCGATACA
1596601 ATGTATCGATACA
1 ATGTATCGATACA
1596614 A
1 A
1596615 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1599175 original size:13 final size:13
Alignment explanation
Indices: 1599157--1599191 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1599147 AGTAACCCTA
1599157 TATCGATACAATG
1 TATCGATACAATG
*
1599170 TATCGATATAATG
1 TATCGATACAATG
*
1599183 TATTGATAC
1 TATCGATAC
1599192 TTAGAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1603460 original size:13 final size:13
Alignment explanation
Indices: 1603442--1603466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1603432 CATTGTTCAT
1603442 TGTATCGATACAA
1 TGTATCGATACAA
1603455 TGTATCGATACA
1 TGTATCGATACA
1603467 TTCTGGGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1603509 original size:20 final size:19
Alignment explanation
Indices: 1603484--1603637 Score: 200
Period size: 20 Copynumber: 7.7 Consensus size: 19
1603474 TTTACCTAGA
1603484 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
1603504 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
1603524 TATATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
1603544 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
1603564 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
1603584 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
1603604 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
1603624 TGTATCGATACATT
1 TGTATCGATACATT
1603638 CGGGCATTTT
Statistics
Matches: 119, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.03
20 113 0.95
21 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:1603541 original size:40 final size:40
Alignment explanation
Indices: 1603484--1603637 Score: 281
Period size: 40 Copynumber: 3.9 Consensus size: 40
1603474 TTTACCTAGA
1603484 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
*
1603524 TATATCGATACATTTTGCATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
1603564 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
* *
1603604 TGTATCGATACATTTTACAATGTATCGATACATT
1 TGTATCGATACATTTTGCATTGTATCGATACATT
1603638 CGGGCATTTT
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (40 bp):
TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
Found at i:1605994 original size:51 final size:51
Alignment explanation
Indices: 1605919--1606097 Score: 209
Period size: 51 Copynumber: 3.5 Consensus size: 51
1605909 AAATTTCTAG
* * * *
1605919 ATTTTTCAT-CTCGGGGATACTCCAA-TCCCGATTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGAGATACTCCAACT-CCGATTTTATTTCCAAAACACCA
* * *
1605969 ATTTTTCTTAATCGGAGATACTCCAACTCCGATTTTATTTCTAAAACACCT
1 ATTTTTCATAATCGGAGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* * * *
1606020 ATTTTCCATAATCGGAGATACTCCAACTCTGATTTTATTTTCAAAACACCG
1 ATTTTTCATAATCGGAGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* * *
1606071 ACTTTTCACAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGAGATACTCCAAC
1606098 CCTGTTATTT
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 8 0.07
51 101 0.92
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGAGATACTCCAACTCCGATTTTATTTCCAAAACACCA
Found at i:1606172 original size:76 final size:79
Alignment explanation
Indices: 1606080--1606255 Score: 211
Period size: 76 Copynumber: 2.3 Consensus size: 79
1606070 GACTTTTCAC
1606080 AATCGGGGATACTCCAACCCT-GTTA-TTTCTGAGAGGAACACGCCAACCCCGGTTTTA-TTGTA
1 AATCGGGGATACTCCAACCCTCGTTATTTTC-GA-AGGAACACGCCAACCCCGGTTTTATTTGTA
1606142 AAACATCAATTT-T-T
64 AAACATCAATTTCTAT
* * * * *
1606156 CATCGGGGATACTCCAA-CCTCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTTTAAA
1 AATCGGGGATACTCCAACCCTCGTTATTTTCGAAGGAACACGCCAACCCCGGTTTTATTTGTAAA
* *
1606220 ATATTAATTTCTCAT
66 ACATCAATTTCT-AT
*
1606235 AATCGGGGATACTCTAACCCT
1 AATCGGGGATACTCCAACCCT
1606256 AGTTTTATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
75 24 0.29
76 36 0.43
77 5 0.06
79 16 0.19
80 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (79 bp):
AATCGGGGATACTCCAACCCTCGTTATTTTCGAAGGAACACGCCAACCCCGGTTTTATTTGTAAA
ACATCAATTTCTAT
Found at i:1606265 original size:51 final size:51
Alignment explanation
Indices: 1606189--1606302 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
