Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 77 of 208
Found at i:27555741 original size:24 final size:22
Alignment explanation
Indices: 27555700--27555748 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 22
27555690 ACGAAAATTT
27555700 AAAAACACAAATTTTTTTTTTA
1 AAAAACACAAATTTTTTTTTTA
27555722 AAAAACACGACAATTTTTTTTTTA
1 AAAAACAC-A-AATTTTTTTTTTA
27555746 AAA
1 AAA
27555749 CATAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 8 0.32
23 1 0.04
24 16 0.64
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAAACACAAATTTTTTTTTTA
Found at i:27555803 original size:18 final size:17
Alignment explanation
Indices: 27555754--27555864 Score: 111
Period size: 17 Copynumber: 6.4 Consensus size: 17
27555744 TAAAACATAA
27555754 AAAATTTT-AAAACACG
1 AAAATTTTGAAAACACG
*
27555770 AGAATTTGTG-AAACACG
1 AAAATTT-TGAAAACACG
*
27555787 AGAATTGTTGAAAACACG
1 AAAATT-TTGAAAACACG
27555805 AAAATTTTGAAAACACG
1 AAAATTTTGAAAACACG
*
27555822 AAAATTTTTG-AAACATAG
1 AAAA-TTTTGAAAACA-CG
*
27555840 AAATTTTTAGAAAAACACG
1 AAAATTTT-G-AAAACACG
27555859 AAAATT
1 AAAATT
27555865 AGAAATTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
16 6 0.08
17 40 0.50
18 23 0.29
19 6 0.08
20 5 0.06
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (17 bp):
AAAATTTTGAAAACACG
Found at i:27555811 original size:35 final size:35
Alignment explanation
Indices: 27555754--27555864 Score: 113
Period size: 35 Copynumber: 3.2 Consensus size: 35
27555744 TAAAACATAA
*
27555754 AAAATT-TT-AAAACACGAGAATTTGTG-AAACACG
1 AAAATTGTTGAAAACACGAAAATTT-TGAAAACACG
*
27555787 AGAATTGTTGAAAACACGAAAATTTTGAAAACACG
1 AAAATTGTTGAAAACACGAAAATTTTGAAAACACG
* * *
27555822 AAAATTTTTG-AAACATAGAAATTTTTAGAAAAACACG
1 AAAATTGTTGAAAACA-CGAAAATTTT-G-AAAACACG
27555859 AAAATT
1 AAAATT
27555865 AGAAATTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
33 5 0.08
34 9 0.14
35 37 0.56
36 1 0.02
37 14 0.21
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (35 bp):
AAAATTGTTGAAAACACGAAAATTTTGAAAACACG
Found at i:27555847 original size:129 final size:128
Alignment explanation
Indices: 27555616--27555906 Score: 351
Period size: 129 Copynumber: 2.2 Consensus size: 128
27555606 CTTTTTAAAA
* * *
27555616 AAAATATAAAAAATTTTAAAACACAAAAATTTGTGAAACACGAGAATTATTGAAAACACGAAAAA
1 AAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAGAATTATTGAAAACACGAAAAA
* * *
27555681 TTTGAAAATACGAAAATTTAAAAACACAAATTTTTTTTTTA-AAAAACACGACAATT-TTTTTTT
66 TTTGAAAACACGAAAATTTAAAAACACAAA---TATTTTTAGAAAAACACGAAAATTATTTTTTT
27555744 T
128 T
* *
27555745 AAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAGAATTGTTGAAAACACGAAAAT
1 AAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAGAATTATTGAAAACACGAAAAA
** *
27555810 TTTGAAAACACGAAAATTTTTGAAACATAGAA-ATTTTTAGAAAAACACGAAAATTAGAAATTTT
66 TTTGAAAACACGAAAA-TTTAAAAACACA-AATATTTTTAGAAAAACACGAAAATT----ATTTT
27555874 TTTT
125 TTTT
*
27555878 --AAC-TAGAAAATTTTAAAACACGAGAATTT
1 AAAACATAAAAAATTTTAAAACACGAGAATTT
27555907 TTTTTTAAAA
Statistics
Matches: 142, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
127 6 0.04
128 14 0.10
129 75 0.53
130 34 0.24
131 5 0.04
133 8 0.06
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (128 bp):
AAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAGAATTATTGAAAACACGAAAAA
TTTGAAAACACGAAAATTTAAAAACACAAATATTTTTAGAAAAACACGAAAATTATTTTTTTT
Found at i:27556672 original size:18 final size:18
Alignment explanation
Indices: 27556651--27556693 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27556641 TTTGGGTTGT
*
27556651 GGGTCGGGTCACCGGATC
1 GGGTCGGGTCACAGGATC
* *
27556669 GGGTCGTGTCGCAGGATC
1 GGGTCGGGTCACAGGATC
27556687 GGGTCGG
1 GGGTCGG
27556694 TTTGACCCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (18 bp):
GGGTCGGGTCACAGGATC
Found at i:27556747 original size:6 final size:6
Alignment explanation
Indices: 27556737--27556814 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
27556727 ATTTTTTATT
*
27556737 TTTTTCC TTTTTC -TTTTC TTTTTC TTTTTC TTTTTTC TTCTTCTCC TTCTTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TT-TT-T-C TTTTTC
* * *
27556789 TTCTTC TTCTTC TTTTTC TTCTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
27556815 CACGAGCCCT
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.08
6 39 0.62
7 14 0.22
8 2 0.03
9 3 0.05
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTC
Found at i:27556758 original size:17 final size:17
Alignment explanation
Indices: 27556738--27556770 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27556728 TTTTTTATTT
27556738 TTTTCCTTTTTCTTTTC
1 TTTTCCTTTTTCTTTTC
*
27556755 TTTTTCTTTTTCTTTT
1 TTTTCCTTTTTCTTTT
27556771 TTCTTCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCCTTTTTCTTTTC
Found at i:27556779 original size:3 final size:3
Alignment explanation
Indices: 27556747--27556815 Score: 81
Period size: 3 Copynumber: 24.0 Consensus size: 3
27556737 TTTTTCCTTT
* * *
27556747 TTC TT- TTC TTT TTC TTT TTC TT- TT- TTC TTC TTC TCC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
27556792 TTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC
27556816 ACGAGCCCTA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 6 0.11
3 50 0.89
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:27556872 original size:18 final size:18
Alignment explanation
Indices: 27556832--27556875 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
27556822 CCTAGCCGCC
27556832 GCGCCG-CGCCGTCGCTT
1 GCGCCGTCGCCGTCGCTT
*
27556849 GTGCCGTCGCCGTCGTCTT
1 GCGCCGTCGCCGTCG-CTT
27556868 -CGCCGTCG
1 GCGCCGTCG
27556876 AGCCGCTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 15 0.65
19 3 0.13
ACGTcount: A:0.00, C:0.43, G:0.34, T:0.23
Consensus pattern (18 bp):
GCGCCGTCGCCGTCGCTT
Found at i:27556951 original size:20 final size:20
Alignment explanation
Indices: 27556894--27556951 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
27556884 TCGGAGGCTC
*
27556894 TCCTCTTC-TTCTC-CTTTC
1 TCCTCTTCTTTCTCTCTTTT
*
27556912 TCCTC-TCTTTCTCTCCTTT
1 TCCTCTTCTTTCTCTCTTTT
*
27556931 TCCTCTTCTTTTTCTCTTTT
1 TCCTCTTCTTTCTCTCTTTT
27556951 T
1 T
27556952 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 10 0.30
19 8 0.24
20 13 0.39
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TCCTCTTCTTTCTCTCTTTT
Found at i:27557199 original size:29 final size:29
Alignment explanation
Indices: 27557166--27557282 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
27557156 TGTAATTTTT
*
27557166 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
27557195 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
27557225 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
27557254 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
27557283 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:27557221 original size:30 final size:30
Alignment explanation
Indices: 27557181--27557282 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
27557171 ATTTAGGATT
*
27557181 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
27557211 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
27557241 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
27557271 AAAATGCAATTT
1 AAAATGAAATTT
27557283 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:27557298 original size:15 final size:16
Alignment explanation
Indices: 27557278--27557314 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
27557268 GTCAAAATGC
27557278 AATTTTTATTTTTT-A
1 AATTTTTATTTTTTGA
*
27557293 AATTTTTTTTTTTTGA
1 AATTTTTATTTTTTGA
27557309 AATTTT
1 AATTTT
27557315 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTTTTATTTTTTGA
Found at i:27557305 original size:16 final size:16
Alignment explanation
Indices: 27557280--27557314 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27557270 CAAAATGCAA
*
27557280 TTTTTATTTTTTAAAT
1 TTTTTATTTTTGAAAT
*
27557296 TTTTTTTTTTTGAAAT
1 TTTTTATTTTTGAAAT
27557312 TTT
1 TTT
27557315 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTATTTTTGAAAT
Found at i:27561831 original size:45 final size:45
Alignment explanation
Indices: 27561772--27561862 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
27561762 TATATCGCTC
* * *
27561772 TTATTATTCTCCATATTATCATTTATATTGTTATTATTCTCTTTG
1 TTATTATTCCCCATATTATCATTTATACTCTTATTATTCTCTTTG
* * * *
27561817 TTATTGTTCCCCATATTATTATTTGTACTCTTATTATTGTCTTTG
1 TTATTATTCCCCATATTATCATTTATACTCTTATTATTCTCTTTG
27561862 T
1 T
27561863 CATGCATGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (45 bp):
TTATTATTCCCCATATTATCATTTATACTCTTATTATTCTCTTTG
Found at i:27562263 original size:126 final size:126
Alignment explanation
Indices: 27562075--27562393 Score: 480
Period size: 126 Copynumber: 2.5 Consensus size: 126
27562065 TCAAAAGGGT
* *
27562075 AAAATTTCGAAAAT-AAGGCAATATTTTGCATTTT-AGAAATTCGAGAAATTGTCCCCTAACTTA
1 AAAATTTCGAAAATAAAGGCAATATTTTGTATTTTGA-AAATTCGAGAAATTGTACCCTAACTTA
* * *
27562138 CTGGGTCTTGATTTTCTTGTTAAACCTAAATAGAAAAATATCTTTTTAAATTTCCAAAAGTA
65 CTGGGTCTCGATTTTCTTGTTAAACCTAAATAGAAAAATATCCTTTTAAATTTCCAAAAATA
* * *
27562200 AAAATTTCGAAAATAAAGGCAATATTTCGTTTTTTGAAAATTTGAGAAATTGTACCCTAACTTAC
1 AAAATTTCGAAAATAAAGGCAATATTTTGTATTTTGAAAATTCGAGAAATTGTACCCTAACTTAC
* *
27562265 TGGGTCTCGATTTTCTTGTTAAACCTAAATAGCAAAATATCCTTTTAAATTTCCAAAAATC
66 TGGGTCTCGATTTTCTTGTTAAACCTAAATAGAAAAATATCCTTTTAAATTTCCAAAAATA
* * * *
27562326 AAAATTTCGAAACTAAAGGCAATATTTTGTATTTAGAAAATTCGAGAAAATCGTGCCCTAACTTA
1 AAAATTTCGAAAATAAAGGCAATATTTTGTATTTTGAAAATTCGAG-AAATTGTACCCTAACTTA
27562391 CTG
65 CTG
27562394 AGCTTCGATT
Statistics
Matches: 174, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
125 14 0.08
126 140 0.80
127 20 0.11
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (126 bp):
AAAATTTCGAAAATAAAGGCAATATTTTGTATTTTGAAAATTCGAGAAATTGTACCCTAACTTAC
TGGGTCTCGATTTTCTTGTTAAACCTAAATAGAAAAATATCCTTTTAAATTTCCAAAAATA
Found at i:27565185 original size:29 final size:30
Alignment explanation
Indices: 27565132--27565188 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27565122 TCCGAGCCTT
27565132 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGTAAAAGTTTA
* *
27565162 GGGGCAAAATTGTAATTTTG-AAAAGTT
1 GGGGCAAAAATGTAATTATGTAAAAGTT
27565189 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAGTTTA
Found at i:27565418 original size:13 final size:13
Alignment explanation
Indices: 27565400--27565431 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27565390 TTTCCAGAAA
27565400 TTATGAATTTATT
1 TTATGAATTTATT
27565413 TTATGAATTTATT
1 TTATGAATTTATT
*
27565426 TGATGA
1 TTATGA
27565432 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:27565617 original size:50 final size:48
Alignment explanation
Indices: 27565526--27565767 Score: 159
Period size: 50 Copynumber: 4.7 Consensus size: 48
27565516 ATTTGGGTAA
* *
