Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold59
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: 3999109
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 268233 characters in sequence are not A, C, G, or T
File 15 of 25
Found at i:2265445 original size:15 final size:15
Alignment explanation
Indices: 2265425--2265478 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
2265415 TATATATATT
2265425 TAATATATTTATTTA
1 TAATATATTTATTTA
2265440 TAATATATTATATTT-
1 TAATATATT-TATTTA
2265455 TAAT-TA-TT-TTTA
1 TAATATATTTATTTA
*
2265467 TATTATATTTAT
1 TAATATATTTAT
2265479 ATAATCGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
11 3 0.09
12 4 0.12
13 3 0.09
14 4 0.12
15 14 0.42
16 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAATATATTTATTTA
Found at i:2265477 original size:11 final size:11
Alignment explanation
Indices: 2265414--2265480 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
2265404 ATAACTCGTA
2265414 TTATA-TATAT
1 TTATATTATAT
2265424 TTA-A-TATAT
1 TTATATTATAT
2265433 TTAT-TTATA-
1 TTATATTATAT
*
2265442 ATATATTATAT
1 TTATATTATAT
*
2265453 TT-TAATTATTT
1 TTAT-ATTATAT
2265464 TTATATTATAT
1 TTATATTATAT
2265475 TTATAT
1 TTATAT
2265481 AATCGTATCT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
9 12 0.26
10 13 0.28
11 21 0.45
12 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATTATAT
Found at i:2265720 original size:17 final size:16
Alignment explanation
Indices: 2265680--2265729 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
2265670 GATAATAAAT
2265680 ATAATA-AA-TATTTA
1 ATAATATAATTATTTA
* *
2265694 ATTATTTAATTAATTTA
1 ATAATATAATT-ATTTA
2265711 ATAATATAATT-TTTA
1 ATAATATAATTATTTA
2265726 ATAA
1 ATAA
2265730 AAAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 4 0.14
15 10 0.34
16 1 0.03
17 14 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATAATTATTTA
Found at i:2265890 original size:19 final size:19
Alignment explanation
Indices: 2265868--2265906 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2265858 TTGGTCAAAA
*
2265868 TATTTTTAATTAAATAAAT
1 TATTTATAATTAAATAAAT
* *
2265887 TATTTATCATTATATAAAT
1 TATTTATAATTAAATAAAT
2265906 T
1 T
2265907 TAATAACATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTATAATTAAATAAAT
Found at i:2266906 original size:2 final size:2
Alignment explanation
Indices: 2266899--2266931 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2266889 CAAATCGTGT
2266899 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2266932 TAAATGCTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2267912 original size:20 final size:20
Alignment explanation
Indices: 2267887--2267932 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2267877 AAGAATTGAA
*
2267887 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
2267907 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
2267927 GAGGGA
1 GAGGGA
2267933 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:2269996 original size:21 final size:22
Alignment explanation
Indices: 2269958--2270003 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2269948 ATCTGTTGAA
* **
2269958 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
2269979 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
2270001 ACT
1 ACT
2270004 TGTCTGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:2275433 original size:14 final size:14
Alignment explanation
Indices: 2275414--2275452 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
2275404 TAATAATGTC
2275414 AAATATAATTATAT
1 AAATATAATTATAT
*
2275428 AAATATAAAATATAT
1 AAATAT-AATTATAT
2275443 AAA-ATAATTA
1 AAATATAATTA
2275453 AAATAGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATAATTATAT
Found at i:2275682 original size:27 final size:28
Alignment explanation
Indices: 2275652--2275711 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
2275642 AAATATATAT
*
2275652 TTATTATATTATTTTAATAT-TTATAAA
1 TTATTATATTATTTTAATATATTAAAAA
* *
2275679 TTA-TATATTTTTTTATTATATTAAAAA
1 TTATTATATTATTTTAATATATTAAAAA
2275706 TTATTA
1 TTATTA
2275712 AATCTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.50
27 12 0.43
28 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATTATATTATTTTAATATATTAAAAA
Found at i:2275714 original size:35 final size:35
Alignment explanation
Indices: 2275645--2275714 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
2275635 ATGTCGAAAA
* * *
2275645 TATATATTTATTATATTATTTTAATATTTATAAAT
1 TATATATTTATTATATTATATTAAAAATTATAAAT
*
2275680 TATATATTT-TTTTATTATATTAAAAATTATTAAAT
1 TATATATTTATTATATTATATTAAAAATTA-TAAAT
2275715 CTAATTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TATATATTTATTATATTATATTAAAAATTATAAAT
Found at i:2276163 original size:17 final size:17
Alignment explanation
Indices: 2276079--2276173 Score: 83
Period size: 17 Copynumber: 5.6 Consensus size: 17
2276069 GCAAATTGTC
2276079 TAATTTAAGACTTAAT-TT
1 TAATTTAA-A-TTAATATT
*
2276097 TAAATTAAATTAA-ATT
1 TAATTTAAATTAATATT
* * *
2276113 TAA-ATATAATATATTTTT
1 TAATTTA-AAT-TAATATT
2276131 TAATTT-AATT-ATATT
1 TAATTTAAATTAATATT
2276146 TAATTTAAATTAATATT
1 TAATTTAAATTAATATT
2276163 TAATTTAAATT
1 TAATTTAAATT
2276174 TAAAATATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
15 11 0.17
16 17 0.27
17 22 0.35
18 12 0.19
19 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TAATTTAAATTAATATT
Found at i:2276179 original size:7 final size:6
Alignment explanation
Indices: 2276080--2276177 Score: 50
Period size: 6 Copynumber: 17.3 Consensus size: 6
2276070 CAAATTGTCT
* * * *
2276080 AATTTA AGACTTA ATTTTA AA-TTA AA-TTA AATTTA AATAT- AATATA
1 AATTTA A-ATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
** * *
2276126 TTTTTT AATTT- AA-TTA TATTT- AATTTA AA-TTA ATATTT- AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA A-ATTTA AATTTA
2276170 AATTTA AA
1 AATTTA AA
2276178 ATATTTTTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
4 2 0.03
5 30 0.43
6 31 0.44
7 7 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:2276225 original size:32 final size:29
Alignment explanation
Indices: 2276189--2276250 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 29
2276179 TATTTTTATT
2276189 TAAATTTAATTATAAAATATATAAAT-AATTTA
1 TAAATTT--TTATAAAA-ATA-AAATAAATTTA
*
2276221 TAAATTTTTATAATAATAAAATAAATTTA
1 TAAATTTTTATAAAAATAAAATAAATTTA
2276250 T
1 T
2276251 GAGTCAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.14
29 10 0.36
30 7 0.25
32 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAATTTTTATAAAAATAAAATAAATTTA
Found at i:2277283 original size:22 final size:22
Alignment explanation
Indices: 2277229--2277289 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
2277219 ATATTAATAT
2277229 TTATTTATAAATT-TA-AATAAAA
1 TTATTT-TAAATTATATAA-AAAA
*
2277251 TT-TTTT-TATTATATAAAAAA
1 TTATTTTAAATTATATAAAAAA
2277271 TTATTTTAAATTAT-TAAAA
1 TTATTTTAAATTATATAAAA
2277290 TATTTATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.09
20 9 0.27
21 14 0.42
22 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTTTAAATTATATAAAAAA
Found at i:2277296 original size:22 final size:22
Alignment explanation
Indices: 2277224--2277297 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
2277214 TTTTTATATT
*
2277224 AATATTTATTTATAAATT-TAAA
1 AATATTTATTT-TAAATTATTAA
*
2277246 TAAAATTT-TTTT--ATTATATAA
1 -AATATTTATTTTAAATTAT-TAA
*
2277267 AA-AATTATTTTAAATTATTAA
1 AATATTTATTTTAAATTATTAA
2277288 AATATTTATT
1 AATATTTATT
2277298 CAAATTCGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
19 6 0.15
20 7 0.17
21 8 0.20
22 14 0.34
23 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTTATTTTAAATTATTAA
Found at i:2278056 original size:2 final size:2
Alignment explanation
Indices: 2278049--2278092 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2278039 TTCTAGTGGC
2278049 AT AT AT AT AT 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 AT AT
2278091 AT
1 AT
2278093 GAAAGATCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2281067 original size:17 final size:17
Alignment explanation
Indices: 2281045--2281090 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
2281035 ACGAATCATA
2281045 ATTAATTATAAATAAAT
1 ATTAATTATAAATAAAT
*
2281062 ATTAATGATAAA-AAAT
1 ATTAATTATAAATAAAT
2281078 -TTAATTA-AAATAA
1 ATTAATTATAAATAA
2281091 TAATTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 4 0.15
17 11 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATTAATTATAAATAAAT
Found at i:2281628 original size:21 final size:24
Alignment explanation
Indices: 2281586--2281638 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
2281576 AATTAATTTA
*
2281586 AATATTTATATTATTATCT-AAAAT
1 AATA-TTATAATATTATCTAAAAAT
2281610 AATATTATAATATT-T-TAAAAAT
1 AATATTATAATATTATCTAAAAAT
2281632 ATATATT
1 A-ATATT
