Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 46 of 160
Found at i:10223515 original size:22 final size:22
Alignment explanation
Indices: 10223452--10223515 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
10223442 AAATGAGCAT
10223452 TTTGAATTTAAAGTTTGTTGCC
1 TTTGAATTTAAAGTTTGTTGCC
* * *
10223474 TTTG--GTTAAA---TG-AGCT
1 TTTGAATTTAAAGTTTGTTGCC
10223490 TTTGAATTTAAAGTTTGTTGCC
1 TTTGAATTTAAAGTTTGTTGCC
10223512 TTTG
1 TTTG
10223516 GTTAAAACAG
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
16 6 0.20
17 2 0.07
18 5 0.17
20 5 0.17
21 2 0.07
22 10 0.33
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (22 bp):
TTTGAATTTAAAGTTTGTTGCC
Found at i:10223581 original size:53 final size:54
Alignment explanation
Indices: 10223487--10223591 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 54
10223477 GGTTAAATGA
* *
10223487 GCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAACAGC-TTTTGAATTTAGC
1 GCTTTTGAATTCAAAGTTTGTTGCCTTTGGTGAAAACAGCTTTTTGAATTTAGC
* * **
10223540 GCTTTTGAATTCAAGGTTTGTTGCCTTTGGTGAGATGAGCTTTTTGAATTTA
1 GCTTTTGAATTCAAAGTTTGTTGCCTTTGGTGAAAACAGCTTTTTGAATTTA
10223592 AAGTTCGTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
53 34 0.76
54 11 0.24
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (54 bp):
GCTTTTGAATTCAAAGTTTGTTGCCTTTGGTGAAAACAGCTTTTTGAATTTAGC
Found at i:10223620 original size:92 final size:91
Alignment explanation
Indices: 10223451--10223629 Score: 286
Period size: 92 Copynumber: 2.0 Consensus size: 91
10223441 CAAATGAGCA
* * *
10223451 TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGAATTTAAAGTTTGTTGCCTTTG
1 TTTTGAATTCAAAGTTTGTTGCCTTTGGTGAAATGAGCTTTTGAATTTAAAGTTCGTTGCCTTTG
10223516 GTTAAAACAGCTTTTGAATTTAGCGC
66 GTTAAAACAGCTTTTGAATTTAGCGC
* *
10223542 TTTTGAATTCAAGGTTTGTTGCCTTTGGTGAGATGAGCTTTTTGAATTTAAAGTTCGTTGCCTTT
1 TTTTGAATTCAAAGTTTGTTGCCTTTGGTGAAATGAGC-TTTTGAATTTAAAGTTCGTTGCCTTT
**
10223607 GGTTAAAGGAGCTTTTGAATTTA
65 GGTTAAAACAGCTTTTGAATTTA
10223630 AAATTTGTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 34 0.43
92 46 0.57
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (91 bp):
TTTTGAATTCAAAGTTTGTTGCCTTTGGTGAAATGAGCTTTTGAATTTAAAGTTCGTTGCCTTTG
GTTAAAACAGCTTTTGAATTTAGCGC
Found at i:10223657 original size:38 final size:38
Alignment explanation
Indices: 10223540--10223789 Score: 284
Period size: 39 Copynumber: 6.5 Consensus size: 38
10223530 TGAATTTAGC
* * * * *
10223540 GCTTTTGAATTCAAGGTTTGTTGCCTTTGGTGAGATGA
1 GCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAAGA
* *
10223578 GCTTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAAAGGA
1 GC-TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAAGA
* * * *
10223617 GCTTTTGAATTTAAAATTTGTTACCTCTGGTGAAAAGA
1 GCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAAGA
* *
10223655 GCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAGGA
1 GCTTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTAAAAGA
* * * * *
10223694 ACTTTTAAATTTAAAGTTTGTTGCCTCTAGTTAGAAGA
1 GCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAAGA
* *
10223732 GCTTTTTGAATTTAAAGTTTGTTACCTTTGGTCAAAAGA
1 GC-TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAAGA
*
10223771 GCTTTTGAATTTAGAGTTT
1 GCTTTTGAATTTAAAGTTT
10223790 TTGAATTTAA
Statistics
Matches: 178, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
38 82 0.46
39 96 0.54
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (38 bp):
GCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAAGA
Found at i:10223668 original size:77 final size:77
Alignment explanation
Indices: 10223540--10223789 Score: 331
Period size: 77 Copynumber: 3.2 Consensus size: 77
10223530 TGAATTTAGC
* * * * *
10223540 GCTTTTGAATTCAAGGTTTGTTGCCTTTGGTGAGATGAGCTTTTTGAATTTAAAGTTCGTTGCCT
1 GCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTGAATTTAAAGTTTGTTGCCT
10223605 TTGGTTAAAGGA
66 TTGGTTAAAGGA
* * * *
10223617 GCTTTTGAATTTAAAATTTGTTACCTCTGGTGAAAAGAGC-TTTTAACATTTAAAGTTTGTTGCC
1 GCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTGA-ATTTAAAGTTTGTTGCC
10223681 TTTGGTTAAAGGA
65 TTTGGTTAAAGGA
* * * * *
10223694 ACTTTTAAATTTAAAGTTTGTTGCCTCTAGTTAGAAGAGCTTTTTGAATTTAAAGTTTGTTACCT
1 GCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTGAATTTAAAGTTTGTTGCCT
* *
10223759 TTGGTCAAAAGA
66 TTGGTTAAAGGA
*
10223771 GCTTTTGAATTTAGAGTTT
1 GCTTTTGAATTTAAAGTTT
10223790 TTGAATTTAA
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
76 5 0.03
77 138 0.93
78 5 0.03
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (77 bp):
GCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTGAATTTAAAGTTTGTTGCCT
TTGGTTAAAGGA
Found at i:10223688 original size:207 final size:206
Alignment explanation
Indices: 10223418--10223957 Score: 612
Period size: 207 Copynumber: 2.6 Consensus size: 206
10223408 TAAAGAAGCC
* * * *
10223418 ATTTAAAGTTTGTTGCCTCTGATCAAATGAGCATTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGC-TTTTAACATTTAAAGTTTGTTGCCTTTGGTTA
* * * **
10223482 AATGAGCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAACAGC-TTTTGAATTTAGCGCTTT-
65 AAGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTAGTTAAAACAGCTTTTTGAATTTAAAG-TTTG
***** *
10223545 TGA-ATTCAAGGTTTGTTG-CCTTTGGTGAGA-T-GAGCTTTTTGAATTTAAAGTTCGTTGCCTT
129 TGACATT--AGGTCAAAAGACCTTT--TGA-ATTAGAG-TTTTTGAATTTAAAGTTCGTTGCCTC
* *
10223606 TGGTTA-AAGGAGCTTTTGA
188 TGGTGAGAA-AAGCTTTTGA
* *
10223625 ATTTAAAATTTGTTACCTCTGGTGAAAAGAGCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAA
* * * * *
10223690 AGGAACTTTTAAATTTAAAGTTTGTTGCCTCTAGTTAGAAGAGCTTTTTGAATTTAAAGTTTGTT
66 AGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTAGTTAAAACAGCTTTTTGAATTTAAAGTTTGTG
* * * *
10223755 ACCTTTGGTCAAAAGAGCTTTTGAATTTAGAGTTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAG
131 ACATTAGGTCAAAAGACCTTTTGAA-TTAGAGTTTTTGAATTTAAAGTTCGTTGCCTCTGGTGAG
10223820 AAAAGCTTTTGA
195 AAAAGCTTTTGA
* *
10223832 ATTTAAAGTTTGTTGCCTC-GGTGAGAAGAGCTTTTAACATTTAAAGTTTATTGCCTTTGGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAA
* * ** *
10223896 AGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTTTAATTTAAAGTTT
66 AGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTAGTTAAAACAGCTTTTTGAATTTAAAGTTT
10223958 TATAGCCTCT
Statistics
Matches: 287, Mismatches: 37, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
205 1 0.00
206 108 0.38
207 153 0.53
208 23 0.08
209 2 0.01
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (206 bp):
ATTTAAAGTTTGTTGCCTCTGGTGAAAAGAGCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAA
AGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTAGTTAAAACAGCTTTTTGAATTTAAAGTTTGTG
ACATTAGGTCAAAAGACCTTTTGAATTAGAGTTTTTGAATTTAAAGTTCGTTGCCTCTGGTGAGA
AAAGCTTTTGA
Found at i:10223786 original size:15 final size:15
Alignment explanation
Indices: 10223768--10223798 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10223758 TTTGGTCAAA
10223768 AGAGCTTTTGAATTT
1 AGAGCTTTTGAATTT
*
10223783 AGAGTTTTTGAATTT
1 AGAGCTTTTGAATTT
10223798 A
1 A
10223799 AAGTTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.48
Consensus pattern (15 bp):
AGAGCTTTTGAATTT
Found at i:10223797 original size:53 final size:53
Alignment explanation
Indices: 10223729--10223842 Score: 167
Period size: 53 Copynumber: 2.1 Consensus size: 53
10223719 TCTAGTTAGA
*
10223729 AGAGCTTTTTGAATTTAAAGTTTGTTACCTTTGGTCA-AAAGAGCTTTTGAATTT
1 AGAG-TTTTTGAATTTAAAGTTTGTTACCTCTGGTCAGAAA-AGCTTTTGAATTT
* *
10223783 AGAGTTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGAAAAGCTTTTGAATTT
1 AGAGTTTTTGAATTTAAAGTTTGTTACCTCTGGTCAGAAAAGCTTTTGAATTT
*
10223836 AAAGTTT
1 AGAGTTT
10223843 GTTGCCTCGG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 48 0.87
54 7 0.13
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (53 bp):
AGAGTTTTTGAATTTAAAGTTTGTTACCTCTGGTCAGAAAAGCTTTTGAATTT
Found at i:10223803 original size:15 final size:15
Alignment explanation
Indices: 10223773--10223804 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10223763 TCAAAAGAGC
*
10223773 TTTTGAATTTAGAGT
1 TTTTGAATTTAAAGT
10223788 TTTTGAATTTAAAGT
1 TTTTGAATTTAAAGT
10223803 TT
1 TT
10223805 GTTGCCTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (15 bp):
TTTTGAATTTAAAGT
Found at i:10223839 original size:38 final size:38
Alignment explanation
Indices: 10223783--10223957 Score: 228
Period size: 38 Copynumber: 4.6 Consensus size: 38
10223773 TTTTGAATTT
*
10223783 AGAGTTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGA
1 AGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGA
*
10223821 AAAGCTTTTGAATTTAAAGTTTGTTGCCTC-GGTGAGA
1 AGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGA
* * * *
10223858 AGAGCTTTTAACATTTAAAGTTTATTGCCTTTGGTTA-A
1 AGAGCTTTTGA-ATTTAAAGTTTGTTGCCTCTGGTGAGA
*
10223896 AGGAGCTTTTGAATTTAAAGTTTGTTGCCTCTAGTGAGA
1 A-GAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGA
* *
10223935 GGAGCTTTTTTAATTTAAAGTTT
1 AGAGC-TTTTGAATTTAAAGTTT
10223958 TATAGCCTCT
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
37 16 0.14
38 72 0.61
39 30 0.25
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.42
Consensus pattern (38 bp):
AGAGCTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGA
Found at i:10223909 original size:129 final size:129
Alignment explanation
Indices: 10223664--10223918 Score: 354
Period size: 129 Copynumber: 2.0 Consensus size: 129
10223654 AGCTTTTAAC
* * *
10223664 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTTAAATTTAAAGTTTGTTGCCTCTAGTTAGA
1 ATTTAAAGTTTGTTGCCTCTGGTGAAA-GAACTTTTAAATTTAAAGTTTGTTGCCTCTAGTGAGA
* * *
10223729 AGAGCTTTTTGAATTTAAAGTTTGTTACCTTTGGTCAAAAGAGCTTTTGAATTTAGAGTTTTTGA
65 AGAGCTTTTTAAATTTAAAGTTTATTACCTTTGGTCAAAAGAGCTTTTGAATTTAAAGTTTTTGA
* *
10223794 ATTTAAAGTTTGTTGCCTCTGGTGAGAA-AAGCTTTTGAATTTAAAGTTTGTTGCCTC-GGTGAG
1 ATTTAAAGTTTGTTGCCTCTGGTGA-AAGAA-CTTTTAAATTTAAAGTTTGTTGCCTCTAGTGAG
* * *
10223857 AAGAGC-TTTTAACATTTAAAGTTTATTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAGTTT
64 AAGAGCTTTTTAA-ATTTAAAGTTTATTACCTTTGGTCAAAAGAGCTTTTGAATTTAAAGTTT
10223919 GTTGCCTCTA
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
128 5 0.05
129 56 0.50
130 48 0.43
131 2 0.02
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.43
Consensus pattern (129 bp):
ATTTAAAGTTTGTTGCCTCTGGTGAAAGAACTTTTAAATTTAAAGTTTGTTGCCTCTAGTGAGAA
GAGCTTTTTAAATTTAAAGTTTATTACCTTTGGTCAAAAGAGCTTTTGAATTTAAAGTTTTTGA
Found at i:10223926 original size:206 final size:207
Alignment explanation
Indices: 10223580--10223957 Score: 616
Period size: 206 Copynumber: 1.8 Consensus size: 207
10223570 TGAGATGAGC
* * *
10223580 TTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAAATTTGTTACCTCT
1 TTTTTGAATTTAAAGTTCGTTGCCTCTGGTGAAAGAAGCTTTTGAATTTAAAATTTGTTACCTCT
*
10223645 GGTGAAAAGAGCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAGGAACTTTTAAATTTAAAG
66 GGTGAAAAGAGCTTTTAACATTTAAAGTTTATTGCCTTTGGTTAAAGGAACTTTTAAATTTAAAG
*
10223710 TTTGTTGCCTCTAGTTAGAAGAGCTTTTTGAATTTAAAGTTTGTTACCTTTGGTCAAAAGAGCTT
131 TTTGTTGCCTCTAGTGAGAAGAGCTTTTTGAATTTAAAGTTTGTTACCTTTGGTCAAAAGAGCTT
