Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 174 of 185
Found at i:52388110 original size:15 final size:15
Alignment explanation
Indices: 52388085--52388121 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
52388075 AACAGTAAAA
52388085 TTTCAGTACTTAA-T
1 TTTCAGTACTTAACT
52388099 TTTCATGTACTTAACT
1 TTTCA-GTACTTAACT
52388115 TTTCAGT
1 TTTCAGT
52388122 TTATCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.51
Consensus pattern (15 bp):
TTTCAGTACTTAACT
Found at i:52390330 original size:29 final size:29
Alignment explanation
Indices: 52390295--52390350 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
52390285 CTTTCAATAT
* *
52390295 GGTACTTGTACTTTGAAATTGCCCAATGC
1 GGTACTTATACTTTGAAAATGCCCAATGC
*
52390324 GGTACTTATACTTTGAAAATGTCCAAT
1 GGTACTTATACTTTGAAAATGCCCAAT
52390351 TTGGTACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (29 bp):
GGTACTTATACTTTGAAAATGCCCAATGC
Found at i:52390356 original size:29 final size:29
Alignment explanation
Indices: 52390289--52390357 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
52390279 TATAAACTTT
* *
52390289 CAATATGGTACTTGTACTTTGAAATTGCC
1 CAATATGGTACTTATACTTTGAAAATGCC
** *
52390318 CAATGCGGTACTTATACTTTGAAAATGTC
1 CAATATGGTACTTATACTTTGAAAATGCC
*
52390347 CAATTTGGTAC
1 CAATATGGTAC
52390358 ATGAACTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (29 bp):
CAATATGGTACTTATACTTTGAAAATGCC
Found at i:52398214 original size:21 final size:21
Alignment explanation
Indices: 52398189--52398231 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
52398179 TTTTCAAAAG
52398189 ATAAACTTTTTTGTAATTTTT
1 ATAAACTTTTTTGTAATTTTT
52398210 ATAAACTTTTTTGTAATTTTT
1 ATAAACTTTTTTGTAATTTTT
52398231 A
1 A
52398232 GATTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
ATAAACTTTTTTGTAATTTTT
Found at i:52398703 original size:20 final size:21
Alignment explanation
Indices: 52398664--52398767 Score: 65
Period size: 20 Copynumber: 4.9 Consensus size: 21
52398654 GATTGAGTTT
*
52398664 TTTTATATTT-GAGTATTTAA
1 TTTTATATTTGGAGTAATTAA
52398684 TTTTATATTTGGA-TAATTAA
1 TTTTATATTTGGAGTAATTAA
* * *
52398704 TTAAATAATTTAATTGGATTAAGTT-A
1 TT---T--TATATTTGGAGTAA-TTAA
*
52398730 TTTTATATTT-GAGTATTTAA
1 TTTTATATTTGGAGTAATTAA
*
52398750 TTTTACATTTGGA-TAATT
1 TTTTATATTTGGAGTAATT
52398768 TATTGAGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
19 2 0.03
20 36 0.55
21 9 0.14
23 2 0.03
25 8 0.12
26 6 0.09
27 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTTATATTTGGAGTAATTAA
Found at i:52398719 original size:66 final size:66
Alignment explanation
Indices: 52398647--52398784 Score: 222
Period size: 66 Copynumber: 2.1 Consensus size: 66
52398637 AAAAAAGTAA
* * *
52398647 TTAATTGGATTGAGTTTTTTTATATTTGAGTATTTAATTTTATATTTGGATAATTAATTAAATAA
1 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTAATTAAATAA
52398712 T
66 T
* * *
52398713 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTTATTGAGTAA
1 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTAATTAAATAA
52398778 T
66 T
52398779 TTAATT
1 TTAATT
52398785 AGGTTGTGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (66 bp):
TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTAATTAAATAA
T
Found at i:52398799 original size:66 final size:66
Alignment explanation
Indices: 52398647--52398812 Score: 208
Period size: 66 Copynumber: 2.5 Consensus size: 66
52398637 AAAAAAGTAA
* ** *
52398647 TTAATTGGATTGAGTTTTTTTATATTTGAGTATTTAATTTTATATTTGGATAATTAATTAAATAA
1 TTAATTGGATTAAGTAATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTAATTAAATAA
52398712 T
66 T
* * * *
52398713 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTTATTGAGTAA
1 TTAATTGGATTAAGTAATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTAATTAAATAA
52398778 T
66 T
** * *
52398779 TTAATTAGG-TTGTGTAATTTTGTATTTGAATATT
1 TTAATT-GGATTAAGTAATTTTATATTTGAGTATT
52398813 AAGTAGGAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 86 0.98
67 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (66 bp):
TTAATTGGATTAAGTAATTTTATATTTGAGTATTTAATTTTACATTTGGATAATTAATTAAATAA
T
Found at i:52399913 original size:20 final size:20
Alignment explanation
Indices: 52399871--52399913 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
52399861 GAGTGGTTTC
*
52399871 TTAAATAATTATAAAAATTA
1 TTAAATAATTATAAAAATGA
52399891 TTAAA-AATTATAAATAATGA
1 TTAAATAATTATAAA-AATGA
52399911 TTA
1 TTA
52399914 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAATAATTATAAAAATGA
Found at i:52400097 original size:11 final size:10
Alignment explanation
Indices: 52400079--52400144 Score: 64
Period size: 11 Copynumber: 6.4 Consensus size: 10
52400069 CTTATCATTC
52400079 TTAATAATTT
1 TTAATAATTT
52400089 TTAAATAATTT
1 TT-AATAATTT
52400100 TTAATAA-TT
1 TTAATAATTT
*
52400109 ATATATAATTT
1 TTA-ATAATTT
*
52400120 GT-ATAATTAT
1 TTAATAATT-T
52400130 TTAATAATTAT
1 TTAATAATT-T
52400141 TTAA
1 TTAA
52400145 AAAACAATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
9 10 0.21
10 13 0.27
11 25 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TTAATAATTT
Found at i:52404990 original size:6 final size:7
Alignment explanation
Indices: 52404972--52404999 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
52404962 TTGCTCGGTC
52404972 ATTTTTT
1 ATTTTTT
52404979 ATTTTTT
1 ATTTTTT
52404986 ATTTTTT
1 ATTTTTT
52404993 ATTTTTT
1 ATTTTTT
52405000 CTCATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:52418313 original size:16 final size:16
Alignment explanation
Indices: 52418292--52418323 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52418282 AAGAAACATC
52418292 CTGAATAAATAAATTG
1 CTGAATAAATAAATTG
52418308 CTGAATAAATAAATTG
1 CTGAATAAATAAATTG
52418324 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (16 bp):
CTGAATAAATAAATTG
Found at i:52419645 original size:16 final size:15
Alignment explanation
Indices: 52419602--52419644 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
52419592 TTTAGAAAAA
*
52419602 TTTTAGTTTTTGGAT
1 TTTTAGTTTTTAGAT
52419617 TTTCTAGCTTTTTAGAT
1 TTT-TAG-TTTTTAGAT
52419634 TTTTAGTTTTT
1 TTTTAGTTTTT
52419645 TTTATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 6 0.24
17 11 0.44
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.67
Consensus pattern (15 bp):
TTTTAGTTTTTAGAT
Found at i:52421190 original size:22 final size:21
Alignment explanation
Indices: 52421161--52421216 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
52421151 TGCACTAATG
*
52421161 AACAGAGAGCACTGAAGTGCT
1 AACAGAGAGCACAGAAGTGCT
*
52421182 ATACAGAGAGCACAGATGTGCT
1 A-ACAGAGAGCACAGAAGTGCT
52421204 AATCAGAGAGCAC
1 AA-CAGAGAGCAC
52421217 CAACGTGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (21 bp):
AACAGAGAGCACAGAAGTGCT
Found at i:52421224 original size:22 final size:22
Alignment explanation
Indices: 52421162--52421229 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
52421152 GCACTAATGA
*
52421162 ACAGAGAGCACTGAAGTGCT-AT
1 ACAGAGAGCAC-CAAGTGCTAAT
52421184 ACAGAGAGCA-CAGATGTGCTAAT
1 ACAGAGAGCACCA-A-GTGCTAAT
52421207 -CAGAGAGCACCAACGTGCTAAT
1 ACAGAGAGCACCAA-GTGCTAAT
52421229 A
1 A
52421230 ATTAGAGAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 33 0.85
23 4 0.10
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCACCAAGTGCTAAT
Found at i:52422125 original size:13 final size:13
Alignment explanation
Indices: 52422107--52422131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52422097 CAAAATTCCC
52422107 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
52422120 TTTTCTTTCTTT
1 TTTTCTTTCTTT
52422132 CCTTTCTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:52425089 original size:17 final size:17
Alignment explanation
Indices: 52425052--52425099 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
52425042 GAATTTAGAA
*
52425052 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
52425068 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
52425085 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
52425100 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:52429847 original size:46 final size:46
Alignment explanation
Indices: 52429777--52429914 Score: 231
Period size: 46 Copynumber: 3.0 Consensus size: 46
52429767 CCATGGAAAG
* * *
