Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 187 of 216
Found at i:58363103 original size:16 final size:16
Alignment explanation
Indices: 58363084--58363117 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
58363074 TCCATGTTGT
58363084 TGTTCAAAGGTGATAA
1 TGTTCAAAGGTGATAA
58363100 TGTTCAAAGGTGATAA
1 TGTTCAAAGGTGATAA
58363116 TG
1 TG
58363118 GACCCTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (16 bp):
TGTTCAAAGGTGATAA
Found at i:58385540 original size:59 final size:58
Alignment explanation
Indices: 58385472--58385660 Score: 184
Period size: 59 Copynumber: 3.2 Consensus size: 58
58385462 GTATCGGGGA
58385472 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA-T
* * ** * * * * * * *
58385531 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAAGAATTTTATTAA
1 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-TATTTTA-TAT
*
58385592 ATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA-T
*
58385651 ACTATATATT
1 ATTATATATT
58385661 ATGATTTTAG
Statistics
Matches: 98, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
58 7 0.07
59 39 0.40
60 16 0.16
61 29 0.30
62 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (58 bp):
ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAT
Found at i:58385635 original size:26 final size:26
Alignment explanation
Indices: 58385606--58385718 Score: 84
Period size: 26 Copynumber: 4.2 Consensus size: 26
58385596 TATATTTTTG
58385606 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTTAATAATAATTATT
* * * *
58385632 TTAAATTATATTTTATATTACTATATA
1 TTAAATTATATTTAATAATAAT-TATT
* * * * *
58385659 TTATGATTTTAGTAAATTCATATATT-TT
1 TTA-AATTATATTTAA-TAATA-ATTATT
*
58385687 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTTAATAATAATTATT
58385714 TTAAA
1 TTAAA
58385719 ATATGATTAA
Statistics
Matches: 62, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
26 27 0.44
27 11 0.18
28 16 0.26
29 7 0.11
30 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATT
Found at i:58385687 original size:18 final size:17
Alignment explanation
Indices: 58385664--58385698 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58385654 ATATATTATG
58385664 ATTTTAGTAAATTCATAT
1 ATTTTAGTAAATT-ATAT
*
58385682 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
58385699 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTAGTAAATTATAT
Found at i:58390423 original size:30 final size:30
Alignment explanation
Indices: 58390367--58390424 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58390357 TTTCTAGAAT
* *
58390367 CCACACGGGCTGGCCACACACTCATGTGAG
1 CCACACGAGCTGGCCACACACCCATGTGAG
**
58390397 CCACACGAGCTGGCCACATGCCCATGTG
1 CCACACGAGCTGGCCACACACCCATGTG
58390425 CCAACTCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.38, G:0.26, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACACCCATGTGAG
Found at i:58394546 original size:59 final size:59
Alignment explanation
Indices: 58394481--58394668 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
58394471 ATTTTATTAA
58394481 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
58394540 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
58394600 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
58394659 ATCATATATT
1 ATCATATATT
58394669 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:58394595 original size:119 final size:119
Alignment explanation
Indices: 58394470--58394755 Score: 475
Period size: 119 Copynumber: 2.4 Consensus size: 119
58394460 AATTATTTTA
*
58394470 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATT-ATTATTTCAAATTATATTTT
* * *
58394535 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
58394589 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTATTATTTCAAATTATATTTT
*
58394654 ACAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
58394709 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAT
58394756 GTTTAAATAT
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 106 0.67
120 52 0.33
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTATTATTTCAAATTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:58394616 original size:18 final size:18
Alignment explanation
Indices: 58394590--58394645 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
58394580 GATTATTAGA
58394590 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
58394607 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
58394623 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
58394637 ATTTTAATT
1 ATTTTAATT
58394646 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:58394726 original size:59 final size:58
Alignment explanation
Indices: 58394544--58394726 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
58394534 TATAGTATCA
* *
58394544 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAATAATATT-ATTATTAAGAATTTTATTAAAT
* * * * *
58394602 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAATAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
58394661 CATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAATAATATT-ATTATTAAGAATTTTATTAAAT
58394722 TATAT
1 TATAT
58394727 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 13, Indels: 33
0.67 0.09 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.08
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 15 0.16
64 9 0.09
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAATAATATTATTATTAAGAATTTTATTAAAT
Found at i:58394738 original size:18 final size:17
Alignment explanation
Indices: 58394710--58394744 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58394700 ATTATTAAGA
*
58394710 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58394727 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58394745 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58394822 original size:120 final size:118
Alignment explanation
Indices: 58394458--58394775 Score: 385
Period size: 119 Copynumber: 2.7 Consensus size: 118
58394448 TTGAATCTAG
* *
58394458 ATAATTATT-TTA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-ATTAATTAT
1 ATAATAATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTAT
** * * * *
58394520 TTCAAATT-ATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGA
65 TT-AAATTGATAAATTACAGTATCATATATTATAATTTGAGTAAATT-ATATAATA
* *
58394575 ATATTGATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATT
1 ATAATAATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATT
* * ** *
58394640 TTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAATA
66 TAAATTGATAAATTACAGTATCATATATTATAATTTGAGTAAATT-ATATAATA
* *
58394694 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTA-TGT
1 ATAATAATTATT-AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTAT
58394758 TTAAATATGAGTAAATTA
65 TTAAAT-TGA-TAAATTA
58394776 TTTATTATTG
Statistics
Matches: 181, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
117 7 0.04
118 7 0.04
119 109 0.60
120 53 0.29
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (118 bp):
ATAATAATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATT
TAAATTGATAAATTACAGTATCATATATTATAATTTGAGTAAATTATATAATA
Found at i:58394860 original size:144 final size:147
Alignment explanation
Indices: 58394698--58394969 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
58394688 ATAATAATAT
58394698 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TAATAATTATGTTTAA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTATAATAATTATGTTTAA
*
58394762 ATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATTTA
66 ATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTA
58394825 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
58394842 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT--ATAATAATTATGTTT
* *
58394907 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
64 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
58394970 CAATAATCAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 48 0.40
147 40 0.33
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTATAATAATTATGTTTAA
ATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:58394882 original size:18 final size:17
Alignment explanation
Indices: 58394854--58394888 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58394844 ATTATTAAGA
*
58394854 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58394871 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58394889 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58395099 original size:44 final size:44
Alignment explanation
Indices: 58395050--58395144 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 44
58395040 TTACACCTCT
* * *
58395050 ATTACATTGAACCAAATACAG-T-TTTACTATTACGCCTCTATTCC
1 ATTACATTCAACC-AA-ACAGTTATTTACTATTACACATCTATTCC
*
58395094 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGTT-ATTTACTATTACACATCTATTCC
58395139 ATTACA
1 ATTACA