2281639 GTATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATTATAATATTATCTAAAAAT
Found at i:2282209 original size:14 final size:14
Alignment explanation
Indices: 2282190--2282228 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
2282180 TAATAATGTC
2282190 AAATATAATTATAT
1 AAATATAATTATAT
*
2282204 AAATATAAAATATAT
1 AAATAT-AATTATAT
2282219 AAA-ATAATTA
1 AAATATAATTA
2282229 AAATAGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATAATTATAT
Found at i:2282458 original size:27 final size:28
Alignment explanation
Indices: 2282428--2282487 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
2282418 AAATATATAT
*
2282428 TTATTATATTATTTTAATAT-TTATAAA
1 TTATTATATTATTTTAATATATTAAAAA
* *
2282455 TTA-TATATTTTTTTATTATATTAAAAA
1 TTATTATATTATTTTAATATATTAAAAA
2282482 TTATTA
1 TTATTA
2282488 AATCTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.50
27 12 0.43
28 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATTATATTATTTTAATATATTAAAAA
Found at i:2282490 original size:35 final size:35
Alignment explanation
Indices: 2282421--2282490 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
2282411 ATGTTGAAAA
* * *
2282421 TATATATTTATTATATTATTTTAATATTTATAAAT
1 TATATATTTATTATATTATATTAAAAATTATAAAT
*
2282456 TATATATTT-TTTTATTATATTAAAAATTATTAAAT
1 TATATATTTATTATATTATATTAAAAATTA-TAAAT
2282491 CTAATTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TATATATTTATTATATTATATTAAAAATTATAAAT
Found at i:2282939 original size:17 final size:17
Alignment explanation
Indices: 2282855--2282949 Score: 83
Period size: 17 Copynumber: 5.6 Consensus size: 17
2282845 GCAAATTGTC
2282855 TAATTTAAGACTTAAT-TT
1 TAATTTAA-A-TTAATATT
*
2282873 TAAATTAAATTAA-ATT
1 TAATTTAAATTAATATT
* * *
2282889 TAA-ATATAATATATTTTT
1 TAATTTA-AAT-TAATATT
2282907 TAATTT-AATT-ATATT
1 TAATTTAAATTAATATT
2282922 TAATTTAAATTAATATT
1 TAATTTAAATTAATATT
2282939 TAATTTAAATT
1 TAATTTAAATT
2282950 TAAAATATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
15 11 0.17
16 17 0.27
17 22 0.35
18 12 0.19
19 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TAATTTAAATTAATATT
Found at i:2282955 original size:7 final size:6
Alignment explanation
Indices: 2282856--2282953 Score: 50
Period size: 6 Copynumber: 17.3 Consensus size: 6
2282846 CAAATTGTCT
* * * *
2282856 AATTTA AGACTTA ATTTTA AA-TTA AA-TTA AATTTA AATAT- AATATA
1 AATTTA A-ATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
** * *
2282902 TTTTTT AATTT- AA-TTA TATTT- AATTTA AA-TTA ATATTT- AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA A-ATTTA AATTTA
2282946 AATTTA AA
1 AATTTA AA
2282954 ATATTTTTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
4 2 0.03
5 30 0.43
6 31 0.44
7 7 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:2283001 original size:32 final size:29
Alignment explanation
Indices: 2282965--2283026 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 29
2282955 TATTTTTATT
2282965 TAAATTTAATTATAAAATATATAAAT-AATTTA
1 TAAATTT--TTATAAAA-ATA-AAATAAATTTA
*
2282997 TAAATTTTTATAATAATAAAATAAATTTA
1 TAAATTTTTATAAAAATAAAATAAATTTA
2283026 T
1 T
2283027 GAGTCAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.14
29 10 0.36
30 7 0.25
32 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAATTTTTATAAAAATAAAATAAATTTA
Found at i:2284059 original size:22 final size:22
Alignment explanation
Indices: 2284005--2284065 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
2283995 ATATTAATAT
2284005 TTATTTATAAATT-TA-AATAAAA
1 TTATTT-TAAATTATATAA-AAAA
*
2284027 TT-TTTT-TATTATATAAAAAA
1 TTATTTTAAATTATATAAAAAA
2284047 TTATTTTAAATTAT-TAAAA
1 TTATTTTAAATTATATAAAA
2284066 TATTTATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.09
20 9 0.27
21 14 0.42
22 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTTTAAATTATATAAAAAA
Found at i:2284072 original size:22 final size:22
Alignment explanation
Indices: 2284000--2284073 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
2283990 TTTTTATATT
*
2284000 AATATTTATTTATAAATT-TAAA
1 AATATTTATTT-TAAATTATTAA
*
2284022 TAAAATTT-TTTT--ATTATATAA
1 -AATATTTATTTTAAATTAT-TAA
*
2284043 AA-AATTATTTTAAATTATTAA
1 AATATTTATTTTAAATTATTAA
2284064 AATATTTATT
1 AATATTTATT
2284074 CAAATTCGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
19 6 0.15
20 7 0.17
21 8 0.20
22 14 0.34
23 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTTATTTTAAATTATTAA
Found at i:2284832 original size:2 final size:2
Alignment explanation
Indices: 2284825--2284868 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2284815 TTCTAGTGGC
2284825 AT AT AT AT AT 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 AT AT
2284867 AT
1 AT
2284869 GAAAGATCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2286591 original size:20 final size:20
Alignment explanation
Indices: 2286566--2286607 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2286556 GTGTCTTGTT
*
2286566 TTCATTATT-TATTTTATTTA
1 TTCATTATTAAATTTT-TTTA
2286586 TTCATTATTAAATTTTTTTA
1 TTCATTATTAAATTTTTTTA
2286606 TT
1 TT
2286608 GTATTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TTCATTATTAAATTTTTTTA
Found at i:2292300 original size:25 final size:24
Alignment explanation
Indices: 2292267--2292366 Score: 64
Period size: 24 Copynumber: 4.1 Consensus size: 24
2292257 TTATATATTT
*
2292267 TATTATATAATAATTATATTTAAAA
1 TATTTTATAATAATTATATTT-AAA
* * *
2292292 TATTTTATAATTATATAAATTTTAA
1 TATTTTATAATAAT-TATATTTAAA
* *
2292317 TACTTT-TAATAATT-TATATTATA
1 TATTTTATAATAATTATAT-TTAAA
*
2292340 TATATTTA-AATTATT-TATTTATAA
1 TAT-TTTATAATAATTATATTTA-AA
2292364 TAT
1 TAT
2292367 AATAAATTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
22 2 0.03
23 9 0.16
24 22 0.38
25 19 0.33
26 6 0.10
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTTATAATAATTATATTTAAA
Found at i:2292359 original size:28 final size:28
Alignment explanation
Indices: 2292328--2292396 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2292318 ACTTTTAATA
*
2292328 ATTTATATTATATATATTTAAATTATTT
1 ATTTATATTATATAAATTTAAATTATTT
* *
2292356 ATTTATAATATAATAAATTTTAATTATTT
1 ATTTATATTAT-ATAAATTTAAATTATTT
*
2292385 -TTTATATCATAT
1 ATTTATATTATAT
2292397 TTATATGATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.06
28 18 0.51
29 15 0.43
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTATATTATATAAATTTAAATTATTT
Found at i:2292838 original size:19 final size:19
Alignment explanation
Indices: 2292798--2292839 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2292788 AATATTTTTA
*
2292798 ATTAAATAAATTATATATT
1 ATTAAATAAATTATATAAT
*
2292817 ATTATATAAATT-TAATAAT
1 ATTAAATAAATTAT-ATAAT
2292836 ATTA
1 ATTA
2292840 GATATACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTAAATAAATTATATAAT
Found at i:2293330 original size:18 final size:19
Alignment explanation
Indices: 2293293--2293330 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2293283 AACAAAAGAA
**
2293293 TTAAAACTTTTTCTTTATT
1 TTAAAACTTTTTCTAAATT
2293312 TTAAAA-TTTTTCTAAATT
1 TTAAAACTTTTTCTAAATT
2293330 T
1 T
2293331 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAAAACTTTTTCTAAATT
Found at i:2293475 original size:2 final size:2
Alignment explanation
Indices: 2293468--2293498 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2293458 GATCCACGAT
2293468 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2293499 GAGATATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2293727 original size:10 final size:11
Alignment explanation
Indices: 2293701--2293740 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2293691 TATCCTTACA
2293701 TTAATATATATT
1 TTAAT-TATATT
2293713 TTAATTATA-T
1 TTAATTATATT
*
2293723 TTAATAATATT
1 TTAATTATATT
2293734 TTAATTA
1 TTAATTA
2293741 AAAATTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 11 0.44
12 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAATTATATT
Found at i:2293829 original size:2 final size:2
Alignment explanation
Indices: 2293822--2293864 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2293812 CAAATCGTGT
2293822 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2293864 T
1 T
2293865 TAATTGCTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2295816 original size:12 final size:13
Alignment explanation
Indices: 2295799--2295823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2295789 TTAAATATAT
2295799 AAAAAAAATTAAA
1 AAAAAAAATTAAA
2295812 AAAAAAAATTAA
1 AAAAAAAATTAA
2295824 CCATACTACC
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTAAA
Found at i:2297377 original size:10 final size:10
Alignment explanation
Indices: 2297364--2297391 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2297354 TATTATCACG
2297364 AATTATAATT
1 AATTATAATT
2297374 AATTATAATT
1 AATTATAATT
2297384 AATTATAA
1 AATTATAA
2297392 ATAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATTATAATT
Found at i:2297403 original size:17 final size:17
Alignment explanation
Indices: 2297381--2297431 Score: 72
Period size: 15 Copynumber: 3.2 Consensus size: 17
2297371 ATTAATTATA
2297381 ATTAATTATAAATAAAT
1 ATTAATTATAAATAAAT
*
2297398 ATTAATGATAAA-AAA-
1 ATTAATTATAAATAAAT
2297413 ATTAATTAT-AATAAAT
1 ATTAATTATAAATAAAT
2297429 ATT
1 ATT
2297432 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.07
15 11 0.37
16 6 0.20
17 11 0.37
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTAATTATAAATAAAT
Found at i:2298427 original size:6 final size:6
Alignment explanation
Indices: 2298413--2298514 Score: 50
Period size: 6 Copynumber: 16.2 Consensus size: 6
2298403 AATATGTTAA
* *
2298413 AAATTT AAATAT AAATATT ATAAT-T AAATTT AATAATATT AAATAT AATTATAT
1 AAATAT AAATAT AAATA-T A-AATAT AAATAT -A-AATA-T AAATAT AA--ATAT
* * *
2298467 AAATAT AAAATAT ATAAAAT AATTA- AAATAT -AACAT -AATAT AAATAT
1 AAATAT -AAATAT A-AATAT AAATAT AAATAT AAATAT AAATAT AAATAT
2298514 A
1 A
2298515 TTTTAAAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
5 15 0.20
6 29 0.38
7 18 0.24
8 13 0.17
9 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (6 bp):
AAATAT
Found at i:2298427 original size:33 final size:32
Alignment explanation
Indices: 2298375--2298472 Score: 85
Period size: 33 Copynumber: 3.0 Consensus size: 32
2298365 AGATCATTTT
** *
2298375 TTTAAAAAAATAAAAATAAAATATAATAAATA
1 TTTAAAAATTTAAATATAAAATATAATAAATA
*
2298407 TGTTAAAAATTTAAATATAAATATTATAATTAA-A
1 T-TTAAAAATTTAAATATAAA-A-TATAATAAATA
* *
2298441 TTTAATAATATTAAATAT-AATTAT-ATAAATA
1 TTTAAAAAT-TTAAATATAAAATATAATAAATA
2298472 T
1 T
2298473 AAAATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
30 4 0.07
31 5 0.09
32 1 0.02
33 25 0.46
34 11 0.20
35 8 0.15
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (32 bp):
TTTAAAAATTTAAATATAAAATATAATAAATA
Found at i:2298455 original size:15 final size:15
Alignment explanation
Indices: 2298435--2298489 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
2298425 AAATATTATA
*
2298435 ATTAAATTTAATAAT
1 ATTAAATATAATAAT
*
2298450 ATTAAATATAATTAT
1 ATTAAATATAATAAT
2298465 A-TAAATATAA-AAT
1 ATTAAATATAATAAT
2298478 ATATAAA-ATAAT
1 AT-TAAATATAAT
2298490 TAAAATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 13 0.38
15 18 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAAATATAATAAT
Found at i:2298468 original size:8 final size:8
Alignment explanation
Indices: 2298455--2298515 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
2298445 ATAATATTAA
*
2298455 ATATAATT
1 ATATAAAT
2298463 ATATAAAT
1 ATATAAAT
2298471 ATA-AAAT
1 ATATAAAT
2298478 ATATAAA-
1 ATATAAAT
2298485 ATAATTAAA-
1 AT-A-TAAAT
2298494 ATATAACAT
1 ATATAA-AT
2298503 AATATAAAT
1 -ATATAAAT
2298512 ATAT
1 ATAT
2298516 TTTAAAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
7 12 0.26
8 20 0.43
9 8 0.17
10 6 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATAAAT
Found at i:2298471 original size:21 final size:21
Alignment explanation
Indices: 2298421--2298480 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
2298411 AAAAATTTAA
2298421 ATATAAATATTATAAT-TAAATT
1 ATATAAATATTA-AATAT-AATT
2298443 -TA-ATAATATTAAATATAATT
1 ATATA-AATATTAAATATAATT
*
2298463 ATATAAATATAAAATATA
1 ATATAAATATTAAATATA
2298481 TAAAATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 8 0.24
21 24 0.73
22 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATAAATATTAAATATAATT
Found at i:2298478 original size:28 final size:27
Alignment explanation
Indices: 2298419--2298521 Score: 83
Period size: 28 Copynumber: 3.9 Consensus size: 27
2298409 TTAAAAATTT
* * *
2298419 AAATA-TAAATATTATAATTAAATTTA
1 AAATATTAAATATAATTATTAAATATA
2298445 ATAATATTAAATATAATTATATAAATATA
1 A-AATATTAAATATAATTAT-TAAATATA
2298474 AAATATATAAA-ATAATTA--AAATATA
1 AAATAT-TAAATATAATTATTAAATATA
*
2298499 ACATAATATAAATAT-ATT-TTAAA
1 AAAT-AT-TAAATATAATTATTAAA
2298522 ATTTATATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
25 10 0.15
26 11 0.17
27 9 0.14
28 23 0.35
29 12 0.18
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (27 bp):
AAATATTAAATATAATTATTAAATATA
Found at i:2298522 original size:28 final size:28
Alignment explanation
Indices: 2298444--2298542 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 28
2298434 AATTAAATTT
*
2298444 AATAATATTAAATATAATTATATAAATATAA
1 AATAATA-TAAATAT-ATTTTA-AAATATAA
*
2298475 AAT-ATATAAA-ATA-ATTAAAATATAA
1 AATAATATAAATATATTTTAAAATATAA
* *
2298500 CATAATATAAATATATTTTAAAAT-TTA
1 AATAATATAAATATATTTTAAAATATAA
*
2298527 TATAATATAAAT-TATT
1 AATAATATAAATATATT
2298543 AATATTATTC
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
25 10 0.17
26 13 0.22
27 17 0.29
28 9 0.15
29 4 0.07
30 3 0.05
31 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (28 bp):
AATAATATAAATATATTTTAAAATATAA
Found at i:2298863 original size:5 final size:5
Alignment explanation
Indices: 2298853--2298886 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
2298843 AGGACCGTAG
2298853 TAATA TAATA TAATA TAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA TAATA TAAT
2298887 GTAGATGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:2299003 original size:15 final size:17
Alignment explanation
Indices: 2298985--2299058 Score: 66
Period size: 17 Copynumber: 4.4 Consensus size: 17
2298975 TATAATATTT
2298985 TTTAATTT-AATTAA-A
1 TTTAATTTAAATTAATA
2299000 TTTAATTTAAATTAATA
1 TTTAATTTAAATTAATA
*
2299017 TTTAATTAATAAA--AAAA
1 TTTAATT--TAAATTAATA
*
2299034 TTTTATTTAAATTTAATTA
1 TTTAATTTAAA-TTAA-TA
2299053 TTTAAT
1 TTTAAT
2299059 ATATAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
15 12 0.26
16 6 0.13
17 17 0.36
18 2 0.04
19 10 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATTTAAATTAATA
Found at i:2299026 original size:36 final size:34
Alignment explanation
Indices: 2298957--2299058 Score: 98
Period size: 36 Copynumber: 2.9 Consensus size: 34
2298947 GTTTATTGTA
* * *
2298957 AATTAGATTAAATTTAAATATAATATTT-TTTAATTT
1 AATTAAATTTAATTTAAAT-TAATATTTAATTAA--T
2298993 AATTAAATTTAATTTAAATTAATATTTAATTAAT
1 AATTAAATTTAATTTAAATTAATATTTAATTAAT
** *
2299027 AAAAAAATTTTATTTAAATTTAATTATTTAAT
1 AATTAAATTTAATTTAAA-TTAA-TATTTAAT
2299059 ATATAAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
34 16 0.28
35 12 0.21
36 29 0.51
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (34 bp):
AATTAAATTTAATTTAAATTAATATTTAATTAAT
Found at i:2299075 original size:45 final size:45
Alignment explanation
Indices: 2298990--2299080 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 45
2298980 TATTTTTTAA
* *
2298990 TTTAATTAAATTTAATTTAAATTAATATTTAATTAATAAAAAAAT
1 TTTAATTAAATTTAATTTAAATTAATATATAAATAATAAAAAAAT
* * **
2299035 TTTATTTAAATTTAA-TT-ATTTAATATATAAATAATTTAAAAAT
1 TTTAATTAAATTTAATTTAAATTAATATATAAATAATAAAAAAAT
2299078 TTT
1 TTT
2299081 TACTATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 24 0.60
44 2 0.05
45 14 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (45 bp):
TTTAATTAAATTTAATTTAAATTAATATATAAATAATAAAAAAAT
Found at i:2300388 original size:12 final size:11
Alignment explanation
Indices: 2300346--2300402 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 11
2300336 ATTTTATATA
2300346 TATATATATTT
1 TATATATATTT
*
2300357 TAAGATATATATT
1 T-ATATATAT-TT
2300370 TATATATATTT
1 TATATATATTT
*
2300381 TAT-CATATTT
1 TATATATATTT
2300391 T-TA-ATATTT
1 TATATATATTT
2300400 TAT
1 TAT
2300403 TAAGTATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 8 0.21
10 8 0.21
11 6 0.15
12 14 0.36
13 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:2300388 original size:24 final size:24
Alignment explanation
Indices: 2300340--2300388 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2300330 TAAATTATTT
*
2300340 TATATATATATATATTTTAAGATA
1 TATATATATATATATTTTAACATA
* *
2300364 TATATTTATATATATTTTATCATA
1 TATATATATATATATTTTAACATA
2300388 T
1 T
2300389 TTTTAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TATATATATATATATTTTAACATA
Found at i:2300399 original size:19 final size:20
Alignment explanation
Indices: 2300365--2300402 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2300355 TTTAAGATAT
2300365 ATATTTATATATATTTTATC
1 ATATTTATATATATTTTATC
*
2300385 ATATTTTTA-ATATTTTAT
1 ATATTTATATATATTTTAT
2300403 TAAGTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTTATATATATTTTATC
Found at i:2300479 original size:29 final size:30
Alignment explanation
Indices: 2300444--2300501 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
2300434 TAGTGAATAA
*
2300444 AATATTTTAGTTTTCATA-TTATTAAATTT
1 AATATTTTAATTTTCATATTTATTAAATTT
* *
2300473 AATATTTTAATTTTTATATTTTTTAAATT
1 AATATTTTAATTTTCATATTTATTAAATT
2300502 ATAGTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
AATATTTTAATTTTCATATTTATTAAATTT
Found at i:2300482 original size:14 final size:14