1606179 TATTTTCGAA
* * * *
1606189 GGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTCTCATAATCG
1 GGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCATAATCG
* * * *
1606240 GGGATACTCTAACCCTAGTTTTATTTCTAAAACATCAATTTTTCATAGTCG
1 GGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCATAATCG
*
1606291 GAGATACTCCAA
1 GGGATACTCCAA
1606303 TCCCGTTATT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (51 bp):
GGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTCTCATAATCG
Found at i:1606326 original size:79 final size:78
Alignment explanation
Indices: 1606239--1606413 Score: 246
Period size: 79 Copynumber: 2.2 Consensus size: 78
1606229 TCTCATAATC
* * * *
1606239 GGGGATACTCTAA-CCCTAGTTTTATTTCTAAAACATCAATTTTTCATAGTCGGAGATACTCCAA
1 GGGGATACTCCAATCCCGA-TTTTATTTCTAAAACATCAATTTTTCACAATCGG-GATACTCCAA
1606303 TCC-CGTTATTTTCGA
64 -CCTCGTTATTTTCGA
* *
1606318 GGGGATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGATACTCCAACC
1 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGATACTCCAACC
1606383 TCGTTATTTTCGA
66 TCGTTATTTTCGA
*
1606396 GGAGATACTCCAATCCCG
1 GGGGATACTCCAATCCCG
1606414 TTATTATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
77 2 0.02
78 39 0.45
79 42 0.48
80 4 0.05
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGATACTCCAACC
TCGTTATTTTCGA
Found at i:1606362 original size:206 final size:207
Alignment explanation
Indices: 1605982--1606413 Score: 504
Period size: 206 Copynumber: 2.1 Consensus size: 207
1605972 TTTCTTAATC
* *
1605982 GGAGATACTCCAACTCCGATTTTATTTCTAAAACACCTATTTTCCATAATCGGAGATACTCCAAC
1 GGAGATACTCCAACCCCGATTTTATTTCTAAAACACCTAATTTCCATAATCGGAGATACTCCAAC
* * *
1606047 TCTGATTTTATTTTCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGA
66 CCTGATTTTATTTTCAAAACACCAACTTTTCACAATCGGAGATACTCCAACCCTGTTATTTCTGA
* *
1606112 GAGGAACACGCCAACCCCGGTTTTATTGTAAAACATCAATTTTT-C-ATCGGGGATACTCCAACC
131 GAGGAACACGCCAACCCCGATTTTATTCTAAAACATCAATTTTTACAATC-GGGATACTCCAACC
1606175 TCGTTATTTTCGAA
195 TCGTTATTTTCG-A
* * * * * *
1606189 GG-GATACTCCAACCCCGGTTTTATTTTTAAAATA-TTAATTTCTCATAATCGGGGATACTCTAA
1 GGAGATACTCCAACCCCGATTTTATTTCTAAAACACCTAATTTC-CATAATCGGAGATACTCCAA
* * * *
1606252 CCCT-AGTTTTA-TTTCTAAAACATCAATTTTTCATAGTCGGAGATACTCCAATCCC-GTTATTT
65 CCCTGA-TTTTATTTTC-AAAACACCAACTTTTCACAATCGGAGATACTCCAA-CCCTGTTATTT
* * * * * *
1606314 -TCGAG-GGGATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGATACT
127 CT-GAGAGGAACACGCCAACCCCGATTTTA-TTCTAAAACATCAATTTTT-ACAATCGGGATACT
1606377 CCAACCTCGTTATTTTCGA
189 CCAACCTCGTTATTTTCGA
*
1606396 GGAGATACTCCAATCCCG
1 GGAGATACTCCAACCCCG
1606414 TTATTATCTC
Statistics
Matches: 191, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
205 30 0.16
206 109 0.57
207 8 0.04
208 41 0.21
209 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (207 bp):
GGAGATACTCCAACCCCGATTTTATTTCTAAAACACCTAATTTCCATAATCGGAGATACTCCAAC
CCTGATTTTATTTTCAAAACACCAACTTTTCACAATCGGAGATACTCCAACCCTGTTATTTCTGA
GAGGAACACGCCAACCCCGATTTTATTCTAAAACATCAATTTTTACAATCGGGATACTCCAACCT
CGTTATTTTCGA
Found at i:1606370 original size:130 final size:125
Alignment explanation
Indices: 1606122--1606382 Score: 328
Period size: 130 Copynumber: 2.0 Consensus size: 125
1606112 GAGGAACACG
** * *
1606122 CCAACCCCGGTTTTATTGTAAAACATCAATTTTTCATCGGGGATACTCCAACCTCGTTATTTTCG
1 CCAACCCTAGTTTTATTCTAAAACATCAATTTTTCATCGGAGATACTCCAACCTCGTTATTTTCG
* * * *
1606187 AAGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTCTCATAATCGGGGATACT
66 AAGGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTCTCACAATC-GGGATACT
*
1606248 CTAACCCTAGTTTTATTTCTAAAACATCAATTTTTCATAGTCGGAGATACTCCAATCC-CGTTAT
1 CCAACCCTAGTTTTA-TTCTAAAACATCAATTTTTC--A-TCGGAGATACTCCAA-CCTCGTTAT
* * * *
1606312 TTTCGAGGGGATACTCCAATCCCGATTTTATTTCT-AAATCATCGATTTTTCACAATCGGGATAC
61 TTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAAT-ATCAATTTCTCACAATCGGGATAC
1606376 T
125 T
1606377 CCAACC
1 CCAACC
1606383 TCGTTATTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
126 12 0.10
127 19 0.17
129 18 0.16
130 64 0.56
131 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (125 bp):
CCAACCCTAGTTTTATTCTAAAACATCAATTTTTCATCGGAGATACTCCAACCTCGTTATTTTCG
AAGGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTCTCACAATCGGGATACT
Found at i:1606405 original size:78 final size:79
Alignment explanation
Indices: 1606258--1606413 Score: 244
Period size: 78 Copynumber: 2.0 Consensus size: 79
1606248 CTAACCCTAG
* * *
1606258 TTTTATTTCTAAAACATCAATTTTTCATAGTCGGAGATACTCCAATCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACAATCGGAGATACTCCAATCCCGTTATTTTCGAGGAGA
1606323 TACTCCAATCCCGA
66 TACTCCAATCCCGA
* *
1606337 TTTTATTTCTAAATCATCGATTTTTCACAATCGG-GATACTCCAA-CCTCGTTATTTTCGAGGAG
1 TTTTATTTCTAAAACATCAATTTTTCACAATCGGAGATACTCCAATCC-CGTTATTTTCGAGGAG
1606400 ATACTCCAATCCCG
65 ATACTCCAATCCCG
1606414 TTATTATCTC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
77 2 0.03
78 39 0.55
79 30 0.42
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCAATTTTTCACAATCGGAGATACTCCAATCCCGTTATTTTCGAGGAGA
TACTCCAATCCCGA
Found at i:1608149 original size:13 final size:13
Alignment explanation
Indices: 1608131--1608191 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
1608121 ACAATTTACC
1608131 ATGTATCGATACA
1 ATGTATCGATACA
1608144 ATGTATCGATACA
1 ATGTATCGATACA
*
1608157 A--TATC----CC
1 ATGTATCGATACA
1608164 ATGTATCGATACA
1 ATGTATCGATACA
1608177 ATGTATCGATACA
1 ATGTATCGATACA
1608190 AT
1 AT
1608192 ATCCCATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
9 4 0.10
11 4 0.10
13 30 0.75
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1608155 original size:33 final size:33
Alignment explanation
Indices: 1608118--1608209 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
1608108 ATAATATATG
* *
1608118 GATACAATTTACCATGTATCGATACAATGTATC
1 GATACAATATCCCATGTATCGATACAATGTATC
1608151 GATACAATATCCCATGTATCGATACAATGTATC
1 GATACAATATCCCATGTATCGATACAATGTATC
1608184 GATACAATATCCCATGTATCGATACA
1 GATACAATATCCCATGTATCGATACA
1608210 TTTCACTTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (33 bp):
GATACAATATCCCATGTATCGATACAATGTATC
Found at i:1608169 original size:20 final size:20
Alignment explanation
Indices: 1608144--1608209 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1608134 TATCGATACA
1608144 ATGTATCGATACAATATCCC
1 ATGTATCGATACAATATCCC
1608164 ATGTATCGATAC---A----
1 ATGTATCGATACAATATCCC
1608177 ATGTATCGATACAATATCCC
1 ATGTATCGATACAATATCCC
1608197 ATGTATCGATACA
1 ATGTATCGATACA
1608210 TTTCACTTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
16 1 0.03
17 1 0.03
20 25 0.64
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATATCCC
Found at i:1615091 original size:16 final size:16
Alignment explanation
Indices: 1615072--1615111 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1615062 TTTGAATAAT
1615072 TTAAAA-AGTACAAAGA
1 TTAAAATAGTA-AAAGA
*
1615088 TTAAAATATTAAAAGA
1 TTAAAATAGTAAAAGA
1615104 TTAAAATA
1 TTAAAATA
1615112 CTTTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (16 bp):
TTAAAATAGTAAAAGA
Found at i:1615807 original size:10 final size:9
Alignment explanation
Indices: 1615787--1615877 Score: 50
Period size: 8 Copynumber: 10.1 Consensus size: 9
1615777 GTACAAAATA
1615787 TTATATA-T
1 TTATATATT
1615795 TTATATAATT
1 TTATAT-ATT
1615805 TTA-ATATGT
1 TTATATAT-T
1615814 TTATATA-T
1 TTATATATT
1615822 TTATATAGTAT
1 TTATATA-T-T
*
1615833 TCATATTATT
1 TTATA-TATT
1615843 TT-TATATT
1 TTATATATT
* *
1615851 ATAT-TATA
1 TTATATATT
1615859 TTATAT-TT
1 TTATATATT
*
1615867 TAATTATATT
1 TTA-TATATT
1615877 T
1 T
1615878 ATTTTATATT
Statistics
Matches: 64, Mismatches: 7, Indels: 22
0.69 0.08 0.24
Matches are distributed among these distances:
8 30 0.47
9 14 0.22
10 12 0.19
11 6 0.09
12 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATATATT
Found at i:1615838 original size:27 final size:24
Alignment explanation
Indices: 1615787--1615879 Score: 71
Period size: 27 Copynumber: 3.5 Consensus size: 24
1615777 GTACAAAATA
*
1615787 TTATATATTTATATAATTTTAATATGT
1 TTATATATTTATAT-ATATT-ATAT-T
1615814 TTATATATTTATATAGTATTCATATT
1 TTATATATTTATATA-TATT-ATATT
*
1615840 ATT-TTTATATTATATTATATTATATT
1 -TTATATAT-TTATA-TATATTATATT
1615866 TTAATTATATTTAT
1 TT-A-TATATTTAT
1615880 TTTATATTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 36 0.65
28 6 0.11
