Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 214 of 345
Found at i:61773917 original size:47 final size:47
Alignment explanation
Indices: 61773847--61773990 Score: 209
Period size: 47 Copynumber: 3.0 Consensus size: 47
61773837 GGAGGAAGTG
61773847 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
61773894 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
61773941 AAAAATGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTAT
61773990 A
1 A
61773991 TGATAAAGCA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 66 0.76
48 9 0.10
49 12 0.14
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:61774218 original size:31 final size:31
Alignment explanation
Indices: 61774183--61774246 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
61774173 CGTTTACAGT
* *
61774183 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
61774214 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
61774245 AA
1 AA
61774247 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:61777703 original size:43 final size:43
Alignment explanation
Indices: 61777643--61777770 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
61777633 CATAAAGCTC
* * * *
61777643 ATACAATGCC-ATATCCCAGATACGGTCTTACATGTTATCTCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
* * *
61777685 CAT-CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
1 -ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
61777728 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
61777771 TCTAGGTAGT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 8 0.11
43 65 0.89
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA
Found at i:61779012 original size:20 final size:20
Alignment explanation
Indices: 61778987--61779029 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
61778977 TCCTCTTTCA
*
61778987 CATATAA-CACTTTTCCATTT
1 CATATAACCA-TTTTCCATAT
61779007 CATATAACCATTTTCCATAT
1 CATATAACCATTTTCCATAT
61779027 CAT
1 CAT
61779030 TTAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.42
Consensus pattern (20 bp):
CATATAACCATTTTCCATAT
Found at i:61780303 original size:21 final size:21
Alignment explanation
Indices: 61780270--61780325 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 21
61780260 ATTATGTATT
* * *
61780270 TGTG-GATTGAATTGGTTAAA
1 TGTGTGATTAAATTAGTAAAA
61780290 TGTGTGATTAAATTAGTAAAA
1 TGTGTGATTAAATTAGTAAAA
* *
61780311 TTTGT-ATTAATTTAG
1 TGTGTGATTAAATTAG
61780326 ATCAAGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (21 bp):
TGTGTGATTAAATTAGTAAAA
Found at i:61780681 original size:41 final size:42
Alignment explanation
Indices: 61780630--61780729 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 42
61780620 TTCCAATGTG
* *
61780630 TGATTCGTGTAAGTCCATGCCTGGGACATTGGCATCG-TATA
1 TGATTCGTGTAAGACCATGCCTGGGACAGTGGCATCGATATA
* * ** *
61780671 TGATTTGTGTAAGACCCTTTCTGGGACAGTGGCATCGATATT
1 TGATTCGTGTAAGACCATGCCTGGGACAGTGGCATCGATATA
*
61780713 TGATTGCATGTAAGACC
1 TGATT-CGTGTAAGACC
61780730 TTATTTGGGA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 31 0.65
42 8 0.17
43 9 0.19
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TGATTCGTGTAAGACCATGCCTGGGACAGTGGCATCGATATA
Found at i:61782998 original size:22 final size:23
Alignment explanation
Indices: 61782950--61783034 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
61782940 TACTGTTTTT
*
61782950 AGCTCATTGGAGCTTACCGATTC
1 AGCTCATTAGAGCTTACCGATTC
* *
61782973 AGCTCATTTGAGCTTACTG-TTC
1 AGCTCATTAGAGCTTACCGATTC
*
61782995 AGCTCGA-TAGAGCTTACCGTTTC
1 AGCTC-ATTAGAGCTTACCGATTC
* *
61783018 AACTCAATAGAGCTTAC
1 AGCTCATTAGAGCTTAC
61783035 TATTTATTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
22 19 0.35
23 35 0.65
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (23 bp):
AGCTCATTAGAGCTTACCGATTC
Found at i:61783258 original size:20 final size:19
Alignment explanation
Indices: 61783206--61783262 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 19
61783196 ATGAGCCATG
61783206 TTGAAATGGATGAATTACTA
1 TTGAAAT-GATGAATTACTA
61783226 TTGAAATGAATGAATTACTA
1 TTGAAATG-ATGAATTACTA
61783246 TTGATACA-GATGAATTA
1 TTGA-A-ATGATGAATTA
61783263 TAGTTTATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 30 0.88
21 2 0.06
22 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGAAATGATGAATTACTA
Found at i:61783260 original size:24 final size:20
Alignment explanation
Indices: 61783206--61783249 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
61783196 ATGAGCCATG
*
61783206 TTGAAATGGATGAATTACTA
1 TTGAAATGAATGAATTACTA
61783226 TTGAAATGAATGAATTACTA
1 TTGAAATGAATGAATTACTA
61783246 TTGA
1 TTGA
61783250 TACAGATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGAAATGAATGAATTACTA
Found at i:61784782 original size:36 final size:34
Alignment explanation
Indices: 61784727--61784798 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 34
61784717 ACTTTTGTAC
61784727 TCCTACTTCAATTTAGAATT-AGATTATTCTCTCTTT
1 TCCTACTTCAATTTAGAATTGA-ATTATT-T-TCTTT
* * *
61784763 TCCTATTTCCATTTGGAATTGAATTATTTTCTTT
1 TCCTACTTCAATTTAGAATTGAATTATTTTCTTT
61784797 TC
1 TC
61784799 TCTTTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 7 0.22
35 1 0.03
36 23 0.72
37 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.07, T:0.53
Consensus pattern (34 bp):
TCCTACTTCAATTTAGAATTGAATTATTTTCTTT
Found at i:61789616 original size:16 final size:16
Alignment explanation
Indices: 61789597--61789634 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
61789587 GGTAAAATAG
61789597 TTATTATTTTAAATGT
1 TTATTATTTTAAATGT
61789613 TTATTATTTTAAATGT
1 TTATTATTTTAAATGT
61789629 TT-TTAT
1 TTATTAT
61789635 GTTATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
TTATTATTTTAAATGT
Found at i:61792819 original size:40 final size:40
Alignment explanation
Indices: 61792764--61792898 Score: 234
Period size: 40 Copynumber: 3.4 Consensus size: 40
61792754 TATGTGCATA
*
61792764 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
61792804 GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
61792844 GCATTCGTACAGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
*
61792884 TCATTCGTGCTGGTT
1 GCATTCGTGCTGGTT
61792899 GTTACATCCG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCTGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:61792922 original size:80 final size:80
Alignment explanation
Indices: 61792764--61792922 Score: 219
Period size: 80 Copynumber: 2.0 Consensus size: 80
61792754 TATGTGCATA
* * *
61792764 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATAACCG
1 GCATTCGTACAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTACAACCG
* ** *
61792829 GGTTAAGTCCCGAAG
66 AGCCAAATCCCGAAG
* * *
61792844 GCATTCGTACAGGTTATTATAACCGGGTTAAGTCCCGAAGTCATTCGTGCTGGTTGTTACATCCG
1 GCATTCGTACAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTACAACCG
*
61792909 AGCCAAATTCCGAA
66 AGCCAAATCCCGAA
61792923 AGTATTTATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (80 bp):
GCATTCGTACAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTACAACCG
AGCCAAATCCCGAAG
Found at i:61797810 original size:30 final size:30
Alignment explanation
Indices: 61797774--61797874 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
61797764 GACAAGATTG
* * *
61797774 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
61797804 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
61797832 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
61797861 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61797875 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:61797886 original size:29 final size:28
Alignment explanation
Indices: 61797803--61797878 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
61797793 AAAATTGTAC
* *
61797803 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
61797831 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
61797860 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
61797879 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:61813591 original size:34 final size:36
Alignment explanation
Indices: 61813553--61813624 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
61813543 AACAAGGACG
61813553 AATGAATCAATTTTA-ACCTT-TTTTTATTTAATTT
1 AATGAATCAATTTTATACCTTGTTTTTATTTAATTT
*
61813587 AATGAATCAATTTTATCCCTTGTTTTTATTTAATTT
1 AATGAATCAATTTTATACCTTGTTTTTATTTAATTT
61813623 AA
1 AA
61813625 CTTAAATTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 15 0.43
35 4 0.11
36 16 0.46
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (36 bp):
AATGAATCAATTTTATACCTTGTTTTTATTTAATTT
Found at i:61816168 original size:45 final size:45
Alignment explanation
Indices: 61816107--61816287 Score: 188
Period size: 45 Copynumber: 4.0 Consensus size: 45
61816097 TAGGATTTTG
* *
61816107 ATATGTGTTTTTGTGTAAGACCAAGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
* * *
61816152 ATATGTGTTTTCGTGTAAGACCACGTCTGGGGCGTTGGCATCGGT
1 ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
* ** * **
61816197 ATATGTGTTTTCGTGTAAGATCGCGTCTGGAATTTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
* * * *
61816242 AAATATG-GTTAT-GTGTAAGACCATGTCTGGGACATCGGCATC-AT
1 --ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
61816286 AT
1 AT
61816288 TTGATTCATG
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.02
44 2 0.02
45 101 0.89
46 4 0.04
47 5 0.04
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCGAT
Found at i:61818507 original size:27 final size:27
Alignment explanation
Indices: 61818477--61818778 Score: 308
