Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 40 of 196
Found at i:11025802 original size:33 final size:33
Alignment explanation
Indices: 11025760--11025827 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
11025750 AATTTACATT
*
11025760 TGAAAATTAAAAATTTATTTAATTTAAATTGAA
1 TGAAAATTAAAAAATTATTTAATTTAAATTGAA
11025793 TGAAAATTAAAAAATTATTTAATTTAAATTGAA
1 TGAAAATTAAAAAATTATTTAATTTAAATTGAA
11025826 TG
1 TG
11025828 GATATATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (33 bp):
TGAAAATTAAAAAATTATTTAATTTAAATTGAA
Found at i:11032265 original size:9 final size:10
Alignment explanation
Indices: 11032246--11032275 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
11032236 ATTTAGTCCC
11032246 TTTTTATTTT
1 TTTTTATTTT
11032256 TTTTTATTTT
1 TTTTTATTTT
11032266 TTTATTATTT
1 TTT-TTATTT
11032276 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:11035650 original size:20 final size:21
Alignment explanation
Indices: 11035625--11035665 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11035615 CTAACCTTCA
11035625 AAACTTTTTA-TTTTC-CCTTT
1 AAAC-TTTTACTTTTCACCTTT
11035645 AAACTTTTACTTTTCACCTTT
1 AAACTTTTACTTTTCACCTTT
11035666 TACCCCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (21 bp):
AAACTTTTACTTTTCACCTTT
Found at i:11040628 original size:16 final size:15
Alignment explanation
Indices: 11040598--11040626 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11040588 ACGTGTCTCT
11040598 TTTTTTTAATATTTA
1 TTTTTTTAATATTTA
11040613 TTTTTTTAATATTT
1 TTTTTTTAATATTT
11040627 TACTATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:11041680 original size:3 final size:3
Alignment explanation
Indices: 11041674--11041710 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11041664 ATAATAATAC
11041674 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
11041711 AATTAAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:11055365 original size:25 final size:25
Alignment explanation
Indices: 11055337--11055403 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
11055327 TTCGAGCCAC
11055337 GTAACGAGAAGCTCATGTGAACCAT
1 GTAACGAGAAGCTCATGTGAACCAT
*
11055362 GTAAC-AGAAAGCTCATGTGAGCCAT
1 GTAACGAG-AAGCTCATGTGAACCAT
* *
11055387 GTAATGGGAAGCTCATG
1 GTAACGAGAAGCTCATG
11055404 CCAGCCAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 34 0.92
26 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (25 bp):
GTAACGAGAAGCTCATGTGAACCAT
Found at i:11055446 original size:24 final size:24
Alignment explanation
Indices: 11055370--11055450 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
11055360 ATGTAACAGA
* * *
11055370 AAGCTCATGTGAGCCATGTAATGGG
1 AAGCTCATGCGAGCCA-ATATTGGG
* * **
11055395 AAGCTCATGCCAGCCAATATCGAA
1 AAGCTCATGCGAGCCAATATTGGG
11055419 AAGCTCATGCGAGCCAATATTGGG
1 AAGCTCATGCGAGCCAATATTGGG
11055443 AAGCTCAT
1 AAGCTCAT
11055451 AAAAAAGCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 31 0.69
25 14 0.31
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (24 bp):
AAGCTCATGCGAGCCAATATTGGG
Found at i:11067097 original size:12 final size:12
Alignment explanation
Indices: 11067077--11067107 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11067067 CAAATTTGAC
*
11067077 ATTAATATTAAT
1 ATTATTATTAAT
11067089 ATTATTATTAAT
1 ATTATTATTAAT
11067101 ATTATTA
1 ATTATTA
11067108 GTATATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTAAT
Found at i:11067303 original size:5 final size:5
Alignment explanation
Indices: 11067293--11067332 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
11067283 CATAAAATGA
11067293 AAAAG AAAAG AAAAG -AAAG -AAAG -AAAG AAAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AA
11067333 GAAATTTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.36
5 17 0.52
6 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:11067317 original size:18 final size:18
Alignment explanation
Indices: 11067294--11067328 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11067284 ATAAAATGAA
11067294 AAAGAAA-AGAAAAGAAAG
1 AAAGAAAGA-AAAAGAAAG
11067312 AAAGAAAGAAAAAGAAA
1 AAAGAAAGAAAAAGAAA
11067329 AGAAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAAAAGAAAG
Found at i:11073624 original size:42 final size:42
Alignment explanation
Indices: 11073565--11073647 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
11073555 TCACAAGTTC
11073565 CCTTATAAAAAGTTCCACGTCATTTACAAAATTAAATTATGA
1 CCTTATAAAAAGTTCCACGTCATTTACAAAATTAAATTATGA
*
11073607 CCTTATAAAAAGTTCCACGTCATTTACGAAATTAAATTATG
1 CCTTATAAAAAGTTCCACGTCATTTACAAAATTAAATTATG
11073648 TTATATTAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (42 bp):
CCTTATAAAAAGTTCCACGTCATTTACAAAATTAAATTATGA
Found at i:11078125 original size:26 final size:24
Alignment explanation
Indices: 11078080--11078127 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
11078070 GTCATCACTA
*
11078080 ACTAACAATTAATTTAAAATAATT
1 ACTAACAAATAATTTAAAATAATT
11078104 ACTAACAAAATAACTTTAAAATAA
1 ACTAAC-AAATAA-TTTAAAATAA
11078128 ATTAAAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 5 0.24
26 10 0.48
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.31
Consensus pattern (24 bp):
ACTAACAAATAATTTAAAATAATT
Found at i:11080248 original size:17 final size:19
Alignment explanation
Indices: 11080226--11080261 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
11080216 CTGAAATAGT
11080226 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
11080243 AACAAAAGTTATACAATAA
1 AACAAAAGTTATACAATAA
11080262 CAACTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:11080305 original size:11 final size:11
Alignment explanation
Indices: 11080289--11080313 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11080279 CATAATAGTG
11080289 AAATGGTAGCA
1 AAATGGTAGCA
11080300 AAATGGTAGCA
1 AAATGGTAGCA
11080311 AAA
1 AAA
11080314 AAACAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (11 bp):
AAATGGTAGCA
Found at i:11081006 original size:32 final size:29
Alignment explanation
Indices: 11080942--11081036 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 29
11080932 TCTTTAAATG
*
11080942 TGTATGATTGAATCAAAATTAAAGTTTCA
1 TGTATGATTGAATCAAAATAAAAGTTTCA
*
11080971 TGTATGCATATGAATCACAATCAAAAGTTAT-A
1 TGTATG-AT-TGAATCAAAAT-AAAAGTT-TCA
*
11081003 TGTATATGATT-ACATC-AAATCAAAG-TTCA
1 TG--TATGATTGA-ATCAAAATAAAAGTTTCA
11081032 TGTAT
1 TGTAT
11081037 CAAATTGTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
27 3 0.06
28 1 0.02
29 10 0.19
30 6 0.11
31 14 0.26
32 13 0.24
33 3 0.06
34 4 0.07
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.36
Consensus pattern (29 bp):
TGTATGATTGAATCAAAATAAAAGTTTCA
Found at i:11081048 original size:31 final size:30
Alignment explanation
Indices: 11081013--11081072 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
11081003 TGTATATGAT
*
11081013 TACATCAAATCAAAGTTCATGTATCAAATTG
1 TACATCAAATCAAAGTTCATATAT-AAATTG
**
11081044 TACATTGAATCAAAGTTCATATATAAATT
1 TACATCAAATCAAAGTTCATATATAAATT
11081073 TGAGATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.35
Consensus pattern (30 bp):
TACATCAAATCAAAGTTCATATATAAATTG
Found at i:11083722 original size:22 final size:23
Alignment explanation
Indices: 11083683--11083727 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11083673 AAACTAAATC
11083683 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
11083706 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
11083728 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:11083730 original size:19 final size:19
Alignment explanation
Indices: 11083683--11083759 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
11083673 AAACTAAATC
*
11083683 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
11083703 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
11083725 TCTAAGATTGCATACCATA
1 TCTAAGATTACATATCATA
*
11083744 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
11083760 CTCAAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11084388 original size:44 final size:45
Alignment explanation
Indices: 11084069--11085056 Score: 341
Period size: 44 Copynumber: 22.7 Consensus size: 45
11084059 CTCTAATCCA
* * * * * *
11084069 CTCCACTACAACTT-AGGA-AGACAAGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * * * *
11084112 CCCCACTGCAATTTCA-GAGGGATAAGGCTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTT-AGTCTG
* * *
11084157 CTCCACTGCAACTTCAGG-GAGATAAGACTCGA-TA-TGA-TCTA
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * *
11084198 CTCTACTGCAACTTCA-GAGAGATAATATCTGTGGTT--TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGATTACTTAGTCTG
* * * * * * * *
11084242 CTCCACTACAACTTTAGG-GAGACATGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
*
11084286 CCCCACTGCAACTTCAGG-GAGATAAGA-TTCGCCA-T-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTT-G--ATTACTT-AGTCTG
11084331 C-CTCACTGCAACTTCAGGAG-GATAAGACTTGATTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* ** *** * **
11084375 CTCTACTGCAACTTCA-GAGAGATAAGA-TCAAAGGCTTTAATCCA
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTAC-TTAGTCTG
* * * ** *
11084419 CTCCACTACTACTTCAGGA-AGATAGGA-TT-ATCGGCTTTA-ACTTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGAT-TAC-TTAGTC-TG
* *
11084463 CTCCACTGCAACTTCAGG-GAGATAAGATTTG-TCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTA-CTT-AGTCTG
* * *
11084508 C-CTCACTGTAACTTCAGGAG-GATAAGACTTGA-TGC-GA-TCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* ** * **
11084549 CT-CTCTGCAACTTCA-GAGAGATAAGATCTAAAGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CTTGA-TTACTTAGTCTG
* * ** *
11084592 CTCCACTGTAACTTCAGGA-AGATAGGA-TT-ATCGGCTTTA-ACTTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGAT-TAC-TTAGTC-TG
* *
11084636 TTCCACTGCAACTTCAGG-GAGATAAGA-TT-TTTCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATT-A-CTT-AGTCTG
* * *
11084681 C-CTCACTGTAACTTCAGGAG-GATAAGACTTGCTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * *
11084725 CTCCATTGCAACTTCAGG-GAGATAAGACTAGA-TAC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * * *
11084766 CT-CTCTACAACTTCA-GAAAGATAAGATCTGTGATT--TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGATTACTTAGTCTG
* * ** *
11084809 CTCCACTGCAACTTCAAG-GAGATAGGA-TTG-TCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGAT-TAC-TTAGTCTG
* *
11084853 CTCCATTGCAACCTT-AGG-GAGATAAGATTTGCCA-T-CTTCAGTCTG
1 CTCCACTGCAA-CTTCAGGAGAGATAAGACTTG--ATTACTT-AGTCTG
* * *
11084898 C-CTCACTACAACTTCAGGAG-GATAAGACTTGCTTACTTAGTTTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* * * *
11084942 CTCTACTGCAACTTCAGG-GAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
* ** * * *
11084983 CT-CTCTGCAACTTCA-GAGAGATAAGATCCAAGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGAGAGATAAGA--CTTGATTACTTAGTCTG
*
11085026 CTCCACTGCAACTTCAGG-GAGATAAGGCTTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG
11085057 GTGGCTTAAA
Statistics
Matches: 706, Mismatches: 145, Indels: 189
0.68 0.14 0.18
Matches are distributed among these distances:
39 5 0.01
40 59 0.08
41 50 0.07
42 22 0.03
43 53 0.08
44 337 0.48
45 167 0.24
46 11 0.02
47 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGAGAGATAAGACTTGATTACTTAGTCTG
Found at i:11084471 original size:177 final size:175
Alignment explanation
Indices: 11084146--11084751 Score: 744
Period size: 177 Copynumber: 3.5 Consensus size: 175
11084136 AGGCTTGCTT
* * *
11084146 TCTTGAGTCTG-CTCCACTGCAACTTCAGG-GAGATAAGACTCGATA-TGATCTACTCTACTGCA
1 TCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGATACTGATCTGCTCTACTGCA
* *** ** * * * * *
11084208 ACTTCAGAGAGATAATATCTGTGGTTTTAATCTGCTCCACTACAACTTTAGGGAGACATGATT-T
64 ACTTCAGAGAGATAAGATCAAAGGTTTTAATCCACTCCACTACTACTTCAGGAAGATAGGATTAT
** * * * * *
11084272 -GTTTATTTAGTATGCCCCACTGCAACTTCAGGGAGATAAGATTCGCCA
129 CGGCT-TTAACT-TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA
*
11084320 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCTACTGCA
