Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 249 of 352
Found at i:82410711 original size:5 final size:5
Alignment explanation
Indices: 82410701--82410742 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
82410691 CTGAGGCTAA
*
82410701 AATTT AATTT -ATTT AATTT -ATTT AATTT AA-TT CATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT
82410743 TATTCTGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 11 0.34
5 21 0.66
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
AATTT
Found at i:82410720 original size:14 final size:14
Alignment explanation
Indices: 82410701--82410742 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
82410691 CTGAGGCTAA
82410701 AATTTAATTT-ATTT
1 AATTT-ATTTAATTT
82410715 AATTTATTTAATTT
1 AATTTATTTAATTT
*
82410729 AATTCATTTAATTT
1 AATTTATTTAATTT
82410743 TATTCTGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 4 0.15
14 22 0.85
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
AATTTATTTAATTT
Found at i:82410741 original size:9 final size:9
Alignment explanation
Indices: 82410702--82410729 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
82410692 TGAGGCTAAA
82410702 ATTTAATTT
1 ATTTAATTT
82410711 ATTTAATTT
1 ATTTAATTT
82410720 ATTTAATTT
1 ATTTAATTT
82410729 A
1 A
82410730 ATTCATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTAATTT
Found at i:82410747 original size:14 final size:14
Alignment explanation
Indices: 82410707--82410747 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
82410697 CTAAAATTTA
*
82410707 ATTT-ATTTAATTT
1 ATTTAATTTAATTC
82410720 ATTTAATTTAATTC
1 ATTTAATTTAATTC
*
82410734 ATTTAATTTTATTC
1 ATTTAATTTAATTC
82410748 TGCAATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTAATTTAATTC
Found at i:82417198 original size:19 final size:19
Alignment explanation
Indices: 82417174--82417211 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
82417164 GTAGATGAGT
82417174 TAGAAGTTACCTTAATATC
1 TAGAAGTTACCTTAATATC
82417193 TAGAAGTTACCTTAATATC
1 TAGAAGTTACCTTAATATC
82417212 ATCTATGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TAGAAGTTACCTTAATATC
Found at i:82421678 original size:59 final size:59
Alignment explanation
Indices: 82421615--82421736 Score: 208
Period size: 59 Copynumber: 2.1 Consensus size: 59
82421605 TCATCATTGG
*
82421615 AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAAGA
1 AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACA
* * *
82421674 AAATTGAATGAATTATTAAGGTTAATTTTGGAAATTAGTGATTAAATTTATAATAAACA
1 AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACA
82421733 AAAT
1 AAAT
82421737 AAAATAATCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.48, C:0.01, G:0.14, T:0.37
Consensus pattern (59 bp):
AAATTGAATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACA
Found at i:82421750 original size:59 final size:59
Alignment explanation
Indices: 82421621--82421750 Score: 190
Period size: 59 Copynumber: 2.2 Consensus size: 59
82421611 TTGGAAATTG
* * **
82421621 AATGAAATATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAAGAAAATTG
1 AATGAATTATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACAAAATAA
* *
82421680 AATGAATTATTAAGGTTAATTTTGGAAATTAGTGATTAAATTTATAATAAACAAAATAA
1 AATGAATTATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACAAAATAA
82421739 AAT-AATCTATTA
1 AATGAAT-TATTA
82421751 TCATCATCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 3 0.05
59 61 0.95
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (59 bp):
AATGAATTATTAAGGTTAATTTTAGAAATTAGTGATTAAAGTTATAATAAACAAAATAA
Found at i:82421785 original size:14 final size:15
Alignment explanation
Indices: 82421766--82421798 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
82421756 ATCATCCACC
*
82421766 AAAAATAATAAGAA-
1 AAAAATAAGAAGAAG
82421780 AAAAATAAGAAGAAG
1 AAAAATAAGAAGAAG
82421795 AAAA
1 AAAA
82421799 CCTTGCCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAAATAAGAAGAAG
Found at i:82425672 original size:27 final size:27
Alignment explanation
Indices: 82425635--82425687 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
82425625 ATCTTGCATT
*
82425635 TATATATATATTAGTTTGTATTTCGTA
1 TATATATATATTAATTTGTATTTCGTA
82425662 TATATATATATTAATTTGTATTTCGT
1 TATATATATATTAATTTGTATTTCGT
82425688 GTGATGCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (27 bp):
TATATATATATTAATTTGTATTTCGTA
Found at i:82426207 original size:73 final size:73
Alignment explanation
Indices: 82426119--82426263 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
82426109 TTGAATGATA
*
82426119 AACTAAAACATTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAATTT
1 AACTAAAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAATTT
82426184 TATTAATT
66 TATTAATT
82426192 AACTAAAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAATTT
1 AACTAAAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAATTT
82426257 TATTAAT
66 TATTAAT
82426264 CAAATAATAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (73 bp):
AACTAAAACACTTTAATTAATAATTAAGGTCAATATCTAAAAGTTAAAAATATAAAAACAAATTT
TATTAATT
Found at i:82438584 original size:14 final size:14
Alignment explanation
Indices: 82438565--82438638 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
82438555 TATTCATAAT
82438565 GGTTCGCATACAAG
1 GGTTCGCATACAAG
* *
82438579 GGTTCGCCTATAGAG
1 GGTTCGCATACA-AG
*
82438594 GGTTCGCATACATG
1 GGTTCGCATACAAG
* * *
82438608 GGTTCTCCTATAAG
1 GGTTCGCATACAAG
*
82438622 AGTTCGCATACAGAG
1 GGTTCGCATACA-AG
82438637 GG
1 GG
82438639 GTTATACACA
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
14 29 0.66
15 15 0.34
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (14 bp):
GGTTCGCATACAAG
Found at i:82438597 original size:29 final size:28
Alignment explanation
Indices: 82438560--82438638 Score: 104
Period size: 29 Copynumber: 2.8 Consensus size: 28
82438550 GTTCTTATTC
*
82438560 ATAATGGTTCGCATACAAGGGTTCGCCT
1 ATAAGGGTTCGCATACAAGGGTTCGCCT
* *
82438588 ATAGAGGGTTCGCATACATGGGTTCTCCT
1 ATA-AGGGTTCGCATACAAGGGTTCGCCT
*
82438617 ATAAGAGTTCGCATACAGAGGG
1 ATAAGGGTTCGCATACA-AGGG
82438639 GTTATACACA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 16 0.36
29 28 0.64
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (28 bp):
ATAAGGGTTCGCATACAAGGGTTCGCCT
Found at i:82444562 original size:32 final size:32
Alignment explanation
Indices: 82444521--82444582 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
82444511 AGTAAATTTT
82444521 TCATTATTTTTTCGTAATTTCTTTATGAATTC
1 TCATTATTTTTTCGTAATTTCTTTATGAATTC
82444553 TCATTATTTTTTCGTAATTTCTTTATGAAT
1 TCATTATTTTTTCGTAATTTCTTTATGAAT
82444583 AATTATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (32 bp):
TCATTATTTTTTCGTAATTTCTTTATGAATTC
Found at i:82445556 original size:41 final size:40
Alignment explanation
Indices: 82445474--82445643 Score: 241
Period size: 41 Copynumber: 4.2 Consensus size: 40
82445464 GCAATAGCGG
* *
82445474 CGCTAAAAACAGAGCAATAGCGGTGTTTTTGGTAAAACGC
1 CGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGC
* *
82445514 CGCTAAAAACAGAGCAATAGCGGCGTTTTTTGATAAAACGC
1 CGCTAAAAACAGAGCAATAGCGGCG-CTTTTGGTAAAACGC
* * *
82445555 CGCTAAAACCAAAGCATTAGCGGCGCTTTTGGTAAAACGC
1 CGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGC
* *
82445595 CGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGC
1 CGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGTAAAACGC
82445636 CGCTAAAA
1 CGCTAAAA
82445644 GTCATATAAT
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 45 0.38
41 73 0.62
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (40 bp):
CGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGC
Found at i:82445576 original size:81 final size:81
Alignment explanation
Indices: 82445474--82445643 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 81
82445464 GCAATAGCGG
* * *
82445474 CGCTAAAAACAGAGCAATAGCGGTGTTTTTGGTAAAACGCCGCTAAAAA-CAGAGCAATAGCGGC
1 CGCTAAAAACAAAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAATAGCGGC
* *
82445538 GTTTTTTGATAAAACGC
66 G-CTTTTGACAAAACGC
* * *
82445555 CGCTAAAACCAAAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGC
1 CGCTAAAAACAAAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAATAGCGGC
*
82445620 GCTTTTGGCAAAACGC
66 GCTTTTGACAAAACGC
82445636 CGCTAAAA
1 CGCTAAAA
82445644 GTCATATAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 64 0.81
82 15 0.19
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (81 bp):
CGCTAAAAACAAAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAATAGCGGC
GCTTTTGACAAAACGC
Found at i:82445708 original size:47 final size:48
Alignment explanation
Indices: 82445648--82445779 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 48
82445638 CTAAAAGTCA
* *
82445648 TATAATCCCTAAAACCCTAAACCCCAAAAAAATA-A-TAAACACTAATC
1 TATAACCCCTAAAACCCTAAACCCCAAAAAAA-ACACTAAACACTAAAC
* * *
82445695 TATACCCCCTAAAACACTAAACCCCTAAATCCTAAAAACACCTAAATACTAAAC
1 TATAACCCCTAAAACCCTAAACCCC-AAA----AAAAACA-CTAAACACTAAAC
*
82445749 TATAACCCCTAAAACCCTAAACTCCAAAAAA
1 TATAACCCCTAAAACCCTAAACCCCAAAAAA
82445780 CATCATATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
47 22 0.32
48 3 0.04
49 3 0.04
51 1 0.01
52 5 0.07
53 3 0.04
54 32 0.46
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (48 bp):
TATAACCCCTAAAACCCTAAACCCCAAAAAAAACACTAAACACTAAAC
Found at i:82445733 original size:17 final size:17
Alignment explanation
Indices: 82445713--82445747 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
82445703 CTAAAACACT
* *
82445713 AAACCCCTAAATCCTAA
1 AAACACCTAAATACTAA
82445730 AAACACCTAAATACTAA
1 AAACACCTAAATACTAA
82445747 A
1 A
82445748 CTATAACCCC
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:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACACCTAAATACTAA
Found at i:82446821 original size:14 final size:14
Alignment explanation
Indices: 82446802--82446831 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
82446792 CTAATTTTCC
*
82446802 CCCCAAATCGAAAT
1 CCCCAAATCAAAAT
82446816 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
82446830 CC
1 CC
82446832 TTCCACCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:82446918 original size:14 final size:14
Alignment explanation
Indices: 82446899--82446942 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
82446889 ATTTCTTGCT
82446899 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
*
82446913 TCTCTAAATCTCCT
1 TCTCTAAATCTCCA
82446927 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
82446941 TC
1 TC
82446943 CTTTTGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.25, C:0.36, G:0.00, T:0.39
Consensus pattern (14 bp):
TCTCTAAATCTCCA
Found at i:82447238 original size:2 final size:2
Alignment explanation
Indices: 82447231--82447261 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82447221 GGTCCTGTTA
82447231 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
82447262 AATATCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:82449094 original size:21 final size:22
Alignment explanation
Indices: 82449068--82449114 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
82449058 CTCTGCTCAA
*
82449068 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
82449089 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
82449111 ACTC
1 ACTC
82449115 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:82454856 original size:43 final size:43
Alignment explanation
Indices: 82454808--82454905 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
82454798 GTTATATTCC
** * *
82454808 TTAGCGGCATTTGTGGGAAAAGCGTCGTTAAAGGTCATGATTT
1 TTAGCGGCATTTACGGGAAAAGCGCCGCTAAAGGTCATGATTT
* * *
82454851 TTAGCGGCGTTTACGGGGAAAGCGCCGCTAAAGGTCATGGTTT
1 TTAGCGGCATTTACGGGAAAAGCGCCGCTAAAGGTCATGATTT
82454894 TTAGCGGCATTT
1 TTAGCGGCATTT
82454906 TTTTAAATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (43 bp):
TTAGCGGCATTTACGGGAAAAGCGCCGCTAAAGGTCATGATTT
Found at i:82457937 original size:86 final size:85
Alignment explanation
Indices: 82457815--82458006 Score: 246
Period size: 86 Copynumber: 2.2 Consensus size: 85
82457805 AATAAAAATA
* * *
82457815 AAAATTGAATAAAATCTGT-TTTGAGATTTATTCCCGCCGTTCACCAGATTTTATTCCATTTTTT
1 AAAATTAAATAAAAT-T-TATTTCAGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTT
* **
82457879 ATTTTG-TTTCTAAATGAGAATT
64 ATGTTGTTTTC-AAAAAAGAATT
*
82457901 AAAATTAAATAAAATTTATTTCAGAATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTTTA
1 AAAATTAAATAAAATTTATTTCAG-ATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTA
*
82457966 TGTTGTTTTCAAAAAATAATT
65 TGTTGTTTTCAAAAAAGAATT
*
82457987 -AAATTAAATAAAATCTATTT
1 AAAATTAAATAAAATTTATTT
82458007 ACGTTCAACA
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
84 1 0.01
85 25 0.27
86 64 0.68
87 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (85 bp):
AAAATTAAATAAAATTTATTTCAGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTAT
GTTGTTTTCAAAAAAGAATT
Found at i:82458171 original size:66 final size:66
Alignment explanation
Indices: 82458049--82458183 Score: 189
Period size: 66 Copynumber: 2.0 Consensus size: 66
82458039 TGTTTCTAAA
* * * *
82458049 TGAGAATTAAATTGAATAATCTGTTTCGGGATTTATTCCCACCATATAATAGATTTTATTTCATT
1 TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTCCCACCATATAACAAATTTTATTCCATT
82458114 T
66 T
* ** * *
82458115 TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTTCTGCCGTTTAACAAATTTTATTCCATT
1 TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTCCCACCATATAACAAATTTTATTCCATT
82458180 T
66 T
82458181 TGA
1 TGA
82458184 TTTTGTTTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (66 bp):
TGAGAATTAAATTGAATAATCTATTTCGGGATTTATTCCCACCATATAACAAATTTTATTCCATT
T
Found at i:82458243 original size:82 final size:77
Alignment explanation
Indices: 82458136--82458308 Score: 193
Period size: 77 Copynumber: 2.2 Consensus size: 77
82458126 TTGAATAATC
* * * * *
82458136 TATTTCGGGATTTATTTCTGCCGTTTAACAAATTTTATTCCATTTTGATTTTGTTTCTAAACGAG
1 TATTTCGAGATTTATTCCTGCCGTTTAACAAA--TT-TT--ATTTTGATTTTGTGTCCAAACAAG
82458201 AATTAATCAAATAATTT
61 AATTAATCAAATAATTT
* * ** *
82458218 TGTTTCGAGATTTATTCCTGTCGTTTAACTGATTTTATTTTGATTTTGTGTCCAAACAAGATTTA
1 TATTTCGAGATTTATTCCTGCCGTTTAACAAATTTTATTTTGATTTTGTGTCCAAACAAGAATTA
*
82458283 ATTAAATAATTT
66 ATCAAATAATTT
*
82458295 TATTTCAAGATTTA
1 TATTTCGAGATTTA
82458309 ATCGTACTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
77 48 0.62
79 2 0.03
80 2 0.03
82 26 0.33
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.49
Consensus pattern (77 bp):
TATTTCGAGATTTATTCCTGCCGTTTAACAAATTTTATTTTGATTTTGTGTCCAAACAAGAATTA
ATCAAATAATTT
Found at i:82458335 original size:77 final size:77
Alignment explanation
Indices: 82458177--82458339 Score: 186
Period size: 77 Copynumber: 2.1 Consensus size: 77
82458167 ATTTTATTCC
* * * * * *
82458177 ATTTTGATTTTGTTTCTAAACGAGAATTAATCAAATAATTTTGTTTCGAGATTTATTCCTGTCGT
1 ATTTTGATTTTGTGTCCAAACAAGAATTAATCAAATAATTTTATTTCAAGATTTAATCCTGTCGT
* * * *
82458242 TTAACTGATTTT
66 TCAACAGAATTG
* *
82458254 ATTTTGATTTTGTGTCCAAACAAGATTTAATTAAATAATTTTATTTCAAGATTTAAT-C-GTACT
1 ATTTTGATTTTGTGTCCAAACAAGAATTAATCAAATAATTTTATTTCAAGATTTAATCCTGT-C-
82458317 GTTCAACAGAATTG
64 GTTCAACAGAATTG
82458331 ATTTTGATT
1 ATTTTGATT
82458340 ATGTTTCAGA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
75 2 0.03
76 2 0.03
77 68 0.94
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (77 bp):
ATTTTGATTTTGTGTCCAAACAAGAATTAATCAAATAATTTTATTTCAAGATTTAATCCTGTCGT
TCAACAGAATTG
Found at i:82458432 original size:13 final size:13
Alignment explanation
Indices: 82458414--82458444 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
82458404 TTTTCTATTT
82458414 ATTGTGGCCTTAA
1 ATTGTGGCCTTAA
*
82458427 ATTGTGGCTTTAA
1 ATTGTGGCCTTAA
82458440 ATTGT
1 ATTGT
82458445 AGCTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.45
Consensus pattern (13 bp):
ATTGTGGCCTTAA
Found at i:82460727 original size:83 final size:83
Alignment explanation
Indices: 82460468--82460833 Score: 348
Period size: 84 Copynumber: 4.4 Consensus size: 83
82460458 ATAAAAATAA
* * * * * * *
82460468 AAATTGAATAAAATCTATTTCAAGATTTATTCTCGCCGCTCAACATATTTTATTCTATTTT-TTA
1 AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTCGTTCAACAGATTTTATTCCATTTTATT-
* *
82460532 TTTTTTCTAAACGAGAATT
65 TTGTTTCCAAACGAGAATT
* * ** * * * *
82460551 AAAATTAGATAAAATTTGTTTTGGGATTTATTC-CTATCATTCAACAGACTTTATTCTATTTTTT
1 -AAATTAAATAAAATCTGTTTCAGGATTTATTCTC-GTCGTTCAACAGATTTTATTCCA--TTTT
**
82460615 ATTTTGTTTCCAAATAAGAATT
62 ATTTTGTTTCCAAACGAGAATT
* * *
82460637 AAATTAAATAAAATCTGTTTCAGGATTTATTCTTGTCGTTTAACA-AATTTATTCCATTTTGATT
1 AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTCGTTCAACAGATTTTATTCCATTTT-ATT
*
82460701 TTGTTTCTAAACGAGAATT
65 TTGTTTCCAAACGAGAATT
* * *
82460720 AAATTAAATAAAATATGTTTCGGGATTTATTCTCG-CTGTTTAACAGATTTTATTCCATTTTAAT
1 AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTC-GTTCAACAGATTTTATTCCATTTT-AT
*
82460784 TTTGTTTCCAAATGAGAATT
64 TTTGTTTCCAAACGAGAATT
* * *
82460804 -AATTAAAT-AATTCTGCTTCAGAATTTATTC
1 AAATTAAATAAAATCTGTTTCAGGATTTATTC
82460834 CCACCATTTA
Statistics
Matches: 232, Mismatches: 42, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
82 22 0.09
83 68 0.29
84 85 0.37
85 36 0.16
86 19 0.08
87 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (83 bp):
AAATTAAATAAAATCTGTTTCAGGATTTATTCTCGTCGTTCAACAGATTTTATTCCATTTTATTT
TGTTTCCAAACGAGAATT
Found at i:82461067 original size:51 final size:51
Alignment explanation
Indices: 82461003--82461100 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
82460993 TTTTGGTCAA
*
82461003 GTTCAAGCCATGCCAAACTCCCCATTTTCATTTTAATTTTGGCCAAACTAG
1 GTTCAAGCCATGCCAAACTCCCCATTTCCATTTTAATTTTGGCCAAACTAG
* *
82461054 GTTCAAGTCATGCCAAACTCCCCCTTTCCATTTTAATTTTGGCCAAA
1 GTTCAAGCCATGCCAAACTCCCCATTTCCATTTTAATTTTGGCCAAA
82461101 TAACCCCTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (51 bp):
GTTCAAGCCATGCCAAACTCCCCATTTCCATTTTAATTTTGGCCAAACTAG
Found at i:82462055 original size:28 final size:28
Alignment explanation
Indices: 82461978--82462209 Score: 167
Period size: 28 Copynumber: 8.4 Consensus size: 28
82461968 ACTTTAAAAT
* * *
82461978 TTTTACAATTTTACCCCTATTTTTT-GA
1 TTTTACAATTTTGCTCATATTTTTTAGA
* * * * *
82462005 TTCTATAA-TTT-CCCCTATTTTTTGGA
1 TTTTACAATTTTGCTCATATTTTTTAGA
*
82462031 TTTTACAGTTTTGCTCATATTTTTTAGA
1 TTTTACAATTTTGCTCATATTTTTTAGA
* * *
82462059 TTTTACAATCTTG-TCCCTATTTTTTATA
1 TTTTACAATTTTGCT-CATATTTTTTAGA
* * *
82462087 TTTTACAATTTAGCCCCTATTTTTTAGA
1 TTTTACAATTTTGCTCATATTTTTTAGA
* * *
82462115 TTTTACAATATTTCCTC-TATTTTTAAAA
1 TTTTACAAT-TTTGCTCATATTTTTTAGA
*
82462143 TTTTACAATTTTGC-CTATATTTTATAGA
1 TTTTACAATTTTGCTC-ATATTTTTTAGA
* *
82462171 TTTTA-AAGTTGTGC-C-TTTGTTTTTAGA
1 TTTTACAA-TTTTGCTCATAT-TTTTTAGA
82462198 TTTTACAATTTT
1 TTTTACAATTTT
82462210 ACGCAAAATT
Statistics
Matches: 165, Mismatches: 29, Indels: 22
0.76 0.13 0.10
Matches are distributed among these distances:
25 12 0.07
26 13 0.08
27 31 0.19
28 105 0.64
29 4 0.02
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTACAATTTTGCTCATATTTTTTAGA
Found at i:82462090 original size:56 final size:55
Alignment explanation
Indices: 82461938--82462209 Score: 218
Period size: 56 Copynumber: 4.9 Consensus size: 55
82461928 GTGTGTCTCC
* * * * * *
82461938 TATTTTTCAGATTTTACAA-ATTTGTCCCCTA-CTTTAAAATTTTTACAATTTTACCCC
1 TATTTTTTAGATTTTACAATA-TTGT-CCCTATTTTTTAGA-TTTTACAATTTT-GCCA
* * * * *
82461995 TATTTTTT-GATTCTATAAT-TT-CCCCTATTTTTTGGATTTTACAGTTTTGCTCA