Period size: 27 Copynumber: 11.2 Consensus size: 27
61818467 TGAAATGCCT
*
61818477 TCGATTTGTAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* *
61818504 TCGATTTATAGAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCATTTTACCC
* *
61818531 TC-AGTTTACA-ACATTACCGTTTTACCC
1 TCGA-TTTATAGA-ATTACCATTTTACCC
* *
61818558 TCGATTAATAGAATTACCATTTTACCT
1 TCGATTTATAGAATTACCATTTTACCC
* *
61818585 TCAATTTATAGAATTACCGTTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
** * *
61818612 TTAATTTACAAAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * *
61818639 TC-AGTTTACAAAATTACCGTTTTACCC
1 TCGA-TTTATAGAATTACCATTTTACCC
61818666 TC-ATTTATAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* *
61818692 TCGATTTACAGAATTACCGTTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * *
61818719 TTGATTTACAAAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
61818746 T-AAGTTTACAAAATTATCATTTTACCC
1 TCGA-TTTATAGAATTACCATTTTACCC
61818773 TCGATT
1 TCGATT
61818779 GTGAAATTAC
Statistics
Matches: 237, Mismatches: 30, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
26 26 0.11
27 208 0.88
28 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TCGATTTATAGAATTACCATTTTACCC
Found at i:61818548 original size:54 final size:53
Alignment explanation
Indices: 61818488--61818778 Score: 361
Period size: 54 Copynumber: 5.4 Consensus size: 53
61818478 CGATTTGTAG
* * *
61818488 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCAGTTTACA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACA
* * * *
61818541 ACATTACCGTTTTACCCTCGATTAATAGAATTACCATTTTACCTTCAATTTATA
1 A-ATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACA
** * *
61818595 GAATTACCGTTTTACCCTTAATTTACAAAATTACCATTTTACCCTCAGTTTACAA
1 -AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTAC-A
61818650 AATTACCGTTTTACCCTC-ATTTATAGAATTACCATTTTACCCTC-GATTTACA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAG-TTTACA
* * * *
61818702 GAATTACCGTTTTACCCTTGATTTACAAAATTACCATTTTACCCTAAGTTTACAA
1 -AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTAC-A
* *
61818757 AATTATCATTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
61818779 GTGAAATTAC
Statistics
Matches: 205, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.01
53 47 0.23
54 152 0.74
55 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.40
Consensus pattern (53 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACA
Found at i:61818812 original size:107 final size:107
Alignment explanation
Indices: 61818485--61818816 Score: 321
Period size: 107 Copynumber: 3.1 Consensus size: 107
61818475 CTTCGATTTG
* ** * * * * * * *
61818485 TAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCAGTTTACAACATTACCG
1 TAGAATTACCGTTTTACCCTTAATTTACAAAATTACCATTTTACCCTAAGTTTACAAAATTACCA
* * ** * * **
61818550 TTTTACCCTCGATTAATAGAATTACCATTTTACCTTCAATTTA
66 TTTTACCCTC-ATTTAGAGAATTACCATAATACCCTCGATGGA
* *
61818593 TAGAATTACCGTTTTACCCTTAATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCG
1 TAGAATTACCGTTTTACCCTTAATTTACAAAATTACCATTTTACCCTAAGTTTACAAAATTACCA
* ** **
61818658 TTTTACCCTCATTTATAGAATTACCATTTTACCCTCGATTTA
66 TTTTACCCTCATTTAGAGAATTACCATAATACCCTCGATGGA
* * *
61818700 CAGAATTACCGTTTTACCCTTGATTTACAAAATTACCATTTTACCCTAAGTTTACAAAATTATCA
1 TAGAATTACCGTTTTACCCTTAATTTACAAAATTACCATTTTACCCTAAGTTTACAAAATTACCA
* *
61818765 TTTTACCCTCGATTGT-GA-AATTACTGA-AATACCC-CTATAGGA
66 TTTTACCCTC-ATT-TAGAGAATTAC-CATAATACCCTCGAT-GGA
61818807 TAGAATTACC
1 TAGAATTACC
61818817 AAAATACCCC
Statistics
Matches: 196, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
106 3 0.02
107 120 0.61
108 72 0.37
109 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (107 bp):
TAGAATTACCGTTTTACCCTTAATTTACAAAATTACCATTTTACCCTAAGTTTACAAAATTACCA
TTTTACCCTCATTTAGAGAATTACCATAATACCCTCGATGGA
Found at i:61818840 original size:27 final size:27
Alignment explanation
Indices: 61818810--61818935 Score: 137
Period size: 27 Copynumber: 4.7 Consensus size: 27
61818800 TATAGGATAG
61818810 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
61818837 AATTACCAAAATACCCCTAGTTGGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** * *
61818864 AATTACCGAAATACCATTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** *
61818891 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
*
61818918 AATTACCAAAATAGCCCT
1 AATTACCAAAATACCCCT
61818936 GATTTACAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 76 0.93
28 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:61819020 original size:27 final size:27
Alignment explanation
Indices: 61818863--61819023 Score: 105
Period size: 27 Copynumber: 5.9 Consensus size: 27
61818853 CTAGTTGGTG
* * ***
61818863 AAATTACCGAAATACCATTGGTTTGTG
1 AAATTACTGAAATACCCTTGGTTTACA
*** **
61818890 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTTGGTTTACA
** *
61818917 AAATTACCAAAATAGCCC-TGATTTACA
1 AAATTACTGAAATA-CCCTTGGTTTACA
*
61818944 AAATTA-TAGAAATACCCTTGACTTT-CTAA
1 AAATTACT-GAAATACCCTTG-GTTTAC--A
*
61818973 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACT-GAAATACCCTTGGTTTACA
61819000 AAATTACTGAAATACCCTTGGTTT
1 AAATTACTGAAATACCCTTGGTTT
61819024 GTAGATTTAC
Statistics
Matches: 108, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.03
27 74 0.69
28 10 0.09
29 21 0.19
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGGTTTACA
Found at i:61819152 original size:27 final size:28
Alignment explanation
Indices: 61819077--61819153 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
61819067 ACCCCTAATA
* *
61819077 GGTAAAAAGACCGTAA-AGCCCTTGTAG
1 GGTAAAATGATCGTAATAGCCCTTGTAG
* *
61819104 GGTAAAGTGATCGTAATA-CCCTTGTAT
1 GGTAAAATGATCGTAATAGCCCTTGTAG
61819131 GGTAAAATGA-CG-AATATGCCCTT
1 GGTAAAATGATCGTAATA-GCCCTT
61819154 ATGTTCCGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 4 0.10
26 2 0.05
27 35 0.83
28 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (28 bp):
GGTAAAATGATCGTAATAGCCCTTGTAG
Found at i:61821043 original size:40 final size:40
Alignment explanation
Indices: 61820986--61821170 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
61820976 TCGAATGATG
* * * *
61820986 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
61821026 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
61821066 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61821106 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
61821147 -CCGGGC-ATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
61821171 AACGAGTGCT
Statistics
Matches: 131, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
39 19 0.15
40 99 0.76
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61829163 original size:40 final size:40
Alignment explanation
Indices: 61829081--61829264 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
61829071 TCGAATGATG
* * * *
61829081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-TA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
61829120 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
61829160 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61829200 TCCGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
61829240 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
61829265 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 56 0.43
40 74 0.56
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61829264 original size:79 final size:79
Alignment explanation
Indices: 61829081--61829264 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 79
61829071 TCGAATGATG
* *
61829081 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTTATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
*
61829146 TGCGAGTTACTAAA
66 TGCGAGCTACTAAA
* * *
61829160 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGA-TAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGG-ATTTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCA
61829221 TTTGTGCGAGCTACTATAA
62 TTTGTGCGAGCTACTA-AA
*
61829240 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGG-ATTTG
61829265 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 2 0.02
79 71 0.79
80 17 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAA
Found at i:61829282 original size:79 final size:80
Alignment explanation
Indices: 61829118--61829283 Score: 198
Period size: 79 Copynumber: 2.1 Consensus size: 80
61829108 CTAAGTGACT
*
61829118 TATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAT
1 TATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCAT
**
61829183 TTGTGCGAGTTACTA
66 TTGAACGAGTTACTA
* * *
61829198 AATCCGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGG
1 TATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGG
*
61829259 TATTTGAACGAG-TAGCTA
63 CATTTGAACGAGTTA-CTA
61829277 TATCCGG
1 TATCCGG
61829284 TTAAACTCCG
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.05
79 61 0.82
80 9 0.12
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCAT
TTGAACGAGTTACTA
Found at i:61831443 original size:26 final size:25
Alignment explanation
Indices: 61831414--61831468 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
61831404 GCTCTACCGT
* * *
61831414 AGTTTACCGCAAAAGGTCTTTGCCCG
1 AGTTTACC-AAAAAGGGCTTTGCCCC
*
61831440 AGTTTATCAAAAAGGGCTTTGCCCC
1 AGTTTACCAAAAAGGGCTTTGCCCC
61831465 AGTT
1 AGTT
61831469 ATTAAAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
AGTTTACCAAAAAGGGCTTTGCCCC
Found at i:61831481 original size:24 final size:24
Alignment explanation
Indices: 61831424--61831475 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