58395145 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 4 0.09
43 3 0.07
44 12 0.27
45 25 0.57
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (44 bp):
ATTACATTCAACCAAACAGTTATTTACTATTACACATCTATTCC
Found at i:58395144 original size:16 final size:16
Alignment explanation
Indices: 58395125--58395192 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
58395115 GATTTGCTAT
* * *
58395125 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
58395141 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58395157 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58395173 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58395189 TACA
1 TACA
58395193 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58395848 original size:12 final size:12
Alignment explanation
Indices: 58395825--58395863 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58395815 TTTAATTCCC
58395825 ACTAATAATAAT
1 ACTAATAATAAT
* *
58395837 AATAATACTAAT
1 ACTAATAATAAT
*
58395849 ACTAATATTAAT
1 ACTAATAATAAT
58395861 ACT
1 ACT
58395864 TACCTCACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (12 bp):
ACTAATAATAAT
Found at i:58396745 original size:4 final size:4
Alignment explanation
Indices: 58396736--58396763 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
58396726 TCTCATGATA
58396736 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
58396764 ATCTTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:58399603 original size:18 final size:17
Alignment explanation
Indices: 58399570--58399608 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58399560 TTTTATAAAT
58399570 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
58399588 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
58399605 TGTG
1 TGTG
58399609 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:58399860 original size:23 final size:23
Alignment explanation
Indices: 58399833--58399885 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
58399823 AGTGTTATTG
58399833 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* *
58399856 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
58399879 ATCAGTG
1 ATCAGTG
58399886 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:58401998 original size:67 final size:67
Alignment explanation
Indices: 58401895--58402207 Score: 430
Period size: 67 Copynumber: 4.8 Consensus size: 67
58401885 CAATTGCAAT
* *
58401895 AGTATTTAAATGTATGTATTTAATTGAATTGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
58401960 TG
66 TG
* *
58401962 AGTAATTAAATGTATGTATTTAATTAAATCGATTATATGTATGTGATTTGAGAAAGTATGTGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
58402027 TG
66 TG
* * *
58402029 AATAATTAAATGTATGTATTTAATTGAATTGATTATATGTATATGATTTGAGAAAGTATGCGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
58402094 TG
66 TG
* * *
58402096 AGT-ATTTAA---ATG--TTT-A---AATCGATTATATATATGTGATTTGAGAATGTATGCGAAT
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
58402151 TG
66 TG
* * * *
58402153 AGTATTTAAATGTATGTACTTAATTGAATAGATTATATATATGTGATTTGAGAAA
1 AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAA
58402208 TTGAATTATT
Statistics
Matches: 216, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
57 40 0.19
58 4 0.02
60 1 0.00
61 6 0.03
63 5 0.02
64 1 0.00
66 5 0.02
67 154 0.71
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (67 bp):
AGTAATTAAATGTATGTATTTAATTGAATCGATTATATGTATGTGATTTGAGAAAGTATGCGAAT
TG
Found at i:58402490 original size:45 final size:45
Alignment explanation
Indices: 58402401--58402492 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
58402391 GCCTATCATT
* * * * * *
58402401 TTCAGCTCATTAGAGCTTACCATTTTAGCTCGTATGTGCTTACTA
1 TTCAGCTCATCAAAGCTTACCATTTCAGCTCATATGAGCCTACTA
*
58402446 TTCAGCTCATCAAAGCTTACCGTTTCAGCTCA-ATAGAGCCTACTA
1 TTCAGCTCATCAAAGCTTACCATTTCAGCTCATAT-GAGCCTACTA
58402491 TT
1 TT
58402493 TATCAGCTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (45 bp):
TTCAGCTCATCAAAGCTTACCATTTCAGCTCATATGAGCCTACTA
Found at i:58402687 original size:20 final size:20
Alignment explanation
Indices: 58402662--58402719 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
58402652 AAGATATGTG
*
58402662 TTTATATGGATGAATTATTA
1 TTTATATGGATGAATTACTA
* *
58402682 TTTATATGGATGAACTACTG
1 TTTATATGGATGAATTACTA
* *
58402702 GTTATATGAATGAATTAC
1 TTTATATGGATGAATTAC
58402720 AGTTTATACG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTATATGGATGAATTACTA
Found at i:58402726 original size:20 final size:20
Alignment explanation
Indices: 58402661--58402732 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
58402651 TAAGATATGT
* *
58402661 GTTTATATGGATGAATTATTA
1 GTTTATATGAATGAATTA-CA
* * *
58402682 -TTTATATGGATGAACTACT
1 GTTTATATGAATGAATTACA
*
58402701 GGTTATATGAATGAATTACA
1 GTTTATATGAATGAATTACA
*
58402721 GTTTATACGAAT
1 GTTTATATGAAT
58402733 AGAAATGAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.42
Consensus pattern (20 bp):
GTTTATATGAATGAATTACA
Found at i:58414023 original size:30 final size:31
Alignment explanation
Indices: 58413958--58414026 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
58413948 ACTATTAATC
* * *
58413958 AGTGATTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
58413989 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
58414018 GAGTGACTG
1 -AGTGACTG
58414027 AAATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.42
31 14 0.42
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:58415648 original size:18 final size:18
Alignment explanation
Indices: 58415625--58415667 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
58415615 ACCTAATCTA
**
58415625 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
58415643 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
58415661 AACCCAA
1 AACCCAA
58415668 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:58415777 original size:9 final size:9
Alignment explanation
Indices: 58415763--58415811 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
58415753 GTAGTGATTC
58415763 AATTCGGTT
1 AATTCGGTT
58415772 AATTCGAG-T
1 AATTCG-GTT
*
58415781 AATTCAAG-T
1 AATTC-GGTT
58415790 AATTCGGTT
1 AATTCGGTT
58415799 AATTCGGTT
1 AATTCGGTT
58415808 AATT
1 AATT
58415812 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 1 0.03
9 33 0.94
10 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:58420720 original size:21 final size:22
Alignment explanation
Indices: 58420650--58420813 Score: 96
Period size: 23 Copynumber: 7.2 Consensus size: 22
58420640 TAAAGCTATC
* *
58420650 ACCCACCAACCACAACCAATCAT
1 ACCCTCCAAACACAACCAAT-AT
*** * * *
58420673 AGGTTCCAGACACAACCGATTT
1 ACCCTCCAAACACAACCAATAT
*
58420695 ACCCTCCAAACACAACC-ATGT
1 ACCCTCCAAACACAACCAATAT
* *
58420716 ACCCTCCGAATACAACCAAATAT
1 ACCCTCCAAACACAACC-AATAT
*
58420739 ACCCTTCAAACACAACCATATATAT
1 ACCCTCCAAACACAACC--A-ATAT
* * * *
58420764 AACTTTCGAACACAACCAAGTAT
1 ACCCTCCAAACACAACCAA-TAT
** *
58420787 ACCCTCCAAATGCAACTAATAT
1 ACCCTCCAAACACAACCAATAT
58420809 ACCCT
1 ACCCT
58420814 TCAACATATC
Statistics
Matches: 106, Mismatches: 30, Indels: 11
0.72 0.20 0.07
Matches are distributed among these distances:
21 18 0.17
22 23 0.22
23 46 0.43
24 1 0.01
25 18 0.17
ACGTcount: A:0.40, C:0.35, G:0.05, T:0.19
Consensus pattern (22 bp):
ACCCTCCAAACACAACCAATAT
Found at i:58420775 original size:25 final size:23
Alignment explanation
Indices: 58420722--58420787 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 23
58420712 ATGTACCCTC
* *
58420722 CGAATACAACCAAATATACCCTT
1 CGAACACAACCAAATATAACCTT
* *
58420745 CAAACACAACCATATATATAACTTT
1 CGAACACAACCA-A-ATATAACCTT
*
58420770 CGAACACAACCAAGTATA
1 CGAACACAACCAAATATA
58420788 CCCTCCAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 14 0.40
24 2 0.06
25 19 0.54
ACGTcount: A:0.47, C:0.27, G:0.05, T:0.21
Consensus pattern (23 bp):
CGAACACAACCAAATATAACCTT
Found at i:58422752 original size:102 final size:102
Alignment explanation
Indices: 58422534--58422737 Score: 340
Period size: 102 Copynumber: 2.0 Consensus size: 102
58422524 TTTTCAAAAC
* * * *
58422534 CATTTTTAAATAAAAGGATCGATTTGGATTTTGAAAATCGAAAATGAAAAAATAGGAGTTGCCAC
1 CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATGAAAAAATAGAAGTCGCCAC
*
58422599 CGATATTTTTTAGGTGTGATCGGATCACCTTACGATT
66 CAATATTTTTTAGGTGTGATCGGATCACCTTACGATT
58422636 CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATGAAAAAA-A-AAGTCGCCAC
1 CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATGAAAAAATAGAAGTCGCCAC
*
58422699 CAATATTTTTTAGGTGTGATCGGATCACCTTGCGATT
66 CAATATTTTTTAGGTGTGATCGGATCACCTTACGATT
58422736 CA
1 CA
58422738 ATCGTTTTAA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 45 0.47
101 1 0.01
102 50 0.52
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (102 bp):
CATTTTTAAATAAAAGGATCGACTTGGATTTTGAAAAACGAAAATGAAAAAATAGAAGTCGCCAC
CAATATTTTTTAGGTGTGATCGGATCACCTTACGATT