10223775 TTGAATTTAGAG
196 TTGAATTTAGAG
* * *
10223787 TTTTTGAATTTAAAGTTTGTTGCCTCTGGTGAGAA-AAGCTTTTGAATTTAAAGTTTGTTGCCTC
1 TTTTTGAATTTAAAGTTCGTTGCCTCTGGTGA-AAGAAGCTTTTGAATTTAAAATTTGTTACCTC
* * *
10223851 -GGTGAGAAGAGCTTTTAACATTTAAAGTTTATTGCCTTTGGTTAAAGGAGCTTTTGAATTTAAA
65 TGGTGAAAAGAGCTTTTAACATTTAAAGTTTATTGCCTTTGGTTAAAGGAACTTTTAAATTTAAA
* *
10223915 GTTTGTTGCCTCTAGTGAGAGGAGCTTTTTTAATTTAAAGTTT
130 GTTTGTTGCCTCTAGTGAGAAGAGCTTTTTGAATTTAAAGTTT
10223958 TATAGCCTCT
Statistics
Matches: 157, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
206 100 0.64
207 55 0.35
208 2 0.01
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (207 bp):
TTTTTGAATTTAAAGTTCGTTGCCTCTGGTGAAAGAAGCTTTTGAATTTAAAATTTGTTACCTCT
GGTGAAAAGAGCTTTTAACATTTAAAGTTTATTGCCTTTGGTTAAAGGAACTTTTAAATTTAAAG
TTTGTTGCCTCTAGTGAGAAGAGCTTTTTGAATTTAAAGTTTGTTACCTTTGGTCAAAAGAGCTT
TTGAATTTAGAG
Found at i:10224597 original size:20 final size:20
Alignment explanation
Indices: 10224560--10224600 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10224550 TTTAGTGAAA
**
10224560 GTTTAAATTTTTTTACGATC
1 GTTTAAATTTTTCGACGATC
*
10224580 GTTTGAATTTTTCGACGATC
1 GTTTAAATTTTTCGACGATC
10224600 G
1 G
10224601 AAATCTGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (20 bp):
GTTTAAATTTTTCGACGATC
Found at i:10224936 original size:13 final size:13
Alignment explanation
Indices: 10224918--10224961 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
10224908 TTGTTCCTTT
10224918 TTTTTTCTTTTTA
1 TTTTTTCTTTTTA
* *
10224931 TTTTTTGTTTTGA
1 TTTTTTCTTTTTA
10224944 -TTTTTCTTTTTA
1 TTTTTTCTTTTTA
10224956 TTTTTT
1 TTTTTT
10224962 ATGTTGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTTTCTTTTTA
Found at i:10224941 original size:12 final size:13
Alignment explanation
Indices: 10224926--10224989 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
10224916 TTTTTTTTCT
10224926 TTTTATTTTT-TG
1 TTTTATTTTTATG
*
10224938 TTTTGATTTTTCT-
1 TTTT-ATTTTTATG
10224951 TTTTATTTTTTATG
1 TTTTA-TTTTTATG
*
10224965 -TTGATTTTTATG
1 TTTTATTTTTATG
10224977 TTTT-TTGTTTATG
1 TTTTATT-TTTATG
10224990 ATATTATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
12 15 0.35
13 27 0.63
14 1 0.02
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTATG
Found at i:10224953 original size:25 final size:25
Alignment explanation
Indices: 10224919--10224973 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
10224909 TGTTCCTTTT
* *
10224919 TTTTTCTTTTTATTTTTTGTTTTGA
1 TTTTTCTTTTTATTTTTTATGTTGA
10224944 TTTTTCTTTTTATTTTTTATGTTGA
1 TTTTTCTTTTTATTTTTTATGTTGA
10224969 TTTTT
1 TTTTT
10224974 ATGTTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (25 bp):
TTTTTCTTTTTATTTTTTATGTTGA
Found at i:10224987 original size:25 final size:25
Alignment explanation
Indices: 10224919--10225006 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 25
10224909 TGTTCCTTTT
* * * *
10224919 TTTTTCTTTTTATTTTTTGTTTTGA
1 TTTTTATTTTTATTGTTTATGTTGA
* *
10224944 TTTTTCTTTTTATTTTTTATGTTGA
1 TTTTTATTTTTATTGTTTATGTTGA
*
10224969 TTTTTATGTTTT-TTGTTTATGAT-A
1 TTTTTAT-TTTTATTGTTTATGTTGA
* *
10224993 TTATTATTATTATT
1 TTTTTATTTTTATT
10225007 ATCGTTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
23 3 0.06
24 9 0.17
25 38 0.70
26 4 0.07
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTTATTGTTTATGTTGA
Found at i:10225595 original size:24 final size:25
Alignment explanation
Indices: 10225568--10225633 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
10225558 TTTTTTTTAA
10225568 AAAAATAATTAAATAATAA-ATAAT
1 AAAAATAATTAAATAATAACATAAT
*
10225592 AAAAAT-TTTAAA-AATAATCATAAT
1 AAAAATAATTAAATAATAA-CATAAT
* *
10225616 AAAGATTAATTAATTAAT
1 AAA-AATAATTAAATAAT
10225634 TCCTTTAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 5 0.15
23 5 0.15
24 14 0.42
25 2 0.06
26 4 0.12
27 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAATAATTAAATAATAACATAAT
Found at i:10235925 original size:18 final size:19
Alignment explanation
Indices: 10235904--10235939 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10235894 AAAAATTATG
10235904 AAAATTTTAA-TTTAATAA
1 AAAATTTTAATTTTAATAA
10235922 AAAATTTTAATTTTAATA
1 AAAATTTTAATTTTAATA
10235940 TTAAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTTTAATTTTAATAA
Found at i:10238324 original size:19 final size:20
Alignment explanation
Indices: 10238286--10238326 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10238276 TTTCGCCACG
10238286 ATAATCCTTAAAATAAAATA
1 ATAATCCTTAAAATAAAATA
* *
10238306 ATAATCTTTATAA-AAAATA
1 ATAATCCTTAAAATAAAATA
10238325 AT
1 AT
10238327 TGTTAGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATCCTTAAAATAAAATA
Found at i:10238910 original size:20 final size:21
Alignment explanation
Indices: 10238858--10238911 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
10238848 AGGTTTTGAA
10238858 GGTTTGGGATTTTGATATAAG
1 GGTTTGGGATTTTGATATAAG
10238879 GGTTTGGGATTTTGATATAAG
1 GGTTTGGGATTTTGATATAAG
10238900 GGTTT-GGATTTT
1 GGTTTGGGATTTT
10238912 AGGGATTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.46
Consensus pattern (21 bp):
GGTTTGGGATTTTGATATAAG
Found at i:10238923 original size:16 final size:15
Alignment explanation
Indices: 10238898--10238935 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
10238888 TTTTGATATA
10238898 AGGG-TTTGGATTTT
1 AGGGTTTTGGATTTT
10238912 AGGGATTTTGGATTTT
1 AGGG-TTTTGGATTTT
10238928 AGGGTTTT
1 AGGGTTTT
10238936 AGAATACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 14 0.64
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (15 bp):
AGGGTTTTGGATTTT
Found at i:10244572 original size:48 final size:48
Alignment explanation
Indices: 10244438--10244777 Score: 343
Period size: 48 Copynumber: 7.0 Consensus size: 48
10244428 TAAAATCTGA
* * * *
10244438 AAAAAGTTTCTCTCAGCAGAGGCTCAACAACTTAAAAAAATTCTCATCTTG
1 AAAAAGCTTCTCTCAGTAGAGGCTCAACAACTT-TAAAAA-TCTCAT-ATG
* * *
10244489 AAGAAGCTTATCTTAGTA-ACGGCTCAACAACTTTAAAAATCTCATATG
1 AAAAAGCTTCTCTCAGTAGA-GGCTCAACAACTTTAAAAATCTCATATG
* * * * * *
10244537 AAAAAACTTCTCTAAGCAGAGGCTCAACAACTTTAAAACTTCTTATCTTG
1 AAAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAA-ATCTCAT-ATG
* * * *
10244587 AAAAAGTTTCTCTTAGTAGAGGTTCAACAAC-TTAAAAATCTCATCTTG
1 AAAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT-ATG
*
10244635 AAAAAGC-TCATTTCAGTAGAGGCTCAACAACTTTAAAAATCTCATATG
1 AAAAAGCTTC-TCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATATG
10244683 AAAAAGC-TCATCTCAGTAGAGGCTCAACAACTTTAAAAAAAT-TC-T-TG
1 AAAAAGCTTC-TCTCAGTAGAGGCTCAACAACTTT--AAAAATCTCATATG
* * *
10244730 AAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCATATG
1 AAAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATATG
10244778 TTCTCCAAAT
Statistics
Matches: 246, Mismatches: 31, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
45 6 0.02
46 2 0.01
47 34 0.14
48 105 0.43
49 33 0.13
50 40 0.16
51 26 0.11
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (48 bp):
AAAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATATG
Found at i:10244637 original size:98 final size:97
Alignment explanation
Indices: 10244435--10244774 Score: 361
Period size: 98 Copynumber: 3.5 Consensus size: 97
10244425 ATTTAAAATC
* * * *
10244435 TGAAAAAAGTTTCTCTCAGCAGAGGCTCAACAACTTAAAAAAATTCTCATCTTGAAGAAGCTTAT
1 TGAAAAAA-CTTCTCTCAGCAGAGGCTCAACAACTT--TAAAATTCTCATCTTGAAAAAG-TTCT
*
10244500 CTTAGTA-ACGGCTCAACAACTTTAAAAATCTCAT-A
62 CTTAGTAGA-GGCTCAACAACTTTAAAAATCTCATCT
* *
10244535 TGAAAAAACTTCTCTAAGCAGAGGCTCAACAACTTTAAAACTTCTTATCTTGAAAAAGTTTCTCT
1 TGAAAAAACTTCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTCTCATCTTGAAAAAG-TTCTCT
*
10244600 TAGTAGAGGTTCAACAAC-TTAAAAATCTCATCT
64 TAGTAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * * *
10244633 TGAAAAAGC-TCATTTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT-ATGAAAAAGCTCATCT
1 TGAAAAAACTTC-TCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAGTTC-TCT
* **
10244696 CAGTAGAGGCTCAACAACTTTAAAAAAAT--TCT
64 TAGTAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * *
10244728 TGAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCAT
1 TGAAAAAACTTCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCAT
10244775 ATGTTCTCCA
Statistics
Matches: 208, Mismatches: 25, Indels: 19
0.83 0.10 0.08
Matches are distributed among these distances:
95 46 0.22
96 28 0.13
97 32 0.15
98 68 0.33
99 26 0.12
100 8 0.04
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (97 bp):
TGAAAAAACTTCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAGTTCTCTTA
GTAGAGGCTCAACAACTTTAAAAATCTCATCT
Found at i:10244670 original size:146 final size:148
Alignment explanation
Indices: 10244438--10244774 Score: 440
Period size: 146 Copynumber: 2.3 Consensus size: 148
10244428 TAAAATCTGA
* *
10244438 AAAAAGTTTCTCTCAGCAGAGGCTCAACAACTTAAAAAAATTCTCATCTTGAAGAAGCTTATCTT
1 AAAAAGTTTCTCTCAGCAGAGGCTCAACAACTT-AAAAAATTCTCATCTTGAAAAAGCTCATCTT
10244503 AGTAACGGCTCAACAACTTTAAAAATCTCATATGAAAAAACTTC-TCTAAGCAGAGGCTCAACAA
65 AGTAACGGCTCAACAACTTTAAAAATCTCATATGAAAAAAC-TCATCTAAGCAGAGGCTCAACAA
10244567 CTTTAAAACTTCTTATCTTG
129 CTTTAAAACTTCTTATCTTG
* * *
10244587 AAAAAGTTTCTCTTAGTAGAGGTTCAACAACTT-AAAAA-TCTCATCTTGAAAAAGCTCAT-TTC
1 AAAAAGTTTCTCTCAGCAGAGGCTCAACAACTTAAAAAATTCTCATCTTGAAAAAGCTCATCTT-
* * *
10244649 AGTAGA-GGCTCAACAACTTTAAAAATCTCATATGAAAAAGCTCATCTCAGTAGAGGCTCAACAA
65 AGTA-ACGGCTCAACAACTTTAAAAATCTCATATGAAAAAACTCATCTAAGCAGAGGCTCAACAA
***
10244713 CTTTAAAA--AAAT-TCTTG
129 CTTTAAAACTTCTTATCTTG
* * * *
10244730 AAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAA-TCTCAT
1 AAAAAGTTTCTCTCAGCAGAGGCTCAACAACTTAAAAAATTCTCAT
10244775 ATGTTCTCCA
Statistics
Matches: 167, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
143 32 0.19
144 12 0.07
145 4 0.02
146 83 0.50
147 6 0.04
149 30 0.18
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (148 bp):
AAAAAGTTTCTCTCAGCAGAGGCTCAACAACTTAAAAAATTCTCATCTTGAAAAAGCTCATCTTA
GTAACGGCTCAACAACTTTAAAAATCTCATATGAAAAAACTCATCTAAGCAGAGGCTCAACAACT
TTAAAACTTCTTATCTTG
Found at i:10255428 original size:12 final size:12
Alignment explanation
Indices: 10255403--10255437 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10255393 AGTTTTGAGA
10255403 TTTGCTTTTGTTT
1 TTTG-TTTTGTTT
*
10255416 TTTGTTTTTTTT
1 TTTGTTTTGTTT
10255428 TTTGTTTTGT
1 TTTGTTTTGT
10255438 ATTACATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (12 bp):
TTTGTTTTGTTT
Found at i:10256852 original size:18 final size:18
Alignment explanation
Indices: 10256831--10256873 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10256821 TTTCTCATTT
*
10256831 TTTATTACTT-ATTCTTAA
1 TTTATTAATTAATT-TTAA
*
10256849 TTTATTAATTAATTTTTA
1 TTTATTAATTAATTTTAA
10256867 TTTATTA
1 TTTATTA
10256874 TTTTATAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTAATTAATTTTAA
Found at i:10257120 original size:17 final size:17
Alignment explanation
Indices: 10257098--10257131 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10257088 TATTATTATT
10257098 AAATATAAAATACAAAA
1 AAATATAAAATACAAAA
10257115 AAATATAAAATACAAAA
1 AAATATAAAATACAAAA