Alignment explanation
Indices: 2300444--2300494 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
2300434 TAGTGAATAA
*
2300444 AATATTTTAGTTTT
1 AATATTTTAATTTT
* *
2300458 CATATTATTAAATTT
1 AATATT-TTAATTTT
2300473 AATATTTTAATTTT
1 AATATTTTAATTTT
*
2300487 TATATTTT
1 AATATTTT
2300495 TTAAATTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (14 bp):
AATATTTTAATTTT
Found at i:2300538 original size:22 final size:20
Alignment explanation
Indices: 2300510--2300566 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
2300500 TTATAGTAAA
2300510 TAAAAAAATAGTTAATGATAAT
1 TAAAAAAATA-TTAATGAT-AT
*
2300532 TAAAAAACTATTTAA--ATAT
1 TAAAAAAATA-TTAATGATAT
*
2300551 TGAAAAAATATTAATG
1 TAAAAAAATATTAATG
2300567 TACTATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
20 2 0.07
22 13 0.45
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (20 bp):
TAAAAAAATATTAATGATAT
Found at i:2301506 original size:17 final size:18
Alignment explanation
Indices: 2301477--2301522 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
2301467 TAAATTTTTA
2301477 TCTAAATTTTAAAAATAAT
1 TCTAAA-TTTAAAAATAAT
2301496 T-TAAATTT-AAAATAAT
1 TCTAAATTTAAAAATAAT
*
2301512 TCTAATTTTAA
1 TCTAAATTTAA
2301523 TTCGTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.38
17 9 0.38
18 5 0.21
19 1 0.04
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TCTAAATTTAAAAATAAT
Found at i:2303407 original size:19 final size:19
Alignment explanation
Indices: 2303383--2303450 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 19
2303373 ATTATAAATA
2303383 TAAATATAATAAAATTTAT
1 TAAATATAATAAAATTTAT
2303402 TAAATAT-ATCAAAA-TT-T
1 TAAATATAAT-AAAATTTAT
2303419 TAAATATAAATAAGATATTTGTAT
1 TAAATAT-AATAA-A-A-TT-TAT
2303443 TAAATATA
1 TAAATATA
2303451 TCATATCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
17 8 0.20
18 6 0.15
19 14 0.35
20 1 0.03
22 1 0.03
23 2 0.05
24 8 0.20
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (19 bp):
TAAATATAATAAAATTTAT
Found at i:2303699 original size:12 final size:13
Alignment explanation
Indices: 2303657--2303699 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
2303647 TCTGAATCTA
2303657 ATATTT-ATTTAT
1 ATATTTAATTTAT
2303669 ATATTTAA-TTAT
1 ATATTTAATTTAT
2303681 -TATTTAATTTAT
1 ATATTTAATTTAT
2303693 AT-TTTAA
1 ATATTTAA
2303700 ATAATTTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 7 0.25
12 19 0.68
13 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATTTAATTTAT
Found at i:2304267 original size:9 final size:8
Alignment explanation
Indices: 2304234--2304272 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
2304224 AGATTTTTAA
2304234 AATAATTT
1 AATAATTT
2304242 AATAATTT
1 AATAATTT
*
2304250 CAATTATTT
1 -AATAATTT
2304259 GAATAATTT
1 -AATAATTT
2304268 AATAA
1 AATAA
2304273 AATTTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (8 bp):
AATAATTT
Found at i:2305307 original size:27 final size:28
Alignment explanation
Indices: 2305257--2305315 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
2305247 TCATTAAGTA
*
2305257 TTTATTTTATAAAATAATTGATTTTGAT
1 TTTATTTTATAAAATAATTGATTTCGAT
2305285 TTTATTTTA-ATAAATAATT-ATTTCGAT
1 TTTATTTTATA-AAATAATTGATTTCGAT
2305312 TTTA
1 TTTA
2305316 AATAGAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATTTTATAAAATAATTGATTTCGAT
Found at i:2305419 original size:16 final size:16
Alignment explanation
Indices: 2305394--2305424 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2305384 TTAAATTAAA
2305394 TTACTCTATTTTATTC
1 TTACTCTATTTTATTC
*
2305410 TTACTTTATTTTATT
1 TTACTCTATTTTATT
2305425 TTCGTATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (16 bp):
TTACTCTATTTTATTC
Found at i:2305457 original size:22 final size:22
Alignment explanation
Indices: 2305415--2305458 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2305405 TATTCTTACT
** *
2305415 TTATTTTATTTTCGTATAATAA
1 TTATTTTATTTTAATAAAATAA
2305437 TTATTTTATTTTAATAAAATAA
1 TTATTTTATTTTAATAAAATAA
2305459 ACAGACAGTT
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:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTTTATTTTAATAAAATAA
Found at i:2305779 original size:13 final size:13
Alignment explanation
Indices: 2305761--2305790 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2305751 TTTTTATTAA
2305761 AATATTTATATTT
1 AATATTTATATTT
*
2305774 AATATTTTTATTT
1 AATATTTATATTT
2305787 AATA
1 AATA
2305791 AATATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:2306655 original size:14 final size:14
Alignment explanation
Indices: 2306619--2306658 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2306609 ATACAATATA
2306619 TTTTTAAATATAAT
1 TTTTTAAATATAAT
* **
2306633 CTTAAAAATATAAT
1 TTTTTAAATATAAT
2306647 TTTTTAAATATA
1 TTTTTAAATATA
2306659 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTTAAATATAAT
Found at i:2308324 original size:31 final size:29
Alignment explanation
Indices: 2308289--2308363 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 29
2308279 AAAATTAAGA
2308289 CTTCTTAAATTTAAAAATAATTTTACTTATT
1 CTTCTTAAATTTAAAAAT-ATTTT-CTTATT
* *
2308320 CTTC-TAAAGTTTAGATAATATTTTCTTTTT
1 CTTCTTAAA-TTTA-AAAATATTTTCTTATT
2308350 C-TCTTAAGATTTAA
1 CTTCTTAA-ATTTAA
2308364 TACAAAATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
29 3 0.08
30 17 0.45
31 14 0.37
32 4 0.11
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (29 bp):
CTTCTTAAATTTAAAAATATTTTCTTATT
Found at i:2309682 original size:19 final size:18
Alignment explanation
Indices: 2309656--2309691 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2309646 TTTAAATTTC
*
2309656 ATAAATAAATTTAAAATG
1 ATAAATAAATCTAAAATG
2309674 ATAACATAAATCTAAAAT
1 ATAA-ATAAATCTAAAAT
2309692 TATTTACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAAATAAATCTAAAATG
Found at i:2309838 original size:22 final size:22
Alignment explanation
Indices: 2309813--2309861 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
2309803 ATAAATTTAA
* *
2309813 GTAAAAGATCATTTTTTATTAT
1 GTAAAAAATCAATTTTTATTAT
*
2309835 GTAAAAAATTAATTTTTATTAT
1 GTAAAAAATCAATTTTTATTAT
2309857 -TAAAA
1 GTAAAA
2309862 TATTTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (22 bp):
GTAAAAAATCAATTTTTATTAT
Found at i:2310452 original size:21 final size:21
Alignment explanation
Indices: 2310402--2310452 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
2310392 AAAATTTTAA
*
2310402 ATATAAATATTATAAGTGAAT
1 ATATAAATATTAGAAGTGAAT
*
2310423 ATGAT-AATATTAGATA-TGATT
1 AT-ATAAATATTAGA-AGTGAAT
2310444 ATATAAATA
1 ATATAAATA
2310453 AAATAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 20 0.80
22 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (21 bp):
ATATAAATATTAGAAGTGAAT
Found at i:2310662 original size:21 final size:23
Alignment explanation
Indices: 2310609--2310664 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
2310599 CAGATCTAAT
*
2310609 TTTATATATATTTAATAAATTATA
1 TTTAT-TATATTTAATAAATTAGA
*
2310633 TTAATTATATTTAA-AAA-TAGA
1 TTTATTATATTTAATAAATTAGA
2310654 TTTATTATATT
1 TTTATTATATT
2310665 ATTTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 3 0.10
23 9 0.31
24 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTATTATATTTAATAAATTAGA
Found at i:2310665 original size:26 final size:26
Alignment explanation
Indices: 2310622--2310671 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2310612 ATATATATTT
2310622 AATAAATTATATTAATTATATTTAAA
1 AATAAATTATATTAATTATATTTAAA
* *
2310648 AATAGATT-TATTATATTATTTTTA
1 AATAAATTATATTA-ATTATATTTA
2310672 TATTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AATAAATTATATTAATTATATTTAAA
Found at i:2310948 original size:2 final size:2
Alignment explanation
Indices: 2310941--2310971 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2310931 TTCTAGTGGC
2310941 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 A
2310972 AATGGAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2312567 original size:21 final size:21
Alignment explanation
Indices: 2312541--2312581 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2312531 ATTTAATAAA
2312541 ATTAAT-ATAAATAATTTAATT
1 ATTAATAATAAA-AATTTAATT
2312562 ATTAATAATAAAAATTTAAT
1 ATTAATAATAAAAATTTAAT
2312582 AATATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAATAATAAAAATTTAATT
Found at i:2312589 original size:29 final size:30
Alignment explanation
Indices: 2312550--2312609 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
2312540 AATTAATATA
*
2312550 AATAATTTAA-TT-ATTAATAATAAAAATTT
1 AATAATATAATTTGATTAA-AATAAAAATTT
*
2312579 AATAATATAATTTGATTAAATTAAAAATTT
1 AATAATATAATTTGATTAAAATAAAAATTT
2312609 A
1 A
2312610 TGATCTACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 9 0.33
30 13 0.48
31 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (30 bp):
AATAATATAATTTGATTAAAATAAAAATTT