Found at i:58423507 original size:40 final size:40
Alignment explanation
Indices: 58423423--58423508 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 40
58423413 ATTTTAACGC
* *
58423423 AAATATTAACAATGAATGAAAAAATAAAAGATAAATAAAT
1 AAATAATAACAATGAATGAAAAAATAAAAAATAAATAAAT
*
58423463 AAATAATATCAATGAAT-AACAACAATAAAACAATAAA-AAA-
1 AAATAATAACAATGAATGAA-AA-AATAAAA-AATAAATAAAT
58423503 AAATAA
1 AAATAA
58423509 CAAAGCCATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 2 0.05
40 23 0.57
41 10 0.25
42 5 0.12
ACGTcount: A:0.70, C:0.06, G:0.05, T:0.20
Consensus pattern (40 bp):
AAATAATAACAATGAATGAAAAAATAAAAAATAAATAAAT
Found at i:58436865 original size:41 final size:41
Alignment explanation
Indices: 58436808--58436913 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
58436798 AATGAGATAA
* *
58436808 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
58436849 TTCAGACTATACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
58436890 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
58436914 AATTGCCAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:58440901 original size:27 final size:28
Alignment explanation
Indices: 58440850--58440909 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
58440840 ATATAGGGAG
58440850 AAAATATAAAAATTATTAAAAATTTATAT
1 AAAATATAAAAATTATTAAAAATTTAT-T
* *
58440879 AAAATAT-AAAA-TATTTAATATTTATT
1 AAAATATAAAAATTATTAAAAATTTATT
58440905 AAAAT
1 AAAAT
58440910 TTTGGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 12 0.41
28 4 0.14
29 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAATATAAAAATTATTAAAAATTTATT
Found at i:58440950 original size:11 final size:10
Alignment explanation
Indices: 58440915--58440948 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
58440905 AAAATTTTGG
58440915 AAAATATTAAA
1 AAAATA-TAAA
58440926 AAAAT-TAAA
1 AAAATATAAA
58440935 AAAATATAAA
1 AAAATATAAA
58440945 AAAA
1 AAAA
58440949 ATTTATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 8 0.36
11 5 0.23
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATATAAA
Found at i:58442311 original size:62 final size:62
Alignment explanation
Indices: 58442149--58442329 Score: 172
Period size: 63 Copynumber: 2.9 Consensus size: 62
58442139 AACACCCGTC
* * * * * * *
58442149 TCCCTGGCCTATGTGACCTTAAATCCAAAATAGTGAGGTGCACGGCTTGGACACACGCTCTTG
1 TCCCTAGCCTGTGT-ACCTCAAATCCAAAACAGTGAGTTACACGGCTTGGACACACGCTCGTG
* *
58442212 TCCCTAGCCTGTGTGACC-CAAAAAT-CTAGACAGTGAGTTACACGGCTTGGACACACGC-CGTG
1 TCCCTAGCCTGTGT-ACCTC--AAATCCAAAACAGTGAGTTACACGGCTTGGACACACGCTCGTG
* * * *
58442274 TCTCTAGCTTGTGTACCTCAAATTCCAAAACAGTGAGTTACATGGC-TAGACACACG
1 TCCCTAGCCTGTGTACCTCAAA-TCCAAAACAGTGAGTTACACGGCTTGGACACACG
58442330 GCCATGTGGC
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
60 3 0.03
61 13 0.13
62 34 0.35
63 44 0.45
64 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (62 bp):
TCCCTAGCCTGTGTACCTCAAATCCAAAACAGTGAGTTACACGGCTTGGACACACGCTCGTG
Found at i:58443810 original size:28 final size:30
Alignment explanation
Indices: 58443739--58443810 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
58443729 TTAACAATTT
58443739 TTTCTAATTTTTTTTATAAATTTTAAATATC
1 TTTCT-ATTTTTTTTATAAATTTTAAATATC
*
58443770 TTTCTA-TTTTTTTAT-AATTTTGAATAT-
1 TTTCTATTTTTTTTATAAATTTTAAATATC
58443797 TTT-TATTTTCTTTT
1 TTTCTATTTT-TTTT
58443811 CTGGATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 2 0.05
27 6 0.16
28 15 0.39
29 9 0.24
30 1 0.03
31 5 0.13
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.68
Consensus pattern (30 bp):
TTTCTATTTTTTTTATAAATTTTAAATATC
Found at i:58447943 original size:16 final size:16
Alignment explanation
Indices: 58447922--58447961 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
58447912 TAAATTACTG
58447922 ATTACAG-CTCTATTCC
1 ATTACAGTC-CTATTCC
58447938 ATTACAGTCCTATTCC
1 ATTACAGTCCTATTCC
58447954 ATTACAGT
1 ATTACAGT
58447962 GAACCAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGTCCTATTCC
Found at i:58448583 original size:21 final size:21
Alignment explanation
Indices: 58448559--58448598 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58448549 CATCACCAAC
58448559 CCTTAACT-CTAACCTCATAAA
1 CCTTAACTGCTAA-CTCATAAA
*
58448580 CCTTAAGTGCTAACTCATA
1 CCTTAACTGCTAACTCATA
58448599 TTCTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (21 bp):
CCTTAACTGCTAACTCATAAA
Found at i:58455078 original size:26 final size:26
Alignment explanation
Indices: 58455047--58455106 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
58455037 TTTACCCCAA
* *
58455047 TAAAATTTTGACGATTTTATCCCTGG
1 TAAAATTTTAACGATTTTAGCCCTGG
* * *
58455073 TAAAATTTTAATGATTTTGGCCGTGG
1 TAAAATTTTAACGATTTTAGCCCTGG
58455099 TAAAATTT
1 TAAAATTT
58455107 CGAGAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (26 bp):
TAAAATTTTAACGATTTTAGCCCTGG
Found at i:58457828 original size:13 final size:13
Alignment explanation
Indices: 58457810--58457834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58457800 TAAAAATATT
58457810 AAATTAATATTTA
1 AAATTAATATTTA
58457823 AAATTAATATTT
1 AAATTAATATTT
58457835 CAGTGAATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTAATATTTA
Found at i:58458439 original size:14 final size:13
Alignment explanation
Indices: 58458408--58458436 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58458398 TATCTCTTTG
58458408 TTTTCAATTGCTT
1 TTTTCAATTGCTT
58458421 TTTTCAATTG-TT
1 TTTTCAATTGCTT
58458433 TTTT
1 TTTT
58458437 TTCTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTCAATTGCTT
Found at i:58460311 original size:27 final size:27
Alignment explanation
Indices: 58460272--58460367 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
58460262 TAGGTTGTGG
* *
58460272 CTATTTCATAGGCACAACTAGTTGAGC
1 CTATCTCAAAGGCACAACTAGTTGAGC
* *
58460299 CTATCTCAAAGGCGCGACTAGTTGAGC
1 CTATCTCAAAGGCACAACTAGTTGAGC
* * * * *
58460326 CTATCTGACAGGCGCTACTAGTTGTGC
1 CTATCTCAAAGGCACAACTAGTTGAGC
* *
58460353 CTAACTCAGAGGCAC
1 CTATCTCAAAGGCAC
58460368 GAATGGTGGG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (27 bp):
CTATCTCAAAGGCACAACTAGTTGAGC
Found at i:58463740 original size:60 final size:60
Alignment explanation
Indices: 58463647--58463765 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
58463637 ATACTAATCT
* * * *
58463647 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
58463707 AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
58463766 TAAAAAGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:58463777 original size:60 final size:60
Alignment explanation
Indices: 58463659--58463777 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
58463649 ACACAACAAT
* * *
58463659 TTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAACACAAAAAG
1 TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAACAAAAAG
* *
58463719 TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAGAAAAA
1 TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAACAAAAA
58463778 AAATTACATT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (60 bp):
TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAACAAAAAG
Found at i:58463931 original size:3 final size:3
Alignment explanation
Indices: 58463925--58463954 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
58463915 CTTTCTTTAT
58463925 TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
58463955 CCTTTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:58464279 original size:23 final size:23
Alignment explanation
Indices: 58464215--58464279 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
58464205 ATATATATTT
* *
58464215 AAATATTTTTAATAAAAATAAAA
1 AAATATTTTTAATATAAACAAAA
* *
58464238 AATTAATATTTT-ATTTAAACAAAA
1 AAAT-AT-TTTTAATATAAACAAAA
58464262 AAATATTTTTAATATAAA
1 AAATATTTTTAATATAAA
58464280 AAATCGATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
22 4 0.12
23 11 0.33
24 14 0.42
25 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTTTTAATATAAACAAAA
Found at i:58468559 original size:98 final size:98
Alignment explanation
Indices: 58468355--58468538 Score: 239
Period size: 98 Copynumber: 1.9 Consensus size: 98
58468345 TTACTTTATC
* * *
58468355 TTTT-TAATTAATAGCTCTTTTATCCATATAAATAAAATAATAAATATGTAATTATATAATGAAA
1 TTTTATAATTAATAACTCATTTATCCATATAAACAAAATAATAAATATGTAATTATATAATGAAA
**
58468419 ATATATTTGATATATTTCATTATGTTAAAAATA
66 ATATATTTGATATATTAAATTATGTTAAAAATA
* ** *
58468452 TTTTTTAATTAATAACTCATTTATTTATATAAACAAAATAATAAATATGT-GTGTGATATAATGA
1 TTTTATAATTAATAACTCATTTATCCATATAAACAAAATAATAAATATGTAAT-T-ATATAATGA
*
58468516 AAATATATTTTATATA-TAAATTA
64 AAATATATTTGATATATTAAATTA
58468539 ATTTTATTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
97 5 0.07
98 46 0.61
99 24 0.32
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (98 bp):
TTTTATAATTAATAACTCATTTATCCATATAAACAAAATAATAAATATGTAATTATATAATGAAA
ATATATTTGATATATTAAATTATGTTAAAAATA