10257132 TACCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATATAAAATACAAAA
Found at i:10257291 original size:14 final size:14
Alignment explanation
Indices: 10257272--10257298 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10257262 TCACCTTACC
10257272 TACCACCCATGCTT
1 TACCACCCATGCTT
10257286 TACCACCCATGCT
1 TACCACCCATGCT
10257299 ACTGCCTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.26
Consensus pattern (14 bp):
TACCACCCATGCTT
Found at i:10257494 original size:28 final size:28
Alignment explanation
Indices: 10257449--10257515 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
10257439 GGACAATAAG
* * * *
10257449 AAAAGAAAACAGAGGAAGGATGTTGCAA
1 AAAAAAAAACAGAAGAAGGACGTTACAA
*
10257477 AAAAAAAAATAGAAGAAGGACGTTACAA
1 AAAAAAAAACAGAAGAAGGACGTTACAA
10257505 AAAAAAAAACA
1 AAAAAAAAACA
10257516 CTGTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.64, C:0.07, G:0.19, T:0.09
Consensus pattern (28 bp):
AAAAAAAAACAGAAGAAGGACGTTACAA
Found at i:10258646 original size:18 final size:16
Alignment explanation
Indices: 10258600--10258649 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
10258590 TTTTGGTTAT
10258600 AAAATAATAATAAATA
1 AAAATAATAATAAATA
10258616 AAAACTAATTAATAAATTA
1 AAAA-TAA-TAATAAA-TA
*
10258635 AGAATAAGTAATAAA
1 AAAATAA-TAATAAA
10258650 AATGAGAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 3 0.10
18 17 0.59
19 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:10260552 original size:16 final size:17
Alignment explanation
Indices: 10260526--10260569 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
10260516 TAAGATTTGC
10260526 AGGGTATGGGTGACCA-A
1 AGGG-ATGGGTGACCATA
*
10260543 AGGGATGGGTGATCATA
1 AGGGATGGGTGACCATA
10260560 AGGG-TGGGTG
1 AGGGATGGGTG
10260570 GCCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.25, C:0.07, G:0.48, T:0.20
Consensus pattern (17 bp):
AGGGATGGGTGACCATA
Found at i:10260640 original size:26 final size:25
Alignment explanation
Indices: 10260611--10260689 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 25
10260601 TCAGCCCCCC
* * *
10260611 ATTTTTTGTTTTTTTCATTTTTTTGT
1 ATTTTTTGTATTTTT-ATATTTCTGT
10260637 A-TTTTTGTATTTTTATATTTCTGT
1 ATTTTTTGTATTTTTATATTTCTGT
*
10260661 ATATTTTTGTA--TTTGTATTT-TGT
1 AT-TTTTTGTATTTTTATATTTCTGT
10260684 ATTTTT
1 ATTTTT
10260690 GTTTAATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 17 0.36
25 12 0.26
26 9 0.19
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.75
Consensus pattern (25 bp):
ATTTTTTGTATTTTTATATTTCTGT
Found at i:10260648 original size:18 final size:18
Alignment explanation
Indices: 10260612--10260674 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
10260602 CAGCCCCCCA
10260612 TTTTTTGT-TTTTT-TCAT
1 TTTTTTGTATTTTTGT-AT
10260629 TTTTTTGTATTTTTGTA-
1 TTTTTTGTATTTTTGTAT
* *
10260646 -TTTTTATATTTCTGTAT
1 TTTTTTGTATTTTTGTAT
*
10260663 ATTTTTGTATTT
1 TTTTTTGTATTT
10260675 GTATTTTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 14 0.36
17 8 0.21
18 16 0.41
19 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTTTGTATTTTTGTAT
Found at i:10260655 original size:8 final size:8
Alignment explanation
Indices: 10260630--10260691 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
10260620 TTTTTTCATT
10260630 TTTTTGTA
1 TTTTTGTA
10260638 TTTTTGTA
1 TTTTTGTA
*
10260646 TTTTTATA
1 TTTTTGTA
*
10260654 TTTCTGTATA
1 TTT-T-TGTA
10260664 TTTTTGTA
1 TTTTTGTA
10260672 --TTTGTA
1 TTTTTGTA
10260678 -TTTTGTA
1 TTTTTGTA
10260685 TTTTTGT
1 TTTTTGT
10260692 TTAATTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
6 6 0.12
7 6 0.12
8 27 0.56
9 2 0.04
10 7 0.15
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.73
Consensus pattern (8 bp):
TTTTTGTA
Found at i:10261867 original size:10 final size:9
Alignment explanation
Indices: 10261837--10261863 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10261827 AAATTGCAAA
10261837 ATAAAATTT
1 ATAAAATTT
10261846 ATAAAATTT
1 ATAAAATTT
10261855 ATAAAATTT
1 ATAAAATTT
10261864 TATATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATAAAATTT
Found at i:10261881 original size:23 final size:20
Alignment explanation
Indices: 10261835--10261881 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 20
10261825 TGAAATTGCA
10261835 AAATAAAATTTATAAAATTT
1 AAATAAAATTTATAAAATTT
10261855 --ATAAAATTTTATATATAATTT
1 AAATAAAA-TTTATA-A-AATTT
10261876 AAATAA
1 AAATAA
10261882 TATTCACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
18 6 0.27
19 6 0.27
20 1 0.05
21 5 0.23
23 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATAAAATTTATAAAATTT
Found at i:10264618 original size:21 final size:21
Alignment explanation
Indices: 10264575--10264619 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10264565 AAATAACCAT
*
10264575 AATAATATATTATTGTAATGTA
1 AATAATATATTA-TGTAACGTA
10264597 AATAATTATATTA-GTAACGTA
1 AATAA-TATATTATGTAACGTA
10264618 AA
1 AA
10264620 ATTTTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (21 bp):
AATAATATATTATGTAACGTA
Found at i:10264750 original size:29 final size:29
Alignment explanation
Indices: 10264688--10264742 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10264678 AAATTGATAA
* *
10264688 AGTAAATAAGTGAGAACCATAACATTAGT
1 AGTAAATAAGTGAGAACCATAACATAAAT
10264717 AGTAAATAAGTGAGAA-CA-AACATAAA
1 AGTAAATAAGTGAGAACCATAACATAAA
10264743 ATAGGTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
29 16 0.67
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (29 bp):
AGTAAATAAGTGAGAACCATAACATAAAT
Found at i:10266097 original size:18 final size:17
Alignment explanation
Indices: 10266074--10266108 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10266064 AAGGAATTAA
10266074 GAAAAATCCTCATTTTTT
1 GAAAAAT-CTCATTTTTT
*
10266092 GAAAAATTTCATTTTTT
1 GAAAAATCTCATTTTTT
10266109 TTTATTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (17 bp):
GAAAAATCTCATTTTTT
Found at i:10266641 original size:63 final size:62
Alignment explanation
Indices: 10266287--10266755 Score: 321
Period size: 62 Copynumber: 7.5 Consensus size: 62
10266277 TAATGGGAAA
* * * * *
10266287 GGATTATTAAAGGCATTTTTGGCCAAAAAATGCCTTGAATAATCCTTTAAAATAATTGAATT-A-
1 GGATTATTGAAGGCATTTTTAGCC-AAAAATGCCTTCAATAATCCCTTAAAA-AATT-TATTGAG
* * * * *
10266350 GG-TTATTCAAGGCATTTTCTGGCCAAAAATACCTTCAATAATCCATTCAAAAAATTT-TGGAAA
1 GGATTATTGAAGGCATTTT-TAGCCAAAAATGCCTTCAATAATCCCTT-AAAAAATTTATTG--A
10266413 G
62 G
* ** * ** ** *
10266414 AGAACATTGAAGGCA-TTTTCGACCAAAAAAACCTTCAATAATCTGTATAAAAAATTT-TAGAG
1 GGATTATTGAAGGCATTTTTAG-CCAAAAATGCCTTCAATAATCCCT-TAAAAAATTTATTGAG
* * * * * *
10266476 AGATTATTGAAGGTATTTTTGGTCAAAAATGCCTTCAATAATCCTTTAAAAAAATTA--GATG
1 GGATTATTGAAGGCATTTTTAGCCAAAAATGCCTTCAATAATCCCTTAAAAAATTTATTGA-G
* *
10266537 GGATTATTGAAGGC-TTTTTTGACCAAAAAAAGCCTTCAATAATCCCTTATAAAAATTTATTGAG
1 GGATTATTGAAGGCATTTTTAG-CC-AAAAATGCCTTCAATAATCCCTTA-AAAAATTTATTGAG
* * * *
10266601 GGATTATTGAAGGCATTTTTAGCCAAAAATGCCTTCAATAATTCATACAAAAAATTT-TGGAAG
1 GGATTATTGAAGGCATTTTTAGCCAAAAATGCCTTCAATAATCCCT-TAAAAAATTTATTG-AG
* * * * * * ** * *
10266664 GGATTATTGAAAGCATTTTTAGCTAGAAACGCCTTCAATAACCCCATCCAACATTT-TATAAG
1 GGATTATTGAAGGCATTTTTAGCCAAAAATGCCTTCAATAATCCCTTAAAAAATTTAT-TGAG
* *
10266726 GGATTATTCAAGGCATTTTCTAGCTAAAAA
1 GGATTATTGAAGGCATTTT-TAGCCAAAAA
10266756 CACTTTCAGT
Statistics
Matches: 329, Mismatches: 55, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
60 9 0.03
61 23 0.07
62 122 0.37
63 103 0.31
64 54 0.16
65 18 0.05
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (62 bp):
GGATTATTGAAGGCATTTTTAGCCAAAAATGCCTTCAATAATCCCTTAAAAAATTTATTGAG
Found at i:10266671 original size:188 final size:189
Alignment explanation
Indices: 10266282--10266683 Score: 453
Period size: 188 Copynumber: 2.1 Consensus size: 189
10266272 CGAAATAATG
* * * *
10266282 GGAAAGGATTATTAAAGGCATTTTTGGCCAAAAAATGCCTTGAATAATCCTTTAAAATAATTGAA
1 GGAAGGGATTATTGAAGGCATTTTTGGCCAAAAAATGCCTTCAATAATCCTTTAAAAAAATTGAA
* *
10266347 TTAGGTTATTCAAGGCATTTTCTGGCCAAAAATACCTTCAATAATCCATTCAAAAAATTTTGGAA
66 TTAGGTTATTCAAGGCATTTTCTGACCAAAAAAACCTTCAATAATCCATTCAAAAAATTTTGG-A
* * *
10266412 AGAGAACATTGAAGGCATTTTCGACCAAAAAAACCTTCAATAATCTGTATAAAAAATTTT
130 AGAGAACATTGAAGGCATTTTAGACCAAAAAAACCTTCAATAATCTATACAAAAAATTTT
* * * *
10266472 AG-AGAGATTATTGAAGGTATTTTTGGTC-AAAAATGCCTTCAATAATCCTTTAAAAAAATT-AG
1 GGAAGGGATTATTGAAGGCATTTTTGGCCAAAAAATGCCTTCAATAATCCTTTAAAAAAATTGA-
* * * *
10266534 A-TGGGATTATTGAAGGC-TTTTTTGACCAAAAAAAGCCTTCAATAATCCCTT-ATAAAAATTTA
65 ATTAGG-TTATTCAAGGCATTTTCTGACCAAAAAAA-CCTTCAATAATCCATTCA-AAAAATTT-
* * ** **
10266596 TTG-AGGGATTATTGAAGGCATTTTTAG-CCAAAAATGCCTTCAATAAT-TCATACAAAAAATTT
126 TGGAAGAGAACATTGAAGGCA-TTTTAGACCAAAAAAACCTTCAATAATCT-ATACAAAAAATTT
10266658 T
189 T
*
10266659 GGAAGGGATTATTGAAAGCATTTTT
1 GGAAGGGATTATTGAAGGCATTTTT
10266684 AGCTAGAAAC
Statistics
Matches: 177, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
186 1 0.01
187 64 0.36
188 88 0.50
189 23 0.13
190 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (189 bp):
GGAAGGGATTATTGAAGGCATTTTTGGCCAAAAAATGCCTTCAATAATCCTTTAAAAAAATTGAA
TTAGGTTATTCAAGGCATTTTCTGACCAAAAAAACCTTCAATAATCCATTCAAAAAATTTTGGAA
GAGAACATTGAAGGCATTTTAGACCAAAAAAACCTTCAATAATCTATACAAAAAATTTT
Found at i:10270061 original size:28 final size:28
Alignment explanation
Indices: 10270029--10270097 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
10270019 CATTCAGCAA
*
10270029 ACCATTCAATAAACCAAAATCATACAAT
1 ACCATTCAGTAAACCAAAATCATACAAT
* ** *
10270057 ACCATTTAGCGAACCAATATCATACAAT
1 ACCATTCAGTAAACCAAAATCATACAAT
10270085 ACCATTCAGTAAA
1 ACCATTCAGTAAA
10270098 TCATAATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (28 bp):
ACCATTCAGTAAACCAAAATCATACAAT
Found at i:10270997 original size:171 final size:172
Alignment explanation
Indices: 10270676--10271006 Score: 407
Period size: 171 Copynumber: 1.9 Consensus size: 172
10270666 TTTCTATAAC
* ** * *
10270676 AAATGCCTTTAATAATCCTGTCCAATTTTTTAGAGAGGATTATTCAAGGTATTTTTTTATAAAAA
1 AAATGCCTTCAATAATCCCATCCAATTTTTTAGAAAGGATTATTCAAGGGATTTTTTTATAAAAA
* * * * * *
10270741 AATGCCTTTAATAAACTGTGGTTTTTTTAATGGGGATGAGTTAAGGCGTTTTTGCCTAGAAATGC
66 AA-GCCTTTAATAAACCGTGGTTTTTTTAATGGGGATGACTCAAGGCATTTTTGCCTAAAAAAGC
*
10270806 CTTGAATATTCCACTACAAAAAATTCAAGGTGTTTTATGCCAA
130 CTTGAATATTCCACTACAAAAAATTAAAGGTGTTTTATGCCAA
* * *
10270849 AAATGCCTTCAATAATCCCATCTAATTTTTTAGAAAGGATTATTCGAGGCGGTTTTTTTA-AAAA
1 AAATGCCTTCAATAATCCCATCCAATTTTTTAGAAAGGATTATTCAAGG-GATTTTTTTATAAAA
* * * * * * *
10270913 ACA-CCTTTAATAAACCGTGTTTTTTTTATTTGGGATTACTCAAGGTATTTTTGCTTAAAAACAG
65 AAAGCCTTTAATAAACCGTGGTTTTTTTAATGGGGATGACTCAAGGCATTTTTGCCTAAAAA-AG
*
10270977 -CTTGAATATTCCATTACAAAAAATTAAAGG
129 CCTTGAATATTCCACTACAAAAAATTAAAGG
10271007 CATTTTTTTT
Statistics
Matches: 133, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
171 75 0.56
172 1 0.01
173 49 0.37
174 8 0.06
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (172 bp):
AAATGCCTTCAATAATCCCATCCAATTTTTTAGAAAGGATTATTCAAGGGATTTTTTTATAAAAA
AAGCCTTTAATAAACCGTGGTTTTTTTAATGGGGATGACTCAAGGCATTTTTGCCTAAAAAAGCC
TTGAATATTCCACTACAAAAAATTAAAGGTGTTTTATGCCAA
