Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 194 of 279
Found at i:63598145 original size:19 final size:20
Alignment explanation
Indices: 63598095--63598146 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
63598085 GGTATAAAGT
*
63598095 ATTT-TTTTATATTATTTTAA
1 ATTTATTTTAT-TTATTTAAA
*
63598115 ATTTATCATTATTT-TTTAAA
1 ATTTAT-TTTATTTATTTAAA
63598135 ATTTATTTTATT
1 ATTTATTTTATT
63598147 AATATATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.19
20 15 0.56
21 3 0.11
22 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTATTTTATTTATTTAAA
Found at i:63598800 original size:18 final size:16
Alignment explanation
Indices: 63598750--63598807 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 16
63598740 TTAACATGAT
63598750 ATATTTATTATATCTACA
1 ATATTTATTATAT-TA-A
63598768 ATATTTA-TATAATTAA
1 ATATTTATTAT-ATTAA
63598784 ATACTTTTATTATATT-A
1 ATA--TTTATTATATTAA
63598801 ATATTTA
1 ATATTTA
63598808 AGTAAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.11
16 4 0.11
17 9 0.25
18 16 0.44
19 3 0.08
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTTATTATATTAA
Found at i:63600259 original size:15 final size:15
Alignment explanation
Indices: 63600239--63600270 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
63600229 CATATCAAAA
63600239 CAACATTCAAGATAG
1 CAACATTCAAGATAG
63600254 CAACATTCAAGATAG
1 CAACATTCAAGATAG
63600269 CA
1 CA
63600271 CAACCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.12, T:0.19
Consensus pattern (15 bp):
CAACATTCAAGATAG
Found at i:63602460 original size:14 final size:14
Alignment explanation
Indices: 63602441--63602478 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
63602431 GAAGTAGAGG
*
63602441 AATTAAATTTATAA
1 AATTAAATTTAAAA
63602455 AATTAAA-TTAAAA
1 AATTAAATTTAAAA
63602468 AATTTAAATTT
1 AA-TTAAATTT
63602479 CAAATTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 7 0.33
14 12 0.57
15 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATTTAAAA
Found at i:63613877 original size:3 final size:3
Alignment explanation
Indices: 63613869--63614107 Score: 82
Period size: 3 Copynumber: 80.3 Consensus size: 3
63613859 AAATACAAAA
* * * *
63613869 AAT AAT AAT AAT AAT AGT AAT AAT -AC AAT AGT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * *
63613916 AAA AAT AGT AAT AAT AAT -GT ATT AAAT GGT AA- AAG AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* ** * * * * * *
63613960 AAC AAT AAT TTT AA- AAA AAT GAT AAT AGT TAT AA- AAT AA- GAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
63614005 AAT AAT ATT AAT AAA AAT AAG AAT GAA- AAG GAT AGT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * *
63614049 AAAT AAT AAT -AT ATAT GTAT GAAA AAT AAT AAT AGT AAAT AAT AAT
1 -AAT AAT AAT AAT A-AT -AAT -AAT AAT AAT AAT AAT -AAT AAT AAT
63614095 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
63614108 GAAGCAGTAC
Statistics
Matches: 167, Mismatches: 54, Indels: 30
0.67 0.22 0.12
Matches are distributed among these distances:
2 15 0.09
3 138 0.83
4 14 0.08
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63615833 original size:44 final size:44
Alignment explanation
Indices: 63615764--63616268 Score: 244
Period size: 44 Copynumber: 11.5 Consensus size: 44
63615754 CCAATGTCAT
* *
63615764 TTCAAGGAGA-A-GAGATTTGTAGCTTCGATCTACTCTGCTGGAAA
1 TTCAAGGAGATACGA-A-TTGTAGCTTCGATCTACTCCGCTGGAAC
* * * * ** *
63615808 TTCAAGGATATACGAATTGTGGCTTCGAGCCT-CTCCGGTGTCAT