Found at i:58468677 original size:35 final size:32
Alignment explanation
Indices: 58468634--58468709 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
58468624 ATCAAATAAT
*
58468634 TATTTCAAACAACATTATTACTTTTATATGTAAAA
1 TATTTCAAACAACATTA-T--GTTTATATGTAAAA
* * *
58468669 TATTTCAAATATCATTATGTTTATATGTTAAA
1 TATTTCAAACAACATTATGTTTATATGTAAAA
58468701 TATTTCAAA
1 TATTTCAAA
58468710 TACATATACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 21 0.57
34 1 0.03
35 15 0.41
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (32 bp):
TATTTCAAACAACATTATGTTTATATGTAAAA
Found at i:58472936 original size:20 final size:19
Alignment explanation
Indices: 58472903--58472940 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
58472893 GTCTCTCTAG
*
58472903 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATTT
58472922 GCATTGCATTACATGCATT
1 GCATT-CATTACATGCATT
58472941 AAAATCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (19 bp):
GCATTCATTACATGCATTT
Found at i:58474686 original size:29 final size:29
Alignment explanation
Indices: 58474647--58474702 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
58474637 ACGATTCAAA
*
58474647 AAAAAAAGAAAAAAATCAAGGTCAAAAGC
1 AAAAAAAGAAAAAAATCAAAGTCAAAAGC
* **
58474676 AAAAAGAGAAATCAATCAAAGTCAAAA
1 AAAAAAAGAAAAAAATCAAAGTCAAAA
58474703 TAAAAATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.68, C:0.11, G:0.12, T:0.09
Consensus pattern (29 bp):
AAAAAAAGAAAAAAATCAAAGTCAAAAGC
Found at i:58474708 original size:29 final size:26
Alignment explanation
Indices: 58474642--58474708 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 26
58474632 CAGATACGAT
*
58474642 TCAAAAAAAAAAGAAAAAAATCAAGG
1 TCAAAAAAAAAAGAAAAAAATCAAAG
**
58474668 TCAAAAGCAAAAAGAGAAATCAATCAAAG
1 TCAAAA--AAAAA-AGAAAAAAATCAAAG
*
58474697 TCAAAATAAAAA
1 TCAAAAAAAAAA
58474709 TATGAAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 7 0.21
27 4 0.12
28 5 0.15
29 18 0.53
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.10
Consensus pattern (26 bp):
TCAAAAAAAAAAGAAAAAAATCAAAG
Found at i:58474720 original size:5 final size:5
Alignment explanation
Indices: 58474712--58474737 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
58474702 ATAAAAATAT
58474712 GAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA G
58474738 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:58475633 original size:7 final size:7
Alignment explanation
Indices: 58475606--58475652 Score: 55
Period size: 6 Copynumber: 7.0 Consensus size: 7
58475596 AGTCAGAAAA
58475606 AAAAGATG
1 AAAA-ATG
58475614 AAAAATG
1 AAAAATG
*
58475621 -AGAATG
1 AAAAATG
58475627 AAAAATG
1 AAAAATG
58475634 -AAAATG
1 AAAAATG
58475640 AAAAA-G
1 AAAAATG
58475646 AAAAATG
1 AAAAATG
58475653 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
6 17 0.50
7 13 0.38
8 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:58475639 original size:19 final size:19
Alignment explanation
Indices: 58475601--58475652 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
58475591 CTCTGAGTCA
*
58475601 GAAAAA-AAAGATGAAAAAT
1 GAAAAAGAAAAATG-AAAAT
* *
58475620 GAGAATGAAAAATGAAAAT
1 GAAAAAGAAAAATGAAAAT
58475639 GAAAAAGAAAAATG
1 GAAAAAGAAAAATG
58475653 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (19 bp):
GAAAAAGAAAAATGAAAAT
Found at i:58475652 original size:13 final size:13
Alignment explanation
Indices: 58475611--58475649 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
58475601 GAAAAAAAAG
*
58475611 ATGAAAAATGAGA
1 ATGAAAAATGAAA
58475624 ATGAAAAATGAAA
1 ATGAAAAATGAAA
58475637 ATGAAAAA-GAAA
1 ATGAAAAATGAAA
58475649 A
1 A
58475650 ATGGAGAGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:58477224 original size:44 final size:44
Alignment explanation
Indices: 58477158--58477527 Score: 160
Period size: 44 Copynumber: 8.0 Consensus size: 44
58477148 ATCACATCAT
* *
58477158 ATTGAAGCCAGAAAT-CTAATCTCCCTGAGATTACAGCGGAGCAG
1 ATTGAAGCTAGTAATCCT-ATCTCCCTGAGATTACAGCGGAGCAG
*
58477202 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAG
1 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAG
** * ** * * * *
58477246 ATT-AAAATAAATGGTCTTATCTCTCTGA-AGTTACAGTAGAGTACATCACATCAG
1 ATTGAAGCT-AGTAATCCTATCTCCCTGAGA-TTACAG-CG-G--------AGCAG
* * * *
58477300 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAG
1 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAG
* * * ***
58477344 ATTGAAGTTAGTAATCCTATCTCCCTAAGATTACAGTGGAATGG
1 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAG
** * * * *
58477388 ATT-AAAATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAG
1 ATTGAAGCT--AGTAATCCTATCTCCCTGAGA-TTAC---AGCG--GA--G---CAG
* * *
58477442 ATTGAAGCTAG-ATATCTTATCTCCCTGAGATTACCGCGGAGCCG
1 ATTGAAGCTAGTA-ATCCTATCTCCCTGAGATTACAGCGGAGCAG
*
58477486 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
1 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGCGGAGC
58477528 GAAATTAAAA
Statistics
Matches: 243, Mismatches: 51, Indels: 64
0.68 0.14 0.18
Matches are distributed among these distances:
43 8 0.03
44 158 0.65
45 6 0.02
46 1 0.00
47 4 0.02
49 4 0.02
51 2 0.01
52 1 0.00
53 3 0.01
54 49 0.20
55 7 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAG
Found at i:58477281 original size:142 final size:142
Alignment explanation
Indices: 58477013--58477584 Score: 896
Period size: 142 Copynumber: 4.0 Consensus size: 142
58477003 TGTAAGGAAA
* *
58477013 CAGATTTAAGCCACAAATCCTT-TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 CAGATTGAAGCCAGAAAT-CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
* * *
58477077 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAGGGTCTTATCTCTCTGAAGCTACAGTA
65 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
58477142 TAGTAGATCACAT
130 GAGTAGATCACAT
* *
58477155 CATATTGAAGCCAGAAATCTAATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
58477220 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAATGG-TCTTATCTCTCTGAAGTTACAGTA
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAA-GGATCTTATCTCTCTGAAGTTACAGTA
*
58477284 GAGTACATCACAT
130 GAGTAGATCACAT
* *
58477297 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* ***
58477362 ATCTCCCTAAGATTACAGTGGAATGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
58477427 AGTAGATCGCAT
131 AGTAGATCACAT
* * * *
58477439 CAGATTGAAGCTAGATATCTTATCTCCCTGAGATTACCGCGGAGCCGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
58477504 ATCTCCCTGAGATTACAGTGGAGCGAAATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTA
66 ATCTCCCTGAGATTACAGTGGAGC-AGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
58477569 GAGTAGATCGCAT
130 GAGTAGATCACAT
58477582 CAG
1 CAG
58477585 GTCTTATCTC
Statistics
Matches: 396, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
141 4 0.01
142 337 0.85
143 55 0.14
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCACAT
Found at i:58477378 original size:98 final size:98
Alignment explanation
Indices: 58477199--58477380 Score: 231
Period size: 98 Copynumber: 1.9 Consensus size: 98
58477189 TACAGCGGAG
* * * ** *
58477199 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAATGGTCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAATAATCCT
*
58477264 ATCTCTCTGAAGTTACAGTAGAGTACATCACAT
66 ATCTCCCTGAAGTTACAGTAGAGTACATCACAT
* * * * * *
58477297 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGTTAGTAATCCT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAATAATCCT
58477362 ATCTCCCT-AAGATTACAGT
66 ATCTCCCTGAAG-TTACAGT
58477381 GGAATGGATT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
97 3 0.04
98 67 0.96
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (98 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAATAATCCT
ATCTCCCTGAAGTTACAGTAGAGTACATCACAT
Found at i:58477784 original size:50 final size:49
Alignment explanation
Indices: 58477660--58477841 Score: 116
Period size: 50 Copynumber: 3.6 Consensus size: 49
58477650 AACGTGGAAC
** * * * * * * * *
58477660 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAATATTACAGTTAAAG
1 AGATTAAAGCCACAACGGCAAATCTT-ATTTCCCGACAGTGCAGCTAAAA
* ** * *
58477710 AGATTAAAGCTACAACAACGAATCTTATTTCCCAGACAGTGCAG-TAGAGCA
1 AGATTAAAGCCACAACGGCAAATCTTATTTCCC-GACAGTGCAGCTA-A-AA
* * ** *
58477761 AG-TTAAAGCCACAACGGTAAATCTTGCTTTTTCGACATTGCAGCTAAAA
1 AGATTAAAGCCACAACGGCAAATCTT-ATTTCCCGACAGTGCAGCTAAAA
58477810 AGATTAAAGCCACAACGGCAAATCTTACTTTC
1 AGATTAAAGCCACAACGGCAAATCTTA-TTTC
58477842 TAAAAGTTAC
Statistics
Matches: 100, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
49 10 0.10
50 82 0.82
51 8 0.08
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (49 bp):
AGATTAAAGCCACAACGGCAAATCTTATTTCCCGACAGTGCAGCTAAAA
Found at i:58479285 original size:12 final size:12
Alignment explanation
Indices: 58479248--58479285 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
58479238 TTATTAAACT
*
58479248 TTTATATCATTA
