Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 191 of 195
Found at i:34445636 original size:25 final size:25
Alignment explanation
Indices: 34445600--34445648 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
34445590 TTGTTAAATT
*
34445600 TTTTAATTATAATTATAATAATTTA
1 TTTTAATCATAATTATAATAATTTA
34445625 TTTTAATCATAATTATAATAATTT
1 TTTTAATCATAATTATAATAATTT
34445649 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTAATCATAATTATAATAATTTA
Found at i:34446606 original size:12 final size:12
Alignment explanation
Indices: 34446586--34446615 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34446576 ATCACATCAC
34446586 ATATATATATTT
1 ATATATATATTT
*
34446598 ATATTTATATTT
1 ATATATATATTT
34446610 ATATAT
1 ATATAT
34446616 CAATATAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATATATATTT
Found at i:34448672 original size:3 final size:3
Alignment explanation
Indices: 34448664--34448712 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
34448654 GTAGCAGTAT
34448664 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
34448712 C
1 C
34448713 GGCAGCAGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:34450210 original size:16 final size:17
Alignment explanation
Indices: 34450181--34450215 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34450171 GCATCAAACT
34450181 AAATATTTTAAAATTTA
1 AAATATTTTAAAATTTA
*
34450198 AAATATTTTAAATTTTA
1 AAATATTTTAAAATTTA
34450215 A
1 A
34450216 TCATTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTTTAAAATTTA
Found at i:34450577 original size:12 final size:12
Alignment explanation
Indices: 34450562--34450608 Score: 67
Period size: 12 Copynumber: 3.7 Consensus size: 12
34450552 AAATTATTTT
34450562 TTTAATTTTATA
1 TTTAATTTTATA
34450574 TTTAATTATATATA
1 TTTAATT-T-TATA
34450588 TTTAATTTTATA
1 TTTAATTTTATA
34450600 TTTATATTT
1 TTTA-ATTT
34450609 AAAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 15 0.47
13 6 0.19
14 11 0.34
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:34454838 original size:18 final size:18
Alignment explanation
Indices: 34454805--34454849 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
34454795 AGATTATCAA
*
34454805 TAAATAATTAAAATTATTT
1 TAAAT-ATTAAAATTAATT
*
34454824 TAAATATTTAAATTAATT
1 TAAATATTAAAATTAATT
34454842 TAATATAT
1 TAA-ATAT
34454850 CAAATCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATTAAAATTAATT
Found at i:34456284 original size:24 final size:24
Alignment explanation
Indices: 34456256--34456312 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
34456246 TACAAAAGGT
**
34456256 AAGCTCAAACTTAGCTC-AGCCAAA
1 AAGCTCAAACCCAGCTCGA-CCAAA
* *
34456280 AAGCTTAAACCCAGCTCGATCAAA
1 AAGCTCAAACCCAGCTCGACCAAA
34456304 AAGCTCAAA
1 AAGCTCAAA
34456313 TATAACTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.44, C:0.28, G:0.12, T:0.16
Consensus pattern (24 bp):
AAGCTCAAACCCAGCTCGACCAAA
Found at i:34456483 original size:85 final size:85
Alignment explanation
Indices: 34456394--34456660 Score: 225
Period size: 85 Copynumber: 3.1 Consensus size: 85
34456384 ACTTAATTCA
* * *
34456394 ACAAAATAGCTTGGCTAAAGAACTCAGACACAACTTGTCCAAAAGAGCTTGGATTTACAAAATAC
1 ACAAAATAGCTTGGCTAAAGAACTCAGACTCAACTTGTCCAAAAGAGCTTGGATATACAAAATGC
* *
34456459 TTTTATAAAGGCCCAGTTTG
66 ATTTATAAAGGCCCAATTTG
* * ** * * * * * * *
34456479 ACAAAATAGTTTGGCCAAAGAGTTCAGACTCAGCTCGACAAAAAAAAGTTTGAATATACAAAATG
1 ACAAAATAGCTTGGCTAAAGAACTCAGACTCAACTTGTC-CAAAAGAGCTTGGATATACAAAATG
* * ***
34456544 CCTTTATAAAGGTCCAATCCA
65 CATTTATAAAGGCCCAATTTG
* * * * *
34456565 ACAAAATAGCTCGGTCTAAA-AACTCAAACTCAA-TTCGAT-CAAAAGAGCTCGGATCTATAAAA
1 ACAAAATAGCTTGG-CTAAAGAACTCAGACTCAACTT-G-TCCAAAAGAGCTTGGATATACAAAA
* *
34456627 TGCATTTATAAAGGCCAAACTTG
63 TGCATTTATAAAGGCCCAATTTG
34456650 ACAAAATAGCT
1 ACAAAATAGCT
34456661 CGACCAAAGG
Statistics
Matches: 135, Mismatches: 43, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
85 75 0.56
86 56 0.41
87 4 0.03
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (85 bp):
ACAAAATAGCTTGGCTAAAGAACTCAGACTCAACTTGTCCAAAAGAGCTTGGATATACAAAATGC
ATTTATAAAGGCCCAATTTG
Found at i:34456984 original size:85 final size:85
Alignment explanation
Indices: 34456538--34457064 Score: 273
Period size: 85 Copynumber: 6.2 Consensus size: 85
34456528 TTGAATATAC
* * * * * * * **
34456538 AAAATGCCTTTATAAAGGTCC-AATCCAACAAAATAGCTCGGTCTAAA-AACTCAAACTCAATTC
1 AAAATACCTTTATAAAGG-CCTAATTCGACAAAACAACTC-GACTAAAGAGCTCAAACTCAGCTC
**
34456601 GATCAAAAGAGCTCGGATCTAT
64 GATCAAAAGAGCTCAAATCTAT
* * * * * * * * *
34456623 AAAATGCATTTATAAAGGCCAAACTT-GACAAAATAGCTCGACCAAAG-GCTCAGACTTAGCT-T
1 AAAATACCTTTATAAAGGCCTAA-TTCGACAAAACAACTCGACTAAAGAGCTCAAACTCAGCTCG
*
34456685 AGTCAAAAGGGCT-ATAATCTAT
65 A-TCAAAAGAGCTCA-AATCTAT
* ** * * * ** * * * * * *
34456707 AAAATGCCTTTATAAA-ATCTAATTCAATAAAATAGTTTGGCCAAAGAGCT-AGGACTTAGCTTG
1 AAAATACCTTTATAAAGGCCTAATTCGACAAAACAACTCGACTAAAGAGCTCA-AACTCAGCTCG
* * ** *
34456770 ATTAAAAGAGTTCGGATCTAG
65 ATCAAAAGAGCTCAAATCTAT
* * * * * * * * *
34456791 AAAATACCTTCATAAATG-CTAAACTCGACAAAACAACTCTACCAAATAGTTCAGACTCAGCTTG
1 AAAATACCTTTATAAAGGCCT-AATTCGACAAAACAACTCGACTAAAGAGCTCAAACTCAGCTCG
* * *** *
34456855 ACCAAAAAAGCTTGGATCTAC
65 ATCAAAAGAGCTCAAATCTAT
* * * * * * * *
34456876 AAAATACCTTCACAAAAGTCTAATTCGACAAAGCAGCTCAGCCT-AAGAGCTCGAACTCAGCTCG
1 AAAATACCTTTATAAAGGCCTAATTCGACAAAACAACTC-GACTAAAGAGCTCAAACTCAGCTCG
*
34456940 ATCAAAAGAGCTCGAATCTAT
65 ATCAAAAGAGCTCAAATCTAT
** * * * *
34456961 AAAATATTTTTATAAAGGCCTAATTTGATAAAATAACTCGACTAAAGAGCTCAAACTCAGCTTGA
1 AAAATACCTTTATAAAGGCCTAATTCGACAAAACAACTCGACTAAAGAGCTCAAACTCAGCTCGA
*
34457026 TCAAAAGAGTTCAAATCTAT
66 TCAAAAGAGCTCAAATCTAT
34457046 AAAATACCTTTATAAAGGC
1 AAAATACCTTTATAAAGGC
34457065 TTAGCTCGAC
Statistics
Matches: 339, Mismatches: 87, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
82 2 0.01
83 21 0.06
84 91 0.27
85 220 0.65
86 5 0.01
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (85 bp):
AAAATACCTTTATAAAGGCCTAATTCGACAAAACAACTCGACTAAAGAGCTCAAACTCAGCTCGA
TCAAAAGAGCTCAAATCTAT
Found at i:34457224 original size:19 final size:19
Alignment explanation
Indices: 34457198--34457243 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
34457188 AATTTGGTTG
*
34457198 AAAA-AGCTCACCTCGACC
1 AAAAGAGCTAACCTCGACC
* *
34457216 AAAAGAGCTAACCTTGATC
1 AAAAGAGCTAACCTCGACC
34457235 AAAAGAGCT
1 AAAAGAGCT
34457244 TATCTCAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.43, C:0.26, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAAGAGCTAACCTCGACC
Found at i:34457513 original size:19 final size:19
Alignment explanation
Indices: 34457467--34457513 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
34457457 TACCTTAACT
*
34457467 AAAAGAGCTTACTTCGACC
1 AAAAGAGCTAACTTCGACC
* *
34457486 AACAA-AGCTAACTTTGATC
1 AA-AAGAGCTAACTTCGACC
34457505 AAAAGAGCT
1 AAAAGAGCT
34457514 CATCTTGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (19 bp):
AAAAGAGCTAACTTCGACC
Found at i:34457760 original size:18 final size:19
Alignment explanation
Indices: 34457719--34457760 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34457709 AAGCTTGGCT
*
34457719 AAAAAAGCTCATCTCGACC
1 AAAAAAGCTCACCTCGACC
* *
34457738 AAAAAAGTTCACCTCGATC
1 AAAAAAGCTCACCTCGACC
34457757 AAAA
1 AAAA
34457761 GAGCAAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.26, G:0.10, T:0.17
Consensus pattern (19 bp):
AAAAAAGCTCACCTCGACC
Found at i:34457885 original size:56 final size:56
Alignment explanation
Indices: 34457818--34457932 Score: 167
Period size: 56 Copynumber: 2.1 Consensus size: 56
34457808 TGCTTATATC
* * * *
34457818 AGTAAATTACCTTCATAAAGGCTTAGCTTGATCCCCTTGACCAAAGAGCTCATGTT
1 AGTAAATTACCTTCACAAAGGCTTAGCTTGATCACCTCGACCAAAGAGCTCATCTT
* **
34457874 AGTAAATTACCTTTACAAAGGCTTAGCTTGATCACCTCGGTCAAAGAGCTCATCTT
1 AGTAAATTACCTTCACAAAGGCTTAGCTTGATCACCTCGACCAAAGAGCTCATCTT
34457930 AGT
1 AGT
34457933 CACCTTGGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (56 bp):
AGTAAATTACCTTCACAAAGGCTTAGCTTGATCACCTCGACCAAAGAGCTCATCTT
Found at i:34458057 original size:56 final size:56
Alignment explanation
Indices: 34457944--34458068 Score: 137
Period size: 56 Copynumber: 2.2 Consensus size: 56
34457934 ACCTTGGTCA
* * **
34457944 AAAG-GCTCATCTCGATAAATTACTTTCATAAAGGCTTAGCTCGATCGTTTAAGCT
1 AAAGAGCTCATCTCGATAAAATACTTTCATAAAAGCTTAGCTCGATCCCTTAAGCT
* * * * *
34457999 AAATAGCTCATCTTGATAAAATATTTTCATAAAAGCTTAGCTGGGTCACCTTAA-CT
1 AAAGAGCTCATCTCGATAAAATACTTTCATAAAAGCTTAGCTCGATC-CCTTAAGCT
*
34458055 AAAGAGCACATCTC
1 AAAGAGCTCATCTC
34458069 AGTTAAAGAG
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
55 3 0.05
56 49 0.88
57 4 0.07
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (56 bp):
AAAGAGCTCATCTCGATAAAATACTTTCATAAAAGCTTAGCTCGATCCCTTAAGCT
Found at i:34458401 original size:15 final size:15
Alignment explanation
Indices: 34458354--34458403 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
34458344 AGTTAGTTCG
34458354 TTAAAAGAGTTCA-T
1 TTAAAAGAGTTCACT
*
34458368 TATAACAAAAGTT-ACCT
1 T-TAA-AAGAGTTCA-CT
34458385 TTAAAAGAGTTCACT
1 TTAAAAGAGTTCACT
34458400 TTAA
1 TTAA
34458404 TAAATTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 1 0.03
15 16 0.55
16 10 0.34
17 2 0.07
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (15 bp):
TTAAAAGAGTTCACT
Found at i:34459956 original size:59 final size:59
Alignment explanation
Indices: 34459837--34460383 Score: 497
Period size: 59 Copynumber: 8.9 Consensus size: 59
34459827 TTGTGCAGAA
* * * * *
34459837 AAAATTGATACTTTCAACTTTTCCCCAAAAAAT-ATTTTTTAGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATCTTTTTTTTGAAA-TTTTATTTTAAAGG
*
34459897 AAAATTGATACTTTCAATTTTTCCTCAAAAATCTTTTTTTTGAAATTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAATTTTATTTTAAAGG
* * * * *
34459956 AAAATTGATGCTTTCAACTTTTCCTC-AAAATATTTTTTTGGAAATTTTGATTTTCAAGAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAATTTT-ATTTTAAAG-G
*
34460016 AAAATTGATACTTTTCAACTTTAATTCTGCACCCTCAAAAACCTTTTTTTTG-AATTTTATTTTA
1 AAAATTGATAC-TTTCAAC--T--TT-T----CCTCAAAAATCTTTTTTTTGAAATTTTATTTTA
34460080 AAGG
56 AAGG
* *
34460084 -AAATTGATAC-TTCAACTTTTTCCTCAAAAAACCTTTTTTTTAAAAAAATTATT-TTTTAAAGA
1 AAAATTGATACTTTCAAC-TTTTCCTC-AAAAATCTTTTTTTT---GAAATT-TTATTTTAAAG-
*
34460146 A
59 G
* * *
34460147 AAAATTGATATTTTCAACTTTTTCCTCAAAAA--TATTTTTTGAAATTTTTGATTTTTGCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATCTTTTTTTTGAAA-TTTT-A-TTTT-AAAGG
* *
34460209 AAAATTGATACTTTCAACTTTT-CTCAAAAAACCTTTTTTTG-AATTTTATTTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAATTTTA-TTTTAAAGG