52429777 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAATCATACTGGGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
52429823 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
52429869 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
52429915 AATAGCAATG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:52439184 original size:31 final size:30
Alignment explanation
Indices: 52439131--52439190 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
52439121 TGTCTATAAT
* * *
52439131 CACATCAAATTAAAGTTTATGTATCAATTTA
1 CACATCAAATCAAAATTAATGTAT-AATTTA
*
52439162 CACATTAAATCAAAATTAATGTATAATTT
1 CACATCAAATCAAAATTAATGTATAATTT
52439191 TAAGATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (30 bp):
CACATCAAATCAAAATTAATGTATAATTTA
Found at i:52447775 original size:16 final size:16
Alignment explanation
Indices: 52447755--52447801 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
52447745 ATAAAAATTT
*
52447755 TATATAAATATAATAAA
1 TATATAAA-AAAATAAA
52447772 -ATATCAAAAAAATAAA
1 TATAT-AAAAAAATAAA
52447788 TATATAAAAAAATA
1 TATATAAAAAAATA
52447802 TATGATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
TATATAAAAAAATAAA
Found at i:52459745 original size:16 final size:17
Alignment explanation
Indices: 52459703--52459748 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
52459693 AACTTGAAAG
52459703 AAATATTTTT-TCTTTA
1 AAATATTTTTATCTTTA
* **
52459719 AAAAAAATTTAT-TTTA
1 AAATATTTTTATCTTTA
52459735 AAATATTTTTATCT
1 AAATATTTTTATCT
52459749 CAAAAAATCT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATATTTTTATCTTTA
Found at i:52461461 original size:22 final size:21
Alignment explanation
Indices: 52461436--52461502 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
52461426 GCATTTTACT
52461436 ATAAATTTTTTTGAATAATTTA
1 ATAAATTTTTTT-AATAATTTA
* *
52461458 ATAACA--ATTTT-ATAATTTT
1 ATAA-ATTTTTTTAATAATTTA
*
52461477 TTAAATTTTTTTAAATAATTTA
1 ATAAATTTTTTT-AATAATTTA
52461499 ATAA
1 ATAA
52461503 CAATTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.03
19 10 0.29
20 4 0.12
21 4 0.12
22 14 0.41
23 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (21 bp):
ATAAATTTTTTTAATAATTTA
Found at i:52461474 original size:19 final size:19
Alignment explanation
Indices: 52461450--52461516 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
52461440 ATTTTTTTGA
52461450 ATAATTTAATAACAATTTT
1 ATAATTTAATAACAATTTT
** *
52461469 ATAATTTTTTAA-ATTTTTTT
1 ATAATTTAATAACA--ATTTT
52461489 AAATAATTTAATAACAATTTT
1 --ATAATTTAATAACAATTTT
52461510 ATAATTT
1 ATAATTT
52461517 TTTAAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
18 1 0.03
19 17 0.46
20 4 0.11
21 4 0.11
22 10 0.27
23 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAATTTAATAACAATTTT
Found at i:52461488 original size:41 final size:41
Alignment explanation
Indices: 52461437--52461525 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
52461427 CATTTTACTA
*
52461437 TAAATTTTTTTGAATAATTTAATAACAATTTTATAATTTTT
1 TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
52461478 TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
1 TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
52461519 TAAATTT
1 TAAATTT
52461526 AAGTGGTCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (41 bp):
TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
Found at i:52461509 original size:22 final size:21
Alignment explanation
Indices: 52461443--52461514 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
52461433 ACTATAAATT
52461443 TTTTTGAATAATTTAATAACAA
1 TTTTT-AATAATTTAATAACAA
** *
52461465 -TTTT-ATAATTTTTTAA-ATT
1 TTTTTAATAATTTAATAACA-A
52461484 TTTTTAAATAATTTAATAACAA
1 TTTTT-AATAATTTAATAACAA
52461506 TTTTATAAT
1 TTTT-TAAT
52461515 TTTTTAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 1 0.03
19 10 0.26
20 4 0.11
21 4 0.11
22 17 0.45
23 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (21 bp):
TTTTTAATAATTTAATAACAA
Found at i:52461520 original size:22 final size:22
Alignment explanation
Indices: 52461454--52461521 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
52461444 TTTTGAATAA
52461454 TTTAATAACAATTTTATAATTT
1 TTTAATAACAATTTTATAATTT
*** **
52461476 TTT-A-AATTTTTTTA-AATAA
1 TTTAATAACAATTTTATAATTT
52461495 TTTAATAACAATTTTATAATTT
1 TTTAATAACAATTTTATAATTT
52461517 TTTAA
1 TTTAA
52461522 ATTTAAGTGG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
21 8 0.24
22 11 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATAACAATTTTATAATTT
Found at i:52472864 original size:22 final size:22
Alignment explanation
Indices: 52472838--52472886 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52472828 ATATCCAAAC
52472838 AATAATAACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAGCAA
* ** *
52472860 CATAATAGTAAAATGGTAGCAA
1 AATAATAACAAAATAGTAGCAA
52472882 AATAA
1 AATAA
52472887 GGAGAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:52472894 original size:22 final size:22
Alignment explanation
Indices: 52472847--52472896 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
52472837 CAATAATAAC
* *
52472847 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
52472869 AAAATGGTAGCAAAATAAGGAG-
1 AAAATAGTAGCAAAATAA-GAGT
52472891 AAAATA
1 AAAATA
52472897 ACATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:52493576 original size:1 final size:1
Alignment explanation
Indices: 52493570--52493596 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
52493560 TCTTCTTACA
52493570 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
52493597 AGGCAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:52506154 original size:28 final size:29
Alignment explanation
Indices: 52506097--52506154 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
52506087 AATAGTTTAT
*
52506097 ATTTTTATCATTTTAAAGAATTAAATTAA
1 ATTTTTATCATTTTAAAGAATTAAAGTAA
*
52506126 ATTTTTATCA-TTT-AAGAAGTTTAAGTAA
1 ATTTTTATCATTTTAAAGAA-TTAAAGTAA
52506154 A
1 A
52506155 AATATTGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 11 0.42
29 10 0.38
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (29 bp):
ATTTTTATCATTTTAAAGAATTAAAGTAA
Found at i:52507266 original size:17 final size:17
Alignment explanation
Indices: 52507244--52507278 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52507234 AAAAACATGA
52507244 ATTAAATTTACAACTTT
1 ATTAAATTTACAACTTT
52507261 ATTAAATTTACAACTTT
1 ATTAAATTTACAACTTT
52507278 A
1 A
52507279 CACATAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAAATTTACAACTTT
Found at i:52510444 original size:21 final size:21
Alignment explanation
Indices: 52510418--52510461 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
52510408 AGACGAGCAA
* *
52510418 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
52510439 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
52510460 TA
1 TA
52510462 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:52516701 original size:18 final size:18
Alignment explanation
Indices: 52516680--52516714 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52516670 TTTAAATTCA
52516680 GTTAATTCAGTTAATTTG
1 GTTAATTCAGTTAATTTG
* *
52516698 GTTATTTCGGTTAATTT
1 GTTAATTCAGTTAATTT
52516715 TTTTTACATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (18 bp):
GTTAATTCAGTTAATTTG
Found at i:52519561 original size:21 final size:22
Alignment explanation
Indices: 52519519--52519562 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52519509 CCAATTAAAG
**
52519519 TAATGTATTAATATTTTTTTAA
1 TAATGTATTAATATTTCATTAA
52519541 TAATGTATTAA-ATTTCATTAA
1 TAATGTATTAATATTTCATTAA
52519562 T
1 T
52519563 GGGTTGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
TAATGTATTAATATTTCATTAA
Found at i:52524391 original size:18 final size:19
Alignment explanation
Indices: 52524357--52524394 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
52524347 CGTTGAAGAA
52524357 ATGAGACAAGAGCTGAATT
1 ATGAGACAAGAGCTGAATT
52524376 ATGAGA-AAGA-CATGAATT
1 ATGAGACAAGAGC-TGAATT
52524394 A
1 A
52524395 CAATCTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 11 0.61
19 6 0.33
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.21
Consensus pattern (19 bp):
ATGAGACAAGAGCTGAATT
Found at i:52527516 original size:17 final size:17
Alignment explanation
Indices: 52527494--52527534 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