1 TTTATATTATTA
*
58479260 TATATATTATTA
1 TTTATATTATTA
58479272 TTTATATTATTA
1 TTTATATTATTA
58479284 TT
1 TT
58479286 AAACTTTTAA
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:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:58479285 original size:43 final size:42
Alignment explanation
Indices: 58479226--58479316 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 42
58479216 TTTTTATACA
*
58479226 TATTA-TTATATGTTATTAAACTTTT-ATATCATTATATATAT
1 TATTATTTATATATTATTAAACTTTTAAT-TCATTATATATAT
**
58479267 TATTATTTATATTATTATTAAACTTTTAATTTTTTATATATAT
1 TATTATTTATA-TATTATTAAACTTTTAATTCATTATATATAT
58479310 TACTTAT
1 TA-TTAT
58479317 CTAGACTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 5 0.12
42 5 0.12
43 27 0.63
44 6 0.14
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (42 bp):
TATTATTTATATATTATTAAACTTTTAATTCATTATATATAT
Found at i:58482610 original size:31 final size:31
Alignment explanation
Indices: 58482575--58482641 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
58482565 TCATCTTGAG
*
58482575 TTGCCCGACAACAATGACTTACTACCCTGGA
1 TTGCCCGACAACAATGACTTACCACCCTGGA
* * * **
58482606 TTGCCTGGCGAGGATGACTTACCACCCTGGA
1 TTGCCCGACAACAATGACTTACCACCCTGGA
58482637 TTGCC
1 TTGCC
58482642 TAGCAACGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (31 bp):
TTGCCCGACAACAATGACTTACCACCCTGGA
Found at i:58482734 original size:107 final size:104
Alignment explanation
Indices: 58482497--58482782 Score: 227
Period size: 107 Copynumber: 2.7 Consensus size: 104
58482487 TACCACCCCA
* * *
58482497 GATTGCCCAACGAAGATAGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATTCAATT
1 GATTGCCCGACGAA-ATGGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATCCAATT
*
58482562 CTGTCATCTTGAGTTGCCCGACAACAATGACTTACTACCCTG
65 CTGTCATCATGAGTTGCCCG--AACAATGACTTACTACCCTG
* * * * * *
58482604 GATTGCCTGGCGAGGATGACTTACCACCCTGGATTGCCT-AGCAACGATGGTTTATTGATCCAAT
1 GATTGCCCGACGA-AATGGCTTACCACCCCGGATTGCCTGA-CAACGATGGTTTATCGATCCAAT
* * * * * *
58482668 TTTGTTATCATGGGTTGTCCG-GCAATGAC-TACCTGCCACCTAG
64 TCTGTCATCATGAGTTGCCCGAACAATGACTTA-CT-AC-CCT-G
* *** * * * * *
58482711 GATTGCCCGACGACAATGGCTTACCATCTTAGATTTCCCGACAATGATGGTTTATCAATTCAATT
1 GATTGCCCGACGA-AATGGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATCCAATT
*
58482776 ATGTCAT
65 CTGTCAT
58482783 TTCGGATTGC
Statistics
Matches: 140, Mismatches: 32, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
103 2 0.01
104 9 0.06
105 1 0.01
106 4 0.03
107 123 0.88
108 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (104 bp):
GATTGCCCGACGAAATGGCTTACCACCCCGGATTGCCTGACAACGATGGTTTATCGATCCAATTC
TGTCATCATGAGTTGCCCGAACAATGACTTACTACCCTG
Found at i:58485900 original size:21 final size:21
Alignment explanation
Indices: 58485876--58485924 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
58485866 TTATAATTAA
*
58485876 TTTATTTTGTTCGCTAACGTG
1 TTTATTTTGTTCGCTAACATG
58485897 TTTATTTTGTTCGCTAACATG
1 TTTATTTTGTTCGCTAACATG
58485918 TTT-TTTT
1 TTTATTTT
58485925 CTAACACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.59
Consensus pattern (21 bp):
TTTATTTTGTTCGCTAACATG
Found at i:58486339 original size:29 final size:28
Alignment explanation
Indices: 58486291--58486358 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
58486281 AACCTATAAC
*
58486291 CACATATATATTATAAATAATAAAACCCA
1 CACATATATATTATAAATAACAAAA-CCA
** *
58486320 CACATATATATTATGTATAACAGAACCA
1 CACATATATATTATAAATAACAAAACCA
*
58486348 CGCATATATAT
1 CACATATATAT
58486359 GTACTATGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (28 bp):
CACATATATATTATAAATAACAAAACCA
Found at i:58486456 original size:35 final size:30
Alignment explanation
Indices: 58486416--58486500 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 30
58486406 CGCATGCATG
58486416 CATATATATTATTATATATATAGCACCAAAACC
1 CATATATATTATTATATATATA--A-CAAAACC
*
58486449 CATATATATTA-TATATAAATAACAAAACC
1 CATATATATTATTATATATATAACAAAACC
*
58486478 CCTATAGGTATATATTATATATA
1 CATATA--TAT-TATTATATATA
58486501 CACATACATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
29 12 0.27
30 1 0.02
31 3 0.07
32 11 0.24
33 18 0.40
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (30 bp):
CATATATATTATTATATATATAACAAAACC
Found at i:58487021 original size:19 final size:20
Alignment explanation
Indices: 58486992--58487031 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
58486982 ATTTTCTTAA
*
58486992 TAATTTAAGAAAAACATAAT
1 TAATTTAAGAAAAAAATAAT
58487012 TAATTT-AGAAAAAAATAAT
1 TAATTTAAGAAAAAAATAAT
58487031 T
1 T
58487032 TATCAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
TAATTTAAGAAAAAAATAAT
Found at i:58499943 original size:16 final size:16
Alignment explanation
Indices: 58499906--58499945 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
58499896 TTGATAAAAT
* *
58499906 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
58499922 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
58499938 TAAAATTA
1 TAAAATTA
58499946 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:58500010 original size:66 final size:68
Alignment explanation
Indices: 58499934--58500079 Score: 206
Period size: 75 Copynumber: 2.1 Consensus size: 68
58499924 AAATTAATTG
*
58499934 TTAGTAAAATTATCAAATTATTAATTG-TTAATTG-TATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTGTAACAAAATCTAACATT
58499997 TGA
66 TGA
58500000 TTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTATATTAATTGTTGTAACAAAATC
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTG-----T-TATTAATTGTTGTAACAAAATC
58500065 TAACATTTGA
59 TAACATTTGA
58500075 TTAGT
1 TTAGT
58500080 TTACATTTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
66 27 0.39
68 7 0.10
75 36 0.51
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTGTAACAAAATCTAACATT
TGA
Found at i:58500039 original size:16 final size:16
Alignment explanation
Indices: 58500015--58500053 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
58500005 AAAATTATCA
* *
58500015 AATTATTAATTGTATT
1 AATTGTTAATTATATT
58500031 AATTGTTAATTATATT
1 AATTGTTAATTATATT
58500047 AATTGTT
1 AATTGTT
58500054 GTAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTATATT
Found at i:58500331 original size:20 final size:20
Alignment explanation
Indices: 58500290--58500374 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
58500280 TCTGTCAAGG
* *
58500290 AAATGAAATTGAACAC-TAA
1 AAATAAAATTGAAAACATAA
58500309 AAATAAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
58500329 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
*
58500349 ACTAA-AAACTT--AAACATAA
1 A--AATAAAATTGAAAACATAA
58500368 AAATAAA
1 AAATAAA
58500375 TATATATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.04
18 3 0.05
19 22 0.39
20 23 0.40
21 5 0.09
22 2 0.04
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:58500439 original size:20 final size:20
Alignment explanation
Indices: 58500411--58500451 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
58500401 AATGTCGGGG
*
58500411 AAATGAAATTGAAAACATAA
1 AAATAAAATTGAAAACATAA
*
58500431 AAATAAAATTGAAAACTTAA
1 AAATAAAATTGAAAACATAA
58500451 A
1 A
58500452 CTGTCAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (20 bp):
AAATAAAATTGAAAACATAA
Found at i:58500543 original size:16 final size:16
Alignment explanation
Indices: 58500522--58500554 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58500512 TATATTTTTT
58500522 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
58500538 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
58500554 A
1 A
58500555 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:58500808 original size:27 final size:27
Alignment explanation
Indices: 58500778--58500838 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
58500768 AAAGGAAGTA
58500778 TTTGTGGCGATCTATGAAAAGGA-GGCC
1 TTTGTGGCGATCTATG-AAAGGATGGCC
*
58500805 TTTGTGGCGATCTATGAAAGGATTGCC
1 TTTGTGGCGATCTATGAAAGGATGGCC
58500832 TTTGTGG
1 TTTGTGG
58500839 TGAACTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (27 bp):
TTTGTGGCGATCTATGAAAGGATGGCC
Found at i:58509976 original size:15 final size:13
Alignment explanation
Indices: 58509936--58509971 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
58509926 TTTTAAACAA
58509936 GTCTAATTTTTTT
1 GTCTAATTTTTTT
58509949 GTCTAATTTTTTT
1 GTCTAATTTTTTT
*
58509962 GTGTAATTTT
1 GTCTAATTTT
58509972 ATTTTTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (13 bp):
GTCTAATTTTTTT
Found at i:58510455 original size:31 final size:30
Alignment explanation
Indices: 58510398--58510457 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
58510388 ACATGCACTA
*
58510398 TTTTTTATCAGTTTGGTCATTGTACTTTAC
1 TTTTTTATCAGTTTGGTCATTATACTTTAC
*
58510428 TTTTGTTATCAGTTTGG-CCTCTATACTTTA
1 TTTT-TTATCAGTTTGGTCAT-TATACTTTA
58510458 ATTATGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.55
Consensus pattern (30 bp):