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATATATTTATATATATTATATT
Found at i:1615854 original size:5 final size:5
Alignment explanation
Indices: 1615814--1615887 Score: 55
Period size: 5 Copynumber: 14.4 Consensus size: 5
1615804 TTTAATATGT
*
1615814 TTATA -TAT- TTATA -TAGTA TTCATA TTATTT TTATA TTATA TTATA
1 TTATA TTATA TTATA TTA-TA TT-ATA TTA-TA TTATA TTATA TTATA
* *
1615859 TTATA TTTTAA TTATA TTTATT TTATA TT
1 TTATA TTAT-A TTATA -TTATA TTATA TT
1615888 TAACATTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
4 8 0.15
5 29 0.53
6 17 0.31
7 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (5 bp):
TTATA
Found at i:1615873 original size:32 final size:32
Alignment explanation
Indices: 1615784--1615887 Score: 85
Period size: 32 Copynumber: 3.3 Consensus size: 32
1615774 AATGTACAAA
* *
1615784 ATATTATA-TATTTATATAATTTTAA-TATGTTT
1 ATATTATATTATAT-TAT-ATTTTAATTATATTT
* *
1615816 ATA-TAT-TTATA-TAGTA-TTCATATTATTTTT
1 ATATTATATTATATTA-TATTTTA-ATTATATTT
1615846 ATATTATATTATATTATATTTTAATTATATTT
1 ATATTATATTATATTATATTTTAATTATATTT
*
1615878 ATTTTATATT
1 ATATTATATT
1615888 TAACATTATG
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
28 3 0.05
29 4 0.07
30 10 0.17
31 9 0.16
32 27 0.47
33 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.62
Consensus pattern (32 bp):
ATATTATATTATATTATATTTTAATTATATTT
Found at i:1615884 original size:11 final size:11
Alignment explanation
Indices: 1615817--1615889 Score: 80
Period size: 11 Copynumber: 6.7 Consensus size: 11
1615807 AATATGTTTA
1615817 TATATTTATA-
1 TATATTTATAT
*
1615827 TAGTATTCATAT
1 TA-TATTTATAT
*
1615839 TATTTTTATAT
1 TATATTTATAT
1615850 TATA-TTATAT
1 TATATTTATAT
1615860 TATATTT-TAAT
1 TATATTTAT-AT
*
1615871 TATATTTATTT
1 TATATTTATAT
1615882 TATATTTA
1 TATATTTA
1615890 ACATTATGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
10 13 0.25
11 37 0.70
12 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1616262 original size:2 final size:2
Alignment explanation
Indices: 1616257--1616288 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1616247 CAGTGTGTGC
1616257 AT AT AT A- AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1616289 TTTTCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1616555 original size:25 final size:25
Alignment explanation
Indices: 1616510--1616558 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1616500 ATAATAATAA
**
1616510 TAAAAATAATTATTTTGAAAATTTT
1 TAAAAATAATTATTTAAAAAATTTT
1616535 TAAAAATATATT-TTTAAAAAATTT
1 TAAAAATA-ATTATTTAAAAAATTT
1616559 GGTATATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TAAAAATAATTATTTAAAAAATTTT
Found at i:1619287 original size:16 final size:15
Alignment explanation
Indices: 1619266--1619303 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1619256 ATTTTTAATT
1619266 TTTAATTAATATT-TAA
1 TTTAATTAA-ATTAT-A
1619282 TTTAATTAAATTATA
1 TTTAATTAAATTATA
1619297 TTTAATT
1 TTTAATT
1619304 TAAACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATTAAATTATA
Found at i:1623974 original size:27 final size:26
Alignment explanation
Indices: 1623908--1623979 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
1623898 AAAACTACCC
1623908 TTTATTTGTCAAAAATGGTAGTTATT
1 TTTATTTGTCAAAAATGGTAGTTATT
* * *
1623934 TATGTTTGTCAAAAATGGTAGTTTCTT
1 TTTATTTGTCAAAAATGGTAG-TTATT
* *
1623961 TTTATTTATAAAAAATGGT
1 TTTATTTGTCAAAAATGGT
1623980 GGTATGTTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 19 0.50
27 19 0.50
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (26 bp):
TTTATTTGTCAAAAATGGTAGTTATT
Found at i:1624120 original size:39 final size:38
Alignment explanation
Indices: 1624064--1624142 Score: 122
Period size: 39 Copynumber: 2.1 Consensus size: 38
1624054 TCGCACTTCC
* *
1624064 TTCTCAAGCATCCCTCTTTTGTATTCTTCTTTAATTTCT
1 TTCTCAAGCATCCCTCTTTTATATTCCTCTTTAA-TTCT
*
1624103 TTCTCAAGCATCTCTCTTTTATATTCCTCTTTAATTCT
1 TTCTCAAGCATCCCTCTTTTATATTCCTCTTTAATTCT
1624141 TT
1 TT
1624143 TTCATAATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 6 0.16
39 31 0.84
ACGTcount: A:0.16, C:0.25, G:0.04, T:0.54
Consensus pattern (38 bp):
TTCTCAAGCATCCCTCTTTTATATTCCTCTTTAATTCT
Found at i:1625672 original size:15 final size:14