52527484 TGTCATTTCC
52527494 TGTTAACTTACTAAAAG
1 TGTTAACTTACTAAAAG
52527511 TGTTAACTTACTAAAAG
1 TGTTAACTTACTAAAAG
*
52527528 TGATAAC
1 TGTTAAC
52527535 AGTAAGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (17 bp):
TGTTAACTTACTAAAAG
Found at i:52536654 original size:21 final size:21
Alignment explanation
Indices: 52536610--52536661 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
52536600 ATTATTTTTA
* *
52536610 ATAATTTTTAAATAATTTCTT
1 ATAAATTTTAAATAAATTCTT
52536631 ATAAATTTTAAATAAAATTC-T
1 ATAAATTTTAAAT-AAATTCTT
*
52536652 ATAACTTTTA
1 ATAAATTTTA
52536662 GAATTATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAATTTTAAATAAATTCTT
Found at i:52539597 original size:12 final size:12
Alignment explanation
Indices: 52539581--52539646 Score: 80
Period size: 12 Copynumber: 5.5 Consensus size: 12
52539571 TTGATAATCA
52539581 TTTCTTTTCATC
1 TTTCTTTTCATC
* *
52539593 CTTCTTTTCGTC
1 TTTCTTTTCATC
52539605 TTTCTTTTCATC
1 TTTCTTTTCATC
* *
52539617 TTTCTTGTCGTC
1 TTTCTTTTCATC
52539629 TTT-TTTGTCATC
1 TTTCTTT-TCATC
52539641 TTTCTT
1 TTTCTT
52539647 CTCTTCTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.05, C:0.24, G:0.06, T:0.65
Consensus pattern (12 bp):
TTTCTTTTCATC
Found at i:52539608 original size:24 final size:24
Alignment explanation
Indices: 52539581--52539655 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
52539571 TTGATAATCA
* *
52539581 TTTCTTTTCATCCTTCTTTTCGTC
1 TTTCTTTTCATCTTTCTTCTCGTC
*
52539605 TTTCTTTTCATCTTTCTTGTCGTC
1 TTTCTTTTCATCTTTCTTCTCGTC
*
52539629 TTT-TTTGTCATCTTTCTTCTCTTC
1 TTTCTTT-TCATCTTTCTTCTCGTC
52539653 TTT
1 TTT
52539656 AGCAGGTCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.04, C:0.25, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTCTTTTCATCTTTCTTCTCGTC
Found at i:52543189 original size:400 final size:400
Alignment explanation
Indices: 52542449--52543248 Score: 1555
Period size: 400 Copynumber: 2.0 Consensus size: 400
52542439 ATACAAGAGT
*
52542449 AAGTAGATGTAGGAATTATCTTGAAGCTTGCGCAAATACACACAATGATCGTATTTGCTTCTTTT
1 AAGTAGATGTAGGAACTATCTTGAAGCTTGCGCAAATACACACAATGATCGTATTTGCTTCTTTT
*
52542514 GTACTTCTGGTCCTTCATGAACCTGTCAAATCGTTTGTACCATTGTCTCGGAGATTGTTTCAATC
66 GTACTTCTGGTCCTTCATGAACCTGTCAAATCATTTGTACCATTGTCTCGGAGATTGTTTCAATC
52542579 CGTACAACGATTTGCTAAGTTTACACACCCAATTTTCTTTACCAGCAACCCTGTATCCATCTGGC
131 CGTACAACGATTTGCTAAGTTTACACACCCAATTTTCTTTACCAGCAACCCTGTATCCATCTGGC
52542644 TGAGTCATATAGATTTCCTCCTTCAAATCACCGTGTAGAAACGCGGTCTTCACATCAAGTTGAGC
196 TGAGTCATATAGATTTCCTCCTTCAAATCACCGTGTAGAAACGCGGTCTTCACATCAAGTTGAGC
52542709 TAGCTCCAAATTCAACTGCGCTACCAAGGCCAACAAAATTCTAATGGAGGAATGTTTAACAACTG
261 TAGCTCCAAATTCAACTGCGCTACCAAGGCCAACAAAATTCTAATGGAGGAATGTTTAACAACTG
52542774 GAGAAAATACCTCATTATAGTCAATTCCCTCATTCTGAGCGTAGCCTTTAGCCACTAACCTTGCC
326 GAGAAAATACCTCATTATAGTCAATTCCCTCATTCTGAGCGTAGCCTTTAGCCACTAACCTTGCC
52542839 TTGTAACGAA
391 TTGTAACGAA
*
52542849 AAGTAGATGTAGGAACTATCTTGAAGCTTGCGCAAATACACACAATGATCGTATTTGTTTCTTTT
1 AAGTAGATGTAGGAACTATCTTGAAGCTTGCGCAAATACACACAATGATCGTATTTGCTTCTTTT
*
52542914 GTACTTCTGGTCCTTCATGAACTTGTCAAATCATTTGTACCATTGTCTCGGAGATTGTTTCAATC
66 GTACTTCTGGTCCTTCATGAACCTGTCAAATCATTTGTACCATTGTCTCGGAGATTGTTTCAATC
52542979 CGTACAACGATTTGCTAAGTTTACACACCCAATTTTCTTTACCAGCAACCCTGTATCCATCTGGC
131 CGTACAACGATTTGCTAAGTTTACACACCCAATTTTCTTTACCAGCAACCCTGTATCCATCTGGC
52543044 TGAGTCATATAGATTTCCTCCTTCAAATCACCGTGTAGAAACGCGGTCTTCACATCAAGTTGAGC
196 TGAGTCATATAGATTTCCTCCTTCAAATCACCGTGTAGAAACGCGGTCTTCACATCAAGTTGAGC
52543109 TAGCTCCAAATTCAACTGCGCTACCAAGGCCAACAAAATTCTAATGGAGGAATGTTTAACAACTG
261 TAGCTCCAAATTCAACTGCGCTACCAAGGCCAACAAAATTCTAATGGAGGAATGTTTAACAACTG
*
52543174 GAGAAAATACCTCATTATAGTCAATTCCCTCCTTCTGAGCGTAGCCTTTAGCCACTAACCTTGCC
326 GAGAAAATACCTCATTATAGTCAATTCCCTCATTCTGAGCGTAGCCTTTAGCCACTAACCTTGCC
52543239 TTGTAACGAA
391 TTGTAACGAA
52543249 CATCTTCTTT
Statistics
Matches: 395, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
400 395 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (400 bp):
AAGTAGATGTAGGAACTATCTTGAAGCTTGCGCAAATACACACAATGATCGTATTTGCTTCTTTT
GTACTTCTGGTCCTTCATGAACCTGTCAAATCATTTGTACCATTGTCTCGGAGATTGTTTCAATC
CGTACAACGATTTGCTAAGTTTACACACCCAATTTTCTTTACCAGCAACCCTGTATCCATCTGGC
TGAGTCATATAGATTTCCTCCTTCAAATCACCGTGTAGAAACGCGGTCTTCACATCAAGTTGAGC
TAGCTCCAAATTCAACTGCGCTACCAAGGCCAACAAAATTCTAATGGAGGAATGTTTAACAACTG
GAGAAAATACCTCATTATAGTCAATTCCCTCATTCTGAGCGTAGCCTTTAGCCACTAACCTTGCC
TTGTAACGAA
Found at i:52547208 original size:14 final size:12
Alignment explanation
Indices: 52547191--52547233 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
52547181 AATACTTCTC
52547191 AAAATCACTTTTT
1 AAAA-CACTTTTT
52547204 CAAAACACTTTTT
1 -AAAACACTTTTT
*
52547217 AAAAGCAATTTTT
1 AAAA-CACTTTTT
52547230 AAAA
1 AAAA
52547234 ACAATGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 19 0.70
14 4 0.15
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (12 bp):
AAAACACTTTTT
Found at i:52547213 original size:26 final size:26
Alignment explanation
Indices: 52547173--52547236 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
52547163 TAAACTAAAC
* * *
52547173 TTTTCAAAAATACTTCTCAAAATCACT
1 TTTTC-AAAACACTTCTCAAAAGCAAT
* *
52547200 TTTTCAAAACACTTTTTAAAAGCAAT
1 TTTTCAAAACACTTCTCAAAAGCAAT
*
52547226 TTTTAAAAACA
1 TTTTCAAAACA
52547237 ATGCTAAACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (26 bp):
TTTTCAAAACACTTCTCAAAAGCAAT
Found at i:52558251 original size:37 final size:38
Alignment explanation
Indices: 52558176--52558251 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
52558166 AATTATTTTC
*
52558176 GTATTTTATTTTGAAGGTGAGATATTTTTATAAATAAT
1 GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
52558214 GTATTTTATTTTGAAGGTGAGACA-TTTTATAAATAAT
1 GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
52558251 G
1 G
52558252 AAACTTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 14 0.38
38 23 0.62
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (38 bp):
GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
Found at i:52558350 original size:24 final size:24
Alignment explanation
Indices: 52558314--52558360 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
52558304 TTGATTATTT
*
52558314 TTTTCACCCTTCTTTTCGTCTTTC
1 TTTTCACCCTTCTTCTCGTCTTTC
* * *
52558338 TTTTCATCTTTCTTCTCTTCTTT
1 TTTTCACCCTTCTTCTCGTCTTT
52558361 AGCAGGTCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTCACCCTTCTTCTCGTCTTTC
Found at i:52558747 original size:28 final size:28
Alignment explanation
Indices: 52558707--52558763 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
52558697 TTCTGATGAG
52558707 AAAACTAATTCTAAAGGGAAACCAAAGT
1 AAAACTAATTCTAAAGGGAAACCAAAGT
52558735 AAAACTAATTCTAAAGGGAAACCAAAGT
1 AAAACTAATTCTAAAGGGAAACCAAAGT
52558763 A
1 A
52558764 CTGAAGCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (28 bp):
AAAACTAATTCTAAAGGGAAACCAAAGT
Found at i:52559207 original size:21 final size:21
Alignment explanation
Indices: 52559181--52559234 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
52559171 ACAGCGGTGA
*
52559181 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
*
52559202 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
52559223 CGGTGAGATTAG
1 CGGTGAGATTAG
52559235 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:52561367 original size:16 final size:16
Alignment explanation
Indices: 52561345--52561376 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
52561335 CAATTGATTT
52561345 TAAAAAAATAAA-AAG
1 TAAAAAAATAAACAAG
52561360 TAAAAAAATAAACAAG
1 TAAAAAAATAAACAAG
52561376 T
1 T
52561377 TGCATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (16 bp):
TAAAAAAATAAACAAG
Found at i:52562664 original size:36 final size:35
Alignment explanation
Indices: 52562597--52562664 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
52562587 ATTTAACCCA
*
52562597 AAGGCTATACTCCATATTTGAGCATATTAAAATAC
1 AAGGCTATACTCCATATTTGAGCATAGTAAAATAC
* *
52562632 AAGGACTATATTCCATATTTGAGCATGGTAAAA
1 AAGG-CTATACTCCATATTTGAGCATAGTAAAA
52562665 AGACCAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (35 bp):
AAGGCTATACTCCATATTTGAGCATAGTAAAATAC
Found at i:52571210 original size:21 final size:20
Alignment explanation
Indices: 52571184--52571238 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