TTTTTTATCAGTTTGGTCATTATACTTTAC
Found at i:58510713 original size:11 final size:11
Alignment explanation
Indices: 58510697--58510722 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58510687 CGTAATTATG
58510697 AAAAAAATTCA
1 AAAAAAATTCA
58510708 AAAAAAATTCA
1 AAAAAAATTCA
58510719 AAAA
1 AAAA
58510723 TACGTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:58516831 original size:29 final size:29
Alignment explanation
Indices: 58516794--58516852 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
58516784 GCAAGTAGGT
58516794 AAGGTTCTTAACCCTTCTAGGTACGTAAA
1 AAGGTTCTTAACCCTTCTAGGTACGTAAA
58516823 AAGGTTCTTAACCCTTCTAGGTACGTAAA
1 AAGGTTCTTAACCCTTCTAGGTACGTAAA
58516852 A
1 A
58516853 GTTAAGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (29 bp):
AAGGTTCTTAACCCTTCTAGGTACGTAAA
Found at i:58517566 original size:58 final size:57
Alignment explanation
Indices: 58517430--58517568 Score: 163
Period size: 57 Copynumber: 2.4 Consensus size: 57
58517420 TGGTACATAG
* ** * * *
58517430 CGTAAGACCATGGATGAAAGACGTCATGGCAACATGGTATACGGTAAAGGTATATGG
1 CGTAAGACCATGGATGAAAGACGCCATGGCAACATGGTATAAAGTAAAGGTAAACGA
* **
58517487 CATAAGACCATGGATGAAAGACGCCATGGCGGCAAT-GTATAAAGTATAAGGTAAACGA
1 CGTAAGACCATGGATGAAAGACGCCATGGCAAC-ATGGTATAAAGTA-AAGGTAAACGA
*
58517545 CGTAAGACCATAGATGAAAGACGC
1 CGTAAGACCATGGATGAAAGACGC
58517569 TTTGACAGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 37 0.54
58 32 0.46
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (57 bp):
CGTAAGACCATGGATGAAAGACGCCATGGCAACATGGTATAAAGTAAAGGTAAACGA
Found at i:58517793 original size:29 final size:29
Alignment explanation
Indices: 58517735--58517793 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
58517725 AAGTCTGTTT
* *
58517735 GGACATTAAACACAAGGTAAGTTCGTTGG
1 GGACAGTAAACACAAGGTAAGTTCGATGG
*
58517764 GGACAGTAAACACGAGGTAAG-TCTGATGG
1 GGACAGTAAACACAAGGTAAGTTC-GATGG
58517793 G
1 G
58517794 ATGCAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (29 bp):
GGACAGTAAACACAAGGTAAGTTCGATGG
Found at i:58530857 original size:6 final size:6
Alignment explanation
Indices: 58530846--58530881 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
58530836 TGTTTTCTCA
*
58530846 AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
58530882 AATTCATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:58530863 original size:12 final size:12
Alignment explanation
Indices: 58530845--58530883 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
58530835 TTGTTTTCTC
58530845 AAAATGGAAATG
1 AAAATGGAAATG
*
58530857 GAAATGGAAATG
1 AAAATGGAAATG
58530869 AAAATGAGAAATG
1 AAAATG-GAAATG
58530882 AA
1 AA
58530884 TTCATTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:58538699 original size:16 final size:16
Alignment explanation
Indices: 58538675--58538714 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
58538665 TGGGTTTGGA
*
58538675 AAATGTAGTGGAAAAT
1 AAATTTAGTGGAAAAT
58538691 AAATTTAGTGGAAAAT
1 AAATTTAGTGGAAAAT
58538707 AAATTTAG
1 AAATTTAG
58538715 GAAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (16 bp):
AAATTTAGTGGAAAAT
Found at i:58538722 original size:16 final size:16
Alignment explanation
Indices: 58538675--58538720 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
58538665 TGGGTTTGGA
* *
58538675 AAATGTAGTGGAAAAT
1 AAATTTAGTGAAAAAT
*
58538691 AAATTTAGTGGAAAAT
1 AAATTTAGTGAAAAAT
58538707 AAATTTAG-GAAAAA
1 AAATTTAGTGAAAAA
58538721 ATTAGAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (16 bp):
AAATTTAGTGAAAAAT
Found at i:58539267 original size:20 final size:18
Alignment explanation
Indices: 58539220--58539268 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
58539210 TAAGATACAC
58539220 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
58539237 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
58539257 ATTAAATTAATA
1 ATTAAATTAATA
58539269 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:58540821 original size:45 final size:45
Alignment explanation
Indices: 58540763--58540863 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 45
58540753 GTAACTGTAG
* *
58540763 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAATGTC-GAATCGGTAA
* *
58540808 TAGTAACGGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
58540853 CAGTAACAGTA
1 CAGTAACAGTA
58540864 GTCGGCATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
Found at i:58545801 original size:16 final size:16
Alignment explanation
Indices: 58545780--58545848 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
58545770 GATTAGCTAT
*
58545780 TACACCACTAATCCAA
1 TACACCTCTAATCCAA
58545796 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
58545813 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58545829 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58545845 TACA
1 TACA
58545849 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58545824 original size:33 final size:32
Alignment explanation
Indices: 58545780--58545848 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
58545770 GATTAGCTAT
58545780 TACACCACTAATCCAATACACCTCTAATCCCAA
1 TACACCACTAATCCAATACACCTCTAAT-CCAA
*
58545813 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCACTAATCCAATACACCTCTAATCCAA
58545845 TACA
1 TACA
58545849 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (32 bp):
TACACCACTAATCCAATACACCTCTAATCCAA
Found at i:58546143 original size:29 final size:30
Alignment explanation
Indices: 58546090--58546146 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
58546080 TTATCAAATA
58546090 AATAAAATATTTTAATATAATAATTTAATT
1 AATAAAATATTTTAATATAATAATTTAATT
*
58546120 AATAAATATATTTTACT-TAA-AATTTAA
1 AATAAA-ATATTTTAATATAATAATTTAA
58546147 GAAAATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AATAAAATATTTTAATATAATAATTTAATT
Found at i:58548078 original size:27 final size:26
Alignment explanation
Indices: 58548035--58548153 Score: 80
Period size: 27 Copynumber: 4.4 Consensus size: 26
58548025 CAACTATGAT
* *
58548035 CCCCATGTTT-TACGTCCTAGCAGATTA
1 CCCCATGTTTAT-TGTCCT-GCAGACTA
** *
58548062 CCCTGTGTTTATTGTCCCTGTAGACTA
1 CCCCATGTTTATTGT-CCTGCAGACTA
*
58548089 CCCCATGTTTATTGTCCCG-ATGGACTA
1 CCCCATGTTTATTGTCCTGCA--GACTA
* *
58548116 CCCCATGTTTACTGTCCCAGCAGACTA
1 CCCCATGTTTATTGT-CCTGCAGACTA
**
58548143 TTCCATGTTTA
1 CCCCATGTTTA
58548154 CTATCTTGAC
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.01
26 3 0.04
27 62 0.84
28 7 0.09
29 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (26 bp):
CCCCATGTTTATTGTCCTGCAGACTA
Found at i:58549583 original size:47 final size:47
Alignment explanation
Indices: 58549529--58549622 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
58549519 ATCTGAAAAG
58549529 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
1 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
58549576 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
1 ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
58549623 CTCAAAGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (47 bp):
ATTGTTAAAACTTTTCTAAAAGAAAACTCAAAAAATAAATTTATTAA
Found at i:58554651 original size:105 final size:105
Alignment explanation
Indices: 58554463--58554673 Score: 377
Period size: 105 Copynumber: 2.0 Consensus size: 105
58554453 GAAACAGTAC
*
58554463 CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAACAGTTTATTCACCT
1 CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAACAATTTATTCACCT
*
58554528 AATATCTTGATTCATAGAAATCCCTAAATTATGCTAATAT
66 AATATCTTGATCCATAGAAATCCCTAAATTATGCTAATAT
* *
58554568 CCAGGAAAGAATCCGCCTAGACTGCATCTTTCATTATCAATCTGAATTAAACAATTTATTCACCT
1 CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAACAATTTATTCACCT
*
58554633 AATATCTTGATCCGTAGAAATCCCTAAATTATGCTAATAT
66 AATATCTTGATCCATAGAAATCCCTAAATTATGCTAATAT
58554673 C
1 C
58554674 TCTCTTCAAG
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (105 bp):
CCAGGAAAGAATCCGCCTAGACTGCATCTGTCATTATCAACCTGAATTAAACAATTTATTCACCT
AATATCTTGATCCATAGAAATCCCTAAATTATGCTAATAT
Found at i:58556506 original size:21 final size:21
Alignment explanation
Indices: 58556482--58556529 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
58556472 GTCTTATATG
*
58556482 CTTAATGAATATTTAATTAAT
1 CTTAATGAATATTTAATTAAA
* ** *
58556503 CTTATTTTATTTTTAATTAAA
1 CTTAATGAATATTTAATTAAA
58556524 CTTAAT
1 CTTAAT
58556530 TAGATTAATG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (21 bp):
CTTAATGAATATTTAATTAAA
Found at i:58561698 original size:24 final size:24
Alignment explanation
Indices: 58561646--58561748 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 24
58561636 ATACATGTAT
* *
58561646 GCTCATACGAGCTTTGAAT-TGGTAT
1 GCTCATACAAGC--TGAATATGGTAA
* *
58561671 GCTCTTACTAGCTGTAA-ATGGTAA
1 GCTCATACAAGCTG-AATATGGTAA
58561695 GCTCATACAAGCTGAATATTGGTAA
1 GCTCATACAAGCTGAATA-TGGTAA
* *
58561720 GCTCATGCGAGCTGAATATCGGTAA
1 GCTCATACAAGCTGAATAT-GGTAA