Found at i:2312992 original size:17 final size:17
Alignment explanation
Indices: 2312970--2313003 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2312960 ATTTTTTTAA
2312970 TTATAAAAATAATTTTG
1 TTATAAAAATAATTTTG
*
2312987 TTATAAAAATCATTTTG
1 TTATAAAAATAATTTTG
2313004 AATAATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (17 bp):
TTATAAAAATAATTTTG
Found at i:2313394 original size:24 final size:24
Alignment explanation
Indices: 2313341--2313394 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
2313331 TATTCATCTG
2313341 ATTTAAAAAATTTAATATAAATTAA
1 ATTTAAAAAATTTAATAT-AATTAA
*
2313366 A-TTAAAAAATTATAATAT-TTTAA
1 ATTTAAAAAATT-TAATATAATTAA
2313389 ATTTAA
1 ATTTAA
2313395 GTTAATTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 5 0.19
24 14 0.54
25 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTAAAAAATTTAATATAATTAA
Found at i:2313841 original size:16 final size:16
Alignment explanation
Indices: 2313813--2313881 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
2313803 TAAAAAATAA
*
2313813 TTAATTATAAAATTAT
1 TTAAATATAAAATTAT
2313829 TTAAATATAAAATT-T
1 TTAAATATAAAATTAT
* *
2313844 TT-AATTTAAAATAAT
1 TTAAATATAAAATTAT
* *
2313859 TTAAATTTAAATTTATT
1 TTAAATATAAAATTA-T
2313876 TTAAAT
1 TTAAAT
2313882 TTGAAAAGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.20
15 6 0.13
16 23 0.51
17 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAATATAAAATTAT
Found at i:2313878 original size:17 final size:16
Alignment explanation
Indices: 2313774--2313888 Score: 75
Period size: 14 Copynumber: 7.4 Consensus size: 16
2313764 TAAAATTTTA
2313774 TTAAAA-ATTTTAAAT
1 TTAAAATATTTTAAAT
*
2313789 TT-AAAT-TTATAAA-
1 TTAAAATATTTTAAAT
* *
2313802 TTAAAAAATAATT-AAT
1 TTAAAATAT-TTTAAAT
2313818 TATAAAAT-TATTTAAAT
1 T-TAAAATAT-TTTAAAT
*
2313835 ATAAAAT-TTTT-AAT
1 TTAAAATATTTTAAAT
*
2313849 TTAAAATAATTTAAAT
1 TTAAAATATTTTAAAT
*
2313865 TTAAATTTATTTTAAAT
1 TTAAA-ATATTTTAAAT
2313882 TTGAAAA
1 TT-AAAA
2313889 GCATTTTGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
13 2 0.03
14 21 0.27
15 11 0.14
16 21 0.27
17 19 0.25
18 3 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
TTAAAATATTTTAAAT
Found at i:2313879 original size:47 final size:46
Alignment explanation
Indices: 2313780--2313882 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 46
2313770 TTTATTAAAA
*
2313780 ATTTTAAATTTAAATTTATAAATTAAAAAATAATTAATTATAAAATT
1 ATTTTAAATTAAAATTTATAAATTAAAAAAT-ATTAATTATAAAATT
* * *
2313827 A-TTTAAATATAAAATTTTTAATTTAAAATAAT-TTAAATT-TAAATTT
1 ATTTTAAAT-TAAAATTTATAAATTAAAA-AATATT-AATTATAAAATT
2313873 ATTTTAAATT
1 ATTTTAAATT
2313883 TGAAAAGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
46 17 0.35
47 28 0.58
48 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (46 bp):
ATTTTAAATTAAAATTTATAAATTAAAAAATATTAATTATAAAATT
Found at i:2314621 original size:16 final size:16
Alignment explanation
Indices: 2314589--2314645 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
2314579 AAAAAATTAA
2314589 AAAATAATTAATTAATTT
1 AAAATAATT--TTAATTT
**
2314607 AATTTAATTTTAATTT
1 AAAATAATTTTAATTT
*
2314623 AAAATAATTTAAATTT
1 AAAATAATTTTAATTT
2314639 AAAATAA
1 AAAATAA
2314646 CTTCAATATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 27 0.79
18 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATAATTTTAATTT
Found at i:2318516 original size:17 final size:16
Alignment explanation
Indices: 2318495--2318548 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 16
2318485 CATGAATAGT
2318495 AATTAATTATAAATAA
1 AATTAATTATAAATAA
2318511 ATATTAATTATAAAATAA
1 A-ATTAATTAT-AAATAA
2318529 AATTAATTA-AAATAA
1 AATTAATTATAAATAA
2318544 TAATT
1 -AATT
2318549 GTAATAATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.17
16 5 0.14
17 17 0.49
18 7 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAATTATAAATAA
Found at i:2319660 original size:23 final size:23
Alignment explanation
Indices: 2319630--2319709 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
2319620 AATTATGTTG
2319630 TAAATATATATT-TTAAAATTTT
1 TAAATATATATTATTAAAATTTT
* *
2319652 TATAATATAAATTATTAATATTTT
1 TA-AATATATATTATTAAAATTTT
* * *
2319676 TAAATTTATATAAATATAAAATATAT
1 TAAATATATAT-TAT-TAAAAT-TTT
2319702 TAAATATA
1 TAAATATA
2319710 AATATAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
22 2 0.04
23 16 0.36
24 13 0.29
25 5 0.11
26 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAATATATATTATTAAAATTTT
Found at i:2319692 original size:33 final size:34
Alignment explanation
Indices: 2319637--2319737 Score: 97
Period size: 32 Copynumber: 3.1 Consensus size: 34
2319627 TTGTAAATAT
*
2319637 ATATTTTAAAATTTTTATAATAT-AAAT-TATTA
1 ATATTTTAAAATTTATATAATATAAAATATATTA
*
2319669 ATATTTTTAAATTTATATAAATATAAAATATATTA
1 ATATTTTAAAATTTATAT-AATATAAAATATATTA
* * * *
2319704 A-A-TAT-AAATATA-ATATTATAAAATATATAA
1 ATATTTTAAAATTTATATAATATAAAATATATTA
2319734 ATAT
1 ATAT
2319738 GATATAAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 15 0.26
31 3 0.05
32 22 0.38
33 7 0.12
34 5 0.09
35 6 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
ATATTTTAAAATTTATATAATATAAAATATATTA
Found at i:2319712 original size:15 final size:15
Alignment explanation
Indices: 2319676--2319784 Score: 73
Period size: 15 Copynumber: 7.0 Consensus size: 15
2319666 TTAATATTTT
*
2319676 TAAATTTATATAAATA
1 TAAATATAT-TAAATA
2319692 TAAAATATATTAAATA
1 T-AAATATATTAAATA
* *
2319708 TAAATATAAT-ATTA
1 TAAATATATTAAATA
2319722 TAAA-ATATATAAATA
1 TAAATATAT-TAAATA
*
2319737 TGATATAAATATTTAAAT-
1 T-A-A-ATATA-TTAAATA
*
2319755 TATAATAT-TTAATTA
1 TA-AATATATTAAATA
2319770 TAAATATATTAAATA
1 TAAATATATTAAATA
2319785 AATAATATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.04
14 18 0.24
15 20 0.27
16 12 0.16
17 11 0.15
18 2 0.03
19 8 0.11
20 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (15 bp):
TAAATATATTAAATA
Found at i:2319744 original size:11 final size:10
Alignment explanation
Indices: 2319656--2319784 Score: 70
Period size: 9 Copynumber: 13.9 Consensus size: 10
2319646 AATTTTTATA
2319656 ATATAAAT-T
1 ATATAAATAT
2319665 AT-T-AATAT
1 ATATAAATAT
* * *
2319673 TTTTAAATTT
1 ATATAAATAT
2319683 ATAT-AA-AT
1 ATATAAATAT
2319691 ATA-AAATAT
1 ATATAAATAT
2319700 AT-TAAATAT
1 ATATAAATAT
*
2319709 AAATATAATAT
1 ATATA-AATAT
2319720 -TATAAA-AT
1 ATATAAATAT
2319728 ATATAAATAT
1 ATATAAATAT
2319738 GATATAAATAT
1 -ATATAAATAT
2319749 -T-TAAAT-T
1 ATATAAATAT
* *
2319756 ATA-ATATTT
1 ATATAAATAT
2319765 AATTATAAATAT
1 -A-TATAAATAT
2319777 AT-TAAATA
1 ATATAAATA
2319785 AATAATATTA
Statistics
Matches: 93, Mismatches: 10, Indels: 34
0.68 0.07 0.25
Matches are distributed among these distances:
7 4 0.04
8 20 0.22
9 32 0.34
10 15 0.16
11 18 0.19
12 4 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (10 bp):
ATATAAATAT
Found at i:2319758 original size:28 final size:30
Alignment explanation
Indices: 2319683--2319777 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 30
2319673 TTTTAAATTT
2319683 ATATAAATA--TAAAATATATTAAATATAA
1 ATATAAATATTTAAAATATATTAAATATAA
*
2319711 ATAT-AATATTATAAAATATA-TAAATAT-G
1 ATATAAATATT-TAAAATATATTAAATATAA
*
2319739 ATATAAATATTTAAATTATAATATTTAATTATAA
1 ATATAAATATTTAAA--AT-ATA-TTAAATATAA
2319773 ATATA
1 ATATA
2319778 TTAAATAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
27 4 0.07
28 12 0.22
29 13 0.24
30 11 0.20
31 3 0.06
33 6 0.11
34 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (30 bp):
ATATAAATATTTAAAATATATTAAATATAA
Found at i:2319795 original size:14 final size:14
Alignment explanation
Indices: 2319704--2319795 Score: 50
Period size: 15 Copynumber: 6.6 Consensus size: 14
2319694 AAATATATTA
2319704 AATA-TAAATATAAT
1 AATATTAAATA-AAT
* * *
2319718 ATTATAAAATATAT
1 AATATTAAATAAAT
* *
2319732 AAATATGATATAAAT
1 -AATATTAAATAAAT
*
2319747 -AT-TTAAAT-TAT
1 AATATTAAATAAAT
2319758 AATATTTAATTATAAAT
1 AATA-TTAA--ATAAAT
2319775 -ATATTAAATAAAT
1 AATATTAAATAAAT
2319788 AATATTAA
1 AATATTAA
2319796 TTATATTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 18
0.67 0.13 0.21
Matches are distributed among these distances:
11 2 0.03
12 6 0.10
13 8 0.14
14 16 0.28
15 19 0.33
16 5 0.09
17 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (14 bp):
AATATTAAATAAAT
Found at i:2319795 original size:29 final size:28
Alignment explanation
Indices: 2319740--2319800 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
2319730 ATAAATATGA
*
2319740 TATAAATATTTAAATTATAATATTTAAT
1 TATAAATATTTAAATAATAATATTTAAT
2319768 TATAAATATATTAAATAAATAATA-TTAAT
1 TATAAATAT-TTAAAT-AATAATATTTAAT
2319797 TATA
1 TATA
2319801 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.30
29 15 0.50
30 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAAATATTTAAATAATAATATTTAAT
Found at i:2319819 original size:21 final size:23
Alignment explanation