1 TATTTTTTAGATTTTACAATATTGTCCCTATTTTTTAGATTTTACAATTTTGC-CA
* * * *
82462048 TATTTTTTAGATTTTACAATCTTGTCCCTATTTTTTATATTTTACAATTTAGCCCC
1 TATTTTTTAGATTTTACAATATTGTCCCTATTTTTTAGATTTTACAATTTTG-CCA
* *
82462104 TATTTTTTAGATTTTACAATATT-TCCTCTATTTTTAAAATTTTACAATTTTGCCTA
1 TATTTTTTAGATTTTACAATATTGTCC-CTATTTTTTAGATTTTACAATTTTGCC-A
* * * *
82462160 TATTTTATAGATTTTA-AA-GTTGTGCCTTTGTTTTTAGATTTTACAATTTT
1 TATTTTTTAGATTTTACAATATTGTCCCTAT-TTTTTAGATTTTACAATTTT
82462210 ACGCAAAATT
Statistics
Matches: 174, Mismatches: 30, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 25 0.14
54 18 0.10
55 31 0.18
56 91 0.52
57 8 0.05
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.54
Consensus pattern (55 bp):
TATTTTTTAGATTTTACAATATTGTCCCTATTTTTTAGATTTTACAATTTTGCCA
Found at i:82462120 original size:84 final size:80
Alignment explanation
Indices: 82461936--82462168 Score: 231
Period size: 82 Copynumber: 2.8 Consensus size: 80
82461926 CCGTGTGTCT
* * *
82461936 CCTATTTTTCAGATTTTACAA-ATTTGTCCCCTA-CTTTAAAATTTTTACAATTTTACCCCTATT
1 CCTATTTTTTAGATTTTACAATA-TT-TCCTCTATTTTTAAAA-TTTTACAATTTT--CCCTATT
* *
82461999 TTTT-GATTCTATAATTTCC
61 TTTTATATTCTACAATTTCC
* * * * *
82462018 CCTATTTTTTGGATTTTACAGT-TTTGCTCATATTTTTTAGATTTTACAATCTTGTCCCTATTTT
1 CCTATTTTTTAGATTTTACAATATTTCCTC-TATTTTTAAAATTTTACAAT-TT-TCCCTATTTT
*
82462082 TTATATTTTACAATTTAGCC
63 TTATATTCTACAATTT--CC
* *
82462102 CCTATTTTTTAGATTTTACAATATTTCCTCTATTTTTAAAATTTTACAATTTTGCCTATATTTTA
1 CCTATTTTTTAGATTTTACAATATTTCCTCTATTTTTAAAATTTTACAATTTTCCCTATTTTTTA
82462167 TA
66 TA
82462169 GATTTTAAAG
Statistics
Matches: 124, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
80 3 0.02
81 24 0.19
82 48 0.39
83 3 0.02
84 40 0.32
85 6 0.05
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (80 bp):
CCTATTTTTTAGATTTTACAATATTTCCTCTATTTTTAAAATTTTACAATTTTCCCTATTTTTTA
TATTCTACAATTTCC
Found at i:82462569 original size:34 final size:34
Alignment explanation
Indices: 82462498--82462569 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
82462488 AGCATAATAC
*** *
82462498 TTGCTACTATATTGAACTGTTATAAGTATATTAA
1 TTGCTACTATACCAAACTGTTATAAGTATACTAA
*
82462532 TTGCTACTATACCAAACTGTTATAAGTATACTGA
1 TTGCTACTATACCAAACTGTTATAAGTATACTAA
82462566 TTGC
1 TTGC
82462570 CACCGTACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (34 bp):
TTGCTACTATACCAAACTGTTATAAGTATACTAA
Found at i:82462744 original size:45 final size:45
Alignment explanation
Indices: 82462689--82462826 Score: 145
Period size: 45 Copynumber: 3.0 Consensus size: 45
82462679 AACTTGTCTG
*
82462689 CACTGTTTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
1 CACTGATTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
* * * *
82462734 CACTGATTAGTGGTTTATCCACACCATATTAGCAACTTTTATTTA
1 CACTGATTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
* * * * *
82462779 TA-TCGAATTAGTGGTTTA-CCCTCTCCGTATTAGTAGCTTTTATCTA
1 CACT-G-ATTAGTGGTTTATCCATAT-CGTATTAGCAACTTTTATCTA
82462825 CA
1 CA
82462827 AATGTGTTGT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 44 0.59
46 30 0.40
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (45 bp):
CACTGATTAGTGGTTTATCCATATCGTATTAGCAACTTTTATCTA
Found at i:82469346 original size:22 final size:22
Alignment explanation
Indices: 82469307--82469348 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
82469297 ATTTTAAATA
*
82469307 GTGTGTTTATTGGGTCCTAATG
1 GTGTGTTTATTGGATCCTAATG
*
82469329 GTGTGTTTATTGTATCCTAA
1 GTGTGTTTATTGGATCCTAA
82469349 GAGTACCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.48
Consensus pattern (22 bp):
GTGTGTTTATTGGATCCTAATG
Found at i:82471364 original size:19 final size:19
Alignment explanation
Indices: 82471329--82471379 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
82471319 ATGAAAGAAA
*
82471329 ATGAGAGAAAAATAAAAGAGCT
1 ATGAGAGAAGAA-AAAA-AG-T
82471351 -TGAGAGAAGAAAAAAAGT
1 ATGAGAGAAGAAAAAAAGT
82471369 ATGAGAGAAGA
1 ATGAGAGAAGA
82471380 GAAATTGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 12 0.44
20 4 0.15
21 10 0.37
ACGTcount: A:0.59, C:0.02, G:0.27, T:0.12
Consensus pattern (19 bp):
ATGAGAGAAGAAAAAAAGT
Found at i:82473963 original size:22 final size:22
Alignment explanation
Indices: 82473930--82473972 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
82473920 AATTAACATA
* *
82473930 ATAAAACAATAC-TAAATAAAT
1 ATAAAAAAATACAAAAATAAAT
82473951 ATAAAAAAGATACAAAAATAAA
1 ATAAAAAA-ATACAAAAATAAA
82473973 CAAACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAAAATACAAAAATAAAT
Found at i:82474341 original size:20 final size:19
Alignment explanation
Indices: 82474281--82474353 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
82474271 TACATAATAA
*
82474281 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
82474301 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
82474320 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
82474340 ATAATATATAATAA
1 ATAATA-ATAATAA
82474354 TTTTTACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:82476000 original size:90 final size:90
Alignment explanation
Indices: 82475892--82476569 Score: 1014
Period size: 90 Copynumber: 7.5 Consensus size: 90
82475882 TGAAATCTTT
* * * * *
82475892 GATCTGCTCCCCGCCTAATACAGAGACGCTAAATCTATCATTTTCTATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
82475957 CACAAATGTCAGATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
* *
82475982 GATCTGCTCCCCGTCTAATACAAAGACACCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
82476047 CACGAATGTCAGATCTGCTATCTTT
66 CACGAATGTCAGATCTGCTATCCTC
* * * * * *
82476072 GATATGTTCCCCATCTATTACAGAGACGCCAAATCTGCCATCTTCGATCTACTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
82476137 TACGAATGTCAGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCCTC
* * *
82476162 GATCTGCTCCCCGTCTAATACAGGGATGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
82476227 CACGAATGTCAGATCTGCTATTCTC
66 CACGAATGTCAGATCTGCTATCCTC
* * * *
82476252 GATCTGCTCCCCATCTAATACAGAGACACCAAATCTGTCATCTTCGATCTGCTTCAATGTAAATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
82476317 CACGAATGTCAAATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
* * * * *
82476342 GATCTACTCTCTGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
82476407 CACGAATGTCAGATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
* *
82476432 GATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
82476497 CACGAATGTCAGATCTGCTATCCTC
66 CACGAATGTCAGATCTGCTATCCTC
* * * *
82476522 GATCTACTCTCTGTCTAATACAGAGACGCCAAATCTGTCATATTCGAT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGAT
82476570 TTGTTCCCCG
Statistics
Matches: 536, Mismatches: 52, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 536 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCCTC
Found at i:82476558 original size:45 final size:44
Alignment explanation
Indices: 82475969--82476615 Score: 332
Period size: 45 Copynumber: 14.4 Consensus size: 44
82475959 CAAATGTCAG
* * * * **
82475969 ATCTGCTATCCTCGATCTGCTCCCCGTCTAATACAAAGACACCAA
1 ATCTGCTATCTTCGATCTGCT-TCTGTCTAATACAGAGATGCCAA
* * * *
82476014 ATCTG-TCATCTTCGATCTGCTTC-GATGTAA-ACACACGAATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTTCTG-TCTAATACAGA-G-ATGCCAA
* * ** * *
82476059 ATCTGCTATCTTTGATATG-TTCCCCATCTATTACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTT--CTGTCTAATACAGAGATGCCAA
* * * * * *
82476104 ATCTGCCATCTTCGATCTACTTC-GATGTAA-ACATACGAATGTCAG
1 ATCTGCTATCTTCGATCTGCTTCTG-TCTAATACAGA-G-ATGCCAA
* * *
82476149 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGCT-TCTGTCTAATACAGAGATGCCAA
* * *
82476194 ATCTG-TCATCTTCGATCTGCTTCGATGT-AAATACACGA-ATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTTC--TGTCTAATACA-GAGATGCCAA
* ** **
82476239 ATCTGCTAT-TCTCGATCTGCTCCCCATCTAATACAGAGACACCAA
1 ATCTGCTATCT-TCGATCTGCT-TCTGTCTAATACAGAGATGCCAA
* *
82476284 ATCTG-TCATCTTCGATCTGCTTCAATGT-AAATACACGA-ATGTCAA
1 ATCTGCT-ATCTTCGATCTGCTTC--TGTCTAATACA-GAGATGCCAA
* *
82476329 ATCTGCTATCCTCGATCTACTCTCTGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCT-TCTGTCTAATACAGAGATGCCAA
* * *
82476374 ATCTG-TCATCTTCGATCTGCTTCGATGT-AAATACACGA-ATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTTC--TGTCTAATACA-GAGATGCCAA
* *
82476419 ATCTGCTATCCTCGATCTGCTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCT-TCTGTCTAATACAGAGATGCCAA
* * * *
82476464 ATCTG-TCATCTTCGATCTGCTTC-GATGTAA-ACACACGAATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTTCTG-TCTAATACAGA-G-ATGCCAA
* * *
82476509 ATCTGCTATCCTCGATCTACTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCT-TCTGTCTAATACAGAGATGCCAA
* * * *
82476554 ATCTG-TCATATTCGATTTG-TTCCCCGTC-AATACAGAGATGTCAA
1 ATCTGCT-ATCTTCGATCTGCTT--CTGTCTAATACAGAGATGCCAA
82476598 ATCTGCTATCATT-GATCT
1 ATCTGCTATC-TTCGATCT
82476616 ACATTGTCCC
Statistics
Matches: 454, Mismatches: 93, Indels: 111
0.69 0.14 0.17
Matches are distributed among these distances:
43 15 0.03
44 70 0.15
45 314 0.69
46 42 0.09
47 13 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTTCTGTCTAATACAGAGATGCCAA
Found at i:82488538 original size:27 final size:27
Alignment explanation
Indices: 82488481--82488547 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 27
82488471 AAAAATGGTT
* * * *
82488481 AATATAAAAATATATATTATATGATAT
1 AATATTAATATATATATTATATGAAAA
82488508 AATAACTTAATATATATATT-TAT-AAAA
1 AAT-A-TTAATATATATATTATATGAAAA
82488535 AATATTAATATAT
1 AATATTAATATAT
82488548 TAAATAGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 9 0.26
26 1 0.03
27 8 0.24
28 4 0.12
29 12 0.35
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
AATATTAATATATATATTATATGAAAA
Found at i:82488728 original size:20 final size:19
Alignment explanation