Alignment explanation
Indices: 1625652--1625703 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
1625642 ATTTTTATAA
1625652 ATATTTATATAATTT
1 ATATTTAT-TAATTT
1625667 ATATTTATTTAATTT
1 ATATTTA-TTAATTT
1625682 A-A-TTATTATATTT
1 ATATTTATTA-ATTT
1625695 ATATTTATT
1 ATATTTATT
1625704 TAAATCATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.09
13 8 0.24
14 2 0.06
15 19 0.58
16 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTTATTAATTT
Found at i:1627937 original size:41 final size:41
Alignment explanation
Indices: 1627880--1627961 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
1627870 CACTGGATCG
* *
1627880 GATGTAAATTTGATAATTAATGTATTTGTATTATATTTATT
1 GATGTAAATTTGATAATTAATATATTTATATTATATTTATT
1627921 GATGTAAATTTGATAATTAATATATTTATATTATATTTATT
1 GATGTAAATTTGATAATTAATATATTTATATTATATTTATT
1627962 TTATTTTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (41 bp):
GATGTAAATTTGATAATTAATATATTTATATTATATTTATT
Found at i:1627952 original size:6 final size:6
Alignment explanation
Indices: 1627941--1628042 Score: 61
Period size: 6 Copynumber: 17.3 Consensus size: 6
1627931 TGATAATTAA
* * *
1627941 TATATT TATA-T TATATT TAT-TT TATTTT GTATAAT TATATT TA-AGT
1 TATATT TATATT TATATT TATATT TATATT -TATATT TATATT TATATT
* * * * * *
1627987 TAT-TT TATATT TATATA AATTTT TATATAT TAATAAT TAAAAT TATATT
1 TATATT TATATT TATATT TATATT TATAT-T T-ATATT TATATT TATATT
1628036 TAT-TT TA
1 TATATT TA
1628043 AAATATTTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
5 22 0.30
6 41 0.55
7 8 0.11
8 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (6 bp):
TATATT
Found at i:1627966 original size:9 final size:11
Alignment explanation
Indices: 1627941--1628002 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
1627931 TGATAATTAA
1627941 TATATTTATAT
1 TATATTTATAT
*
1627952 TATATTTATTT
1 TATATTTATAT
*
1627963 TATTTTGTATAAT
1 TATATT-TAT-AT
1627976 TATATTTA-AGT
1 TATATTTATA-T
1627987 TAT-TTTATATT
1 TATATTTATA-T
1627998 TATAT
1 TATAT
1628003 AAATTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 5 0.12
11 24 0.59
12 6 0.15
13 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1627979 original size:29 final size:30
Alignment explanation
Indices: 1627940--1628004 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
1627930 TTGATAATTA
* *
1627940 ATATATTTATA-TTATATTTATTTTAT-TTT
1 ATATAATTATATTTA-AGTTATTTTATATTT
*
1627969 GTATAATTATATTTAAGTTATTTTATATTT
1 ATATAATTATATTTAAGTTATTTTATATTT
1627999 ATATAA
1 ATATAA
1628005 ATTTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
ATATAATTATATTTAAGTTATTTTATATTT
Found at i:1628192 original size:18 final size:18
Alignment explanation
Indices: 1628166--1628200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1628156 CAGTTTGATA
*
1628166 TTTATAATATAAATATAT
1 TTTAAAATATAAATATAT
*
1628184 TTTAAAATATAAGTATA
1 TTTAAAATATAAATATA
1628201 ATATACATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTAAAATATAAATATAT
Found at i:1628913 original size:12 final size:12
Alignment explanation
Indices: 1628896--1628932 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1628886 AAAAATAAAA
1628896 AATAATTTTTAT
1 AATAATTTTTAT
*
1628908 AATAATATTTAT
1 AATAATTTTTAT
1628920 -AT-ATTTTTAT
1 AATAATTTTTAT
1628930 AAT
1 AAT
1628933 TAAATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 7 0.32
11 4 0.18
12 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATAATTTTTAT
Found at i:1628946 original size:19 final size:22
Alignment explanation
Indices: 1628900--1628957 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
1628890 ATAAAAAATA
1628900 ATTTTTATAA-TAATATTTATAT
1 ATTTTTATAATTAA-ATTTATAT
1628922 ATTTTTATAATTAAATTTA-A-
1 ATTTTTATAATTAAATTTATAT
*
1628942 A-TTTTAAAATTAAATT
1 ATTTTTATAATTAAATT
1628958 ATTAAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.41
20 1 0.03
21 1 0.03
22 15 0.44
23 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTATAATTAAATTTATAT
Found at i:1628954 original size:13 final size:12
Alignment explanation
Indices: 1628932--1628982 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 12
1628922 ATTTTTATAA
1628932 TTAAATTTAAATT
1 TTAAA-TTAAATT
1628945 TTAAAATTAAATT