58561745 GCTC
1 GCTC
58561749 TCTCGAGCTG
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.06
24 21 0.32
25 41 0.62
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (24 bp):
GCTCATACAAGCTGAATATGGTAA
Found at i:58561722 original size:25 final size:25
Alignment explanation
Indices: 58561663--58561748 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
58561653 CGAGCTTTGA
* * *
58561663 ATTGGTATGCTCTTACTAGCTGTAA-
1 ATTGGTAAGCTCATACAAGCTG-AAT
58561688 A-TGGTAAGCTCATACAAGCTGAAT
1 ATTGGTAAGCTCATACAAGCTGAAT
* *
58561712 ATTGGTAAGCTCATGCGAGCTGAAT
1 ATTGGTAAGCTCATACAAGCTGAAT
*
58561737 ATCGGTAAGCTC
1 ATTGGTAAGCTC
58561749 TCTCGAGCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.04
24 18 0.34
25 33 0.62
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (25 bp):
ATTGGTAAGCTCATACAAGCTGAAT
Found at i:58561755 original size:25 final size:25
Alignment explanation
Indices: 58561690--58561769 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
58561680 AGCTGTAAAT
* * *
58561690 GGTAAGCTCATACAAGCTGAATATT
1 GGTAAGCTCATGCGAGCTGAATATC
58561715 GGTAAGCTCATGCGAGCTGAATATC
1 GGTAAGCTCATGCGAGCTGAATATC
*
58561740 GGTAAGCTC-TCTCGAGCTGAGA-ATC
1 GGTAAGCTCAT-GCGAGCTGA-ATATC
58561765 GGTAA
1 GGTAA
58561770 CCCTAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCATGCGAGCTGAATATC
Found at i:58568440 original size:17 final size:18
Alignment explanation
Indices: 58568420--58568457 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
58568410 TGGCATGCCA
58568420 ATTGTATTAAAAT-ATTT
1 ATTGTATTAAAATAATTT
*
58568437 ATTGTATTAAATTAATTT
1 ATTGTATTAAAATAATTT
58568455 ATT
1 ATT
58568458 AATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTGTATTAAAATAATTT
Found at i:58576393 original size:301 final size:301
Alignment explanation
Indices: 58575851--58576449 Score: 1198
Period size: 301 Copynumber: 2.0 Consensus size: 301
58575841 ATTTTATAGA
58575851 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
1 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
58575916 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
66 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
58575981 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
131 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
58576046 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
196 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
58576111 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTCGGT
261 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTCGGT
58576152 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
1 TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
58576217 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
66 GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
58576282 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
131 AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
58576347 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
196 TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
58576412 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTC
261 GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTC
58576450 AATTAACAAC
Statistics
Matches: 298, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
301 298 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (301 bp):
TAATTTGTTCTCGAAGCTTAGAAATTAAAATTACAGGCATTGATCTTGAATTAAAAGGAAAGTTG
GACCAAATATTCACTAGATAGTTGACACTCGTCACAAAGCATGGGCACCTTCAAGTATACTCCCT
AATAATTTATTTGAGGATTAAGATAATGAGACACCTTAAAAAAATGAAGAAGGAAATGCAATAGA
TAAAGACAACCAAACTGTAGAACTTCAACTTTGGCTTCAACAACATGTAGGGGTGTGTAAATTTC
GGGTAAAACTGATTTAACTGACTGAACTGAATTAATTCGGT
Found at i:58576461 original size:21 final size:21
Alignment explanation
Indices: 58576436--58576477 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
58576426 TAACTGACTG
58576436 AACTGAATTAATTCAATTAAC
1 AACTGAATTAATTCAATTAAC
58576457 AACTGAATTAATTCAATTAAC
1 AACTGAATTAATTCAATTAAC
58576478 CGGTCGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (21 bp):
AACTGAATTAATTCAATTAAC
Found at i:58588520 original size:16 final size:17
Alignment explanation
Indices: 58588497--58588534 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
58588487 AATAAACAAT
58588497 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
58588512 TAAATTAAATTGGGAAA
1 TAAATTAAATTGGGAAA
58588529 TAAATT
1 TAAATT
58588535 TAGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:58591086 original size:13 final size:13
Alignment explanation
Indices: 58591068--58591093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58591058 CTCCTCGTCT
58591068 TTATTATTTACAA
1 TTATTATTTACAA
58591081 TTATTATTTACAA
1 TTATTATTTACAA
58591094 GTTTCATATT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATTATTTACAA
Found at i:58596227 original size:14 final size:14
Alignment explanation
Indices: 58596208--58596241 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
58596198 AAATTTTATT
58596208 TATTTTTTAAAAAA
1 TATTTTTTAAAAAA
**
58596222 TATTTTTTTCAAAA
1 TATTTTTTAAAAAA
58596236 TATTTT
1 TATTTT
58596242 ATTCAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTTTAAAAAA
Found at i:58596246 original size:14 final size:14
Alignment explanation
Indices: 58596218--58596247 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58596208 TATTTTTTAA
*
58596218 AAAATATTTTTTTC
1 AAAATATTTTATTC
58596232 AAAATATTTTATTC
1 AAAATATTTTATTC
58596246 AA
1 AA
58596248 GTTAGAATAA
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:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
AAAATATTTTATTC
Found at i:58598534 original size:21 final size:19
Alignment explanation
Indices: 58598487--58598537 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
58598477 AAAAAAATTA
*
58598487 TTTACTTTTAAAGGATTTT
1 TTTATTTTTAAAGGATTTT
*
58598506 TTTAATTTTTGAAATGATATTT
1 TTT-ATTTTT-AAAGGAT-TTT
58598528 TTTATTTTTA
1 TTTATTTTTA
58598538 TGACACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.11
20 6 0.22
21 12 0.44
22 6 0.22
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (19 bp):
TTTATTTTTAAAGGATTTT
Found at i:58598838 original size:16 final size:16
Alignment explanation
Indices: 58598817--58598847 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58598807 CATGTTAAAG
58598817 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
58598833 CATATATATTTGAAA
1 CATATAAATTTGAAA
58598848 ACTTTTTTGA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:58598995 original size:10 final size:9
Alignment explanation
Indices: 58598964--58599005 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
58598954 TTTAACTTTC
58598964 TTTATATATT
1 TTTATA-ATT
58598974 CTTTATAATT
1 -TTTATAATT
58598984 TTT-TAAATT
1 TTTAT-AATT
58598993 TTTATAATT
1 TTTATAATT
58599002 TTTA
1 TTTA
58599006 AAAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 18 0.62
10 4 0.14
11 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATAATT
Found at i:58598998 original size:18 final size:18
Alignment explanation
Indices: 58598975--58599098 Score: 61
Period size: 20 Copynumber: 6.6 Consensus size: 18
58598965 TTATATATTC
58598975 TTTATAATTTTTTAAATT
1 TTTATAATTTTTTAAATT
**
58598993 TTTATAA-TTTTTAAAAA
1 TTTATAATTTTTTAAATT
* * **
58599010 TATATAAATTTTGGAATT
1 TTTATAATTTTTTAAATT
** *
58599028 TTTATAAATAATTTGAATT
1 TTTAT-AATTTTTTAAATT
* *
58599047 TTAAAAATTATTTTGAAATT
1 TTTATAATT-TTTT-AAATT
* * *
58599067 TTGAAAATTATTTTGAACTTT
1 TTTATAATT-TTTT-AA-ATT
58599088 TTTATAATTTT
1 TTTATAATTTT
58599099 GGTTAAGAAA
Statistics
Matches: 80, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
17 14 0.17
18 20 0.25
19 15 0.19
20 22 0.28
21 9 0.11
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTATAATTTTTTAAATT
Found at i:58599068 original size:20 final size:20
Alignment explanation
Indices: 58599017--58599088 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
58599007 AAATATATAA
* *
58599017 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAAATTTTAAAAATT
*
58599037 AATTTG-AATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
*
58599056 ATTTTGAAATTTTGAAAATT
1 ATTTTGAAATTTTAAAAATT
*
58599076 ATTTTGAACTTTT
1 ATTTTGAAATTTT
58599089 TTATAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 9 0.20
19 7 0.16
20 28 0.64
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:58602910 original size:10 final size:10
Alignment explanation
Indices: 58602895--58602941 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
58602885 GCTACTAATA
58602895 ACATTTTACC
1 ACATTTTACC
58602905 ACA-TTTACTC
1 ACATTTTAC-C
*
58602915 CCATTTTACC
1 ACATTTTACC
*
58602925 ATATTTTACC
1 ACATTTTACC
*
58602935 ATATTTT
1 ACATTTT
58602942 TAATATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 5 0.16
10 22 0.69
11 5 0.16
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (10 bp):
ACATTTTACC
Found at i:58603721 original size:6 final size:6