27565526 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCT-GG----GACA-TGGCATCC-CAAGA-CATG
* *
27565582 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACA--
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT---C-CCAAGACATG
* ** * *
27565632 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-ATCCCA-AGACATG
* * *
27565682 AGAGGTCCCCTATAAGACCATGTCTAGGACATGGCATGGGCACC-A-ACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT---C-CCAAGACATG
**
27565732 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
27565768 TTTGGCATGT
Statistics
Matches: 149, Mismatches: 24, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 1 0.01
50 78 0.52
51 33 0.22
52 2 0.01
53 5 0.03
54 1 0.01
55 2 0.01
56 23 0.15
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (48 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCCCAAGACATG
Found at i:27565719 original size:100 final size:101
Alignment explanation
Indices: 27565525--27565775 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 101
27565515 CATTTGGGTA
*
27565525 AAGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATGAGAGGTCC
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCC
* *
27565590 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
63 CCTATAAGACCATGTCTAGGACATGGCATGGGCACC-A-AC
* * *
27565631 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCT
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT
27565693 ATAAGACCATGTCTAGGACATGGCATGGGCACCAAC
66 ATAAGACCATGTCTAGGACATGGCATGGGCACCAAC
* *
27565729 ATGAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 A--AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
27565776 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
98 3 0.02
99 1 0.01
100 47 0.36
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (101 bp):
AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT
ATAAGACCATGTCTAGGACATGGCATGGGCACCAAC
Found at i:27572747 original size:29 final size:31
Alignment explanation
Indices: 27572709--27572766 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
27572699 TCCGAGCCTT
*
27572709 GGGGCAAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATTGTAATTATGAAAAAGTTTA
*
27572739 GGGG-AAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATTGTAATTATGAAAAAGTT
27572767 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (31 bp):
GGGGCAAAAATTGTAATTATGAAAAAGTTTA
Found at i:27572996 original size:13 final size:13
Alignment explanation
Indices: 27572978--27573009 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27572968 TTTCCAGAAA
27572978 TTATGAATTTATT
1 TTATGAATTTATT
27572991 TTATGAATTTATT
1 TTATGAATTTATT
*
27573004 TGATGA
1 TTATGA
27573010 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:27573195 original size:50 final size:48
Alignment explanation
Indices: 27573104--27573345 Score: 159
Period size: 50 Copynumber: 4.7 Consensus size: 48
27573094 ATTTGGGTAA
* *
27573104 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCT-GG----GACA-TGGCATCC-CAAGA-CATG
* *
27573160 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACA--
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT---C-CCAAGACATG
* ** * *
27573210 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-ATCCCA-AGACATG
* * *
27573260 AGAGGTCCCCTATAAGACCATGTCTAGGACATGGCATGGGCACC-A-ACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT---C-CCAAGACATG
**
27573310 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
27573346 TTTGGCATGT
Statistics
Matches: 149, Mismatches: 24, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 1 0.01
50 78 0.52
51 33 0.22
52 2 0.01
53 5 0.03
54 1 0.01
55 2 0.01
56 23 0.15
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (48 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCCCAAGACATG
Found at i:27573297 original size:100 final size:101
Alignment explanation
Indices: 27573103--27573353 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 101
27573093 CATTTGGGTA
*
27573103 AAGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATGAGAGGTCC
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCC
* *
27573168 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
63 CCTATAAGACCATGTCTAGGACATGGCATGGGCACC-A-AC
* * *
27573209 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCT
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT
27573271 ATAAGACCATGTCTAGGACATGGCATGGGCACCAAC
66 ATAAGACCATGTCTAGGACATGGCATGGGCACCAAC
* *
27573307 ATGAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 A--AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
27573354 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
98 3 0.02
99 1 0.01
100 47 0.36
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (101 bp):
AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT
ATAAGACCATGTCTAGGACATGGCATGGGCACCAAC
Found at i:27583641 original size:135 final size:134
Alignment explanation
Indices: 27583259--27583642 Score: 581
Period size: 135 Copynumber: 2.8 Consensus size: 134
27583249 TCCTTGTTCA
* * * * * * *
27583259 TATTTATATTCTATGAAAACGAACAATTTAATTTATTCATTACTAAGGATATGAATTACAAGGGT
1 TATTTATATTCTATGAAAACTAAAAATTTAATCTAGTCATTAGTAAGCATATGAATTACAA-CGT
* * * * *
27583324 TGATTTTTATTAATTTATTACATATAAATGGTTAAACTGTTTATTATTAACTTTGAGGATTTAGT
65 TGATTTTTATTAATTTATTACATATAAATTGTTGAACTGTTAATTTTTAACTTCGAGGATTTAGT
27583389 TTCCT
130 TTCCT
27583394 TATTTATATTCTATGAAAACTAAAAATTTAATCTAGTCATTAGTAAGCATATGAATTACAACGAT
1 TATTTATATTCTATGAAAACTAAAAATTTAATCTAGTCATTAGTAAGCATATGAATTACAACG-T
**
27583459 TGATTTTTATTAATTTATTACATATAAATTGTTGAACTGTTGGTTTTTAACTTCGAGGATTTAGT
65 TGATTTTTATTAATTTATTACATATAAATTGTTGAACTGTTAATTTTTAACTTCGAGGATTTAGT
27583524 CTT-CT
130 -TTCCT
* *
27583529 TATTTATATTCTATGAAAACTAAGAATTTAATCTAGTCATTAGTAAGCATATGAATTATAACCGT
1 TATTTATATTCTATGAAAACTAAAAATTTAATCTAGTCATTAGTAAGCATATGAATTACAA-CGT
27583594 TGATTTTTATTAATTTATTACATATAAATTGTTGAACTGTTAATTTTTA
65 TGATTTTTATTAATTTATTACATATAAATTGTTGAACTGTTAATTTTTA
27583643 GATTATTAAT
Statistics
Matches: 229, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
134 1 0.00
135 224 0.98
136 4 0.02
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (134 bp):
TATTTATATTCTATGAAAACTAAAAATTTAATCTAGTCATTAGTAAGCATATGAATTACAACGTT
GATTTTTATTAATTTATTACATATAAATTGTTGAACTGTTAATTTTTAACTTCGAGGATTTAGTT
TCCT
Found at i:27598423 original size:44 final size:43
Alignment explanation
Indices: 27598345--27598494 Score: 125
Period size: 42 Copynumber: 3.6 Consensus size: 43
27598335 AACATGAACA
*
27598345 AAATTATAAAAATATAAAAGTATAAATATGTATATATATATGG
1 AAATTATAAAAATATAAAAATATAAATATGTATATATATATGG
* **
27598388 AAATTATAAAGTATATAAAAATATATGTA-G-ATATATATAT-G
1 AAATTATAAA-AATATAAAAATATAAATATGTATATATATATGG
* * * * *
27598429 -TA-TATATAAATCGTAAAATATATAAATATATATATGTATAT-G
1 AAATTATAAAAAT-ATAAAA-ATATAAATATGTATATATATATGG
*
27598471 -AATTATAAAATATAAAAAAATATA
1 AAATTATAAAA-ATATAAAAATATA
27598495 TGTAAAAGGG
Statistics
Matches: 84, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
38 2 0.02
39 10 0.12
40 8 0.10
41 1 0.01
42 26 0.31
43 21 0.25
44 16 0.19
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (43 bp):
AAATTATAAAAATATAAAAATATAAATATGTATATATATATGG
Found at i:27598455 original size:8 final size:8
Alignment explanation
Indices: 27598345--27598486 Score: 53
Period size: 8 Copynumber: 17.4 Consensus size: 8
27598335 AACATGAACA
27598345 AAAT-TAT
1 AAATATAT
*
27598352 AAAAATAT
1 AAATATAT
27598360 AAA-AGTAT
1 AAATA-TAT
27598368 AAATATGTAT
1 AAATA--TAT
*
27598378 ATATATAT
1 AAATATAT
27598386 GGAAAT-TAT
1 --AAATATAT
27598395 AAAGTATAT
1 AAA-TATAT
*
27598404 AAAAATAT
1 AAATATAT
** *
27598412 ATGTAGAT
1 AAATATAT
*
27598420 ATATATAT
1 AAATATAT
**
27598428 GTATATAT
1 AAATATAT
*
27598436 AAATCGTA-
1 AAAT-ATAT
27598444 AAATATAT
1 AAATATAT
27598452 AAATATAT
1 AAATATAT
*
27598460 ATATGTATAT
1 A-A-ATATAT
*
27598470 GAAT-TAT
1 AAATATAT
27598477 AAA-ATAT
1 AAATATAT
27598484 AAA
1 AAA
27598487 AAAATATATG
Statistics
Matches: 103, Mismatches: 19, Indels: 26
0.70 0.13 0.18
Matches are distributed among these distances:
7 20 0.19
8 53 0.51
9 14 0.14
10 16 0.16
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.37
Consensus pattern (8 bp):
AAATATAT
Found at i:27598458 original size:54 final size:51
Alignment explanation
Indices: 27598349--27598458 Score: 114
Period size: 54 Copynumber: 2.1 Consensus size: 51
27598339 TGAACAAAAT
* *
27598349 TATAAAAATATAAAAGTATAAATATGTATATATATATGGAAATTATAAAGTA
1 TATAAAAATATAAAAGTATAAATATGTATATATAAATGGAAAATATAAAG-A
** * *
27598401 TATAAAAATATATGTAGATATATATATGTATATATAAATCGTAAAATATATAA-A
1 TATAAAAATATA-AAAG-TATAAATATGTATATATAAAT-GGAAAATATA-AAGA
27598455 TATA
1 TATA
27598459 TATATGTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
52 12 0.25
53 2 0.04
54 24 0.50
55 8 0.17
56 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (51 bp):
TATAAAAATATAAAAGTATAAATATGTATATATAAATGGAAAATATAAAGA
Found at i:27598492 original size:36 final size:35
Alignment explanation
Indices: 27598418--27598495 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
27598408 ATATATGTAG
* *
27598418 ATATATATATGTATATATAAATCGTAAAATATATAA
1 ATATATATATG-ATATATAAATCATAAAATATAAAA
* *
27598454 ATATATATATG-TATATGAATTATAAAATATAAAA
1 ATATATATATGATATATAAATCATAAAATATAAAA
*
27598488 AAATATAT
1 ATATATAT
27598496 GTAAAAGGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 26 0.70
36 11 0.30
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.38
Consensus pattern (35 bp):
ATATATATATGATATATAAATCATAAAATATAAAA
Found at i:27598859 original size:14 final size:14
Alignment explanation
Indices: 27598840--27598869 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27598830 TGATAATAGT
*
27598840 AATAACAATATTAA
1 AATAACAATAGTAA
27598854 AATAACAATAGTAA
1 AATAACAATAGTAA
27598868 AA
1 AA
27598870 ATAATGACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (14 bp):
AATAACAATAGTAA
Found at i:27615959 original size:41 final size:40
Alignment explanation
Indices: 27615840--27615965 Score: 134
Period size: 37 Copynumber: 3.2 Consensus size: 40
27615830 ACCAGTTTGG
*
27615840 CACCCAGTGCCTCATC-AGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGA-ATAATTCGAAGTAGTAAATTGA
* * ** * *
27615880 CACTCAGTGTCTCATCGGCTAA-ACCAA--AGTAAATTGA
1 CACCCAGTGCCTCATCGAATAATTCGAAGTAGTAAATTGA
*
27615917 CACCCAGTGGCTCATCGAATTAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATTCGAAGTAGTAAATTGA
27615958 CACCCAGT
1 CACCCAGT
27615966 ATCTTATCAA
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
37 24 0.35
38 3 0.04
39 6 0.09
40 17 0.25
41 18 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATTCGAAGTAGTAAATTGA
Found at i:27616842 original size:27 final size:26
Alignment explanation
Indices: 27616809--27616875 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
27616799 CTCCTTTTTC
*
27616809 TTTCTTTTTTTC-CTTTCTGTTTCGTT