Indices: 82488668--82488740 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
82488658 TACATAATAA
*
82488668 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
82488688 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
82488707 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
82488727 ATAATATATAATAA
1 ATAATA-ATAATAA
82488741 TTTTTACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:82490673 original size:13 final size:13
Alignment explanation
Indices: 82490655--82490724 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
82490645 TCAGTTTGGC
82490655 AATGCTTTTGAGA
1 AATGCTTTTGAGA
82490668 AATGCTTTTGAGA
1 AATGCTTTTGAGA
* *
82490681 AATGCTGTGGA-A
1 AATGCTTTTGAGA
82490693 AAGTGCTTTTGAG-
1 AA-TGCTTTTGAGA
* *
82490706 AGTGCTTTTCAGA
1 AATGCTTTTGAGA
*
82490719 AGTGCT
1 AATGCT
82490725 GTGGAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
12 12 0.25
13 36 0.75
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (13 bp):
AATGCTTTTGAGA
Found at i:82490725 original size:38 final size:39
Alignment explanation
Indices: 82490657--82490732 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 39
82490647 AGTTTGGCAA
*
82490657 TGCTTTTGAGAAATGCTTTTGAGAAATGCTGTGGAAAAG
1 TGCTTTTGAGAAATGCTTTTCAGAAATGCTGTGGAAAAG
* *
82490696 TGCTTTTGAG-AGTGCTTTTCAGAAGTGCTGTGGAAAA
1 TGCTTTTGAGAAATGCTTTTCAGAAATGCTGTGGAAAA
82490733 TTTTAAGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 24 0.71
39 10 0.29
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (39 bp):
TGCTTTTGAGAAATGCTTTTCAGAAATGCTGTGGAAAAG
Found at i:82492504 original size:27 final size:27
Alignment explanation
Indices: 82492466--82492535 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
82492456 AAAAGGATTT
82492466 AATTTCTTTCAAATTCCCTCTCAATAC
1 AATTTCTTTCAAATTCCCTCTCAATAC
82492493 AATTTCTTTCAAATTCCCTCTCAATAC
1 AATTTCTTTCAAATTCCCTCTCAATAC
82492520 AATTTCTTTCAAATTC
1 AATTTCTTTCAAATTC
82492536 ATTAAAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTTCTTTCAAATTCCCTCTCAATAC
Found at i:82499217 original size:3 final size:3
Alignment explanation
Indices: 82499209--82499264 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
82499199 TCATATCCTT
*
82499209 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
82499257 TTC TTC TT
1 TTC TTC TT
82499265 TTTGCCATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:82507722 original size:21 final size:22
Alignment explanation
Indices: 82507683--82507725 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
82507673 GGTCTACTTA
82507683 TTTAAACAAGAATTCAAATATT
1 TTTAAACAAGAATTCAAATATT
* *
82507705 TTTAAA-AATAATTTAAATATT
1 TTTAAACAAGAATTCAAATATT
82507726 ATATGTAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTAAACAAGAATTCAAATATT
Found at i:82510669 original size:16 final size:15
Alignment explanation
Indices: 82510643--82510672 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
82510633 TGACTCTAGG
82510643 TTGATTAATTAAAAT
1 TTGATTAATTAAAAT
82510658 TTGATCTAATTAAAA
1 TTGAT-TAATTAAAA
82510673 CCCTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
TTGATTAATTAAAAT
Found at i:82512274 original size:16 final size:17
Alignment explanation
Indices: 82512245--82512276 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
82512235 CAATATCAAT
82512245 AAAAATTCCAAATAGAA
1 AAAAATTCCAAATAGAA
82512262 AAAAATTCC-AATAGA
1 AAAAATTCCAAATAGA
82512277 GGGTATAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAATTCCAAATAGAA
Found at i:82512680 original size:24 final size:24
Alignment explanation
Indices: 82512649--82512697 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
82512639 TAACAAATAA
*
82512649 AAATAAAACAACTGAAAAT-AAAAT
1 AAATAAAACAAAT-AAAATGAAAAT
82512673 AAATAAAACAAATAAAATGAAAAT
1 AAATAAAACAAATAAAATGAAAAT
82512697 A
1 A
82512698 GATCAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (24 bp):
AAATAAAACAAATAAAATGAAAAT
Found at i:82512977 original size:16 final size:15
Alignment explanation
Indices: 82512956--82512989 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
82512946 TAATAGTTAA
82512956 AATAATAAACTAAAAT
1 AATAATAAA-TAAAAT
*
82512972 AATAATAAATATAAT
1 AATAATAAATAAAAT
82512987 AAT
1 AAT
82512990 TGTTATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATAAATAAAAT
Found at i:82517699 original size:30 final size:30
Alignment explanation
Indices: 82517615--82517692 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
82517605 GGCACATGGC
* * *
82517615 CGTGTCTCTAGCCCATGTGTCTCACACGGT
1 CGTGTCTCTAGCCCGTGTGTCTCACACAGA
* *
82517645 CGTGTCTCTAACCCGTGTGTCTCACATAGA
1 CGTGTCTCTAGCCCGTGTGTCTCACACAGA
82517675 CGTGTCTCTAGCCCGTGT
1 CGTGTCTCTAGCCCGTGT
82517693 AACTCACTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.14, C:0.32, G:0.23, T:0.31
Consensus pattern (30 bp):
CGTGTCTCTAGCCCGTGTGTCTCACACAGA
Found at i:82524918 original size:4 final size:4
Alignment explanation
Indices: 82524909--82524937 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
82524899 TTACTACTAA
82524909 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
82524938 TTTTTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:82525958 original size:6 final size:6
Alignment explanation
Indices: 82525938--82525972 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
82525928 AAGGAATTTT
*
82525938 AAAT-A AAATAG AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
82525973 TAGTAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:82529722 original size:15 final size:15
Alignment explanation
Indices: 82529702--82529737 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
82529692 TAATGAATTT
82529702 ATTGAATTTATATTG
1 ATTGAATTTATATTG
82529717 ATTGAATTTATATTG
1 ATTGAATTTATATTG
82529732 ATTGAA
1 ATTGAA
82529738 CTGAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:82530319 original size:18 final size:19
Alignment explanation
Indices: 82530298--82530338 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
82530288 AATGAAATGG
82530298 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
82530316 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
82530335 GAAA
1 GAAA
82530339 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:82532495 original size:41 final size:40
Alignment explanation
Indices: 82532419--82532504 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
82532409 CAAATACATT
*
82532419 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
82532460 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
82532500 TAAAA
1 TAAAA
82532505 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.21
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:82533462 original size:16 final size:16
Alignment explanation
Indices: 82533441--82533479 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
82533431 TTATCATACT
82533441 TTCCTTATTAAATCTA
1 TTCCTTATTAAATCTA
82533457 TTCCTTATTAAATCTA
1 TTCCTTATTAAATCTA
82533473 TTCCTTA
1 TTCCTTA
82533480 ACTTTTAAAG
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:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (16 bp):
TTCCTTATTAAATCTA
Found at i:82533752 original size:47 final size:44
Alignment explanation
Indices: 82533651--82533814 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 44
82533641 ATGTGCTAAC
* * *
82533651 GCATGTCCCAGACATGTCTTACACTAGCACGATGCT-TAGTCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACCAT-CTCTAGGCGAT
* *
82533695 GCATGTCCCAGACACGTCTTACACTGGCTACCATCATCGAGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTGGC-ACCATC-TCTAGGC-GAT
*
82533742 GCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCAC-CATCTCTA-GGCGAT
*
82533788 GCCATGTCGCAGACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
82533815 AGCTCTCACA
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
44 27 0.26
45 5 0.05
46 12 0.12
47 49 0.48
48 10 0.10
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTGGCACCATCTCTAGGCGAT
Found at i:82535623 original size:359 final size:359
Alignment explanation
Indices: 82535076--82535796 Score: 1388
Period size: 359 Copynumber: 2.0 Consensus size: 359
82535066 CCCTGAAAAT
82535076 CTTACCGGTGAATAAGTTCGGATATTGCTCTCTCAAAGACTCTTTAGGTTCCCATGTGGCTTCCT
1 CTTACCGGTGAATAAGTTCGGATATTGCTCTCTCAAAGACTCTTTAGGTTCCCATGTGGCTTCCT
*
82535141 CGACTCCATGTCTATGCCACAAAATCTTCACAAGTGGTATACTCTTGTTTCTTAATTGTTTGACC
66 CGACTCCATGTCTATGCCACAAAATCTTCACAAGTGGTATACTCTAGTTTCTTAATTGTTTGACC
82535206 GCTCGAGCTAAGATCTTGACCGTCTCCTCACCATAAGTCATATCTGGAATAATCTCAACTTCAGT
131 GCTCGAGCTAAGATCTTGACCGTCTCCTCACCATAAGTCATATCTGGAATAATCTCAACTTCAGT
*
82535271 TGGCGCAATTACATGCGAAGGGTCAGATCTGTATCGGCGTAACATAGACACGTGAAATACATCAT
196 TGGCGCAATTACATGCGAAGGGTCAGATCTGTATCGGCGTAACATAGACACGTGAAACACATCAT
* *
82535336 GAATCTTTTCTAACTCTGGTGGCAAATCCAAATGGTAGGCAATAGGCCCTACTCTCTCGATAACT
261 GAATCTTTTCTAACTCTGGTGGCAAATCCAAATGGTAGGCAACAAGCCCTACTCTCTCGATAACT
82535401 TCATAAGGTCCTATGAAACGATGACTCAACTTGC
326 TCATAAGGTCCTATGAAACGATGACTCAACTTGC
82535435 CTTACCGGTGAATAAGTTCGGATATTGCTCTCTCAAAGACTCTTTAGGTTCCCATGTGGCTTCCT
1 CTTACCGGTGAATAAGTTCGGATATTGCTCTCTCAAAGACTCTTTAGGTTCCCATGTGGCTTCCT
*
82535500 CGACTCCATGTCTATGCCACAAAATCTTCACAAGTGGTATATTCTAGTTTCTTAATTGTTTGACC
66 CGACTCCATGTCTATGCCACAAAATCTTCACAAGTGGTATACTCTAGTTTCTTAATTGTTTGACC
82535565 GCTCGAGCTAAGATCTTGACCGTCTCCTCACCATAAGTCATATCTGGAATAATCTCAACTTCAGT
131 GCTCGAGCTAAGATCTTGACCGTCTCCTCACCATAAGTCATATCTGGAATAATCTCAACTTCAGT
*
82535630 TGGCGCAATTACATGCGAATGGTCAGATCTGTATCGGCGTAACATAGACACGTGAAACACATCAT
196 TGGCGCAATTACATGCGAAGGGTCAGATCTGTATCGGCGTAACATAGACACGTGAAACACATCAT
82535695 GAATCTTTTCTAACTCTGGTGGCAAATCCAAATGGTAGGCAACAAGCCCTACTCTCTCGATAACT
261 GAATCTTTTCTAACTCTGGTGGCAAATCCAAATGGTAGGCAACAAGCCCTACTCTCTCGATAACT