1 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGA-TACTGA-TCTGCTCTACTGCA
*
11084385 ACTTCAGAGAGATAAGATCAAAGGCTTTAATCCACTCCACTACTACTTCAGGAAGATAGGATTAT
64 ACTTCAGAGAGATAAGATCAAAGGTTTTAATCCACTCCACTACTACTTCAGGAAGATAGGATTAT
11084450 CGGCTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA
129 CGGCTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA
* *
11084497 TCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGATGC-GATCTGCTCT-CTGCAAC
1 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATACTGATCTGCTCTACTGCAAC
*
11084560 TTCAGAGAGATAAGATCTAAA-GTTTTAATCCACTCCACT-GTAACTTCAGGAAGATAGGATTAT
66 TTCAGAGAGATAAGATC-AAAGGTTTTAATCCACTCCACTACT-ACTTCAGGAAGATAGGATTAT
* *
11084623 CGGCTTTAACTTGTTCCACTGCAACTTCAGGGAGATAAGATTTTTCA
129 CGGCTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA
* * * * * *
11084670 TCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCCATTGCA
1 TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG-ATACTGA-TCTGCTCTACTGCA
*
11084735 ACTTCAGGGAGATAAGA
64 ACTTCAGAGAGATAAGA
11084752 CTAGATACGA
Statistics
Matches: 384, Mismatches: 35, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
172 1 0.00
173 149 0.39
174 50 0.13
175 7 0.02
176 11 0.03
177 159 0.41
178 5 0.01
179 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (175 bp):
TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATACTGATCTGCTCTACTGCAAC
TTCAGAGAGATAAGATCAAAGGTTTTAATCCACTCCACTACTACTTCAGGAAGATAGGATTATCG
GCTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA
Found at i:11084630 original size:217 final size:214
Alignment explanation
Indices: 11084374--11085049 Score: 776
Period size: 217 Copynumber: 3.1 Consensus size: 214
11084364 TACTTAGTCT
* * * ** ** * * *
11084374 GCTCTACTGCAACTTCAGAGAGATAAGATCAAAGGCTTTAATCCACTCCACTACTACTTCAGGAA
1 GCTCCACTGCAACTTCAG-GAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
* * * * * *
11084439 GATAGGATTATCGGCTTTAACT-TG-CTCCACTGCAACTTCAGG-GAGATAAGATTTG-TCATCT
65 GATAAGATT-TCGCCTTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGCTTA-CT
* *
11084500 TCAGTCTGCCTCACTGTAACTTCA-GGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCA
126 T-AGTCTG-CTCACTGCAACTTCAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
11084564 GAGAGATAAGATCTAAAGTTTTAATCC
188 GAGAGATAAGATCTAAAGTTTTAATCC
* * *
11084591 ACTCCACTGTAACTTCAGGAAGATAGGATTATCGGCTTTAA-CTTGTTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGG-AGATAGGATTATCGGCTTTAATC-TGCTCCACTGCAACTTCAGGG
** * * *
11084655 AGATAAGATTTTTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTTGCTTA
64 AGATAAGATTTCGCCT-TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTA
* * * *
11084720 GTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTACAACTTCAGAAA
128 GTCTGCT-CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
**
11084785 GATAAGATCT-GTGATTTTAATCC
192 GATAAGATCTAAAG-TTTTAATCC
* *
11084808 GCTCCACTGCAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGCTCCATTGCAACCTT-AGGG
1 GCTCCACTGCAACTTC-AGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAA-CTTCAGGG
*
11084872 AGATAAGATTT-GCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGCTTACTT
64 AGATAAGATTTCGCC-T-TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTT
*
11084936 AGTTTGCTCTACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
127 AGTCTGCTC-ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* *
11085001 AGATAAGATCCAAGGTTTTAATCC
191 AGATAAGATCTAAAGTTTTAATCC
11085025 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCA-GGAGATA
11085050 AGGCTTGGTG
Statistics
Matches: 392, Mismatches: 50, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
216 10 0.03
217 338 0.86
218 40 0.10
219 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (214 bp):
GCTCCACTGCAACTTCAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTCGCCTTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTC
TGCTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCTAAAGTTTTAATCC
Found at i:11084832 original size:173 final size:174
Alignment explanation
Indices: 11084288--11084757 Score: 689
Period size: 173 Copynumber: 2.7 Consensus size: 174
11084278 TTAGTATGCC
* * *
11084288 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGA
* * * * *
11084353 TAAGACTTGATTACTTAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCAAAGGCTTTAATCC
66 TAAGACTTG-TTGCTTAGTCTGCTCCATTGCAACTTCAGAGAGATAAGATC-TA-GATTTAATCC
*
11084418 ACTCCACTACTACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCT
128 ACTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCT
11084465 CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGA
* * *
11084530 TAAGACTTGATGC-GA-TCTGCT-C-TCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCC
66 TAAGACTTGTTGCTTAGTCTGCTCCAT-TGCAACTTCAGAGAGATAAGATCT--AGATTTAATCC
** *
11084591 ACTCCACTGTAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGTT
128 ACTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCT
*
11084638 CCACTGCAACTTCAGGGAGATAAGATTTTTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGA
*
11084703 TAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGA-CTAGAT
66 TAAGACTTG-TTGCTTAGTCTGCTCCATTGCAACTTCAGAGAGATAAGATCTAGAT
11084758 ACGATCTGCT
Statistics
Matches: 266, Mismatches: 19, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
173 148 0.56
174 13 0.05
175 2 0.01
176 10 0.04
177 92 0.35
178 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (174 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGA
TAAGACTTGTTGCTTAGTCTGCTCCATTGCAACTTCAGAGAGATAAGATCTAGATTTAATCCACT
CCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACTTGCT
Found at i:11085102 original size:217 final size:217
Alignment explanation
Indices: 11084466--11085075 Score: 813
Period size: 217 Copynumber: 2.8 Consensus size: 217
11084456 TAACTTGCTC
* * * *
11084466 CACTGCAACTTCAGG-GAGATAAGATTTG-TCATCTTCAGTCTGC-CTCACTGTAACTTCA-GGA
1 CACTACAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGGA
* * *
11084527 GGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCCA
62 -GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCG
* * *
11084592 CTCCACTGTAACTTCAGGAAGATAGGATTATCGGCTTTAA-CTTG-TTCCACTGCAACTTCAGGG
126 CTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATC-TGCTTCCACTGCAACTT-AGGG
**
11084655 AGATAAGATTTTTCATCTTCAGTCTGCCT
189 AGATAAGATTTGCCATCTTCAGTCTGCCT
** * *
11084684 CACTGTAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
1 CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * ** *
11084749 AGACTAGATACGATCTGCTCTCTACAACTTCAGAAAGATAAGATCTGTGATTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
* *
11084814 CTGCAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGC-TCCATTGCAACCTTAGGGAGATAA
131 CTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTTCCACTGCAA-CTTAGGGAGATAA
11084878 GATTTGCCATCTTCAGTCTGCCT
195 GATTTGCCATCTTCAGTCTGCCT
* *
11084901 CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTTTGCTCTACTGCAACTTCAGGGAGATA
1 CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
*
11084966 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
* *
11085031 CTGCAACTTCAGGGAGATAAGGCTTGGT-GGCTTAAATCTGCTTCC
131 CTGCAACTTCAGGGAGAT-AGGATT-GTCGGCTTTAATCTGCTTCC
11085076 CTCTATCTTG
Statistics
Matches: 344, Mismatches: 38, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
217 285 0.83
218 52 0.15
219 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
CACTACAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
CTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTTCCACTGCAACTTAGGGAGATAAG
ATTTGCCATCTTCAGTCTGCCT
Found at i:11085137 original size:132 final size:131
Alignment explanation
Indices: 11085039--11085451 Score: 619
Period size: 132 Copynumber: 3.1 Consensus size: 131
11085029 CACTGCAACT
* * * **
11085039 TCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCTCTATCTTGGAAAGATATGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
* * **
11085104 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTGCT
66 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC-ACAATCTTCAACCTACTCCACTGCT
11085169 GC
130 GC
11085171 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
* *
11085236 TCCTCGATCTTCTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
66 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC-ACAATCTTCAACCTACTCCACTGCT
11085301 GC
130 GC
* *
11085303 TCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTTG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
* ** * * * *
11085368 TCCTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTATGACCCTCAACCTATTCCACTGTT
66 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC-ACAATCTTCAACCTACTCCACTGCT
11085433 GC
130 GC
11085435 TCAGGGAGACAAGGCTT
1 TCAGGGAGACAAGGCTT
11085452 AGTGTTTCAC
Statistics
Matches: 259, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 259 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (131 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCACAATCTTCAACCTACTCCACTGCTG
C
Found at i:11092227 original size:19 final size:21
Alignment explanation
Indices: 11092189--11092227 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
11092179 CCTTTTTTAA
*
11092189 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
11092210 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
11092228 CAGTAAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:11092451 original size:19 final size:19
Alignment explanation
Indices: 11092427--11092499 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
11092417 TCATATTTTT
11092427 TAAGATTACATATCATATC
1 TAAGATTACATATCATATC
*
11092446 TAAGATTGCATATATCATATC
1 TAAGATT--ACATATCATATC
* *
11092467 TAAGATTGCATATCATAAC
1 TAAGATTACATATCATATC
*
11092486 TAAGATTGCATATC
1 TAAGATTACATATC
11092500 CTTGAAGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 30 0.62
21 18 0.38
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
TAAGATTACATATCATATC
Found at i:11092462 original size:21 final size:21
Alignment explanation
Indices: 11092436--11092498 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
11092426 TTAAGATTAC
11092436 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
11092457 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
11092476 ATATCATAACTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
11092497 AT
1 AT
11092499 CCTTGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:11093215 original size:44 final size:44
Alignment explanation
Indices: 11093127--11093212 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
11093117 GTAGGTCAAA
* * *
11093127 TAATATTAAAATAACCTACACTAATCATATTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
*
11093171 TAATATTAAAATAGCCTACACTAATAAGAGTTTAAGTG-GAAA
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAA
11093213 ACTTAAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 4 0.11
44 34 0.89
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
Found at i:11099947 original size:44 final size:44
Alignment explanation
Indices: 11099899--11099989 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
11099889 GTAGGTCAAA
* * *
11099899 TAATATTAAAATAACCTACATTGACCAGAGTTTAAGTGAGAAAC
1 TAATACTAAAATAACCTACACTAACCAGAGTTTAAGTGAGAAAC
*
11099943 TAATACTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAAC
1 TAATACTAAAATAACCTACACTAACCAGAGTTTAAGTGAGAAAC
11099987 TAA
1 TAA
11099990 AAATAGAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (44 bp):
TAATACTAAAATAACCTACACTAACCAGAGTTTAAGTGAGAAAC
Found at i:11107617 original size:32 final size:31
Alignment explanation
Indices: 11107541--11107617 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
11107531 AAAGACTAAT
* **
11107541 TAAAAATAAAAAAAATTGAAAATAATATATT
1 TAAAAATTAAAAAAATTGAAAATAATATAAA
**
11107572 TATTAATTAAAAAAAGTTGAAAATAATATGAAA
1 TAAAAATTAAAAAAA-TTGAAAATAATAT-AAA
11107605 TAAAAATTAAAAA
1 TAAAAATTAAAAA