1 TTTCTTTTTTTCTCTTTCTATTTC-TT
* *
27616835 TATTCTTTGTTTCTTTTTCTATTTCTT
1 T-TTCTTTTTTTCTCTTTCTATTTCTT
27616862 TTTCTTTTATTTCT
1 TTTCTTTT-TTTCT
27616876 TTGTTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.21
27 18 0.53
28 9 0.26
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTCTTTTTTTCTCTTTCTATTTCTT
Found at i:27616859 original size:6 final size:6
Alignment explanation
Indices: 27616792--27616869 Score: 52
Period size: 6 Copynumber: 12.3 Consensus size: 6
27616782 GGTGCGTCTG
* * *
27616792 TTTCTT TCTCCTT TTTCTT TCTT-TT TTTC-C TTTCTG TTTCGTT TATTCTTT
1 TTTCTT T-TTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTC-TT T-TTC-TT
*
27616843 GTTTCTT TTTCTA TTTCTT TTTCTT TT
1 -TTTCTT TTTCTT TTTCTT TTTCTT TT
27616870 ATTTCTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 6 0.11
6 31 0.54
7 11 0.19
8 8 0.14
9 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.04, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:27628228 original size:7 final size:7
Alignment explanation
Indices: 27628216--27628249 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
27628206 TGCCTTCTTA
27628216 TTTGGTG
1 TTTGGTG
27628223 TTTGGTG
1 TTTGGTG
27628230 TTTGGTG
1 TTTGGTG
27628237 TTTGGTG
1 TTTGGTG
27628244 TTTGGT
1 TTTGGT
27628250 ATTAGCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.41, T:0.59
Consensus pattern (7 bp):
TTTGGTG
Found at i:27632524 original size:27 final size:27
Alignment explanation
Indices: 27632486--27632561 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
27632476 TAGTATTGGC
27632486 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
27632513 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
27632540 GCC-ATTCTGAGAGGCGCCAATG
1 GCCTA-TCTGGGAGGCGCCAATG
27632562 CTATTATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.20
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:27632672 original size:22 final size:23
Alignment explanation
Indices: 27632620--27632672 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
27632610 CCAGAAACGA
*
27632620 AAGAAATAAGAAGGAAGGAAGCAG
1 AAGAAA-AAGAAGGAAGGAAGAAG
27632644 AAG-AAAAGAAGGAAGGAA-AAG
1 AAGAAAAAGAAGGAAGGAAGAAG
27632665 AAGAAAAA
1 AAGAAAAA
27632673 AATTAGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 2 0.07
24 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (23 bp):
AAGAAAAAGAAGGAAGGAAGAAG
Found at i:27634104 original size:16 final size:15
Alignment explanation
Indices: 27634073--27634114 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
27634063 ACAAAATCAA
*
27634073 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
27634088 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
27634104 ATAAAAATTAA
1 ATAAAAGTTAA
27634115 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:27634205 original size:39 final size:39
Alignment explanation
Indices: 27634151--27634228 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
27634141 AAAAAGTCAG
27634151 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTTT
* *
27634190 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTTT
27634229 ATAAACTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (39 bp):
TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTTT
Found at i:27634397 original size:22 final size:21
Alignment explanation
Indices: 27634372--27634418 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27634362 AATTAATTAT
27634372 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
* *
27634394 AAAAAAATATAATATTCATAC
1 AAAAAATTACAATATTCATAC
27634415 AAAA
1 AAAA
27634419 TTACAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:27634455 original size:22 final size:22
Alignment explanation
Indices: 27634372--27634660 Score: 194
Period size: 22 Copynumber: 13.2 Consensus size: 22
27634362 AATTAATTAT
*
27634372 AAAATAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
*
27634394 AAAAAAA-TATAATATTCATAC
1 AAAAAAATTACAATATTCATAC
27634415 AAAATTACAAAATTACAATATTCATAC
1 --AA--A-AAAATTACAATATTCATAC
*
27634442 AAAAAAATTGCAATATTCATAC
1 AAAAAAATTACAATATTCATAC
*
27634464 AAAACTATAATATTACAATATTTATAC
1 -AAA--A-AA-ATTACAATATTCATAC
* *
27634491 AAAAAATTTATAATATTCATAC
1 AAAAAAATTACAATATTCATAC
27634513 ---AAAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
* *
27634532 -AAAAAATTACTA-ATCCA-A-
1 AAAAAAATTACAATATTCATAC
* * *
27634550 AACTATAAA-TACAA-ATTTAATTAT
1 AA--AAAAATTACAATA-TTCA-TAC
*
27634574 AAAATAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
*
27634596 ---AACATTACAATATTCAT--
1 AAAAAAATTACAATATTCATAC
* *
27634613 AAAAAAATTATAATGTTCATAC
1 AAAAAAATTACAATATTCATAC
* *
27634635 AAAAAATTTAAAATATTCATAC
1 AAAAAAATTACAATATTCATAC
27634657 AAAA
1 AAAA
27634661 TTCTAATCTA
Statistics
Matches: 211, Mismatches: 29, Indels: 54
0.72 0.10 0.18
Matches are distributed among these distances:
19 34 0.16
20 23 0.11
21 28 0.13
22 65 0.31
23 17 0.08
24 4 0.02
25 4 0.02
26 9 0.04
27 27 0.13
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (22 bp):
AAAAAAATTACAATATTCATAC
Found at i:27634465 original size:41 final size:42
Alignment explanation
Indices: 27634423--27634660 Score: 168
Period size: 49 Copynumber: 5.5 Consensus size: 42
27634413 ACAAAATTAC
*
27634423 AAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA
1 AAAATTACAATATTCATACAAAAAAATTACAATATTCATAC---A
* * *
27634468 CTATAATATTACAATATTTATACAAAAAATTTATAATATTCATAC-
1 --A-AA-ATTACAATATTCATACAAAAAAATTACAATATTCATACA
* * *
27634513 AAAATTACAATATTCATAC-AAAAAATTACTA-ATCCAAAACTA
1 AAAATTACAATATTCATACAAAAAAATTACAATATTC-ATAC-A
* * * *
27634555 TAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-
1 AAAATTACAATA-TTCA-TACAAAAAAATTACAATATTCATACA
* * *
27634596 AACATTACAATATTCAT--AAAAAAATTATAATGTTCATACAA
1 AAAATTACAATATTCATACAAAAAAATTACAATATTCATAC-A
*
27634637 AAAATTTAAAATATTCATACAAAA
1 AAAA-TTACAATATTCATACAAAA
27634661 TTCTAATCTA
Statistics
Matches: 150, Mismatches: 25, Indels: 35
0.71 0.12 0.17
Matches are distributed among these distances:
39 22 0.15
40 13 0.09
41 29 0.19
42 27 0.18
43 15 0.10
44 7 0.05
47 1 0.01
48 2 0.01
49 34 0.23
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (42 bp):
AAAATTACAATATTCATACAAAAAAATTACAATATTCATACA
Found at i:27634518 original size:20 final size:19
Alignment explanation
Indices: 27634475--27634662 Score: 103
Period size: 20 Copynumber: 9.2 Consensus size: 19
27634465 AAACTATAAT
*
27634475 ATTACAATATTTATACAAAAA
1 ATTACAATATTCATAC--AAA
*
27634496 ATTTATAATATTCATACAAA
1 A-TTACAATATTCATACAAA
27634516 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* * *
27634537 ATTACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
27634558 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
27634580 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
*
27634599 ATTACAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
* *
27634619 ATTATAATGTTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
27634640 ATTTAAAATATTCATACAAA
1 A-TTACAATATTCATACAAA
27634660 ATT
1 ATT
27634663 CTAATCTAAA
Statistics
Matches: 130, Mismatches: 20, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
19 34 0.26
20 36 0.28
21 22 0.17
22 31 0.24
23 5 0.04
25 2 0.02
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.34
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:27634525 original size:49 final size:48
Alignment explanation
Indices: 27634378--27634526 Score: 217
Period size: 49 Copynumber: 3.1 Consensus size: 48
27634368 TTATAAAATA
* *
27634378 ATTACAATATTCATACAAAAAAATATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAAT
** * *
27634426 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATAC-AAAAAATTATAATATTCATACAAAATTACAAT
*
27634475 ATTACAATATTTATACAAAAAATTTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAATTACAAT
27634524 ATT
1 ATT
27634527 CATACAAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
48 22 0.25
49 66 0.75
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (48 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAAT
Found at i:27635015 original size:27 final size:27
Alignment explanation
Indices: 27634985--27635049 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
27634975 GCAGAGGCAC
*
27634985 CATTGGCGCCTCTCCATCAGGCTCCTT
1 CATTGGCGCCTCTCCATCAAGCTCCTT
*
27635012 CATTGACGCCTCTCCATCAAGCTCCTT
1 CATTGGCGCCTCTCCATCAAGCTCCTT
27635039 CATTGGCGCCT
1 CATTGGCGCCT
27635050 ACTTGACAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.14, C:0.40, G:0.17, T:0.29
Consensus pattern (27 bp):
CATTGGCGCCTCTCCATCAAGCTCCTT
Found at i:27639753 original size:33 final size:33
Alignment explanation
Indices: 27639710--27639775 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
27639700 AGGTATGTTT
* * *
27639710 TTTATGTCTTACGAAATAGGTAATGTTGGCATA
1 TTTATATCTTACAAAATAGGTAATATTGGCATA
27639743 TTTATATCTTACAAAATAGGTAATATTGGCATA
1 TTTATATCTTACAAAATAGGTAATATTGGCATA
27639776 AAGAAAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (33 bp):
TTTATATCTTACAAAATAGGTAATATTGGCATA
Found at i:27645494 original size:24 final size:23
Alignment explanation
Indices: 27645466--27645515 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 23
27645456 GCAGCAGGTG
27645466 TCTCTTCCTCT-TTTTCTTCTTTCT
1 TCTCTTCCT-TGTTTTCTTC-TTCT
27645490 TCTCTTCCTTGTTTTCTTCTTCT
1 TCTCTTCCTTGTTTTCTTCTTCT
27645513 TCT
1 TCT
27645516 TTCTTTGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (23 bp):
TCTCTTCCTTGTTTTCTTCTTCT
Found at i:27645948 original size:23 final size:24
Alignment explanation
Indices: 27645920--27645983 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
27645910 CCATGGGTAA
*
27645920 GTAAGAGAGGAAGAATGAA-AGTT
1 GTAAGAGAGGAAGAATGAAGAGTG
*
27645943 GTAAGAAAGGGAGAAGAATGAAGAGTG
1 GTAAG--AGAG-GAAGAATGAAGAGTG
*
27645970 GGAAGA-AGGAAGAA
1 GTAAGAGAGGAAGAA
27645984 GAGGGGGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
23 11 0.33
24 1 0.03
25 4 0.12
26 10 0.30
27 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.39, T:0.11
Consensus pattern (24 bp):
GTAAGAGAGGAAGAATGAAGAGTG
Found at i:27645978 original size:26 final size:26
Alignment explanation
Indices: 27645929--27645985 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27645919 AGTAAGAGAG
* * *
27645929 GAAGAATGAAAGTTGTAAGAAAGGGA
1 GAAGAATGAAAGTGGGAAGAAAGGAA
27645955 GAAGAATGAAGAGTGGGAAG-AAGGAA
1 GAAGAATGAA-AGTGGGAAGAAAGGAA
27645981 GAAGA
1 GAAGA
27645986 GGGGGCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.39, T:0.11
Consensus pattern (26 bp):
GAAGAATGAAAGTGGGAAGAAAGGAA
Found at i:27652760 original size:91 final size:91
Alignment explanation
Indices: 27652613--27652820 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
27652603 TTGATTTTAG
* *
27652613 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
27652678 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