61831414 AGTTTACCGC
* *
61831424 AAAAGGTCTTTGCCCGAGTTTATCA
1 AAAAGGGCTTTGCCCCAG-TTATCA
*
61831449 AAAAGGGCTTTGCCCCAGTTATTA
1 AAAAGGGCTTTGCCCCAGTTATCA
61831473 AAA
1 AAA
61831476 GAGGCTAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:61831663 original size:42 final size:42
Alignment explanation
Indices: 61831616--61831707 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
61831606 TAGTCTCCCC
*
61831616 AAATGGGCTTGTATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
61831658 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
61831700 AAATGGGC
1 AAATGGGC
61831708 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:61838846 original size:41 final size:41
Alignment explanation
Indices: 61838801--61838918 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61838791 TGAAAGATAA
61838801 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61838842 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61838872 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61838913 ATGTAG
1 ATGTAG
61838919 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61838857 original size:71 final size:71
Alignment explanation
Indices: 61838769--61838932 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61838759 GAGATGTATC
61838769 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61838834 AGGACA
66 AGGACA
61838840 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61838905 AGGACA
66 AGGACA
61838911 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61838933 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61845954 original size:41 final size:41
Alignment explanation
Indices: 61845909--61846026 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61845899 TGAAAGATAA
61845909 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61845950 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61845980 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61846021 ATGTAG
1 ATGTAG
61846027 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61845965 original size:71 final size:71
Alignment explanation
Indices: 61845877--61846040 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61845867 GAGATGTATC
61845877 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61845942 AGGACA
66 AGGACA
61845948 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61846013 AGGACA
66 AGGACA
61846019 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61846041 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61853751 original size:29 final size:28
Alignment explanation
Indices: 61853717--61853819 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
61853707 TAATCGATCA
*
61853717 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
61853746 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
61853775 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
61853804 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
61853820 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:61861414 original size:40 final size:39
Alignment explanation
Indices: 61861344--61861482 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
61861334 TCGCCCAAAA
* ** *
61861344 GCCTTCGGGACATAGCCCGG-TTATAATAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TGGTAACTAGCAC-AAT
* *
61861384 GCCTTCGGGACTTAACCCGGATTTGGTAACTGGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATTTGGTAACTAGCAC-AAT
* * * *
61861424 GCCTTC-GGACCTTAGTCCGGATATGGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAGCCCGGATTTGGTAAC-TAGCACAAT
61861464 GCCTTCGGGACTTAGCCCG
1 GCCTTCGGGACTTAGCCCG
61861483 AACATCATTC
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
39 3 0.04
40 69 0.84
41 10 0.12
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATTTGGTAACTAGCACAAT
Found at i:61865152 original size:17 final size:17
Alignment explanation
Indices: 61865119--61865152 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61865109 ATGATGATGA
* *
61865119 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
61865136 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
61865153 GCTCTCATGT
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:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:61866467 original size:40 final size:40
Alignment explanation
Indices: 61866412--61866615 Score: 313
Period size: 40 Copynumber: 5.1 Consensus size: 40
61866402 TGGATGATAA
* * *
61866412 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
61866452 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61866492 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61866532 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
61866572 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
61866612 CCGG
1 CCGG
61866616 TTAAATCACG
Statistics
Matches: 155, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 3 0.02
40 152 0.98
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61875751 original size:33 final size:32
Alignment explanation
Indices: 61875714--61875817 Score: 122
Period size: 33 Copynumber: 3.2 Consensus size: 32
61875704 TACCTAAAAG
61875714 GTACAACTAGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTAGAAAAGGAAATGTACACT-TGTGT
* *
61875747 GTACAGCTTA-AAAAGGAAACGTACACTTTGTGT
1 GTACAAC-TAGAAAAGGAAATGTACAC-TTGTGT
* *
61875780 GTAC-ACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACAACTAGAAAAGGAAATGTAC-ACTTGTGT
61875812 GTACAA
1 GTACAA
61875818 TGTAAAAAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
31 1 0.02
32 24 0.40
33 32 0.53
34 3 0.05
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (32 bp):
GTACAACTAGAAAAGGAAATGTACACTTGTGT
Found at i:61875810 original size:32 final size:31
Alignment explanation
Indices: 61875714--61875816 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 31
61875704 TACCTAAAAG
* *
61875714 GTACAACTAGAAAAGGAAATGTACACTGTGTGT
1 GTAC-ACTTGAAAAGGAAATGTACCCT-TGTGT
* * *
61875747 GTACAGCTTAAAAAGGAAACGTACACTTTGTGT
1 GTACA-CTTGAAAAGGAAATGTAC-CCTTGTGT
61875780 GTACACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACACTTGAAAAGGAAATGTAC-CCTTGTGT
61875812 GTACA
1 GTACA
61875817 ATGTAAAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
32 29 0.49
33 29 0.49
34 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (31 bp):
GTACACTTGAAAAGGAAATGTACCCTTGTGT
Found at i:61875857 original size:31 final size:31
Alignment explanation
Indices: 61875822--61875992 Score: 200
Period size: 31 Copynumber: 5.5 Consensus size: 31
61875812 GTACAATGTA
*
61875822 AAAAGTGGTAGCTTCGACTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
*
61875853 AAAAGTGGTAGCTTCGGCTACCTGATGAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* *
61875884 AAAAGTAGTAGCTTCGGCTACCTGATGAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* * * * *
61875915 AAAAGTGGCAGCTCCAGCTACTTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* *
61875946 AATAGTGGTAGCTTCGGCTACAAGTGA-CAAGTG
1 AAAAGTGGTAGCTTCGGCTAC--CTGATC-AGTG
*
61875979 ATAAGTGGTAGCTT
1 AAAAGTGGTAGCTT
61875993 TAGCTACATT
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
31 100 0.84
32 1 0.01
33 18 0.15
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
Found at i:61876087 original size:27 final size:27
Alignment explanation
Indices: 61876056--61876120 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
61876046 TAGTTGAACT
*
61876056 ATGGCAAAGTGATA-ATGTGTGCCAATC
1 ATGGCAAAGTGATATA-GTGTGCCAAAC
61876083 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATATAGTGTGCCAAAC
*
61876110 ATAGCAAAGTG
1 ATGGCAAAGTG
61876121 TTTAGTGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (27 bp):
ATGGCAAAGTGATATAGTGTGCCAAAC
Found at i:61890246 original size:17 final size:18
Alignment explanation
Indices: 61890188--61890246 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
61890178 TGAATGAAGT
61890188 ACATGAATTTAATTGAAA
1 ACATGAATTTAATTGAAA
** *
61890206 ACATG-A-TCGACTGAAA
1 ACATGAATTTAATTGAAA
61890222 ACATGAATTTAATTGAAA
1 ACATGAATTTAATTGAAA
61890240 A-ATGAAT
1 ACATGAAT
61890247 CCAATCATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 12 0.36
17 8 0.24
18 13 0.39
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (18 bp):
ACATGAATTTAATTGAAA
Found at i:61905141 original size:37 final size:39
Alignment explanation
Indices: 61905071--61905212 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
61905061 GAATGTTCGA
61905071 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
61905110 GTGATA-CCGGGCTAAGCCC-AAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
61905147 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
61905186 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
61905213 CTTTGTGCGG
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
37 21 0.23
38 26 0.28
39 37 0.40
40 9 0.10
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:61905152 original size:76 final size:79
Alignment explanation
Indices: 61905072--61905252 Score: 260
Period size: 76 Copynumber: 2.3 Consensus size: 79
61905062 AATGTTCGAG
61905072 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCC-AAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
61905134 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
61905148 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
61905213 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
61905227 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
61905253 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
76 44 0.47
77 9 0.10
78 3 0.03
79 28 0.30