1 TTCAAGGAGATACGAATTGTAGCTTCGA-TCTACTCCGCTGGAAC
63615852 TTC-AGGAAGA-A-GAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGG-AGATACGA-A-TTGTAGCTTCGATCTACTCCGCTGGAAC
* * ** *
63615896 TTCAAGGAGATACGAATTGTGGCTTCGAGCCT-CTCCAG-TGCCAT
1 TTCAAGGAGATACGAATTGTAGCTTCGA-TCTACTCC-GCTGGAAC
*
63615940 TTCAAGGAGA-A-GAGATTTGTAGCTTCGATGTACTCCGCTGGAAC
1 TTCAAGGAGATACGA-A-TTGTAGCTTCGATCTACTCCGCTGGAAC
* * * * * ** *
63615984 TTCAAGGAGATACTAATTGTGGCTTCAAGCCT-CTCTAG-TGCCAT
1 TTCAAGGAGATACGAATTGTAGCTTCGA-TCTACTC-CGCTGGAAC
* * * *
63616028 TTCAAGGAGA-A-GAGATTTATAGCTTTGATGTACTCCACTGGAAC
1 TTCAAGGAGATACGA-A-TTGTAGCTTCGATCTACTCCGCTGGAAC
* * * * ** *
63616072 TTCAATGAGATACGAATTGTGGCTTTGAGCCT-CTCCAG-TGCCAT
1 TTCAAGGAGATACGAATTGTAGCTTCGA-TCTACTCC-GCTGGAAC
* * * *
63616116 TTCAAGGAGA-A-GAGATTTGTAGCTCCGATCTACTTCGCCGGAAT
1 TTCAAGGAGATACGA-A-TTGTAGCTTCGATCTACTCCGCTGGAAC
* * * ** *
63616160 TTCAAGGAGATACGAATTGTGGCTTCGAGT-TGCTCTAG-TGCCAT
1 TTCAAGGAGATACGAATTGTAGCTTCGA-TCTACTC-CGCTGGAAC
* *
63616204 TTCAGGGAGA-A-GAGATTTGTAGCTTCGATCTACTCCGCTGAAAC
1 TTCAAGGAGATACGA-A-TTGTAGCTTCGATCTACTCCGCTGGAAC
63616248 TTCAAGGAGATACGAATTGTA
1 TTCAAGGAGATACGAATTGTA
63616269 ATTTCCAGCC
Statistics
Matches: 338, Mismatches: 81, Indels: 84
0.67 0.16 0.17
Matches are distributed among these distances:
42 9 0.03
43 23 0.07
44 270 0.80
45 25 0.07
46 11 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (44 bp):
TTCAAGGAGATACGAATTGTAGCTTCGATCTACTCCGCTGGAAC
Found at i:63615869 original size:88 final size:88
Alignment explanation
Indices: 63615761--63616267 Score: 775
Period size: 88 Copynumber: 5.8 Consensus size: 88
63615751 GTTCCAATGT
* * *
63615761 CATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAAATTCAAGGATATACGAATT
1 CATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
* *
63615826 GTGGCTTCGAGCCTCTCCGGTGT
66 GTGGCTTCGAGCCTCTCCAGTGC
63615849 CATTTC-AGGAAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAAT
1 CATTTCAAGG-AGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAAT
63615913 TGTGGCTTCGAGCCTCTCCAGTGC
65 TGTGGCTTCGAGCCTCTCCAGTGC
* *
63615937 CATTTCAAGGAGAAGAGATTTGTAGCTTCGATGTACTCCGCTGGAACTTCAAGGAGATACTAATT
1 CATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
* *
63616002 GTGGCTTCAAGCCTCTCTAGTGC
66 GTGGCTTCGAGCCTCTCCAGTGC
* * * * *
63616025 CATTTCAAGGAGAAGAGATTTATAGCTTTGATGTACTCCACTGGAACTTCAATGAGATACGAATT
1 CATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
*
63616090 GTGGCTTTGAGCCTCTCCAGTGC
66 GTGGCTTCGAGCCTCTCCAGTGC
* * * *
63616113 CATTTCAAGGAGAAGAGATTTGTAGCTCCGATCTACTTCGCCGGAATTTCAAGGAGATACGAATT
1 CATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
* *
63616178 GTGGCTTCGAG-TTGCTCTAGTGC
66 GTGGCTTCGAGCCT-CTCCAGTGC
* *
63616201 CATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATT
1 CATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
63616266 GT
66 GT
63616268 AATTTCCAGC
Statistics
Matches: 381, Mismatches: 35, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
87 4 0.01
88 374 0.98
89 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (88 bp):
CATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
GTGGCTTCGAGCCTCTCCAGTGC
Found at i:63616345 original size:88 final size:88
Alignment explanation
Indices: 63616226--63616659 Score: 498
Period size: 88 Copynumber: 4.9 Consensus size: 88
63616216 AGATTTGTAG
* * * * **
63616226 CTTCGATCTACTCCGCTGA-AACTTCAAGGAGATACGAAT-TGTAATTTCCAGCCTGTTACCCTA