52571174 AATAGCGGTG
*
52571184 GCGGTGAGATTAATTACTGTA
1 GCGGTGAGATTAA-TAATGTA
52571205 GCGGTGAGATTAGATAATGTA
1 GCGGTGAGATTA-ATAATGTA
*
52571226 GTGGTGAGATTAA
1 GCGGTGAGATTAA
52571239 AAATAATGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (20 bp):
GCGGTGAGATTAATAATGTA
Found at i:52579380 original size:20 final size:19
Alignment explanation
Indices: 52579336--52579385 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
52579326 ATATGTATTT
* *
52579336 TTAAATAATATTGATACAT
1 TTAAAAAATATTGATACAA
*
52579355 TTAAAACATATTGATAACAA
1 TTAAAAAATATTGAT-ACAA
52579375 TTAAAAAATAT
1 TTAAAAAATAT
52579386 ATTATTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAAAATATTGATACAA
Found at i:52580366 original size:12 final size:12
Alignment explanation
Indices: 52580351--52580378 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
52580341 CTATTTACAG
52580351 AAAATAAAATAA
1 AAAATAAAATAA
52580363 AAAATAAAATAA
1 AAAATAAAATAA
52580375 AAAA
1 AAAA
52580379 ACTGATGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:52580713 original size:28 final size:28
Alignment explanation
Indices: 52580681--52580744 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
52580671 GGTCATGGGC
* *
52580681 ATTTGGGCTAGTTGGGTTTGGGTAGTGG
1 ATTTGGGCTAATTAGGTTTGGGTAGTGG
52580709 ATTTGGGCTAATTAGGTTTGGGTAGTGG
1 ATTTGGGCTAATTAGGTTTGGGTAGTGG
52580737 ATTTGGGC
1 ATTTGGGC
52580745 CATTAGGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.14, C:0.05, G:0.42, T:0.39
Consensus pattern (28 bp):
ATTTGGGCTAATTAGGTTTGGGTAGTGG
Found at i:52598731 original size:17 final size:18
Alignment explanation
Indices: 52598709--52598756 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
52598699 ATAACATCTT
52598709 TTTTAGAT-AATCTAAAA
1 TTTTAGATAAATCTAAAA
*
52598726 TTTTAGGTGAAATCTAAAA
1 TTTTAGAT-AAATCTAAAA
* *
52598745 TATAAGATAAAT
1 TTTTAGATAAAT
52598757 TTACCAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (18 bp):
TTTTAGATAAATCTAAAA
Found at i:52602611 original size:587 final size:587
Alignment explanation
Indices: 52601499--52602623 Score: 2097
Period size: 587 Copynumber: 1.9 Consensus size: 587
52601489 CTAGAAGAGG
52601499 TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
1 TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
*
52601564 CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTTGAAAAAAAAATCATCAATGATGAGAT
66 CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTAGAAAAAAAAATCATCAATGATGAGAT
52601629 AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
131 AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
52601694 TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
196 TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
*
52601759 ATAGCCAGGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
261 ATAGCCAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
*
52601824 ACTTATGTATGCGACACAGTACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
326 ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
*
52601889 TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTTTCACTTTTAACTTT
391 TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
*
52601954 TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTGTGTAATA
456 TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTATGTAATA
52602019 AAACTTATTTGAGAAGGAAAATAACAGTAATAAAAGAACAGTAACTTATTTGAGAAATAGTGTGT
521 AAACTTATTTGAGAAGGAAAATAACAGTAATAAAAGAACAGTAACTTATTTGAGAAATAGTGTGT
52602084 AA
586 AA
* * *
52602086 TAAAAGAACAGTAAAAGATTTTGACCTTGATTATTATGTGTTTATTGTTGAGGAAGATCTTAAAA
1 TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
* *
52602151 CTTTATATAAGGTTTTATCTTATCCTAATTTTGACCTTAGAAAAAAAAATCATCAATGATGAGAT
66 CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTAGAAAAAAAAATCATCAATGATGAGAT
*
52602216 AAATTTCTTGACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
131 AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
* *
52602281 TCATTGTAGCCTTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAATACTCATT
196 TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
*
52602346 ATAGCTAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
261 ATAGCCAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
52602411 ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
326 ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
*
52602476 TAATTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
391 TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
* *
52602541 TGCAAGTTCGTAAGGTGTTTAATGGATGATTGGATTTATTGTATCTTGAGAGATAGTATGTAATA
456 TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTATGTAATA
52602606 AAACTTATTTGAGAAGGA
521 AAACTTATTTGAGAAGGA
52602624 GCTATCATCT
Statistics
Matches: 521, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
587 521 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (587 bp):
TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTAGAAAAAAAAATCATCAATGATGAGAT
AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
ATAGCCAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTATGTAATA
AAACTTATTTGAGAAGGAAAATAACAGTAATAAAAGAACAGTAACTTATTTGAGAAATAGTGTGT
AA
Found at i:52603722 original size:32 final size:32
Alignment explanation
Indices: 52603680--52603742 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
52603670 ACTTTTTTAT
*
52603680 TTTTTAAGAGATTTAAAAGCAATTTTGCAATA
1 TTTTAAAGAGATTTAAAAGCAATTTTGCAATA
52603712 TTTTAAAGAGATTTAAAAGCAATTTTGCAAT
1 TTTTAAAGAGATTTAAAAGCAATTTTGCAAT
52603743 TTGAGGGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (32 bp):
TTTTAAAGAGATTTAAAAGCAATTTTGCAATA
Found at i:52606705 original size:19 final size:22
Alignment explanation
Indices: 52606662--52606705 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
52606652 GCTTCAAATT
*
52606662 TTTGCATTTTTTATATTTAATA
1 TTTGCATTTTCTATATTTAATA
52606684 TTTG-ATTTTCTAT-TTTAA-A
1 TTTGCATTTTCTATATTTAATA
52606703 TTT
1 TTT
52606706 CAAGTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
21 8 0.38
22 4 0.19
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTGCATTTTCTATATTTAATA
Found at i:52606834 original size:24 final size:25
Alignment explanation
Indices: 52606788--52606835 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
52606778 TTTAAAATAA
*
52606788 AAATAAACATTAAATTATTATAAAT
1 AAATAAACATTAAATTATAATAAAT
52606813 AAATAAA-A-TAATATTATAATAAA
1 AAATAAACATTAA-ATTATAATAAA
52606836 CTATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 11 0.52
25 7 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATAAACATTAAATTATAATAAAT
Found at i:52619622 original size:95 final size:95
Alignment explanation
Indices: 52619459--52619648 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
52619449 TGAAACTAAA
52619459 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
1 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
52619524 TTCTTTGAGAACTGTCATTGACAAGTAGAT
66 TTCTTTGAGAACTGTCATTGACAAGTAGAT
52619554 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
1 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
52619619 TTCTTTGAGAACTGTCATTGACAAGTAGAT
66 TTCTTTGAGAACTGTCATTGACAAGTAGAT
52619649 CACGAACTTG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (95 bp):
TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
TTCTTTGAGAACTGTCATTGACAAGTAGAT
Found at i:52622791 original size:16 final size:16
Alignment explanation
Indices: 52622769--52622837 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
52622759 TTTGGTTCGC
52622769 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
52622785 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
52622801 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
52622818 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
52622834 TGTA
1 TGTA
52622838 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:52622815 original size:33 final size:32
Alignment explanation
Indices: 52622769--52622837 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
52622759 TTTGGTTCGC
52622769 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
52622801 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
52622834 TGTA
1 TGTA
52622838 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:52622902 original size:44 final size:45