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:61913327 original size:41 final size:41
Alignment explanation
Indices: 61913282--61913399 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61913272 TGAAAGATAA
61913282 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61913323 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61913353 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61913394 ATGTAG
1 ATGTAG
61913400 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61913338 original size:71 final size:71
Alignment explanation
Indices: 61913250--61913413 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61913240 GAGATGTATC
61913250 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61913315 AGGACA
66 AGGACA
61913321 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61913386 AGGACA
66 AGGACA
61913392 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61913414 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61925173 original size:39 final size:40
Alignment explanation
Indices: 61925059--61925241 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
61925049 GCTACTCGTT
* *
61925059 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCA
* * *
61925099 TAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCA
61925139 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCA
* * * *
61925178 C-AATGCCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATATAGTAAC-TCGCA
*
61925218 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
61925242 CATCATTCGA
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 13 0.10
39 46 0.37
40 63 0.51
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCA
Found at i:61925235 original size:78 final size:80
Alignment explanation
Indices: 61925059--61925241 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 80
61925049 GCTACTCGTT
* *
61925059 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGAATATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCG
* *
61925123 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* * **
61925139 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCA-CAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCCG
*
61925201 GATATAGTCACTTAGCA
65 GATATAGTAAC-TAGCA
61925218 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
61925242 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 44 0.49
79 31 0.34
80 12 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:61930717 original size:27 final size:27
Alignment explanation
Indices: 61930687--61930738 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
61930677 AAAATAATAA
*
61930687 TAATACCCATGTA-GGATAAAATGACCG
1 TAATACCCATATATGG-TAAAATGACCG
*
61930714 TAATACCCCTATATGGTAAAATGAC
1 TAATACCCATATATGGTAAAATGAC
61930739 GATTATGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
TAATACCCATATATGGTAAAATGACCG
Found at i:61934765 original size:31 final size:31
Alignment explanation
Indices: 61934722--61934807 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
61934712 TCAATCTCAG
61934722 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
61934752 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
61934783 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
61934808 TATACTAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
30 5 0.09
31 48 0.91
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:61935069 original size:26 final size:25
Alignment explanation
Indices: 61935024--61935094 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
61935014 ATCTTTTAAT
*
61935024 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61935049 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
* *
61935075 AACTAGGGCAAAGCCGTTTT
1 AACTGGGGCAAAGCCCTTTT
61935095 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61945801 original size:31 final size:31
Alignment explanation
Indices: 61945758--61945843 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
61945748 TCAATCTCAG
61945758 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
61945788 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
61945819 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
61945844 TGTACCAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
30 5 0.09
31 48 0.91
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:61946106 original size:26 final size:25
Alignment explanation
Indices: 61946061--61946131 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
61946051 CTCTTTTAAT
* * *
61946061 AACTAGGGCAAAGCCCTTTTTGATC
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61946086 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
61946112 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61946132 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61946308 original size:25 final size:25
Alignment explanation
Indices: 61946262--61946309 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61946252 ATAATTAAAC
* ** *
61946262 CCTAGGGGTAAAATGGTTATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
61946287 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
61946310 CATGTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:61949952 original size:71 final size:73
Alignment explanation
Indices: 61949868--61950035 Score: 304
Period size: 71 Copynumber: 2.3 Consensus size: 73
61949858 CGATTTGTCT
61949868 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCAT-G-CGACCTAGCTACATTT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATCGACGACCTAGCTACATTT
61949931 ATCTTTCA
66 ATCTTTCA
61949939 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGCACGACCTAGCTACAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCAT-CG-ACGACCTAGCTACAT
61950004 TTATCTTTCA
64 TTATCTTTCA
61950014 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61950036 GTACATCTCG
Statistics
Matches: 93, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
71 46 0.49
73 1 0.01
75 46 0.49
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (73 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATCGACGACCTAGCTACATTT
ATCTTTCA
Found at i:61956379 original size:71 final size:71
Alignment explanation
Indices: 61956295--61956458 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61956285 CGATTTGTCT
61956295 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61956360 CTTTCA
66 CTTTCA
61956366 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61956431 CTTTCA
66 CTTTCA
61956437 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61956459 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:61956496 original size:71 final size:70
Alignment explanation
Indices: 61956295--61956492 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
61956285 CGATTTGTCT
* * * *
61956295 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61956360 CTTTCA
65 CTTTCA
* * * *
61956366 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61956431 CTTTCA
65 CTTTCA
* *
61956437 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
61956493 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:61959902 original size:43 final size:44
Alignment explanation
Indices: 61959849--61959995 Score: 160
Period size: 43 Copynumber: 3.4 Consensus size: 44
61959839 TTCGAGATGA
*
61959849 GATTATGTGTAAGACCATGTTTGGGACATTGGCAT-GATTATGT
1 GATTACGTGTAAGACCATGTTTGGGACATTGGCATCGATTATGT
* * *
61959892 GATTACGTGTAAGACCATCTCTGGGACATTGGCATCG-TTATAT
1 GATTACGTGTAAGACCATGTTTGGGACATTGGCATCGATTATGT
* * *
61959935 AATTTCGTGTAAGACCATAG-TTGGG-CTATCGGCATCGA-TATGT
1 GATTACGTGTAAGACCAT-GTTTGGGAC-ATTGGCATCGATTATGT
* *
61959978 GATAACATGTAAGACCAT
1 GATTACGTGTAAGACCAT
61959996 ATCTGGAATA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 84 0.98
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTTTGGGACATTGGCATCGATTATGT
Found at i:61962229 original size:46 final size:49
Alignment explanation
Indices: 61962025--61962336 Score: 212
Period size: 46 Copynumber: 6.6 Consensus size: 49
61962015 AGTATAATGC
* * *
61962025 CGATGCCATGACCCAGACATGGTCTTACA-TAGGCTC-AGC-TATC-AAGT
1 CGATGCCATGTCCTAGACATGGTCTTACACT-GGCTCTA-CATATCGAGGT
* * *
61962072 CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATATCCGTGCT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-ACATAT-CGAGGT
* * * * *
61962123 -GATGCCATGTCCTAGACATGGTCTTAGACT-G-AC-ACATTTTGTA-GC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCG-AGGT
* * *
61962168 CAATG-CATGTTCTAGACAT-GTCTTACACTGGCT-TACATCTCGAGGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCGAGGT
* * ** * * * *
61962214 CGATG-CATGTCCTAGACAT-GTCTTACACTGGATGT-TGTTTCAATGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCGAGGT
* * *
61962260 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CGTAAT-GTGGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACAT-ATCGAGGT
61962308 CGATG-CATGTCCTAGACAT-GTCTTACACT
1 CGATGCCATGTCCTAGACATGGTCTTACACT
61962337 AGCATATAAT
Statistics
Matches: 209, Mismatches: 40, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
44 9 0.04
45 16 0.08
46 65 0.31
47 58 0.28
48 25 0.12
49 5 0.02
50 30 0.14
51 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCGAGGT
Found at i:61962285 original size:94 final size:93
Alignment explanation
Indices: 61962072--61962336 Score: 285
Period size: 94 Copynumber: 2.8 Consensus size: 93
61962062 GCTATCAAGT
* *
61962072 CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATATCCGTGCT-GATGCCATGTCCT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-ACATAT-CGTGGTCGATG-CATGTCCT
*
61962136 AGACATGGTCTTAGACTGACACATTTTGTAGC