Found at i:10272842 original size:29 final size:29
Alignment explanation
Indices: 10272783--10272843 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
10272773 ACACCATTAC
* *
10272783 CACCAGACCCTACACCCCACCATTCTGAT
1 CACCAGACCCTACACCCCACCACTCTAAT
* *
10272812 CACCATACCCTAC-CCTCCACCCCTCTAAT
1 CACCAGACCCTACACC-CCACCACTCTAAT
10272841 CAC
1 CAC
10272844 TTTTTCTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.26, C:0.52, G:0.03, T:0.18
Consensus pattern (29 bp):
CACCAGACCCTACACCCCACCACTCTAAT
Found at i:10274185 original size:16 final size:16
Alignment explanation
Indices: 10274126--10274189 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
10274116 CGTGTTTTCT
**
10274126 AAAATCCCTAAAATTT
1 AAAATCCCTAAAATCC
* *
10274142 GAAAT-CCTTAAATCC
1 AAAATCCCTAAAATCC
*
10274157 -AAA-CCCCAAAATCC
1 AAAATCCCTAAAATCC
10274171 AAAATCCCTAAAATCC
1 AAAATCCCTAAAATCC
10274187 AAA
1 AAA
10274190 CCCTTATATC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
14 11 0.29
15 10 0.26
16 17 0.45
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAATCCCTAAAATCC
Found at i:10274209 original size:44 final size:45
Alignment explanation
Indices: 10274126--10274210 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
10274116 CGTGTTTTCT
** * *
10274126 AAAATCCCTAAAATTTGAAATCCTTAAATCCAAACCCCAAAATCC
1 AAAATCCCTAAAATTCCAAACCCTTAAATCAAAACCCCAAAATCC
*
10274171 AAAATCCCTAAAA-TCCAAACCCTTATATCAAAACCCCAAA
1 AAAATCCCTAAAATTCCAAACCCTTAAATCAAAACCCCAAA
10274211 CCTTCAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 22 0.63
45 13 0.37
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (45 bp):
AAAATCCCTAAAATTCCAAACCCTTAAATCAAAACCCCAAAATCC
Found at i:10274239 original size:12 final size:12
Alignment explanation
Indices: 10274214--10274248 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10274204 CCCCAAACCT
10274214 TCAAAACCTCTAC
1 TCAAAACCT-TAC
*
10274227 TCAAACCCTTAC
1 TCAAAACCTTAC
10274239 TCAAAACCTT
1 TCAAAACCTT
10274249 CTGAAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (12 bp):
TCAAAACCTTAC
Found at i:10286780 original size:109 final size:108
Alignment explanation
Indices: 10286592--10286919 Score: 396
Period size: 109 Copynumber: 3.0 Consensus size: 108
10286582 AGCTCAATTA
* * * * *
10286592 TAGTCACTTTTATTTCTTTGACTTGCGATTCAATCCTGGTCA--TTAATCTTTGACTCGTGGTTT
1 TAGTCACTTTTATTTCTTTGACTTACGATTCAGTCCCGATCATCTTAATCTTTGACTCATGGTTT
* *
10286655 AATCCTGATCATTCTTATAGCTTCTCGACTTATGGTTTAATCC
66 AATCCTGATCATTCTTATAGCTTATCGACTTACGGTTTAATCC
* *
10286698 TAGTCGCTTTTATTTCTTTGACTTACGGTTCAGTCCCGATCATCGTTAATCTTTGACTCATGGTT
1 TAGTCACTTTTATTTCTTTGACTTACGATTCAGTCCCGATCATC-TTAATCTTTGACTCATGGTT
** *
10286763 TAATCCCAATCATTCTTATAGCTTATCGACTTACGATTTAATCC
65 TAATCCTGATCATTCTTATAGCTTATCGACTTACGGTTTAATCC
* * * *
10286807 TAGTCATTTTTATTTCTTTGACTTACGATTCAGTCCC-AGTTATCTTTAATCTTTGA-TTAGTGT
1 TAGTCACTTTTATTTCTTTGACTTACGATTCAGTCCCGA-TCATC-TTAATCTTTGACTCA-TGG
* * * * *
10286870 TTTAATCCTGATCATTTTTATAG-TTTTTGAATTGCGGTTTAATCC
63 TTTAATCCTGATCATTCTTATAGCTTATCGACTTACGGTTTAATCC
10286915 TAGTC
1 TAGTC
10286920 TCCTTATTTT
Statistics
Matches: 190, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
106 36 0.19
108 25 0.13
109 129 0.68
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (108 bp):
TAGTCACTTTTATTTCTTTGACTTACGATTCAGTCCCGATCATCTTAATCTTTGACTCATGGTTT
AATCCTGATCATTCTTATAGCTTATCGACTTACGGTTTAATCC
Found at i:10286803 original size:38 final size:36
Alignment explanation
Indices: 10286652--10286836 Score: 97
Period size: 38 Copynumber: 5.1 Consensus size: 36
10286642 TGACTCGTGG
** * *
10286652 TTTAATCCTGATCATTCTTATAGCTTCTCGACTTATGG
1 TTTAATCCCAATCATTCTTATAGCTT-T-GACTTACGA
* * * ** *
10286690 TTTAATCCTAGTCGCTT-TTATTTCTTTGACTTACGG
1 TTTAATCCCAATC-ATTCTTATAGCTTTGACTTACGA
* * * * * * *
10286726 TTCAGTCCCGATCA-TCGTTA-ATCTTTGACTCATGG
1 TTTAATCCCAATCATTC-TTATAGCTTTGACTTACGA
10286761 TTTAATCCCAATCATTCTTATAGCTTATCGACTTACGA
1 TTTAATCCCAATCATTCTTATAGCTT-T-GACTTACGA
* * * **
10286799 TTTAATCCTAGTCATTTTTATTTCTTTGACTTACGA
1 TTTAATCCCAATCATTCTTATAGCTTTGACTTACGA
10286835 TT
1 TT
10286837 CAGTCCCAGT
Statistics
Matches: 113, Mismatches: 27, Indels: 16
0.72 0.17 0.10
Matches are distributed among these distances:
34 1 0.01
35 26 0.23
36 36 0.32
37 3 0.03
38 45 0.40
39 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (36 bp):
TTTAATCCCAATCATTCTTATAGCTTTGACTTACGA
Found at i:10287273 original size:46 final size:48
Alignment explanation
Indices: 10287183--10287277 Score: 149
Period size: 46 Copynumber: 2.0 Consensus size: 48
10287173 AAATCATAGT
* * *
10287183 TTAATCTCGATTGTTGTCTTTATTTTTTAACTCGTGGTTTAATCCCGA
1 TTAATCTCGATTGTTATCTTTATTTTCTAACTCGTGGTTCAATCCCGA
10287231 TTAATCTCGATTGTTAT-TTT-TTTTCTAACTCGTGGTTCAATCCCGA
1 TTAATCTCGATTGTTATCTTTATTTTCTAACTCGTGGTTCAATCCCGA
10287277 T
1 T
10287278 CTCTTTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 25 0.57
47 3 0.07
48 16 0.36
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (48 bp):
TTAATCTCGATTGTTATCTTTATTTTCTAACTCGTGGTTCAATCCCGA
Found at i:10287476 original size:126 final size:126
Alignment explanation
Indices: 10287231--10287538 Score: 454
Period size: 126 Copynumber: 2.4 Consensus size: 126
10287221 TTAATCCCGA
* * * *
10287231 TTAATCTCGATTGTTATTTTTTTTCTAACTCGTGGTTCAATCCCGATCTCTTTATTATGATTCAA
1 TTAATCTCGATTGTT-GTTATTTTCTAACTCGTGGTTCAATCCTGGTCTCTTTATTATGATTCAA
* * ** *
10287296 TTCAAATTGACATTATTCTAACTCGTGGTTCAATCCCGATTTCTTTAATCCAAAATCACAGT
65 TTCAAATTAACATTATTCTAACTCGCGAATCAATCCCAATTTCTTTAATCCAAAATCACAGT
* ** *
10287358 TTAATCTCGATTGTTGTTATTTTCTGACTCGTGGTTCAATTTTGGTCTCTTTATTGTGATTCAAT
1 TTAATCTCGATTGTTGTTATTTTCTAACTCGTGGTTCAATCCTGGTCTCTTTATTATGATTCAAT
**
10287423 TCAAATTAACATTATTCTAACTCGCGAATCAATCCCAATTTCTTTAATCCAAAATCGTAGT
66 TCAAATTAACATTATTCTAACTCGCGAATCAATCCCAATTTCTTTAATCCAAAATCACAGT
* *
10287484 TTAATCTCGATTGTTGTTATTTTTTAACTCGTGGTTTAATCCTGGTCTCTTTATT
1 TTAATCTCGATTGTTGTTATTTTCTAACTCGTGGTTCAATCCTGGTCTCTTTATT
10287539 TTTTGAGTTA
Statistics
Matches: 161, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
126 146 0.91
127 15 0.09
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (126 bp):
TTAATCTCGATTGTTGTTATTTTCTAACTCGTGGTTCAATCCTGGTCTCTTTATTATGATTCAAT
TCAAATTAACATTATTCTAACTCGCGAATCAATCCCAATTTCTTTAATCCAAAATCACAGT
Found at i:10287671 original size:67 final size:66
Alignment explanation
Indices: 10287463--10287671 Score: 163
Period size: 67 Copynumber: 3.1 Consensus size: 66
10287453 AATCCCAATT
* * *
10287463 TCTTTAATCCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTAACTCGTGGTTTAATCCTG
1 TCTTT-ATCCAAAATCGTAATTTAATCTCGATTGTTATT-TTTTTTGACTCGTGGTTTAATCCTG
10287528 GTC
64 GTC
**** * ** * * * * * *
10287531 TCTTTATTTTTTGAGTTATGATTCAATC-C-A-AGTTGATGTTATTTTGACTCGCGGTTTAATCT
1 TCTTTA--TCCAAAATCGTAATTTAATCTCGATTGTT-AT-TTTTTTTGACTCGTGGTTTAATCC
* *
10287593 TGATT
62 TGGTC
*
10287598 TTTTTATCCAAAATCGTAATTTAATCTCGATTGTTATTTTTTTCTGACTCGTGGTTTAATCCTGG
1 TCTTTATCCAAAATCGTAATTTAATCTCGATTGTTATTTTTTT-TGACTCGTGGTTTAATCCTGG
10287663 TC
65 TC
10287665 TCTTTAT
1 TCTTTAT
10287672 ATTTTGACTT
Statistics
Matches: 98, Mismatches: 35, Indels: 17
0.65 0.23 0.11
Matches are distributed among these distances:
65 11 0.11
66 9 0.09
67 58 0.59
68 10 0.10
69 10 0.10
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (66 bp):
TCTTTATCCAAAATCGTAATTTAATCTCGATTGTTATTTTTTTTGACTCGTGGTTTAATCCTGGT
C
Found at i:10288412 original size:22 final size:22
Alignment explanation
Indices: 10288387--10288428 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10288377 AGGGGATATG
*
10288387 CTACAAAAAGAACAAAAAAACA
1 CTACAAAAAAAACAAAAAAACA
10288409 CTACAAAAAAAACAAAAAAA
1 CTACAAAAAAAACAAAAAAA
10288429 AAACACAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.76, C:0.17, G:0.02, T:0.05
Consensus pattern (22 bp):
CTACAAAAAAAACAAAAAAACA
Found at i:10288416 original size:13 final size:13
Alignment explanation
Indices: 10288397--10288435 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10288387 CTACAAAAAG
10288397 AACAAAAAAACAC
1 AACAAAAAAACAC
*
10288410 TACAAAAAAA-AC
1 AACAAAAAAACAC
*
10288422 AAAAAAAAAACAC
1 AACAAAAAAACAC
10288435 A
1 A
10288436 GTCCTCCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (13 bp):
AACAAAAAAACAC
Found at i:10289557 original size:16 final size:16
Alignment explanation
Indices: 10289528--10289592 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
10289518 CATGTTTTCT
*
10289528 AAAACCCCTAAAATCC
1 AAAATCCCTAAAATCC
* *
10289544 AAAATCCTTTAAATCC
1 AAAATCCCTAAAATCC
*
10289560 -AAA-CCCCAAAATCC
1 AAAATCCCTAAAATCC
10289574 AAAATCCCTAAAATCC
1 AAAATCCCTAAAATCC
10289590 AAA
1 AAA
10289593 CCCTTGTATC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 8 0.20
15 6 0.15
16 26 0.65
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATCCCTAAAATCC
Found at i:10289573 original size:30 final size:31
Alignment explanation
Indices: 10289529--10289595 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
10289519 ATGTTTTCTA
* *
10289529 AAACCCCTAAAATCCAAAATCCTTTAAATCC
1 AAACCCCTAAAATCCAAAATCCCTAAAATCC
10289560 AAACCCC-AAAATCCAAAATCCCTAAAATCC
1 AAACCCCTAAAATCCAAAATCCCTAAAATCC
10289590 AAACCC
1 AAACCC
10289596 TTGTATCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (31 bp):
AAACCCCTAAAATCCAAAATCCCTAAAATCC
Found at i:10295824 original size:160 final size:158
Alignment explanation
Indices: 10295624--10296519 Score: 811
Period size: 160 Copynumber: 5.6 Consensus size: 158
10295614 CAAATTAACA
* * * * * * *
10295624 GTTATTGATCTATTTTAATAGTTTTGATAGTTTCAATACATGATATTTAACTTATCCAAATTATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATT
* ** * **
10295689 GAACTTAGTTTCCACGGTTGATATGTATGAAAATA-TTATTGTTTATGTCTATTTAAGACTTTTT
66 GAACTTGGTTTCCACAATTGATATGTGTGAAAA-AGTTATTGTTTACCTCTATTTAAGACTTTTT
* *
10295753 GTGCTGTTAATAAATAAAATACAAATTTGTT
130 -TGCTATTAA-AAATAAAATACAAATTTGCT
* ** * * *
10295784 GTTATTGTTCTATTTGAACAGTTTACATAGCTTGAATACATGATATTAAACTTGTCAAAATAATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATT
* * * ** * * *
10295849 GAACTTGGTATCCACAGTTGATATGTGTGAAAAAGCTAACGTTTACATTTGTTTAAGACTTTTTA
66 GAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATTGTTTACCTCTATTTAAGACTTTTT-
* * *
10295914 TGCCATTAAAAGGA-AAAATGC-AATATTGAT
130 TGCTATTAAAA--ATAAAATACAAAT-TTGCT
* * *
10295944 ATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTAATCTTG-CTCAAATGAT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTC-CAAATGAT
* *** * * *
10296008 TGAACTTGGTTTCTATGGTTGATATGTGTGAAAAAGTTATCGTTTACGTCTATTTAGGACTATTT
65 TGAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATTGTTTACCTCTATTTAAGACT-TTT
* *
10296073 TTGCCATTTAAAGGCA-AAAATACAAATTTGCT
129 TTGCTA-TTAAA--AATAAAATACAAATTTGCT
* * * * * * *
10296105 GTTATTATTCTATTTTAATAGTTTGGATGGCTTTAATACAT-AAATTAAACTTTTTCAAATGATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATT
* * * * *
10296169 GAACTTGGTTTCCACAATTGATATATGTGAAAAAGTTGTTGTTTACCTCTGTTTAAGAATTTTCA
66 GAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATTGTTTACCTCTATTTAAGACTTTT-T
* * * *
10296234 TGCCATTAAAAGGTAAAAATATAATTTTGCT