* *
34460267 AAAAATTGATACTTTTCAAC-TTTCCTCAAAAACTTTTTTTTTTGAAA-TTTATTTTTAAGG
1 -AAAATTGATAC-TTTCAACTTTTCCTCAAAAA-TCTTTTTTTTGAAATTTTATTTTAAAGG
* *
34460327 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTCTTGTTGAAAATTTTTATTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTT-TTTTTG-AAA-TTTTATTTT
34460384 TTTGCAAAAA
Statistics
Matches: 412, Mismatches: 35, Indels: 78
0.78 0.07 0.15
Matches are distributed among these distances:
57 4 0.01
58 50 0.12
59 103 0.25
60 84 0.20
61 26 0.06
62 59 0.14
63 6 0.01
64 16 0.04
65 23 0.06
66 1 0.00
67 10 0.02
69 8 0.02
70 10 0.02
71 12 0.03
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAATTTTATTTTAAAGG
Found at i:34461988 original size:22 final size:22
Alignment explanation
Indices: 34461961--34462003 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34461951 ATTTTTTTCC
* *
34461961 CTCTCCTATTCGGATTCTTCTT
1 CTCTCCTATTCGAATCCTTCTT
34461983 CTCTCCTATTCGAATCCTTCT
1 CTCTCCTATTCGAATCCTTCT
34462004 CCTATCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.35, G:0.07, T:0.47
Consensus pattern (22 bp):
CTCTCCTATTCGAATCCTTCTT
Found at i:34462545 original size:12 final size:12
Alignment explanation
Indices: 34462528--34462561 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34462518 AGAGGAAACC
34462528 TTTTTTTTATTA
1 TTTTTTTTATTA
*
34462540 TTTTTTTTATTT
1 TTTTTTTTATTA
34462552 TTTATTTTTA
1 TTT-TTTTTA
34462562 AATTTTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTATTA
Found at i:34462614 original size:114 final size:115
Alignment explanation
Indices: 34462455--34462662 Score: 328
Period size: 114 Copynumber: 1.8 Consensus size: 115
34462445 AAAAATCTTA
* * *
34462455 ATCAAAGCTCCTCTAAGCAGAGGTTCAATGATTTTGAGAAACATAAACAAAGCTCCTCTAAATAG
1 ATCAAAGCTACTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAG
34462520 AGGAAACCTTTTTT-TTATTATTTTTTTTATTTTTTATTTTTAAATTTTG
66 AGGAAACCTTTTTTGTTATTATTTTTTTTATTTTTTATTTTTAAATTTTG
* * *
34462569 ATCAAAGCTATTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCTTTTAAATAG
1 ATCAAAGCTACTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAG
* * *
34462634 AGGTAACTTTTTTTGTTTTTATTTTTTTT
66 AGGAAACCTTTTTTGTTATTATTTTTTTT
34462663 CTCAAAGCTC
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
114 71 0.85
115 13 0.15
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (115 bp):
ATCAAAGCTACTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAG
AGGAAACCTTTTTTGTTATTATTTTTTTTATTTTTTATTTTTAAATTTTG
Found at i:34462759 original size:42 final size:41
Alignment explanation
Indices: 34462669--34462827 Score: 237
Period size: 41 Copynumber: 3.9 Consensus size: 41
34462659 TTTTCTCAAA
* * *
34462669 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
34462710 GCTCCTCTAAACAGAGGCACTACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
34462752 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
34462793 GCTCCTCTAAACAAAGGCACCATGACTTTGGAAAG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAG
34462828 GCACCATGAC
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
41 69 0.64
42 39 0.36
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:34462811 original size:83 final size:83
Alignment explanation
Indices: 34462669--34462826 Score: 244
Period size: 83 Copynumber: 1.9 Consensus size: 83
34462659 TTTTCTCAAA
* * * * *
34462669 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACTACG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCACG
*
34462734 ACTTTTGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
* *
34462752 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCACG
34462817 ACTTTGGAAA
66 ACTTTGGAAA
34462827 GGCACCATGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCACG
ACTTTGGAAAAGTAAATT
Found at i:34462829 original size:19 final size:19
Alignment explanation
Indices: 34462805--34462841 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
34462795 TCCTCTAAAC
34462805 AAAGGCACCATGACTTTGG
1 AAAGGCACCATGACTTTGG
34462824 AAAGGCACCATGACTTTG
1 AAAGGCACCATGACTTTG
34462842 AAAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (19 bp):
AAAGGCACCATGACTTTGG
Found at i:34462859 original size:60 final size:59
Alignment explanation
Indices: 34462766--34462886 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 59
34462756 CTCTAAACAG
*
34462766 AGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCATGACTTTGGAA
1 AGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTTT-GAA
* *
34462826 AGGCACCATGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAA
1 AGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAA
34462885 AG
1 AG
34462887 TAAATTGCTC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 5 0.09
60 53 0.91
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (59 bp):
AGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAA
Found at i:34462883 original size:41 final size:41
Alignment explanation
Indices: 34462826--34463598 Score: 1191
Period size: 41 Copynumber: 18.8 Consensus size: 41
34462816 GACTTTGGAA
* *
34462826 AGGCACCATGACTTTGAAAAATAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
34462867 AGGCACCACGACTTTG-AAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
*
34462907 AGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAATAG
1 AGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAG
34462949 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
34462990 AGGCACCACGACTTTGAAATTGAAAAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGAC--T----TTG-AAAAGTAAATTGCTCCTCTAAACAG
* * *
34463038 AGGCACTACGACTTTGAAAAGTAAATTACTCCTCTAAATAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
* *
34463079 AGGCACCACAACTTTGAAAAGTAAATTGTTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
34463120 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
* *
34463161 AGGGACCACGACTTTG-AAAGTAAATTGCTCCTCTAAATAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
* * **
34463201 AGGCATCACAACTTTGGGAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
34463242 AGGCACCACGACTTTG-AAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
** * * *
34463282 AGGCACCACGACTTTGGGAAGTAAGTTGCTCCTTTAAACAA
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
34463323 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
34463364 AGGCACCACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAG
*
34463405 AGGCACCACTACTTTGGAAAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAG
34463447 AGGCACCACGACTTTGAAAA-TAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
* *
34463487 AGGCATCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
*
34463528 AGGCACCATGACTTTG-AAAGTAAATTGCTCCTCTAAACAG
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
*
34463568 AGGCACCACGACTTTG-AAAGTAAATTACTCC
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCC
34463599 CTGACAATCA
Statistics
Matches: 676, Mismatches: 42, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
40 205 0.30
41 349 0.52
42 81 0.12
43 1 0.00
46 1 0.00
47 3 0.00
48 36 0.05
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (41 bp):
AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAG
Found at i:34463228 original size:81 final size:82
Alignment explanation
Indices: 34462826--34463598 Score: 1180
Period size: 81 Copynumber: 9.4 Consensus size: 82
34462816 GACTTTGGAA
* *
34462826 AGGCACCATGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAGTAA
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAA
34462890 ATTGCTCCTCTAAACAG
66 ATTGCTCCTCTAAACAG
* *
34462907 AGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAGTA
1 AGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTA
34462972 AATTGCTCCTCTAAACAG
65 AATTGCTCCTCTAAACAG
* *
34462990 AGGCACCACGACTTTGAAATTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACTACGACTTTGA
1 AGGCACCACGAC--T----TTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG
* *
34463055 AAAGTAAATTACTCCTCTAAATAG
59 AAAGTAAATTGCTCCTCTAAACAG
* * *
34463079 AGGCACCACAACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAA
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAA
34463144 ATTGCTCCTCTAAACAG
66 ATTGCTCCTCTAAACAG
* * * * *
34463161 AGGGACCACGACTTTG-AAAGTAAATTGCTCCTCTAAATAGAGGCATCACAACTTTGGGAAGTAA
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAA
34463225 ATTGCTCCTCTAAACAG
66 ATTGCTCCTCTAAACAG
*
34463242 AGGCACCACGACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAGTAA
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAA
* * *
34463306 GTTGCTCCTTTAAACAA
66 ATTGCTCCTCTAAACAG
*
34463323 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAA
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAA
34463388 ATTGCTCCTCTAAACAG
66 ATTGCTCCTCTAAACAG
* *
34463405 AGGCACCACTACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAATA
1 AGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTA
34463469 AATTGCTCCTCTAAACAG
65 AATTGCTCCTCTAAACAG
* * *
34463487 AGGCATCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTT-GAAAGTAA
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAA
34463551 ATTGCTCCTCTAAACAG
66 ATTGCTCCTCTAAACAG
*
34463568 AGGCACCACGACTTTG-AAAGTAAATTACTCC
1 AGGCACCACGACTTTGAAAAGTAAATTGCTCC
34463599 CTGACAATCA
Statistics
Matches: 640, Mismatches: 42, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
80 14 0.02
81 241 0.38
82 226 0.35
83 80 0.12
85 1 0.00
87 1 0.00
89 77 0.12
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (82 bp):
AGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAA
ATTGCTCCTCTAAACAG
Found at i:34464869 original size:20 final size:19
Alignment explanation
Indices: 34464833--34464890 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 19
34464823 GAATCTCTTT
34464833 TTTTTTTTTCTCATTTTTTTC
1 TTTTTTTTTCT--TTTTTTTC
34464854 TTCTTTTTTTCTTTTTTTTC
1 TT-TTTTTTTCTTTTTTTTC
34464874 TTTTTTTTTCATTTTTT
1 TTTTTTTTTC-TTTTTT
34464891 ATTTTTCATC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.23
20 16 0.46
21 2 0.06
22 9 0.26
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTCTTTTTTTTC
Found at i:34464877 original size:27 final size:27
Alignment explanation
Indices: 34464830--34464897 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
34464820 TTTGAATCTC
*
34464830 TTTTTTTTTTTTCTCATTTTTTTCTTCT
1 TTTTTTTTTTTTCTCA-TTTTTTCTTCA
* *
34464858 TTTTTTCTTTTTTTTC-TTTTTTTTTCA
1 TTTTTT-TTTTTTCTCATTTTTTCTTCA
*
34464885 TTTTTTATTTTTC
1 TTTTTTTTTTTTC
34464898 ATCCATTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.15
27 15 0.44
28 6 0.18
29 8 0.24