63 AGACAT-GTCTTACACTGACACATTTTGTAGC
* * * *
61962168 CAATG-CATGTTCTAGACAT-GTCTTACACTGGCT-TACATCTCGAGGTCGATGCATGTCCTAGA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCGTGGTCGATGCATGTCCTAGA
* **
61962230 CATGTCTTACACTG-GATGTTGTT-TCAATGC
66 CATGTCTTACACTGACACATT-TTGT--A-GC
* *
61962260 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CGTAAT-GTGGTCGATGCATGTCCTAG
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACAT-ATCGTGGTCGATGCATGTCCTAG
61962323 ACATGTCTTACACT
65 ACATGTCTTACACT
61962337 AGCATATAAT
Statistics
Matches: 144, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
89 4 0.03
90 12 0.08
91 19 0.13
92 15 0.10
93 13 0.09
94 62 0.43
95 15 0.10
96 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (93 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATCGTGGTCGATGCATGTCCTAGA
CATGTCTTACACTGACACATTTTGTAGC
Found at i:61963062 original size:13 final size:13
Alignment explanation
Indices: 61963044--61963068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61963034 CTAAAAGTGC
61963044 AAAAATCATCAAG
1 AAAAATCATCAAG
61963057 AAAAATCATCAA
1 AAAAATCATCAA
61963069 AATAATTACT
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:61968522 original size:92 final size:92
Alignment explanation
Indices: 61968411--61968580 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
61968401 CCCATAAGTG
* *
61968411 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
61968476 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
61968503 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
61968568 GAGTTCGGATGCC
66 GAGTTCGGATGCC
61968581 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61968576 original size:46 final size:46
Alignment explanation
Indices: 61968402--61968576 Score: 226
Period size: 46 Copynumber: 3.8 Consensus size: 46
61968392 TGTAACCCGC
* * *
61968402 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
61968448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
* *****
61968494 ACATCTCACAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61968540 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61968577 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
45 3 0.03
46 101 0.95
47 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61968595 original size:46 final size:45
Alignment explanation
Indices: 61968407--61968595 Score: 143
Period size: 46 Copynumber: 4.1 Consensus size: 45
61968397 CCCGCCCATA
* ** ** * *
61968407 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
61968453 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
61968501 A--CAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
61968545 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
61968591 AGTGA
1 AGTGA
61968596 CATGTCACTT
Statistics
Matches: 111, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
42 4 0.04
44 1 0.01
46 97 0.87
48 5 0.05
50 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:61970989 original size:30 final size:30
Alignment explanation
Indices: 61970945--61971033 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
61970935 CAAAGATAAC
61970945 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
61970974 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
61971004 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
61971034 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:61970993 original size:15 final size:15
Alignment explanation
Indices: 61970945--61971024 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
61970935 CAAAGATAAC
*
61970945 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61970959 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
61970974 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
61970989 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
61971004 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
61971019 AAGAAA
1 AAGAAA
61971025 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61971033 original size:15 final size:15
Alignment explanation
Indices: 61970956--61971033 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
61970946 AGAAAACCGA
61970956 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
61970971 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
61970985 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
61971000 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61971016 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61971031 ATA
1 ATA
61971034 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61974093 original size:93 final size:93
Alignment explanation
Indices: 61973981--61974152 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61973971 GCCCATAAGT
* *
61973981 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61974046 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61974074 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61974139 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
61974153 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61974148 original size:46 final size:46
Alignment explanation
Indices: 61973973--61974148 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61973963 TGTAACCCGC
* * *
61973973 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61974019 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61974069 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61974112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61974149 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61977896 original size:30 final size:29
Alignment explanation
Indices: 61977846--61977906 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
61977836 CAAGTAGCTG
* *
61977846 AAGCTAGTTAACTCGCACACTTAGTGCCA
1 AAGCTAGTTAAATAGCACACTTAGTGCCA
61977875 AAGCTAGTTTAAATAGCACACTTAGTGCCA
1 AAGCTAG-TTAAATAGCACACTTAGTGCCA
61977905 AA
1 AA
61977907 ACTTCCGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATAGCACACTTAGTGCCA
Found at i:61985110 original size:30 final size:29
Alignment explanation
Indices: 61985067--61985127 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
61985057 CAAGTAGCCG
61985067 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
61985096 AAGCTAGTTTAAATCTCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
61985126 AA
1 AA
61985128 ACTTCCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:61986726 original size:26 final size:26
Alignment explanation
Indices: 61986675--61986727 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
61986665 ACGTGCAGGG
* **
61986675 GACACATGGCTAGACAACACGTCCAT
1 GACACACGGCTAGACAACACAACCAT
61986701 GACACACGGCCTAGAC-ACACAACCAT
1 GACACACGG-CTAGACAACACAACCAT
61986727 G
1 G
61986728 TGTTTACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.36, C:0.34, G:0.19, T:0.11
Consensus pattern (26 bp):
GACACACGGCTAGACAACACAACCAT
Found at i:61988616 original size:39 final size:39
Alignment explanation
Indices: 61988562--61988685 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
61988552 TGTGAATGAA
61988562 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
61988601 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
61988640 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
61988680 TGTGCG
1 TGTGCG
61988686 GGTTACCATA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 64 0.79
40 17 0.21
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:61988702 original size:79 final size:79
Alignment explanation
Indices: 61988562--61988715 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 79
61988552 TGTGAATGAA
***
61988562 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTACCATATCCGGGCTAA
61988627 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * **
61988640 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAAT-CGGGCT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTACCAT-ATCCGGGCT
*
61988704 ATGTCCCGAAGG
64 AAGTCCCGAAGG
61988716 TGTTTTGAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 25 0.39
79 29 0.45
80 10 0.16
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTACCATATCCGGGCTAA
GTCCCGAAGGCAAT
Found at i:61996549 original size:39 final size:39
Alignment explanation
Indices: 61996495--61996657 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
61996485 TGTGAATGAA
61996495 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
61996534 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
61996573 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
61996612 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
61996652 TGTGCG
1 TGTGCG
61996658 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:61996673 original size:40 final size:39
Alignment explanation
Indices: 61996495--61996687 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
61996485 TGTGAATGAA
* *
61996495 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
61996534 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
61996573 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
61996612 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
61996652 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
61996688 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:62007595 original size:31 final size:30
Alignment explanation
Indices: 62007560--62007618 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
62007550 GATGGTGGGA
*
62007560 TGGGAGGGGAATAAAAGTTTTGGGGGAAAAG
1 TGGGA-GGGAATAAAAATTTTGGGGGAAAAG
* *
62007591 TGGGAGGTAGTAAAAATTTTGGGGGAAA
1 TGGGAGGGAATAAAAATTTTGGGGGAAA