130 TGCTATTAAAA-AT-AAAATACAAATTTGCT
* * * * * * *
10296265 GTTATTGTGCTATTTTAATAGTTTGGATAGTTTCAAAACATGATATTAAACTTTTTCAAATAATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATT
* * * * * * *
10296330 -AAATTTGTTTTCACAATTGATATATGTG-AAAAGTTGTTGTTTACCTTTATTTAGGACTTTTTT
66 GAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATTGTTTACCTCTATTTAAGACTTTTTT
* *
10296393 GCTGTT-AAAATGCAAAAATACAAAGTTGCT
131 GCTATTAAAAAT---AAAATACAAATTTGCT
* * * *
10296423 ATTATTGTTCTGTTTTAACAGTTTGGATGGCTTCATTACATGATATTAAACTTGTCCAAATGATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATT
* ** *
10296488 GAATTTGGTTTCCATGATTGATATGCGTGAAA
66 GAACTTGGTTTCCACAATTGATATGTGTGAAA
10296520 GACCAAAATG
Statistics
Matches: 601, Mismatches: 115, Indels: 40
0.79 0.15 0.05
Matches are distributed among these distances:
156 1 0.00
157 3 0.00
158 73 0.12
159 65 0.11
160 379 0.63
161 77 0.13
162 3 0.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (158 bp):
GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATGATT
GAACTTGGTTTCCACAATTGATATGTGTGAAAAAGTTATTGTTTACCTCTATTTAAGACTTTTTT
GCTATTAAAAATAAAATACAAATTTGCT
Found at i:10296154 original size:320 final size:315
Alignment explanation
Indices: 10295585--10296519 Score: 1006
Period size: 320 Copynumber: 2.9 Consensus size: 315
10295575 TCTATTTACA
* * * * *
10295585 ACTTTTTATGCCGTTAAAAGGTAAAAATGCAA-ATTAACAGTTATTGATCTATTTTAATAGTTTT
1 ACTTTTTATGCCATTAAAAGGTAAAAATGCAATATTGATA-TTATTGTTCTATTTTAATAGTTTG
* *
10295649 GATAGTTTCAATACATGATATTTAACTTATCCAAATTATTGAACTTAGTTTCCACGGTTGATATG
65 GATAGTTTCAATACATGATA-TTAACTTAT-CAAATAATTGAACTTGGTTT-CACGGTTGATATG
* * * *
10295714 TATGAAAATA-TTATTGTTTATGTCTATTTAAGACTTTTTGTG-CTGTTAATA-AATAAAATACA
127 TGTGAAAA-AGTTATTGTTTACGTCTATTTAGGACTTTTT-TGCCT-TTAA-AGCA-AAAATACA
* * ** * *
10295776 AATTTGTTGTTATTGTTCTATTTGAACAGTTTACATAGCTTGAATACATGATATTAAACTTGTCA
187 AATTTGCTGTTATTGTTCTATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTGTC-
* * *
10295841 AAATAATTGAACTTGGTATCCACAGTTGATATGTGTGAAAAAGCTAACGTTTACATTTGTTTAAG
251 AAATGATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAGCTAACGTTTACATCTGTTTAAG
* *
10295906 ACTTTTTATGCCATTAAAAGG-AAAAATGCAATATTGATATTATTGTTCTATTTTAACAATTTGG
1 ACTTTTTATGCCATTAAAAGGTAAAAATGCAATATTGATATTATTGTTCTATTTTAATAGTTTGG
* * * *
10295970 ATAGCTTCAATACATGATATTAATCTTGCTCAAATGATTGAACTTGGTTTCTATGGTTGATATGT
66 ATAGTTTCAATACATGATATTAA-CTT-ATCAAATAATTGAACTTGGTTTC-ACGGTTGATATGT
*
10296035 GTGAAAAAGTTATCGTTTACGTCTATTTAGGACTATTTTTGCCATTTAAAGGCAAAAATACAAAT
128 GTGAAAAAGTTATTGTTTACGTCTATTTAGGACT-TTTTTGCC-TTTAAA-GCAAAAATACAAAT
* * * * *
10296100 TTGCTGTTATTATTCTATTTTAATAGTTTGGATGGCTTTAATACAT-AAATTAAACTTTTTCAAA
190 TTGCTGTTATTGTTCTATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAAC-TTGTCAAA
* * * *** *
10296164 TGATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAGTTGTTGTTTACCTCTGTTTAAG
254 TGATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAGCTAACGTTTACATCTGTTTAAG
* * ** * * * *
10296226 AATTTTCATGCCATTAAAAGGTAAAAATATAATTTTGCTGTTATTGTGCTATTTTAATAGTTTGG
1 ACTTTTTATGCCATTAAAAGGTAAAAATGCAATATTGATATTATTGTTCTATTTTAATAGTTTGG
* * * * * ** *
10296291 ATAGTTTCAAAACATGATATTAAACTTTTTCAAATAATTAAATTTGTTTTCACAATTGATATATG
66 ATAGTTTCAATACATGATATT-AAC-TTATCAAATAATTGAACTTGGTTTCACGGTTGATATGTG
* * * *
10296356 TG-AAAAGTTGTTGTTTACCTTTATTTAGGACTTTTTTG-CTGTTAAAATGCAAAAATACAAAGT
129 TGAAAAAGTTATTGTTTACGTCTATTTAGGACTTTTTTGCCT-TT-AAA-GCAAAAATACAAATT
* * *
10296419 TGCTATTATTGTTCTGTTTTAACAGTTTGGATGGCTTCATTACATGATATTAAACTTGTCCAAAT
191 TGCTGTTATTGTTCTATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTGT-CAAAT
* * *
10296484 GATTGAATTTGGTTTCCA-TGATTGATATGCGTGAAA
255 GATTGAACTTGGTTTCCACAG-TTGATATGTGTGAAA
10296520 GACCAAAATG
Statistics
Matches: 518, Mismatches: 77, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
316 1 0.00
317 3 0.01
318 65 0.13
319 75 0.14
320 207 0.40
321 161 0.31
322 6 0.01
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (315 bp):
ACTTTTTATGCCATTAAAAGGTAAAAATGCAATATTGATATTATTGTTCTATTTTAATAGTTTGG
ATAGTTTCAATACATGATATTAACTTATCAAATAATTGAACTTGGTTTCACGGTTGATATGTGTG
AAAAAGTTATTGTTTACGTCTATTTAGGACTTTTTTGCCTTTAAAGCAAAAATACAAATTTGCTG
TTATTGTTCTATTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTGTCAAATGATTGA
ACTTGGTTTCCACAGTTGATATGTGTGAAAAAGCTAACGTTTACATCTGTTTAAG
Found at i:10298557 original size:14 final size:13
Alignment explanation
Indices: 10298540--10298580 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10298530 ATAACAATTA
10298540 AAAATATTTATTTT
1 AAAATATTT-TTTT
10298554 AAAA-ATTTTATTT
1 AAAATATTTT-TTT
10298567 AAAAT-TTTTTTT
1 AAAATATTTTTTT
10298579 AA
1 AA
10298581 TATAATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.24
13 15 0.60
14 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATATTTTTTT
Found at i:10300441 original size:235 final size:236
Alignment explanation
Indices: 10299993--10300420 Score: 517
Period size: 236 Copynumber: 1.8 Consensus size: 236
10299983 ACTAAATAGC
* * * *
10299993 ATTATGACAATTCTAAATGTAATGAAAAATAAAAACAACCATAAAAATATATTATGGTAATGTAA
1 ATTATGACAATTCTAAACGCAATGAAAAAT-AAAACAACCATAAAAAGATATTATGGTAAAGTAA
* * * * * * **
10300058 ATCATTATATTGGCAACATAAAATTTTAATTAATTATTATTTTGTAAATATTTAAAGAAATTGAT
65 ATAATTATATTGACAACATAAAATTTTAATTAATTATTATTCTATAAATATATAAAAAAAAAGAT
* * * * *
10300123 AGAAATTAAAAAATAAATTGATAAAGTAAATAAGTAAGAACAAATGTAAAATTAGTATTATTTGA
130 AGAAATAAAAAAATAAATTGATAAAGTAAATAAGT-AGAACAAACGTAAAATTAATATCATCTGA
10300188 CTTAAAATAGGTAAGAAATGTCATAACACATTAAAAAAAAAAA
194 CTTAAAATAGGTAAGAAATGTCATAACACATTAAAAAAAAAAA
* * *
10300231 ATTATGACAAATT-TAAACGCAATGGAAAAT-AAATAACCATAAAAAGATATTATTGTAAAGTAA
1 ATTATGAC-AATTCTAAACGCAATGAAAAATAAAACAACCATAAAAAGATATTATGGTAAAGTAA
* * * *
10300294 ATAATTATGTTGACAAC-TTAAATTTTAATTAATTATTGTTCCTATAAATATATAAAAAAAAAGC
65 ATAATTATATTGACAACATAAAATTTTAATTAATTATTATT-CTATAAATATATAAAAAAAAAGA
* *
10300358 T-GAAAATAAAAAACATAAATTTGATAATGTAAATAAGT-G-AGAAACGTAAAATTAATATCATC
129 TAG-AAATAAAAAA-ATAAA-TTGATAAAGTAAATAAGTAGAACAAACGTAAAATTAATATCATC
10300420 T
191 T
10300421 AGTGTGAAAT
Statistics
Matches: 159, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
235 41 0.26
236 70 0.44
237 5 0.03
238 39 0.25
239 4 0.03
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (236 bp):
ATTATGACAATTCTAAACGCAATGAAAAATAAAACAACCATAAAAAGATATTATGGTAAAGTAAA
TAATTATATTGACAACATAAAATTTTAATTAATTATTATTCTATAAATATATAAAAAAAAAGATA
GAAATAAAAAAATAAATTGATAAAGTAAATAAGTAGAACAAACGTAAAATTAATATCATCTGACT
TAAAATAGGTAAGAAATGTCATAACACATTAAAAAAAAAAA
Found at i:10300814 original size:23 final size:22
Alignment explanation
Indices: 10300788--10300847 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 22
10300778 TGGTAATGCT
10300788 ATTTTATTAGTAATTACCGATAG
1 ATTTTATTAGTAATTACCGAT-G
* * *
10300811 ATTTCAATTGGTAATTATCGATG
1 ATTT-TATTAGTAATTACCGATG
* *
10300834 AATTTAATAGTAAT
1 ATTTTATTAGTAAT
10300848 GGATTTTCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
24 14 0.48
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (22 bp):
ATTTTATTAGTAATTACCGATG
Found at i:10300967 original size:20 final size:20
Alignment explanation
Indices: 10300917--10300968 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
10300907 TTTTTTTTTT
* *
10300917 TTGGTAATAATAAAATTTCA
1 TTGGTAATAATAAAAATCCA
* * *
10300937 TTAGTAGTAATAAAAATCCG
1 TTGGTAATAATAAAAATCCA
10300957 TTGGTAATAATA
1 TTGGTAATAATA
10300969 TTTGTAAATC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (20 bp):
TTGGTAATAATAAAAATCCA
Found at i:10303086 original size:17 final size:17
Alignment explanation
Indices: 10303063--10303109 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
10303053 CTAAATTATC
10303063 AAATATATAAAT-CTTA
1 AAATATATAAATACTTA
* *
10303079 ATAATATATGAATTACTTC
1 A-AATATAT-AAATACTTA
10303098 AAATATATAAAT
1 AAATATATAAAT
10303110 TATTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 10 0.40
19 4 0.16
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATATATAAATACTTA
Found at i:10303104 original size:18 final size:18
Alignment explanation
Indices: 10303061--10303118 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
10303051 CACTAAATTA
10303061 TCAAATATATAAA-T-CT
1 TCAAATATATAAATTACT
* *
10303077 TAATAATATATGAATTACT
1 TCA-AATATATAAATTACT
*
10303096 TCAAATATATAAATTATT
1 TCAAATATATAAATTACT
10303114 TCAAA
1 TCAAA
10303119 ACAAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.06
17 9 0.26
18 19 0.56
19 4 0.12
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (18 bp):
TCAAATATATAAATTACT
Found at i:10303427 original size:32 final size:31
Alignment explanation
Indices: 10303367--10303428 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
10303357 AAACATTCCC
* *
10303367 AACAATACTAAAAATAAATCTAAAAAAAATT
1 AACAATACTAAAAAGAAATCCAAAAAAAATT
* *
10303398 AACAATACTCAACAAGAAATCCAACAAAAAT
1 AACAATACT-AAAAAGAAATCCAAAAAAAAT
10303429 ATATAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.18
Consensus pattern (31 bp):
AACAATACTAAAAAGAAATCCAAAAAAAATT
Found at i:10304922 original size:13 final size:14
Alignment explanation
Indices: 10304884--10304923 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
10304874 ATATTATATG
10304884 AAATA-AAAAAAAT
1 AAATACAAAAAAAT
10304897 AAATACCAAAAAAAT
1 AAATA-CAAAAAAAT
10304912 -AATACAAAAAAA
1 AAATACAAAAAAA
10304924 AGAAGAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.52
14 4 0.16
15 8 0.32
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (14 bp):
AAATACAAAAAAAT
Found at i:10304924 original size:15 final size:15
Alignment explanation
Indices: 10304888--10304924 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
10304878 TATATGAAAT
10304888 AAAAAAAATAAATAC
1 AAAAAAAATAAATAC
*
10304903 CAAAAAAAT-AATAC
1 AAAAAAAATAAATAC
10304917 AAAAAAAA
1 AAAAAAAA
10304925 GAAGAACAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAAATAAATAC
Found at i:10306353 original size:16 final size:16
Alignment explanation
Indices: 10306334--10306447 Score: 64
Period size: 16 Copynumber: 7.3 Consensus size: 16
10306324 TTAGGTTTCT
10306334 AAAACTCCTAAAATCC
1 AAAACTCCTAAAATCC
*
10306350 AAAACCTCTTAAAAT-C
1 AAAA-CTCCTAAAATCC
* *
10306366 TAAAC-CCGTAAAAATCT
1 AAAACTCC-T-AAAATCC
*
10306383 AAAA-TCCCTTAAATCC
1 AAAACT-CCTAAAATCC
* *
10306399 -AAACCCCCAAAATCC
1 AAAACTCCTAAAATCC
*
10306414 AAAA-TCTTTAAAATCC
1 AAAACTC-CTAAAATCC
10306430 -AAAC-CCTAAAAT-C
1 AAAACTCCTAAAATCC
10306443 AAAAC
1 AAAAC
10306448 CCCAAACCTC
Statistics
Matches: 73, Mismatches: 14, Indels: 24
0.66 0.13 0.22
Matches are distributed among these distances:
13 1 0.01
14 11 0.15
15 18 0.25
16 28 0.38
17 13 0.18
18 2 0.03
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (16 bp):
AAAACTCCTAAAATCC
Found at i:10306418 original size:31 final size:33
Alignment explanation
Indices: 10306343--10306435 Score: 104
Period size: 31 Copynumber: 2.9 Consensus size: 33
10306333 TAAAACTCCT
* *
10306343 AAAATCCAAAA-CCTCTTAAAATCTAAACCCGTA
1 AAAATCCAAAATCC-CTTAAAATCCAAACCCGCA
* *
10306376 AAAATCTAAAATCCCTT-AAATCCAAACCC-CC
1 AAAATCCAAAATCCCTTAAAATCCAAACCCGCA
*