1 CTTCGATCTGCTCCGCT-ACTACTT-AGGGAGATAAG-ATCTGTAATTTTTAGCCTGTTACCCTA
* *
63616289 CTACTTAGGGGGTTAAGGCTTATCAT
63 CTGCTTAGGGGGTTAAGGCTCATCAT
* * * *
63616315 CTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTATAATTTTTAGCCTGTTTCCCTACTT
1 CTTCGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTG
* **
63616380 TTTA-GGGGTTAAGGCTCATTGT
66 CTTAGGGGGTTAAGGCTCATCAT
* * * *
63616402 CTTCGATCTTCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTGTAGCCTGTTACCCTACTG
1 CTTCGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTG
* * *
63616467 CTTAGAGGGTTAAGGCTCACCGT
66 CTTAGGGGGTTAAGGCTCATCAT
** * ** * *
63616490 CTTTTATCTGCTCCGCTACTGCTTAGAAATACAAGATCTGTAATTTTTAGCCTGTTACCCTACTG
1 CTTCGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTG
63616555 CTTAGGGGGTTAAGGCTCA-CAGT
66 CTTAGGGGGTTAAGGCTCATCA-T
* * * * *
63616578 GTTCGATCTGCTCCGCTACGACTTAAGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTG
1 CTTCGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTG
63616643 CTTAGGGGGTTAAGGCT
66 CTTAGGGGGTTAAGGCT
63616660 AGTAAATTCA
Statistics
Matches: 296, Mismatches: 45, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
87 78 0.26
88 199 0.67
89 19 0.06
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (88 bp):
CTTCGATCTGCTCCGCTACTACTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTG
CTTAGGGGGTTAAGGCTCATCAT
Found at i:63616466 original size:44 final size:43
Alignment explanation
Indices: 63616417--63616649 Score: 113
Period size: 44 Copynumber: 5.3 Consensus size: 43
63616407 ATCTTCTCCG
63616417 CTACTGCTTAGGGAGACAAGATCTGTAATTTGTAGCCTGTTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAATTT-TAGCCTGTTACC
** * * * * *
63616461 CTACTGCTTAGAGG-GTTAAGGCTCACCGT-CTTTTA-TCTGCT-CC
1 CTACTGCTTAG-GGAGACAA-GAT--CTGTAATTTTAGCCTGTTACC
** *
63616504 GCTACTGCTTAGAAATACAAGATCTGTAATTTTTAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAA-TTTTAGCCTGTTACC
* ** * * * * * *
63616549 CTACTGCTTAGGGGGTTAAG-GCT-CACAGTGTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGACAAGATCTGTA-A-TTTTAG-CCTGTTACC
*
63616592 GCTAC-GACTTAAGGAGACAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTG-CTTAGGGAGACAAGATCTGTAATTTT-AGCCTGTTACC
63616637 CTACTGCTTAGGG
1 CTACTGCTTAGGG
63616650 GGTTAAGGCT
Statistics
Matches: 129, Mismatches: 41, Indels: 38
0.62 0.20 0.18
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 19 0.15
44 84 0.65
45 15 0.12
46 4 0.03
47 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGAGACAAGATCTGTAATTTTAGCCTGTTACC
Found at i:63616813 original size:64 final size:64
Alignment explanation
Indices: 63616712--63616837 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
63616702 TCATGTATCT
* *
63616712 ATGCTTATGCCAAATAATTAGGATACGATAATCGAAATGAATCAAATGCTCCTAGCTAGATGTA
1 ATGCTTATGCCAAATAATTAGGATACGATAACCGAAATGAATCAAATGCTCCTAACTAGATGTA
* * * * *
63616776 ATGCTTATGTCAAATAATTAGGATGCTATGACCGAAATGAATCCAATGCTCCTAACTAGATG
1 ATGCTTATGCCAAATAATTAGGATACGATAACCGAAATGAATCAAATGCTCCTAACTAGATG
63616838 CGTCTTGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATACGATAACCGAAATGAATCAAATGCTCCTAACTAGATGTA
Found at i:63621403 original size:19 final size:19
Alignment explanation
Indices: 63621362--63621403 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
63621352 GTGAAAGTCT
**
63621362 AATGCAAATGATGTTATGC
1 AATGCAAATGATGGAATGC
63621381 AATGCAAATGCATGGAATG-
1 AATGCAAATG-ATGGAATGC
63621400 AATG
1 AATG
63621404 TAAAAGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (19 bp):