11107618 TGTGTTTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
31 12 0.32
32 13 0.35
33 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
TAAAAATTAAAAAAATTGAAAATAATATAAA
Found at i:11107731 original size:8 final size:8
Alignment explanation
Indices: 11107718--11107763 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
11107708 AAATATTAAT
11107718 TAAAAATA
1 TAAAAATA
11107726 TAAAAATA
1 TAAAAATA
11107734 TAAAAATAA
1 TAAAAAT-A
*
11107743 AATAAAATA
1 TA-AAAATA
*
11107752 AAAAAATA
1 TAAAAATA
11107760 TAAA
1 TAAA
11107764 TGTGAGTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 24 0.71
9 5 0.15
10 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
TAAAAATA
Found at i:11107744 original size:13 final size:14
Alignment explanation
Indices: 11107721--11107764 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
11107711 TATTAATTAA
*
11107721 AAATATAAAAATAT
1 AAATAAAAAAATAT
*
11107735 AAA-AATAAAATA-
1 AAATAAAAAAATAT
11107747 AAATAAAAAAATAT
1 AAATAAAAAAATAT
11107761 AAAT
1 AAAT
11107765 GTGAGTGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 15 0.60
14 7 0.28
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAAAAATAT
Found at i:11107751 original size:18 final size:19
Alignment explanation
Indices: 11107728--11107764 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11107718 TAAAAATATA
*
11107728 AAAATATAAAAATA-AAAT
1 AAAATAAAAAAATATAAAT
11107746 AAAATAAAAAAATATAAAT
1 AAAATAAAAAAATATAAAT
11107765 GTGAGTGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATAAAAAAATATAAAT
Found at i:11110231 original size:128 final size:127
Alignment explanation
Indices: 11110003--11110259 Score: 415
Period size: 128 Copynumber: 2.0 Consensus size: 127
11109993 ATTGGACAGT
* * *
11110003 GTTTGATGCAATAGTTGGTTCCACAAAATCAATTCCTGATGGGAAAAGATTGCTCCATGCTTCAT
1 GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
* *
11110068 TGAAGAAACATCTGTCAGGTGTTTCTTATATGAACTCATCGTTGAAACCATAGTTTGACCAGC
66 TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACC-GC
* * *
11110131 GTTTGATGCAATAGTTGGTTCCGCAAAATCAACTCCTCATGCGAAACGATTTCTCCATGCTTCAT
1 GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
* *
11110196 TGAAGAAACATCTATTAGGTGTTTCTTATATGAACTTATCATTGAAACCATAGTTTGACCGC
66 TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACCGC
11110258 GT
1 GT
11110260 AAGGAACCTC
Statistics
Matches: 119, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
127 4 0.03
128 115 0.97
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (127 bp):
GTTTGATGCAATAGTTGGTTCCACAAAATCAACTCCTCATGCGAAAAGATTGCTCCATGCTTCAT
TGAAGAAACATCTATCAGGTGTTTCTTATATGAACTCATCATTGAAACCATAGTTTGACCGC
Found at i:11115469 original size:22 final size:23
Alignment explanation
Indices: 11115444--11115487 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
11115434 ACCAAAATGA
11115444 TAGCAAAACAATGA-AAAAACAG
1 TAGCAAAACAATGAGAAAAACAG
*
11115466 TAGCAAAACAATTAGAAAAACA
1 TAGCAAAACAATGAGAAAAACA
11115488 ACAGCAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.64, C:0.14, G:0.11, T:0.11
Consensus pattern (23 bp):
TAGCAAAACAATGAGAAAAACAG
Found at i:11116400 original size:24 final size:23
Alignment explanation
Indices: 11116373--11116445 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
11116363 TGAAGTAAAA
11116373 TAAAAGTTGTGATAATTATACATT
1 TAAAAGTTGTGATAATTATACA-T
** *
11116397 TAAAAGTAATTATAATT-TA-A-
1 TAAAAGTTGTGATAATTATACAT
*
11116417 TAAAAGTTGTGATAATTACACAT
1 TAAAAGTTGTGATAATTATACAT
11116440 CTAAAA
1 -TAAAA
11116446 ATAATTATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 14 0.37
21 1 0.03
22 2 0.05
23 2 0.05
24 19 0.50
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (23 bp):
TAAAAGTTGTGATAATTATACAT
Found at i:11116422 original size:44 final size:44
Alignment explanation
Indices: 11116371--11116461 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
11116361 GTTGAAGTAA
* * *
11116371 AATAAAAGTTGTGATAATTATACATTTAAAAGTAATTATAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
11116415 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
11116459 AAT
1 AAT
11116462 TTACAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTACACATCTAAAAATAATTATAATTT
Found at i:11116431 original size:20 final size:21
Alignment explanation
Indices: 11116371--11116434 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
11116361 GTTGAAGTAA
11116371 AATAAAAGTTGTGATAATTAT
1 AATAAAAGTTGTGATAATTAT
** *
11116392 ACATTTAAAAGTAATTATAATT-T
1 A-A--TAAAAGTTGTGATAATTAT
11116415 AATAAAAGTTGTGATAATTA
1 AATAAAAGTTGTGATAATTA
11116435 CACATCTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 14 0.42
21 1 0.03
22 2 0.06
23 2 0.06
24 14 0.42
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (21 bp):
AATAAAAGTTGTGATAATTAT
Found at i:11118812 original size:17 final size:17
Alignment explanation
Indices: 11118787--11118820 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11118777 TGAATTTTCA
*
11118787 TTTGGCGAACTTTAAGG
1 TTTGACGAACTTTAAGG
11118804 TTTGACGAACTTTAAGG
1 TTTGACGAACTTTAAGG
11118821 GTTTAGCAGA
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:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (17 bp):
TTTGACGAACTTTAAGG
Found at i:11133326 original size:28 final size:28
Alignment explanation
Indices: 11133294--11133356 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
11133284 AGTCTGAATA
11133294 TTGTTTTAGCTTTCGACATTTTCATTTC
1 TTGTTTTAGCTTTCGACATTTTCATTTC
*
11133322 TTGTTTTAGCTTTTGACATTTTCATTTC
1 TTGTTTTAGCTTTCGACATTTTCATTTC
*
11133350 TTCTTTT
1 TTGTTTT
11133357 TCTTTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.13, C:0.16, G:0.10, T:0.62
Consensus pattern (28 bp):
TTGTTTTAGCTTTCGACATTTTCATTTC
Found at i:11134030 original size:16 final size:17
Alignment explanation
Indices: 11133997--11134035 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11133987 GCGATATGAT
*
11133997 ATTTTATTTAAAACTTA
1 ATTTAATTTAAAACTTA
*
11134014 ATTTAATTTAATA-TTA
1 ATTTAATTTAAAACTTA
11134030 ATTTAA
1 ATTTAA
11134036 CATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAATTTAAAACTTA
Found at i:11135046 original size:21 final size:21
Alignment explanation
Indices: 11135022--11135072 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11135012 TTCTTTTGAA
* *
11135022 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCACTGCAG
* *
11135043 CCTCTGCTTCCCTTACTGCCG
1 CCTCTGCTTCCCTCACTGCAG
11135064 CCTCTGCTT
1 CCTCTGCTT
11135073 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.45, G:0.16, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCACTGCAG
Found at i:11139542 original size:835 final size:835
Alignment explanation
Indices: 11137933--11139604 Score: 3175
Period size: 835 Copynumber: 2.0 Consensus size: 835
11137923 GCCTTCAGCA
*
11137933 ATCGATCCTTCTGGATATCGCTTGTTACGGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
1 ATCGATCCTTCTGGATATCGCTTGTTACAGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
11137998 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
66 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
11138063 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
131 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
** *
11138128 TTGTGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAATGAAGGTGGGAAAATTTTCTC
196 TCATGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAGGAAGGTGGGAAAATTTTCTC
*
11138193 CATGTTGCATAAAGTCAAAACGGCTCGATACTGTACCTTCTGAAGTTCTTAAACATCCAAAACTT
261 CATATTGCATAAAGTCAAAACGGCTCGATACTGTACCTTCTGAAGTTCTTAAACATCCAAAACTT
11138258 TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
326 TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
* *
11138323 TAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTTATGTGATTTTAGCGA
391 CAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTGATTTTAGCGA
11138388 ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
456 ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
11138453 TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAAAAGGC
521 TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAAAAGGC
11138518 GGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
586 GGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
11138583 TAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
651 TAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
11138648 TGTTCTCGCAGACATTTTTCTCAATATGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
716 TGTTCTCGCAGACATTTTTCTCAATATGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
11138713 CAATAAGCCAACTAAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
781 CAATAAGCCAACTAAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
* *
11138768 ATCGATCCTTCTGGATATCGCTTGTTGCAGCAGTAAGACTTTAATTTGGATAGGAATCTAAACAC
1 ATCGATCCTTCTGGATATCGCTTGTTACAGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
*
11138833 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAGAAGTGAATGAAGGAAAATTTTAAAA
66 GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
*
11138898 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTGCT
131 ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
11138963 TCATGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAGGAAGGTGGGAAAATTTTCTC
196 TCATGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAGGAAGGTGGGAAAATTTTCTC
*
11139028 CATATTGCATAAAGTCAAAACGGCTCGAT-CTTGTACCTTCTGAAGTTCTTGAACATCCAAAACT
261 CATATTGCATAAAGTCAAAACGGCTCGATAC-TGTACCTTCTGAAGTTCTTAAACATCCAAAACT
11139092 TTGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACAT
325 TTGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACAT
11139157 ACAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTGATTTTAGCG
390 ACAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTGATTTTAGCG
11139222 AATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACC
455 AATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACC
*
11139287 TTTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAGAAGG
520 TTTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAAAAGG
*
11139352 CGGCAACCGATATTTCCCATTCGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGA
585 CGGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGA
*
11139417 CTAAATCAAGTCGACTCTGAAGATTGTCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACA
650 CTAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACA
*
11139482 ATGTTCTCGCAGACATTTTTCTCAATGTGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTC
715 ATGTTCTCGCAGACATTTTTCTCAATATGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTC
*
11139547 CCAATAAGCCAACTGAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
780 CCAATAAGCCAACTAAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
11139603 AT
1 AT
11139605 TGTCCTCTTC
Statistics
Matches: 819, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
834 1 0.00
835 818 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (835 bp):
ATCGATCCTTCTGGATATCGCTTGTTACAGCAGTAAGACTTTAATTTGGATAGGAACCTAAACAC
GATATATAATATTATCAAAAGTGTATTACTAAAGCCATAAAAGTGAATGAAGGAAAATTTTAAAA
ATTTCAATTAACACATTTCTATGGGATACATCCATCGATAGAAAACGGGTCCGCCAAGAATTACT
TCATGCGGGAGATTGATTATCAAGTGAACCATAATGGTGAAGAAGGAAGGTGGGAAAATTTTCTC
CATATTGCATAAAGTCAAAACGGCTCGATACTGTACCTTCTGAAGTTCTTAAACATCCAAAACTT
TGCCACAAATGGCTTTCATTATATTGGATAGTTCAATTATACAAGACGTCACCTTCTTGGACATA
CAACATCGTAGAGCAACTGGCAGTAAATCTTGCATCAAGATGTGATAGTCATGTGATTTTAGCGA
ATATAATCTTCGATCTTTAACACTAACACATCGAGATATATTTGATGCATACGCATCTGGAACCT
TTATATCCTTCAGCACCATGCAAAACAGTTCTTTCTCCGTCTTGGACATTGAGAAAATAAAAGGC
GGCAACCGATATTTCCCATACGAAAGTGGATTGGGATGAAGATCAGGCCGAATTCCCATTTGGAC
TAAATCAAGTCGACTCTGAAGATTATCTTTTGATTTTCCGTCGGCATTCAAAATTGTACCCACAA
TGTTCTCGCAGACATTTTTCTCAATATGCATAACATCAAGATTGTGTCGTAAAAGGTGATGCTCC
CAATAAGCCAACTAAAAAAAATACTTATTTTTTTCCACAAGTCCGCCTTATTAGG
Found at i:11141318 original size:7 final size:7
Alignment explanation
Indices: 11141308--11141433 Score: 81