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (27 bp):
TTTTTTTTTTTTCTCATTTTTTCTTCA
Found at i:34464888 original size:11 final size:10
Alignment explanation
Indices: 34464833--34464890 Score: 73
Period size: 11 Copynumber: 5.6 Consensus size: 10
34464823 GAATCTCTTT
34464833 TTTTTTTTTC
1 TTTTTTTTTC
*
34464843 TCATTTTTTTC
1 T-TTTTTTTTC
34464854 TTCTTTTTTTC
1 TT-TTTTTTTC
34464865 -TTTTTTTTC
1 TTTTTTTTTC
34464874 TTTTTTTTTC
1 TTTTTTTTTC
34464884 ATTTTTT
1 -TTTTTT
34464891 ATTTTTCATC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.19
10 11 0.26
11 23 0.55
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:34465213 original size:5 final size:5
Alignment explanation
Indices: 34465203--34465236 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
34465193 TCATGTGTGG
34465203 TATTT TATTT TATTT TATTT TA-TT T-TTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
34465237 TGAGACCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 6 0.22
5 21 0.78
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TATTT
Found at i:34465223 original size:15 final size:13
Alignment explanation
Indices: 34465203--34465236 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34465193 TCATGTGTGG
34465203 TATTTTATTTTATTT
1 TATTTTA-TTT-TTT
34465218 TATTTTATTTTTT
1 TATTTTATTTTTT
34465231 TATTTT
1 TATTTT
34465237 TGAGACCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 3 0.16
15 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTATTTTTT
Found at i:34468911 original size:58 final size:58
Alignment explanation
Indices: 34468786--34469406 Score: 815
Period size: 58 Copynumber: 10.5 Consensus size: 58
34468776 TTGTGTAAGA
* * * *
34468786 AAAATTGATACTTTCAACTTTTCCCCAAAAA-ATATTTTTTAGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTT-GAAA-TTTTATTTTAAAGG
34468846 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
* *
34468904 AAAATTGATGCTTTCAACTTTTCCTCAAAATA--TTTTTTTGCAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ACCTTTTTTTG-AAATTTT-ATTTTAAAGG
34468963 AAAATTGATACTTTCAACTTTTCCTCAAAAACC-TTTTTTGAAATTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
* * * ** *
34469020 AAAATTGATACTTTCAACTTTTTCTCAAAAAACTTTTTTTAAAAAAAAATTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTT---GAAATTTTATTTTAAAGG
* ** *
34469081 AAAATTAATACTTTCAACTTTTCCTCAAAAATAGTTTTTTGGAAATTTTGATTTTCAAA-G
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTTGAAATTTT-ATTTT-AAAGG
34469141 AAAATTGATACTTTCAAC--TTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
** ** *
34469197 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTAAAAAAAAATTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAACCTTTTTT--TGAAATTTTATTTTAAAGG
** *
34469258 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTG-AAATTTT-ATTTTAAAGG
*
34469318 AAAATTGATACTTTCAACTTTTCCTTAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
34469376 AAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA
34469407 TATTTCTTTT
Statistics
Matches: 497, Mismatches: 43, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
55 3 0.01
56 24 0.05
57 62 0.12
58 118 0.24
59 80 0.16
60 117 0.24
61 86 0.17
62 7 0.01
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
Found at i:34469066 original size:17 final size:17
Alignment explanation
Indices: 34469046--34469078 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34469036 ACTTTTTCTC
*
34469046 AAAAAACTT-TTTTTAA
1 AAAAAAATTATTTTTAA
34469062 AAAAAAATTATTTTTAA
1 AAAAAAATTATTTTTAA
34469079 GGAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAAAATTATTTTTAA
Found at i:34469097 original size:177 final size:179
Alignment explanation
Indices: 34468786--34469422 Score: 1002
Period size: 177 Copynumber: 3.6 Consensus size: 179
34468776 TTGTGTAAGA
* * * *
34468786 AAAATTGATACTTTCAACTTTTCCCCAAAAA-ATATTTTTTAGAAACTTTGATTTTCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTT-GAAA-TTTTATTTTAAAGGAAAA
* * ** *
34468850 TTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTT---GAAATTTTATTTTAAAGGAAAATTGA
63 TTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTAAAAAAAAATTATTTTTAAGGAAAATTGA
* *
34468912 TGCTTTCAACTTTTCCTC-AAAATATTTTTTTGCAAATTTTGATTTTCAAGG
128 TACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
34468963 AAAATTGATACTTTCAACTTTTCCTCAAAAACC-TTTTTTGAAATTTTATTTTAAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
* *
34469027 ATACTTTCAACTTTTTCTCAAAAAACTTTTTTTAAAAAAAAATTATTTTTAAGGAAAATTAATAC
66 ATACTTTCAACTTTTCCTCAAAAAACTTTTTTTAAAAAAAAATTATTTTTAAGGAAAATTGATAC
* * *
34469092 TTTCAACTTTTCCTCAAAAATAGTTTTTTGGAAATTTTGATTTTCAAAG
131 TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
34469141 AAAATTGATACTTTCAAC--TTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
*
34469204 ATACTTTCAACTTTTCCTCAAAAAACCTTTTTTAAAAAAAAATTATTTTTAAGGAAAATTGATAC
66 ATACTTTCAACTTTTCCTCAAAAAACTTTTTTTAAAAAAAAATTATTTTTAAGGAAAATTGATAC
34469269 TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
131 TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
*
34469318 AAAATTGATACTTTCAACTTTTCCTTAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
*
34469383 ATACTTTCAACTTTTCCTCAAAAATATTTCTTTTTAAAAA
66 ATACTTTCAACTTTTCCTCAAAAA-ACTT-TTTTTAAAAA
34469423 TTTTTATTTT
Statistics
Matches: 426, Mismatches: 24, Indels: 16
0.91 0.05 0.03
Matches are distributed among these distances:
174 50 0.12
175 4 0.01
176 19 0.04
177 225 0.53
178 48 0.11
179 68 0.16
180 2 0.00
181 10 0.02
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (179 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAAACTTTTTTTAAAAAAAAATTATTTTTAAGGAAAATTGATAC
TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
Found at i:34469370 original size:295 final size:291
Alignment explanation
Indices: 34468781--34469411 Score: 926
Period size: 295 Copynumber: 2.1 Consensus size: 291
34468771 ATTTTTTGTG
* * *
34468781 TAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTAGAAACTTTGATTTTCAAGG
1 TAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTAGAAACTTTGATTTTCAAAG
34468846 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
65 AAAATTGATACTTTCAAC-TTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTG
* * *** **
34468911 ATGCTTTCAACTTTTCCTCAAAATATTTTTTTGCAAATTTTGATTTTCAAGGAAAATTGATACTT
129 ATACTTTCAACTTTTCCTCAAAAAATTTTTTAAAAAAAATTGATTTTCAAGGAAAATTGATACTT
*
34468976 TCAACTTTTCCTCAAAAACCTTTTTTGAAATTTTATTTTAAAGGAAAATTGATACTTTCAACTTT
194 TCAACTTTTCCTCAAAAAACTTTTTTGAAATTTTATTTTAAAGGAAAATTGATACTTTCAACTTT
*
34469041 TTCTCAAAAAACTTTTTTTAAAAAAAAATTATTTT
259 TCCTCAAAAAACTTTTTTT--AAAAAAATTATTTT
* * *
34469076 TAAGGAAAATTAATACTTTCAACTTTTCCTCAAAAATAGTTTTTTGGAAATTTTGATTTTCAAAG
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAACTTTGATTTTCAAAG
34469141 AAAATTGATACTTTCAAC-TTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTGA
65 AAAATTGATACTTTCAACTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTGA
*
34469205 TACTTTCAACTTTTCCTCAAAAAACCTTTTTTAAAAAAAAATT-ATTTTTAAGGAAAATTGATAC
130 TACTTTCAACTTTTCCTCAAAAAA--TTTTTT-AAAAAAAATTGATTTTCAAGGAAAATTGATAC
* *
34469269 TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTTTCA
192 TTTCAACTTTTCCTCAAAAA-ACTTTTTTG-AAATTTT-ATTTTAAAGGAAAATTGATACTTTCA
* * * **
34469334 ACTTTTCCTTAAAAACCTTTTTTT-GAAATTTTATTTT
254 ACTTTTCCTCAAAAAACTTTTTTTAAAAAAATTATTTT
*
34469371 AAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
34469412 CTTTTTAAAA
Statistics
Matches: 304, Mismatches: 25, Indels: 15
0.88 0.07 0.04
Matches are distributed among these distances:
293 68 0.22
294 10 0.03
295 161 0.53
296 12 0.04
297 7 0.02
298 46 0.15
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (291 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTTGATTTTCAAAGA
AAATTGATACTTTCAACTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTGAT
ACTTTCAACTTTTCCTCAAAAAATTTTTTAAAAAAAATTGATTTTCAAGGAAAATTGATACTTTC
AACTTTTCCTCAAAAAACTTTTTTGAAATTTTATTTTAAAGGAAAATTGATACTTTCAACTTTTC
CTCAAAAAACTTTTTTTAAAAAAATTATTTT
Found at i:34469448 original size:5 final size:5
Alignment explanation
Indices: 34469440--34469473 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
34469430 TTTTTTGCAA
34469440 AAAAT AAAAT AAAAT AAAAT AAAAAT AAGAAT AA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AA
34469474 TACTCCTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:34471055 original size:22 final size:22
Alignment explanation
Indices: 34471014--34471056 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34471004 ATTTTTTTCC
* * *
34471014 CTCTCCTATTTGGATTCTTCTT
1 CTCTCCTATTCGAATCCTTCTT
34471036 CTCTCCTATTCGAATCCTTCT
1 CTCTCCTATTCGAATCCTTCT
34471057 CCTATCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.33, G:0.07, T:0.49
Consensus pattern (22 bp):
CTCTCCTATTCGAATCCTTCTT
Found at i:34487742 original size:27 final size:27
Alignment explanation
Indices: 34487707--34487759 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
34487697 TTATATTTAA
* *
34487707 ATTTGATTTGATATTATATAAAATTAT
1 ATTTAATTTGATATGATATAAAATTAT
* *
34487734 ATTTAATTTGATCTGATTTAAAATTA
1 ATTTAATTTGATATGATATAAAATTA
34487760 ATAAAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (27 bp):
ATTTAATTTGATATGATATAAAATTAT
Found at i:34487785 original size:23 final size:23
Alignment explanation
Indices: 34487750--34487793 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
34487740 TTTGATCTGA
*
34487750 TTTAAAATTAATA-AAATATTATT
1 TTTAAAATAAATATAAA-ATTATT
*
34487773 TTTAATATAAATATAAAATTA
1 TTTAAAATAAATATAAAATTA
34487794 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAAATAAATATAAAATTATT
Found at i:34487797 original size:18 final size:19
Alignment explanation
Indices: 34487775--34487822 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
34487765 ATATTATTTT
34487775 TAATATAAATATAAAAT-TA
1 TAATATAAATA-AAAATATA
*
34487794 -AATATATATAAAAATATA
1 TAATATAAATAAAAATATA
34487812 TAA-ATAAATAA
1 TAATATAAATAA
34487823 TTTTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 5 0.20
18 18 0.72
19 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATATAAATAAAAATATA
Found at i:34487820 original size:12 final size:12
Alignment explanation
Indices: 34487779--34487821 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
34487769 TATTTTTAAT
34487779 ATAAATATA-AA
1 ATAAATATATAA
34487790 ATTAAATATATATA
1 A-TAAATATATA-A
34487804 A-AAATATATAA
1 ATAAATATATAA
34487815 ATAAATA
1 ATAAATA
34487822 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.11
12 22 0.79
13 1 0.04
14 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATATATAA
Found at i:34492298 original size:26 final size:24
Alignment explanation
Indices: 34492248--34492294 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
34492238 TTTTTTACTA
34492248 ATTTTTTTAATATATCCTAAAAAT
1 ATTTTTTTAATATATCCTAAAAAT
34492272 ATTTTTTTAATATATCCTAAAAA
1 ATTTTTTTAATATATCCTAAAAA
34492295 AATACTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTTTTTAATATATCCTAAAAAT
Found at i:34507209 original size:31 final size:31
Alignment explanation
Indices: 34507173--34507237 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
34507163 GATGTGACTT
*
34507173 AATTCCTCATCAGTTATGTTCTTTAAAAATG
1 AATTCCTCATAAGTTATGTTCTTTAAAAATG
34507204 AATTCCTCATAAGTTATGTTCTTTAAAAATG
1 AATTCCTCATAAGTTATGTTCTTTAAAAATG
34507235 AAT
1 AAT
34507238 AAATGGTCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (31 bp):
AATTCCTCATAAGTTATGTTCTTTAAAAATG
Found at i:34532583 original size:2 final size:2
Alignment explanation
Indices: 34532576--34532602 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34532566 GAGAACTTAA
34532576 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34532603 AGAAATTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34537051 original size:10 final size:9
Alignment explanation
Indices: 34537032--34537075 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
34537022 ACACGACATA
34537032 ATTAATATG
1 ATTAATATG
34537041 ATTATATATG
1 ATTA-ATATG
* *
34537051 AATAATACG
1 ATTAATATG
34537060 ATTATATATG
1 ATTA-ATATG
34537070 ATTAAT
1 ATTAAT
34537076 TTATTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (9 bp):
ATTAATATG
Found at i:34537056 original size:19 final size:19
Alignment explanation
Indices: 34537034--34537075 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
34537024 ACGACATAAT
*
34537034 TAATATGATTATATATGAA
1 TAATACGATTATATATGAA
*
34537053 TAATACGATTATATATGAT
1 TAATACGATTATATATGAA
34537072 TAAT
1 TAAT
34537076 TTATTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (19 bp):
TAATACGATTATATATGAA
Found at i:34544992 original size:31 final size:31
Alignment explanation
Indices: 34544954--34545015 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
34544944 GTTCAGATAG
34544954 AAACATTGCAGCTACCTAATCATTTAATTTC
1 AAACATTGCAGCTACCTAATCATTTAATTTC
*
34544985 AAACATTGCAGCTACCTTATCATTTAATTTC
1 AAACATTGCAGCTACCTAATCATTTAATTTC
34545016 TTCTAAGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (31 bp):
AAACATTGCAGCTACCTAATCATTTAATTTC
Found at i:34547388 original size:4 final size:4
Alignment explanation
Indices: 34547381--34547412 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
34547371 ATATATATAT
34547381 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
34547413 GTTTATGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:34550716 original size:2 final size:2
Alignment explanation
Indices: 34550711--34550754 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
34550701 ACACATACAC
* *
34550711 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34550753 AT
1 AT
34550755 TTCAGTAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34550734 original size:18 final size:18
Alignment explanation
Indices: 34550711--34550754 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
34550701 ACACATACAC
34550711 ATATATATATATATATGT
1 ATATATATATATATATGT
34550729 ATATATATATATATATGT
1 ATATATATATATATATGT
34550747 ATATATAT
1 ATATATAT
34550755 TTCAGTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATATATATATATATATGT
Found at i:34551536 original size:34 final size:34
Alignment explanation
Indices: 34551498--34551581 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
34551488 TTTATATAAG
*
34551498 AAAAACACCGTTAATATGA-TAACGTT-TGTATCAT
1 AAAAACACCGTTAAT-TGAGCAACGTTCT-TATCAT
* *
34551532 AAAAACGCCGTTAATTTAGCAACGTTCTTATCAT
1 AAAAACACCGTTAATTGAGCAACGTTCTTATCAT
* *
34551566 AAAAATACCGCTAATT
1 AAAAACACCGTTAATT
34551582 TTAGTGACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
33 2 0.05
34 39 0.93
35 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (34 bp):
AAAAACACCGTTAATTGAGCAACGTTCTTATCAT
Found at i:34552306 original size:290 final size:289
Alignment explanation
Indices: 34551784--34552365 Score: 984
Period size: 290 Copynumber: 2.0 Consensus size: 289
34551774 ATATTTCACA
*
34551784 TTTAAATATACATGTAATTAACATAAAGTTTAATAATTAGTATAATAATATTCAAATTATTTTAG
1 TTTAAATATACATGTAATTAACATAAAGTTTAATAATTAGTATAATAACATTCAAATTATTTTAG
* *
34551849 TACATTAACAAAAAAATTTAAAATGTATGAAATTGATGACTACATAGATTTGAAAGACTGCTATT
66 TACATTAACAAAAAAATTTAAAATGTAAGAAATTGATGACTACATAGATTTGAAAGACTGCCATT
* *
34551914 TGATGAAAGAATTTTTTCACCTTGATCACTAGCATGCTCAAGAACTTACTGAATAACATCATACA
131 TGATGAAAGAATTTTTTCACCTTGATCACTAGCATGCTCAAGAACCTACCGAATAACATCATACA
* *
34551979 AGTTTTAACACTTAATAATAAGCTATTTTTTACATTAAAAAATATAAATATTTACTAAATCTAAT
196 AGTTTTAACACTTAATAATAAGCTATTTTTAACATTAAAAAATATAAATATTTACTAAATATAAT
* * *
34552044 ACATGAGTTGGTGGACCATTGAGATTACAT
261 ACATGAATTGATGGACCATCGAGATTA-AT
*
34552074 TTTAAATATGCATGTAATTAACATAAAGTTTAATAATTAGTATAATAACATTCAAATTATTTTAG
1 TTTAAATATACATGTAATTAACATAAAGTTTAATAATTAGTATAATAACATTCAAATTATTTTAG
* * *
34552139 TACATTAACAAAAAAATTTTAAATGTAAGAAATTGATGACTGCATAGATTTGGAAGACTGCCATT
66 TACATTAACAAAAAAATTTAAAATGTAAGAAATTGATGACTACATAGATTTGAAAGACTGCCATT
* *
34552204 TGATGAAAGAATTTTTTCACCTTGGTCACTAGCATGCTTAAGAACCTACCGAATAACATCATACA
131 TGATGAAAGAATTTTTTCACCTTGATCACTAGCATGCTCAAGAACCTACCGAATAACATCATACA
* *
34552269 AGTTTTAACATTTAATAATAAGCTATTTTTAACATTAAAAAATATAAGTATTTACTAAATATAAT
196 AGTTTTAACACTTAATAATAAGCTATTTTTAACATTAAAAAATATAAATATTTACTAAATATAAT
*
34552334 ACCTGAATTGATGGACCATCGAGATTAAT
261 ACATGAATTGATGGACCATCGAGATTAAT
34552363 TTT
1 TTT
34552366 TGAAAATTGT
Statistics
Matches: 273, Mismatches: 19, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
289 5 0.02
290 268 0.98
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (289 bp):
TTTAAATATACATGTAATTAACATAAAGTTTAATAATTAGTATAATAACATTCAAATTATTTTAG
TACATTAACAAAAAAATTTAAAATGTAAGAAATTGATGACTACATAGATTTGAAAGACTGCCATT
TGATGAAAGAATTTTTTCACCTTGATCACTAGCATGCTCAAGAACCTACCGAATAACATCATACA
AGTTTTAACACTTAATAATAAGCTATTTTTAACATTAAAAAATATAAATATTTACTAAATATAAT
ACATGAATTGATGGACCATCGAGATTAAT
Found at i:34553536 original size:161 final size:161
Alignment explanation
Indices: 34553325--34553639 Score: 429
Period size: 161 Copynumber: 2.0 Consensus size: 161
34553315 AGTCTCAAAT
*
34553325 AGACGTAAACGATAACTTTTTCACACATTTCAACCGTAAAAACCAAGTTCAAT-CATTCGGACAA
1 AGACGTAAACAATAACTTTTTCACACATTTCAACCGTAAAAACCAAGTTCAATAC-TTCGGACAA
* * * *
34553389 ATTTAATATCATGTATTGAAGCTATCCAAATTGTTAAAACAGAACAATAAC-AATAATTTTATAT
65 ATTTAATATCATGTATTGAAACTATCAAAACTATTAAAACAGAACAATAACTAATAA-TTTATAT
34553453 TTTTACCTATTAACGACACAAAAAGTCATGAAG
129 TTTTACCTATTAACGACACAAAAAGTCATGAAG
* * * * * * * *
34553486 AGACGTAAACAATAACTTTTTTATACATATT-AACTGTGAAAACTAAGTTCAATACTTTGGATAG
1 AGACGTAAACAATAACTTTTTCACACAT-TTCAACCGTAAAAACCAAGTTCAATACTTCGGACAA
* *
34553550 GTTTAATATCATGTATTGAAACTATCAAAACTATTAAAACAGAACAATAACTATTAATTTATATT
65 ATTTAATATCATGTATTGAAACTATCAAAACTATTAAAACAGAACAATAACTAATAATTTATATT
* *
34553615 TTTACCTTTTAACGGCACAAAAAGT
130 TTTACCTATTAACGACACAAAAAGT
34553640 TCATTCATTC
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
161 127 0.95
162 7 0.05
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (161 bp):
AGACGTAAACAATAACTTTTTCACACATTTCAACCGTAAAAACCAAGTTCAATACTTCGGACAAA
TTTAATATCATGTATTGAAACTATCAAAACTATTAAAACAGAACAATAACTAATAATTTATATTT
TTACCTATTAACGACACAAAAAGTCATGAAG
Found at i:34561332 original size:12 final size:12
Alignment explanation
Indices: 34561280--34561351 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 12
34561270 TTTAAATATT
*
34561280 ATGGTTTGTTAA
1 ATGGTTTGTTGA
34561292 ATGGTATTGTATGA
1 ATGGT-TTGT-TGA
* *
34561306 TATTGATTTGCTGA
1 -A-TGGTTTGTTGA
34561320 ATGGTTTGTTGA
1 ATGGTTTGTTGA
34561332 ATGGTGTT-TCTGA
1 ATGGT-TTGT-TGA
34561345 ATGGTTT
1 ATGGTTT
34561352 CCTTAATAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
12 22 0.45
13 15 0.31
14 5 0.10
15 4 0.08
16 3 0.06
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (12 bp):
ATGGTTTGTTGA
Found at i:34561346 original size:25 final size:23
Alignment explanation
Indices: 34561316--34561392 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 23
34561306 TATTGATTTG
34561316 CTGAATGGTTTGTTGAATGGTGTTT
1 CTGAATGGTTT-TT-AATGGTGTTT
* *
34561341 CTGAATGGTTTCCTTAATAGTATTT
1 CTGAATGGTTT--TTAATGGTGTTT
*
34561366 CTAAATGGTTTTCTAAATGGTGTTT
1 CTGAATGGTTTT-T-AATGGTGTTT
34561391 CT
1 CT
34561393 AAAAACATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 39 0.91
26 2 0.05
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.48
Consensus pattern (23 bp):
CTGAATGGTTTTTAATGGTGTTT
Found at i:34561380 original size:12 final size:13
Alignment explanation
Indices: 34561331--34561395 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
34561321 TGGTTTGTTG
*
34561331 AATGGTGTTTCTG
1 AATGGTGTTTCTA
* *
34561344 AATGGT-TTCCTT
1 AATGGTGTTTCTA
* *
34561356 AATAGTATTTCTA
1 AATGGTGTTTCTA
34561369 AATGGT-TTTCTA
1 AATGGTGTTTCTA
34561381 AATGGTGTTTCTA
1 AATGGTGTTTCTA
34561394 AA
1 AA
34561396 AACATTGCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
12 21 0.48
13 23 0.52
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.46
Consensus pattern (13 bp):
AATGGTGTTTCTA
Found at i:34561393 original size:25 final size:25
Alignment explanation
Indices: 34561331--34561395 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
34561321 TGGTTTGTTG
* *
34561331 AATGGTGTTTCTGAATGGTTTCCTT
1 AATGGTGTTTCTAAATGGTTTCCTA
* * *
34561356 AATAGTATTTCTAAATGGTTTTCTA
1 AATGGTGTTTCTAAATGGTTTCCTA
34561381 AATGGTGTTTCTAAA
1 AATGGTGTTTCTAAA
34561396 AACATTGCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.46
Consensus pattern (25 bp):
AATGGTGTTTCTAAATGGTTTCCTA
Found at i:34566142 original size:2 final size:2
Alignment explanation
Indices: 34566135--34566164 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34566125 AAAGCAATGG
34566135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34566165 GAATGCAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34566906 original size:18 final size:22
Alignment explanation
Indices: 34566863--34566906 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 22
34566853 TGTAAAAACA
34566863 ATAATGACAGTGAAATAAATTG
1 ATAATGACAGTGAAATAAATTG
34566885 -TAATGA-AG-GAAA-AAA-TG
1 ATAATGACAGTGAAATAAATTG
34566902 ATAAT
1 ATAAT
34566907 TAAAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
17 2 0.10
18 7 0.33
19 4 0.19
20 2 0.10
21 6 0.29