27652705 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
27652770 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * *
27652796 CAAATTCATATGAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
27652821 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:27652789 original size:26 final size:28
Alignment explanation
Indices: 27652735--27652795 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
27652725 TATTATCAAG
* *
27652735 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
27652763 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
27652789 AATTATA
1 AATTATA
27652796 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:27652795 original size:44 final size:43
Alignment explanation
Indices: 27652653--27652795 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
27652643 GAATTTTATG
* *
27652653 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
27652697 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
27652744 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
27652788 AAATTATA
1 AAATTATA
27652796 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:27652913 original size:59 final size:58
Alignment explanation
Indices: 27652825--27653035 Score: 152
Period size: 54 Copynumber: 3.6 Consensus size: 58
27652815 TTATTAGTTA
27652825 TAATTATTTTAAA--ATTTATTA-A--ATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTTAAATTATTT-TTATAGTATCATATATTTTAATTAAAATATATTTAATAT
* * * **
27652879 TAATTATTTTAAATTATCTTTTATAGTATCATATATTATGATTTGGGTAAATTCATATAAGAATA
1 TAATTATTTTAAATTAT-TTTTATAGTATCATATATT-TTA-AT---TAAAAT-ATAT-TTAATA
27652944 T
58 T
* * * * * *
27652945 TAATTATTATGAATT-TTATTA-A--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
* *
27652999 TAATTATGTTAATTTATATTTTATAGTATCATATATT
1 TAATTATTTTAAATTAT-TTTTATAGTATCATATATT
27653036 ATGATTTCAG
Statistics
Matches: 117, Mismatches: 22, Indels: 31
0.69 0.13 0.18
Matches are distributed among these distances:
54 28 0.24
55 5 0.04
56 13 0.11
57 4 0.03
59 20 0.17
60 4 0.03
61 10 0.09
63 1 0.01
64 9 0.08
65 5 0.04
66 18 0.15
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (58 bp):
TAATTATTTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:27652944 original size:66 final size:63
Alignment explanation
Indices: 27652874--27653072 Score: 164
Period size: 66 Copynumber: 3.2 Consensus size: 63
27652864 AAATATATTT
27652874 AATATTAATTATTTTAAATTATCTTTTATAGTATCATATATTATGATTTGGGTAAATTCATATAA
1 AATATTAATTATTTTAAATTAT-TTTTATAGTATCATATATTATGATTT--GTAAATTCATATAA
27652939 G
63 G
* * * * * * * **
27652940 AATATTAATTATTATGAATT-TTATTA-A--ATTATATATT-TTAATTAT-AA-T-ATAT-TT
1 AATATTAATTATTTTAAATTATTTTTATAGTATCATATATTATGATTTGTAAATTCATATAAG
* * *
27652994 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAA
1 AATATTAATTATTTTAAATTAT-TTTTATAGTATCATATATTATGATTT--GTAAATTCATATAA
27653059 G
63 G
*
27653060 AATATTGATTATT
1 AATATTAATTATT
27653073 AAGAATTTTA
Statistics
Matches: 97, Mismatches: 24, Indels: 24
0.67 0.17 0.17
Matches are distributed among these distances:
54 15 0.15
55 5 0.05
56 5 0.05
57 3 0.03
58 1 0.01
59 9 0.09
60 8 0.08
61 9 0.09
62 1 0.01
63 3 0.03
64 5 0.05
65 5 0.05
66 28 0.29
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTTTAAATTATTTTTATAGTATCATATATTATGATTTGTAAATTCATATAAG
Found at i:27652965 original size:120 final size:120
Alignment explanation
Indices: 27652825--27653134 Score: 485
Period size: 120 Copynumber: 2.6 Consensus size: 120
27652815 TTATTAGTTA
* * * * * *
27652825 TAATTATTTTAAAATTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTTA
1 TAATTATTATGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTA
* **
27652890 AATTATCTTTTATAGTATCATATATTATGATTTGGGTAAATTCATATAAGAATAT
66 AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
*
27652945 TAATTATTATGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATTATTATGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTA
*
27653010 ATTTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
66 AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
* *
27653065 TGATTATTAAGAATTTTATTATAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TAATTATTATGAATTTTATTA-AATTATATATTTTAATTATAATATATTTAATAATAATTAT-TT
27653130 TAAAT
64 TAAAT
27653135 ATGATTAAAT
Statistics
Matches: 173, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
120 128 0.74
121 40 0.23
122 5 0.03
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
TAATTATTATGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTA
AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
Found at i:27652996 original size:15 final size:15
Alignment explanation
Indices: 27652961--27653012 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27652951 TTATGAATTT
*
27652961 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27652975 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27652989 TATTTAATAATAAT-
1 TATTTAATTATAATA
27653003 TATGTTAATT
1 TAT-TTAATT
27653013 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27653098 original size:18 final size:18
Alignment explanation
Indices: 27653077--27653112 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27653067 ATTATTAAGA
27653077 ATTTT-ATTATAATTATAT
1 ATTTTAATTATAA-TATAT
27653095 ATTTTAATTATAATATAT
1 ATTTTAATTATAATATAT
27653113 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTAATTATAATATAT
Found at i:27653102 original size:13 final size:14
Alignment explanation
Indices: 27653081--27653123 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
27653071 TTAAGAATTT
*
27653081 TATTATAATTAT-A
1 TATTTTAATTATAA
27653094 TATTTTAATTATAA
1 TATTTTAATTATAA
*
27653108 TATATTTAATAATAA
1 TAT-TTTAATTATAA
27653123 T
1 T
27653124 TATGTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 11 0.42
14 4 0.15
15 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTTAATTATAA
Found at i:27653112 original size:16 final size:16
Alignment explanation
Indices: 27653085--27653132 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
27653075 GAATTTTATT
*
27653085 ATAATTATATATTTTA
1 ATAATAATATATTTTA
*
27653101 ATTATAATATA-TTTA
1 ATAATAATATATTTTA
27653116 ATAATAAT-TATGTTTA
1 ATAATAATATAT-TTTA
27653132 A
1 A
27653133 ATATGATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 11 0.41
16 14 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATAATAATATATTTTA
Found at i:27653117 original size:15 final size:15
Alignment explanation
Indices: 27653081--27653123 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
27653071 TTAAGAATTT
27653081 TATTATAATTAT-ATA
1 TATT-TAATTATAATA
27653096 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27653110 TATTTAATAATAAT
1 TATTTAATTATAAT
27653124 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27658967 original size:16 final size:16
Alignment explanation
Indices: 27658932--27658975 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
27658922 ATTTTAAATG
* *
27658932 AAAAACATAGAATTTT
1 AAAAATATAAAATTTT
27658948 AAAAATA-AAAATTTT
1 AAAAATATAAAATTTT
27658963 AAAAAATATAAAA
1 -AAAAATATAAAA
27658976 AATACCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 13 0.54
17 4 0.17
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAATATAAAATTTT
Found at i:27661747 original size:20 final size:20
Alignment explanation
Indices: 27661724--27661788 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
27661714 AATAGAAAGG
*
27661724 AATCAAAGGATTGAGAATCA
1 AATCAAAGGATTGAGAATAA
* * *
27661744 AATCAATGTAATG-GAA-AGA
1 AATCAAAGGATTGAGAATA-A
*
27661763 AATCAAAAGATTGAGAATAA
1 AATCAAAGGATTGAGAATAA
27661783 AATCAA
1 AATCAA
27661789 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 13 0.38
20 20 0.59
21 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCAAAGGATTGAGAATAA
Found at i:27661761 original size:39 final size:39
Alignment explanation
Indices: 27661713--27661793 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
27661703 AGCAAAACAA
* * *
27661713 TAATAGAAAGGAATCAAAGGATTGAGAATCAAATCAATG
1 TAATAGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
*
27661752 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
1 TAATAGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
27661791 TAA
1 TAA
27661794 ACAAGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.21
Consensus pattern (39 bp):
TAATAGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
Found at i:27662427 original size:3 final size:3
Alignment explanation
Indices: 27662421--27662461 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
27662411 CCTCATCATC
*
27662421 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
27662462 GTACATACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:27662702 original size:26 final size:26
Alignment explanation
Indices: 27662652--27662701 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
27662642 TTTTATAATC
*
27662652 TATATATGTATATAATTATTTTTTTA
1 TATATATGTACATAATTATTTTTTTA
27662678 TATATATGTACAT-ATTATTTTTTT
1 TATATATGTACATAATTATTTTTTT
27662702 TCAATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TATATATGTACATAATTATTTTTTTA
Found at i:27673429 original size:18 final size:18
Alignment explanation
Indices: 27673406--27673442 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27673396 GGAACAAACA
*
27673406 AGGTCAGGTTATGTGCAC
1 AGGTCAGGTAATGTGCAC
27673424 AGGTCAGGTAATGTGCAC
1 AGGTCAGGTAATGTGCAC
27673442 A
1 A
27673443 TGTCTAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (18 bp):
AGGTCAGGTAATGTGCAC
Found at i:27673736 original size:14 final size:13
Alignment explanation
Indices: 27673714--27673768 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 13
27673704 AAAGTAAAAG
27673714 AAGCAAAGCAGTA
1 AAGCAAAGCAGTA
* *
27673727 AGGCACAAGCTGTA
1 AAGCA-AAGCAGTA
*
27673741 AAGCAAAAGTAGTA
1 AAGC-AAAGCAGTA
27673755 AAGCAAAGCAGTA
1 AAGCAAAGCAGTA
27673768 A
1 A
27673769 GCCATAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 13 0.38
14 20 0.59
15 1 0.03
ACGTcount: A:0.51, C:0.15, G:0.24, T:0.11
Consensus pattern (13 bp):
AAGCAAAGCAGTA
Found at i:27673763 original size:27 final size:27
Alignment explanation
Indices: 27673714--27673768 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
27673704 AAAGTAAAAG
* *
27673714 AAGCAAAGCAGTAAGGCACAAGCTGTA
1 AAGCAAAGCAGTAAAGCACAAGCAGTA
*
27673741 AAGCAAAAGTAGTAAAGCA-AAGCAGTA
1 AAGC-AAAGCAGTAAAGCACAAGCAGTA
27673768 A
1 A
27673769 GCCATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.51, C:0.15, G:0.24, T:0.11
Consensus pattern (27 bp):
AAGCAAAGCAGTAAAGCACAAGCAGTA
Found at i:27677464 original size:18 final size:18
Alignment explanation
Indices: 27677437--27677563 Score: 200
Period size: 18 Copynumber: 7.1 Consensus size: 18
27677427 TACGACCGTT
27677437 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