1 TT-AAATTAAATT
1628958 ATTAAA-TAATATT
1 -TTAAATTAA-ATT
1628971 TTAAATTAAATT
1 TTAAATTAAATT
1628983 GATCAAATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 11 0.32
13 18 0.53
14 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAAATTAAATT
Found at i:1630446 original size:21 final size:21
Alignment explanation
Indices: 1630420--1630461 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1630410 AAATATTATT
*
1630420 TTTTAT-ATTAATATTTTAATA
1 TTTTATAATTAA-ATTTAAATA
1630441 TTTTATAATTAAATTTAAATA
1 TTTTATAATTAAATTTAAATA
1630462 AAAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAATTAAATTTAAATA
Found at i:1631557 original size:25 final size:27
Alignment explanation
Indices: 1631523--1631602 Score: 80
Period size: 26 Copynumber: 3.1 Consensus size: 27
1631513 ACTATATTCT
*
1631523 TATAATTTATTT-TA-TTATAATTATA
1 TATAAATTATTTATATTTATAATTATA
*
1631548 TATAAATTATTTATATTTATATTTATA
1 TATAAATTATTTATATTTATAATTATA
* *
1631575 TA-AAATT-TAATATATTAATAATT-TA
1 TATAAATTAT-TTATATTTATAATTATA
1631600 TAT
1 TAT
1631603 TATAATAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 16 0.35
26 18 0.39
27 12 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TATAAATTATTTATATTTATAATTATA
Found at i:1631595 original size:18 final size:17
Alignment explanation
Indices: 1631562--1631603 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1631552 AATTATTTAT
1631562 ATTTATATTTATATAAA
1 ATTTATATTTATATAAA
*
1631579 ATTTA-ATATAT-TAATA
1 ATTTATATTTATATAA-A
1631595 ATTTATATT
1 ATTTATATT
1631604 ATAATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 3 0.14
16 11 0.52
17 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTATATTTATATAAA
Found at i:1635029 original size:5 final size:5
Alignment explanation
Indices: 1635012--1635052 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
1635002 AATTTATATA
*
1635012 TAAAT TAAGT TAAAT TAAAGAT TAAAT TAAAT TAAAT TAAA
1 TAAAT TAAAT TAAAT T-AA-AT TAAAT TAAAT TAAAT TAAA
1635053 ATTTTCTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 25 0.78
6 4 0.12
7 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (5 bp):
TAAAT
Found at i:1635041 original size:17 final size:17
Alignment explanation
Indices: 1635015--1635047 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1635005 TTATATATAA
*
1635015 ATTAAGTTAAATTAAAG
1 ATTAAATTAAATTAAAG
1635032 ATTAAATTAAATTAAA
1 ATTAAATTAAATTAAA
1635048 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTAAATTAAATTAAAG
Found at i:1635116 original size:21 final size:21
Alignment explanation
Indices: 1635082--1635146 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 21
1635072 ATTTAAATTA
*
1635082 ATTTAAAAT-TTTATTTTATT
1 ATTTAAAATAATTATTTTATT
* *
1635102 ATTTAAAATAATTATATTAAT
1 ATTTAAAATAATTATTTTATT
1635123 -TTTAATAATAA-TA-TTTATAT
1 ATTTAA-AATAATTATTTTAT-T
1635143 ATTT
1 ATTT
1635147 TTATAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 3 0.08
20 17 0.47
21 16 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTAAAATAATTATTTTATT
Found at i:1635204 original size:30 final size:31
Alignment explanation
Indices: 1635128--1635206 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 31
1635118 TTAATTTTAA
* * *
1635128 TAATAAT-ATTTATATATTTTTATAATTAAT
1 TAATAATAATTAATAAATTTTTATAATAAAT
* *
1635158 T-TTAATTAATAAATAAATTTTT-TAATAAAT
1 TAATAA-TAATTAATAAATTTTTATAATAAAT
1635188 TAATAATAATTAATAAATT
1 TAATAATAATTAATAAATT
1635207 AACTTAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
29 3 0.08
30 22 0.56
31 14 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TAATAATAATTAATAAATTTTTATAATAAAT
Found at i:1635791 original size:15 final size:12
Alignment explanation
Indices: 1635759--1635797 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
1635749 TATTTTTTTG
1635759 AATTTAAAGTTT
1 AATTTAAAGTTT
1635771 AATTTAATAGATTT
1 AATTTAA-AG-TTT
1635785 AAATTTAAAGTTT
1 -AATTTAAAGTTT
1635798 TAATGTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.29
13 5 0.21
14 5 0.21
15 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (12 bp):
AATTTAAAGTTT
Found at i:1635799 original size:14 final size:14
Alignment explanation