ACGTcount: A:0.55, C:0.02, G:0.18, T:0.25
Consensus pattern (22 bp):
ATAATGACAGTGAAATAAATTG
Found at i:34569262 original size:20 final size:20
Alignment explanation
Indices: 34569225--34569634 Score: 106
Period size: 21 Copynumber: 19.5 Consensus size: 20
34569215 ATATTACATT
34569225 AAAATTATATAAAAATTATC
1 AAAATTATATAAAAATTATC
* *
34569245 AATATTA-ATAAAATATTATT
1 AAAATTATATAAAA-ATTATC
*
34569265 AAAATTATATAAATAATT-GC
1 AAAATTATATAAA-AATTATC
* * *
34569285 AAAA-AAAATCAAAATT-TAC
1 AAAATTATATAAAAATTAT-C
*
34569304 TAATATTATATATCAAAATTAT-
1 -AAAATTATATA--AAAATTATC
* * *
34569326 ATAAA-AAAATCAAATTATTATCCC
1 A-AAATTATAT-AAA-AATTAT--C
* *
34569350 AAAAAATTACACAAAAAATTATC
1 --AAAATTATATA-AAAATTATC
** *
34569373 AAAATTATATTAAATGTTATT
1 AAAATTATA-TAAAAATTATC
* * * *
34569394 AAAATTGTATTATATATTACC
1 AAAATTATA-TAAAAATTATC
*
34569415 AAAATTGTATAAAAAATGTAT-
1 AAAATTATAT-AAAAAT-TATC
* * * *
34569436 AAGATTATAT-CACATTTTAC
1 AAAATTATATAAAAATTAT-C
34569456 TAAAATTATATGAAAAATTATC
1 -AAAATTATAT-AAAAATTATC
* *
34569478 AAAATTATATAAAAAAATATT
1 AAAATTATAT-AAAAATTATC
* * **
34569499 ATAATTGTATCAAATGTTAAT-
1 AAAATTATAT-AAAAATT-ATC
* *
34569520 AAAGTTATATAAAAGAATCATC
1 AAAATTATAT-AAA-AATTATC
*
34569542 AAACTTATATAAAAAATTTATC
1 AAAATTATAT-AAAAA-TTATC
*
34569564 -GAATTATATTAAAAATTATC
1 AAAATTATA-TAAAAATTATC
* * *
34569584 AAAGTTACATGAAAAGTTA-C
1 AAAATTATAT-AAAAATTATC
34569604 AAAGATTATATAAAAAGTTAT-
1 AAA-ATTATATAAAAA-TTATC
*
34569625 TAAATTATAT
1 AAAATTATAT
34569635 CGATGTTACT
Statistics
Matches: 282, Mismatches: 71, Indels: 74
0.66 0.17 0.17
Matches are distributed among these distances:
18 6 0.02
19 15 0.05
20 48 0.17
21 157 0.56
22 29 0.10
23 12 0.04
24 1 0.00
25 9 0.03
26 5 0.02
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAATTATATAAAAATTATC
Found at i:34569429 original size:63 final size:62
Alignment explanation
Indices: 34569352--34569650 Score: 208
Period size: 63 Copynumber: 4.8 Consensus size: 62
34569342 ATTATCCCAA
* * * * * * * *
34569352 AAAATTACACAAAAAATTATCAAAATTATATTAAATGTTATTAAAATTGTATTATATATTACC
1 AAAATTATATAAAAAATTAT-AAAATTATATCAAATGTTAATAAAATTATATGAAAAATTACC
* * * * * *
34569415 AAAATTGTATAAAAAATGTATAAGATTATATCACATTTTACTAAAATTATATGAAAAATTATC
1 AAAATTATATAAAAAAT-TATAAAATTATATCAAATGTTAATAAAATTATATGAAAAATTACC
* * * * * * *
34569478 AAAATTATATAAAAAAATATTATAATTGTATCAAATGTTAATAAAGTTATATAAAAGAATCATC
1 AAAATTATATAAAAAATTA-TAAAATTATATCAAATGTTAATAAAATTATATGAAA-AATTACC
* ** * ** * * *
34569542 AAACTTATATAAAAAATTTATCGAATTATATTAAAAATT-ATCAAAGTTACATGAAAAGTTA-C
1 AAAATTATATAAAAAA-TTATAAAATTATATCAAATGTTAAT-AAAATTATATGAAAAATTACC
* * * *
34569604 AAAGATTATATAAAAAGTTATTAAATTATATC-GATGTTACTAAAATT
1 AAA-ATTATATAAAAAATTATAAAATTATATCAAATGTTAATAAAATT
34569651 GACTAAAATT
Statistics
Matches: 183, Mismatches: 46, Indels: 16
0.75 0.19 0.07
Matches are distributed among these distances:
61 8 0.04
62 19 0.10
63 105 0.57
64 49 0.27
65 2 0.01
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (62 bp):
AAAATTATATAAAAAATTATAAAATTATATCAAATGTTAATAAAATTATATGAAAAATTACC
Found at i:34569588 original size:64 final size:64
Alignment explanation
Indices: 34569456--34569635 Score: 151
Period size: 64 Copynumber: 2.9 Consensus size: 64
34569446 CACATTTTAC
* * * * **
34569456 TAAAATTATATGAAA-AATTATCAAAATTATATAAAAAAATATTATAATTGTATCAAATGTTAA
1 TAAAGTTATATAAAAGAATCATCAAAATTATATAAAAAAATATTATAATTATATCAAAAATTAA
* *
34569519 TAAAGTTATATAAAAGAATCATCAAACTTATAT-AAAAAAT-TTATCGAATTATATTAAAAATT-
1 TAAAGTTATATAAAAGAATCATCAAAATTATATAAAAAAATATTAT--AATTATATCAAAAATTA
34569581 A
64 A
* * **
34569582 TCAAAGTTACATGAAAAG--TTA-CAAAGATTATATAAAAAGTTATTA-AATTATATC
1 T-AAAGTTATAT-AAAAGAATCATCAAA-ATTATATAAAAAAATATTATAATTATATC
34569636 GATGTTACTA
Statistics
Matches: 95, Mismatches: 14, Indels: 17
0.75 0.11 0.13
Matches are distributed among these distances:
62 16 0.17
63 30 0.32
64 41 0.43
65 8 0.08
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (64 bp):
TAAAGTTATATAAAAGAATCATCAAAATTATATAAAAAAATATTATAATTATATCAAAAATTAA
Found at i:34569598 original size:21 final size:21
Alignment explanation
Indices: 34569461--34569634 Score: 115
Period size: 21 Copynumber: 8.3 Consensus size: 21
34569451 TTTACTAAAA
* *
34569461 TTATATGAAAAATTATCAAAA
1 TTATATAAAAAATTATCAAAG
* *
34569482 TTATATAAAAAAATATTATAA-
1 TTATATAAAAAATTATCA-AAG
* * **
34569503 TTGTATCAAATGTTAAT-AAAG
1 TTATATAAAAAATT-ATCAAAG
* *
34569524 TTATATAAAAGAATCATCAAAC
1 TTATATAAAA-AATTATCAAAG
*
34569546 TTATATAAAAAATTTATCGAA-
1 TTATATAAAAAA-TTATCAAAG
*
34569567 TTATATTAAAAATTATCAAAG
1 TTATATAAAAAATTATCAAAG
* * *
34569588 TTACATGAAAAGTTA-CAAAG
1 TTATATAAAAAATTATCAAAG
* *
34569608 ATTATATAAAAAGTTATTAAA-
1 -TTATATAAAAAATTATCAAAG
34569629 TTATAT
1 TTATAT
34569635 CGATGTTACT
Statistics
Matches: 120, Mismatches: 24, Indels: 19
0.74 0.15 0.12
Matches are distributed among these distances:
20 20 0.17
21 73 0.61
22 27 0.22
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (21 bp):
TTATATAAAAAATTATCAAAG
Found at i:34577781 original size:5 final size:5
Alignment explanation
Indices: 34577771--34577795 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34577761 CGATAAGAAC
34577771 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
34577796 CATGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:34585655 original size:13 final size:14
Alignment explanation
Indices: 34585637--34585665 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34585627 TCTCTTTAAC
34585637 TGTTCTG-TTATTT
1 TGTTCTGTTTATTT
34585650 TGTTCTGTTTATTT
1 TGTTCTGTTTATTT
34585664 TG
1 TG
34585666 ACTCTGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (14 bp):
TGTTCTGTTTATTT
Found at i:34587829 original size:28 final size:29
Alignment explanation
Indices: 34587775--34587829 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
34587765 TTTTAAAAAA
* * *
34587775 TTTTAATAAATATATATAGTTATAATTAT
1 TTTTAATAAATAAATATAGATAAAATTAT
*
34587804 TTTTAATAAA-AAATATTGATAAAATT
1 TTTTAATAAATAAATATAGATAAAATT
34587830 TTTACTGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 12 0.55
29 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
TTTTAATAAATAAATATAGATAAAATTAT
Found at i:34587931 original size:18 final size:17
Alignment explanation
Indices: 34587908--34587958 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
34587898 TGGACTTTCA
34587908 TATTAAATTTTATTAATT
1 TATTAAATTTTATT-ATT
* *
34587926 TATT-AATTTAAATTTTT
1 TATTAAATTT-TATTATT
34587943 TATTAAATTTT-TTATT
1 TATTAAATTTTATTATT
34587959 AAATCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.15
17 11 0.41
18 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTAAATTTTATTATT
Found at i:34587950 original size:12 final size:12
Alignment explanation
Indices: 34587915--34587962 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
34587905 TCATATTAAA
34587915 TTTTATT-AATT
1 TTTTATTAAATT
*
34587926 TATTAATTTAAATT
1 T-TTTA-TTAAATT
34587940 TTTTATTAAATT
1 TTTTATTAAATT
34587952 TTTTATTAAAT
1 TTTTATTAAAT
34587963 CATTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 1 0.03
12 21 0.66
13 5 0.16
14 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTATTAAATT
Found at i:34587968 original size:13 final size:12
Alignment explanation
Indices: 34587933--34587981 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
34587923 ATTTATTAAT
*
34587933 TTAAATTTTTTA
1 TTAAATATTTTA
*
34587945 TTAAATTTTTTA
1 TTAAATATTTTA
34587957 TTAAATCATTTTA
1 TTAAAT-ATTTTA
**
34587970 AAAAATATTTTA
1 TTAAATATTTTA
34587982 CAAATTTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 24 0.73
13 9 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:34587968 original size:25 final size:25
Alignment explanation
Indices: 34587914--34587969 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
34587904 TTCATATTAA
34587914 ATTTTATTAATTTATTAATTTAAAT
1 ATTTTATTAATTTATTAATTTAAAT
* *
34587939 TTTTTATTAAATTT-TTTA-TTAAAT
1 ATTTTATT-AATTTATTAATTTAAAT
34587963 CATTTTA
1 -ATTTTA
34587970 AAAAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.23
25 15 0.58
26 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTTTATTAATTTATTAATTTAAAT
Found at i:34589331 original size:1 final size:1
Alignment explanation
Indices: 34589325--34589359 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
34589315 GAAACCTTAC
* *
34589325 AAAAAAAAAAAAAAACACAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34589360 CACATTGCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:34589346 original size:18 final size:18
Alignment explanation
Indices: 34589323--34589357 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34589313 CAGAAACCTT
34589323 ACAAAAAAAAAAAAAAAC
1 ACAAAAAAAAAAAAAAAC
34589341 ACAAAAAAAAAAAAAAA
1 ACAAAAAAAAAAAAAAA
34589358 AACACATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (18 bp):
ACAAAAAAAAAAAAAAAC
Found at i:34589350 original size:20 final size:20
Alignment explanation
Indices: 34589325--34589363 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34589315 GAAACCTTAC
34589325 AAAAAAAAAAAAAAACACAA
1 AAAAAAAAAAAAAAACACAA
34589345 AAAAAAAAAAAAAAACACA
1 AAAAAAAAAAAAAAACACA
34589364 TTGCCAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAACACAA
Found at i:34589461 original size:4 final size:4
Alignment explanation
Indices: 34589452--34589477 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
34589442 TAAAACAAAA
34589452 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
34589478 TCCTTTGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:34599281 original size:18 final size:18
Alignment explanation
Indices: 34599245--34599284 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34599235 CATCTCTCAA
*
34599245 CTCACTTACAAGTATAAT
1 CTCACTTACAAGTACAAT
*
34599263 CTCACTTACAAGTGCAAT
1 CTCACTTACAAGTACAAT
34599281 CTCA
1 CTCA
34599285 TTTTCAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (18 bp):
CTCACTTACAAGTACAAT
Found at i:34602481 original size:48 final size:48
Alignment explanation
Indices: 34602380--34602597 Score: 219
Period size: 48 Copynumber: 4.5 Consensus size: 48
34602370 TCGAGAACAT
* * *
34602380 ATGAGATTTTTAAAGTTGTTAAGCCTCTACTTGAG-GTA-TTTTTTCAAG
1 ATGA-ATTTTTAAAGTTGTTGAGCCTCTA-TTGAGAGGAGCTTTTTCAAG
* * *
34602428 ATGAATTTTTACAGTTGTTGAGCTTCTATTGAGAGGAGCTTTTTCAGG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAG
* *
34602476 ATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCTCAAT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGC-TTTT-TCAAG
* * * * *
34602526 ATGAGTTTTTTAAAATTGTTGAACCTCTACTT-AGATGAGTTTTTTTCAAG