27677455 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
27677473 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
27677491 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
27677509 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
27677527 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
27677545 TACGGTATTGTTCACGTA
1 TACGGTACTATTCACGTA
27677563 T
1 T
27677564 GCAGTAGTTG
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 99 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:27683141 original size:31 final size:31
Alignment explanation
Indices: 27683106--27683175 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
27683096 ATAATACATG
27683106 ATAAAATTACAATTTAAAC-TCTTAAAAAAT
1 ATAAAATTACAATTTAAACTTCTTAAAAAAT
** * * *
27683136 AATAAAATTTTAATTTAATCTTTTTAAAAACT
1 -ATAAAATTACAATTTAAACTTCTTAAAAAAT
27683168 ATAAAATT
1 ATAAAATT
27683176 TTAAGCTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (31 bp):
ATAAAATTACAATTTAAACTTCTTAAAAAAT
Found at i:27686928 original size:18 final size:18
Alignment explanation
Indices: 27686899--27686946 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
27686889 TCACATTGTT
*
27686899 TTCATATAATTTCTTA-A
1 TTCATTTAATTTCTTATA
* *
27686916 TTTATCTTAATTTGTTATA
1 TTCAT-TTAATTTCTTATA
27686935 TTCATTTAATTT
1 TTCATTTAATTT
27686947 TAACTCGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (18 bp):
TTCATTTAATTTCTTATA
Found at i:27691791 original size:12 final size:11
Alignment explanation
Indices: 27691761--27691853 Score: 58
Period size: 11 Copynumber: 9.1 Consensus size: 11
27691751 AATTAATTTT
27691761 TATAAAAATTA
1 TATAAAAATTA
* *
27691772 TAAAAAAATTT
1 TATAAAAATTA
27691783 TATAGAAAATTA
1 TATA-AAAATTA
*
27691795 TATAAGAATTA
1 TATAAAAATTA
* *
27691806 T-T-CAAATGA
1 TATAAAAATTA
*
27691815 CA-AAAAATTA
1 TATAAAAATTA
*
27691825 T-T-AAAATTT
1 TATAAAAATTA
27691834 TAT-AAAA--A
1 TATAAAAATTA
27691842 TATAAAAATTA
1 TATAAAAATTA
27691853 T
1 T
27691854 TGAAATTTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 16
0.67 0.16 0.18
Matches are distributed among these distances:
8 3 0.05
9 15 0.25
10 11 0.18
11 21 0.35
12 10 0.17
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (11 bp):
TATAAAAATTA
Found at i:27691859 original size:17 final size:18
Alignment explanation
Indices: 27691839--27691873 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27691829 AATTTTATAA
27691839 AAATATAAA-AATTATTG
1 AAATATAAACAATTATTG
*
27691856 AAATTTAAACAATTATTG
1 AAATATAAACAATTATTG
27691874 TATTAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATAAACAATTATTG
Found at i:27692133 original size:18 final size:19
Alignment explanation
Indices: 27692110--27692153 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
27692100 TAAAAATATT
*
27692110 ATATTTTATAT-TTTTTTA
1 ATATTTTATATATTTTTAA
27692128 ATATTTT-TATATTTTTAA
1 ATATTTTATATATTTTTAA
27692146 ATATTTTA
1 ATATTTTA
27692154 ATAAAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATTTTATATATTTTTAA
Found at i:27696711 original size:18 final size:18
Alignment explanation
Indices: 27696684--27696719 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27696674 TAGAAATTCT
27696684 TCTATATTATTTCATGTA
1 TCTATATTATTTCATGTA
*
27696702 TCTATTTTATTTCATGTA
1 TCTATATTATTTCATGTA
27696720 CTAAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (18 bp):
TCTATATTATTTCATGTA
Found at i:27700068 original size:126 final size:125
Alignment explanation
Indices: 27699842--27700125 Score: 415
Period size: 126 Copynumber: 2.3 Consensus size: 125
27699832 ACGTGGGAAC
* * ** *
27699842 TTTTTTCAAGAGCTACTATAGCAAAAGCGCGTCCACGTGGGGCTTCTTTCAGTACTTCTGCTAAT
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAACTTCTTTCAGTACTTCTGCTAAC
* * *
27699907 AAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
66 AAAACATCCTGCTTAAAGCGTTTTTGACACCGTTTGCTCAGAAACGTCTACTCAAAATTA
* * **
27699967 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAACTTTTTTCAGTACTTTTGCTGG
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGG-AACTTCTTTCAGTACTTCTGCTAA
* *
27700032 CAAAACATCCTGCTTAAAGCGTTTTTGACACCGTTTGCTGAGAAACGTTTACTCAAAATTA
65 CAAAACATCCTGCTTAAAGCGTTTTTGACACCGTTTGCTCAGAAACGTCTACTCAAAATTA
* *
27700093 TTTTCTCAGGAGCCACTGTAGCAAAAGCGCGTC
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTC
27700126 TATGTGGGAG
Statistics
Matches: 142, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
125 38 0.27
126 104 0.73
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (125 bp):
TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAACTTCTTTCAGTACTTCTGCTAAC
AAAACATCCTGCTTAAAGCGTTTTTGACACCGTTTGCTCAGAAACGTCTACTCAAAATTA
Found at i:27700604 original size:6 final size:6
Alignment explanation
Indices: 27700595--27700622 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27700585 AAAATACCAA
27700595 AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
27700623 TTAAACCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:27708653 original size:34 final size:35
Alignment explanation
Indices: 27708609--27708675 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
27708599 CAGTAAAATA
*
27708609 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
27708643 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
27708676 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:27716265 original size:54 final size:54
Alignment explanation
Indices: 27716179--27716284 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
27716169 ATGAAGAGAC
*
27716179 TGGACGTTTCCAAGAATCCCAGTTCAACGAAACTCCGTTTCAGGAGATCAACGG
1 TGGACGTTTCCAAGAATCCCAGTTCAACGAAACTCCATTTCAGGAGATCAACGG
* * *
27716233 TGGACGTTTTCAAGAATCCCAGTTCCAGGAAACTCCATTTCAGGAGATCAAC
1 TGGACGTTTCCAAGAATCCCAGTTCAACGAAACTCCATTTCAGGAGATCAAC
27716285 AACGTCAACA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (54 bp):
TGGACGTTTCCAAGAATCCCAGTTCAACGAAACTCCATTTCAGGAGATCAACGG
Found at i:27716391 original size:36 final size:36
Alignment explanation
Indices: 27716344--27716417 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
27716334 AGAAGAAGAA
*
27716344 GAAAGAACCAGAAGTGAGGACTTTTCATTCTATAGG
1 GAAAGAACCAGAAGTGAGGACTTTTCACTCTATAGG
*
27716380 GAAAGAACCAGAAGTGAGGACTTTTCACTCTGTAGG
1 GAAAGAACCAGAAGTGAGGACTTTTCACTCTATAGG
27716416 GA
1 GA
27716418 CTGGAACTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (36 bp):
GAAAGAACCAGAAGTGAGGACTTTTCACTCTATAGG
Found at i:27732837 original size:15 final size:15
Alignment explanation
Indices: 27732819--27732868 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
27732809 CGAACCACTG
27732819 CCTCCACCTCCACCT
1 CCTCCACCTCCACCT
*
27732834 CCTCCACTTCCA-CT
1 CCTCCACCTCCACCT
* *
27732848 GCCACCACCTCCGCCT
1 -CCTCCACCTCCACCT
27732864 CCTCC
1 CCTCC
27732869 TTCACCGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.12, C:0.64, G:0.04, T:0.20
Consensus pattern (15 bp):
CCTCCACCTCCACCT
Found at i:27733038 original size:24 final size:24
Alignment explanation
Indices: 27733011--27733060 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
27733001 ACCACCAACG
*
27733011 CCACTTCCGTATCCGGATCCAGAC
1 CCACTTCCGTAACCGGATCCAGAC
27733035 CCACTTCCGTAACCGGATCCAGAC
1 CCACTTCCGTAACCGGATCCAGAC
27733059 CC
1 CC
27733061 TACTCCACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.44, G:0.16, T:0.18
Consensus pattern (24 bp):
CCACTTCCGTAACCGGATCCAGAC
Found at i:27733121 original size:18 final size:18
Alignment explanation
Indices: 27733065--27733122 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
27733055 AGACCCTACT
* * *
27733065 CCACTGCCACCACCTCCG
1 CCACCGCCACCTCCTCCA
* * *
27733083 CCGCCGCCACCTCCGCTA
1 CCACCGCCACCTCCTCCA
27733101 CCACCGCCACCTCCTCCA
1 CCACCGCCACCTCCTCCA
27733119 CCAC
1 CCAC
27733123 TTCCTATCCC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.16, C:0.64, G:0.10, T:0.10
Consensus pattern (18 bp):
CCACCGCCACCTCCTCCA
Found at i:27733188 original size:24 final size:24
Alignment explanation
Indices: 27733140--27733189 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
27733130 CCCACCACCA
* * *
27733140 GACCCATACCCCGATCCGGATCCT
1 GACCCATACCCAGACCCGGACCCT
*
27733164 GACCCATACCCAGACCCGTACCCT
1 GACCCATACCCAGACCCGGACCCT
27733188 GA
1 GA
27733190 TCCTTCACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.46, G:0.16, T:0.14
Consensus pattern (24 bp):
GACCCATACCCAGACCCGGACCCT
Found at i:27733246 original size:24 final size:24
Alignment explanation
Indices: 27733195--27733246 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
27733185 CCTGATCCTT
* *
27733195 CACCCCCACCACCACCGCCTCCTT
1 CACCCCCACCACCACCGCCACCTC
* *
27733219 CACCCCCACCCCCACCTCCACCTC
1 CACCCCCACCACCACCGCCACCTC
27733243 CACC
1 CACC
27733247 TTGTCCAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.71, G:0.02, T:0.10
Consensus pattern (24 bp):
CACCCCCACCACCACCGCCACCTC
Found at i:27733247 original size:12 final size:12
Alignment explanation
Indices: 27733195--27733246 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
27733185 CCTGATCCTT
*
27733195 CACCCCCACCAC
1 CACCCCCACCTC
* * *
27733207 CACCGCCTCCTT
1 CACCCCCACCTC
*
27733219 CACCCCCACCCC
1 CACCCCCACCTC
*
27733231 CACCTCCACCTC
1 CACCCCCACCTC
27733243 CACC
1 CACC
27733247 TTGTCCAAGA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.17, C:0.71, G:0.02, T:0.10
Consensus pattern (12 bp):
CACCCCCACCTC
Found at i:27737256 original size:17 final size:17
Alignment explanation
Indices: 27737234--27737267 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27737224 TTAAAGTCAC
27737234 TAAATTAATTTCTTAAT
1 TAAATTAATTTCTTAAT
* *
27737251 TAAATTATTTTTTTAAT
1 TAAATTAATTTCTTAAT
27737268 ACAATTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAATTAATTTCTTAAT
Found at i:27739733 original size:23 final size:23
Alignment explanation
Indices: 27739706--27739753 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
27739696 GAGAAAAAAG
27739706 AACAACTATAATCTTACAAGAAT
1 AACAACTATAATCTTACAAGAAT
27739729 AACAACTATAATCTTACAAGAAT
1 AACAACTATAATCTTACAAGAAT
27739752 AA
1 AA
27739754 ATATAGAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (23 bp):
AACAACTATAATCTTACAAGAAT
Found at i:27742831 original size:21 final size:22
Alignment explanation
Indices: 27742805--27742869 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 22
27742795 AAAATGGATT
27742805 AATAAAATAAATGTAATAA-AA
1 AATAAAATAAATGTAATAATAA
* *
27742826 AATAAAAAAAATAAGTAAATAATAG
1 AATAAAATAAAT--GT-AATAATAA
27742851 AATAAAATAATATGCTAAT
1 AATAAAATAA-ATG-TAAT
27742870 TAAGTTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
21 11 0.31
23 2 0.06
24 9 0.26
25 11 0.31
26 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (22 bp):
AATAAAATAAATGTAATAATAA
Found at i:27747794 original size:46 final size:45
Alignment explanation
Indices: 27747727--27748006 Score: 330
Period size: 46 Copynumber: 6.6 Consensus size: 45