AATGCAAATGATGGAATGC
Found at i:63623525 original size:6 final size:6
Alignment explanation
Indices: 63623516--63623771 Score: 205
Period size: 6 Copynumber: 42.3 Consensus size: 6
63623506 AATGACAATG
*
63623516 ATAATA ATAATA ATAATA ATAATA ATAATA GTAATA ATAATA ATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * * *
63623564 ATAGTA ATAATA ATACTA ATGATA ATAATA ATAGTA ATAATA AGAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * * * * *
63623612 TTAATA TTAGTA ATAATA ATGATA ATAGTA ATAGAAA ATAAAA ATAAT-
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATA-ATA ATAATA ATAATA
* * * * * *
63623660 ATAGTG ATAGTA ATAA-A AGTAA-A AGTAATA GTAATA GTAATA GTAATA
1 ATAATA ATAATA ATAATA A-TAATA A-TAATA ATAATA ATAATA ATAATA
* * * * * *
63623708 GTAATA GTAATA ATAATG GTAATA ATAAATA GTAATA ATAACA ATAATA
1 ATAATA ATAATA ATAATA ATAATA AT-AATA ATAATA ATAATA ATAATA
63623757 CA-AATA ATAAATA AT
1 -ATAATA AT-AATA AT
63623772 CTAAAGTTGA
Statistics
Matches: 207, Mismatches: 35, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
5 7 0.03
6 183 0.88
7 17 0.08
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:63623928 original size:3 final size:3
Alignment explanation
Indices: 63623920--63623984 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
63623910 GTAAATACAA
* * * *
63623920 AAT AAT AAT AAT AAT AGT AAT AAT -AC AAT AGT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
63623967 AAA AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
63623985 GTATTTGTAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:63641868 original size:69 final size:70
Alignment explanation
Indices: 63641748--63641915 Score: 209
Period size: 69 Copynumber: 2.4 Consensus size: 70
63641738 CTTTCCAAGG
* **
63641748 AAAATCAACTTATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
63641811 T-TTTT
65 TGTTTT
* * *
63641816 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
63641881 TGTTTT
65 TGTTTT
** *
63641887 -AAATTGACTCATATTGCGAGAGGTGAGTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTT
63641916 AAGGCTTTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
69 80 0.92
70 3 0.03
71 4 0.05
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:63642229 original size:144 final size:143
Alignment explanation
Indices: 63641934--63642467 Score: 533
Period size: 144 Copynumber: 3.7 Consensus size: 143
63641924 TAATTTTTGT
* * *
63641934 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
*
63641999 TTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA
66 TTTCTGTT-TT---AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA
*
63642064 GGTAATTTCAATTTCTG
127 GGTAATTTCAATTTCTA
**
63642081 TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
1 TTTTCAAAA-TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * * *
63642146 ATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
65 ATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
*
63642211 ATTTTCAATTTCTA
130 AATTTCAATTTCTA
*
63642225 TTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACATGCTGAGG
1 TTTTC------AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGG
* ** *
63642289 TATTTTCAATTTCTGTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
57 TAATTTCAATTTCTG-TTTT----AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-
* * *
63642354 ATTACACACTGTGG-----T--ATTT-T-
116 A-GACACGCTGAGGTAATTTCAATTTCTA
* * *