82535760 TCATAAGGTCCTATGAAACGATGACTCAACTTGC
326 TCATAAGGTCCTATGAAACGATGACTCAACTTGC
82535794 CTT
1 CTT
82535797 TTCTACCAAA
Statistics
Matches: 356, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
359 356 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (359 bp):
CTTACCGGTGAATAAGTTCGGATATTGCTCTCTCAAAGACTCTTTAGGTTCCCATGTGGCTTCCT
CGACTCCATGTCTATGCCACAAAATCTTCACAAGTGGTATACTCTAGTTTCTTAATTGTTTGACC
GCTCGAGCTAAGATCTTGACCGTCTCCTCACCATAAGTCATATCTGGAATAATCTCAACTTCAGT
TGGCGCAATTACATGCGAAGGGTCAGATCTGTATCGGCGTAACATAGACACGTGAAACACATCAT
GAATCTTTTCTAACTCTGGTGGCAAATCCAAATGGTAGGCAACAAGCCCTACTCTCTCGATAACT
TCATAAGGTCCTATGAAACGATGACTCAACTTGC
Found at i:82541463 original size:96 final size:97
Alignment explanation
Indices: 82541294--82541470 Score: 243
Period size: 96 Copynumber: 1.8 Consensus size: 97
82541284 TTGTCGATGC
*
82541294 CATGTCCCAGACATGGTCTTACACTTGCTATCTTCATCGAGGCCGATGCCATGTCCAAGACATGG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCTT-ATCGAGGCCGATGCCATGTCCAAGACATGG
*
82541359 TCTTACACTAGCTCTCGTATATACGTACTGACG
65 TCTAACACTAGCTCTCGTATATACGTACTGACG
* * * *
82541392 CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATT-TCTATGCTGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTGGCTA-TC-TTATCGAGGCCGATGCCATGTCCAAGACATG
*
82541454 GTCTAACACTGGCTCTC
64 GTCTAACACTAGCTCTC
82541471 ACATAACCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
96 40 0.57
97 14 0.20
98 16 0.23
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (97 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCTTATCGAGGCCGATGCCATGTCCAAGACATGGT
CTAACACTAGCTCTCGTATATACGTACTGACG
Found at i:82542920 original size:16 final size:15
Alignment explanation
Indices: 82542899--82542933 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
82542889 AATATAAAGA
82542899 AAATTGAAATAAAATT
1 AAATTGAAATAAAA-T
*
82542915 AAATTGGAATAAAAT
1 AAATTGAAATAAAAT
82542930 AAAT
1 AAAT
82542934 GGCTAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
AAATTGAAATAAAAT
Found at i:82545280 original size:37 final size:37
Alignment explanation
Indices: 82545223--82545298 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
82545213 AGTATGATTG
* *
82545223 GTAAGGTTCGTGACCAATTTAATTACTGTATTTTTAT
1 GTAAGATTCGAGACCAATTTAATTACTGTATTTTTAT
* * *
82545260 GTAAGATTCGAGACCTATTTAATTATTGTCTTTTTAT
1 GTAAGATTCGAGACCAATTTAATTACTGTATTTTTAT
82545297 GT
1 GT
82545299 CTTTTCGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (37 bp):
GTAAGATTCGAGACCAATTTAATTACTGTATTTTTAT
Found at i:82546003 original size:18 final size:18
Alignment explanation
Indices: 82545982--82546027 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
82545972 ATATTAAATG
*
82545982 TAAAAATGTGATTTTTAA
1 TAAAAATGTGATTTTAAA
82546000 TAAAAAT-T-ATTTTAAA
1 TAAAAATGTGATTTTAAA
*
82546016 GATAAAATGTGA
1 TA-AAAATGTGA
82546028 AACTGATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 8 0.35
19 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
TAAAAATGTGATTTTAAA
Found at i:82546620 original size:27 final size:27
Alignment explanation
Indices: 82546570--82546621 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
82546560 GGATGGAAGG
** *
82546570 GGAGTAAAAGTTTTGGGGGGAAAGTGA
1 GGAGTAAAAGTTTTAAGGGAAAAGTGA
82546597 GGAGTAAAAGTTTTAAGGGAAAAGT
1 GGAGTAAAAGTTTTAAGGGAAAAGT
82546622 AAAAAAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (27 bp):
GGAGTAAAAGTTTTAAGGGAAAAGTGA
Found at i:82546684 original size:9 final size:9
Alignment explanation
Indices: 82546670--82546704 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
82546660 TATAGTTTGA
82546670 TATTCGAAT
1 TATTCGAAT
82546679 TATTCGAAT
1 TATTCGAAT
*
82546688 TATTCGAGT
1 TATTCGAAT
*
82546697 TACTCGAA
1 TATTCGAA
82546705 CTCGAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (9 bp):
TATTCGAAT
Found at i:82548861 original size:15 final size:15
Alignment explanation
Indices: 82548830--82548864 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
82548820 TCTAAAATAA
**
82548830 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTCATC
82548845 TTTTTTTCTTTCATC
1 TTTTTTTCTTTCATC
82548860 TTTTT
1 TTTTT
82548865 CTAGAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTTCATC
Found at i:82554616 original size:23 final size:23
Alignment explanation
Indices: 82554585--82554636 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
82554575 TATTTATCTA
*
82554585 ACAACAAGCATGCATTGTCTATC
1 ACAAAAAGCATGCATTGTCTATC
* *
82554608 ACAAAAAGCATGTATTTTCTATC
1 ACAAAAAGCATGCATTGTCTATC
82554631 ATCAAA
1 A-CAAA
82554637 CATCAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (23 bp):
ACAAAAAGCATGCATTGTCTATC
Found at i:82558232 original size:13 final size:13
Alignment explanation
Indices: 82558211--82558236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82558201 CTAGGTTTAA
82558211 AGTTTAGGGTTTG
1 AGTTTAGGGTTTG
82558224 AGTTTAGGGTTTG
1 AGTTTAGGGTTTG
82558237 GGGCCCGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
AGTTTAGGGTTTG
Found at i:82558364 original size:28 final size:27
Alignment explanation
Indices: 82558331--82558391 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
82558321 AGGGTTTAGT
*
82558331 GTTTAAGGCTCATGGTTTGATGTTTGGG
1 GTTTAAGGCTCATGGTTTAAT-TTTGGG
*
82558359 GTTTAAGGTTCATGGTTTAATTTTGGG
1 GTTTAAGGCTCATGGTTTAATTTTGGG
*
82558386 GCTTAA
1 GTTTAA
82558392 AAAATTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.18, C:0.07, G:0.31, T:0.44
Consensus pattern (27 bp):
GTTTAAGGCTCATGGTTTAATTTTGGG
Found at i:82559149 original size:17 final size:17
Alignment explanation
Indices: 82559127--82559159 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
82559117 TTTGATGTAT
82559127 TATATTTAAAAA-AATAA
1 TATA-TTAAAAATAATAA
82559144 TATATTAAAAATAATA
1 TATATTAAAAATAATA
82559160 TAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATATTAAAAATAATAA
Found at i:82559165 original size:12 final size:12
Alignment explanation
Indices: 82559135--82559172 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
82559125 ATTATATTTA
82559135 AAAAAATAATAT
1 AAAAAATAATAT
82559147 ATTAAAAATAATAT
1 A--AAAAATAATAT
82559161 AAAAAATAATAT
1 AAAAAATAATAT
82559173 GGGCTGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAAATAATAT
Found at i:82564314 original size:16 final size:15
Alignment explanation
Indices: 82564276--82564314 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
82564266 TTACTTTTAA
82564276 AAAAATTAAAAAACT
1 AAAAATTAAAAAACT
*
82564291 ATATAATTAAAAAAGCT
1 A-AAAATTAAAAAA-CT
82564308 AAAAATT
1 AAAAATT
82564315 CCTAAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.80
17 3 0.15
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATTAAAAAACT
Found at i:82564504 original size:20 final size:20
Alignment explanation
Indices: 82564479--82564516 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
82564469 CACACATATA
82564479 TATACCATAGTTAAGACTTT
1 TATACCATAGTTAAGACTTT
82564499 TATACCATAGTTAAGACT
1 TATACCATAGTTAAGACT
82564517 ATAATTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
TATACCATAGTTAAGACTTT
Found at i:82565678 original size:20 final size:21
Alignment explanation
Indices: 82565641--82565679 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
82565631 CAACCTTTTA
82565641 AATATAATTTAAAACTAAAGT
1 AATATAATTTAAAACTAAAGT
* *
82565662 AATA-AATTTGAATCTAAA
1 AATATAATTTAAAACTAAA
82565680 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
AATATAATTTAAAACTAAAGT
Found at i:82567377 original size:20 final size:20
Alignment explanation
Indices: 82567347--82567385 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
82567337 AAAATAGTGA
82567347 AAATTTATTTTCTA-AATAT
1 AAATTTATTTTCTAGAATAT
82567366 AAATTATATTTTCTAGAATA
1 AAATT-TATTTTCTAGAATA
82567386 ACAATTCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATTTATTTTCTAGAATAT
Found at i:82570093 original size:23 final size:23
Alignment explanation
Indices: 82570021--82570104 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 23
82570011 CTCAGGGGCG
* * *
82570021 TTACAGAATGTGCCATACAGGCG
1 TTACAGAATATGCCATATAGGCA
* * * * *
82570044 TCACATAATACGCTATATAGGCT
1 TTACAGAATATGCCATATAGGCA
82570067 TTACAGAATATGCCATATAGGCA
1 TTACAGAATATGCCATATAGGCA
* *
82570090 TTACCGGATATGCCA
1 TTACAGAATATGCCA
82570105 CAAAGACTTT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (23 bp):
TTACAGAATATGCCATATAGGCA
Found at i:82576743 original size:24 final size:24
Alignment explanation
Indices: 82576684--82576743 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
82576674 ACTATTATCC
82576684 ATTTTAAATT-TTATATATTATTT
1 ATTTTAAATTATTATATATTATTT
*
82576707 ATTTTAAACTATTATATATTATTT
1 ATTTTAAATTATTATATATTATTT
*
82576731 ATTTTGAATTATT
1 ATTTTAAATTATT
82576744 TTTTTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAAATTATTATATATTATTT
Found at i:82576894 original size:27 final size:26
Alignment explanation
Indices: 82576692--82576967 Score: 149
Period size: 26 Copynumber: 10.6 Consensus size: 26
82576682 CCATTTTAAA
* *
82576692 TTTTATATATTATTTATTTTAAA--C
1 TTTTATATATTATTTACTTTAAATTG
* * *
82576716 TATTATATATTATTTATTTTGAATTATTT
1 TTTTATATATTATTTACTTT-AA--ATTG
** *
82576745 TTTTATATATATATTTTGTTTTTAAATCG
1 TTTTATATAT-TA-TTT-ACTTTAAATTG
* * *
82576774 TTTTGTATATTATTTATTTTAAATTTCT
1 TTTTATATATTATTTACTTTAAA-TT-G
* * * *
82576802 TTTTACATATTATTTA-TCTTGAACTC
1 TTTTATATATTATTTACT-TTAAATTG
** *
82576828 TTTTATATGCTA--T--TTTAAAGTG
1 TTTTATATATTATTTACTTTAAATTG
* *
82576850 TCTTATATATTATATACTTTAAAATTG
1 TTTTATATATTATTTACTTT-AAATTG
* * *
82576877 CTTTGTATATTATTTACTTTAATTTG
1 TTTTATATATTATTTACTTTAAATTG
* *
82576903 TTTTACATATTGA-TTATTTTAAATTG
1 TTTTATATATT-ATTTACTTTAAATTG
*
82576929 -TTT-TATATTATTTACTTCAAATTG