Alignment explanation
Indices: 58603706--58603741 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
58603696 AAGCTGGAAC
* *
58603706 AATGGA AATGGG AATGGA AATGGG AATGGG AATGGG
1 AATGGG AATGGG AATGGG AATGGG AATGGG AATGGG
58603742 GGGATGGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.44, T:0.17
Consensus pattern (6 bp):
AATGGG
Found at i:58603723 original size:12 final size:12
Alignment explanation
Indices: 58603706--58603741 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
58603696 AAGCTGGAAC
58603706 AATGGAAATGGG
1 AATGGAAATGGG
58603718 AATGGAAATGGG
1 AATGGAAATGGG
*
58603730 AATGGGAATGGG
1 AATGGAAATGGG
58603742 GGGATGGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.44, T:0.17
Consensus pattern (12 bp):
AATGGAAATGGG
Found at i:58603733 original size:18 final size:18
Alignment explanation
Indices: 58603706--58603740 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58603696 AAGCTGGAAC
58603706 AATGGAAATGGGAATGGA
1 AATGGAAATGGGAATGGA
*
58603724 AATGGGAATGGGAATGG
1 AATGGAAATGGGAATGG
58603741 GGGGATGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (18 bp):
AATGGAAATGGGAATGGA
Found at i:58608140 original size:67 final size:67
Alignment explanation
Indices: 58608032--58608165 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 67
58608022 TATATGAGAT
* * *
58608032 TGGGACATTTGATGTATTGAAAATTGAAATGAGACTCTATTAACTGTTTCGAGCTAAGTCGGATA
1 TGGGACATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAACTGTTTCGAGCTAAGTCAGATA
58608097 TA
66 TA
* * *
58608099 TGGGAGATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAATTGTTTCGGGCTAAGTCAGATA
1 TGGGACATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAACTGTTTCGAGCTAAGTCAGATA
58608164 TA
66 TA
58608166 GATGACATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.34
Consensus pattern (67 bp):
TGGGACATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAACTGTTTCGAGCTAAGTCAGATA
TA
Found at i:58609539 original size:21 final size:22
Alignment explanation
Indices: 58609513--58609555 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
58609503 GAGTTGAATT
58609513 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
58609534 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
58609556 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:58609554 original size:20 final size:21
Alignment explanation
Indices: 58609513--58609556 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
58609503 GAGTTGAATT
*
58609513 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
58609534 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
58609554 TAA
1 TAA
58609557 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:58609709 original size:64 final size:64
Alignment explanation
Indices: 58609625--58609778 Score: 229
Period size: 64 Copynumber: 2.4 Consensus size: 64
58609615 ATATATATTT
* * *
58609625 AAAGTTCTTGAGCTGTATTTAATGTATCAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGCTGAATTTAATGTATCAATTTTACATACATATGTGGTTCAAATATAGGTTAC
* *
58609689 AAAGTTTTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTTTTGAGCTGAATTTAATGTATCAATTTTACATACATATGTGGTTCAAATATAGGTTAC
*
58609753 AAA-TTCTTTAAGCTGAATTTTAATGT
1 AAAGTT-TTTGAGCTGAA-TTTAATGT
58609779 TGTAAATTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
63 2 0.02
64 72 0.88
65 8 0.10
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.42
Consensus pattern (64 bp):
AAAGTTTTTGAGCTGAATTTAATGTATCAATTTTACATACATATGTGGTTCAAATATAGGTTAC
Found at i:58610039 original size:41 final size:41
Alignment explanation
Indices: 58609921--58610027 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
58609911 ATCTGAGATT
* * *
58609921 TTCAGGCTTAATGCCTAGCAGGCTTGATGTCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
* *
58609962 TTTAGACTTTATGTCTAGCAAGCTTGATGTCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
58610003 TTCAGACTTTATGTCTAGCAGGCTT
1 TTCAGACTTTATGTCTAGCAGGCTT
58610028 TGTGCCGGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
Found at i:58612189 original size:20 final size:19
Alignment explanation
Indices: 58612134--58612181 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
58612124 ATGGCAAAGT
* *
58612134 TGAGAAATG-ATTATGAGA
1 TGAGAAATGAAATATGAAA
58612152 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
58612171 TGATGAAATGA
1 TGA-GAAATGA
58612182 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:58612748 original size:599 final size:598
Alignment explanation
Indices: 58611612--58612793 Score: 2328
Period size: 599 Copynumber: 2.0 Consensus size: 598
58611602 TTTTAATGAC
58611612 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
1 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
58611677 AACGCATGATGTACCGATTATGAAAAAGTGATTTTTGATTTTTTTTTATGATTTATGTGACTACA
66 AACGCATGATGTACCGATTATGAAAAAGTGATTTTTGATTTTTTTTTATGATTTATGTGACTACA
*
58611742 TATATGTTCGTTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAAT
131 TATATGTTCATTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAAT
58611807 TGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCGG
196 TGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCGG
58611872 GGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCGATGAGGCACTGGATGCCAAT
261 GGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCGATGAGGCACTGGATGCCAAT
58611937 TTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTACT
326 TTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTACT
58612002 TCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCCG
391 TCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCCG
*
58612067 AGCCCGGGTTGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAAA
456 AGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAAA
58612132 GTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTGTA
521 GTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTGTA
58612197 TCTCATAGACATA
586 TCTCATAGACATA
58612210 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
1 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
*
58612275 AACGCATGATGTGCCGATTATGAAAAAGTGATTTTTGATTTTTTTTTTATGATTTATGTGACTAC
66 AACGCATGATGTACCGATTATGAAAAAGTGATTTTTGA-TTTTTTTTTATGATTTATGTGACTAC
58612340 ATATATGTTCATTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAA
130 ATATATGTTCATTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAA
58612405 TTGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCG
195 TTGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCG
58612470 GGGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCGATGAGGCACTGGATGCCAA
260 GGGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCGATGAGGCACTGGATGCCAA
58612535 TTTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTAC
325 TTTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTAC
58612600 TTCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCC
390 TTCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCC
58612665 GAGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAA
455 GAGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAA
58612730 AGTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTG
520 AGTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTG
58612794 AAATGAGTTC
Statistics
Matches: 580, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
598 102 0.18
599 478 0.82
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (598 bp):
TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
AACGCATGATGTACCGATTATGAAAAAGTGATTTTTGATTTTTTTTTATGATTTATGTGACTACA
TATATGTTCATTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAAT
TGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCGG
GGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCGATGAGGCACTGGATGCCAAT
TTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTACT
TCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCCG
AGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAAA
GTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTGTA
TCTCATAGACATA
Found at i:58612788 original size:20 final size:19
Alignment explanation
Indices: 58612733--58612780 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
58612723 ATGGCAAAGT
* *
58612733 TGAGAAATG-ATTATGAGA
1 TGAGAAATGAAATATGAAA
58612751 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
58612770 TGATGAAATGA
1 TGA-GAAATGA
58612781 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:58619229 original size:30 final size:31
Alignment explanation
Indices: 58619193--58619250 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
58619183 GTAGTCCATG
*
58619193 CGAGCTA-TTTTTTGGGCCGTGTGGACCACA
1 CGAGCTAGCTTTTTGGGCCGTGTGGACCACA
*
58619223 CGAGCTAGCTTTTTGGGTCGTGTGGACC
1 CGAGCTAGCTTTTTGGGCCGTGTGGACC
58619251 TTTTGGGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.31
Consensus pattern (31 bp):
CGAGCTAGCTTTTTGGGCCGTGTGGACCACA
Done.