Period size: 7 Copynumber: 16.0 Consensus size: 7
11141298 TGATATATTT
11141308 TTATGTA
1 TTATGTA
11141315 TTATGTAA
1 TTATGT-A
11141323 GTTATGTAA
1 -TTATGT-A
11141332 GTTATGTA
1 -TTATGTA
*
11141340 TCATGTA
1 TTATGTA
*
11141347 CTATGTAA
1 TTATGT-A
*
11141355 GTACTGTGA
1 TTA-TGT-A
*
11141364 GTAATGTAA
1 -TTATGT-A
*
11141373 GTTCTGTA
1 -TTATGTA
11141381 TTATGTA
1 TTATGTA
11141388 TTATGTAA
1 TTATGT-A
11141396 GTTATGTAA
1 -TTATGT-A
11141405 GTTATGTA
1 -TTATGTA
11141413 TTATGTA
1 TTATGTA
11141420 TTATGTA
1 TTATGTA
11141427 TTATGTA
1 TTATGTA
11141434 AGTACTGTAA
Statistics
Matches: 101, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
7 49 0.49
8 8 0.08
9 43 0.43
10 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (7 bp):
TTATGTA
Found at i:11141329 original size:9 final size:9
Alignment explanation
Indices: 11141315--11141860 Score: 496
Period size: 9 Copynumber: 61.4 Consensus size: 9
11141305 TTTTTATGTA
11141315 TTATGTAAG
1 TTATGTAAG
11141324 TTATGTAAG
1 TTATGTAAG
11141333 TTATGTATCATG
1 TTATGTA--A-G
11141345 TACTATGTAAG
1 T--TATGTAAG
*
11141356 -TACTGTGAG
1 TTA-TGTAAG
*
11141365 TAATGTAAG
1 TTATGTAAG
*
11141374 TTCTGT-A-
1 TTATGTAAG
11141381 TTATGT-A-
1 TTATGTAAG
11141388 TTATGTAAG
1 TTATGTAAG
11141397 TTATGTAAG
1 TTATGTAAG
11141406 TTATGT-A-
1 TTATGTAAG
11141413 TTATGT-A-
1 TTATGTAAG
11141420 TTATGT-A-
1 TTATGTAAG
11141427 TTATGTAAG
1 TTATGTAAG
11141436 -TACTGTAAG
1 TTA-TGTAAG
11141445 -TACTGTAAG
1 TTA-TGTAAG
*
11141454 TAATGT-A-
1 TTATGTAAG
11141461 TTATGTAAG
1 TTATGTAAG
* *
11141470 TTGTGTATAATA
1 TTATG--TAA-G
11141482 TTAATGTAAG
1 TT-ATGTAAG
11141492 TTATGTAAG
1 TTATGTAAG
* *
11141501 TTATTTAAT
1 TTATGTAAG
*
11141510 TTTTGTAAG
1 TTATGTAAG
11141519 TTATGTAA-
1 TTATGTAAG
11141527 TTAATGTAAG
1 TT-ATGTAAG
* *
11141537 TTATTTAAT
1 TTATGTAAG
11141546 TTATGTAAG
1 TTATGTAAG
11141555 TTATGTAAG
1 TTATGTAAG
11141564 TTATGTAAG
1 TTATGTAAG
*
11141573 TTACT-TAAT
1 TTA-TGTAAG
*
11141582 TTATGTAAT
1 TTATGTAAG
11141591 TTATGTAAG
1 TTATGTAAG
* *
11141600 TTATTTAAT
1 TTATGTAAG
11141609 TTATGTAAG
1 TTATGTAAG
11141618 TTATGTAAG
1 TTATGTAAG
11141627 TTATGTAAG
1 TTATGTAAG
11141636 TTATGTAAG
1 TTATGTAAG
11141645 TTAAT-T---
1 TT-ATGTAAG
11141651 TT-TGTAAG
1 TTATGTAAG
11141659 TTATGTAAG
1 TTATGTAAG
* *
11141668 TTATTTAAT
1 TTATGTAAG
11141677 TTATGTAAG
1 TTATGTAAG
11141686 TTATGTAAG
1 TTATGTAAG
* *
11141695 TTATTTAAT
1 TTATGTAAG
*
11141704 TTTTGTAAG
1 TTATGTAAG
11141713 TTATGTAA-
1 TTATGTAAG
11141721 TTAATGTAAG
1 TT-ATGTAAG
* *
11141731 TTATTTAAT
1 TTATGTAAG
11141740 TTATGTAAG
1 TTATGTAAG
11141749 TTATGTAAG
1 TTATGTAAG
11141758 TTATGTAAG
1 TTATGTAAG
11141767 TTACT-TAA-
1 TTA-TGTAAG
11141775 TCTATGTAAG
1 T-TATGTAAG
11141785 TTATGTAAG
1 TTATGTAAG
* *
11141794 TTATTTAAT
1 TTATGTAAG
11141803 TTATGTAAG
1 TTATGTAAG
11141812 TTATGTAAG
1 TTATGTAAG
* *
11141821 TTATTTAAT
1 TTATGTAAG
*
11141830 TTTTGTAAG
1 TTATGTAAG
11141839 TTATGTAA-
1 TTATGTAAG
11141847 TTAATGTAAG
1 TT-ATGTAAG
11141857 TTAT
1 TTAT
11141861 TTAAATTGTG
Statistics
Matches: 448, Mismatches: 52, Indels: 74
0.78 0.09 0.13
Matches are distributed among these distances:
4 1 0.00
5 1 0.00
6 2 0.00
7 37 0.08
8 21 0.05
9 350 0.78
10 15 0.03
11 8 0.02
12 5 0.01
13 2 0.00
14 6 0.01
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11141386 original size:73 final size:73
Alignment explanation
Indices: 11141308--11141476 Score: 234
Period size: 73 Copynumber: 2.3 Consensus size: 73
11141298 TGATATATTT
*
11141308 TTATGTATTATGTAAGTTATGTAAGTTATGTATCATGTACTATGTAAGTACTGTGAGTAATGTAA
1 TTATGTATTATGTAAGTTATGTAAGTTATGTATCATGTACTATGT-AGTA-TGTAAGTAATGTAA
*
11141373 GTTCTGT-A-
64 GTACTGTAAG
* * * *
11141381 TTATGTATTATGTAAGTTATGTAAGTTATGTATTATGTATTATGTATTATGTAAGTACTGTAAGT
1 TTATGTATTATGTAAGTTATGTAAGTTATGTATCATGTACTATGTAGTATGTAAGTAATGTAAGT
11141446 ACTGTAAG
66 ACTGTAAG
* *
11141454 TAATGTATTATGTAAGTTGTGTA
1 TTATGTATTATGTAAGTTATGTA
11141477 TAATATTAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 18 0.21
72 4 0.05
73 64 0.74
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.46
Consensus pattern (73 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGTATCATGTACTATGTAGTATGTAAGTAATGTAAGT
ACTGTAAG
Found at i:11141441 original size:80 final size:80
Alignment explanation
Indices: 11141308--11141467 Score: 234
Period size: 80 Copynumber: 2.0 Consensus size: 80
11141298 TGATATATTT
*
11141308 TTATGTATTATGTAAGTTATGTAAGTTATGTATCATGTACTATGTAAGTACTGTGAGTAATGTAA
1 TTATGTATTATGTAAGTTATGTAAGTTATGTATCATGTACTATGTAAGTACTGTAAGTAATGTAA
**
11141373 GTTCTGTATTATGTA
66 GTAATGTATTATGTA
* * *
11141388 TTATGTAAGTTATGTAAGTTATGT-A-TTATGTATTATGTATTATGTAAGTACTGTAAGTACTGT
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTATCATGTACTATGTAAGTACTGTAAGTAATGT
11141451 AAGTAATGTATTATGTA
64 AAGTAATGTATTATGTA
11141468 AGTTGTGTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 55 0.76
81 2 0.03
82 15 0.21
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (80 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGTATCATGTACTATGTAAGTACTGTAAGTAATGTAA
GTAATGTATTATGTA
Found at i:11142276 original size:115 final size:114
Alignment explanation
Indices: 11142062--11142334 Score: 320
Period size: 115 Copynumber: 2.4 Consensus size: 114
11142052 ATGCATGGTT
* * *
11142062 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGTGCCGCTAATAC
1 AAGA-CAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAC
* * * *
11142127 TATGCTTTAGCGGCGATTTCTCGTGGACGCCACTAATTCTAGTATACATC
65 TATGCTTTAGCGGCGATTTCCCATAGACGCCACTAATTCTAATATACATC
* * * * *
11142177 AAGACTTAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTTCTCAAAACGCGCTGCTAATAG
1 AAGAC-AAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATA-
* *
11142242 C-ATGCTTTAGCGGCG-TTCTCCCATA-AGCGTCACTAATTCTAATATACCTC
64 CTATGCTTTAGCGGCGATT-TCCCATAGA-CGCCACTAATTCTAATATACATC
* *
11142292 AAGACAAAACTCTGCATTTTGGTGT-GCATATTTTGCGGCGCTT
1 AAGACAAAACTCTGCGTTTTGGT-TAACATATTTTGCGGCGCTT
11142335 ACTATGCTTT
Statistics
Matches: 135, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
114 35 0.26
115 99 0.73
116 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (114 bp):
AAGACAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
ATGCTTTAGCGGCGATTTCCCATAGACGCCACTAATTCTAATATACATC
Found at i:11142383 original size:95 final size:96
Alignment explanation
Indices: 11142243--11142430 Score: 233
Period size: 95 Copynumber: 2.0 Consensus size: 96
11142233 TGCTAATAGC
* *
11142243 ATGCTTTAGCGGCGTTCTCCCATAAGCGTCACTAATTCTAATATACCTCAAGAC-AAAAC-TCTG
1 ATGCTTTAGCGGCGTTCTCCCATAAGCGCCACTAATTCTAATATACATCAAGACAAAAACGT-TG
* *
11142306 CATTTTGGTGTGC-ATATTTTGCGGCGCTTACT
65 CATTTTGGT-TACGAAATTTTGCGGCGCTTACT
* * *
11142338 ATGCTTTAGCGGCGTT-TTCCAGTATGCGCCACTAATTACT-GTATACATCAAGACAAAAACGTT
1 ATGCTTTAGCGGCGTTCTCCCA-TAAGCGCCACTAATT-CTAATATACATCAAGACAAAAACGTT
*
11142401 GCGTTTTGGTTACGAAATTTTGCGGCGCTT
64 GCATTTTGGTTACGAAATTTTGCGGCGCTT
11142431 CTCACAAAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
94 4 0.05
95 43 0.54
96 32 0.40
97 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (96 bp):
ATGCTTTAGCGGCGTTCTCCCATAAGCGCCACTAATTCTAATATACATCAAGACAAAAACGTTGC
ATTTTGGTTACGAAATTTTGCGGCGCTTACT
Found at i:11142805 original size:112 final size:111
Alignment explanation
Indices: 11142549--11142805 Score: 252
Period size: 112 Copynumber: 2.3 Consensus size: 111
11142539 GGCGTTTACC
* * ** *
11142549 CATAAGCGCCACAAATTCTAATATACCTCT-AGACCAAACTCTGCGTTTTGGTTAACATATATTG
1 CATAAGCGCCACTAATTCTAATATA-CT-TGAGACAAAACGATGCGTTTTCGTTAACATATATTG
* * * * *
11142613 CGGCGCTTTTTGTAAGCGCCGCTAATACTTGCTTTAGTGGCGGGTTTT
64 CGGCGCTTTTCGCAAGCGCCGCTAATACTTCCTTTAGCGACGGGTTTT
* * * * * *
11142661 CGTAAGCGCCGCTAATGCTAATATACAGTGAGACAAAACGATGCGTTTTCGTTAAGAT-TGTTGC
1 CATAAGCGCCACTAATTCTAATATAC-TTGAGACAAAACGATGCGTTTTCGTTAACATATATTGC
* *
11142725 GGTGC-TTTCGACAATGCGCCGCTAATACTTCCTTTAGCGAC-GTTTTAT
65 GGCGCTTTTCG-CAA-GCGCCGCTAATACTTCCTTTAGCGACGGGTTT-T
*
11142773 CATAAGCGCCACTAATTCTAGTATATCTTGAGA
1 CATAAGCGCCACTAATTCTAATATA-CTTGAGA
11142806 TTTTGCGGCG
Statistics
Matches: 116, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
110 4 0.03
111 17 0.15
112 94 0.81
113 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (111 bp):
CATAAGCGCCACTAATTCTAATATACTTGAGACAAAACGATGCGTTTTCGTTAACATATATTGCG
GCGCTTTTCGCAAGCGCCGCTAATACTTCCTTTAGCGACGGGTTTT
Found at i:11147463 original size:112 final size:110
Alignment explanation
Indices: 11147168--11147594 Score: 610
Period size: 110 Copynumber: 3.9 Consensus size: 110
11147158 TGGATTAAGA
* * * *
11147168 TTTAAGAGGATATTTG-GTCATTTGGTCGAACGAG--AAGTCGAAACCCAGCACATTAGGGCGCG
1 TTTAAAAGGATATTTGACT-ATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
* * *
11147230 -TTTCTCGAATTTCCAAACGTAGAACATTGCCTTATTTTGAAATTT
65 TTTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTT
* * * *
11147275 TTAAAAAGGATGTTTGACTATTTGGTCAAATGAGAAAAAATCGAAACCCAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGACTATTTGGTCGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACG
*
11147340 TTTTCTCGAATTTCCAAACGCAAAACATCACCTTATTTTGAAATTTT
65 TTTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAA-TTT
* *
11147387 CTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATG
1 -TTTAAAAGGATATTTGACTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACG
*
11147452 TTTTCTCGAATTTCCAAACGCAAAATATTACCTTATTTTGAAATTT
65 TTTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTT
* *
11147498 TTTAAAAAGATATTTGACGATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGACTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * *
11147563 TCTCTCGAATTTACAAACGCAAAATATTACCT
66 TTTCTCGAATTTCCAAACGCAAAACATTACCT
11147595 CGTTTAAAAA
Statistics
Matches: 287, Mismatches: 26, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
107 26 0.09
108 1 0.00
110 117 0.41
111 41 0.14
112 73 0.25
113 29 0.10
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (110 bp):
TTTAAAAGGATATTTGACTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTT
Found at i:11147562 original size:222 final size:220
Alignment explanation
Indices: 11147168--11147586 Score: 646
Period size: 222 Copynumber: 1.9 Consensus size: 220
11147158 TGGATTAAGA
* * *
11147168 TTTAAGAGGATATTTGGTCATTTGGTCGAACGAGAAGTCGAAACCCAGCACATTAGGGCGCGTTT
1 TTTAAAAGGATATTTGGTCATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
* * * * *
11147233 CTCGAATTTCCAAACGTAGAACATTGCCTTATTTTGAAATTTTTAAAAAGGATGTTTGACTATTT
66 CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTAAAAAGGATATTTGACGATTT
* * *
11147298 GGTCAAATGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAA
131 GGTCAAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAACGCAA
11147363 AACATCACCTTATTTTGAAATTTTC
196 AACATCACCTTATTTTGAAATTTTC
*
11147388 TTTAAAAGGATATTTGG-CTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATG
1 TTTAAAAGGATATTTGGTC-ATTTGGTCGAACGAG--AAATCGAAACCCAGCACATTAGGGCACG
*
11147452 TTTTCTCGAATTTCCAAACGCAAAATATTACCTTATTTTGAAATTTTTTAAAAA-GATATTTGAC
63 -TTTCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAA-TTTTTAAAAAGGATATTTGAC
*
11147516 GATTTGGTCGAACGAG-AAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAA
126 GATTTGGTCAAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAA
11147580 CGCAAAA
191 CGCAAAA
11147587 TATTACCTCG
Statistics
Matches: 180, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
219 1 0.01
220 31 0.17
222 78 0.43
223 60 0.33
224 10 0.06
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (220 bp):
TTTAAAAGGATATTTGGTCATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTAAAAAGGATATTTGACGATTT
GGTCAAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCGAATTTACAAACGCAA
AACATCACCTTATTTTGAAATTTTC
Found at i:11148198 original size:18 final size:18
Alignment explanation
Indices: 11148177--11148223 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11148167 TAAATAAGCA
11148177 AATAATGATAACAATAAT