Indices: 1635754--1635800 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1635744 AATATTATTT
*
1635754 TTTTGAATTTAAAG
1 TTTTAAATTTAAAG
1635768 -TTT-AATTTAATAG
1 TTTTAAATTTAA-AG
*
1635781 ATTTAAATTTAAAG
1 TTTTAAATTTAAAG
1635795 TTTTAA
1 TTTTAA
1635801 TGTTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 7 0.24
13 5 0.17
14 10 0.34
15 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (14 bp):
TTTTAAATTTAAAG
Found at i:1636931 original size:17 final size:17
Alignment explanation
Indices: 1636911--1636958 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
1636901 TTTTTCTTTC
*
1636911 AAATAAATTTTTATTTT
1 AAATAAAATTTTATTTT
*
1636928 AAATTAAAATTTGA-TTT
1 AAA-TAAAATTTTATTTT
*
1636945 ACATAAAATTTTAT
1 AAATAAAATTTTAT
1636959 CTAAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 9 0.36
17 8 0.32
18 8 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATAAAATTTTATTTT
Found at i:1636935 original size:18 final size:17
Alignment explanation
Indices: 1636899--1636958 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1636889 ATTATCTTTT
*
1636899 AATTTTTCTTTCAAATA
1 AATTTTTATTTCAAATA
*
1636916 AATTTTTATTTTAAATTA
1 AATTTTTATTTCAAA-TA
* * *
1636934 AAATTTGATTT-ACATA
1 AATTTTTATTTCAAATA
*
1636950 AAATTTTAT
1 AATTTTTAT
1636959 CTAAATATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 10 0.28
17 15 0.42
18 11 0.31
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTTTTATTTCAAATA
Found at i:1637586 original size:11 final size:11
Alignment explanation
Indices: 1637570--1637619 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
1637560 ATTTATGAAT
*
1637570 TTATTTAATAC
1 TTATTTAATAA
1637581 TTATTTAATAA
1 TTATTTAATAA
1637592 TTAATTTAA-AA
1 TT-ATTTAATAA
1637603 -TATTT-ATAA
1 TTATTTAATAA
*
1637612 ATATTTAA
1 TTATTTAA
1637620 AAAATAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 1 0.03
9 6 0.18
10 6 0.18
11 15 0.44
12 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTATTTAATAA
Found at i:1638079 original size:13 final size:13
Alignment explanation
Indices: 1638052--1638127 Score: 73
Period size: 13 Copynumber: 5.8 Consensus size: 13
1638042 AATTAGATTT
*
1638052 TATAATAT-TAAA
1 TATAATATAAAAA
1638064 TATAATATAAAAA
1 TATAATATAAAAA
* *
1638077 TATTATATAAACA
1 TATAATATAAAAA
*
1638090 TAATATATTTAAAAA
1 T-ATA-ATATAAAAA
* *
1638105 TATAAAATAATAA
1 TATAATATAAAAA
1638118 TATAATATAA
1 TATAATATAA
1638128 TCTATTTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
12 8 0.16
13 30 0.59
14 5 0.10
15 8 0.16
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (13 bp):
TATAATATAAAAA
Found at i:1638125 original size:28 final size:26
Alignment explanation
Indices: 1638052--1638125 Score: 62
Period size: 28 Copynumber: 2.8 Consensus size: 26
1638042 AATTAGATTT
* *
1638052 TATAATATTAAATATAATA-TAAAAA
1 TATAAAATAAAATATAATATTAAAAA
* *
1638077 TATTATATAAACATA-ATATATTTAAAAA
1 TATAAAATAAA-ATATA-ATA-TTAAAAA
1638105 TATAAAATAATAATATAATAT
1 TATAAAATAA-AATATAATAT
1638126 AATCTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
25 10 0.26
26 6 0.15
27 1 0.03
28 20 0.51
29 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (26 bp):
TATAAAATAAAATATAATATTAAAAA
Found at i:1638128 original size:35 final size:36
Alignment explanation
Indices: 1638067--1638137 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
1638057 TATTAAATAT
*
1638067 AATATAAAAATATTATATAAACATAATATATTTAAA
1 AATATAAAAATATAATATAAACATAATATATTTAAA
* *
1638103 AATAT-AAAATAATAATAT-AATATAATCTATTTAAA
1 AATATAAAAAT-ATAATATAAACATAATATATTTAAA
1638138 CATAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 20 0.65
36 11 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (36 bp):
AATATAAAAATATAATATAAACATAATATATTTAAA
Found at i:1638148 original size:24 final size:26
Alignment explanation
Indices: 1638110--1638166 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
1638100 AAAAATATAA
1638110 AATA-ATAATATAATATAA-TCTATTT
1 AATACATAATATAATATAATTC-ATTT
1638135 AA-ACATAAT-TAATATAATTCATTT
1 AATACATAATATAATATAATTCATTT
1638159 AATACATA
1 AATACATA
1638167 TATCATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (26 bp):
AATACATAATATAATATAATTCATTT
Found at i:1638380 original size:13 final size:15
Alignment explanation