10306407 AAAATCCAAAAT-CTTTAAAATCCAAACCC
1 AAAATCCAAAATCCCTTAAAATCCAAACCC
10306436 TAAAATCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
30 3 0.06
31 23 0.44
32 11 0.21
33 13 0.25
34 2 0.04
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.20
Consensus pattern (33 bp):
AAAATCCAAAATCCCTTAAAATCCAAACCCGCA
Found at i:10306461 original size:21 final size:21
Alignment explanation
Indices: 10306428--10306470 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10306418 TCTTTAAAAT
*
10306428 CCAAACCCTAAAATCAAAACC
1 CCAAACCCTAAAACCAAAACC
*
10306449 CCAAA-CCTCAAAACCTAAACC
1 CCAAACCCT-AAAACCAAAACC
10306470 C
1 C
10306471 TAAAATCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.49, C:0.42, G:0.00, T:0.09
Consensus pattern (21 bp):
CCAAACCCTAAAACCAAAACC
Found at i:10313049 original size:9 final size:9
Alignment explanation
Indices: 10313037--10313093 Score: 53
Period size: 10 Copynumber: 5.9 Consensus size: 9
10313027 ATGGGGGCAT
*
10313037 AAAAAAAAT
1 AAAAAAAAG
10313046 AAAAACAACA-
1 AAAAA-AA-AG
10313056 AAAAAAAGAG
1 AAAAAAA-AG
10313066 AAAGAAAAAG
1 AAA-AAAAAG
10313076 AAAAAAAAG
1 AAAAAAAAG
10313085 AAGAAAAAA
1 AA-AAAAAA
10313094 TTGGTTATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
9 16 0.38
10 21 0.50
11 5 0.12
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:10313079 original size:19 final size:18
Alignment explanation
Indices: 10313056--10313092 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
10313046 AAAAACAACA
10313056 AAAAAAAGAGAAAGAAAAAG
1 AAAAAAA-AG-AAGAAAAAG
10313076 AAAAAAAAGAAGAAAAA
1 AAAAAAAAGAAGAAAAA
10313093 ATTGGTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAGAAAAAG
Found at i:10314403 original size:33 final size:33
Alignment explanation
Indices: 10314360--10314943 Score: 711
Period size: 33 Copynumber: 17.8 Consensus size: 33
10314350 ATAAAATAAA
*
10314360 ATTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
10314393 TTTTAAGCCCAGTTTATCTGGCC-TCAAAT-AAGG
1 ATTTAAGCCCAGTTTATCTGGCCATC-AATGAA-G
* * * *
10314426 TTTTAAGCCCAGTTTATCTCGCCTTCAAT-AAA
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
10314458 ATTTAAG-CCAATTTATCTGGCCATCAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
10314490 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
10314523 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
10314556 ATTTAAGCCCAGTTTATCTGGCCATTAATGAGG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * * *
10314589 TTTTAAGCCTAGTTTATCTAGCCTTCAAT-AAA
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
10314621 ATTTAAACCCAGTTTATCTGGCCATCAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
10314654 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
10314687 TTTTAAGCCCAGTTTATTTGGCCATCAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * *
10314720 CTTTAAGCTCAGTTTATCTGACCATTAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
10314753 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
10314786 TTTTAAGCCCAGCTTT-TCTGGTCATCAATGAGG
1 ATTTAAGCCCAG-TTTATCTGGCCATCAATGAAG
* * *
10314819 TTTTAAACCTAGTTTATCTGGCC-TCAAATGAAG
1 ATTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
*
10314852 ATTTAAGCCCAGTTTATCTGGCC-TCAAATGAAA
1 ATTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
* * *
10314885 ATTTAAGCCCAGTTTAGCTGGCCTTCAAT-AAA
1 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
** *
10314917 ATTTAAGCTAAGTTTATTTGGCC-TCAA
1 ATTTAAGCCCAGTTTATCTGGCCATCAA
10314944 AAGAAGTTTT
Statistics
Matches: 486, Mismatches: 55, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
31 22 0.05
32 69 0.14
33 388 0.80
34 7 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (33 bp):
ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
Found at i:10315739 original size:110 final size:110
Alignment explanation
Indices: 10315537--10315862 Score: 406
Period size: 110 Copynumber: 3.0 Consensus size: 110
10315527 ACTTTCGAGA
* * * *
10315537 ATAAATTCGATTCGCGGTGTTGT-CCGATCGATTCTTTAT-TTCTAACTTACGGTGTTATCCCAG
1 ATAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAG
* * * *
10315600 TTAATTCTATAAGACCTCCAGGCATGATTTCTAAGATCTCCGGGC
66 TCAATTCTGTAAGACCTCCAGGCACGATTTCTAAGACCTCCGGGC
* *
10315645 ATAAATTCGATTCGCGGTGTTATCCCTATCAATTCTTTATCTTTTGACTTGCGGTGTTATCCCAG
1 ATAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAG
*
10315710 TCAATTTTGTAAGACCTCC-GAGCACGATTTCTAAGACCTCCGGGC
66 TCAATTCTGTAAGACCTCCAG-GCACGATTTCTAAGACCTCCGGGC
* * * * * * *
10315755 ATAATTTCGATTCGTGGTGTTATCTCGATCGATTCTCTATCTTTCGACTTGCGATGTTATTCCAG
1 ATAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAG
* * * * * *
10315820 TCGATTCTGTAAGACCTTCGGGTATGATTTTTAAGACCTCCGG
66 TCAATTCTGTAAGACCTCCAGGCACGATTTCTAAGACCTCCGG
10315863 ACATGATTCT
Statistics
Matches: 188, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
108 22 0.12
109 15 0.08
110 150 0.80
111 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (110 bp):
ATAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAG
TCAATTCTGTAAGACCTCCAGGCACGATTTCTAAGACCTCCGGGC
Found at i:10315761 original size:22 final size:22
Alignment explanation
Indices: 10315719--10315762 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10315709 GTCAATTTTG
*
10315719 TAAGACCTCCGAGCACGATTTC
1 TAAGACCTCCGAGCACAATTTC
* *
10315741 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGAGCACAATTTC
10315763 GATTCGTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (22 bp):
TAAGACCTCCGAGCACAATTTC
Found at i:10315854 original size:22 final size:22
Alignment explanation
Indices: 10315829--10315905 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
10315819 GTCGATTCTG
10315829 TAAGACCTTCGGGTATGATTTT
1 TAAGACCTTCGGGTATGATTTT
* ** *
10315851 TAAGACCTCCGGACATGATTCT
1 TAAGACCTTCGGGTATGATTTT
* ** *
10315873 TAAGA-GTTATAGGTATGATTTC
1 TAAGACCTT-CGGGTATGATTTT
10315895 TAAGACCTTCG
1 TAAGACCTTCG
10315906 AGCATAAATT
Statistics
Matches: 38, Mismatches: 15, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
21 1 0.03
22 35 0.92
23 2 0.05
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (22 bp):
TAAGACCTTCGGGTATGATTTT
Found at i:10316140 original size:12 final size:12
Alignment explanation
Indices: 10316125--10316186 Score: 65
Period size: 13 Copynumber: 5.1 Consensus size: 12
10316115 ATATTATACG
10316125 AAATACAAAAAA
1 AAATACAAAAAA
10316137 AAATACCAAAAAA
1 AAATA-CAAAAAA
10316150 ATAATACAAAAAA
1 A-AATACAAAAAA
**
10316163 AAGA-ACAGCAAA
1 AA-ATACAAAAAA
10316175 AAATA-AAAAAA
1 AAATACAAAAAA
10316186 A
1 A
10316187 TCGAAGATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
11 6 0.14
12 15 0.36
13 17 0.40
14 4 0.10
ACGTcount: A:0.79, C:0.10, G:0.03, T:0.08
Consensus pattern (12 bp):
AAATACAAAAAA
Found at i:10316150 original size:14 final size:13
Alignment explanation
Indices: 10316125--10316164 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
10316115 ATATTATACG
10316125 AAATAC-AAAAAA
1 AAATACAAAAAAA
10316137 AAATACCAAAAAAA
1 AAATA-CAAAAAAA
*
10316151 TAATACAAAAAAA
1 AAATACAAAAAAA
10316164 A
1 A
10316165 GAACAGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.21
13 9 0.38
14 10 0.42
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (13 bp):
AAATACAAAAAAA
Found at i:10317090 original size:12 final size:12
Alignment explanation
Indices: 10317073--10317103 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
10317063 CAGACCATCA
10317073 TTGACCGGATCG
1 TTGACCGGATCG
10317085 TTGACCGGATCG
1 TTGACCGGATCG
10317097 TTGACCG
1 TTGACCG
10317104 ATCCGGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (12 bp):
TTGACCGGATCG
Found at i:10317638 original size:15 final size:15
Alignment explanation
Indices: 10317562--10317708 Score: 100
Period size: 16 Copynumber: 9.5 Consensus size: 15
10317552 TAGGTTTTTA
*
10317562 AAACTCCTAAAATCC
1 AAACCCCTAAAATCC
* *
10317577 AAAACCTCTTAAAATCT
1 -AAACC-CCTAAAATCC
* *
10317594 AAACCCGTAAAAATCTA
1 AAACCCCT-AAAATC-C
* *
10317611 AAATCCCTTAAATCC
1 AAACCCCTAAAATCC
*
10317626 AAACCCCTAAAATTCG
1 AAACCCCTAAAA-TCC
10317642 AAACCCAC-AAAATCC
1 AAACCC-CTAAAATCC
*
10317657 AAACCCCCAAAATCC
1 AAACCCCTAAAATCC
* **
10317672 AAAATCTTTAAAATCC
1 -AAACCCCTAAAATCC
*
10317688 AAA-CCCTAAAATCA
1 AAACCCCTAAAATCC
10317702 AAACCCC
1 AAACCCC
10317709 AAACCATAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
14 12 0.12
15 33 0.32
16 43 0.42
17 15 0.15
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.18
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:10317655 original size:31 final size:30
Alignment explanation
Indices: 10317562--10317711 Score: 106
Period size: 31 Copynumber: 4.9 Consensus size: 30
10317552 TAGGTTTTTA
* * * *
10317562 AAACTCCTAAAATCCAAAACCTCTTAAAATCT
1 AAACCCCTAAAATTCAAAACC-C-CAAAATCC
* * **
10317594 AAACCCGTAAAAATCTAAAATCCCTTAAATCC
1 AAACCCCTAAAATTC-AAAA-CCCCAAAATCC
*
10317626 AAACCCCTAAAATTCGAAACCCACAAAATCC
1 AAACCCCTAAAATTCAAAACCC-CAAAATCC
* * ***
10317657 AAACCCCCAAAATCCAAAATCTTTAAAATCC
1 AAACCCCTAAAATTCAAAA-CCCCAAAATCC
10317688 AAA-CCCTAAAA-TCAAAACCCCAAA
1 AAACCCCTAAAATTCAAAACCCCAAA
10317712 CCATAAAACC
Statistics
Matches: 92, Mismatches: 22, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
28 4 0.04
29 5 0.05
30 10 0.11
31 35 0.38
32 31 0.34
33 5 0.05
34 2 0.02
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.18
Consensus pattern (30 bp):
AAACCCCTAAAATTCAAAACCCCAAAATCC
Found at i:10317712 original size:21 final size:21
Alignment explanation
Indices: 10317686--10317728 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10317676 TCTTTAAAAT
* *
10317686 CCAAACCCTAAAATCAAAACC
1 CCAAACCATAAAACCAAAACC
*
10317707 CCAAACCATAAAACCTAAACC
1 CCAAACCATAAAACCAAAACC
10317728 C
1 C
10317729 TAAAATCTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (21 bp):
CCAAACCATAAAACCAAAACC
Found at i:10319753 original size:19 final size:19
Alignment explanation
Indices: 10319729--10319772 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10319719 TTCTCATTTT
* *
10319729 TTATTAGCTATTTTTAATA
1 TTATTAACTAATTTTAATA
* *
10319748 TTATTAATTAATTTTATTA
1 TTATTAACTAATTTTAATA
10319767 TTATTA
1 TTATTA
10319773 TTTTATAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATTAACTAATTTTAATA
Found at i:10333380 original size:18 final size:18
Alignment explanation
Indices: 10333353--10333398 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
10333343 CAAATGGTCA
*
10333353 TATGATGGCTAGACAAAT
1 TATGAGGGCTAGACAAAT
10333371 TATGAGGGCTAGACAAAT
1 TATGAGGGCTAGACAAAT
10333389 TATGAGGGCT
1 TATGAGGGCT
10333399 GGATACCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (18 bp):
TATGAGGGCTAGACAAAT
Found at i:10334801 original size:48 final size:49
Alignment explanation
Indices: 10334677--10334813 Score: 190
Period size: 49 Copynumber: 2.8 Consensus size: 49
10334667 GATTTGAAGA
* * *
10334677 ATAGATGAAATTTTTAAAGTCGTTGAACCTCTGCTGAGAGGAGCCCTTTT
1 ATAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTT
10334727 -TAAGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTT
1 AT-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
* *
10334774 ATAGATGAGATTTTTAAAGTTGTTGAGCATCTGCTAAGAG