Indices: 2319774--2319824 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
2319764 TAATTATAAA
2319774 TATATTAAATAAATAATATTAAT
1 TATATTAAATAAATAATATTAAT
* *
2319797 TATATTTAA-AAAT-ATATTTAT
1 TATATTAAATAAATAATATTAAT
2319818 TATATTA
1 TATATTA
2319825 TTTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.52
22 4 0.16
23 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATTAAATAAATAATATTAAT
Found at i:2319870 original size:26 final size:24
Alignment explanation
Indices: 2319811--2319861 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
2319801 TTTAAAAATA
*
2319811 TATTTATTATATTATTTTTATATT
1 TATTAATTATATTATTTTTATATT
2319835 TATTAATTATA-TATTTTT-TATT
1 TATTAATTATATTATTTTTATATT
2319857 GTATT
1 -TATT
2319862 GAAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 11 0.44
24 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TATTAATTATATTATTTTTATATT
Found at i:2320315 original size:21 final size:22
Alignment explanation
Indices: 2320277--2320317 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2320267 TTTTTATTTC
**
2320277 ATTTAATTTAGTTTAAATTAAT
1 ATTTAATTTAGTAAAAATTAAT
2320299 ATTTAA-TTAGTAAAAATTA
1 ATTTAATTTAGTAAAAATTA
2320318 TTTTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTAATTTAGTAAAAATTAAT
Found at i:2320662 original size:15 final size:16
Alignment explanation
Indices: 2320634--2320682 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 16
2320624 TTTTTGAAAA
2320634 TATAAAAT-TT-TATT
1 TATAAAATATTATATT
*
2320648 TATTAAATA-TATA-T
1 TATAAAATATTATATT
2320662 TATAAAATATTATATT
1 TATAAAATATTATATT
2320678 TATAA
1 TATAA
2320683 TTGATATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 17 0.59
15 6 0.21
16 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATAAAATATTATATT
Found at i:2320696 original size:30 final size:29
Alignment explanation
Indices: 2320633--2320702 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
2320623 ATTTTTGAAA
2320633 ATATAAAAT-TT-TATTTATTAAATATAT
1 ATATAAAATATTATATTTATTAAATATAT
*
2320660 ATTATAAAATATTATATTTA-TAATTGATAT
1 A-TATAAAATATTATATTTATTAAAT-ATAT
2320690 GATAT-AAATATTA
1 -ATATAAAATATTA
2320703 AATTAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
27 1 0.03
28 8 0.22
29 14 0.38
30 13 0.35
31 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
ATATAAAATATTATATTTATTAAATATAT
Found at i:2321148 original size:25 final size:25
Alignment explanation
Indices: 2321094--2321148 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
2321084 TTTTTTAAAA
* *
2321094 AATTTTAAATAAATATAAATAATTT
1 AATTTTAAATAAATAGAAATAATCT
* *
2321119 TATTTTAAATTAAAT-GACATAATCT
1 AATTTTAAA-TAAATAGAAATAATCT
2321144 AATTT
1 AATTT
2321149 AAAAACATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
AATTTTAAATAAATAGAAATAATCT
Found at i:2324377 original size:15 final size:15
Alignment explanation
Indices: 2324311--2324396 Score: 84
Period size: 16 Copynumber: 5.6 Consensus size: 15
2324301 TTATTAAAAA
*
2324311 ATTTAAATTTAAATT
1 ATTTAAATTAAAATT
*
2324326 GATTTAAATTAAAAAT
1 -ATTTAAATTAAAATT
* *
2324342 AATTAAATATATAATT
1 ATTTAAAT-TAAAATT
2324358 ATTTAAATTAAAATT
1 ATTTAAATTAAAATT
* *
2324373 -TTTTAATATAAAATA
1 ATTTAAAT-TAAAATT
2324388 ATTTAAATT
1 ATTTAAATT
2324397 TATATATAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.11
15 20 0.35
16 31 0.54
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
ATTTAAATTAAAATT
Found at i:2324381 original size:30 final size:31
Alignment explanation
Indices: 2324303--2324396 Score: 95
Period size: 30 Copynumber: 3.1 Consensus size: 31
2324293 TTTAAATTTT
* *
2324303 ATTAAAAA-ATTTAAAT-TTAAATTGATTTAA
1 ATTAAAAATAATTAAATATAAAATT-ATTTAA
*
2324333 ATTAAAAATAATTAAATATATAATTATTTAA
1 ATTAAAAATAATTAAATATAAAATTATTTAA
** * *
2324364 ATT-AAAATTTTTTAATATAAAATAATTTAA
1 ATTAAAAATAATTAAATATAAAATTATTTAA
2324394 ATT
1 ATT
2324397 TATATATAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
30 33 0.61
31 16 0.30
32 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (31 bp):
ATTAAAAATAATTAAATATAAAATTATTTAA
Found at i:2324385 original size:46 final size:47
Alignment explanation
Indices: 2324311--2324400 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 47
2324301 TTATTAAAAA
*
2324311 ATTTAAATTTAAATTGATTTAAATTAAAAATAA-TTAAATATATAATT
1 ATTTAAATTAAAATTGATTTAAATT-AAAATAATTTAAATATATAATT
* *
2324358 ATTTAAATTAAAATT--TTTTAATATAAAATAATTTAAATTTATA
1 ATTTAAATTAAAATTGATTTAAAT-TAAAATAATTTAAATATATA
2324401 TATAACTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 13 0.34
46 11 0.29
47 14 0.37
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (47 bp):
ATTTAAATTAAAATTGATTTAAATTAAAATAATTTAAATATATAATT
Found at i:2324903 original size:24 final size:23
Alignment explanation
Indices: 2324876--2324929 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
2324866 TATAGTATTT
2324876 TAAAAAATTTTATTAATTTA-AATA
1 TAAAAAATTTTATT--TTTACAATA
* *
2324900 TAAAATA-TTTATTTTTACATTA
1 TAAAAAATTTTATTTTTACAATA
2324922 TAAAAAAT
1 TAAAAAAT
2324930 CAAAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.16
22 9 0.36
23 6 0.24
24 6 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAAAAATTTTATTTTTACAATA
Found at i:2325254 original size:16 final size:16
Alignment explanation
Indices: 2325214--2325265 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
2325204 AAAAATTAAA
*
2325214 AAATAATTTATTAATTTG
1 AAATAA-TTA-TAATTTT
*
2325232 AATTAATTATAATTTT
1 AAATAATTATAATTTT
*
2325248 AAATAATT-TAAATTT
1 AAATAATTATAATTTT
2325263 AAA
1 AAA
2325266 GTAACTTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 9 0.30
16 13 0.43
17 3 0.10
18 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AAATAATTATAATTTT
Found at i:2326789 original size:20 final size:20
Alignment explanation
Indices: 2326761--2326835 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
2326751 TCATACCCTG
2326761 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2326781 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2326801 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
*
2326821 ATGCATCGATACATT
1 ATGTATCGATACATT
2326836 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2326829 original size:40 final size:39
Alignment explanation
Indices: 2326761--2326838 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
2326751 TCATACCCTG
* * *
2326761 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATACATCGATACAT-TATGA
* *
2326801 ATGTATCGATATATTCTACAATGCATCGATACATTATG
1 ATGTATCGATACATTCTACAATACATCGATACATTATG
2326839 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATACATCGATACATTATGA
Found at i:2333938 original size:15 final size:17
Alignment explanation
Indices: 2333902--2333944 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
2333892 AAAGTCAAAA
*
2333902 GCAAAAGCACAAAAGAT
1 GCAAAAGCAAAAAAGAT
2333919 G-AAAAG-AAAAAAG-T
1 GCAAAAGCAAAAAAGAT
2333933 GCAAAAGCAAAA
1 GCAAAAGCAAAA
2333945 TAAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 9 0.39
17 1 0.04
ACGTcount: A:0.65, C:0.12, G:0.19, T:0.05
Consensus pattern (17 bp):
GCAAAAGCAAAAAAGAT
Found at i:2333951 original size:23 final size:23
Alignment explanation
Indices: 2333925--2333976 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2333915 AGATGAAAAG
2333925 AAAAAAGTGCAA-AAGC-AAAATAA
1 AAAAAAG-GCAACAA-CAAAAATAA
*
2333948 AAAAAAGGGAACAACAAAAATAA
1 AAAAAAGGCAACAACAAAAATAA
2333971 AAAAAA
1 AAAAAA
2333977 CGAGGACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.75, C:0.08, G:0.12, T:0.06
Consensus pattern (23 bp):
AAAAAAGGCAACAACAAAAATAA
Found at i:2335292 original size:27 final size:27
Alignment explanation
Indices: 2335253--2336784 Score: 2452
Period size: 27 Copynumber: 56.0 Consensus size: 27
2335243 AATGTGACCT
* *
2335253 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335280 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335307 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335334 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2335362 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
2335389 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2335417 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2335444 GTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335471 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2335499 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335526 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2335553 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335580 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2335608 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335635 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2335663 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