1 ATGA-ATTTTTAAAGTTGTTGAGCCTCTA-TTGAGAGGAG-CTTTTTCAAG
34602576 ATG-ATTCTTTAAAGTTGTTGAG
1 ATGAATT-TTTAAAGTTGTTGAG
34602598 TCTTTACTTA
Statistics
Matches: 141, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
46 5 0.04
47 23 0.16
48 50 0.35
49 17 0.12
50 14 0.10
51 31 0.22
52 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (48 bp):
ATGAATTTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTCAAG
Found at i:34602665 original size:44 final size:43
Alignment explanation
Indices: 34602611--34602700 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
34602601 TTACTTAGAA
* * *
34602611 GAGCCCTTTTATATTTTCAAAAGTTATTGAA-TCTCTGCTTAAAG
1 GAGCCCTTTTAAATTTT-AAAAGTCATT-AAGCCTCTGCTTAAAG
* *
34602655 GAGCCTTTTTAAATTTTTAAAGTCATTAAGCCTCTGCTTAAAG
1 GAGCCCTTTTAAATTTTAAAAGTCATTAAGCCTCTGCTTAAAG
34602698 GAG
1 GAG
34602701 TTTTTTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
42 2 0.05
43 23 0.57
44 15 0.38
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (43 bp):
GAGCCCTTTTAAATTTTAAAAGTCATTAAGCCTCTGCTTAAAG
Found at i:34602677 original size:43 final size:43
Alignment explanation
Indices: 34602583--34602700 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
34602573 AAGATGATTC
* * * * *
34602583 TTTAAAGTTGTTGAGTCTTTACTTAGAA-GAGCCCTTTTATATT
1 TTTAAAGTTATTGAATCTCTGCTTA-AAGGAGCCCTTTTAAATT
* *
34602626 TTCAAAAGTTATTGAATCTCTGCTTAAAGGAGCCTTTTTAAATT
1 TT-TAAAGTTATTGAATCTCTGCTTAAAGGAGCCCTTTTAAATT
* *
34602670 TTTAAAGTCATT-AAGCCTCTGCTTAAAGGAG
1 TTTAAAGTTATTGAA-TCTCTGCTTAAAGGAG
34602701 TTTTTTTTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 2 0.03
43 27 0.44
44 33 0.53
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (43 bp):
TTTAAAGTTATTGAATCTCTGCTTAAAGGAGCCCTTTTAAATT
Found at i:34602835 original size:51 final size:49
Alignment explanation
Indices: 34602774--34602894 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 49
34602764 TTTAAAGTCG
* *
34602774 TTGAACCTCTGCTTAAATGAGCTTTTTCTCAATATGAATTTTTTAAAATTA
1 TTGAACCTCTGCTTAAATGA-ATTTTTCTCAAGATG-ATTTTTTAAAATTA
* * *
34602825 TTGAACCTCTGCTTAGAA-GAATTTTTTTCAAGATGATTTTTTAAAGTTG
1 TTGAACCTCTGCTTA-AATGAATTTTTCTCAAGATGATTTTTTAAAATTA
* * *
34602874 TTGAGCTTCTCCTTAAATGAA
1 TTGAACCTCTGCTTAAATGAA
34602895 CCCTTTTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.03
49 27 0.45
50 12 0.20
51 17 0.28
52 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (49 bp):
TTGAACCTCTGCTTAAATGAATTTTTCTCAAGATGATTTTTTAAAATTA
Found at i:34602840 original size:94 final size:94
Alignment explanation
Indices: 34602624--34602841 Score: 276
Period size: 94 Copynumber: 2.3 Consensus size: 94
34602614 CCCTTTTATA
* * * *
34602624 TTTTCAAAAGTTATTGAATCTCTGCTTAAAGGAGCCTTTTTAAATTTTTAAAGTCATTAAGCCTC
1 TTTTTAAAA-TTATTGAACCTCTGCTTAGAGGAGCCCTTTTAAATTTTTAAAGTCATTAAGCCTC
* *
34602689 TGCTTAAAGGAGTTTTTTTTCAATATAAAT
65 TGCTTAAAGGAGCTTTTTCTCAATATAAAT
* * * * * * *
34602719 TTTTTAAAGTTGTTGAGCCTTTACTTAGATGAGCCCTTTTAAATTTTTAAAGTCGTTGAA-CCTC
1 TTTTTAAAATTATTGAACCTCTGCTTAGAGGAGCCCTTTTAAATTTTTAAAGTCATT-AAGCCTC
* *
34602783 TGCTTAAATGAGCTTTTTCTCAATATGAAT
65 TGCTTAAAGGAGCTTTTTCTCAATATAAAT
34602813 TTTTTAAAATTATTGAACCTCTGCTTAGA
1 TTTTTAAAATTATTGAACCTCTGCTTAGA
34602842 AGAATTTTTT
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
94 93 0.91
95 9 0.09
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (94 bp):
TTTTTAAAATTATTGAACCTCTGCTTAGAGGAGCCCTTTTAAATTTTTAAAGTCATTAAGCCTCT
GCTTAAAGGAGCTTTTTCTCAATATAAAT
Found at i:34603361 original size:21 final size:21
Alignment explanation
Indices: 34603336--34603377 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34603326 AAACCCTACA
*
34603336 AAAAAATTATAAAAAAAAACAT
1 AAAAAA-TAGAAAAAAAAACAT
*
34603358 AAAAAATAGATAAAAAAACA
1 AAAAAATAGAAAAAAAAACA
34603378 CACTGTCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAAATAGAAAAAAAAACAT
Found at i:34606207 original size:23 final size:23
Alignment explanation
Indices: 34606164--34606208 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
34606154 TTTCATGGAG
34606164 TTTTTTAAATGAAATTTATAAAGT
1 TTTTTTAAAT-AAATTTATAAAGT
34606188 TTTTTTAAAT-AATTTAATAAA
1 TTTTTTAAATAAATTT-ATAAA
34606209 AATTTAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 5 0.25
24 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TTTTTTAAATAAATTTATAAAGT
Found at i:34610196 original size:13 final size:14
Alignment explanation
Indices: 34610162--34610193 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
34610152 AATTTTTTAT
34610162 TAAAAATTATTAAA
1 TAAAAATTATTAAA
34610176 TAAAAATT-TT-AA
1 TAAAAATTATTAAA
34610188 TAAAAA
1 TAAAAA
34610194 ATTACATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAAATTATTAAA
Found at i:34610439 original size:13 final size:13
Alignment explanation
Indices: 34610408--34610449 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
34610398 TAATGAAATT
*
34610408 TTTTAATTTATTGA
1 TTTTAATTT-TTAA
34610422 TTTTAATTTTTAA
1 TTTTAATTTTTAA
34610435 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
34610447 TTT
1 TTT
34610450 ATTCATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:34612574 original size:32 final size:34
Alignment explanation
Indices: 34612519--34612605 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 34
34612509 ATTAAAAAAG
* *
34612519 TATTTTTATTATAATGGGATAAGATTCATTTGTTT
1 TATTTTTA-TATAATGGGATAAGATCCATTTATTT
34612554 TATTTTTA-ATAAT-GGATAAGATCCATTTATTT
1 TATTTTTATATAATGGGATAAGATCCATTTATTT
**
34612586 TATTACT-TATAATGGGATAA
1 TATTTTTATATAATGGGATAA
34612606 AATTTATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 27 0.59
33 11 0.24
35 8 0.17
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (34 bp):
TATTTTTATATAATGGGATAAGATCCATTTATTT
Found at i:34613642 original size:4 final size:4
Alignment explanation
Indices: 34613624--34613659 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
34613614 ATATGCCATC
*
34613624 ATTA A-TA ACTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
34613660 CGTGACAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (4 bp):
ATTA
Found at i:34614050 original size:2 final size:2
Alignment explanation
Indices: 34614043--34614072 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
34614033 ACGTTCCTAC
34614043 TA TA TA TA TA CTA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T
34614073 GTATCCACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34614634 original size:18 final size:19
Alignment explanation
Indices: 34614606--34614651 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
34614596 AACCGAATTG
34614606 AATTTTT-TATTTTTAT-T-
1 AATTTTTATATTTTT-TGTA
34614623 AATTTTTATATTTTTTGTA
1 AATTTTTATATTTTTTGTA
34614642 AATTTTTATA
1 AATTTTTATA
34614652 AAATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
AATTTTTATATTTTTTGTA
Found at i:34614693 original size:12 final size:11
Alignment explanation
Indices: 34614676--34614726 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 11
34614666 TTTTATACTT
*
34614676 AAATATATTTA
1 AAATATATTAA
34614687 AAA-ATATTAA
1 AAATATATTAA
*
34614697 AATTTATATTAAA
1 AA-ATATATT-AA
34614710 ATAATATATTAA
1 A-AATATATTAA
34614722 AAATA
1 AAATA
34614727 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 8 0.24
11 7 0.21
12 8 0.24
13 9 0.27
14 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATATATTAA
Found at i:34614719 original size:13 final size:12
Alignment explanation
Indices: 34614678--34614723 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
34614668 TTATACTTAA
*
34614678 ATATATTTAAA-
1 ATATATTAAAAT
34614689 A-ATATTAAAAT
1 ATATATTAAAAT
*
34614700 TTATATTAAAAT
1 ATATATTAAAAT
34614712 AATATATTAAAA
1 -ATATATTAAAA
34614724 ATAAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 8 0.28
11 1 0.03
12 10 0.34
13 10 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATTAAAAT
Found at i:34614727 original size:14 final size:13
Alignment explanation
Indices: 34614690--34614723 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
34614680 ATATTTAAAA
*
34614690 ATATTAAAAT-TT
1 ATATTAAAATAAT
34614702 ATATTAAAATAAT
1 ATATTAAAATAAT
34614715 ATATTAAAA
1 ATATTAAAA
34614724 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATTAAAATAAT
Found at i:34615173 original size:2 final size:2
Alignment explanation
Indices: 34615166--34615203 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
34615156 ATGATAAAAG
*
34615166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34615204 TGACCTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34615979 original size:14 final size:14
Alignment explanation
Indices: 34615960--34615988 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34615950 TATTATAAAA
34615960 AAATTACAAATTTT
1 AAATTACAAATTTT
34615974 AAATTACAAATTTT
1 AAATTACAAATTTT
34615988 A
1 A
34615989 TTTTTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTACAAATTTT
Found at i:34618399 original size:14 final size:15
Alignment explanation
Indices: 34618380--34618424 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
34618370 GTATGCATGT
34618380 AAATATT-TTTAAAA
1 AAATATTATTTAAAA
34618394 AAATATTATTTAAAA
1 AAATATTATTTAAAA
* *
34618409 AATTTATAATTTAAAA
1 AA-ATATTATTTAAAA
34618425 TTTAACATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 7 0.26
15 9 0.33
16 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATTATTTAAAA
Found at i:34627160 original size:13 final size:13
Alignment explanation
Indices: 34627142--34627166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34627132 GGTTAGTAAA
34627142 TAGCTTAATATAG
1 TAGCTTAATATAG
34627155 TAGCTTAATATA
1 TAGCTTAATATA
34627167 TTCATTTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TAGCTTAATATAG
Found at i:34630647 original size:39 final size:38
Alignment explanation
Indices: 34630597--34630680 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
34630587 CACTGAACAG
*
34630597 AAATCTCAGTTGCTGACA-CAGAAAGAGTACAT-TGAAGAA
1 AAATCTAAGTTGCTGACACCA-AAAGAG--CATCTGAAGAA
* *
34630636 AAATCTAAGTTGGTGGCACCAAAAGAGCATGCTGAAGAA
1 AAATCTAAGTTGCTGACACCAAAAGAGCAT-CTGAAGAA
34630675 AAATCT
1 AAATCT
34630681 GTGTCGCTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
37 3 0.08
39 34 0.87
40 2 0.05
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.20
Consensus pattern (38 bp):
AAATCTAAGTTGCTGACACCAAAAGAGCATCTGAAGAA
Found at i:34630741 original size:39 final size:39
Alignment explanation
Indices: 34630652--34630760 Score: 110
Period size: 39 Copynumber: 2.8 Consensus size: 39
34630642 AAGTTGGTGG
** * ** * **
34630652 CACCAAAAGAGCATGCTGAAGAAAAATCTGTGTCGCTGA