63642374 TTTTC--AAT----TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
1 TTTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
* *
63642433 TTTCTGTTTGTCAAGAATCAACTCATATTGCGAGA
66 TTTCTGTTT-TAAAAAATCAACTCATATTGCGAGA
63642468 GGTGGGTTGA
Statistics
Matches: 335, Mismatches: 33, Indels: 54
0.79 0.08 0.13
Matches are distributed among these distances:
131 22 0.07
134 3 0.01
135 24 0.07
137 27 0.08
138 1 0.00
141 3 0.01
144 66 0.20
147 11 0.03
148 61 0.18
149 36 0.11
150 5 0.01
151 28 0.08
152 4 0.01
153 1 0.00
156 34 0.10
157 1 0.00
158 8 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (143 bp):
TTTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
ATTTCAATTTCTA
Found at i:63642373 original size:79 final size:76
Alignment explanation
Indices: 63641939--63642353 Score: 513
Period size: 72 Copynumber: 5.5 Consensus size: 76
63641929 TTTGTTTTTC
* **
63641939 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
63642004 GTTGTTAAAAA
66 GTTTTTAAAAA
63642015 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
63642080 G-TTTT---CA
66 GTTTTTAAAAA
* * *
63642087 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
63642152 G-TTTT---CA
66 GTTTTTAAAAA
* * * * *
63642159 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
63642224 ATTTTCAAAAAA
66 GTTTT-TAAAAA
* ** * * *
63642236 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG--GACACGCTGAGGTAATTTCAATTT
63642301 CTGTTTTTAAAAAA
64 CTGTTTTT-AAAAA
** *
63642315 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
63642354 ATTACACACT
Statistics
Matches: 307, Mismatches: 24, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
72 133 0.43
73 3 0.01
75 3 0.01
76 63 0.21
77 36 0.12
79 69 0.22
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTTAAAAA
Found at i:63642782 original size:88 final size:88
Alignment explanation
Indices: 63642576--63642822 Score: 266
Period size: 88 Copynumber: 2.8 Consensus size: 88
63642566 CGTTTTAATT
* * *
63642576 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGATACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-T-CACACCGAGGTATTTTCAATT--TCT
* * *
63642640 CTTTTGATTTCTGTTTTTTAAAAAAAA
62 GTTTTCATTTATGTTTTTTAAAAAAAA
* *
63642667 TCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTTT
* *
63642732 TCATTATTATG-TTTTT-GAAAGAA
66 TCA-T-TTATGTTTTTTAAAAAAAA
** * * ** *
63642755 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTTT
63642820 TCA
66 TCA
63642823 AAATTCAACT
Statistics
Matches: 134, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
87 1 0.01
88 69 0.51
89 25 0.19
90 5 0.04
91 34 0.25
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (88 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGTTT
TCATTTATGTTTTTTAAAAAAAA
Found at i:63642936 original size:73 final size:72
Alignment explanation
Indices: 63642755--63643007 Score: 409
Period size: 73 Copynumber: 3.5 Consensus size: 72
63642745 TTTGAAAGAA
*
63642755 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
63642820 TCAAAAT
66 TCAAAAT
* *
63642827 TCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
63642892 TTCAAAAT
65 TTCAAAAT
* *
63642900 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
63642965 TCAAAAAAA
66 TC--AAAAT
63642974 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
63643008 GTTCACATGT
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
72 63 0.37
73 72 0.43
74 34 0.20
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:63645700 original size:3 final size:3