62007619 GTAAAGAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.42, T:0.22
Consensus pattern (30 bp):
TGGGAGGGAATAAAAATTTTGGGGGAAAAG
Found at i:62010378 original size:25 final size:25
Alignment explanation
Indices: 62010342--62010399 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
62010332 GTTACGGATT
* *
62010342 TCAGCTCTTATGAGCATATCGATAC
1 TCAGCTCATATGAGCATACCGATAC
* * *
62010367 TCAGCTCATATGAGCTTACCGTTAT
1 TCAGCTCATATGAGCATACCGATAC
62010392 TCAGCTCA
1 TCAGCTCA
62010400 GAGGAGCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAGCTCATATGAGCATACCGATAC
Found at i:62017260 original size:16 final size:16
Alignment explanation
Indices: 62017241--62017271 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62017231 GGCAAAAGCC
*
62017241 GAAATGCCGAAAAGTT
1 GAAAAGCCGAAAAGTT
62017257 GAAAAGCCGAAAAGT
1 GAAAAGCCGAAAAGT
62017272 CAAAAGTTTA
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:0.13, G:0.26, T:0.13
Consensus pattern (16 bp):
GAAAAGCCGAAAAGTT
Found at i:62020766 original size:29 final size:30
Alignment explanation
Indices: 62020732--62020790 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
62020722 AGAAGTTGGT
**
62020732 TCGAAAGGGATGTG-AGCCTATTTGGCTTA
1 TCGAAAGGGATACGAAGCCTATTTGGCTTA
*
62020761 TCGAAAGGGATACGAAGCCTATTTGTCTTA
1 TCGAAAGGGATACGAAGCCTATTTGGCTTA
62020791 CATTAGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (30 bp):
TCGAAAGGGATACGAAGCCTATTTGGCTTA
Found at i:62028054 original size:21 final size:21
Alignment explanation
Indices: 62028030--62028074 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
62028020 ATTTTATGGA
62028030 ATTGATACTTGATATATGTAG
1 ATTGATACTTGATATATGTAG
62028051 ATTGATACTTGATATATGTAG
1 ATTGATACTTGATATATGTAG
62028072 ATT
1 ATT
62028075 TGACCATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (21 bp):
ATTGATACTTGATATATGTAG
Found at i:62033116 original size:43 final size:44
Alignment explanation
Indices: 62033051--62033223 Score: 189
Period size: 43 Copynumber: 4.0 Consensus size: 44
62033041 AACTCGTATA
* * *
62033051 ATGCCAAC-G-CCGCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCC-CAGACATGGTCTTACACGAAATCAAATATCG
62033094 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
62033136 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* * * *
62033180 ATTCCAAC-ATCCCAGACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
62033223 A
1 A
62033224 AATCCTATGT
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
42 33 0.29
43 48 0.43
44 31 0.28
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:62039742 original size:17 final size:16
Alignment explanation
Indices: 62039698--62039747 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
62039688 TAACTTTGAA
*
62039698 AATTTTATTTCCATTTT
1 AATTTTATTT-TATTTT
62039715 AATATTT-TTTTATTGTT
1 AAT-TTTATTTTATT-TT
62039732 AATTTTATTTTATTTT
1 AATTTTATTTTATTTT
62039748 TTAATAAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 8 0.28
17 18 0.62
18 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (16 bp):
AATTTTATTTTATTTT
Found at i:62043770 original size:29 final size:29
Alignment explanation
Indices: 62043737--62043829 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
62043727 TGACGAGATT
* *
62043737 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
62043766 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
62043795 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
62043824 GGCACT
1 GGCACT
62043830 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:62043842 original size:29 final size:29
Alignment explanation
Indices: 62043737--62043842 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
62043727 TGACGAGATT
* *
62043737 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
62043766 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
62043795 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
62043824 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
62043843 CGAAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:62045546 original size:11 final size:11
Alignment explanation
Indices: 62045530--62045554 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62045520 TGATGTTTAA
62045530 GTACTTGAATT
1 GTACTTGAATT
62045541 GTACTTGAATT
1 GTACTTGAATT
62045552 GTA
1 GTA
62045555 AGTTTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (11 bp):
GTACTTGAATT
Found at i:62046626 original size:20 final size:20
Alignment explanation
Indices: 62046601--62046639 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62046591 TGTATTTTTG
*
62046601 AAAAATTTCTTAAGTTATCC
1 AAAAATTTCGTAAGTTATCC
*
62046621 AAAAATTTCGTGAGTTATC
1 AAAAATTTCGTAAGTTATC
62046640 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAATTTCGTAAGTTATCC
Found at i:62049875 original size:27 final size:27
Alignment explanation
Indices: 62049839--62049893 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
62049829 GAAAACAAGC
62049839 CCCTATGTGTTGTGAGATATGAGGTAG
1 CCCTATGTGTTGTGAGATATGAGGTAG
62049866 CCCTATGTGTTGTGAGATATGAGGTAG
1 CCCTATGTGTTGTGAGATATGAGGTAG
62049893 C
1 C
62049894 ATTGGCTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.33, T:0.33
Consensus pattern (27 bp):
CCCTATGTGTTGTGAGATATGAGGTAG
Found at i:62050870 original size:30 final size:31
Alignment explanation
Indices: 62050836--62050893 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
62050826 TTTACGAGCC
*
62050836 TAGGGG-AAAAAGTTTAATTTTG-AAAAAGTT
1 TAGGGGCAAAAA-TGTAATTTTGTAAAAAGTT
62050866 TAGGGGCAAAAATGTAATTTTGTAAAAA
1 TAGGGGCAAAAATGTAATTTTGTAAAAA
62050894 TATGATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.45, C:0.02, G:0.22, T:0.31
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAATTTTGTAAAAAGTT
Found at i:62053344 original size:29 final size:28
Alignment explanation
Indices: 62053310--62053412 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
62053300 TAATCGATCA
*
62053310 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
62053339 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
62053368 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
62053397 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62053413 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:62061199 original size:29 final size:28
Alignment explanation
Indices: 62061165--62061267 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
62061155 TAATCGATCA
*
62061165 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
62061194 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
62061223 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
62061252 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62061268 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:62063006 original size:40 final size:40
Alignment explanation
Indices: 62062947--62063130 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
62062937 CGGATGATAA
* * *
62062947 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
62062987 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
62063027 CAGGGATAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62063067 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
62063107 CC-GGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
62063131 AGCAAGTATT
Statistics
Matches: 132, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 22 0.17
40 109 0.83
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62066263 original size:93 final size:91
Alignment explanation
Indices: 62066106--62066274 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 91
62066096 CCCCCTAAGT
*
62066106 GAACTCGGACTCAACTCAACGAGCTCGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
62066171 AGTTCGGATGCCTAGTTACATTTCAC
66 AGTTCGGATGCCTAGTTACATTTCAC
*
62066197 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62066262 CGAGTTCGGATGC
64 CGAGTTCGGATGC
62066275 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATTTCAC
Found at i:62066290 original size:46 final size:44
Alignment explanation
Indices: 62066101--62066282 Score: 190
Period size: 44 Copynumber: 4.0 Consensus size: 44
62066091 TAACCCCCCC
* * * *
62066101 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
62066145 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGC-A---ACCA
* * * *
62066191 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCAACCA
*
62066238 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
62066282 T
1 T
62066283 CCTAGTGACA
Statistics
Matches: 114, Mismatches: 13, Indels: 22
0.77 0.09 0.15
Matches are distributed among these distances:
43 1 0.01
44 44 0.39
45 2 0.02
46 30 0.26
47 30 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
Found at i:62071728 original size:46 final size:43
Alignment explanation
Indices: 62071585--62071720 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 43
62071575 CCAGCCCCTA
62071585 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
62071632 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
62071678 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
62071721 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:62077521 original size:40 final size:40
Alignment explanation
Indices: 62077421--62077600 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
62077411 TATTCGGATG
* *
62077421 ATATCCGGGCTAAGTC-CAGAAGGCATTTGTGCAAGTTAC-
1 ATATCCGGGCTAAGTCTC-GAAGGCATTTGTGCTAGTGACT
*
62077460 ATATTCGGGCTAAGT-TCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCT-CGAAGGCATTTGTGCTAGTGACT
* **
62077500 ATATCTGGGCTAAGTCTCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
* * *
62077540 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAG-TGACT
* *
62077580 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCTCGAAG
62077601 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 46 0.38
40 72 0.60
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
Found at i:62077570 original size:80 final size:79
Alignment explanation
Indices: 62077421--62077600 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 79
62077411 TATTCGGATG
** * * **
62077421 ATATCCGGGCTAAGTCCAGAAGGCATTTGTGCAAGTTACATATTCGGGCTAAGTTCCGAAGGCAT
1 ATATCCGGGCTAAGTCCAGAAGGCATTCATGCAAGTGACATATCCGGGCTAAGACCCGAAGGCAT
*
62077486 TTGTGCTAG-TGACT
66 TTGTGCGAGTTG-CT
* *
62077500 ATATCTGGGCTAAGTCTC-GAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTC-CAGAAGGCATTCATGCAAGTGAC-ATATCCGGGCTAAGACCCGAAGGC
62077564 ATTTGTGCGAGTTGCT
64 ATTTGTGCGAGTTGCT
* *
62077580 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCAGAAG
62077601 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 44 0.51
80 39 0.45
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCAGAAGGCATTCATGCAAGTGACATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:62078930 original size:40 final size:39
Alignment explanation
Indices: 62078873--62079055 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
62078863 TCGAATGATG
* *
62078873 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
62078913 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
62078952 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
62078990 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
62079030 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62079056 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
37 24 0.19
38 12 0.09
39 12 0.09
40 73 0.57
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:62079007 original size:77 final size:80
Alignment explanation
Indices: 62078873--62079055 Score: 241
Period size: 77 Copynumber: 2.3 Consensus size: 80
62078863 TCGAATGATG
*
62078873 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
62078937 TGTGCGAGTTACTA-A
65 TGTGCGAGTTACTATA
* * **
62078952 TCCGGGCTAAG-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
62079014 TGTGCGAGTTACTATA
65 TGTGCGAGTTACTATA
* *
62079030 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
62079056 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
76 1 0.01
77 50 0.54
78 17 0.18
79 11 0.12
80 13 0.14
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:62087087 original size:79 final size:81
Alignment explanation
Indices: 62086951--62087135 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
62086941 TCGAATGATG
*
62086951 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
62087015 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * **
62087030 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
62087092 TTTATGCGAGTTACTATA
64 TTTATGCGAGTTACTATA
* *
62087110 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62087136 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 33 0.35
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:62087142 original size:40 final size:39
Alignment explanation
Indices: 62086952--62087135 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 39
62086942 CGAATGATGT
* * *
62086952 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
62086992 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
62087032 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62087070 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62087111 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
62087136 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62087157 original size:79 final size:78
Alignment explanation
Indices: 62086952--62087168 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
62086942 CGAATGATGT
* *
62086952 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
* *
62087015 TGTGCGAGTTACTAATT
62 TATGCGAGTTACTAATA
*
62087032 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
62087095 ATGCGAGTTACT-ATAA
63 ATGCGAGTTACTAAT-A
* ** *
62087111 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
62087169 TACGTGATTT
Statistics
Matches: 118, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 67 0.57
80 48 0.41
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTATG
CGAGTTACTAATA
Found at i:62088602 original size:43 final size:43
Alignment explanation
Indices: 62088529--62088675 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
62088519 TATCCAAGAT
* * * * *
62088529 ATGGTCTTACATGTTATCACATATCAATGCCGATAG-CCCAG-C
1 ATGGTCTTACACGTAATCACATAACGATGCCAAT-GTCCCAGAC
* * *
62088571 TATGGTCTTACACGAAATCATATAACGATGCCAATGTCCCGGAC
1 -ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
* *
62088615 ATAGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
*
62088658 ATGGTCTTACACATAATC
1 ATGGTCTTACACGTAATC
62088676 TCATCTCAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 85 0.98
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGAC
Found at i:62089223 original size:75 final size:75
Alignment explanation
Indices: 62089131--62089281 Score: 239
Period size: 75 Copynumber: 2.0 Consensus size: 75
62089121 CATTTTCCAT
*
62089131 ATATTACTATCAGCCCATATTTCTAATTTATTTCACATTTTAACCACAAAAATTCCATATTTTAC
1 ATATTACTATCAGCCCATATTTCTAATTTATTTCACATTTTAACCACAAAAATTCCACATTTTAC
62089196 AATTTAGTCC
66 AATTTAGTCC
* ** ** *
62089206 ATATTACTATCATCCCATATTTCTAATTTATTTCACATTTTAACCATTAACCTTCCACATTTTAT
1 ATATTACTATCAGCCCATATTTCTAATTTATTTCACATTTTAACCACAAAAATTCCACATTTTAC
62089271 AATTTAGTCC
66 AATTTAGTCC
62089281 A
1 A
62089282 AAATTGACAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.43
Consensus pattern (75 bp):
ATATTACTATCAGCCCATATTTCTAATTTATTTCACATTTTAACCACAAAAATTCCACATTTTAC
AATTTAGTCC
Found at i:62092306 original size:49 final size:50
Alignment explanation
Indices: 62092239--62092468 Score: 266
Period size: 49 Copynumber: 4.6 Consensus size: 50
62092229 TATTGTGAGG
*
62092239 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGT
* * * * * *
62092288 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGT
* * * **
62092339 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGT
** * * *
62092389 TCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGT
* *
62092439 T-GCATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
62092469 TGCGTACTAG
Statistics
Matches: 151, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 65 0.43
50 48 0.32
51 38 0.25
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGT
Found at i:62101678 original size:46 final size:46
Alignment explanation
Indices: 62101628--62101803 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
62101618 TGTTTGGGCA
62101628 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62101674 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
62101719 CATCTGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62101767 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62101804 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62101783 original size:93 final size:93
Alignment explanation
Indices: 62101624--62101796 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
62101614 AGGATGTTTG
* * * *
62101624 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
62101689 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
62101717 GGCATCTGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
62101782 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
62101797 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62103818 original size:15 final size:15
Alignment explanation
Indices: 62103798--62103849 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
62103788 TTTGGGTTTT
62103798 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
*
62103813 TTTATTCTGGGTTTC
1 TTTATTCTGGATTTC
* *
62103828 TCTA-TCTTGGATTTA
1 TTTATTC-TGGATTTC
62103843 TTTATTC
1 TTTATTC
62103850 GATTTTCTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 2 0.07
15 26 0.87
16 2 0.07
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:62115666 original size:19 final size:19
Alignment explanation
Indices: 62115642--62115681 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
62115632 TGAAAATGTG
62115642 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
62115661 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
62115680 TA
1 TA
62115682 TGATGACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:62118952 original size:2 final size:2
Alignment explanation
Indices: 62118945--62118989 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
62118935 GAGACTAGTC
* *
62118945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62118987 AT A
1 AT A
62118990 CATGTCGTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:62121020 original size:30 final size:30
Alignment explanation
Indices: 62120986--62121046 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62120976 TCCTTAACTC
62120986 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
62121016 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
62121046 A
1 A
62121047 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:62123291 original size:2 final size:2
Alignment explanation
Indices: 62123284--62123310 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62123274 GAGACTAGTC
62123284 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62123311 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62126162 original size:40 final size:40