1 AATAATGATAACAATAAT
* *
11148195 AATAATGACAACAATGAT
1 AATAATGATAACAATAAT
*
11148213 AATAATAATAA
1 AATAATGATAA
11148224 AGATAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AATAATGATAACAATAAT
Found at i:11150154 original size:148 final size:148
Alignment explanation
Indices: 11149912--11150232 Score: 448
Period size: 148 Copynumber: 2.2 Consensus size: 148
11149902 TAATCCGCTC
* * * * * *
11149912 TACTGCAACTTCAGGGAGATAGGA-TTAGTAGTTACAGTAAAGTCTGATGCGATCTGTTTTATTG
1 TACTGCAACTTCAGGGAGATAGGACTTAGTAATTACAATAAAGTCTAATGCGATCTATTCTACTG
* *
11149976 CAATTTTAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGGAGATAGGACT
66 CAACTTCAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGGAGATAGGACT
* *
11150041 AGTAACTTCAATTTGCTA
131 AGTAACTTCAATCTACTA
* *
11150059 TACTGCAACTTCAGGGAGATAGGACTT-GTAAATTTCAATAAAGTCTAATGTGATCTATTCTACT
1 TACTGCAACTTCAGGGAGATAGGACTTAGT-AATTACAATAAAGTCTAATGCGATCTATTCTACT
* * *
11150123 GCAACTTCAGAGAGATAAGATCTATCATTTTGACCCGCTCCACTGCAACTTCAGGGAGATAGGAT
65 GCAACTTCAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGGAGATAGGAC
* *
11150188 TAGTAACTTCAATCTATTC
130 TAGTAACTTCAATCTACTA
* *
11150207 CACTGCAACTTCAGAGAGATAGGACT
1 TACTGCAACTTCAGGGAGATAGGACT
11150233 GATTTCTTCT
Statistics
Matches: 153, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
147 26 0.17
148 127 0.83
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (148 bp):
TACTGCAACTTCAGGGAGATAGGACTTAGTAATTACAATAAAGTCTAATGCGATCTATTCTACTG
CAACTTCAGAGAGATAAAATCCATCATTTTGACCCGCTCCACTGCAACTTCAGGGAGATAGGACT
AGTAACTTCAATCTACTA
Found at i:11158461 original size:23 final size:23
Alignment explanation
Indices: 11158427--11158989 Score: 449
Period size: 23 Copynumber: 24.6 Consensus size: 23
11158417 GAATGTTGTT
11158427 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
11158450 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11158473 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11158496 AATTGAAGTGTTTGAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11158519 AATTGAAGTGCTT-AGTTGCTAG-A
1 AATTGAAGTGTTTAAG-TGCT-GCA
*
11158542 AATTG-AGATGTTTTA-T-C-GCTA
1 AATTGAAG-TGTTTAAGTGCTGC-A
* * * * **
11158563 TAATTGAGGTGTATAAATGTTGTT
1 -AATTGAAGTGTTTAAGTGCTGCA
*
11158587 AATTGATA-TCTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
11158610 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
11158633 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
11158656 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
11158679 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
11158702 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
11158724 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
11158747 AATTGATA-TGTTTAAGTGTTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * *
11158770 AATTTAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
11158793 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
11158816 AATTTAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* * *
11158839 AATTTAAGTATTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
11158862 AATTGAAGTATTTTA-TCGCTG-T
1 AATTGAAGTGTTTAAGT-GCTGCA
* * * * **
11158884 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
11158907 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
11158930 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
11158953 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
11158976 AATTGAAGTGTTTA
1 AATTGAAGTGTTTA
11158990 GTTGCTAAAA
Statistics
Matches: 437, Mismatches: 73, Indels: 60
0.77 0.13 0.11
Matches are distributed among these distances:
19 1 0.00
21 2 0.00
22 54 0.12
23 375 0.86
24 4 0.01
25 1 0.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:11158727 original size:137 final size:136
Alignment explanation
Indices: 11158460--11158981 Score: 444
Period size: 137 Copynumber: 3.8 Consensus size: 136
11158450 AATTTAAGTG
* * *
11158460 TTTAAATGCTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTGAGTGCTGCAAATTGA
1 TTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
* * * ** *
11158525 AGTGCTT-AGTTGCTAG-AAATTG-AGATGTTTTA-T-C-GCTATAATTGAGGTGTATAAATGTT
66 AGTGTTTAAG-TGCT-GCAAATTGAAG-TGTTTAAGTGCTGC-A-AATTGAGATGTATTTATGCT
11158584 GTTAATTGATAT
126 G-TAATTGATAT
* * * *
11158596 CTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTG
1 -TTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTG
* *
11158661 AAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTGAGATGT-TTTATCGCTGT
65 AAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAGATGTATTTAT-GCTGT
**
11158724 AATTGAGGT
128 AATTGATAT
* * * * * * * * *
11158733 GTATAAATGTTGTTAATTGATA-TGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGTTGTAAATT
1 -TTTAAATGCTGTAAATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
* *
11158797 GAAGTGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTTA-A-GTATTTAGTTGCTG
64 GAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTATTTA--TGCT-
*
11158860 GAAATTGAAGTAT
126 GTAATTG-A-TAT
* * * **
11158873 TTT--ATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATT
1 TTTAAAT-GCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATT
* * *
11158934 TAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA
64 GAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
11158982 AGTGTTTAGT
Statistics
Matches: 313, Mismatches: 53, Indels: 38
0.77 0.13 0.09
Matches are distributed among these distances:
135 2 0.01
136 7 0.02
137 264 0.84
138 33 0.11
139 5 0.02
140 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (136 bp):
TTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTATTTATGCTGTAAT
TGATAT
Found at i:11158992 original size:137 final size:136
Alignment explanation
Indices: 11158617--11159083 Score: 498
Period size: 137 Copynumber: 3.4 Consensus size: 136
11158607 GCAAATTTAA
* * *
11158617 GTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAAT
1 GTGTATAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAAT
* * * * * ** *
11158682 TGAAGTGCTT-AGTTGCTGGAAATTG-AGATGTTTTA-TCGCTGTAATTGAGGTGTATAAAT-GT
66 TGAAGTGTTTAAG-TGCTGCAAATTGAAG-TG-TTTAGTTGCTGAAATTGAAGTGT-TTTATCGC
11158743 TGTTAATTGAT
127 TG-TAATTGAT
* * * * * * * * *
11158754 ATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAAT
1 GTGTATAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAAT
* * * *
11158819 TTAAGTGTTTAAGTGCTGCAAATTTAAGTATTTAGTTGCTGGAAATTGAAGTATTTTATCGCTGT
66 TGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCT-GAAATTGAAGTGTTTTATCGCTGT
*
11158884 AATTGAG
130 AATTGAT
* * *
11158891 GTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAA
1 GTGTATAAATGTTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAA
*
11158955 TTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAAAAATTG-AGATGTTTTATCGCT
65 TTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCT-GAAATTGAAG-TGTTTTATCGCT
11159019 GTAATTGAT
128 GTAATTGAT
* * * *
11159028 GTGTATAAATGTTGTTATTTGATA-TGTTAAAGTGCTGCAAATTGAACTGTTTAAAT
1 GTGTATAAATGTTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAAT
11159084 TTAACTTGTT
Statistics
Matches: 279, Mismatches: 44, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
136 6 0.02
137 255 0.91
138 18 0.06
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (136 bp):
GTGTATAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAAT
TGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGAAATTGAAGTGTTTTATCGCTGTA
ATTGAT
Found at i:11159081 original size:160 final size:160
Alignment explanation
Indices: 11158418--11158989 Score: 1020
Period size: 160 Copynumber: 3.6 Consensus size: 160
11158408 GGCAACATCG
11158418 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * *
11158483 TTTAAGTACTGCAAATTGAAGTGTTTGAGTGCTGCAAATTGAAGTGCTTAGTTGCTAGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
*
11158548 GATGTTTTATCGCTATAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
*
11158578 AATGTTGTTAATTGATATCTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
11158643 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
11158708 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
* *
11158738 AATGTTGTTAATTGATATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * **
11158803 TTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTTAAGTATTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
*
11158868 -AGTATTTTATCGCTGTAATTGAGGTGTATA
131 GA-TGTTTTATCGCTGTAATTGAGGTGTATA
11158898 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
11158963 TTTAAGTGCTGCAAATTGAAGTGTTTA
66 TTTAAGTGCTGCAAATTGAAGTGTTTA
11158990 GTTGCTAAAA
Statistics
Matches: 395, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
159 1 0.00
160 394 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (160 bp):
AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
GATGTTTTATCGCTGTAATTGAGGTGTATA
Found at i:11159083 original size:46 final size:46
Alignment explanation
Indices: 11158427--11159083 Score: 379
Period size: 46 Copynumber: 14.4 Consensus size: 46
11158417 GAATGTTGTT
* * * * *
11158427 AATTGATA-TGTTTAAGTGCTGCAAATTTA-AGTGTTTAAATGCTGTA
1 AATTGA-AGTGTTTAAATGCTGTAAATTGATA-TGTTTAAGTGCTGCA
* * * *
11158473 AATTGAAGTGTTTAAGTACTGCAAATTGA-AGTGTTTGAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGATA-TGTTTAAGTGCTGCA
* ** * *
11158519 AATTGAAGTGCTTAGTTGCTAG-AAATTGAGATGTTTTA-T-C-GCTA
1 AATTGAAGTGTTTAAATGCT-GTAAATTGATATGTTTAAGTGCTGC-A
* * * * *
11158563 TAATTGAGGTGTATAAATGTTGTTAATTGATATCTTTAAGTGCTGCA
1 -AATTGAAGTGTTTAAATGCTGTAAATTGATATGTTTAAGTGCTGCA
*
11158610 AATTTAAGTGTTTAAATGCTGTAAATTGA-AGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGATA-TGTTTAAGTGCTGCA
* * * *
11158656 AATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTAAATTGATA-TGTTTAAG-TGCTGCA
* ** * * * **
11158702 AATTG-AGATGTTT-TATCGCTGT-AATTGAGGTGTATAAATGTTGTT
1 AATTGAAG-TGTTTAAAT-GCTGTAAATTGATATGTTTAAGTGCTGCA
* * * * * * *
11158747 AATTGATA-TGTTTAAGTGTTGCAAATTTA-AGTGTTTAAATGTTGTA
1 AATTGA-AGTGTTTAAATGCTGTAAATTGATA-TGTTTAAGTGCTGCA
* * *
11158793 AATTGAAGTGTTTAAGTGCTGCAAATTTA-AGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGATA-TGTTTAAGTGCTGCA
* * ** * *
11158839 AATTTAAGTATTTAGTTGCTGGAAATTGAAGTAT-TTT-A-TCGCTG-T
1 AATTGAAGTGTTTAAATGCTGTAAATTG-A-TATGTTTAAGT-GCTGCA
* * * *
11158884 AATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGATATGTTTAAGTGCTGCA
*
11158930 AATTTAAGTGTTTAAATGCTGTAAATTGA-AGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGATA-TGTTTAAGTGCTGCA
** ** * * *
11158976 AATTGAAGTGTTTAGTTGCTAAAAATTGAGATGTTTTA-TCGCTG-T
1 AATTGAAGTGTTTAAATGCTGTAAATTGATATGTTTAAGT-GCTGCA
* * * * * *
11159021 AATTGATGTGTATAAATGTTGTTATTTGATATGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGATATGTTTAAGTGCTGCA
*
11159067 AATTGAACTGTTTAAAT
1 AATTGAAGTGTTTAAAT
11159084 TTAACTTGTT
Statistics
Matches: 479, Mismatches: 98, Indels: 68
0.74 0.15 0.11
Matches are distributed among these distances:
43 5 0.01
44 7 0.01
45 118 0.25
46 335 0.70
47 10 0.02
48 3 0.01
49 1 0.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (46 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGATATGTTTAAGTGCTGCA
Found at i:11159751 original size:43 final size:43
Alignment explanation
Indices: 11159697--11159816 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
11159687 TTTTTGTGAC
* * * *
11159697 CTTTAGTGGCGTTTTTGGGGAAAGCGCTGCTAAAGGTCCTAGT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAAT
*
11159740 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTAAT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAAT
* *
11159783 CTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAA
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAA
11159817 AGCCTGTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAAT
Found at i:11162784 original size:9 final size:9
Alignment explanation
Indices: 11162772--11162897 Score: 116
Period size: 9 Copynumber: 14.0 Consensus size: 9
11162762 TATATCATAT