Alignment explanation
Indices: 63645692--63645799 Score: 60
Period size: 3 Copynumber: 35.0 Consensus size: 3
63645682 AAATAAGATT
* * * ** *
63645692 ATA ATA ATA ATA TTA ATA AAA ATA AGA ATGA A-A AGG ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * *
63645737 AT- ATAA ATA ATA AT- ATA TATGT ATGA AAA ATA ATA ATA GTAA ATA
1 ATA AT-A ATA ATA ATA ATA -AT-A AT-A ATA ATA ATA ATA AT-A ATA
63645782 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
63645800 GAAGCAGTAC
Statistics
Matches: 80, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
2 6 0.08
3 62 0.77
4 12 0.15
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:63648563 original size:13 final size:13
Alignment explanation
Indices: 63648545--63648570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63648535 ATAGAATACA
63648545 CATAATTCATAAT
1 CATAATTCATAAT
63648558 CATAATTCATAAT
1 CATAATTCATAAT
63648571 GAGCTTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
CATAATTCATAAT
Found at i:63650610 original size:37 final size:37
Alignment explanation
Indices: 63650553--63650657 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
63650543 TATGATCACT
*
63650553 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
63650588 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
63650625 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
63650658 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:63650700 original size:52 final size:52
Alignment explanation
Indices: 63650621--63650837 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
63650611 TAAGTGTAGC
* * *
63650621 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
63650674 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
63650726 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
63650772 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
63650824 CACTTTGTCACTTG
1 CACTTT-TCACTTG
63650838 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 85 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:63650743 original size:46 final size:46
Alignment explanation
Indices: 63650671--63650843 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
63650661 AGCTATCACT
*
63650671 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
63650716 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
63650762 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
63650814 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
63650844 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:63650787 original size:98 final size:98
Alignment explanation
Indices: 63650620--63650843 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
63650610 ATAAGTGTAG
* * * *
63650620 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
63650685 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
63650718 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
63650783 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
63650816 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
63650844 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:63655322 original size:44 final size:44
Alignment explanation
Indices: 63655250--63655397 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 44
63655240 TTCGACAAAT
*
63655250 CTTATCTTCC-TGAAGTTGTAGTGAAGCAGATCGAAACCACTAAC
1 CTTATC-TCCTTGAAGTTGCAGTGAAGCAGATCGAAACCACTAAC
* *** * *
63655294 CTTATCTCCTTGAAGTTGCAGTGGAGCAGA-CTGAAGATGGCGAAT