27747717 TTTGAGTACT
* *
27747727 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
27747773 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
27747809 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
27747845 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAACTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
27747891 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
27747937 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
27747982 TCTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
27748007 ATCATACGTA
Statistics
Matches: 214, Mismatches: 9, Indels: 25
0.86 0.04 0.10
Matches are distributed among these distances:
36 63 0.29
38 1 0.00
39 2 0.01
40 3 0.01
42 4 0.02
43 15 0.07
44 2 0.01
45 23 0.11
46 101 0.47
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:27749532 original size:21 final size:21
Alignment explanation
Indices: 27749508--27749563 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
27749498 CTGAACAATT
*
27749508 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
27749529 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
27749549 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
27749564 CGATTTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Found at i:27749549 original size:20 final size:23
Alignment explanation
Indices: 27749519--27749563 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
27749509 AGAAAAAGAG
27749519 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
27749540 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
27749562 AA
1 AA
27749564 CGATTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:27766116 original size:18 final size:19
Alignment explanation
Indices: 27766085--27766124 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
27766075 ATATAAAATA
27766085 AAATAAGATAAGAGAAAAC
1 AAATAAGATAAGAGAAAAC
27766104 AAATAAG-TAAGAGAAAAC
1 AAATAAGATAAGAGAAAAC
27766122 AAA
1 AAA
27766125 GAGAAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.70, C:0.05, G:0.15, T:0.10
Consensus pattern (19 bp):
AAATAAGATAAGAGAAAAC
Found at i:27777677 original size:30 final size:31
Alignment explanation
Indices: 27777622--27777684 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
27777612 ATAATTTTAC
27777622 TACTAAATTATTAGAAAGATTTTATTTAAGT
1 TACTAAATTATTAGAAAGATTTTATTTAAGT
*
27777653 TACTCAATTATTCA-AAAG-TTTTATTTAAGT
1 TACTAAATTATT-AGAAAGATTTTATTTAAGT
27777683 TA
1 TA
27777685 AAAAAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 14 0.47
31 15 0.50
32 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (31 bp):
TACTAAATTATTAGAAAGATTTTATTTAAGT
Found at i:27783239 original size:27 final size:24
Alignment explanation
Indices: 27783208--27783269 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 24
27783198 ACCTATATCA
27783208 TAATATTAATTACTTAATAATTATTTT
1 TAATATT-ATTA-TT-ATAATTATTTT
*
27783235 TAATATTTTTATTATAATTA--TT
1 TAATATTATTATTATAATTATTTT
*
27783257 TCATATTATTATT
1 TAATATTATTATT
27783270 TATCTACTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 13 0.41
24 7 0.22
25 2 0.06
26 3 0.09
27 7 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATATTATTATTATAATTATTTT
Found at i:27786877 original size:109 final size:110
Alignment explanation
Indices: 27786683--27787008 Score: 489
Period size: 110 Copynumber: 3.0 Consensus size: 110
27786673 ATTAAAATTC
* * * * * *
27786683 AAGAGGATATTTGGCAATTTGGTTAAACGAG--ACATCGAAACCCAGCACCTTAGGGCACG-TTC
1 AAGAGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
*
27786745 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTG
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTA
*
27786790 AAGA-GATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
1 AAGAGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
* *
27786854 CTCGAATTCCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTA
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTA
* * *
27786899 AAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
1 AAGAGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
*
27786964 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAATATTTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT-TTTT
27787009 CCTTTTTTGA
Statistics
Matches: 198, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
106 23 0.12
107 4 0.02
108 25 0.13
109 47 0.24
110 95 0.48
111 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (110 bp):
AAGAGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTA
Found at i:27787595 original size:40 final size:40
Alignment explanation
Indices: 27787543--27787679 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
27787533 GCGTTTGGAT
*
27787543 AAAAAACACCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
* * *
27787583 ACAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTAT-C
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
* * *
27787622 AGGAAAGCGCCGCT-AAAAT-GAGCATTAGCGGCGTTTTTAC
1 A-AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-CTTTAC
*
27787662 AAAAAACGCCGCAAAAAA
1 AAAAAACGCCGCTAAAAA
27787680 CCTAAGCCCA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 14 0.17
39 17 0.21
40 50 0.62
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
Found at i:27787821 original size:20 final size:20
Alignment explanation
Indices: 27787793--27787830 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27787783 CCGCAAAAAC
*
27787793 ATTTTATTTGTCTATTTACT
1 ATTTAATTTGTCTATTTACT
*
27787813 ATTTAATTTGTTTATTTA
1 ATTTAATTTGTCTATTTA
27787831 ATTATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTAATTTGTCTATTTACT
Found at i:27787943 original size:26 final size:26
Alignment explanation
Indices: 27787886--27787944 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
27787876 AAAAATGGAT
* *
27787886 AAATTTGAAATAATGACATGTAGAAA
1 AAATTTGAAATAATGAAATATAGAAA
*
27787912 TAATTTGAAATAAT-AAATATAGAAA
1 AAATTTGAAATAATGAAATATAGAAA
27787937 AATATTTG
1 AA-ATTTG
27787945 TTAAAAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTTGAAATAATGAAATATAGAAA
Found at i:27788380 original size:61 final size:62
Alignment explanation
Indices: 27788315--27788445 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 62
27788305 TGTCAAATTA
* *
27788315 TAGGGTTTAGGGTTTAGATTAATTAGTGCGTTTTAA-TT-TATATTAAAAAAGGTTTAGGGGT
1 TAGGGTTTAGAGCTTAGATTAATTAGT-CGTTTTAATTTATATATTAAAAAAGGTTTAGGGGT
* * ** * *
27788376 TAGGGATTCGAGCTTAGATTAATTAGTTTTTTTAATTTATATATTAAATAAGGTTTATGGGT
1 TAGGGTTTAGAGCTTAGATTAATTAGTCGTTTTAATTTATATATTAAAAAAGGTTTAGGGGT
27788438 TAGTGGTT
1 TAG-GGTT
27788446 AAAGGTTAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
60 6 0.10
61 25 0.43
62 24 0.41
63 3 0.05
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (62 bp):
TAGGGTTTAGAGCTTAGATTAATTAGTCGTTTTAATTTATATATTAAAAAAGGTTTAGGGGT
Found at i:27788460 original size:21 final size:21
Alignment explanation
Indices: 27788425--27788487 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
27788415 TATATTAAAT
* *
27788425 AAGGTTTATGGGTTAGTGGTTA
1 AAGG-TTAAGGGTTAGGGGTTA
27788447 AAGGTTAAGGGTTAGGGGTTA
1 AAGGTTAAGGGTTAGGGGTTA
* *
27788468 GAGGTTAAGAGTTAGGGGTT
1 AAGGTTAAGGGTTAGGGGTT
27788488 TAGGGTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 33 0.89
22 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.41, T:0.33
Consensus pattern (21 bp):
AAGGTTAAGGGTTAGGGGTTA
Found at i:27788466 original size:14 final size:14
Alignment explanation
Indices: 27788435--27788494 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
27788425 AAGGTTTATG
* *
27788435 GGTTAGTGGTTAAA
1 GGTTAGGGGTTAAG
* *
27788449 GGTTAAGGGTTAGG
1 GGTTAGGGGTTAAG
*
27788463 GGTTAGAGGTTAAG
1 GGTTAGGGGTTAAG
* *
27788477 AGTTAGGGGTTTAG
1 GGTTAGGGGTTAAG
27788491 GGTT
1 GGTT
27788495 TAGACATTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
GGTTAGGGGTTAAG
Found at i:27788481 original size:28 final size:28
Alignment explanation
Indices: 27788424--27788498 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
27788414 ATATATTAAA
* * *
27788424 TAAGGTTTATGGGTTAGTGGTTAAAGGT
1 TAAGGGTTAGGGGTTAGAGGTTAAAGGT
27788452 TAAGGGTTAGGGGTTAGAGGTT-AAGAGT
1 TAAGGGTTAGGGGTTAGAGGTTAAAG-GT
* *
27788480 TAGGGGTTTAGGGTTTAGA
1 TAAGGG-TTAGGGGTTAGA
27788499 CATTTGAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 3 0.08
28 26 0.65
29 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (28 bp):
TAAGGGTTAGGGGTTAGAGGTTAAAGGT
Found at i:27789262 original size:31 final size:31
Alignment explanation
Indices: 27789227--27789292 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
27789217 CATTTAATCA
27789227 TTTGTTTTTTATTAAAATATATGATATTTAT
1 TTTGTTTTTTATTAAAATATATGATATTTAT
27789258 TTTGTTTTTTATTAAAATATATGATATTTAT
1 TTTGTTTTTTATTAAAATATATGATATTTAT
27789289 TTTG
1 TTTG
27789293 AGGGTACTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (31 bp):
TTTGTTTTTTATTAAAATATATGATATTTAT
Found at i:27789976 original size:3 final size:3
Alignment explanation
Indices: 27789968--27789996 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27789958 CATTGAGCTG
27789968 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27789997 TTGGTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27792381 original size:5 final size:5
Alignment explanation
Indices: 27792371--27792396 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27792361 TTTAAATTTG
27792371 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
27792397 CAAACCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:27794165 original size:44 final size:43
Alignment explanation
Indices: 27794106--27794713 Score: 404
Period size: 44 Copynumber: 14.1 Consensus size: 43
27794096 ATCTGATGCG
27794106 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCGATTTTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-GATTTTA
* * * * * *
27794150 ATCAGCTCCACTGCAACATCAGGGAGATAGGAT-T-GACTTCTTCT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGA-TT-TT-A
* * * ***
27794194 ATCTGTTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-TGCG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTA
*
27794235 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GGATTTTA
* * * * * *
27794279 ATCCGCTCTACTGCAACTTTAGGGAGATAGGA-CTGGTTTCTTCT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATT-TT-A
* * ***
27794323 GTCTGCTCCACTGCAACTTCAG-G-GATAAGA-CTGGA-TGCG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTA
* *
27794362 ATCTGTTCTACTGCAACTTCAGAGAGATAGGAT-TGG-TTTCTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATTT-TA
* * *
27794404 CTGTCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
1 --ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-GATTTTA
* * * * * *
27794450 ATCCGTTCTACTGTAACTTCAGAGAGATAGGAT-TGGTTTCTTCT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATT-TT-A