1 CACCAAAAGAATACGCTGAAGAAAAATCTCAGCCGCCAA
* * *
34630691 CGCCAATAGAATGCGCTGAAGAAAAATCTCAGCCGCCAA
1 CACCAAAAGAATACGCTGAAGAAAAATCTCAGCCGCCAA
*
34630730 CACCAAAAGAATACACTGAAGAAAAATCTCA
1 CACCAAAAGAATACGCTGAAGAAAAATCTCA
34630761 TTTGTCAACT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (39 bp):
CACCAAAAGAATACGCTGAAGAAAAATCTCAGCCGCCAA
Found at i:34637433 original size:29 final size:29
Alignment explanation
Indices: 34637391--34637452 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
34637381 TTTACATAGT
34637391 TTATAGTTTGCTTATACAGATGGTCCCTA
1 TTATAGTTTGCTTATACAGATGGTCCCTA
34637420 TTATAGTTTGCTTATACAGATGGTCCCTA
1 TTATAGTTTGCTTATACAGATGGTCCCTA
34637449 TTAT
1 TTAT
34637453 CTATTTCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (29 bp):
TTATAGTTTGCTTATACAGATGGTCCCTA
Found at i:34656282 original size:18 final size:18
Alignment explanation
Indices: 34656261--34656312 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
34656251 AATAATTTAT
34656261 ATATTTATATTATAAAAA
1 ATATTTATATTATAAAAA
* *
34656279 ATATTAAAATTTATACAAAA
1 ATATTTATA-TTATA-AAAA
*
34656299 AT-TATATATTATAA
1 ATATTTATATTATAA
34656313 TTTATACTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
17 1 0.04
18 12 0.44
19 8 0.30
20 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTTATATTATAAAAA
Found at i:34659134 original size:26 final size:27
Alignment explanation
Indices: 34659072--34659137 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
34659062 TCAGGACTCA
34659072 TAATTTGATTATTGTAAAATTGAAGTTTT
1 TAATTT-ATT-TTGTAAAATTGAAGTTTT
*
34659101 TATGTTTATTTT-TAAATATTGAA-TTTT
1 TA-ATTTATTTTGTAAA-ATTGAAGTTTT
34659128 TAATTTATTT
1 TAATTTATTT
34659138 CATTACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 7 0.21
27 10 0.30
28 8 0.24
29 5 0.15
30 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (27 bp):
TAATTTATTTTGTAAAATTGAAGTTTT
Found at i:34664921 original size:2 final size:2
Alignment explanation
Indices: 34664914--34664945 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34664904 GTCTAAATAC
34664914 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34664946 TATTTGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34666629 original size:2 final size:2
Alignment explanation
Indices: 34666622--34666653 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34666612 ATATTTTCAT
34666622 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
34666654 ATGTACTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:34669527 original size:12 final size:12
Alignment explanation
Indices: 34669510--34669540 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
34669500 GAGTGGTTGA
34669510 TATGTTTTGATG
1 TATGTTTTGATG
34669522 TATGTTTTGATG
1 TATGTTTTGATG
34669534 TATGTTT
1 TATGTTT
34669541 GTAATTCTCT
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:0.00, G:0.23, T:0.61
Consensus pattern (12 bp):
TATGTTTTGATG
Found at i:34669745 original size:25 final size:25
Alignment explanation
Indices: 34669717--34669802 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
34669707 CGAAGGTTTG
34669717 AGACATGAAAAAAGCTAAAGGTTCA
1 AGACATGAAAAAAGCTAAAGGTTCA
* * * *
34669742 AGACGTGAGAAAAGTTGAAGGTTCGA
1 AGACATGAAAAAAGCTAAAGGTTC-A
* * *
34669768 A-ACGTGAAAAAAGCTAATGATTCA
1 AGACATGAAAAAAGCTAAAGGTTCA
*
34669792 AGCCATGAAAA
1 AGACATGAAAA
34669803 GAAGTAAGTC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
24 2 0.04
25 44 0.92
26 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.23, T:0.17
Consensus pattern (25 bp):
AGACATGAAAAAAGCTAAAGGTTCA
Found at i:34673458 original size:20 final size:20
Alignment explanation
Indices: 34673435--34673478 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
34673425 AATATTATTC
* * *
34673435 TTTTCATAAATAACATTTTA
1 TTTTAATAAATAAAATTTAA
*
34673455 TTTTAATAATTAAAATTTAA
1 TTTTAATAAATAAAATTTAA
34673475 TTTT
1 TTTT
34673479 TGATAAATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAATAAATAAAATTTAA
Found at i:34674280 original size:372 final size:370
Alignment explanation
Indices: 34673563--34675223 Score: 2244
Period size: 372 Copynumber: 4.5 Consensus size: 370
34673553 AAAAGTCATT
* *
34673563 AATCCCACATCGAACATAATAGGAGGGTCACTAGGGTATATAAGGGTTCACACCACCTCCACCTT
1 AATCCCACATCGAACATAATAGGAGGGTCACTGGGGTATATAAGGGTTCACACCACCTCCGCCTT
* * *
34673628 GTGAGGCGCTTTTTGTAGGATAAAATCGTGAGGTCA-GGGGGCCAGAGCAGACAATACCTCACAA
66 GTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGCCAGGGGGGCCAGAGCGGACAATACCTCACAA
* *
34673692 GGGTGTGAACCGTGACGGTCAGGCTAATTCGAGACACTGAAATGGTGAATGCCCGGGTCCCGGAG
131 GGGTGTGAACCGTG-CGGTCAGGCTAATTCGAGACACCGAAAGGGTGAATGCCCGGGTCCCGGAG
* * * *
34673757 CCACACGGGTTTGGAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACCGC
195 CCACGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACCGT
* * * * **
34673822 TCGATCCACGTCAAGTACCTCGAGAGAGGTAGACAGGGTGGCCAGCCTCCGTGACGAAAACGTCA
260 TCGATCCACGTCAAGCACCTCGAGGGAGGTAGGCAGGGTGACCAGCCTCCGTGACGAAGGCGTCA
* * *
34673887 TGAGGTTGGGTGCGGGAGAATGTCACGGACTTAAGGAAGAGTCCTG
325 CGAGGTTGGGTGCAGGAGAATGTCACGGACCTAAGGAAGAGTCCTG
* * *
34673933 AATCTCACATTGAATATAATAGGAGGGTCACTGGGGGTATATAAGGGTTCACACCACCTCCGCCT
1 AATCCCACATCGAACATAATAGGAGGGTCACT-GGGGTATATAAGGGTTCACACCACCTCCGCCT
* * *
34673998 TGTGAGACGCCTTTTGTAGGACAAAA-CTGTGAGGCCAGGGGGGCCAGAGCGGACAATACCTTAC
65 TGTGAGGCGCCTTTTGTAGGATAAAATC-GTGAGGCCAGGGGGGCCAGAGCGGACAATACCTCAC
* *
34674062 AAGGGTGTGAACCGTAGCGGTCAGGCTAATTCGAGACACCGGAAGGGTGAATGCTCGGGTCCCGG
129 AAGGGTGTGAACCGT-GCGGTCAGGCTAATTCGAGACACCGAAAGGGTGAATGCCCGGGTCCCGG
* * *
34674127 AGCCACGCGGGTTCGGAGCTTAAGTCTCGACTCGTGACAAGTGGTATCAGAGCCAGTCCTATACC
193 AGCCACGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACC
* * * * *
34674192 ATTCGATCCACGTCAAGCACCTCGAGGGAGATAGGCAGGGTGACCGGCCTTCGTGACGAGGGCGT
258 GTTCGATCCACGTCAAGCACCTCGAGGGAGGTAGGCAGGGTGACCAGCCTCCGTGACGAAGGCGT
* * *
34674257 CACGAGGTTAGGTGCAGGAGAATGTCACGGACCTAATGAAGAGTCTTG
323 CACGAGGTTGGGTGCAGGAGAATGTCACGGACCTAAGGAAGAGTCCTG
* * * * **
34674305 AATCCCACATCGAACATAATAGGAAGGTCATTGGGGTATAAAAGGGTTCACACCATCTCAACCTT
1 AATCCCACATCGAACATAATAGGAGGGTCACTGGGGTATATAAGGGTTCACACCACCTCCGCCTT
* *
34674370 GTGAGGCACCTTTTGTAGGATAAAATCGTGAGGCCAGAGGGGGTCAGAGCGGACAATACCTCACA
66 GTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGCCAG-GGGGGCCAGAGCGGACAATACCTCACA
* * ** * *
34674435 AGGGTGTGAACCGTGGCGGTCAGACTGATTTAAGA-AGTCGAAAGGGTGAATGCCCGGGTCTCGG
130 AGGGTGTGAACCGT-GCGGTCAGGCTAATTCGAGACA-CCGAAAGGGTGAATGCCCGGGTCCCGG
* * * *
34674499 AGCCGCGCGAGCTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAACCCTAAACC
193 AGCCACGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACC
* * * *
34674564 GTTAGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTGGCCAGCCTCCGTGACGAAGGTGT
258 GTTCGATCCACGTCAAGCACCTCGAGGGAGGTAGGCAGGGTGACCAGCCTCCGTGACGAAGGCGT
* *
34674629 CACAAGGTTGGGTGC-GAGAGAATGTCACGGACCTAAGGAGGAGTCCTG
323 CACGAGGTTGGGTGCAG-GAGAATGTCACGGACCTAAGGAAGAGTCCTG
* * *
34674677 AATCCCACATCGAACATAATAGGAGGGTC-CTTAGGGTATAAAAGGGTTCACACCATCTCCGCCT
1 AATCCCACATCGAACATAATAGGAGGGTCAC-TGGGGTATATAAGGGTTCACACCACCTCCGCCT
* * *
34674741 TGTGAGGCGTCTTTTGTAGGATAAAATCTTGAGGCCAAGGGGGCCAGAGCGGACAATACCTCACA
65 TGTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGCCAGGGGGGCCAGAGCGGACAATACCTCACA
* * * * ** * * *
34674806 AGGGTGTGAACCGTGGCGG-AAGGCTGA-TCTAG-GA-CG-TCGCGTGAATGCTCAGGTCCCGGA
130 AGGGTGTGAACCGT-GCGGTCAGGCTAATTCGAGACACCGAAAGGGTGAATGCCCGGGTCCCGGA
** * *
34674866 GCCGTGCGGGTTCGGAGCTTAAGTCTCGACTCGTGACAAGTGATATCAGAGCCAGCCCTAAACCG
194 GCCACGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACCG
* * *
34674931 TTCGATCTACGTCAAGCACCTCAAGGGAGGTAGGCAGGGTGACCAGCCTCCGTGACGAGGGCGTC
259 TTCGATCCACGTCAAGCACCTCGAGGGAGGTAGGCAGGGTGACCAGCCTCCGTGACGAAGGCGTC
*
34674996 ACGAGGTTGGGTACAGGAGAATGTCACGGACCTAAGGAAGAGTCCTG
324 ACGAGGTTGGGTGCAGGAGAATGTCACGGACCTAAGGAAGAGTCCTG
* * *
34675043 AATCCCACATCGAACATAATAGGAAGGTCACTGGGATATATAAGGGTTCACACCACCTCCGTCTT
1 AATCCCACATCGAACATAATAGGAGGGTCACTGGGGTATATAAGGGTTCACACCACCTCCGCCTT
* * * * * *
34675108 GTGAGACGTCTTTTGTAAGACAAAATCGTGAGGTCAGGGGGGCCAGAACGGACAATACCTCACAA
66 GTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGCCAGGGGGGCCAGAGCGGACAATACCTCACAA
* * ** * *
34675173 GGGTGTGAATCGTGACGGTTAAACTAATTCGAGACATCAAAAGGGTGAATG
131 GGGTGTGAACCGTG-CGGTCAGGCTAATTCGAGACACCGAAAGGGTGAATG
34675224 TCTGGATCTC
Statistics
Matches: 1130, Mismatches: 143, Indels: 35
0.86 0.11 0.03
Matches are distributed among these distances:
365 1 0.00
366 307 0.27
367 8 0.01
368 4 0.00
369 5 0.00
370 37 0.03
371 177 0.16
372 590 0.52
373 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (370 bp):
AATCCCACATCGAACATAATAGGAGGGTCACTGGGGTATATAAGGGTTCACACCACCTCCGCCTT
GTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGCCAGGGGGGCCAGAGCGGACAATACCTCACAA
GGGTGTGAACCGTGCGGTCAGGCTAATTCGAGACACCGAAAGGGTGAATGCCCGGGTCCCGGAGC
CACGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACCGTT
CGATCCACGTCAAGCACCTCGAGGGAGGTAGGCAGGGTGACCAGCCTCCGTGACGAAGGCGTCAC
GAGGTTGGGTGCAGGAGAATGTCACGGACCTAAGGAAGAGTCCTG
Found at i:34675111 original size:738 final size:743
Alignment explanation
Indices: 34673563--34675223 Score: 2401
Period size: 738 Copynumber: 2.2 Consensus size: 743
34673553 AAAAGTCATT
*
34673563 AATCCCACATCGAACATAATAGGAGGGTCACTAGGGTATATAAGGGTTCACACCACCTCCACCTT
1 AATCCCACATCGAACATAATAGGAAGGTCACT-GGGTATATAAGGGTTCACACCACCTCCACCTT
* *
34673628 GTGAGGCGCTTTTTGTAGGATAAAATCGTGAGGTC--AGGGGGCCAGAGCAGACAATACCTCACA
65 GTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGTCAGAGGGGGCCAGAGCGGACAATACCTCACA
* * *
34673691 AGGGTGTGAACCGTGACGGTCAGGCTAATTCGAGACACTGAAATGGTGAATGCCCGGGTCCCGGA
130 AGGGTGTGAACCGTGACGGTCAGACTAATTCAAGACACTGAAAGGGTGAATGCCCGGGTCCCGGA
* * * * *
34673756 GCCACACGGGTTTGGAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCCTAAACCG
195 GCCACACGAGCTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAACCCTAAACCG
* * *
34673821 CTCGATCCACGTCAAGTACCTCGAGAGAGGTAGACAGGGTGGCCAGCCTCCGTGACGAAAACGTC
260 CTAGATCCACGCCAAGCACCTCGAGAGAGGTAGACAGGGTGGCCAGCCTCCGTGACGAAAACGTC
** * * * * *
34673886 ATGAGGTTGGGTGCGGGAGAATGTCACGGACTTAAGGAAGAGTCCTGAATCTCACATTGAATATA
325 ACAAGGTTGGGTGCGAGAGAATGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATA
* *
34673951 ATAGGAGGGTCACTGGGGGTATATAAGGGTTCACACCACCTCCGCCTTGTGAGACGCCTTTTGTA
390 ATAGGAGGGTCACTGAGGGTATAAAAGGGTTCACACCACCTCCGCCTTGTGAGACGCCTTTTGTA
* *
34674016 GGACAAAACTGTGAGGCCAGGGGGGCCAGAGCGGACAATACCTTACAAGGGTGTGAACCGTAGCG
455 GGACAAAACTGTGAGGCCAAGGGGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCG
* * *
34674081 GTCAGGCTAATTCGAGACACCGGAAGGGTGAATGCTCGGGTCCCGGAGCCACGCGGGTTCGGAGC
520 GTAAGGCTAATTCGAGACACCGGAAGCGTGAATGCTCAGGTCCCGGAGCCACGCGGGTTCGGAGC
* * *
34674146 TTAAGTCTCGACTCGTGACAAGTGGTATCAGAGCCAGTCCTATACCATTCGATCCACGTCAAGCA
585 TTAAGTCTCGACTCGTGACAAGTGATATCAGAGCCAGCCCTAAACCATTCGATCCACGTCAAGCA
* * * *
34674211 CCTCGAGGGAGATAGGCAGGGTGACCGGCCTTCGTGACGAGGGCGTCACGAGGTTAGGTGCAGGA
650 CCTCAAGGGAGATAGGCAGGGTGACCAGCCTCCGTGACGAGGGCGTCACGAGGTTAGGTACAGGA
* *
34674276 GAATGTCACGGACCTAATGAAGAGTCTTG
715 GAATGTCACGGACCTAAGGAAGAGTCCTG
* * * *
34674305 AATCCCACATCGAACATAATAGGAAGGTCATTGGGGTATAAAAGGGTTCACACCATCTCAACCTT
1 AATCCCACATCGAACATAATAGGAAGGTCACT-GGGTATATAAGGGTTCACACCACCTCCACCTT
* * *
34674370 GTGAGGCACCTTTTGTAGGATAAAATCGTGAGGCCAGAGGGGGTCAGAGCGGACAATACCTCACA
65 GTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGTCAGAGGGGGCCAGAGCGGACAATACCTCACA
* * * * *
34674435 AGGGTGTGAACCGTGGCGGTCAGACTGATTTAAGA-AGTCGAAAGGGTGAATGCCCGGGTCTCGG
130 AGGGTGTGAACCGTGACGGTCAGACTAATTCAAGACACT-GAAAGGGTGAATGCCCGGGTCCCGG
* *
34674499 AGCCGCGCGAGCTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAACCCTAAACC
194 AGCCACACGAGCTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAACCCTAAACC
* * * ***
34674564 GTTAGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTGGCCAGCCTCCGTGACGAAGGTGT
259 GCTAGATCCACGCCAAGCACCTCGAGAGAGGTAGACAGGGTGGCCAGCCTCCGTGACGAAAACGT
*
34674629 CACAAGGTTGGGTGCGAGAGAATGTCACGGACCTAAGGAGGAGTCCTGAATCCCACATCGAACAT
324 CACAAGGTTGGGTGCGAGAGAATGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACAT
* * * *
34674694 AATAGGAGGGTC-CTTAGGGTATAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGTCTTTTGT
389 AATAGGAGGGTCACTGAGGGTATAAAAGGGTTCACACCACCTCCGCCTTGTGAGACGCCTTTTGT
* *
34674758 AGGATAAAATCT-TGAGGCCAAGGGGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGG
454 AGGACAAAA-CTGTGAGGCCAAGGGGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTAG
* * * ** **
34674822 CGG-AAGGCTGA-TCTAG-GA-C-GTCGCGTGAATGCTCAGGTCCCGGAGCCGTGCGGGTTCGGA
518 CGGTAAGGCTAATTCGAGACACCGGAAGCGTGAATGCTCAGGTCCCGGAGCCACGCGGGTTCGGA
* *
34674882 GCTTAAGTCTCGACTCGTGACAAGTGATATCAGAGCCAGCCCTAAACCGTTCGATCTACGTCAAG
583 GCTTAAGTCTCGACTCGTGACAAGTGATATCAGAGCCAGCCCTAAACCATTCGATCCACGTCAAG
* *
34674947 CACCTCAAGGGAGGTAGGCAGGGTGACCAGCCTCCGTGACGAGGGCGTCACGAGGTTGGGTACAG
648 CACCTCAAGGGAGATAGGCAGGGTGACCAGCCTCCGTGACGAGGGCGTCACGAGGTTAGGTACAG
34675012 GAGAATGTCACGGACCTAAGGAAGAGTCCTG
713 GAGAATGTCACGGACCTAAGGAAGAGTCCTG
**
34675043 AATCCCACATCGAACATAATAGGAAGGTCACTGGGATATATAAGGGTTCACACCACCTCCGTCTT
1 AATCCCACATCGAACATAATAGGAAGGTCACTGGG-TATATAAGGGTTCACACCACCTCCACCTT
* * * * *
34675108 GTGAGACGTCTTTTGTAAGACAAAATCGTGAGGTCAG-GGGGGCCAGAACGGACAATACCTCACA
65 GTGAGGCGCCTTTTGTAGGATAAAATCGTGAGGTCAGAGGGGGCCAGAGCGGACAATACCTCACA
* * * * *
34675172 AGGGTGTGAATCGTGACGGTTAAACTAATTCGAGACA-TCAAAAGGGTGAATG
130 AGGGTGTGAACCGTGACGGTCAGACTAATTCAAGACACT-GAAAGGGTGAATG
34675224 TCTGGATCTC
Statistics
Matches: 815, Mismatches: 98, Indels: 17
0.88 0.11 0.02
Matches are distributed among these distances:
737 70 0.09
738 270 0.33
739 1 0.00
740 1 0.00
741 4 0.00
742 97 0.12
743 108 0.13
744 264 0.32
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (743 bp):
AATCCCACATCGAACATAATAGGAAGGTCACTGGGTATATAAGGGTTCACACCACCTCCACCTTG
TGAGGCGCCTTTTGTAGGATAAAATCGTGAGGTCAGAGGGGGCCAGAGCGGACAATACCTCACAA
GGGTGTGAACCGTGACGGTCAGACTAATTCAAGACACTGAAAGGGTGAATGCCCGGGTCCCGGAG
CCACACGAGCTCGGAGCTTAAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAACCCTAAACCGC
TAGATCCACGCCAAGCACCTCGAGAGAGGTAGACAGGGTGGCCAGCCTCCGTGACGAAAACGTCA
CAAGGTTGGGTGCGAGAGAATGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAA
TAGGAGGGTCACTGAGGGTATAAAAGGGTTCACACCACCTCCGCCTTGTGAGACGCCTTTTGTAG
GACAAAACTGTGAGGCCAAGGGGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTAGCGG
TAAGGCTAATTCGAGACACCGGAAGCGTGAATGCTCAGGTCCCGGAGCCACGCGGGTTCGGAGCT
TAAGTCTCGACTCGTGACAAGTGATATCAGAGCCAGCCCTAAACCATTCGATCCACGTCAAGCAC
CTCAAGGGAGATAGGCAGGGTGACCAGCCTCCGTGACGAGGGCGTCACGAGGTTAGGTACAGGAG
AATGTCACGGACCTAAGGAAGAGTCCTG
Found at i:34684300 original size:25 final size:25
Alignment explanation
Indices: 34684266--34684334 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
34684256 CTTTTTTCAC
34684266 GTCTCGAACCTTCAACTCTTCTCAT
1 GTCTCGAACCTTCAACTCTTCTCAT
* * * *
34684291 GTCTTGAACCTTTAGCTTTTCTCAT
1 GTCTCGAACCTTCAACTCTTCTCAT
*
34684316 GTCTCAAACCTTCAACTCT
1 GTCTCGAACCTTCAACTCT
34684335 GATATCATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.32, G:0.09, T:0.39
Consensus pattern (25 bp):
GTCTCGAACCTTCAACTCTTCTCAT
Found at i:34684307 original size:50 final size:49
Alignment explanation
Indices: 34684233--34684334 Score: 141
Period size: 50 Copynumber: 2.1 Consensus size: 49
34684223 TGGACTTACT
* * *
34684233 TCTTCCATGGCTTGAATCATTAGCTTTTTTCACGTCTCGAACCTTCAAC
1 TCTTCCATGGCTTGAACCATTAGCTTTTCTCACGTCTCAAACCTTCAAC
* * *
34684282 TCTTCTCATGTCTTGAACCTTTAGCTTTTCTCATGTCTCAAACCTTCAAC
1 TCTTC-CATGGCTTGAACCATTAGCTTTTCTCACGTCTCAAACCTTCAAC
34684332 TCT
1 TCT
34684335 GATATCATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 5 0.11
50 41 0.89
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (49 bp):
TCTTCCATGGCTTGAACCATTAGCTTTTCTCACGTCTCAAACCTTCAAC
Found at i:34687384 original size:2 final size:2
Alignment explanation
Indices: 34687377--34687410 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34687367 TACAGTACAT
34687377 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34687411 ATGAAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34689094 original size:2 final size:2
Alignment explanation
Indices: 34689087--34689112 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34689077 ATAACAAATA
34689087 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
34689113 GTATTTAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:34694917 original size:26 final size:27
Alignment explanation
Indices: 34694888--34694953 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
34694878 TTTTGTAATG
34694888 AAATAAATTAAAAA-TTCAATATTTA-A
1 AAATAAATTAAAAACTTCAAT-TTTACA
*
34694914 AAATAAACATAAAAACTTCAATTTTACA
1 AAATAAA-TTAAAAACTTCAATTTTACA
34694942 ATAATCAAATTA
1 A-AAT-AAATTA
34694954 TGAGTCCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 7 0.21
27 10 0.30
28 8 0.24
29 5 0.15
30 3 0.09
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (27 bp):
AAATAAATTAAAAACTTCAATTTTACA
Found at i:34697759 original size:18 final size:18
Alignment explanation
Indices: 34697709--34697760 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
34697699 TTAGTATAAA
34697709 TTATAATATATAAT-TTTT
1 TTATAATATA-AATATTTT
* * *
34697727 GTATAAATTTTAATATTTT
1 TTAT-AATATAAATATTTT
34697746 TTATAATATAAATAT
1 TTATAATATAAATAT
34697761 ATAAATTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTATAATATAAATATTTT
Found at i:34703462 original size:14 final size:13
Alignment explanation
Indices: 34703430--34703479 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
34703420 ATAATATATC
*
34703430 ACAATAAACCCACA
1 ACAATAAA-CAACA
34703444 ACAATAAACAACA
1 ACAATAAACAACA
*
34703457 ATCAATAATCAACA
1 A-CAATAAACAACA
34703471 ACACATAAA
1 ACA-ATAAA
34703480 AAATAAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 7 0.23
14 24 0.77
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.12
Consensus pattern (13 bp):
ACAATAAACAACA
Found at i:34721916 original size:60 final size:59
Alignment explanation
Indices: 34721838--34721958 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 59
34721828 TAATTTAGAA
*
34721838 TTCAAGCTGTCTTAACTACTTTGCTTGCTAACAGTGAATTTTAAAATATGTCCCACTTTG
1 TTCAAGCTGTCTTAACTACTTTGCTTGCTAACAGTGAA-TTTAAAATATGTCACACTTTG
* * * *
34721898 TTCAAGCTGTGTTGACTACTTTGCTTGCTAACAGTGAATTTAAGATTTGTCACACTTTG
1 TTCAAGCTGTCTTAACTACTTTGCTTGCTAACAGTGAATTTAAAATATGTCACACTTTG
34721957 TT
1 TT
34721959 TCTGATTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 20 0.36
60 36 0.64
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (59 bp):
TTCAAGCTGTCTTAACTACTTTGCTTGCTAACAGTGAATTTAAAATATGTCACACTTTG
Found at i:34727909 original size:16 final size:16
Alignment explanation
Indices: 34727884--34727923 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
34727874 CGATAAACCA
34727884 ATGATAATGATGATTT
1 ATGATAATGATGATTT
*
34727900 ATGATGATGATGATTT
1 ATGATAATGATGATTT
34727916 ATGATAAT
1 ATGATAAT
34727924 TTTTAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:34753754 original size:24 final size:24
Alignment explanation
Indices: 34753727--34753773 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
34753717 ATCATTTTAT
*
34753727 ACTGCCTTTCTTGAAAACCAATAA
1 ACTGCCTTTCTGGAAAACCAATAA
*
34753751 ACTGCCTTTGTGGAAAACCAATA
1 ACTGCCTTTCTGGAAAACCAATA
34753774 TCCTGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (24 bp):
ACTGCCTTTCTGGAAAACCAATAA
Found at i:34761192 original size:16 final size:15
Alignment explanation
Indices: 34761159--34761193 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
34761149 TTTGTATTTG
*
34761159 ATTGTTTGTTTGTTT
1 ATTGTTTGTTTCTTT
34761174 ATTGTTTGTTTTCTTT
1 ATTGTTTG-TTTCTTT
34761190 ATTG
1 ATTG
34761194 GTGGTTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.09, C:0.03, G:0.17, T:0.71
Consensus pattern (15 bp):
ATTGTTTGTTTCTTT
Found at i:34764446 original size:3 final size:3
Alignment explanation
Indices: 34764433--34764463 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
34764423 TAAAACTTTT
*
34764433 TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
34764464 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:34771870 original size:2 final size:2
Alignment explanation
Indices: 34771863--34771887 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34771853 TCCCCCACTC
34771863 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
34771888 CTTCCTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:34787441 original size:58 final size:59
Alignment explanation
Indices: 34787351--34787468 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
34787341 TCCAAATATC
34787351 CCAAAACATTAATCCCATCAAACCTC-TTTTTTTTATTCCTTTACATCAAAAAAGGCTT
1 CCAAAACATTAATCCCATCAAACCTCTTTTTTTTTATTCCTTTACATCAAAAAAGGCTT
34787409 CCAAAACATTAATCCCATCAAACCTCTTTTTTTTTATTCCTTTACATCAAAAAAGGCTT
1 CCAAAACATTAATCCCATCAAACCTCTTTTTTTTTATTCCTTTACATCAAAAAAGGCTT
34787468 C
1 C
34787469 AGGTTTAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 26 0.44
59 33 0.56
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (59 bp):
CCAAAACATTAATCCCATCAAACCTCTTTTTTTTTATTCCTTTACATCAAAAAAGGCTT
Done.