Alignment explanation
Indices: 52622818--52622908 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
52622808 GGATTAGAGG
* * *
52622818 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
52622863 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
52622907 TG
1 TG
52622909 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:52623094 original size:18 final size:17
Alignment explanation
Indices: 52623073--52623107 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
52623063 TTATTATTAA
*
52623073 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
52623091 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
52623108 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:52623335 original size:18 final size:17
Alignment explanation
Indices: 52623314--52623348 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
52623304 TTATTATTAA
*
52623314 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
52623332 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
52623349 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:52623452 original size:120 final size:120
Alignment explanation
Indices: 52623056--52623716 Score: 1049
Period size: 120 Copynumber: 5.5 Consensus size: 120
52623046 ATCATATTTA
* *
52623056 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
52623121 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
* * * *
52623176 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA-T-AATT
*
52623240 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
* *
52623297 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
52623362 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
52623417 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * * *
52623481 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
* *
52623537 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * * *
52623601 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
52623657 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
52623717 NNNNNNNNNN
Statistics
Matches: 519, Mismatches: 17, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
119 4 0.01
120 399 0.77
121 115 0.22
122 1 0.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:52640213 original size:20 final size:20
Alignment explanation
Indices: 52640188--52640237 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
52640178 TGGCTTAAAA
52640188 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
52640208 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
52640225 GTGGTAGTGGATT
1 TTGGTAGTGGATT
52640238 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:52644852 original size:20 final size:20
Alignment explanation
Indices: 52644827--52644876 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
52644817 TGGCTTAAAA
52644827 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
52644847 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
52644864 GTGGTAGTGGATT
1 TTGGTAGTGGATT
52644877 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:52651621 original size:40 final size:40
Alignment explanation
Indices: 52651567--52651741 Score: 176
Period size: 40 Copynumber: 4.3 Consensus size: 40
52651557 AAATATATTT
* *
52651567 ATTTTTTT-AATTTTAAAATATTTTTTACATACTTTTTTA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTA
* *
52651606 ATTTTTTTAAATTTTAAAATATTTTTAAAATAAATTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAAT-ACTTTTTTA
** **
52651647 ATTTTTTT-AATTTTAAAATACTTTTTTTAATTTTTATTTTA
1 ATTTTTTTAAATTTTAAAATA-TTTTTAAAATACTT-TTTTA
**
52651688 A-TTTTAAAATATTTTAAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAA-ATTTT-AAAATATTTTTAAAATAC-TTTTTTA
*
52651730 ATTTTTTAAAAT
1 ATTTTTTTAAAT
52651742 AAAAATGGGC
Statistics
Matches: 111, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
39 8 0.07
40 38 0.34
41 29 0.26
42 21 0.19
43 15 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:52651641 original size:23 final size:23
Alignment explanation
Indices: 52651613--52651656 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
52651603 TTAATTTTTT
52651613 TAAATTTTAAAATATTTTTAAAA
1 TAAATTTTAAAATATTTTTAAAA
* *
52651636 TAAATTTTTAAATTTTTTTAA
1 TAAATTTTAAAATATTTTTAA
52651657 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAAATTTTAAAATATTTTTAAAA
Found at i:52651725 original size:12 final size:11
Alignment explanation
Indices: 52651689--52651742 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
52651679 TTTATTTTAA
52651689 TTTTAAAATAT
1 TTTTAAAATAT
*
52651700 TTTAAAAATAT
1 TTTTAAAATAT
52651711 TTTTAAAATACT
1 TTTTAAAATA-T
**
52651723 TTTTTTAAT-T
1 TTTTAAAATAT
52651733 TTTTAAAATA
1 TTTTAAAATA
52651743 AAAATGGGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 8 0.23
11 19 0.54
12 8 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:52658136 original size:22 final size:22
Alignment explanation
Indices: 52658111--52658154 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
52658101 TTAGACCAAC
* *
52658111 AAAAATTAAAAATTTATAAAAT
1 AAAAATAAAAAATATATAAAAT
*
52658133 AAAAATAAAAAATATATTAAAT
1 AAAAATAAAAAATATATAAAAT
52658155 TGGTTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAATAAAAAATATATAAAAT
Found at i:52659706 original size:24 final size:24
Alignment explanation
Indices: 52659656--52659716 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
52659646 TAATATTGTG
*
52659656 AAAAATAAATTTATATTATTTCATA
1 AAAAATATATTTATATTATTT-ATA
*
52659681 AAAAATATATTTATTTTAATTT-TA
1 AAAAATATATTTATATT-ATTTATA
*
52659705 AACAATAT-TTTA
1 AAAAATATATTTA
52659717 ACATACCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 9 0.28
25 15 0.47
26 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAAATATATTTATATTATTTATA
Found at i:52660129 original size:27 final size:27
Alignment explanation
Indices: 52660063--52660143 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
52660053 TAACTATTAT
* * * *
52660063 TTATGAAGTTTATAAAATTTTGAAAATG
1 TTATAAAGTTTTTAAAAATTTG-AAACG
52660091 TTATATAA-TTTTTAAAAATTTGAAACG
1 TTATA-AAGTTTTTAAAAATTTGAAACG
*
52660118 TTATAAAG-TTTTAATAAATTTTAAAC
1 TTATAAAGTTTTTAA-AAATTTGAAAC
52660144 AAATTATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.18
27 19 0.42
28 16 0.36
29 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (27 bp):
TTATAAAGTTTTTAAAAATTTGAAACG
Found at i:52660168 original size:29 final size:30
Alignment explanation
Indices: 52660118--52660184 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
52660108 ATTTGAAACG
*
52660118 TTATAAAGTTTTAATAAATTTTAAACA-A-A
1 TTATAAAGTTCTAATAAATTTTAAA-ATATA
***
52660147 TTATAAAGTTCTAATTTTTTTTAAAATATA
1 TTATAAAGTTCTAATAAATTTTAAAATATA
52660177 TTATAAAG
1 TTATAAAG
52660185 CTTTTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 22 0.69
30 9 0.28
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (30 bp):
TTATAAAGTTCTAATAAATTTTAAAATATA
Found at i:52674211 original size:37 final size:35
Alignment explanation
Indices: 52674169--52674245 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
52674159 GAATCAATGG
52674169 CTAAGAAAAGACCAGTTAGTAACATATTGAGCATTAA
1 CTAAG-AAA-ACCAGTTAGTAACATATTGAGCATTAA
*
52674206 CTAAG-AAACCAGTTAGTAATATATTGAGCATTAA
1 CTAAGAAAACCAGTTAGTAACATATTGAGCATTAA
52674240 CTAAGA
1 CTAAGA
52674246 GACAAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
34 31 0.82
35 2 0.05
37 5 0.13
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (35 bp):
CTAAGAAAACCAGTTAGTAACATATTGAGCATTAA
Found at i:52674220 original size:34 final size:34
Alignment explanation
Indices: 52674179--52674245 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
52674169 CTAAGAAAAG
52674179 ACCAGTTAGTAACATATTGAGCATTAACTAAGAA
1 ACCAGTTAGTAACATATTGAGCATTAACTAAGAA
*
52674213 ACCAGTTAGTAATATATTGAGCATTAACTAAGA
1 ACCAGTTAGTAACATATTGAGCATTAACTAAGA
52674246 GACAAGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (34 bp):
ACCAGTTAGTAACATATTGAGCATTAACTAAGAA
Found at i:52679037 original size:12 final size:13
Alignment explanation
Indices: 52679016--52679044 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
52679006 CCAAAACAGG
52679016 AAAAGTAAAAAGA
1 AAAAGTAAAAAGA
52679029 AAAAG-AAAAAGA
1 AAAAGTAAAAAGA
52679041 AAAA
1 AAAA
52679045 AAGCCAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAGTAAAAAGA
Found at i:52689122 original size:14 final size:15
Alignment explanation
Indices: 52689098--52689139 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
52689088 AAATAAATTA
52689098 AAAAATCAAAAAAAG-
1 AAAAAT-AAAAAAAGC
*
52689113 AAAAAT-AAAATAGC
1 AAAAATAAAAAAAGC
52689127 AAAAATAAAAAAA
1 AAAAATAAAAAAA
52689140 ACTCTCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.26
14 6 0.26
15 11 0.48
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.10
Consensus pattern (15 bp):
AAAAATAAAAAAAGC
Found at i:52707227 original size:16 final size:16
Alignment explanation
Indices: 52707206--52707239 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52707196 CTAAATTATG
*
52707206 TAAAAAATTTAAAATA
1 TAAAAAATATAAAATA
*
52707222 TAAAAAATATGAAATA
1 TAAAAAATATAAAATA
52707238 TA
1 TA
52707240 TGAATTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAAAATATAAAATA
Found at i:52707947 original size:29 final size:27
Alignment explanation
Indices: 52707891--52707969 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 27
52707881 TTAAAATGAC
* * *
52707891 TATAAAATTTTTCAATAAATAAAAAAAT
1 TATAAAATTATTAAAT-ATTAAAAAAAT
52707919 GTATAAAATTATTAAATATTAAAATAAAT
1 -TATAAAATTATTAAATATTAAAA-AAAT
*
52707948 TA-AATATTATTTTAAATATTAA
1 TATAAAATTA--TTAAATATTAA
52707970 TATAGGCGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.14
28 8 0.19
29 29 0.67
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
TATAAAATTATTAAATATTAAAAAAAT
Found at i:52708236 original size:31 final size:34
Alignment explanation
Indices: 52708188--52708249 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 34
52708178 AGGTGACGTC
52708188 ATTATACTTTAACCC-TTTAAAAT-ATGAAAAAT
1 ATTATACTTTAACCCTTTTAAAATGATGAAAAAT
*
52708220 ATTATA-TTTAATCCTTTTAAAATGATGAAA
1 ATTATACTTTAACCCTTTTAAAATGATGAAA
52708250 TTATAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 14 0.52
33 6 0.22
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (34 bp):
ATTATACTTTAACCCTTTTAAAATGATGAAAAAT
Found at i:52711428 original size:72 final size:72
Alignment explanation
Indices: 52711303--52711473 Score: 258
Period size: 72 Copynumber: 2.4 Consensus size: 72
52711293 AAAATCATAT
* * *
52711303 ATAAACAACTATTGATAAAACTA-ATTTAATAAAAATAAGTAGAACATAAATTCAATATCTAAAG
1 ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
52711367 ACCAAAC
66 ACCAAAC
* *
52711374 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTA-ACAAAAATAAGTAGAACATAAATTCAATATCCAAA
52711438 AACCAAAC
65 AACCAAAC
*
52711446 ATAAATAACTATTGATAAAACTAG-TTTA
1 ATAAACAACTATTGATAAAACTAGATTTA
52711474 GCATTGTCAG
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
71 25 0.28
72 65 0.72
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:52716075 original size:72 final size:72
Alignment explanation
Indices: 52715950--52716120 Score: 258
Period size: 72 Copynumber: 2.4 Consensus size: 72
52715940 AAAATCATAT
* * *
52715950 ATAAACAACTATTGATAAAACTA-ATTTAATAAAAATAAGTAGAACATAAATTCAATATCTAAAG
1 ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
52716014 ACCAAAC
66 ACCAAAC
* *
52716021 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTA-ACAAAAATAAGTAGAACATAAATTCAATATCCAAA
52716085 AACCAAAC
65 AACCAAAC
*
52716093 ATAAATAACTATTGATAAAACTAG-TTTA
1 ATAAACAACTATTGATAAAACTAGATTTA
52716121 GCATTGTCAG
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
71 25 0.28
72 65 0.72
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:52716566 original size:18 final size:18
Alignment explanation
Indices: 52716545--52716592 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
52716535 TCCATCAATT
*
52716545 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
52716563 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
*
52716581 TGAACATTATTT
1 TGAACATCATTT
52716593 CTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:52718519 original size:23 final size:24
Alignment explanation
Indices: 52718471--52718523 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
52718461 TGGAGAAGAA
*
52718471 GAACAAAGAATAAGCACCAGCAGAG
1 GAACAAAGAACAAGCA-CAGCAGAG
*
52718496 GAACAAAGAACCAGCA-AGCAGAG
1 GAACAAAGAACAAGCACAGCAGAG
52718519 GAACA
1 GAACA
52718524 CCAGCACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 12 0.46
25 14 0.54
ACGTcount: A:0.53, C:0.21, G:0.25, T:0.02
Consensus pattern (24 bp):
GAACAAAGAACAAGCACAGCAGAG
Found at i:52718612 original size:14 final size:14
Alignment explanation
Indices: 52718593--52718622 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
52718583 GAACACCAGC
52718593 ACCAGCAGAGAAGA
1 ACCAGCAGAGAAGA
52718607 ACCAGCAGAGAAGA
1 ACCAGCAGAGAAGA
52718621 AC
1 AC
52718623 AAATGTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.23, G:0.27, T:0.00
Consensus pattern (14 bp):
ACCAGCAGAGAAGA
Found at i:52720601 original size:17 final size:18
Alignment explanation
Indices: 52720579--52720613 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52720569 GTTAGGGGTA
52720579 AAAAATCAT-GAATAAAT
1 AAAAATCATGGAATAAAT
*
52720596 AAAAATGATGGAATAAAT
1 AAAAATCATGGAATAAAT
52720614 TGAGAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAAATCATGGAATAAAT
Found at i:52722615 original size:21 final size:22
Alignment explanation
Indices: 52722562--52722617 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
52722552 TTGTCTCATA
52722562 ATTTTTATTTTTCAAAAAACATT
1 ATTTTTATTTTT-AAAAAACATT
** *
52722585 ATAATT-TTTTTAAAATACATT
1 ATTTTTATTTTTAAAAAACATT
52722606 -TTTTTATTTTTA
1 ATTTTTATTTTTA
52722618 TTTAAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.11
21 15 0.56
22 5 0.19
23 4 0.15
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTTATTTTTAAAAAACATT
Found at i:52731572 original size:41 final size:41
Alignment explanation
Indices: 52731497--52731577 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
52731487 AACTGGTTTG
* * *
52731497 TATTATTTATTTAATTGTGATTATTATCGCAAGTGCTACTA
1 TATTATTCATTTAATGGTGATTATTATCACAAGTGCTACTA
* *
52731538 TATTATTCATTTAATGGTGATTATTATTATAAGTGCTACT
1 TATTATTCATTTAATGGTGATTATTATCACAAGTGCTACT
52731578 CTAAATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (41 bp):
TATTATTCATTTAATGGTGATTATTATCACAAGTGCTACTA
Found at i:52734683 original size:3 final size:3
Alignment explanation
Indices: 52734675--52734700 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
52734665 AGGGAAAACA
52734675 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
52734701 AAGGCCACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:52736467 original size:17 final size:17
Alignment explanation
Indices: 52736445--52736479 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52736435 TTATCAAACA
*
52736445 ATTTAATTATACTTAAT
1 ATTTAATTATACGTAAT
*
52736462 ATTTAATTTTACGTAAT
1 ATTTAATTATACGTAAT
52736479 A
1 A
52736480 CACCAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTAATTATACGTAAT
Found at i:52741946 original size:4 final size:4
Alignment explanation
Indices: 52741937--52741986 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
52741927 ATAAAAAAGA
* * *
52741937 TATG TATG TA-- TATG TATG CATG CATG CATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
52741983 TATG
1 TATG
52741987 ATTGAATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
4 40 0.95
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (4 bp):
TATG
Found at i:52754523 original size:18 final size:18
Alignment explanation
Indices: 52754483--52754525 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
52754473 GTTTAAAGTG
52754483 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
52754501 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
52754519 TAATTAA
1 TAATTAA
52754526 AAACCCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:52757747 original size:13 final size:13
Alignment explanation
Indices: 52757729--52757760 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52757719 TTAGAATGAA
52757729 ATGAAATGAAATT
1 ATGAAATGAAATT
52757742 ATGAAAT-AAATT
1 ATGAAATGAAATT
52757754 -TGAAATG
1 ATGAAATG
52757761 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.33
12 5 0.28
13 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGAAATGAAATT
Found at i:52763051 original size:21 final size:21
Alignment explanation
Indices: 52763025--52763064 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