1 ATAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
10334814 AAGTTTTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
47 13 0.16
48 28 0.35
49 31 0.39
50 7 0.09
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (49 bp):
ATAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
Found at i:10334835 original size:48 final size:48
Alignment explanation
Indices: 10334677--10334821 Score: 159
Period size: 48 Copynumber: 3.0 Consensus size: 48
10334667 GATTTGAAGA
* * * * * *
10334677 ATAGATGAAATTTTTAAAGTCGTTGAACCTCTGCTGAGAGGAGCCCTTTT
1 ATAGATGAGATTTTTAAAGTTGTTGAGCATCTGCTAAGAGAAG--CTTTT
* * *
10334727 -TAAGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
1 AT-AGATGAGATTTTTAAAGTTGTTGAGCATCTGCTAAGAGAAGCTTTT
*
10334774 ATAGATGAGATTTTTAAAGTTGTTGAGCATCTGCTAAGAGAAGTTTTT
1 ATAGATGAGATTTTTAAAGTTGTTGAGCATCTGCTAAGAGAAGCTTTT
10334822 TTTTTTTAGA
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
47 13 0.15
48 34 0.40
49 31 0.36
50 7 0.08
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (48 bp):
ATAGATGAGATTTTTAAAGTTGTTGAGCATCTGCTAAGAGAAGCTTTT
Found at i:10335129 original size:31 final size:26
Alignment explanation
Indices: 10335111--10335184 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
10335101 ATAAAAATTA
10335111 AACAAAATATAAAATACAAAAAAAAT
1 AACAAAATATAAAATACAAAAAAAAT
* *
10335137 AATAAAATATAAAATACCAAAAAAAT
1 AACAAAATATAAAATACAAAAAAAAT
*
10335163 ACCAAAA-ATAAAATA-AAAAAAA
1 AACAAAATATAAAATACAAAAAAA
10335185 GGATGGCAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 6 0.14
25 8 0.19
26 29 0.67
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (26 bp):
AACAAAATATAAAATACAAAAAAAAT
Found at i:10335144 original size:19 final size:18
Alignment explanation
Indices: 10335114--10335150 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10335104 AAAATTAAAC
10335114 AAAATATAAAATACAAAA
1 AAAATATAAAATACAAAA
*
10335132 AAAATAATAAAATATAAAA
1 AAAAT-ATAAAATACAAAA
10335151 TACCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATATAAAATACAAAA
Found at i:10336911 original size:19 final size:19
Alignment explanation
Indices: 10336887--10336930 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10336877 TTCTCATTTT
* *
10336887 TTATTACCTATTTTTAATA
1 TTATTAACTAATTTTAATA
*
10336906 TTATTAATTAATTTTAATA
1 TTATTAACTAATTTTAATA
10336925 TTATTA
1 TTATTA
10336931 TTATTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATTAACTAATTTTAATA
Found at i:10338243 original size:15 final size:16
Alignment explanation
Indices: 10338225--10338279 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
10338215 TATTTATTTT
10338225 TTTTTGT-TTTTGGTA
1 TTTTTGTATTTTGGTA
10338240 -TTTTGTATTTTGGTA
1 TTTTTGTATTTTGGTA
* *
10338255 TTTTTTTTATATTTTGTA
1 -TTTTTGTAT-TTTGGTA
10338273 TTTTTGT
1 TTTTTGT
10338280 TTAATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
17 13 0.39
18 6 0.18
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.75
Consensus pattern (16 bp):
TTTTTGTATTTTGGTA
Found at i:10338249 original size:26 final size:24
Alignment explanation
Indices: 10338219--10338334 Score: 67
Period size: 26 Copynumber: 4.6 Consensus size: 24
10338209 CTTTTCTATT
* *
10338219 TATTTTTTTTTGTTTTTGGTATTTTG
1 TATTTTTATTT-TTTTT-ATATTTTG
10338245 TATTTTGGTATTTTTTTTATATTTTG
1 TATTTT--TATTTTTTTTATATTTTG
* *
10338271 TATTTTTGTTTAATTTTTAT-TATTG
1 TATTTTTATTT--TTTTTATATTTTG
* * *
10338296 TATTTAATATTATTATTAT-TATTT-
1 TATTT-TTATTTTTTTTATAT-TTTG
10338320 TATTTATTATTTTTT
1 TATTT-TTATTTTTT
10338335 ATGACGGGAC
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
24 23 0.32
25 11 0.15
26 29 0.40
27 5 0.07
28 4 0.06
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (24 bp):
TATTTTTATTTTTTTTATATTTTG
Found at i:10338277 original size:8 final size:8
Alignment explanation
Indices: 10338225--10338279 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
10338215 TATTTATTTT
10338225 TTTTTGT-
1 TTTTTGTA
*
10338232 TTTTGGTA
1 TTTTTGTA
10338240 -TTTTGTA
1 TTTTTGTA
*
10338247 TTTTGGTA
1 TTTTTGTA
*
10338255 TTTTTTTTA
1 -TTTTTGTA
10338264 TATTTTGTA
1 T-TTTTGTA
10338273 TTTTTGT
1 TTTTTGT
10338280 TTAATTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
7 12 0.32
8 13 0.34
9 13 0.34
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.75
Consensus pattern (8 bp):
TTTTTGTA
Found at i:10338286 original size:18 final size:19
Alignment explanation
Indices: 10338245--10338296 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
10338235 TGGTATTTTG
10338245 TATTTTGGTATTTTT-TTTA
1 TATTTT-GTATTTTTGTTTA
10338264 TATTTTGTATTTTTGTTTA
1 TATTTTGTATTTTTGTTTA
*
10338283 -ATTTT-TATTATTGT
1 TATTTTGTATTTTTGT
10338297 ATTTAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 8 0.26
18 13 0.42
19 10 0.32
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (19 bp):
TATTTTGTATTTTTGTTTA
Found at i:10338313 original size:21 final size:18
Alignment explanation
Indices: 10338279--10338330 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
10338269 TGTATTTTTG
10338279 TTTAATTT-TTATTATTGTA
1 TTTAATTTATTATTA-T-TA
10338298 TTTAATATTATTATTATTA
1 TTTAAT-TTATTATTATTA
*
10338317 TTTTATTTATTATT
1 TTTAATTTATTATT
10338331 TTTTATGACG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.27
19 13 0.43
20 3 0.10
21 6 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTAATTTATTATTATTA
Found at i:10338331 original size:12 final size:12
Alignment explanation
Indices: 10338286--10338332 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
10338276 TTGTTTAATT
*
10338286 TTTATTATTGTA
1 TTTATTATTTTA
*
10338298 TTTAATATTATTA
1 TTTATTATT-TTA
10338311 -TTATTATTTTA
1 TTTATTATTTTA
10338322 TTTATTATTTT
1 TTTATTATTTT
10338333 TTATGACGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 3 0.10
12 25 0.83
13 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:10341799 original size:17 final size:17
Alignment explanation
Indices: 10341777--10341839 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
10341767 GAATTGAATT
10341777 TTTATGTTTATCACATG
1 TTTATGTTTATCACATG
* *
10341794 TTTATGTTTGTTCTCACTTG
1 TTTATG--T-TTATCACATG
10341814 TTTATGTTTATCACATG
1 TTTATGTTTATCACATG
10341831 TTTATGTTT
1 TTTATGTTT
10341840 GTTCTCACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 23 0.59
18 1 0.03
19 1 0.03
20 14 0.36
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.59
Consensus pattern (17 bp):
TTTATGTTTATCACATG
Found at i:10341815 original size:20 final size:20
Alignment explanation
Indices: 10341787--10341847 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
10341777 TTTATGTTTA
10341787 TCACATGTTTATGTTTGTTC
1 TCACATGTTTATGTTTGTTC
* *
10341807 TCACTTGTTTATG--T-TTA
1 TCACATGTTTATGTTTGTTC
10341824 TCACATGTTTATGTTTGTTC
1 TCACATGTTTATGTTTGTTC
10341844 TCAC
1 TCAC
10341848 TAATTCGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 14 0.41
18 1 0.03
19 1 0.03
20 18 0.53
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.54
Consensus pattern (20 bp):
TCACATGTTTATGTTTGTTC
Found at i:10341827 original size:37 final size:37
Alignment explanation
Indices: 10341777--10341848 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
10341767 GAATTGAATT
10341777 TTTATGTTTATCACATGTTTATGTTTGTTCTCACTTG
1 TTTATGTTTATCACATGTTTATGTTTGTTCTCACTTG
10341814 TTTATGTTTATCACATGTTTATGTTTGTTCTCACT
1 TTTATGTTTATCACATGTTTATGTTTGTTCTCACT
10341849 AATTCGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.12, T:0.57
Consensus pattern (37 bp):
TTTATGTTTATCACATGTTTATGTTTGTTCTCACTTG
Found at i:10352046 original size:32 final size:32
Alignment explanation
Indices: 10352005--10352076 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
10351995 TTTTGTTATG
*
10352005 GGTGAAAAGAGATCATGACGTTATCAAATGAT
1 GGTGAAAAGAGATCATGACGCTATCAAATGAT
*
10352037 GGTGAAAAGAGATCATGATGCTATCAAATGAT
1 GGTGAAAAGAGATCATGACGCTATCAAATGAT
10352069 GGTGAAAA
1 GGTGAAAA
10352077 ATAAATGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (32 bp):
GGTGAAAAGAGATCATGACGCTATCAAATGAT
Found at i:10352362 original size:22 final size:22
Alignment explanation
Indices: 10352320--10352379 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
10352310 ATAAAAGGTA
* *
10352320 GTGATG-ACTTGT-ATGGGTTT
1 GTGATGAACTGGTGATGGATTT
10352340 G-GATGAAACTGGTGATGGATTT
1 GTGATG-AACTGGTGATGGATTT
* *
10352362 GTGTTGAATTGGTGATGG
1 GTGATGAACTGGTGATGG
10352380 TGGTTGTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 5 0.16
22 19 0.59
23 3 0.09
ACGTcount: A:0.20, C:0.03, G:0.38, T:0.38
Consensus pattern (22 bp):
GTGATGAACTGGTGATGGATTT
Found at i:10353680 original size:49 final size:49
Alignment explanation
Indices: 10353627--10353762 Score: 166
Period size: 48 Copynumber: 2.8 Consensus size: 49
10353617 GATCCCCTTT
10353627 AACAAAGGCCAAACAACTTTACAAATCTCATATGAAAAAGCTCCTCCTA
1 AACAAAGGCCAAACAACTTTACAAATCTCATATGAAAAAGCTCCTCCTA
* * * * **
10353676 AAC-AAGGCCAAACAACTGTACTAATCTCATTTGAAAATGCTTTTCCTA
1 AACAAAGGCCAAACAACTTTACAAATCTCATATGAAAAAGCTCCTCCTA
* * * * *
10353724 AATAGAGACCAAACAACTTTAAAAATCTCATCTGAAAAA
1 AACAAAGGCCAAACAACTTTACAAATCTCATATGAAAAA
10353763 ACACCTCATA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 41 0.57
49 31 0.43
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.24
Consensus pattern (49 bp):
AACAAAGGCCAAACAACTTTACAAATCTCATATGAAAAAGCTCCTCCTA
Found at i:10353775 original size:49 final size:48
Alignment explanation
Indices: 10353634--10353804 Score: 164
Period size: 48 Copynumber: 3.5 Consensus size: 48
10353624 TTTAACAAAG
* * *
10353634 GCCAAACAACTTTACAAATCTCATATGAAAAAGCTCCTCCTAAACA-A
1 GCCAAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCCTAAATAGA
* ** * * **
10353681 GGCCAAACAACTGTACTAATCTCATTTGAAAATGCTTTTCCTAAATAGA
1 -GCCAAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCCTAAATAGA
* * * *
10353730 GACCAAACAACTTTAAAAATCTCATCTGAAAAAACACCTCATAAATAGT
1 G-CCAAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCCTAAATAGA
** *
10353779 GGTAAACAACTTTAAAAATCTTATCT
1 GCCAAACAACTTTAAAAATCTCATCT
10353805 TTTTCATTTG
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
48 62 0.62
49 38 0.38
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.26
Consensus pattern (48 bp):
GCCAAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCCTAAATAGA
Found at i:10354199 original size:26 final size:27
Alignment explanation
Indices: 10354170--10354231 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
10354160 CTACTTCAAT
*
10354170 GATGTAAATGCAGATA-ACTT-TACCAA
1 GATGTAAATGCAAATATA-TTCTACCAA
* *
10354196 GATGCAAATGTAAATATATTCTACCAA
1 GATGTAAATGCAAATATATTCTACCAA
10354223 GATGTAAAT
1 GATGTAAAT
10354232 CTAACCATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (27 bp):
GATGTAAATGCAAATATATTCTACCAA
Found at i:10356089 original size:19 final size:19
Alignment explanation
Indices: 10356060--10356110 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
10356050 ATTATTCATA
10356060 TATTTTTC-TTTTCTTTTC
1 TATTTTTCTTTTTCTTTTC
10356078 TATTTTTGCTTTTTCTTTTC
1 TATTTTT-CTTTTTCTTTTC
10356098 -ATTTTTCATTTTT
1 TATTTTTC-TTTTT