*
11162772 CATAATTTA
1 CATAACTTA
11162781 CATAACTTA
1 CATAACTTA
11162790 CATAACTTA
1 CATAACTTA
11162799 -ATAACTTA
1 CATAACTTA
* *
11162807 TATATATCATA
1 CATA-A-CTTA
11162818 TCATAACTTA
1 -CATAACTTA
*
11162828 CATAACTCA
1 CATAACTTA
11162837 CATAACTTA
1 CATAACTTA
11162846 CATAACTTA
1 CATAACTTA
11162855 CATAA--TA
1 CATAACTTA
*
11162862 CATAA-ATA
1 CATAACTTA
* * *
11162870 TATATCATA
1 CATAACTTA
11162879 TCATAACTTA
1 -CATAACTTA
11162889 CATAACTTA
1 CATAACTTA
11162898 ATTATACTTG
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
7 7 0.07
8 13 0.13
9 62 0.63
10 10 0.10
11 4 0.04
12 3 0.03
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:11162815 original size:47 final size:47
Alignment explanation
Indices: 11162757--11162899 Score: 173
Period size: 47 Copynumber: 2.9 Consensus size: 47
11162747 TTAAGTAAAA
11162757 TTATATATATCATATCATAATTTACATAACTTACATAACTTAATAAC
1 TTATATATATCATATCATAATTTACATAACTTACATAACTTAATAAC
* *
11162804 TTATATATATCATATCATAACTTACATAACTCACATAACTTACATAAC
1 TTATATATATCATATCATAATTTACATAACTTACATAACTTA-ATAAC
* *
11162852 TTACATA-ATACATAAAT-ATATATCATATCATAACTTACATAACTTAAT
1 TTATATATAT-CAT--ATCATA-AT-TTA-CATAACTTACATAACTTAAT
11162900 TATACTTGTA
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
47 42 0.51
48 14 0.17
49 3 0.04
50 3 0.04
51 4 0.05
52 17 0.20
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (47 bp):
TTATATATATCATATCATAATTTACATAACTTACATAACTTAATAAC
Found at i:11162840 original size:56 final size:61
Alignment explanation
Indices: 11162780--11162895 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 61
11162770 ATCATAATTT
* *
11162780 ACATAACTTACATAACTTA-AT-A-ACTTATATATATCAT-ATCAT-A--ACTTACATAACTC
1 ACATAACTTACATAACTTACATAATACATAAATATAT-ATCAT-ATCATAACTTACATAACTC
11162836 ACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACT
1 ACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACT
11162896 TAATTATACT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
56 19 0.37
57 2 0.04
58 5 0.10
59 13 0.25
61 12 0.24
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (61 bp):
ACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTC
Found at i:11162893 original size:61 final size:56
Alignment explanation
Indices: 11162780--11162895 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 56
11162770 ATCATAATTT
* *
11162780 ACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTACATAACTC
1 ACATAACTTACATAACTTAATAACATAAATATATCATATCATAACTTACATAACTC
11162836 ACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACT
1 ACATAACTTACATAACTTA-AT-A-ACAT-AA-ATATATCATATCATAACTTACATAACT
11162896 TAATTATACT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
56 19 0.36
57 2 0.04
58 1 0.02
59 3 0.06
60 1 0.02
61 27 0.51
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (56 bp):
ACATAACTTACATAACTTAATAACATAAATATATCATATCATAACTTACATAACTC
Found at i:11167101 original size:43 final size:43
Alignment explanation
Indices: 11167044--11167155 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
11167034 ATTTGTAAAA
* *
11167044 AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGAGATTGTGAT
1 AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
*
11167087 AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGCGATTGCGAT
1 AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
*
11167130 AAAAGCGTCACTAAAGGTCATCTTCT
1 AAAAGCGTCACTAAAGGTCATGTTCT
11167156 CTTTAGATGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGAGATTGCGAT
Found at i:11178488 original size:27 final size:27
Alignment explanation
Indices: 11178447--11178498 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
11178437 TGTGTCGAGG
*
11178447 TCCTAATTCAAACTTGTCATTTGACCT
1 TCCTAATTCAAACTTGTCATCTGACCT
*
11178474 TCCTAATTCAGACTTGTCATCTGAC
1 TCCTAATTCAAACTTGTCATCTGAC
11178499 ATTCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (27 bp):
TCCTAATTCAAACTTGTCATCTGACCT
Found at i:11200072 original size:15 final size:15
Alignment explanation
Indices: 11200052--11200113 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
11200042 TGATTAATTA
*
11200052 TAATTAACTTTTAAT
1 TAATTAACATTTAAT
*
11200067 TAATTAAGATTTAAT
1 TAATTAACATTTAAT
* **
11200082 TAAATAA-AGGATAAT
1 TAATTAACA-TTTAAT
11200097 TAATTAA-ATTTAAT
1 TAATTAACATTTAAT
11200111 TAA
1 TAA
11200114 ACTATATAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 8 0.21
15 30 0.79
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (15 bp):
TAATTAACATTTAAT
Found at i:11211105 original size:34 final size:34
Alignment explanation
Indices: 11211067--11211138 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
11211057 CTATAGAAAG
*
11211067 AAAGTATTTGAAACCTTCTCCCTCTATAATTTTA
1 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
*
11211101 AAAGTATTTGAAATCTTCTCCCTCTACAATTTTA
1 AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
11211135 AAAG
1 AAAG
11211139 GTAATTCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (34 bp):
AAAGTATTTGAAACCTTCTCCCTCTACAATTTTA
Found at i:11216839 original size:18 final size:19
Alignment explanation
Indices: 11216810--11216846 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11216800 TCAACAATTA
11216810 TTTATTTGTATTTATAAAT
1 TTTATTTGTATTTATAAAT
*
11216829 TTTATTT-TATTTTTAAAT
1 TTTATTTGTATTTATAAAT
11216847 GGTAGAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTATTTGTATTTATAAAT
Found at i:11221738 original size:27 final size:27
Alignment explanation
Indices: 11221700--11221782 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
11221690 ATACAAAATA
* *
11221700 GTGGCGCCTATCTCAGAGGCGCCAATG
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* * *
11221727 GTGGTGCCTATCTGACAGGCGCCATTA
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* *
11221754 GTTGTGCCATAT-TGAGAGGCGCTAATG
1 GTGGTGCC-TATCTGAGAGGCGCCAATG
11221781 GT
1 GT
11221783 CTTATTTTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
27 42 0.93
28 3 0.07
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (27 bp):
GTGGTGCCTATCTGAGAGGCGCCAATG
Found at i:11221884 original size:24 final size:23
Alignment explanation
Indices: 11221840--11221887 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
11221830 CAGAGGAACG
* * *
11221840 AAAATAAAAAGGAAGGGAGAAGA
1 AAAAAAAAAAGGAAAGAAGAAGA
11221863 AAAAAAAAAAGGAAAAGAAGAAGA
1 AAAAAAAAAAGG-AAAGAAGAAGA
11221887 A
1 A
11221888 GGATAATGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAGGAAAGAAGAAGA
Found at i:11225338 original size:6 final size:6
Alignment explanation
Indices: 11225329--11225375 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
11225319 CTCTGCCTCT
* * *
11225329 GGCTCC GGCTCT AGCTCT GGCTCC GGCTCC GGCTCC GGCTCC GGCTC
1 GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCTC
11225376 TTGCTCTGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.02, C:0.45, G:0.32, T:0.21
Consensus pattern (6 bp):
GGCTCC
Found at i:11225340 original size:12 final size:12
Alignment explanation
Indices: 11225325--11225381 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
11225315 CTGTCTCTGC
11225325 CTCTGGCTCCGG
1 CTCTGGCTCCGG
* *
11225337 CTCTAGCTCTGG
1 CTCTGGCTCCGG
*
11225349 CTCCGGCTCCGG
1 CTCTGGCTCCGG
*
11225361 CTCCGGCTCCGG
1 CTCTGGCTCCGG
*
11225373 CTCTTGCTC
1 CTCTGGCTC
11225382 TGGTGCATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.02, C:0.44, G:0.28, T:0.26
Consensus pattern (12 bp):
CTCTGGCTCCGG
Found at i:11225346 original size:18 final size:18
Alignment explanation
Indices: 11225325--11225384 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
11225315 CTGTCTCTGC
11225325 CTCTGGCTCCGGCTCTAG
1 CTCTGGCTCCGGCTCTAG
**
11225343 CTCTGGCTCCGGCTCCGG
1 CTCTGGCTCCGGCTCTAG
* *
11225361 CTCCGGCTCCGGCTCTTG
1 CTCTGGCTCCGGCTCTAG
11225379 CTCTGG
1 CTCTGG
11225385 TGCATGATGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.02, C:0.42, G:0.30, T:0.27
Consensus pattern (18 bp):
CTCTGGCTCCGGCTCTAG
Found at i:11227025 original size:16 final size:16
Alignment explanation
Indices: 11227006--11227044 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
11226996 AAAATCAAAT
11227006 AAAATTACATTATATA
1 AAAATTACATTATATA
11227022 AAAATTACATTATATA
1 AAAATTACATTATATA
11227038 AAAATTA
1 AAAATTA
11227045 AATGAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:11227251 original size:60 final size:60
Alignment explanation
Indices: 11227158--11227279 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
11227148 ATACTAAACT
* * * *
11227158 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
11227218 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
11227278 AA
1 AA
11227280 TATTCATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:11227296 original size:19 final size:19
Alignment explanation
Indices: 11227272--11227333 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
11227262 ATTATAAAAT
11227272 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
11227291 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
11227312 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
11227331 AAT
1 AAT
11227334 ACTAATCCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:11227315 original size:21 final size:21
Alignment explanation
Indices: 11227267--11227332 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
11227257 AATTAATTAT
11227267 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
11227289 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
11227308 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
11227329 AAAA
1 AAAA
11227333 TACTAATCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.40
20 2 0.05
21 23 0.55
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:11227704 original size:27 final size:27
Alignment explanation
Indices: 11227650--11227708 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
11227640 ATGCCATTGA
**
11227650 CGCCTCCCTATGAGGCACTTTTAATGG
1 CGCCTCCCTATGAGGCACAATTAATGG
* *
11227677 CGCCTCCCTATGAGGCTCAATTAGTGG
1 CGCCTCCCTATGAGGCACAATTAATGG
11227704 CGCCT
1 CGCCT
11227709 ACCTGACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.32, G:0.24, T:0.27
Consensus pattern (27 bp):
CGCCTCCCTATGAGGCACAATTAATGG
Found at i:11231172 original size:21 final size:21
Alignment explanation
Indices: 11231132--11231180 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11231122 ATAAATAAAA
*
11231132 TCATTCA-TGTCAGTTCCCTG
1 TCATTCACTGTCAATTCCCTG
*
11231152 TCATTCACTGTCAATTTCCTG
1 TCATTCACTGTCAATTCCCTG
*
11231173 TCACTCAC
1 TCATTCAC
11231181 AACTTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.18, C:0.33, G:0.10, T:0.39
Consensus pattern (21 bp):
TCATTCACTGTCAATTCCCTG
Found at i:11231594 original size:39 final size:39
Alignment explanation
Indices: 11231540--11231617 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
11231530 CTTTCAATTT
*
11231540 AAACCGAATATCCAATTTAATATTATAATTCCAACAATA
1 AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
11231579 AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
1 AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
11231618 GAATAAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (39 bp):
AAACCGAATATCCAATTCAATATTATAATTCCAACAATA
Found at i:11235337 original size:44 final size:45
Alignment explanation
Indices: 11235264--11235348 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 45
11235254 TTTTTTCGAA
* *
11235264 TATAATGCCTTGATATCTTTGAATCATGGTATTT-CCTTTTATAG
1 TATAATGCCATGATATCTTTCAATCATGGTATTTCCCTTTTATAG
* * * *
11235308 TATAATGTCATGATATCTTTCAGTTATGGTCTTTCCCTTTT
1 TATAATGCCATGATATCTTTCAATCATGGTATTTCCCTTTT
11235349 CTCAAATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 28 0.82
45 6 0.18
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.49
Consensus pattern (45 bp):
TATAATGCCATGATATCTTTCAATCATGGTATTTCCCTTTTATAG
Found at i:11237399 original size:43 final size:43
Alignment explanation
Indices: 11237333--11237461 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