2335690 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2335718 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335745 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2335773 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335800 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2335828 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
2335855 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2335883 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335910 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335937 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2335965 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2335992 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2336019 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
2336047 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336074 CTTTTTAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
2336102 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
2336129 CTTTTAAGTCCATAACTTCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336156 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2336184 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2336211 CTTTTAAGTCTACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
2336238 CTTTTAAGTCCACAACTCTGTGGCATAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2336266 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336293 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
2336321 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336348 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336375 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2336403 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336430 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336457 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2336484 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336511 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
2336539 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336566 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
2336593 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2336620 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
2336647 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
2336674 CTTTTAAGTCCATAACTCCGTGGTATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
2336702 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
2336729 CTTTTAAAGTCCACAACTCTGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
2336757 CTTTTAGAATCCACAACTCTGTGGCACC
1 CTTTTA-AGTCCACAACTCCGTGGCACC
2336785 TATTTCAAAG
Statistics
Matches: 1405, Mismatches: 80, Indels: 39
0.92 0.05 0.03
Matches are distributed among these distances:
27 900 0.64
28 505 0.36
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:2335392 original size:82 final size:81
Alignment explanation
Indices: 2335253--2336784 Score: 2452
Period size: 82 Copynumber: 18.7 Consensus size: 81
2335243 AATGTGACCT
* *
2335253 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
2335318 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
2335334 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
2335399 CCACAACTCCGTGGCATT
64 CCACAACTCCGTGGCACC
*
2335417 CTTTTAAGTCCACAACTCCGTGGCACCGTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
2335482 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* * *
2335499 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGCCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
2335564 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
*
2335580 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
2335645 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
* * **
2335663 CTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
2335728 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
2335745 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
2335810 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
* * **
2335828 CTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
2335893 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
2335910 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
2335975 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
2335992 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
2336057 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
2336074 CTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 C-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
2336139 CATAACTTCGCGGCACC
65 CACAACTCCGTGGCACC
*
2336156 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
2336221 TACAACTCCGTGACACC
65 CACAACTCCGTGGCACC
* ** *
2336238 CTTTTAAGTCCACAACTCTGTGGCATATCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
2336303 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
2336321 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
2336386 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* *
2336403 CTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
2336468 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
2336484 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
2336549 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
2336566 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
2336631 ACAACTCTGTGGCACC
66 ACAACTCCGTGGCACC
* * * *
2336647 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGTATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
2336712 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
2336729 CTTTTAAAGTCCACAACTCTGTGGTACCCTTTTAGAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGCACC
2336785 TATTTCAAAG
Statistics
Matches: 1348, Mismatches: 85, Indels: 34
0.92 0.06 0.02
Matches are distributed among these distances:
81 261 0.19
82 760 0.56
83 312 0.23
84 15 0.01
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:2335670 original size:219 final size:217
Alignment explanation
Indices: 2335253--2336784 Score: 2469
Period size: 219 Copynumber: 7.0 Consensus size: 217
2335243 AATGTGACCT
* *
2335253 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
2335318 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGT
* ** *
2335383 GGCATCCTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCGTTT
130 GGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
2335448 TAAGTCCACAACTCCGTGGCACC
195 TAAGTCCACAACTCCGTGGCACC
*
2335471 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
2335536 CACAACTCCGTGGCACCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
2335601 GGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTT
130 GGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTT
* *
2335666 TTAAGTCCACAACTTCGTGGCATC
194 TTAAGTCCACAACTCCGTGGCACC
**
2335690 CTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
2335755 CACAACTCCGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
* * * **
2335820 TGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATTCT
129 TGGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCT
2335885 TTTAAGTCCACAACTCCGTGGCACC
193 TTTAAGTCCACAACTCCGTGGCACC
*
2335910 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
2335975 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
2336040 GGCAT-CTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTGGCACCCT
130 GGCATCCT-TTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCT
2336104 TTTAAGTCCACAACTCCGTGGCACC
193 TTTAAGTCCACAACTCCGTGGCACC
* * * *
2336129 CTTTTAAGTCCATAACTTCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* * *
2336194 CACAACTCCGTGGCACCCTTTTAAGTCTACAACTCCGTGACACCCTTTTAAGTCCACAACTCTGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
* *
2336259 GGCAT-ATCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCT
130 GGCATCCT-TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCT
2336323 TTTAAGTCCACAACTCCGTGGCACC
193 TTTAAGTCCACAACTCCGTGGCACC
2336348 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
2336413 CACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
* *
2336478 GGCA-CCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTT
130 GGCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTT
* *
2336542 TTAAGACCACAACTCTGTGGCACC
194 TTAAGTCCACAACTCCGTGGCACC
2336566 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
2336631 ACAACTCTGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTG
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
* * * *
2336696 GTAT-CTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCTGTGGTACCCTT
131 GCATCCT-TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTT
* *
2336760 TTAGAATCCACAACTCTGTGGCACC
194 TTA-AGTCCACAACTCCGTGGCACC
2336785 TATTTCAAAG
Statistics
Matches: 1227, Mismatches: 72, Indels: 29
0.92 0.05 0.02
Matches are distributed among these distances:
217 96 0.08
218 251 0.20
219 697 0.57
220 163 0.13
221 20 0.02