10356111 TTCTTTCCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.27
19 12 0.40
20 10 0.33
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTTCTTTTTCTTTTC
Found at i:10356093 original size:20 final size:18
Alignment explanation
Indices: 10356060--10356114 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 18
10356050 ATTATTCATA
10356060 TATTTTTCTTTTCTTTTC
1 TATTTTTCTTTTCTTTTC
10356078 TATTTTTGCTTTTTCTTTTC
1 TATTTTT-C-TTTTCTTTTC
*
10356098 -ATTTTTCATTT-TTTTC
1 TATTTTTCTTTTCTTTTC
10356114 T
1 T
10356115 TTCCCATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 5 0.15
17 3 0.09
18 8 0.24
19 7 0.21
20 10 0.30
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (18 bp):
TATTTTTCTTTTCTTTTC
Found at i:10356117 original size:25 final size:24
Alignment explanation
Indices: 10356062--10356116 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 24
10356052 TATTCATATA
10356062 TTTTTCTTTTCTTTTCTATTTTTGC
1 TTTTTCTTTTCTTTTCTATTTTT-C
*
10356087 TTTTTCTTTTCATTTTTCATTTTTTTC
1 TTTTTCTTTTC--TTTTC-TATTTTTC
10356114 TTT
1 TTT
10356117 CCCATTTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 11 0.42
27 9 0.35
28 6 0.23
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTTCTTTTCTATTTTTC
Found at i:10362183 original size:26 final size:26
Alignment explanation
Indices: 10362154--10362230 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
10362144 CCCAATTCAA
10362154 CCCATTGATGTCCGAGCCTGATTAGG
1 CCCATTGATGTCCGAGCCTGATTAGG
* * * * *
10362180 CCCATAGATGTTCGAGCTTGATCAAG
1 CCCATTGATGTCCGAGCCTGATTAGG
*
10362206 CCCATTGACGTCCGAG-CTCGATTAG
1 CCCATTGATGTCCGAGCCT-GATTAG
10362231 ATCCATTAGC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
25 1 0.03
26 38 0.97
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (26 bp):
CCCATTGATGTCCGAGCCTGATTAGG
Found at i:10362323 original size:3 final size:3
Alignment explanation
Indices: 10362310--10362342 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10362300 TATTATATCA
*
10362310 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10362343 CGCTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10362804 original size:10 final size:10
Alignment explanation
Indices: 10362789--10362845 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
10362779 CTATCTGAGA
10362789 ATTTTTTTGG
1 ATTTTTTTGG
**
10362799 ATTTTTTAAG
1 ATTTTTTTGG
*
10362809 ATTTTGTTTTGA
1 A-TTT-TTTTGG
*
10362821 ATTTTTCTGG
1 ATTTTTTTGG
10362831 ATTTTTTTGG
1 ATTTTTTTGG
*
10362841 GTTTT
1 ATTTT
10362846 GGGAAGAACA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
10 26 0.72
11 6 0.17
12 4 0.11
ACGTcount: A:0.14, C:0.02, G:0.18, T:0.67
Consensus pattern (10 bp):
ATTTTTTTGG
Found at i:10363422 original size:20 final size:20
Alignment explanation
Indices: 10363381--10363435 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
10363371 AAAAAGTGAT
*
10363381 AAATAAAAAAA-AT-CTTTC
1 AAATAAAAAAATATATTTTC
10363399 -AATAAAAAAATATATTTTC
1 AAATAAAAAAATATATTTTC
10363418 AAATAAAAAAATA-ATTTT
1 AAATAAAAAAATATATTTT
10363436 TATCTTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 10 0.30
18 2 0.06
19 9 0.27
20 12 0.36
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAAAAAATATATTTTC
Found at i:10372786 original size:18 final size:18
Alignment explanation
Indices: 10372763--10372799 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10372753 AGATTCATGC
10372763 TCCGTTCAGTGCTTTACA
1 TCCGTTCAGTGCTTTACA
10372781 TCCGTTCAGTGCTTTACA
1 TCCGTTCAGTGCTTTACA
10372799 T
1 T
10372800 TTCATAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (18 bp):
TCCGTTCAGTGCTTTACA
Found at i:10373752 original size:10 final size:10
Alignment explanation
Indices: 10373732--10373786 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
10373722 CTTAAATCAC
10373732 AAAAATAAAA
1 AAAAATAAAA
10373742 AAAAA-ATAAA
1 AAAAATA-AAA
* *
10373752 AAAGATAATA
1 AAAAATAAAA
10373762 AAAAATAAAA
1 AAAAATAAAA
*
10373772 AAAACTAAAA
1 AAAAATAAAA
10373782 AAAAA
1 AAAAA
10373787 AAAGGGTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
9 1 0.03
10 35 0.95
11 1 0.03
ACGTcount: A:0.85, C:0.02, G:0.02, T:0.11
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:10373764 original size:19 final size:18
Alignment explanation
Indices: 10373732--10373790 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
10373722 CTTAAATCAC
* *
10373732 AAAAATAAAAAAAAAATA
1 AAAAAGAAATAAAAAATA
10373750 AAAAAGATAATAAAAAATA
1 AAAAAGA-AATAAAAAATA
*
10373769 AAAAA-AACTAAAAAA-A
1 AAAAAGAAATAAAAAATA
10373785 AAAAAG
1 AAAAAG
10373791 GGTTCAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.17
17 8 0.22
18 7 0.19
19 15 0.42
ACGTcount: A:0.85, C:0.02, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAAAGAAATAAAAAATA
Found at i:10374389 original size:41 final size:41
Alignment explanation
Indices: 10374337--10374414 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
10374327 TAAAGATAAA
*
10374337 TATTCAGGTTGATGAAAGATGGTTTATTTGCTAAAGATGTG
1 TATTCAGGTTGATGAAAGATGGTTTATTTGCCAAAGATGTG
* ** *
10374378 TATTCATGTTGATGAAATTTGGTTTTTTTGCCAAAGA
1 TATTCAGGTTGATGAAAGATGGTTTATTTGCCAAAGA
10374415 CATGGATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.42
Consensus pattern (41 bp):
TATTCAGGTTGATGAAAGATGGTTTATTTGCCAAAGATGTG
Found at i:10374424 original size:41 final size:41
Alignment explanation
Indices: 10374338--10374424 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
10374328 AAAGATAAAT
* ** *
10374338 ATTCAGGTTGATGAAAGATGGTTTATTTGCTAAAGATGTGT
1 ATTCAGGTTGATGAAAGATGGTTTATTTGCCAAAGACATGG
* ** *
10374379 ATTCATGTTGATGAAATTTGGTTTTTTTGCCAAAGACATGG
1 ATTCAGGTTGATGAAAGATGGTTTATTTGCCAAAGACATGG
10374420 ATTCA
1 ATTCA
10374425 AGATGGTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (41 bp):
ATTCAGGTTGATGAAAGATGGTTTATTTGCCAAAGACATGG
Found at i:10374778 original size:89 final size:88
Alignment explanation
Indices: 10374620--10375312 Score: 447
Period size: 89 Copynumber: 7.8 Consensus size: 88
10374610 ATCATTCTTT
* * * * * * ** *
10374620 ATGATTCGTGGTTTCATCCCGATCATTTATTTTTTACTTCGACTCAATCCTAATCGCTTTATTTT
1 ATGATTAGTGGTTTCATCTCGATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATTTT
* *
10374685 GACTCGTGATTTTATACCAATCGC
66 GACTCGTGATTTCAT-CCAATCAC
* * *
10374709 ATTATTTGTGGTTTCATCTTGATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATTTT
1 ATGATTAGTGGTTTCATCTCGATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATTTT
* * * *
10374774 GACTCGAGATTTTATCCTGATCAT
66 GACTCGTGATTTCATCC-AATCAC
* * * * * *
10374798 ATGATTCA-TAGTTTCATCTCGATCATTTACTTTTGACCTCAACTCGATCCAGATCA-TTTCTTA
1 ATGATT-AGTGGTTTCATCTCGATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATTT
* *
10374861 TGATTTGTGATTTCATCCCAATCAC
65 TGACTCGTGATTTCAT-CCAATCAC
* * * * * *
10374886 ATGATTAGTGGTTTCATC-CTGATCATTTACTTTCGATCTCGACTCGGTCTTAGTCATTTTATTT
1 ATGATTAGTGGTTTCATCTC-GATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATTT
* * *
10374950 TGACTGGTGGTTTCATCTTAATCAC
65 TGACTCGTGATTTCATC-CAATCAC
* ** * * *
10374975 AAGATTAGTGGTTTCATCTCGATCATTTACTTTCAACCTTGACTCGATCCTGGTCGCTTTGTTTT
1 ATGATTAGTGGTTTCATCTCGATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATTTT
* ** *
10375040 GAC-C-TATAGTTTTGTCTCAGTCAC
66 GACTCGT-GA-TTTCATC-CAATCAC
* * ** * * * * *
10375064 ATGATTCGTAGTTTTGTC-CAATCATTTACTTTCGATCTCGACTC-AGTCTTGGTCA-TTACATT
1 ATGATTAGTGGTTTCATCTCGATCATTTACTTTTGACCTCGACTCGA-TCCTGGTCACTT-TATT
*
10375126 TTGACTCGTGATTTCATCTCGATCAC
64 TTGACTCGTGATTTCATC-CAATCAC
* * * * * * **
10375152 ATGATTCA-TGGTTTCGTCTCGATCATTTATTTTTTTTACCTCAACTTGGTCCTGGTTGCTTTTA
1 ATGATT-AGTGGTTTCATCTCGATCATTTA--CTTTTGACCTCGACTCGATCCTGGTCAC-TTTA
* * ** *
10375216 TTTTGACTCATGGTTTTGTCCCGATCAC
62 TTTTGACTCGTGATTTCAT-CCAATCAC
* ** * * * **
10375244 ATGATTCA-CGGTTTTGTC-CTGGTCATTTA-TTTTGACCTCGACTCAATCCTAGTTGCTTTATT
1 ATGATT-AGTGGTTTCATCTC-GATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATT
10375306 TTGACTC
64 TTGACTC
10375313 ATGGTTTTAT
Statistics
Matches: 473, Mismatches: 108, Indels: 47
0.75 0.17 0.07
Matches are distributed among these distances:
87 6 0.01
88 141 0.30
89 257 0.54
90 2 0.00
91 17 0.04
92 47 0.10
93 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (88 bp):
ATGATTAGTGGTTTCATCTCGATCATTTACTTTTGACCTCGACTCGATCCTGGTCACTTTATTTT
GACTCGTGATTTCATCCAATCAC
Found at i:10374916 original size:177 final size:178
Alignment explanation
Indices: 10374619--10375185 Score: 443
Period size: 177 Copynumber: 3.2 Consensus size: 178
10374609 GATCATTCTT
* * * * * * * *
10374619 TATGATTCGTGGTTTCATCCCGATCATTTATTTTTTACTTCGACTCAATCCTAATCGCTTTATTT
1 TATGATTCATGGTTTCATCTCGATCATTTACTTTTGACCTCAACTCAATCCTAATCGATTTATTA
* * * * * *
10374684 TGACTCGTGATTTTATACCAATCGCATTATTTGTGGTTTCATCTTGATCATTTACTTTTGACCTC
66 TGACTCGTGATTTCATACCAATCACATGATTAGTGGTTTCATCCTGATCATTTACTTTCGACCTC
* * *
10374749 GACTCGATCCTGGTCACTTTATTTTGACTCGAGATTTTATCCTGATCA
131 GACTCGATCCTAGTCACTTTATTTTGACTCGAGATTTCATCCTAATCA
* * *
10374797 TATGATTCATAGTTTCATCTCGATCATTTACTTTTGACCTCAACTCGATCC-AGATC-ATTTCTT
1 TATGATTCATGGTTTCATCTCGATCATTTACTTTTGACCTCAACTCAATCCTA-ATCGATTTATT
* * * *
10374860 ATGATTTGTGATTTCATCCCAATCACATGATTAGTGGTTTCATCCTGATCATTTACTTTCGATCT
65 ATGACTCGTGATTTCATACCAATCACATGATTAGTGGTTTCATCCTGATCATTTACTTTCGACCT
* * * * * * *
10374925 CGACTCGGTCTTAGTCATTTTATTTTGACTGGTGGTTTCATCTTAATCA
130 CGACTCGATCCTAGTCACTTTATTTTGACTCGAGATTTCATCCTAATCA
* * ** ** * ** * *
10374974 CAAGATT-AGTGGTTTCATCTCGATCATTTACTTTCAACCTTGACTCGATCCTGGTCGCTTTGTT
1 TATGATTCA-TGGTTTCATCTCGATCATTTACTTTTGACCTCAACTCAATCCTAATCGATTTATT
* * ** * * * ** *
10375038 TTGAC-C-TATAGTTTTGT-CTCAGTCACATGATTCGTAGTTTTGTCC-AATCATTTACTTTCGA
65 ATGACTCGT-GA-TTTCATAC-CAATCACATGATTAGTGGTTTCATCCTGATCATTTACTTTCGA
* * * * * *
10375099 TCTCGACTC-AGTCTTGGTCA-TTACATTTTGACTCGTGATTTCAT-CTCGATCA
127 CCTCGACTCGA-TCCTAGTCACTT-TATTTTGACTCGAGATTTCATCCT-AATCA
* * *
10375151 CATGATTCATGGTTTCGTCTCGATCATTTATTTTT
1 TATGATTCATGGTTTCATCTCGATCATTTACTTTT
10375186 TTTACCTCAA
Statistics
Matches: 313, Mismatches: 65, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
176 5 0.02
177 228 0.73
178 80 0.26
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.44
Consensus pattern (178 bp):
TATGATTCATGGTTTCATCTCGATCATTTACTTTTGACCTCAACTCAATCCTAATCGATTTATTA
TGACTCGTGATTTCATACCAATCACATGATTAGTGGTTTCATCCTGATCATTTACTTTCGACCTC
GACTCGATCCTAGTCACTTTATTTTGACTCGAGATTTCATCCTAATCA
Found at i:10375762 original size:3 final size:3
Alignment explanation
Indices: 10375750--10375817 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
10375740 TTTTAAGTTG
10375750 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
10375797 ATT ACT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT
10375818 TTTTGTTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10375826 original size:12 final size:13
Alignment explanation
Indices: 10375811--10375839 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10375801 CTATTATTAT
10375811 TTTTATTTTTT-G
1 TTTTATTTTTTAG
10375823 TTTTATTTTTTAG
1 TTTTATTTTTTAG
10375836 TTTT
1 TTTT
10375840 CCCCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTTAG
Done.