1 TTTTATATATTATTTACTTTAAATTG
82576953 TTTTATATATTATTT
1 TTTTATATATTATTT
82576968 TGTTTCGTTT
Statistics
Matches: 194, Mismatches: 38, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
22 14 0.07
23 2 0.01
24 37 0.19
25 8 0.04
26 53 0.27
27 29 0.15
28 20 0.10
29 20 0.10
30 2 0.01
31 5 0.03
32 4 0.02
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTATATATTATTTACTTTAAATTG
Found at i:82578912 original size:19 final size:19
Alignment explanation
Indices: 82578888--82578931 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
82578878 GCCTCTTTTT
*
82578888 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
*
82578907 TGCATTGTATTTCATCATA
1 TGCATTGCATTTCATCATA
82578926 TGCATT
1 TGCATT
82578932 AAATTTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:82578937 original size:19 final size:20
Alignment explanation
Indices: 82578895--82578939 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
82578885 TTTTGCATTC
* **
82578895 ATTTCATGCATCTGCATTGT
1 ATTTCATGCATATGCATTAA
82578915 ATTTCAT-CATATGCATTAA
1 ATTTCATGCATATGCATTAA
82578934 ATTTCA
1 ATTTCA
82578940 CAAAAAGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTTCATGCATATGCATTAA
Found at i:82583433 original size:45 final size:44
Alignment explanation
Indices: 82583210--82583441 Score: 212
Period size: 45 Copynumber: 5.2 Consensus size: 44
82583200 TGGAACAGAT
* * * * * *
82583210 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAATAGGTCAGAGA
1 TACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGA
* * *
82583254 TAGCAAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGC
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGA
* * * * * * *
82583299 TATAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGT
1 TACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGA
* *
82583343 TACAACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGA
1 TAC-A-AA-TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGA
* * * * *
82583390 TAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGC
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGA
82583435 TACAAAT
1 TACAAAT
82583442 TACAAATCTG
Statistics
Matches: 150, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
44 41 0.27
45 70 0.47
46 4 0.03
47 34 0.23
48 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGA
Found at i:82583531 original size:24 final size:24
Alignment explanation
Indices: 82583480--82583532 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
82583470 TGGGGCAGAT
**
82583480 TGAAGAAAGCAAATCTTATCTCTT
1 TGAAGAAAGCAAATCTTATCTCCC
*
82583504 TGAAGATAA-CAAATCTTATTTCCC
1 TGAAGA-AAGCAAATCTTATCTCCC
82583528 TGAAG
1 TGAAG
82583533 TTGCAGTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (24 bp):
TGAAGAAAGCAAATCTTATCTCCC
Found at i:82583628 original size:120 final size:120
Alignment explanation
Indices: 82583386--82583616 Score: 363
Period size: 120 Copynumber: 1.9 Consensus size: 120
82583376 GAGCAGACTA
* * *
82583386 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATTACAAATCT
1 AAGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAATCT
* *
82583451 GATCTCCCTAAAATTGCAGTGGGGCAGATTGAAGAAAGCAAATCTTATCTCTTTG
66 CATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGAAAGCAAATCTTATCTCTTTG
*
82583506 AAGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCT
1 AAGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAATCT
** * * *
82583571 CATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTT
66 CATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGAAAGCAAATCTT
82583617 TTCTTCCTGA
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (120 bp):
AAGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAATCT
CATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGAAAGCAAATCTTATCTCTTTG
Found at i:82583767 original size:141 final size:141
Alignment explanation
Indices: 82583506--82583920 Score: 536
Period size: 141 Copynumber: 2.9 Consensus size: 141
82583496 TATCTCTTTG
*
82583506 AAGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCT
1 AAGAT-ACAAATCTTATTTCCCTGAAGTTGCAGTGGATCAGATTAAGGCTACAAATTACAAATCT
* * *
82583571 CATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTTTCTTCCTGAAGTTGCAGT
65 CATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
82583636 GGAGC-AGACT-A
130 GGAGCAAG-CTGA
* * *
82583647 AAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGATCAAATTAAGGTTACAAATTACAAATCT
1 AAGATA-CAAATCTTATTTCCCTGAAGTTGCAGTGGATCAGATTAAGGCTACAAATTACAAATCT
*
82583712 CATCTCTGTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
65 CATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
* *
82583777 GGAACAAGTTGA
130 GGAGCAAGCTGA
* * * *
82583789 AA-TTACAAGTCTTATTTTCCTGAAGTTGCAGTGGAAT-AGATTAGGGCTACAAATTACAAATCT
1 AAGATACAAATCTTATTTCCCTGAAGTTGCAGTGG-ATCAGATTAAGGCTACAAATTACAAATCT
* * * * * * **
82583852 CATATCCCTGAGGTTGCAGTGGAGCA-AGTTGAA-ATTACCAATTCTTATCTCCCTGAAGTTTTA
65 CATCTCTCTGAAGTTGCAGTGGAGCAGA-TTGAAGA-AAGCAAGTCTTATCTCCCTGAAGTTGCA
82583915 GTGGAG
128 GTGGAG
82583921 TGGATTGAAA
Statistics
Matches: 242, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
139 2 0.01
140 105 0.43
141 130 0.54
142 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (141 bp):
AAGATACAAATCTTATTTCCCTGAAGTTGCAGTGGATCAGATTAAGGCTACAAATTACAAATCTC
ATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTG
GAGCAAGCTGA
Found at i:82583813 original size:44 final size:45
Alignment explanation
Indices: 82583503--82583830 Score: 200
Period size: 45 Copynumber: 7.0 Consensus size: 45
82583493 TCTTATCTCT
* *
82583503 TTGAAGATAA-CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
1 TTGAAGA-AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
* * * ** *
82583548 TT-AAGGCTACAAATTACAAATCTCATCTCTTTGAAGTTGCAGTGGAGCAGA
1 TTGAA-G----AAA--GCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
* * *
82583599 TTGAAGAAAGCAAGTCTTTTCTTCCTGAAGTTGCAGTGGAGCAGA
1 TTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
* * * * * * * *
82583644 CTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGATCAAA
1 TTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
* * * ** *
82583689 TT-AAGGTTACAAATTACAAATCTCATCTCTGTGAAGTTGCAGTGGAGCAGA
1 TTGAA-G----AAA--GCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
82583740 TTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACA-A
1 TTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
* * * *
82583784 GTTGAA-ATTA-CAAGTCTTATTTTCCTGAAGTTGCAGTGGAATAGA
1 -TTGAAGA-AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
82583829 TT
1 TT
82583831 AGGGCTACAA
Statistics
Matches: 221, Mismatches: 42, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
44 38 0.17
45 104 0.47
47 6 0.03
48 2 0.01
49 3 0.01
51 64 0.29
52 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (45 bp):
TTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
Found at i:82585564 original size:24 final size:23
Alignment explanation
Indices: 82585522--82585573 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
82585512 ACTATTATCC
*
82585522 ATTTTAAATTTTATATATTATTT
1 ATTTTAAATATTATATATTATTT
82585545 ATTTTAAACTATTATATATTATTT
1 ATTTTAAA-TATTATATATTATTT
82585569 ATTTT
1 ATTTT
82585574 GAATTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTTAAATATTATATATTATTT
Found at i:82585724 original size:26 final size:26
Alignment explanation
Indices: 82585681--82585807 Score: 132
Period size: 26 Copynumber: 4.9 Consensus size: 26
82585671 TATATGCTAT
* *
82585681 TTTAAAGTGTCTTATATATTATTTAC
1 TTTAAATTGTTTTATATATTATTTAC
* * * *
82585707 TTTAAATTGCTTTGTATATTAAATTAT
1 TTTAAATTGTTTTATATATT-ATTTAC
* * * *
82585734 TTTAATTTGTTTTACATATTAATTAT
1 TTTAAATTGTTTTATATATTATTTAC
*
82585760 TTTAAA-TGGTTT-TATATTATTTAC
1 TTTAAATTGTTTTATATATTATTTAC
82585784 TTTAAATTGTTTTATATATTATTT
1 TTTAAATTGTTTTATATATTATTT
82585808 TGTTTCGTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
24 15 0.18
25 10 0.12
26 37 0.45
27 20 0.24
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATATATTATTTAC
Found at i:82585753 original size:53 final size:50
Alignment explanation
Indices: 82585619--82585807 Score: 159
Period size: 50 Copynumber: 3.7 Consensus size: 50
82585609 AACCTTTTTG
* * * * *
82585619 TATATTATTTATTTTAAATTTCTTTTTACATATTATTTATCTTGAACT-CTTT
1 TATATTAATTATTTTAAA-TT-GTTTTATATATTATTTA-CTTTAAATGCTTT
** * *
82585671 TATA-T-GCTATTTTAAAGTGTCTTATATATTATTTACTTTAAATTGCTTT
1 TATATTAATTATTTTAAATTGTTTTATATATTATTTACTTTAAA-TGCTTT
* * * * *
82585720 GTATATTAAATTATTTTAATTTGTTTTACATATTAATTATTTTAAATGGTTT
1 -TATATT-AATTATTTTAAATTGTTTTATATATTATTTACTTTAAATGCTTT
* *
82585772 TATATTATTTACTTTAAATTGTTTTATATATTATTT
1 TATATTAATTATTTTAAATTGTTTTATATATTATTT
82585808 TGTTTCGTTT
Statistics
Matches: 109, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
47 5 0.05
48 15 0.14
49 5 0.05
50 38 0.35
51 8 0.07
52 9 0.08
53 29 0.27
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (50 bp):
TATATTAATTATTTTAAATTGTTTTATATATTATTTACTTTAAATGCTTT
Found at i:82591867 original size:10 final size:11
Alignment explanation
Indices: 82591840--82591867 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
82591830 CGATCTAGTC
82591840 AGAAAAAGTGA
1 AGAAAAAGTGA
82591851 AGAAAAAGTGA
1 AGAAAAAGTGA
82591862 AGAAAA
1 AGAAAA
82591868 TTCTTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (11 bp):
AGAAAAAGTGA
Found at i:82593018 original size:60 final size:60
Alignment explanation
Indices: 82592946--82593068 Score: 228
Period size: 60 Copynumber: 2.0 Consensus size: 60
82592936 GTATTCTAAG
*
82592946 TGTTCAATGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
1 TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
*