* * * * ***
27794494 GTCTGCTCCACTGCAACTTCAGGGAGATAATA-CTGGA-TGCG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTA
* *
27794535 ATCTGTTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-GATTTTA
* * * * *
27794579 ATCCGCTCTACTGTAACTTCAGAGAGATAGGAT-TGGTTTCTTCT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATT-TT-A
* * * * * * ***
27794623 GTCTACTCCACTACAACTTCAGGGAGATAAGA-CTGG-GTACG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTA
*
27794664 ATCTGCTCTACTGCAACTTCAGAAAGATAAGATCTGCGATTTTCA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-GATTTT-A
27794709 ATCTG
1 ATCTG
27794714 TTTAACTGCG
Statistics
Matches: 424, Mismatches: 107, Indels: 65
0.71 0.18 0.11
Matches are distributed among these distances:
39 19 0.04
40 1 0.00
41 94 0.22
42 29 0.07
43 24 0.06
44 242 0.57
45 9 0.02
46 3 0.01
47 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGGATTTTA
Found at i:27794333 original size:129 final size:127
Alignment explanation
Indices: 27794100--27794390 Score: 456
Period size: 129 Copynumber: 2.3 Consensus size: 127
27794090 AATAAAATCT
*
27794100 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAATCAGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTTAATCAGCTCCACTGCA
* *
27794165 ACATCAGGGAGATAGGATTGACTTCTTCTATCTGTTCCACTGCAACTTCAGGGAGATAAGACTG
66 ACATCAGGGAGATAGGACTGACTTCTTCTATCTGCTCCACTGCAACTTCA-GG-GATAAGACTG
* * *
27794229 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTTAATCAGCTCCACTGCA
* * ** *
27794294 ACTTTAGGGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGATAAGACTG
66 ACATCAGGGAGATAGGACTGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGATAAGACTG
*
27794356 GATGCGATCTGTTCTACTGCAACTTCAGAGAGATA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
27794391 GGATTGGTTT
Statistics
Matches: 150, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
127 44 0.29
128 2 0.01
129 104 0.69
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (127 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTTAATCAGCTCCACTGCA
ACATCAGGGAGATAGGACTGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGATAAGACTG
Found at i:27794421 original size:127 final size:127
Alignment explanation
Indices: 27794100--27794434 Score: 451
Period size: 129 Copynumber: 2.6 Consensus size: 127
27794090 AATAAAATCT
*
27794100 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAATCAGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATATG-G-TTTTAATCAGCTCCACTGCA
* * *
27794165 ACATCAGGGAGATAGGATTGACTTCTTCTATCTGTTCCACTGCAACTTCAGGGAGATAAGACTG
64 ACTTCAGGGAGATAGGACTGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
* * *
27794229 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA--TATGGTTTTAATCAGCTCCACTGCA
* ** *
27794294 ACTTTAGGGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGCAACTTCA-GG-GATAAGACTG
64 ACTTCAGGGAGATAGGACTGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
* * * *
27794356 GATGCGATCTGTTCTACTGCAACTTCAGAGAGATAGGAT-TGGTTTCTACTGTCTGCTCCACTGC
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGGTTT-TA--ATCAGCTCCACTGC
27794420 AACTTCAGGGAGATA
63 AACTTCAGGGAGATA
27794435 AGATCTGTGA
Statistics
Matches: 183, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
124 5 0.03
125 3 0.02
127 71 0.39
128 2 0.01
129 99 0.54
131 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (127 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGGTTTTAATCAGCTCCACTGCAAC
TTCAGGGAGATAGGACTGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
Found at i:27794448 original size:171 final size:170
Alignment explanation
Indices: 27794110--27794607 Score: 556
Period size: 173 Copynumber: 2.9 Consensus size: 170
27794100 GATGCGATCT
* * ** * *
27794110 GCTCTACTGCAACTTCAGAGAGATAAGATCTGCGATT-TT-AATCAGCTCCACTGCAACATCAGG
1 GCTCTACTGCAACTTCAGAGAGATAGGA-CTG-GTTTCTTCTGTCTGCTCCACTGCAACTTCAGG
** * * * *
27794173 GAGATAGGATTGACT-TCTTCTATCTGTTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGAT
64 GAGATA--A--GACTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGACTGGATGCGAT
*
27794237 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCC
125 CTGCTCCACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCC
* *
27794283 GCTCTACTGCAACTTTAGGGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGCAACTTCA-GG-
1 GCTCTACTGCAACTTCAGAGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
* * * * *
27794346 GATAAGACTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAGGATTGGTTTCTACTGTCTG
66 GATAAGACTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGACTGGATGCGA---TCTG
* *
27794411 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCC
128 CTCCACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCC
* * *
27794454 GTTCTACTGTAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGAGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
* * *** *
27794519 GATAATACTGGATGCGATCTGTTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCG
66 GATAAGACTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGA-CTG-GA-TGCGATCTG
* *
27794584 CTCTACTGTAACTTCAGAGAGATA
128 CTCCACTGCAACTTCAGAGAGATA
27794608 GGATTGGTTT
Statistics
Matches: 276, Mismatches: 38, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
167 4 0.01
168 37 0.13
169 1 0.00
171 107 0.39
172 9 0.03
173 112 0.41
174 2 0.01
175 1 0.00
176 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (170 bp):
GCTCTACTGCAACTTCAGAGAGATAGGACTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTC
CACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCC
Found at i:27794567 original size:129 final size:129
Alignment explanation
Indices: 27794407--27794711 Score: 493
Period size: 129 Copynumber: 2.4 Consensus size: 129
27794397 GTTTCTACTG
* * *
27794407 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCCGTTCTACTGTAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGTAACTTCAG
* * * *
27794472 AGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAATACTGGATGCGA
66 AGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACAACTTCAGGGAGATAAGACTGGATACGA
* *
27794536 TCTGTTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGTAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGTAACTTCAG
*
27794601 AGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACAACTTCAGGGAGATAAGACTGGGTACGA
66 AGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACAACTTCAGGGAGATAAGACTGGATACGA
* *
27794665 TCTGCTCTACTGCAACTTCAGAAAGATAAGATCTGCGATTTTCAATC
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTT-AATC
27794712 TGTTTAACTG
Statistics
Matches: 161, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
129 157 0.98
130 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (129 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGTAACTTCAG
AGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACAACTTCAGGGAGATAAGACTGGATACGA
Found at i:27794809 original size:50 final size:49
Alignment explanation
Indices: 27794750--27795867 Score: 412
Period size: 50 Copynumber: 22.5 Consensus size: 49
27794740 ATTCACCAAC
* * *
27794750 GTAGTTTCAATCTGTTCTACTGCATCGCCTGAGAAGTAAGATTCACCGTC
1 GTAGCTTCAATCTGTTCTACTGCAT-GCCTGGGAAGTAAGATTCACCGTT
* * * * * * * *
27794800 GT-GACTTCAATCTATT-TAAATTACAATGTCGGGGAAGTGAGATTCGCTGTT
1 GTAG-CTTCAATCTGTTCT--ACTGC-ATGCCTGGGAAGTAAGATTCACCGTT
* ** *
27794851 GTATCTTCAATCTGTTCCGCTGCAT-CGCTTGGAAGTAAGA-TCTACCGTT
1 GTAGCTTCAATCTGTTCTACTGCATGC-CTGGGAAGTAAGATTC-ACCGTT
* * * ** * * * * * *
27794900 GTGGCATCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
1 GTAGCTTCAATCTGTTCTACTGC-ATGCCTGGGAAGTAAGATTCACCGTT
* * * *
27794950 GTAGCTTCAATCTGTTCTGCTGCATCACCTGGGAAGTAAGATTCGCTGTT
1 GTAGCTTCAATCTGTTCTACTGCAT-GCCTGGGAAGTAAGATTCACCGTT
* * * *
27795000 GTAGCTTCAATCT-TTTTA--AC-TGCC-GAGGAAGCAAGATTCACTGTT
1 GTAGCTTCAATCTGTTCTACTGCATGCCTG-GGAAGTAAGATTCACCGTT
* * *
27795045 GTAGCTTCAATCTGTTCCACTGCATTG-CTTGGAAGTAAGATTCACCATT
1 GTAGCTTCAATCTGTTCTACTGCA-TGCCTGGGAAGTAAGATTCACCGTT
* * * ** *
27795094 GT-GACTTCAATCT-TT-TGAGTTGCAATGTCGGGGAAGCGAGATTCACCGTC
1 GTAG-CTTCAATCTGTTCT-A-CTGC-ATGCCTGGGAAGTAAGATTCACCGTT
** * * *
27795144 GTAGCTTCAATCTGTTCCGCTACATCGCCTGGGAAGTAAGATTCGCCATT
1 GTAGCTTCAATCTGTTCTACTGCAT-GCCTGGGAAGTAAGATTCACCGTT
* ** *
27795194 GT-GACTTCAATCT-TT-TGAGTTGCAATGCC-GAGGAAGCGAGATTCACCGTC
1 GTAG-CTTCAATCTGTTCT-A-CTGC-ATGCCTG-GGAAGTAAGATTCACCGTT
* * * *
27795244 GTAGTTTCAATCTGTTCTGCTGCATCGCCTGGGAAGTAAGATTCGCCATT
1 GTAGCTTCAATCTGTTCTACTGCAT-GCCTGGGAAGTAAGATTCACCGTT
* * * ** * *
27795294 GT-GACTTCAATCT-TT-TGAGTTGCAATGTCAGGGAAGCGAGATTTACCGTC
1 GTAG-CTTCAATCTGTTCT-A-CTGC-ATGCCTGGGAAGTAAGATTCACCGTT
** * *
27795344 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCATT
1 GTAGCTTCAATCTGTTCTACTGCAT-GCCTGGGAAGTAAGATTCACCGTT
* * ** *
27795394 GT-GACTTCAATCT-TT-TGAGTTGCAATG-TTGAGGAAGCGAGATTCACCGTC
1 GTAG-CTTCAATCTGTTCT-A-CTGC-ATGCCTG-GGAAGTAAGATTCACCGTT
* ** *
27795444 GTAGCTTCAATCTGTTCTGCTGCATCGCCTGGGAAGTAAGATTTGCCATT
1 GTAGCTTCAATCTGTTCTACTGCAT-GCCTGGGAAGTAAGATTCACCGTT
* * * * * * * *
27795494 GTGGCTTCAATCT-TTTTAATTGCAATGTCAGGAAAGTAAGA-TCTGCTGTT
1 GTAGCTTCAATCTGTTCT-ACTGC-ATGCCTGGGAAGTAAGATTC-ACCGTT
* * * * * * *
27795544 GTAGCTTCAATCTGTTCCACTGCA-ACGTTAGGAATGTAAGATCCGCTGTT
1 GTAGCTTCAATCTGTTCTACTGCATGC-CTGGGAA-GTAAGATTCACCGTT
* * * * * * *
27795594 GTAGCTTCAATC--TTCTTAATTACAATGTCAGGGAAGTAAGATCCGCTGTT
1 GTAGCTTCAATCTGTTC-T-ACTGC-ATGCCTGGGAAGTAAGATTCACCGTT
* * * * * *
27795644 GTAGCTTCAATCTGTTCCACTGCA-ACGCTAGGAAAGTAAGATCCGCTGTT
1 GTAGCTTCAATCTGTTCTACTGCATGC-CT-GGGAAGTAAGATTCACCGTT
* * * * * * * *
27795694 GTAGCTTCAATCT-TTTTAATTGCAATGTCAGGGAAATAAGATCCGCTGTT
1 GTAGCTTCAATCTGTTCT-ACTGC-ATGCCTGGGAAGTAAGATTCACCGTT
* * * * ***
27795744 GTAGCTTCAATCTGTTCCACTGCA-ACACTAGGAAAGTAAGATCCGTTGTT
1 GTAGCTTCAATCTGTTCTACTGCATGC-CT-GGGAAGTAAGATTCACCGTT
* * * * * * * *
27795794 GTAGCTTCAATCT-TTTTAATTGCAATGTCAGGAAAGTAAGATCCGCTGTT
1 GTAGCTTCAATCTGTTCT-ACTGC-ATGCCTGGGAAGTAAGATTCACCGTT
*
27795844 GTAGCTTCAATCTGTTCCACTGCA
1 GTAGCTTCAATCTGTTCTACTGCA
27795868 ACGCTAGGAA
Statistics
Matches: 785, Mismatches: 202, Indels: 163
0.68 0.18 0.14
Matches are distributed among these distances:
44 1 0.00
45 32 0.04
46 4 0.01
47 1 0.00
48 11 0.01
49 108 0.14
50 547 0.70
51 74 0.09
52 7 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (49 bp):
GTAGCTTCAATCTGTTCTACTGCATGCCTGGGAAGTAAGATTCACCGTT
Found at i:27795067 original size:45 final size:45
Alignment explanation
Indices: 27794981--27795067 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
27794971 GCATCACCTG
* * * *
27794981 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCCGA
1 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCAACTGCCGA
*
27795026 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGC
1 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCAACTGC
27795068 ATTGCTTGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (45 bp):
GGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCAACTGCCGA
Found at i:27795868 original size:50 final size:50
Alignment explanation
Indices: 27795514--27795905 Score: 497
Period size: 50 Copynumber: 7.8 Consensus size: 50
27795504 TCTTTTTAAT
*
27795514 TGCAATGTCAGGAAAGTAAGATCTGCTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
* * * ** *
27795564 TGCAACGTTAGGAATGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAAT
1 TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCAC
* *
27795614 TACAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
* * ** *
27795664 TGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
1 TGCAATGTC-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
27795714 TGCAATGTCAGGGAAA-TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCA-GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
** * * ** *
27795764 TGCAA-CACTAGGAAAGTAAGATCCGTTGTTGTAGCTTCAATCTTTTTAAT
1 TGCAATGTC-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
27795814 TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
* *
27795864 TGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTTAATC
1 TGCAATGTC-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
27795906 AAGATTCACC
Statistics
Matches: 290, Mismatches: 43, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
49 9 0.03
50 273 0.94
51 8 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (50 bp):
TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
Found at i:27795896 original size:100 final size:99
Alignment explanation
Indices: 27794750--27795905 Score: 1089
Period size: 100 Copynumber: 11.6 Consensus size: 99
27794740 ATTCACCAAC
* ** * * *
27794750 GTAGTTTCAATCTGTTCTACTGCATCGCCTGAGAAGTAAGATTCACCGTCGT-GACTTCAATCTA
1 GTAGCTTCAATCTGTTCCGCTGCATCG-CTGGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCT-
* * *
27794814 TTTAAATTACAATGTCGGGGAAGTGAGATTCGCTGTT
63 TTTTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
* * * * *
27794851 GTATCTTCAATCTGTTCCGCTGCATCGCTTGGAAGTAAGA-TCTACCGTTGTGGCATCAATCTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTGGGAAGTAAGATTC-GCCGTTGTAGCTTCAATCTTT
* * * *
27794915 TAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
65 TTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
* * *
27794950 GTAGCTTCAATCTGTTCTGCTGCATCACCTGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCGCTGCATC-GCTGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
* * ** *
27795015 TTAACTGC--CG--A-GGAAGCAAGATTCACTGTT
65 TTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
* * * * *
27795045 GTAGCTTCAATCTGTTCCACTGCATTGCTTGGAAGTAAGATTCACCATTGT-GACTTCAATCTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTGGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTTT
* * * * * * *
27795109 TGAGTTGCAATGTCGGGGAAGCGAGATTCACCGTC
65 TTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
* *
27795144 GTAGCTTCAATCTGTTCCGCTACATCGCCTGGGAAGTAAGATTCGCCATTGT-GACTTCAATCTT
1 GTAGCTTCAATCTGTTCCGCTGCATCG-CTGGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTT
* * * * * * *
27795208 TTGAGTTGCAATG-CCGAGGAAGCGAGATTCACCGTC
64 TTTAATTGCAATGTCAG-GGAAGTGAGATTCGCTGTT
* * *
27795244 GTAGTTTCAATCTGTTCTGCTGCATCGCCTGGGAAGTAAGATTCGCCATTGT-GACTTCAATCTT
1 GTAGCTTCAATCTGTTCCGCTGCATCG-CTGGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTT
* * * ** * *
27795308 TTGAGTTGCAATGTCAGGGAAGCGAGATTTACCGTC
64 TTTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
*
27795344 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCATTGT-GACTTCAATCTT
1 GTAGCTTCAATCTGTTCCGCTGCATCG-CTGGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTT
* * * * * * *
27795408 TTGAGTTGCAATGT-TGAGGAAGCGAGATTCACCGTC
64 TTTAATTGCAATGTCAG-GGAAGTGAGATTCGCTGTT
* * * *
27795444 GTAGCTTCAATCTGTTCTGCTGCATCGCCTGGGAAGTAAGATTTGCCATTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCG-CTGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
* *
27795509 TTAATTGCAATGTCAGGAAAGTAAGA-TCTGCTGTT
65 TTAATTGCAATGTCAGGGAAGTGAGATTC-GCTGTT
* * * * * * *
27795544 GTAGCTTCAATCTGTTCCACTGCAACGTTAGGAATGTAAGATCCGCTGTTGTAGCTTCAATCTTC
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTGGGAA-GTAAGATTCGCCGTTGTAGCTTCAATCTTT
* * *
27795609 TTAATTACAATGTCAGGGAAGTAAGATCCGCTGTT
65 TTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
* * * * *
27795644 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCT-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
* * *
27795709 TTAATTGCAATGTCAGGGAAATAAGATCCGCTGTT
65 TTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
* * * * * **
27795744 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGTTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCT-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
* * *
27795809 TTAATTGCAATGTCAGGAAAGTAAGATCCGCTGTT
65 TTAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
* * * * * *
27795844 GTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTTAATC
1 GTAGCTTCAATCTGTTCCGCTGCATCGCT-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATC
27795906 AAGATTCACC
Statistics
Matches: 938, Mismatches: 97, Indels: 41
0.87 0.09 0.04
Matches are distributed among these distances:
93 1 0.00
94 36 0.04
95 37 0.04
96 1 0.00
98 1 0.00
99 110 0.12
100 718 0.77
101 34 0.04
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (99 bp):
GTAGCTTCAATCTGTTCCGCTGCATCGCTGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTT
TAATTGCAATGTCAGGGAAGTGAGATTCGCTGTT
Found at i:27796010 original size:125 final size:125
Alignment explanation
Indices: 27795847--27796655 Score: 1366
Period size: 125 Copynumber: 6.5 Consensus size: 125
27795837 CGCTGTTGTA
* * * * *** *
27795847 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTTAATCAAGATT
1 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
27795912 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
66 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
* *
27795972 GCTTTAATCTATTTCACTGCATTGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
1 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
**
27796037 CATTGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
66 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
27796097 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
1 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
*
27796162 CACCAATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
66 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
* **
27796222 GCTTTAATCTATTTCACTGCATTACTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
1 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
* *
27796287 CATCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTG
66 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
*
27796347 GCTTTAATCTATTCCACTGCATCGCTTGAGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
1 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
*
27796412 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTG
66 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
* * *
27796472 GCTTTAATCTATTCCACTGCATTGATTGGGGCGTAAGATTTGCTGTTGTAGCTTTAATCAAGATT
1 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
* *
27796537 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTT
66 CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
** *
27796597 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGAGGTGGCTTTAATC
1 GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATC
27796656 GTTTGAATTG
Statistics
Matches: 645, Mismatches: 39, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 645 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (125 bp):
GCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATT
CACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTG
Found at i:27796034 original size:25 final size:25
Alignment explanation
Indices: 27796006--27796055 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27795996 CTTGGGGCGT
* *
27796006 AAGATTCGCTGTTGTAGCTTTAATC
1 AAGATTCACTGATGTAGCTTTAATC
* *
27796031 AAGATTCATTGATGTGGCTTTAATC
1 AAGATTCACTGATGTAGCTTTAATC
27796056 TTTTTAACTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (25 bp):
AAGATTCACTGATGTAGCTTTAATC
Found at i:27797867 original size:42 final size:43
Alignment explanation
Indices: 27797821--27797922 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
27797811 TGCCCCGATC
*
27797821 TGATCAAAATTTGAGCT-GCTCTGATCACCTCATCCCCCAATT-
1 TGATCAAAATTTGAGCTCGCTCTGATCACCTAATCCCCC-ATTA
* **
27797863 TGATCCAAAATTTGAG-TCGCTCTGATCACTTAATGTCCCATTA
1 TGAT-CAAAATTTGAGCTCGCTCTGATCACCTAATCCCCCATTA
27797906 TGATCAAAAGTTTGAGC
1 TGATCAAAA-TTTGAGC
27797923 CGCCCTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
42 13 0.25
43 38 0.75
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (43 bp):
TGATCAAAATTTGAGCTCGCTCTGATCACCTAATCCCCCATTA
Found at i:27799178 original size:13 final size:13
Alignment explanation
Indices: 27799130--27799175 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
27799120 CCTTAACCTC
27799130 TCCTTTTTATTTT
1 TCCTTTTTATTTT
27799143 T-CTTTTTATTTT
1 TCCTTTTTATTTT
* *
27799155 TTCTTCTTT-TTTC
1 TCCTT-TTTATTTT
27799168 TCCTTTTT
1 TCCTTTTT
27799176 TTTGACTTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 15 0.52
13 11 0.38
14 3 0.10
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (13 bp):
TCCTTTTTATTTT
Found at i:27799203 original size:13 final size:12
Alignment explanation
Indices: 27799187--27799222 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
27799177 TTGACTTCGA
27799187 TTTTTTATTTTTG
1 TTTTTT-TTTTTG
27799200 TTTTTTTGTTTTG
1 TTTTTTT-TTTTG
27799213 TTTTTTTTTT
1 TTTTTTTTTT
27799223 GAGTCTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:27802943 original size:110 final size:109
Alignment explanation
Indices: 27802691--27803000 Score: 466
Period size: 110 Copynumber: 2.9 Consensus size: 109
27802681 ATATTTGGAA
* * * * *
27802691 ATTTGGTTAAACGAG--ACATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
27802753 CAAAACATTGCCTTATTTTGAAATTTTTGAAGGGATATTTAGCT
66 CAAAACATTGCCTTATTTTGAAATTTTTGAAGGGATATTAAGCC
* *
27802797 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTCGAATTCCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
27802862 CAAAACATTGCCTTATTTTGAAATTTTT-AAGAATGATATTAAGCC
66 CAAAACATTGCCTTATTTTGAAATTTTTGAAG--GGATATTAAGCC
27802907 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
27802972 CAAAACATTGCCTTATTTAGAAATATTTT
66 CAAAACATTGCCTTATTTTGAAAT-TTTT
27803001 CCTTTTTGAA
Statistics
Matches: 185, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
106 14 0.08
108 27 0.15
109 45 0.24
110 95 0.51
111 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTGAAATTTTTGAAGGGATATTAAGCC
Done.