Indices: 1638346--1638392 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
1638336 TTCTTAATTT
*
1638346 TTTATATAATTTATA
1 TTTATTTAATTTATA
1638361 TTTATTTAATTTA-A
1 TTTATTTAATTTATA
*
1638375 -TTATTTTATTTTATA
1 TTTA-TTTAATTTATA
1638390 TTT
1 TTT
1638393 TATTCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.11
14 9 0.33
15 13 0.48
16 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATTTAATTTATA
Found at i:1639769 original size:17 final size:17
Alignment explanation
Indices: 1639721--1639772 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
1639711 TTTAAATTTT
* *
1639721 ATTTTTTATATGAACATA
1 ATTTTTT-TATAAAAATA
1639739 ATTTTTTTA-AAAAATA
1 ATTTTTTTATAAAAATA
*
1639755 ATTTTTTTATTAAAATA
1 ATTTTTTTATAAAAATA
1639772 A
1 A
1639773 AAACTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.47
17 9 0.30
18 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTTTTTATAAAAATA
Found at i:1640299 original size:24 final size:24
Alignment explanation
Indices: 1640272--1640320 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1640262 GTTTTAAATG
1640272 TTTTTAATTATATTTAATTAATTT
1 TTTTTAATTATATTTAATTAATTT
** * *
1640296 TTTTTGTTTATTTTTTATTAATTT
1 TTTTTAATTATATTTAATTAATTT
1640320 T
1 T
1640321 ACTTATTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTTAATTATATTTAATTAATTT
Found at i:1640329 original size:24 final size:24
Alignment explanation
Indices: 1640279--1640329 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
1640269 ATGTTTTTAA
** *
1640279 TTATATTTAATTAATTTTTTTTGT
1 TTATATTTAATTAATTTTACTTAT
* *
1640303 TTATTTTTTATTAATTTTACTTAT
1 TTATATTTAATTAATTTTACTTAT
1640327 TTA
1 TTA
1640330 CTTATATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATATTTAATTAATTTTACTTAT
Found at i:1640381 original size:9 final size:8
Alignment explanation
Indices: 1640349--1640379 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
1640339 AATTATATAG
1640349 TATTTTTA
1 TATTTTTA
1640357 TATTTTTA
1 TATTTTTA
1640365 TATTTTTA
1 TATTTTTA
1640373 TATTTTT
1 TATTTTT
1640380 TAAATTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTTA
Found at i:1642309 original size:7 final size:7
Alignment explanation
Indices: 1642267--1642318 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
1642257 ATATATTTTT
1642267 AAATTTA
1 AAATTTA
*
1642274 ATTAATTAA
1 A--AATTTA
1642283 AATATTTA
1 AA-ATTTA
*
1642291 AAATAATA
1 AAAT-TTA
1642299 AAATTTA
1 AAATTTA
1642306 AAATTTA
1 AAATTTA
1642313 AAATTT
1 AAATTT
1642319 TGACAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 19 0.51
8 12 0.32
9 6 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:1642525 original size:5 final size:4
Alignment explanation
Indices: 1642495--1642562 Score: 54
Period size: 4 Copynumber: 16.8 Consensus size: 4
1642485 TTTATTTATG
*
1642495 AAGA GAAGA AAGG AA-A AAGA AAGA AATGA AAGA AA-A AA-A AAGA GAAGGA
1 AAGA -AAGA AAGA AAGA AAGA AAGA AA-GA AAGA AAGA AAGA AAGA -AA-GA
1642544 AATGA AAG- AAGA AAGA AAG
1 AA-GA AAGA AAGA AAGA AAG
1642563 TGATATATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
3 11 0.20
4 25 0.46
5 16 0.30
6 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:1642525 original size:20 final size:19
Alignment explanation
Indices: 1642502--1642562 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 19
1642492 ATGAAGAGAA
*
1642502 GAAAGGAAAAAGAAAGAAAT
1 GAAA-GAAAAAGAAAGAAAG
*
1642522 GAAAGAAAAAAAAAGAGAAG
1 GAAAGAAAAAGAAAGA-AAG
1642542 GAAATGAAAGAAGAAAGAAAG
1 GAAA-GAAA-AAGAAAGAAAG
1642563 TGATATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.31
20 10 0.29
21 7 0.20
22 7 0.20
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
GAAAGAAAAAGAAAGAAAG
Found at i:1642546 original size:25 final size:24
Alignment explanation
Indices: 1642508--1642562 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
1642498 AGAAGAAAGG
1642508 AAAAAGAAAGAAATGAAAGAA-AA
1 AAAAAGAAAGAAATGAAAGAAGAA
1642531 AAAAAGAGAAGGAAATGAAAGAAGAA
1 AAAAAGA-AA-GAAATGAAAGAAGAA
*
1642557 AGAAAG
1 AAAAAG
1642563 TGATATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 7 0.25
24 2 0.07
25 12 0.43
26 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAGAAATGAAAGAAGAA
Done.