82593006 TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACATGTA
1 TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
82593066 TGT
1 TGT
82593069 ACGAAAAACT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (60 bp):
TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
Found at i:82594764 original size:20 final size:19
Alignment explanation
Indices: 82594741--82594797 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
82594731 TAGTTTCTCG
82594741 AAATCCATTATTTTTTCCCC
1 AAATCCATTA-TTTTTCCCC
82594761 AAAT--A--A-TTTTCCCC
1 AAATCCATTATTTTTCCCC
*
82594775 AAATCCCTTAGTTTTTCCCC
1 AAATCCATTA-TTTTTCCCC
82594795 AAA
1 AAA
82594798 CGTCTATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
14 12 0.40
16 1 0.03
18 2 0.07
20 15 0.50
ACGTcount: A:0.30, C:0.30, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATCCATTATTTTTCCCC
Found at i:82594779 original size:34 final size:34
Alignment explanation
Indices: 82594717--82594797 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
82594707 ATAGCCTTAG
* * * *
82594717 TTTTATCCCCAAATTAGTTTCTCGAAATCCATTA
1 TTTTTTCCCCAAATAAGTTTCCCCAAATCCATTA
* *
82594751 TTTTTTCCCCAAATAATTTTCCCCAAATCCCTTA
1 TTTTTTCCCCAAATAAGTTTCCCCAAATCCATTA
*
82594785 GTTTTTCCCCAAA
1 TTTTTTCCCCAAA
82594798 CGTCTATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.04, T:0.41
Consensus pattern (34 bp):
TTTTTTCCCCAAATAAGTTTCCCCAAATCCATTA
Found at i:82597861 original size:26 final size:26
Alignment explanation
Indices: 82597832--82597941 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
82597822 TGGTACAAAT
82597832 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
82597858 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
82597884 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
82597910 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
82597936 TGATAA
1 TGATAA
82597942 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:82599604 original size:27 final size:27
Alignment explanation
Indices: 82599563--82599702 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
82599553 GAGGAAGCGT
*
82599563 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
82599590 TCTGGTGGCTCTGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
82599617 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
82599644 TCTGGTGGCTTTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
82599672 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
82599698 TCTGG
1 TCTGG
82599703 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.81
28 14 0.14
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:82599648 original size:54 final size:55
Alignment explanation
Indices: 82599563--82599702 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
82599553 GAGGAAGCGT
* * * *
82599563 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATTTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
82599617 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTTTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
82599672 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
82599703 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 58 0.76
55 18 0.24
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:82603445 original size:93 final size:95
Alignment explanation
Indices: 82603335--82603525 Score: 269
Period size: 95 Copynumber: 2.0 Consensus size: 95
82603325 AAGAACTAAA
* * *
82603335 AGGCTTAAATAGGATTATTTAA-TGTTTCAAAAGGGCTCGAGGGTTAAAATTTT-TGTAATTAGA
1 AGGCTTAAATAGAATTATTTAATTGTTTCAAAAGGGCTCGAAGGTTAAAATTTTCTGCAATTAGA
* * *
82603398 TAACCAAAATTGAAATGCTTTAAACGTTAG
66 TAACCAAAATTGAAATACTCTAAAAGTTAG
* * * * *
82603428 AGGCTTAAATAGAATTATTTAATTTTTTTAAAAGGGCTTGAAGTTTAAAATTTTCTGCAATTGGA
1 AGGCTTAAATAGAATTATTTAATTGTTTCAAAAGGGCTCGAAGGTTAAAATTTTCTGCAATTAGA
82603493 TAACCAAAATTGAAATACTCTAAAAGTTAG
66 TAACCAAAATTGAAATACTCTAAAAGTTAG
82603523 AGG
1 AGG
82603526 ACCATCGGTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 21 0.25
94 26 0.31
95 38 0.45
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (95 bp):
AGGCTTAAATAGAATTATTTAATTGTTTCAAAAGGGCTCGAAGGTTAAAATTTTCTGCAATTAGA
TAACCAAAATTGAAATACTCTAAAAGTTAG
Found at i:82604300 original size:21 final size:21
Alignment explanation
Indices: 82604276--82604315 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
82604266 ACTCTTGGAA
*
82604276 GAGGAAGAGGAGGAGGAAGTG
1 GAGGAAGAAGAGGAGGAAGTG
82604297 GAGGAAGAAGAGGAGGAAG
1 GAGGAAGAAGAGGAGGAAG
82604316 AGTCGGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (21 bp):
GAGGAAGAAGAGGAGGAAGTG
Found at i:82604314 original size:12 final size:12
Alignment explanation
Indices: 82604279--82604316 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
82604269 CTTGGAAGAG
*
82604279 GAAGAGGAGGAG
1 GAAGAGGAGGAA
*
82604291 GAAGTGGAGGAA
1 GAAGAGGAGGAA
82604303 GAAGAGGAGGAA
1 GAAGAGGAGGAA
82604315 GA
1 GA
82604317 GTCGGAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.03
Consensus pattern (12 bp):
GAAGAGGAGGAA
Found at i:82606486 original size:47 final size:47
Alignment explanation
Indices: 82606435--82606527 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
82606425 CATTAACCTT
* *
82606435 TGTTTTTCTTTTTCAATTTGTTTTTTTTAATAAATTTAATGAAAGTG
1 TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGTG
82606482 TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGT
1 TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGT
82606528 ATGGTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (47 bp):
TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGTG
Found at i:82609788 original size:26 final size:26
Alignment explanation
Indices: 82609759--82609811 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
82609749 TGAGATCCAT
82609759 TACAAATAACTTTTAAAAGTAATGTA
1 TACAAATAACTTTTAAAAGTAATGTA
82609785 TACAAATAACTTTTAAAAGTAATGTA
1 TACAAATAACTTTTAAAAGTAATGTA
82609811 T
1 T
82609812 TAACCATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (26 bp):
TACAAATAACTTTTAAAAGTAATGTA
Found at i:82611518 original size:21 final size:21
Alignment explanation
Indices: 82611494--82611534 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82611484 AGCCAAAAAT
*
82611494 CTCTAAAAATTCTCTTTAAAG
1 CTCTAAAAATTCTCATTAAAG
* *
82611515 CTCTCAAATTTCTCATTAAA
1 CTCTAAAAATTCTCATTAAA
82611535 TTTCTCAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (21 bp):
CTCTAAAAATTCTCATTAAAG
Found at i:82613847 original size:26 final size:26
Alignment explanation
Indices: 82613818--82613880 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
82613808 TATTGTTTCA
82613818 TTTAATAAAAAAGAATTTTTTA-ATAT
1 TTTAATAAAAAAGAATTTTTTATAT-T
** **
82613844 TTTAATTGTAAATTAATTTTTTATATT
1 TTTAA-TAAAAAAGAATTTTTTATATT
82613871 TTTAATAAAA
1 TTTAATAAAA
82613881 TATAAATTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 8 0.28
27 19 0.66
28 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
TTTAATAAAAAAGAATTTTTTATATT
Found at i:82613888 original size:27 final size:27
Alignment explanation
Indices: 82613818--82613898 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 27
82613808 TATTGTTTCA
82613818 TTTAATAAAA-A-AGAATTTTTTAATAT
1 TTTAATAAAATATA-AATTTTTTAATAT
*
82613844 TTTAATTGTAAAT-T-AATTTTTT-ATATT
1 TTTAA-T-AAAATATAAATTTTTTAATA-T
82613871 TTTAATAAAATATAAATTCTTTTGAATA
1 TTTAATAAAATATAAATT-TTTT-AATA
82613899 AGGCGGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
25 4 0.09
26 10 0.23
27 19 0.44
28 7 0.16
30 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (27 bp):
TTTAATAAAATATAAATTTTTTAATAT
Found at i:82615902 original size:49 final size:49
Alignment explanation
Indices: 82615741--82615923 Score: 163
Period size: 49 Copynumber: 3.8 Consensus size: 49
82615731 ATGGGATAAG
* * ** *
82615741 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTAGC--ACATCA
1 ATGCCAATGCCATGTCCCAGATA-GGTCTTACACTGACTCTCATATATCA
* * *
82615789 AAGTCAATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCA
1 ATGCCAATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCA
* * * * * *
82615838 ATGCCGACGCCATGTCCCAGATAGGTCTTACATTGGCTCTCATCTATCG
1 ATGCCAATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCA
* ** * **
82615887 GTGTTAATGCTATGTCCCAGACGGGTCTTACACTGAC
1 ATGCCAATGCCATGTCCCAGATAGGTCTTACACTGAC
82615924 ACACAACAAG
Statistics
Matches: 107, Mismatches: 26, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
47 15 0.14
48 20 0.19
49 72 0.67
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCAATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCA
Found at i:82616046 original size:46 final size:44
Alignment explanation
Indices: 82615981--82616104 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 44
82615971 ATATCTCGAG
* *
82615981 GCCGATGTATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTCT--TAT-AATA
* *
82616027 GTCGATGCATGTCCTAGACATGTCTTACACTGACTCTTATAATGCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTCTTATAAT--A
82616073 GCCGATGCATGTCCCAGACATGTCTTACACTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTG
82616105 GCACACATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
43 3 0.04
44 2 0.03
46 62 0.91
47 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTCTTATAATA
Found at i:82620891 original size:17 final size:17
Alignment explanation
Indices: 82620869--82620902 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
82620859 ATAGATTCGC
*
82620869 TTAGATACACTTAGTAT
1 TTAGATACAATTAGTAT
*
82620886 TTAGATATAATTAGTAT
1 TTAGATACAATTAGTAT
82620903 AATATATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (17 bp):
TTAGATACAATTAGTAT
Found at i:82621735 original size:31 final size:31
Alignment explanation
Indices: 82621697--82621776 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