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (217 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
GCATCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
AAGTCCACAACTCCGTGGCACC
Found at i:2337325 original size:32 final size:32
Alignment explanation
Indices: 2336768--2337317 Score: 904
Period size: 32 Copynumber: 17.2 Consensus size: 32
2336758 TTTTAGAATC
* * *
2336768 CACAACTCTGTGGC-ACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2336799 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2336831 CAGAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2336863 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2336895 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2336927 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2336959 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2336991 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2337023 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2337055 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2337087 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2337119 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2337151 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2337183 CACAAGTCAGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2337215 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2337247 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* ** * *
2337279 CACGAGTCGGTGGCAATTCTTTTCAAGGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2337311 CATAAGT
1 CACAAGT
2337318 TAGTGGCACC
Statistics
Matches: 492, Mismatches: 26, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
31 12 0.02
32 480 0.98
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.18
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:2337920 original size:20 final size:20
Alignment explanation
Indices: 2337892--2337966 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
2337882 TCATACCCTG
2337892 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2337912 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2337932 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
*
2337952 ATGCATCGATACATT
1 ATGTATCGATACATT
2337967 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2337960 original size:40 final size:39
Alignment explanation
Indices: 2337892--2337969 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
2337882 TCATACCCTG
* * *
2337892 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATACATCGATACAT-TATGA
* *
2337932 ATGTATCGATATATTCTACAATGCATCGATACATTATG
1 ATGTATCGATACATTCTACAATACATCGATACATTATG
2337970 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATACATCGATACATTATGA
Found at i:2342189 original size:26 final size:25
Alignment explanation
Indices: 2342129--2342190 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
2342119 ATTCGATGTA
2342129 TTTAATTAATTTAATTTTAAATTTT
1 TTTAATTAATTTAATTTTAAATTTT
* * *
2342154 TTTCAGTAATTTTATTTTAAGATTTT
1 TTTAATTAATTTAATTTTAA-ATTTT
2342180 TTTAATTAATT
1 TTTAATTAATT
2342191 AGTTTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTAATTAATTTAATTTTAAATTTT
Found at i:2342197 original size:26 final size:24
Alignment explanation
Indices: 2342129--2342197 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
2342119 ATTCGATGTA
*
2342129 TTTAATTAATTTAATTTTAAATTTT
1 TTTAATTAA-TTATTTTTAAATTTT
* * *
2342154 TTTCAGTAATTTTATTTTAAGATTTT
1 TTTAATTAATTAT-TTTTAA-ATTTT
2342180 TTTAATTAATTAGTTTTT
1 TTTAATTAATTA-TTTTT
2342198 TTACATGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 2 0.06
25 13 0.38
26 18 0.53
27 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTAATTAATTATTTTTAAATTTT
Found at i:2342795 original size:20 final size:22
Alignment explanation
Indices: 2342757--2342812 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
2342747 TAAATATGTT
*
2342757 TTTAAATATAATTAATATAATT-TA
1 TTTAAATAT-ATT--TATAATTAAA
2342781 TTT-AATATATTTATAATTAAA
1 TTTAAATATATTTATAATTAAA
2342802 TTTAAATATAT
1 TTTAAATATAT
2342813 ATTTTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 4 0.14
22 10 0.34
23 5 0.17
24 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAAATATATTTATAATTAAA
Found at i:2342833 original size:17 final size:16
Alignment explanation
Indices: 2342807--2342888 Score: 59
Period size: 17 Copynumber: 5.2 Consensus size: 16
2342797 TTAAATTTAA
*
2342807 ATATATATTTTATATTT
1 ATATAAATTTTATA-TT
2342824 ATATAAATTTTAATACGTT
1 ATATAAATTTT-ATA--TT
2342843 A-AT-AA-TTTATATT
1 ATATAAATTTTATATT
*
2342856 ATATAAATTTTA-A-A
1 ATATAAATTTTATATT
*
2342870 ATATATA-TTTATATT
1 ATATAAATTTTATATT
2342885 ATAT
1 ATAT
2342889 CGTATTTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
13 7 0.13
14 9 0.17
15 10 0.19
16 7 0.13
17 12 0.23
18 5 0.09
19 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (16 bp):
ATATAAATTTTATATT
Found at i:2342838 original size:29 final size:28
Alignment explanation
Indices: 2342798--2342888 Score: 101
Period size: 29 Copynumber: 3.0 Consensus size: 28
2342788 TATTTATAAT
*
2342798 TAAATTTAAATATATATTTTATATTTATA
1 TAAATTTTAATATATATTTTATA-TTATA
*
2342827 TAAATTTTAATACGTTAATAATTTATATTATA
1 TAAATTTTAATA---T-ATATTTTATATTATA
*
2342859 TAAATTTTAAAATATATATTTATATTATA
1 TAAATTTTAATATATAT-TTTATATTATA
2342888 T
1 T
2342889 CGTATTTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
28 3 0.06
29 24 0.45
32 17 0.32
33 9 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (28 bp):
TAAATTTTAATATATATTTTATATTATA
Found at i:2343015 original size:57 final size:55
Alignment explanation
Indices: 2342910--2343017 Score: 128
Period size: 57 Copynumber: 1.9 Consensus size: 55
2342900 TATTTTATTC
*
2342910 ATATATTTATATTTAATATTATCATATTTACTTATAATATTTATATTAAAATTTTA
1 ATATATTTATATTTAATATTATCATATTTA-TTATAATATTTAAATTAAAATTTTA
* ** *
2342966 ATATATTTATTATTTATTATTATTTTATTT-TTATGAATCTTATAAATTAAAA
1 ATATATTTA-TATTTAATATTATCATATTTATTAT-AATATT-TAAATTAAAA
2343018 AGAAAAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
55 4 0.09
56 14 0.32
57 26 0.59
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (55 bp):
ATATATTTATATTTAATATTATCATATTTATTATAATATTTAAATTAAAATTTTA
Found at i:2344248 original size:16 final size:17
Alignment explanation
Indices: 2344227--2344260 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
2344217 ATTTTTTTAT
2344227 TATTTTT-ACT-CAAAA
1 TATTTTTAACTACAAAA
2344242 TATTTTTAACTACAAAA
1 TATTTTTAACTACAAAA
2344259 TA
1 TA
2344261 ATGAGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTTTTAACTACAAAA
Found at i:2344424 original size:20 final size:22
Alignment explanation
Indices: 2344401--2344444 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2344391 AAATGAATTT
*
2344401 ATTAA-AA-TATTTTTATTTAA
1 ATTAATAATTATTATTATTTAA
2344421 ATTAATTAATTATTATTATTTAA
1 ATTAA-TAATTATTATTATTTAA
2344444 A
1 A
2344445 AATTTAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
22 2 0.10
23 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTAATAATTATTATTATTTAA
Found at i:2351303 original size:5 final size:5
Alignment explanation
Indices: 2351293--2351331 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
2351283 TTGGATCAAA
2351293 TTATT TTATT TTATTT TTATT TTATT TTATT TT-TT TTAT
1 TTATT TTATT TTA-TT TTATT TTATT TTATT TTATT TTAT
2351332 ATAATAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:2351314 original size:16 final size:16
Alignment explanation
Indices: 2351293--2351326 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2351283 TTGGATCAAA
2351293 TTATTTTATTTTATTT
1 TTATTTTATTTTATTT
2351309 TTATTTTATTTTATTT
1 TTATTTTATTTTATTT
2351325 TT
1 TT
2351327 TTTATATAAT
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTATTTTATTTTATTT
Found at i:2352542 original size:14 final size:15
Alignment explanation
Indices: 2352523--2352560 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2352513 ATATATTTTT
2352523 AAATATAA-TTTTAA
1 AAATATAACTTTTAA
2352537 AAATATAACTTTTTAA
1 AAATATAAC-TTTTAA
*
2352553 ATATATAA
1 AAATATAA
2352561 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
16 13 0.62
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATAACTTTTAA
Found at i:2356539 original size:15 final size:15
Alignment explanation
Indices: 2356449--2356542 Score: 61
Period size: 15 Copynumber: 6.1 Consensus size: 15
2356439 TTTTAAATTT
*
2356449 TATAT-AATATAAAT
1 TATATAAATATAAAA
2356463 TAT-TAACATATTAAAA
1 TATATAA-ATA-TAAAA
2356479 TTTATATAAATATAAAA
1 --TATATAAATATAAAA
* *
2356496 TATATTAAACAT-GAA
1 TATA-TAAATATAAAA
* *
2356511 TGTA-ATATTATAAAA
1 TATATA-AATATAAAA
2356526 TATATAAATATAAAA
1 TATATAAATATAAAA
2356541 TA
1 TA
2356543 AATATTTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
13 2 0.03
14 7 0.11
15 27 0.44
16 11 0.18
17 5 0.08
18 6 0.10
19 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
TATATAAATATAAAA
Done.