Alignment explanation
Indices: 62126064--62126211 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
62126054 TGGGCTATTA
* * * * *
62126064 CACACTATGTGCCAATACATAGTCGAAGCTATTTTAATCTCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAA-ATCG
*
62126106 CACACTACGTGCCATACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
* * *
62126146 CACACTAAGTGTCATACATAGCCGAAGTTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
* *
62126186 CACACTAAGTGCCGTACATAACCGAA
1 CACACTAAGTGCCATACATAGCCGAA
62126212 TTGTCGTGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 62 0.66
41 20 0.21
42 12 0.13
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCG
Found at i:62136810 original size:1 final size:1
Alignment explanation
Indices: 62136804--62136842 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
62136794 GATAAGTTGT
62136804 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
62136843 CGAAACAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:62137954 original size:22 final size:22
Alignment explanation
Indices: 62137906--62137978 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
62137896 TTGGTTAAGG
* *
62137906 GTTTAATGTTTATGAGTTACT-A
1 GTTTAAGGTTTATGAATTA-TGA
*
62137928 TTTTAAGGTTTATGAATTATGA
1 GTTTAAGGTTTATGAATTATGA
* * **
62137950 GTTTAGGGATTATGGTTTATG-
1 GTTTAAGGTTTATGAATTATGA
62137971 GTTTAAGG
1 GTTTAAGG
62137979 GTTGGGGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 8 0.20
22 33 0.80
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (22 bp):
GTTTAAGGTTTATGAATTATGA
Found at i:62141558 original size:229 final size:229
Alignment explanation
Indices: 62141126--62142042 Score: 1176
Period size: 229 Copynumber: 4.0 Consensus size: 229
62141116 TAATTGAATA
* * * * * ** *
62141126 AATGTTGTTAATTGAGGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGT
1 AATGCTGTAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGCTTAAATATTGCAAATTGAAGT
*
62141190 GTTTAAATACTGTAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGA-AATTG
65 GTTTAAGTACTGTAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCT-ATAATTG
*
62141254 AGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAA
129 AGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCAA
62141319 ATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTG
194 ATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTG
* * * *
62141355 AATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGATGTGCTTAAATGTTGCAACTTGAAGTG
1 AATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAAATATTGCAAATTGAAGTG
* * *
62141420 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGTTGGGCATTGAGATGTTTTATCGCTATAATTGAG
66 TTTAAGTACTGTAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTATAATTGAG
*
62141485 GTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCAAAT
131 GTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCAAAT
*
62141550 TGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTG
196 TGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTG
* *
62141584 AATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATATTGCAAATTGAAGTG
1 AATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAAATATTGCAAATTGAAGTG
* *
62141649 TTTAAGTATTGTAAATTAAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTATAATTGAG
66 TTTAAGTACTGTAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTATAATTGAG
*
62141714 GTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAA
131 GTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAA-TGCTGCAAA
* *
62141778 TTGAAGTGTTTGAA-TGCTGCAAATTGAAGTGTTTA
195 TTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTG
* * *
62141813 AATGCTGTAAATTGAAGTGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTATTGCAAATTGAAG
1 AATGCTGTAAATTGAAGTGT--TTAAATGCTGCAAATTGAAGTGCTTAAATATTGCAAATTGAAG
* * * ** * * * *
62141878 TGTTT-AGTTGCTGGACATTG-AGATGTTTTA-TTGCTATA-ATTGAGGTGTTTAAAT-GTTGTT
64 TGTTTAAG-TACTGTAAATTGAAG-TG-TTTAGTTGCTGGACATTGAGATGTTT-TATCGCT-AT
* * * * ** * *
62141938 ACTTGAGATGT-TATAGTGCTGCAAATTGA-AGTGTTTGAA-TGCTGCAAATTGAAGTGTTTAAA
124 AATTGAGGTGTATA-AATGTTGTTAATTGAGA-TG-TTAAAGTGCTGCAAATTGAAGTGCTTAAA
* *
62142000 TGCTGTAAATTGAAGTGCTTAAA-TGTTGCAAATTGAAGTGTTT
186 TGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTT
62142043 AAGTACTTAT
Statistics
Matches: 615, Mismatches: 58, Indels: 28
0.88 0.08 0.04
Matches are distributed among these distances:
228 6 0.01
229 427 0.69
230 29 0.05
231 140 0.23
232 13 0.02
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (229 bp):
AATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGCTTAAATATTGCAAATTGAAGTG
TTTAAGTACTGTAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTATAATTGAG
GTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCAAAT
TGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTG
Found at i:62142044 original size:23 final size:23
Alignment explanation
Indices: 62141135--62142044 Score: 684
Period size: 23 Copynumber: 39.7 Consensus size: 23
62141125 AAATGTTGTT
*
62141135 AATTGAGGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
62141158 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
62141181 AATTGAAGTGTTTAAATACTGTA
1 AATTGAAGTGTTTAAATGCTGCA
** *
62141204 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* *
62141227 CATTG-AGATGTTT-TATCGCTG-A
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
62141249 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
62141272 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
62141295 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
62141318 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
62141341 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
62141364 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
62141387 AATTGATGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
62141410 ACTTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** * **
62141433 AATTGAAGTGTTTAGTTGTTGGG
1 AATTGAAGTGTTTAAATGCTGCA
* *
62141456 CATTG-AGATGTTT-TAT-C-GCTA
1 AATTGAAG-TGTTTAAATGCTGC-A
* * * **
62141477 TAATTGAGGTGTATAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
*
62141501 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
*
62141524 AATTGAAGTGCTTAAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
62141547 AATTGAAGTG-TTAAAGTGCTACA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
62141570 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
62141593 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* **
62141616 AATTGAAGTGCTTAAATATTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
62141639 AATTGAAGTGTTTAAGTATTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
62141662 AATTAAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* *
62141685 CATTG-AGATGTTT-TAT-C-GCTA
1 AATTGAAG-TGTTTAAATGCTGC-A
* * **
62141706 TAATTGAGGTGTTTAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
62141730 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
62141753 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
62141776 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
62141799 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
62141822 AATTGAAGTGTGCTTAAATGTTGCA
1 AATTGAAGTGT--TTAAATGCTGCA
* **
62141847 AATTGAAGTGTTTAAGTATTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
62141870 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
62141893 CATTG-AGATGTTTTATTGCT--A
1 AATTGAAG-TGTTTAAATGCTGCA
* * **
62141914 TAATTGAGGTGTTTAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
* *
62141938 ACTTG-AGATG-TTATAGTGCTGCA
1 AATTGAAG-TGTTTA-AATGCTGCA
*
62141961 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
62141984 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
62142007 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
62142030 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
62142045 GTACTTATTT
Statistics
Matches: 706, Mismatches: 134, Indels: 94
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.00
21 3 0.00
22 82 0.12
23 561 0.79
24 35 0.05
25 23 0.03
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGCA
Found at i:62143283 original size:19 final size:22
Alignment explanation
Indices: 62143244--62143283 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
62143234 AGAAACCCAA
62143244 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
62143266 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
62143284 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:62143382 original size:27 final size:27
Alignment explanation
Indices: 62143345--62143565 Score: 293
Period size: 27 Copynumber: 8.2 Consensus size: 27
62143335 AGCATGGCTG
* ** *
62143345 CCAGAACAGATA-ATGTGATAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
62143371 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGAT-CAGATATAT-GTGGCAGAGCCA
*
62143399 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
62143426 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
62143453 CCAGATCAGATATATATGGCAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
62143480 CCAGATCAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
62143507 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* * * *
62143534 CTAAATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
62143561 CCAGA
1 CCAGA
62143566 ACGCTTCCTC
Statistics
Matches: 174, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.03
27 153 0.88
28 16 0.09
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Done.