52763015 AGTTGGTCGT
52763025 ATGAAATTAAAGAAAAGAATA
1 ATGAAATTAAAGAAAAGAATA
52763046 ATGAAATTAAAGAAAAGAA
1 ATGAAATTAAAGAAAAGAA
52763065 AAGAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (21 bp):
ATGAAATTAAAGAAAAGAATA
Found at i:52763191 original size:13 final size:13
Alignment explanation
Indices: 52763173--52763205 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
52763163 ATTCATGAAT
52763173 CAAAATCACCATG
1 CAAAATCACCATG
52763186 CAAAATCACCATG
1 CAAAATCACCATG
52763199 CAAAATC
1 CAAAATC
52763206 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (13 bp):
CAAAATCACCATG
Found at i:52764990 original size:84 final size:84
Alignment explanation
Indices: 52764753--52764991 Score: 379
Period size: 84 Copynumber: 2.8 Consensus size: 84
52764743 CGTTTTGCGG
* * * ** *
52764753 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGTCACTACAAGATTTTATTTTAGTAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
* *
52764818 AAACAGCGCCGTATTGGCA
66 AAACGGCGCCGAATTGGCA
*
52764837 AACATTAATTCACTCTTGCGGCGTTTTATTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
52764902 AAACGGCGCCGAATTGGCA
66 AAACGGCGCCGAATTGGCA
* *
52764921 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAATATTTTATTCCACTAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
52764986 AAACGG
66 AAACGG
52764992 TGCCACTTTG
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 143 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (84 bp):
AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
AAACGGCGCCGAATTGGCA
Found at i:52765013 original size:84 final size:83
Alignment explanation
Indices: 52764753--52765032 Score: 355
Period size: 84 Copynumber: 3.3 Consensus size: 83
52764743 CGTTTTGCGG
* * ** *
52764753 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGTCACTACAAGATTTTATTTTAGTAGAG
1 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
* *
52764818 AAACAGCGCCGTATTGGCA
66 AAACGGCGCCAT-TTGGCA
* *
52764837 AACATTAATTCACTCTTGCGGCGTTTTATTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
1 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
*
52764902 AAACGGCGCCGAATTGGCA
66 AAACGGCGCC-ATTTGGCA
* * *
52764921 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAATATTTTATTCCACTAGAG
1 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
* *
52764986 AAACGGTGCCACTTTGCCA
66 AAACGGCGCCA-TTTGGCA
** *
52765005 AATTTTAA-TAAATCCTTGCGGCGTTTTC
1 AACATTAATTCAAT-CTTGCGGCGTTTTC
52765033 ACTAAAAACA
Statistics
Matches: 173, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
83 4 0.02
84 169 0.98
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (83 bp):
AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
AAACGGCGCCATTTGGCA
Found at i:52765422 original size:16 final size:16
Alignment explanation
Indices: 52765401--52765442 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
52765391 ATCAATTTCA
52765401 AATTAATAATCTTTAC
1 AATTAATAATCTTTAC
52765417 AATTAATAATCTTTAC
1 AATTAATAATCTTTAC
52765433 AATTATATAA
1 AATTA-ATAA
52765443 GAACTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAATAATCTTTAC
Found at i:52766261 original size:6 final size:6
Alignment explanation
Indices: 52766236--52766272 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
52766226 CCAAACACAC
52766236 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
52766273 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:52766303 original size:45 final size:45
Alignment explanation
Indices: 52766247--52766401 Score: 247
Period size: 45 Copynumber: 3.4 Consensus size: 45
52766237 AGTATACAGT
* *
52766247 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * * *
52766292 AACCTGTAACAGTAACGGTAACTGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
52766337 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
52766382 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
52766402 GTCGGCACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:52766344 original size:39 final size:39
Alignment explanation
Indices: 52766256--52766428 Score: 143
Period size: 45 Copynumber: 4.2 Consensus size: 39
52766246 TAATCAGTAA
* *
52766256 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT
* *
52766299 AACAGTAACGGTAACTGTATTCGACACACAAAGTGCCGAGTCAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCC--G--AGT
*
52766344 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * *
52766385 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-T
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGT
52766423 CAGTAA
1 CAGTAA
52766429 GCCGGCAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
38 14 0.12
39 26 0.23
41 2 0.02
43 1 0.01
45 68 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:52766689 original size:39 final size:40
Alignment explanation
Indices: 52766605--52766690 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
52766595 TTCTTTACTT
* * * *
52766605 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
52766645 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
52766684 CAGTATT
1 CAGTATT
52766691 CCATAATTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 19 0.47
40 21 0.52
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:52767738 original size:101 final size:99
Alignment explanation
Indices: 52767591--52767902 Score: 414
Period size: 100 Copynumber: 3.1 Consensus size: 99
52767581 TTAACCGGGC
* *
52767591 CCCTAACCCTTAACCCTTAACCCATAACCCCTAAAACTTATTTAATATATAAATTAAAAAATACT
1 CCCTAACCC--AACCCTTAACCC-TAA-CCCTAAACCTTATTTAATATATAAATTAAAAAACACT
*
52767656 AATTAATTTAAACCCTAAACTATAACCCGACCCCAAAT
62 AATTAATCTAAACCCTAAACTATAACCCGACCCCAAAT
* *
52767694 CCCTAATCCCAACCTTTAACCCTAACATCTAAACCTTATTTAATATATAAATTAAAAAACACTAA
1 CCCTAA-CCCAACCCTTAACCCTAAC-CCTAAACCTTATTTAATATATAAATTAAAAAACACTAA
52767759 TTAATCTAAACCCTAAA-TCATAA-CCGACCCCAAAT
64 TTAATCTAAACCCTAAACT-ATAACCCGACCCCAAAT
* *
52767794 CCCCAACCCGACCCTTAACCCCTAACCCATAAACCTTATTTAATATATAAATT-AAAAACACTAA
1 CCCTAACCCAACCCTTAA-CCCTAACCC-TAAACCTTATTTAATATATAAATTAAAAAACACTAA
* * * * *
52767858 TTAATCTAAATCCTAAACCATAACCCAATCCCGAAT
64 TTAATCTAAACCCTAAACTATAACCCGACCCCAAAT
52767894 CCCTAACCC
1 CCCTAACCC
52767903 CTAAACCTTA
Statistics
Matches: 187, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
99 42 0.22
100 67 0.36
101 58 0.31
102 11 0.06
103 6 0.03
104 3 0.02
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (99 bp):
CCCTAACCCAACCCTTAACCCTAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
AATCTAAACCCTAAACTATAACCCGACCCCAAAT
Found at i:52767834 original size:100 final size:99
Alignment explanation
Indices: 52767602--52767882 Score: 397
Period size: 101 Copynumber: 2.8 Consensus size: 99
52767592 CCTAACCCTT
* * * *
52767602 AACCCTTAACCCATAACCCCTAAAACTTATTTAATATATAAATTAAAAAATACTAATTAATTTAA
1 AACCCTTAACCCCTAA-CCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
*
52767667 ACCCTAAACTATAACCCGACCCCAAATCCCTAATCCC
65 ACCCTAAAC-ATAA-CCGACCCCAAATCCCCAATCCC
* *
52767704 AACCTTTAA-CCCTAACATCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
1 AACCCTTAACCCCTAAC-CCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
52767768 ACCCTAAATCATAACCGACCCCAAATCCCCAA-CCC
65 ACCCTAAA-CATAACCGACCCCAAATCCCCAATCCC
*
52767803 GACCCTTAACCCCTAACCCATAAACCTTATTTAATATATAAATT-AAAAACACTAATTAATCTAA
1 AACCCTTAACCCCTAACCC-TAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
*
52767867 ATCCTAAACCATAACC
65 ACCCTAAA-CATAACC
52767883 CAATCCCGAA
Statistics
Matches: 163, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
99 45 0.28
100 49 0.30
101 60 0.37
102 9 0.06
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.26
Consensus pattern (99 bp):
AACCCTTAACCCCTAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAA
CCCTAAACATAACCGACCCCAAATCCCCAATCCC
Found at i:52767984 original size:81 final size:81
Alignment explanation
Indices: 52767813--52767987 Score: 296
Period size: 81 Copynumber: 2.2 Consensus size: 81
52767803 GACCCTTAAC
*
52767813 CCCTAACCCATAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
1 CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
* *
52767878 TAACCCAATCCCGAAT
66 TAACCCAACCCCAAAT
*
52767894 CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACGCTAATTAATCTAAATCCTAAACCA