11237323 ATAGGATTTC
* * *
11237333 CGATATGTGTTTTCGTGTAAGACCACGTTTGGGACTTTGGCAT
1 CGATCTGTGTTTACGTGTAAGACCACGTTTGGGACATTGGCAT
* * *
11237376 CGA-CTTGTGTTTACGTGTAAGACC-CTATTTAGGACAGTGGCAT
1 CGATC-TGTGTTTACGTGTAAGACCAC-GTTTGGGACATTGGCAT
* * * * *
11237419 CGATCTGTGATTGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATCTGTGTTTACGTGTAAGACCACGTTTGGGACATTGGCAT
11237462 TGTACAAGCC
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
42 1 0.01
43 65 0.96
44 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
CGATCTGTGTTTACGTGTAAGACCACGTTTGGGACATTGGCAT
Found at i:11248598 original size:6 final size:6
Alignment explanation
Indices: 11248567--11248615 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
11248557 TTTAGAAATT
*
11248567 ATAAAA ACTAAAA A-AATAG ATCAAAA ATAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA A-TAAAA ATAA-AA AT-AAAA ATAAAA ATAAAA ATAAAA ATAAA
11248616 GCATGGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 2 0.05
6 24 0.65
7 9 0.24
8 2 0.05
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:11254911 original size:39 final size:39
Alignment explanation
Indices: 11254821--11254927 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
11254811 TAGAAGTATT
* *
11254821 ATCTAAAGTTTAAAATTTAAATTTAAAAATAACAATTCC
1 ATCTAAAATTTAAACTTTAAATTTAAAAATAACAATTCC
*
11254860 ATCTAAAATTTAAACTTTAAATTTAAAAATAATAA-TCC
1 ATCTAAAATTTAAACTTTAAATTTAAAAATAACAATTCC
* * *
11254898 -TTTCAAAACTTTAAACTTTAAGTTAAAAAA
1 ATCT-AAAA-TTTAAACTTTAAATTTAAAAA
11254928 AAAATCTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
37 2 0.03
38 7 0.12
39 51 0.85
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.36
Consensus pattern (39 bp):
ATCTAAAATTTAAACTTTAAATTTAAAAATAACAATTCC
Found at i:11260476 original size:17 final size:17
Alignment explanation
Indices: 11260454--11260486 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11260444 ATAGAAAGTC
11260454 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
11260471 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
11260487 AAATCTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:11262375 original size:6 final size:6
Alignment explanation
Indices: 11262364--11262388 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11262354 AGTTTTCTCT
11262364 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
11262389 CTTAGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:11263592 original size:24 final size:24
Alignment explanation
Indices: 11263560--11263607 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11263550 CCTATGGCAT
11263560 GCAACTATATCCAAACTAATCTGA
1 GCAACTATATCCAAACTAATCTGA
11263584 GCAACTATATCCAAACTAATCTGA
1 GCAACTATATCCAAACTAATCTGA
11263608 ATAACTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (24 bp):
GCAACTATATCCAAACTAATCTGA
Found at i:11263613 original size:24 final size:24
Alignment explanation
Indices: 11263561--11263614 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
11263551 CTATGGCATG
*
11263561 CAACTATATCCAAACTAATCTGAG
1 CAACTATATCCAAACTAATCTGAA
11263585 CAACTATATCCAAACTAATCTGAA
1 CAACTATATCCAAACTAATCTGAA
*
11263609 TAACTA
1 CAACTA
11263615 ATAGGGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (24 bp):
CAACTATATCCAAACTAATCTGAA
Found at i:11266639 original size:18 final size:17
Alignment explanation
Indices: 11266606--11266639 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11266596 AATTCTTCAT
*
11266606 CAAATTAACTCTAAAAC
1 CAAATTAAATCTAAAAC
11266623 CAAATTAAATACTAAAA
1 CAAATTAAAT-CTAAAA
11266640 GTTAATAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAATTAAATCTAAAAC
Found at i:11276902 original size:23 final size:22
Alignment explanation
Indices: 11276868--11276939 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 22
11276858 TTTGACACAC
*
11276868 TTCTGTTCGGCCTTTGTAGCGCA
1 TTCTGTTTGGCCTTTGTAG-GCA
*
11276891 TTTTGTTTGGCCTTTGT-GGCA
1 TTCTGTTTGGCCTTTGTAGGCA
* *
11276912 TTCTG-TTAGCCTTTGTAGTGTA
1 TTCTGTTTGGCCTTTGTAG-GCA
11276934 TTCTGT
1 TTCTGT
11276940 ATGTTTCCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 10 0.24
21 8 0.20
22 8 0.20
23 15 0.37
ACGTcount: A:0.08, C:0.18, G:0.25, T:0.49
Consensus pattern (22 bp):
TTCTGTTTGGCCTTTGTAGGCA
Found at i:11285923 original size:19 final size:20
Alignment explanation
Indices: 11285886--11285926 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11285876 TACAACACAA
*
11285886 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
11285906 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
11285925 TT
1 TT
11285927 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:11286362 original size:26 final size:28
Alignment explanation
Indices: 11286333--11286398 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
11286323 CCGTGGGTTC
*
11286333 TTCTTTCTTTCTC-TTTTTCTTTT-TCG
1 TTCTTTCTTTCTCGTTTTGCTTTTGTCG
*
11286359 TTCTTTCTATT-TCGTTTTGCTTTTGTCT
1 TTCTTTCT-TTCTCGTTTTGCTTTTGTCG
*
11286387 TTCTTTATTTCT
1 TTCTTTCTTTCT
11286399 TTTATTACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 10 0.30
27 13 0.39
28 10 0.30
ACGTcount: A:0.03, C:0.20, G:0.06, T:0.71
Consensus pattern (28 bp):
TTCTTTCTTTCTCGTTTTGCTTTTGTCG
Found at i:11286495 original size:43 final size:40
Alignment explanation
Indices: 11286408--11286495 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 40
11286398 TTTTATTACT
* *
11286408 ATAATATATGTATTTACTTAATTATTAAGTAAAACATATT
1 ATAATATATATATTTACTTAATTATTAAGTAAAACATATC
* *
11286448 ATAATATATATATTTTAACTTTAATTTATTAA-TAATATATATC
1 ATAATATATATA-TTT-AC-TTAA-TTATTAAGTAAAACATATC
11286491 ATAAT
1 ATAAT
11286496 TTTACACTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 11 0.28
41 3 0.08
42 2 0.05
43 17 0.43
44 7 0.17
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (40 bp):
ATAATATATATATTTACTTAATTATTAAGTAAAACATATC
Found at i:11288647 original size:3 final size:3
Alignment explanation
Indices: 11288639--11288675 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11288629 AAATTTAGAG
11288639 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11288676 TCTTTGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11292683 original size:17 final size:19
Alignment explanation
Indices: 11292661--11292701 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
11292651 TTAAATTGAA
11292661 TTTTTTTA-TTATAT-ATT
1 TTTTTTTATTTATATGATT
*
11292678 TTTTTTTATTTTTATGATT
1 TTTTTTTATTTATATGATT
11292697 TTTTT
1 TTTTT
11292702 AATGATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 5 0.24
19 8 0.38
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTATTTATATGATT
Found at i:11294291 original size:16 final size:17
Alignment explanation
Indices: 11294257--11294288 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11294247 TTAGGGGGAA
11294257 AATAAACAGTTTTGAGG
1 AATAAACAGTTTTGAGG
11294274 AATAAA-AG-TTTGAGG
1 AATAAACAGTTTTGAGG
11294289 GAAAGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (17 bp):
AATAAACAGTTTTGAGG
Found at i:11294670 original size:9 final size:9
Alignment explanation
Indices: 11294656--11294692 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11294646 TATAGTTTGA
11294656 TATTCGAAT
1 TATTCGAAT
11294665 TATTCGAAT
1 TATTCGAAT
*
11294674 TATTCGAGT
1 TATTCGAAT
11294683 TATTCGAAT
1 TATTCGAAT
11294692 T
1 T
11294693 CGAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11295076 original size:42 final size:41
Alignment explanation
Indices: 11295013--11295317 Score: 243
Period size: 42 Copynumber: 7.2 Consensus size: 41
11295003 TAGAAATAAT
* * * *
11295013 CGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCAAAAA
1 CGCCGCTATAGACCA-AACCTTTAGCGGCGCTTTTCCACAAA
* **
11295055 CGCCGCTATAGATCACAACCTTTAGCGGCGCTTACCCACAAA
1 CGCCGCTATAGACCA-AACCTTTAGCGGCGCTTTTCCACAAA
* * *
11295097 CGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCA-ACAA
1 CGCCGCTATAGACCA-AACCTTTAGCGGCGCTTTTCCACA-AA
* *
11295139 CGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTATAGACCA-AACCTTTAGCGGCGCTTTT-CCACAAA
* * * * * *
11295182 TGCCACTATAGACCACGACCTTTAACGGTGTTTTTCCCACAAA
1 CGCCGCTATAGACCA-AACCTTTAGCGGCGCTTTT-CCACAAA
* * **
11295225 TGCCGCAATAGACCAAGACCTTTAGCGGCGCTTTTTTTACAAA
1 CGCCGCTATAGACCAA-ACCTTTAGCGGCGC-TTTTCCACAAA
* * * * * * *
11295268 TGCCACTATAGAACAAACTTTTAGCGACGCTTCTCGCAAAAA
1 CGCCGCTATAGACCAAACCTTTAGCGGCGCTTTTC-CACAAA
11295310 CGCCGCTA
1 CGCCGCTA
11295318 AAAACATATG
Statistics
Matches: 215, Mismatches: 42, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
41 4 0.02
42 123 0.57
43 83 0.39
44 5 0.02
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (41 bp):
CGCCGCTATAGACCAAACCTTTAGCGGCGCTTTTCCACAAA
Found at i:11295160 original size:84 final size:84
Alignment explanation
Indices: 11295013--11295257 Score: 305
Period size: 84 Copynumber: 2.9 Consensus size: 84
11295003 TAGAAATAAT
* * * * *
11295013 CGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCAAAAACGCCGCTATAGATCACA-ACCTT
1 CGCCACTAAAGACCACGACCTTTAGCGGTGCTTTTCCAACAACGCCGCTAAAGACCA-AGACCTT
11295077 TAGCGGCGCTTACCCACAAA
65 TAGCGGCGCTTACCCACAAA
* * *
11295097 CGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAACAACGCCGCTAAAGACCAGGACCTTT
1 CGCCACTAAAGACCACGACCTTTAGCGGTGCTTTTCCAACAACGCCGCTAAAGACCAAGACCTTT
*
11295162 AGCGGCGCTTTTCCCACAAA
66 AGCGGCGC-TTACCCACAAA
* * * * * *
11295182 TGCCACTATAGACCACGACCTTTAACGGTGTTTTTCCCACAAATGCCGC-AATAGACCAAGACCT
1 CGCCACTAAAGACCACGACCTTTAGCGGTGCTTTTCCAAC-AACGCCGCTAA-AGACCAAGACCT
11295246 TTAGCGGCGCTT
64 TTAGCGGCGCTT
11295258 TTTTTACAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
84 65 0.46
85 47 0.34
86 28 0.20
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (84 bp):
CGCCACTAAAGACCACGACCTTTAGCGGTGCTTTTCCAACAACGCCGCTAAAGACCAAGACCTTT
AGCGGCGCTTACCCACAAA
Found at i:11295217 original size:43 final size:43
Alignment explanation
Indices: 11295013--11295279 Score: 270
Period size: 42 Copynumber: 6.3 Consensus size: 43
11295003 TAGAAATAAT
* * * * *
11295013 CGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTT-CCAAAAA
1 CGCCACTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * * *
11295055 CGCCGCTATAGATCACAACCTTTAGCGGCGC-TTACCCACAAA
1 CGCCACTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
11295097 CGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCAAC-AA
1 CGCCACTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
11295139 CGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCACTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * * *
11295182 TGCCACTATAGACCACGACCTTTAACGGTGTTTTTCCCACAAA
1 CGCCACTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
* * * * ***
11295225 TGCCGCAATAGACCAAGACCTTTAGCGGCGCTTTTTTTACAAA
1 CGCCACTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
*
11295268 TGCCACTATAGA
1 CGCCACTATAGA
11295280 ACAAACTTTT
Statistics
Matches: 188, Mismatches: 34, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
41 2 0.01
42 98 0.52
43 88 0.47
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
CGCCACTATAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:11300472 original size:15 final size:15
Alignment explanation
Indices: 11300452--11300480 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11300442 CTAACCTGAC
11300452 CCCTGAATCCCTAAA
1 CCCTGAATCCCTAAA
11300467 CCCTGAATCCCTAA
1 CCCTGAATCCCTAA
11300481 CTATTAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.41, G:0.07, T:0.21
Consensus pattern (15 bp):
CCCTGAATCCCTAAA
Found at i:11300495 original size:7 final size:7
Alignment explanation
Indices: 11300485--11300518 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
11300475 CCCTAACTAT
11300485 TAACCCC
1 TAACCCC
**
11300492 TAACGTC
1 TAACCCC
11300499 TAACCCC
1 TAACCCC
11300506 TAACCCC
1 TAACCCC
11300513 TAACCC
1 TAACCC
11300519 ATGAATCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.50, G:0.03, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:11300584 original size:15 final size:14