82621687 TGTTTAACGG
*
82621697 TTACTGGGCCGAAGCCTTATCATAAATTATA
1 TTACTGGGCCGAAGCCTTATCATAAATCATA
*
82621728 TTACTGGGCCGAAGCCTTTTCATAAATCATA
1 TTACTGGGCCGAAGCCTTATCATAAATCATA
* *
82621759 TCATTGGGCCGAAGCCTT
1 TTACTGGGCCGAAGCCTT
82621777 TACTGTAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (31 bp):
TTACTGGGCCGAAGCCTTATCATAAATCATA
Found at i:82622057 original size:25 final size:25
Alignment explanation
Indices: 82621996--82622089 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
82621986 CTCTTTTAAT
*
82621996 AACTGGGGCAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
82622020 AACTGGGGAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
82622045 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
82622070 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
82622090 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 19 0.30
25 44 0.70
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:82622568 original size:20 final size:21
Alignment explanation
Indices: 82622543--82622582 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
82622533 ATGGGCCCGA
82622543 AGCCCATTG-GGCCCAATTTT
1 AGCCCATTGAGGCCCAATTTT
*
82622563 AGCCCATTGAGGCCTAATTT
1 AGCCCATTGAGGCCCAATTT
82622583 ACCATCGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAATTTT
Found at i:82623045 original size:27 final size:27
Alignment explanation
Indices: 82622992--82623324 Score: 233
Period size: 27 Copynumber: 12.3 Consensus size: 27
82622982 TTTCACCCTA
* * * *
82622992 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
82623019 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** * *
82623046 CAATGGTATTTTTATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* *
82623075 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
82623102 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * * *
82623129 TGAGGGTGTTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
82623156 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
82623183 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
82623210 CAGGGGTATTTTAGTAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
82623237 TAA-GGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
82623263 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
82623290 CAAGGGTATTTTAGTAATTTTTTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
82623317 CGAGGGTA
1 CAAGGGTA
82623325 AACAGTAATT
Statistics
Matches: 245, Mismatches: 52, Indels: 18
0.78 0.17 0.06
Matches are distributed among these distances:
26 24 0.10
27 192 0.78
28 15 0.06
29 13 0.05
30 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:82623278 original size:80 final size:81
Alignment explanation
Indices: 82623103--82623310 Score: 242
Period size: 80 Copynumber: 2.6 Consensus size: 81
82623093 TTTGTAAATC
** * ** * *
82623103 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTGTTTCGGTAATTTCACAAACCAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAACCAGAGGTATTT
*
82623167 TGGTAATTTTACAAACT
65 TGGTAATTTTACAAACG
* *
82623184 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTA-AGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTT
* *
82623248 GGTAATTTTACTGATCG
66 GGTAATTTTAC-AAACG
** *
82623265 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
82623311 TTAAATCGAG
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
80 61 0.55
81 48 0.44
82 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTT
GGTAATTTTACAAACG
Found at i:82623333 original size:80 final size:80
Alignment explanation
Indices: 82623186--82623334 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
82623176 TACAAACTAG
* * * ****
82623186 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTAAGGTATTTTGGT
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAAGGTATAACAGT
82623251 AATTTTACTGATCGA
66 AATTTTACTGATCGA
** ** *
82623266 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTTTAAATCGAGGGTA-AACAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-CGAAGGTATAACAG
82623330 TAATT
65 TAATT
82623335 CTGTAAATCA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
80 50 0.89
81 6 0.11
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAAGGTATAACAGT
AATTTTACTGATCGA
Found at i:82623361 original size:53 final size:54
Alignment explanation
Indices: 82623276--82623431 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
82623266 GGGTATTTTG
* * *** * * *
82623276 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTTTAAATCGAGGGT-AAACA
1 GTAATTCTGTAAATCAAGGGTAAAATAATAATTCTATAAATCGAGGGTAAAACA
*
82623329 GTAATTCTGTAAATCAAGGGTAAAATAATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATAATAATTCTATAAATCGAGGGTAAAACA
* ****
82623383 GTAATTCTGTAAATCGAGGGTAAAACGGCAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTAAAATAATAATTCTATAAATCGAGGGTA
82623432 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 40 0.45
54 48 0.55
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAAATAATAATTCTATAAATCGAGGGTAAAACA
Found at i:82623368 original size:27 final size:27
Alignment explanation
Indices: 82623302--82623431 Score: 163
Period size: 27 Copynumber: 4.9 Consensus size: 27
82623292 AGGGTATTTT
* *
82623302 AGTAATTTTTTAAATCGAGGGT-AAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
82623328 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
82623355 AATAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
82623382 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
82623409 GGCAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
82623432 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 19 0.21
27 71 0.79
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:82623442 original size:27 final size:27
Alignment explanation
Indices: 82623303--82623458 Score: 145
Period size: 27 Copynumber: 5.8 Consensus size: 27
82623293 GGGTATTTTA
* *
82623303 GTAATTTTTTAAATCGAGGGTAAACA--
1 GTAATTCTGTAAATCGAGGGTAAA-ATG
* *
82623329 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
82623356 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
82623383 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * ***
82623410 GCAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
82623437 GTAATTTTGCAAGTCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
82623459 TTTCAATAAT
Statistics
Matches: 107, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
25 1 0.01
26 21 0.20
27 85 0.79
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:82624843 original size:13 final size:13
Alignment explanation
Indices: 82624825--82624852 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
82624815 GTTATTCATA
82624825 ATTAATATGAATT
1 ATTAATATGAATT
82624838 ATTAATATGAATT
1 ATTAATATGAATT
82624851 AT
1 AT
82624853 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:82625166 original size:17 final size:17
Alignment explanation
Indices: 82625144--82625182 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
82625134 CTGACTCCAT
*
82625144 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
82625161 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
82625178 TTTTA
1 TTTTA
82625183 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:82630000 original size:94 final size:93
Alignment explanation
Indices: 82629836--82630020 Score: 232
Period size: 94 Copynumber: 2.0 Consensus size: 93
82629826 TTTAACACTA
* * * *
82629836 GCTTGTATATCTTGAGGCTGATGTATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GCTTGTATATCTTGAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGCC
*
82629901 AATGCATGTCCTAGAGATGTCTTACATTG
65 AATGCATGTCCTAGACATGTCTTACATTG
82629930 GCTTGTATATCTTGAAGCCGATGCATGTCCCAGACATGTCTTACACTTA-CTCTC-AT-AATGTG
1 GCTTGTATATCTTGAAGCCGATGCATGTCCCAGACATGTCTTACAC-TAGCTCTCGATCAA--T-
* * *
82629992 GTCGATGCATGTCCTTGACATGTCTTACA
62 GCCAATGCATGTCCTAGACATGTCTTACA
82630021 CTAGCACACA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
91 2 0.03
92 1 0.01
93 1 0.01
94 73 0.92
95 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (93 bp):
GCTTGTATATCTTGAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGCCA
ATGCATGTCCTAGACATGTCTTACATTG
Found at i:82634978 original size:125 final size:125
Alignment explanation
Indices: 82634658--82635028 Score: 505
Period size: 125 Copynumber: 3.0 Consensus size: 125
82634648 CAAGCATGAA
* * *
82634658 TACTGTAGAAAAAAGAGCGTCTACGTGAGAGCTTTTTTCAGAAATTTTGCTGGCAGTGCATCCTA
1 TACTGTAG-AAAAAGAGCGTCTACGTGGGAGCTTTTTTCTGAAATTTTGCTGACAGTGCATCCT-
* * *
82634723 T-TTGAAGCGTTTCTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTATTTTAAGAAC
64 TCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATT-TTTTAAGAAC
* * * *
82634785 TACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAT-AAATTTTGCTGATAGTGTAT-CTT
1 TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTC-TGAAATTTTGCTGACAGTGCATCCTT
* * * *
82634848 GCTTGAAACCTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTAGGAAC
65 -CTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTAAGAAC
* * * * *
82634910 TACTGTAGAAAAAGAGCATCTACGTGGGTGCTTTTTTCTGTAATTTTACTAACAGTGCATCCTTC
1 TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCTGAAATTTTGCTGACAGTGCATCCTTC
82634975 TTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
66 TTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
82635029 CAAGGTCAAA
Statistics
Matches: 214, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
124 2 0.01
125 112 0.52
126 92 0.43
127 8 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (125 bp):
TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCTGAAATTTTGCTGACAGTGCATCCTTC
TTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTAAGAAC
Done.