1 CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
**
52767959 TAACCTGACCCCAAAT
66 TAACCCAACCCCAAAT
52767975 CCCTAACCCCTAA
1 CCCTAACCCCTAA
52767988 CATTTAACCG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (81 bp):
CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
TAACCCAACCCCAAAT
Found at i:52778431 original size:14 final size:14
Alignment explanation
Indices: 52778408--52778449 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
52778398 ACAGAAAAGT
*
52778408 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
52778422 AAATCATTTTACGG
1 AAAACATTTTACAG
52778436 AAAACATTTTACAG
1 AAAACATTTTACAG
52778450 CCAATCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:52778433 original size:34 final size:35
Alignment explanation
Indices: 52778373--52778439 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
52778363 CAAACACCAG
* *
52778373 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
52778408 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
52778440 CATTTTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:52782906 original size:8 final size:8
Alignment explanation
Indices: 52782893--52782917 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52782883 AAAATGTATA
52782893 AAAATTTT
1 AAAATTTT
52782901 AAAATTTT
1 AAAATTTT
52782909 AAAATTTT
1 AAAATTTT
52782917 A
1 A
52782918 GTCGACTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:52784852 original size:19 final size:18
Alignment explanation
Indices: 52784814--52784852 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
52784804 TAATAAAGTG
* *
52784814 TGTATAATAAAATTAAAA
1 TGTATAAAAAAATCAAAA
52784832 TGTATAAAAAAGATCAAAA
1 TGTATAAAAAA-ATCAAAA
52784851 TG
1 TG
52784853 AAGCTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (18 bp):
TGTATAAAAAAATCAAAA
Found at i:52786749 original size:60 final size:60
Alignment explanation
Indices: 52786665--52786783 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
52786655 ATACTAAACT
* * *
52786665 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTAC
52786725 AAACAC-ACAAATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAC-AATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTA
52786784 TAAAAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTAC
Found at i:52799699 original size:6 final size:6
Alignment explanation
Indices: 52799688--52799726 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
52799678 TATACATGTA
52799688 TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGG
1 TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGG
52799727 AGTGGAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.82, T:0.18
Consensus pattern (6 bp):
TGGGGG
Found at i:52804571 original size:16 final size:17
Alignment explanation
Indices: 52804536--52804571 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
52804526 AAACAAATAA
52804536 TTATTTACTTCAGAATT
1 TTATTTACTTCAGAATT
52804553 TTATTTACTTCAG-ATT
1 TTATTTACTTCAGAATT
52804569 TTA
1 TTA
52804572 CAAGCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (17 bp):
TTATTTACTTCAGAATT
Found at i:52813795 original size:4 final size:4
Alignment explanation
Indices: 52813786--52813810 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
52813776 ACAAAGTAGG
52813786 GGTA GGTA GGTA GGTA GGTA GGTA G
1 GGTA GGTA GGTA GGTA GGTA GGTA G
52813811 CAGAAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (4 bp):
GGTA
Found at i:52817351 original size:16 final size:16
Alignment explanation
Indices: 52817332--52817362 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52817322 CAAAGAGTAC
*
52817332 AACAGAAGAAGAATAT
1 AACAGAAGAAAAATAT
52817348 AACAGAAGAAAAATA
1 AACAGAAGAAAAATA
52817363 ATAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.16, T:0.10
Consensus pattern (16 bp):
AACAGAAGAAAAATAT
Found at i:52819070 original size:32 final size:31
Alignment explanation
Indices: 52818989--52819070 Score: 75
Period size: 31 Copynumber: 2.8 Consensus size: 31
52818979 TTGGCCTCAA
*
52818989 TGTTCAATTTTGTACCT-AAA---CATTTTT
1 TGTTCAATTTGGTACCTGAAACTTCATTTTT
* * * *
52819016 TATCCAATTAGGTACTTG-AACTTCATTTTTT
1 TGTTCAATTTGGTACCTGAAACTTCA-TTTTT
52819047 TGTTCAATTTGGTACCTGAAACTT
1 TGTTCAATTTGGTACCTGAAACTT
52819071 GGATATATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
27 14 0.35
30 2 0.05
31 19 0.47
32 5 0.12
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.48
Consensus pattern (31 bp):
TGTTCAATTTGGTACCTGAAACTTCATTTTT
Found at i:52823566 original size:3 final size:3
Alignment explanation
Indices: 52823558--52823583 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
52823548 CCAGCACTTG
52823558 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
52823584 ACAACAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:52832640 original size:23 final size:22
Alignment explanation
Indices: 52832614--52832657 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
52832604 AATTGACTAA
52832614 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
52832637 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
52832658 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:52832688 original size:38 final size:38
Alignment explanation
Indices: 52832645--52832726 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
52832635 AGGTGTGGAA
52832645 TTGAATTGAATAT-CGACTTAGAAA-TGAAAAAGTG-AATT
1 TTGAATTGAAT-TGCGA-TT-GAAAGTGAAAAAGTGAAATT
*
52832683 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAAATT
1 TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAAATT
*
52832721 ATGAAT
1 TTGAAT
52832727 ACATTTAGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 4 0.10
37 13 0.33
38 22 0.56
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (38 bp):
TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAAATT
Found at i:52835944 original size:43 final size:43
Alignment explanation
Indices: 52835870--52835998 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 43
52835860 ATAGGATTTC
52835870 CGATATGT-GTTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* *
52835913 CGGCT-TGTGGTTACGTGTGAGACC-CTGTCTGGGACAG-TGGCAT
1 C-GATATGTGGTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
52835956 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
52835999 TGTACGAGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
42 4 0.05
43 61 0.84
44 8 0.11
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (43 bp):
CGATATGTGGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:52836983 original size:94 final size:93
Alignment explanation
Indices: 52836822--52837072 Score: 448
Period size: 93 Copynumber: 2.7 Consensus size: 93
52836812 TTGATTTGGT
52836822 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
52836887 TGCTTAAATGCTGCCCAATTTGTTACATA
66 TGCTTAAATGCTG-CCAATTTGTTACATA
* * * *
52836916 TATGCTGTCCAATTTCGATGCTTAAGTGCTGCCTAATTTGTTACATATATGCTGTCTAATTTTGA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
52836981 TGCTTAAATGCTGCCAATTTGTTACATA
66 TGCTTAAATGCTGCCAATTTGTTACATA
*
52837009 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAGTTTTG
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTG
52837073 GTGTAAAAAT
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
93 74 0.50
94 74 0.50
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (93 bp):
TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
TGCTTAAATGCTGCCAATTTGTTACATA
Found at i:52837087 original size:47 final size:47
Alignment explanation
Indices: 52836822--52837072 Score: 450
Period size: 47 Copynumber: 5.4 Consensus size: 47
52836812 TTGATTTGGT
52836822 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
52836869 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
* * *
52836916 TATGCTGTCCAATTTCGATGCTTAAGTGCTGCCTAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
*
52836963 TATGCTGTCTAATTTTGATGCTTAAATGCTG-CCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
52837009 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
*
52837056 TATGCTGTCCAGTTTTG
1 TATGCTGTCCAATTTTG
52837073 GTGTAAAAAT
Statistics
Matches: 194, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 44 0.23
47 150 0.77
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (47 bp):
TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
Done.