Alignment explanation
Indices: 11300542--11300590 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
11300532 CCCAACCCAT
*
11300542 TAAAACATAATCCC
1 TAAACCATAATCCC
*
11300556 TAATCCATAATCCC
1 TAAACCATAATCCC
*
11300570 TAAACTCATACTCCC
1 TAAAC-CATAATCCC
11300585 TAAACC
1 TAAACC
11300591 TTTTAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:11300903 original size:41 final size:41
Alignment explanation
Indices: 11300858--11301141 Score: 352
Period size: 41 Copynumber: 6.9 Consensus size: 41
11300848 AAAAATAGAT
* *
11300858 CATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCCTAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11300899 CATTAGCGGCGCCTCCTCAAAAACGCCGCTAAATCCCGGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11300940 CATTAGCGGCGCTTCTTCAAAAACGCCACTAAATCCCCGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
** * * *
11300981 CATTAGCGGTACTTCTTAAAAAACGCCACTAAAGCCCCGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11301022 CATCAGCGGCGCTTCTTCAAAAATGCCGCTAAAGCCCCGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
* * *
11301063 TATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAG
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
** * * *
11301104 CATTAGCGGCGCTTTTTTATAAACGCCGCGAAAGCCCC
1 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
11301142 CGAAAACTCA
Statistics
Matches: 210, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 210 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (41 bp):
CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAG
Found at i:11300961 original size:82 final size:82
Alignment explanation
Indices: 11300819--11301141 Score: 378
Period size: 82 Copynumber: 4.0 Consensus size: 82
11300809 AAACCTAAGT
* * * *** * **
11300819 ATTAGCGGCACTTTCTAAAAAACGCCGCTAAAA-ATAGATCATTAGCGGCGCTTCCCCAAAAACG
1 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
*
11300883 CCGCTAAAGCCCCTAGC
66 CCGCTAAAGCCCCGAGC
* * *
11300900 ATTAGCGGCGCCTCCTCAAAAACGCCGCTAAATCCCGGAGCATTAGCGGCGCTTCTTCAAAAACG
1 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
* *
11300965 CCACTAAATCCCCGAGC
66 CCGCTAAAGCCCCGAGC
** * * * * * *
11300982 ATTAGCGGTACTTCTTAAAAAACGCCACTAAAGCCCCGAGCATCAGCGGCGCTTCTTCAAAAATG
1 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
*
11301047 CCGCTAAAGCCCCGAGT
66 CCGCTAAAGCCCCGAGC
* * * *
11301064 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTTATAAACG
1 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
*
11301129 CCGCGAAAGCCCC
66 CCGCTAAAGCCCC
11301142 CGAAAACTCA
Statistics
Matches: 201, Mismatches: 40, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
81 28 0.14
82 173 0.86
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (82 bp):
ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
CCGCTAAAGCCCCGAGC
Found at i:11301128 original size:123 final size:123
Alignment explanation
Indices: 11300816--11301141 Score: 386
Period size: 123 Copynumber: 2.7 Consensus size: 123
11300806 GATAAACCTA
* * * * * ***
11300816 AGTATTAGCGGCACTTTCTAAAAAACGCCGCTAAAA--ATAGATCATTAGCGGCGCTTCCCCAAA
1 AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCT-GAGCATTAGCGGCGCTTCTTAAAA
* * * *
11300879 AACGCCGCTAAAGCCCCTAGCATTAGCGGCGCCTCCTCAAAAACGCCGCTAAATCCCGG
65 AACGCCGCTAAAGCCCCGAGCATCAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCCG
* * * * * **
11300938 AGCATTAGCGGCGCTTCTTCAAAAACGCCACTAAATCCCCGAGCATTAGCGGTACTTCTTAAAAA
1 AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTAAAAA
* * * *
11301003 ACGCCACTAAAGCCCCGAGCATCAGCGGCGCTTCTTCAAAAATGCCGCTAAAGCCCCG
66 ACGCCGCTAAAGCCCCGAGCATCAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCCG
* * *
11301061 AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTTATAA
1 AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTAAAAA
*
11301126 ACGCCGCGAAAGCCCC
66 ACGCCGCTAAAGCCCC
11301142 CGAAAACTCA
Statistics
Matches: 167, Mismatches: 35, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
122 29 0.17
123 138 0.83
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (123 bp):
AGTATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTAAAAA
ACGCCGCTAAAGCCCCGAGCATCAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCCG
Found at i:11301301 original size:40 final size:40
Alignment explanation
Indices: 11301176--11301311 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
11301166 TAGGCTTAGG
* ** *
11301176 TTTTTTGCGGCGCTTTTTGGAAAA-CGCCGCTAATAC-TCA
1 TTTTTAGCGGCG-TTTTTTCAAAAGCGCCGCTAATACTTAA
* **
11301215 TTTTTAGCGGCGTTTTTTCAAAAGCGCCACTAGA-ACTCGA
1 TTTTTAGCGGCGTTTTTTCAAAAGCGCCGCTA-ATACTTAA
* * * *
11301255 TCTTTAGTGGCGTTTTTTTAAAAGCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATACTTAA
11301295 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
11301312 CTTCCAAACG
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
38 9 0.12
39 21 0.27
40 48 0.62
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATACTTAA
Found at i:11304587 original size:39 final size:39
Alignment explanation
Indices: 11304527--11304606 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
11304517 CATATGCATC
*
11304527 TGGTGATAAGATCGTGAGTGAAGATCTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
* *
11304566 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
11304605 TG
1 TG
11304607 AGGCTTTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.34
Consensus pattern (39 bp):
TGGTGATAAGATCATGAGTGAAGATCTTATGGCTAAGTT
Found at i:11304783 original size:180 final size:177
Alignment explanation
Indices: 11304566--11304891 Score: 483
Period size: 180 Copynumber: 1.8 Consensus size: 177
11304556 TGGCTAAGTT
* * *
11304566 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTTTGAGGCTTTGACAGAGAAGGCT-TCC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGG-TGTCC
* * * * *
11304630 CATATTATAGCTGATGGTGTAGCTAGGATCCTTAAAGGTAAGGCTGCAGAATCAATCTCGCGTGG
65 CATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGG
11304695 AAGAAATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGTATC
130 -AG--ATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGTATC
* *
11304746 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGACGGTGTGCC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGTGTCCC
* * *
11304811 ATGTTATAGCTAATGATGTAGCTAGGATTATTAAAGATAAGGCTGCAGAATTAATCTCGCATGGA
66 ATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGGA
*
11304876 GATGAAGTTTCGCATG
131 GATGAAGTTTCCCATG
11304892 CCACATATGC
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
177 14 0.11
179 3 0.02
180 114 0.87
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (177 bp):
TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGTGTCCC
ATATTATAGCTAATGATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGGA
GATGAAGTTTCCCATGTCTATAATGAAGTAGAAGAAACATATGTATC
Found at i:11310770 original size:3 final size:3
Alignment explanation
Indices: 11310764--11310804 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11310754 AGTAACATCT
11310764 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11310805 CTATAAATTT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11310877 original size:19 final size:21
Alignment explanation
Indices: 11310850--11310888 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
11310840 ACTAAAACAA
*
11310850 AAAATAAT-ACAA-AATATAC
1 AAAACAATAACAACAATATAC
11310869 AAAACAATAACAACAATATA
1 AAAACAATAACAACAATATA
11310889 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAACAATAACAACAATATAC
Found at i:11311052 original size:27 final size:27
Alignment explanation
Indices: 11311014--11311089 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
11311004 AACACGAGTA
*
11311014 GTGCCGCCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCACTATGGCACCATTG
* *
11311041 GTGCCGCCAATCACTTTGGCACCTTTG
1 GTGCCGCCAATCACTATGGCACCATTG
11311068 GTGCCGCCAATCACCT-TGGCAC
1 GTGCCGCCAATCA-CTATGGCAC
11311090 GACCAGGGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.24, T:0.24
Consensus pattern (27 bp):
GTGCCGCCAATCACTATGGCACCATTG
Found at i:11311177 original size:26 final size:27
Alignment explanation
Indices: 11311147--11311207 Score: 115
Period size: 26 Copynumber: 2.3 Consensus size: 27
11311137 TTATTTTTGT
11311147 ATATTTTGATAAATAAAAAAA-TTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
11311173 ATATTTTGATAAATAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
11311200 ATATTTTG
1 ATATTTTG
11311208 GTTATTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.62
27 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAGTTATA
Found at i:11320504 original size:21 final size:21
Alignment explanation
Indices: 11320478--11320518 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11320468 ATCTGCTCAA
* *
11320478 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11320499 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11320519 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11326775 original size:18 final size:19
Alignment explanation
Indices: 11326749--11326788 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
11326739 AGGTGTGTTT
* *
11326749 CTTAGCCCTTATATGTA-C
1 CTTAACCCTTACATGTATC
11326767 CTTAACCCTTACATGTATC
1 CTTAACCCTTACATGTATC
11326786 CTT
1 CTT
11326789 TTCTGAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (19 bp):
CTTAACCCTTACATGTATC
Found at i:11329847 original size:29 final size:28
Alignment explanation
Indices: 11329781--11329848 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
11329771 TAGCATATCC
* *
11329781 AAATTAATGTAACTTTCATATTATTTTG
1 AAATTAATTTAAATTTCATATTATTTTG
**
11329809 ATAAAAAATTTATAATTT-ATATTATTTTGG
1 A-AATTAATTTA-AATTTCATATTATTTT-G
11329839 AAATTAATTT
1 AAATTAATTT
11329849 TATTTTTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 1 0.03
29 24 0.77
30 6 0.19
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (28 bp):
AAATTAATTTAAATTTCATATTATTTTG
Found at i:11330104 original size:29 final size:27
Alignment explanation
Indices: 11330063--11330139 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
11330053 TTTGATAAAT
*
11330063 AATTTATAATTTATAATATTTTAAAAATTA
1 AATTTAT-TTTTATAATATTTTAAAAA--A
* *
11330093 AATTTATTTTTATATTATTTTAATAAA
1 AATTTATTTTTATAATATTTTAAAAAA
* *
11330120 AATCTATTTTTATTATATTT
1 AATTTATTTTTATAATATTT
11330140 AAATTTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.44
29 16 0.39
30 7 0.17
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTTATTTTTATAATATTTTAAAAAA
Found at i:11330122 original size:27 final size:27
Alignment explanation
Indices: 11330051--11330139 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 27
11330041 TTGTTGTATC
* *
11330051 ATTTTGATAAATAATTTATAATTTATAAT
1 ATTTTAATAAA-AATTTAT-TTTTATAAT
* *
11330080 ATTTTAAAAATTAAATTTATTTTTATATT
1 ATTTTAATAA--AAATTTATTTTTATAAT
* *
11330109 ATTTTAATAAAAATCTATTTTTATTAT
1 ATTTTAATAAAAATTTATTTTTATAAT
11330136 ATTT
1 ATTT
11330140 AAATTTAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
27 18 0.36
29 24 0.48
30 7 0.14
31 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (27 bp):
ATTTTAATAAAAATTTATTTTTATAAT
Found at i:11332392 original size:85 final size:85
Alignment explanation
Indices: 11332249--11332419 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
11332239 GAAATTTGCA
* *
11332249 ATATGGTCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATTTAG
1 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
11332314 CTGTTTTATACATGACCATT
66 CTGTTTTATACATGACCATT
*
11332334 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTATTAGAGCAATCATCGTTTCATATAG
1 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
11332399 CTGTTTTATACATGACCATT
66 CTGTTTTATACATGACCATT
11332419 A
1 A
11332420 ATCAGATTCT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (85 bp):
ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
CTGTTTTATACATGACCATT
Done.