1 CTTATCTCCTTGAAGTTGCAGTGAAGCAGATC-GAA-ACCACTAAC
* * *
63655339 CTTATCT-TTCTGAAGTTGCAGTGAAGTAGATCGAAGCCACTAAC
1 CTTATCTCCT-TGAAGTTGCAGTGAAGCAGATCGAAACCACTAAC
* *
63655383 CTTATTTCCCTGAAG
1 CTTATCTCCTTGAAG
63655398 ATACGATGGA
Statistics
Matches: 79, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
43 4 0.05
44 42 0.53
45 32 0.41
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTATCTCCTTGAAGTTGCAGTGAAGCAGATCGAAACCACTAAC
Found at i:63655418 original size:89 final size:88
Alignment explanation
Indices: 63655247--63655456 Score: 242
Period size: 89 Copynumber: 2.4 Consensus size: 88
63655237 AATTTCGACA
* * * * *
63655247 AATCTTATCTTCCTGAAGTTGTAGTGAAGCAGATCGAAACCACTAACCTTATCTCCTTGAAGTTG
1 AATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATCGAAACCACTAACCTTATCTCCCTGAAGATA
*
63655312 CAGTGGAGCAGACTGAAGATGGCG
66 CAGTGGAGCAGACTGAAG-TGACG
* * *
63655336 AATCTTATCTTTCTGAAGTTGCAGTGAAGTAGATCGAAGCCACTAACCTTATTTCCCTGAAGATA
1 AATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATCGAAACCACTAACCTTATCTCCCTGAAGATA
* ** *
63655401 C-GATGGAGTAGGTTGAAGTTACG
66 CAG-TGGAGCAGACTGAAGTGACG
* * * *
63655424 AGTCGTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 AATCTTATCTTCCTGAAGTTGCAGTGAAGTAGA
63655457 CTGGAAGATA
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
88 32 0.31
89 70 0.69
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (88 bp):
AATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATCGAAACCACTAACCTTATCTCCCTGAAGATA
CAGTGGAGCAGACTGAAGTGACG
Found at i:63655617 original size:137 final size:137
Alignment explanation
Indices: 63655437--63655904 Score: 580
Period size: 137 Copynumber: 3.4 Consensus size: 137
63655427 CGTATCTCCC
* * *
63655437 TGAAGTTGCAGTGGAGTAGACTGGAAGATAGTAAGTCTTATTTCCCTGGAGTTGCAGTGGAACAG
1 TGAAGTTGCAGCGGAGCAGACT-GAAGATAGCAAGTCTTATTTCCCTGGAGTTGCAGTGGAACAG
* ** *
63655502 ATTGAAGATATAAATTGCAGATCTTATCTCTCTGGAGTTACAGTAGAGCAGATCAAAACAAGTCT
65 ATTGAAGCTATAAATTATAGATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATCAAAACAAGTCT
63655567 TATCTTCT
130 TATCTTCT
* *
63655575 TGAAGTTGCAGCGGAGCGGGCTGAAGATAGCAAGTCTTATTTCCCTGGAGTTGCAGTGGAACAGA
1 TGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAGTCTTATTTCCCTGGAGTTGCAGTGGAACAGA
* * *
63655640 TTGAAGCTATAAATTATAGATCTCATCTCTCTGAAGTTGCAGTAGAGCATATCAAAACAAGTCTT
66 TTGAAGCTATAAATTATAGATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATCAAAACAAGTCTT
* *
63655705 ATCTCCC
131 ATCTTCT
* * * * * *
63655712 TGAAGTTGCAGCGGAACGGATTGAAGATAGCAAGTCTTATTCCCCTGGAGTTGTAGTGGAACAAA
1 TGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAGTCTTATTTCCCTGGAGTTGCAGTGGAACAGA
* * * * * * *
63655777 TTGAATCTATAAATCATAGATCTTATCTCTCTGGAGTTGCAGTAGAGCAGGTTAAAACAAATATC
66 TTGAAGCTATAAATTATAGATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATCAAAACAAGTCTT
63655842 AT-TTCT
131 ATCTTCT
* * ** * * ** *
63655848 CTGAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAATCTTATTTTTCTGAAGTTGCAGT
1 -TGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAGTCTTATTTCCCTGGAGTTGCAGT
63655905 AGAGTGGATT
Statistics
Matches: 285, Mismatches: 44, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
136 23 0.08
137 244 0.86
138 18 0.06
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (137 bp):
TGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAGTCTTATTTCCCTGGAGTTGCAGTGGAACAGA
TTGAAGCTATAAATTATAGATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATCAAAACAAGTCTT
ATCTTCT
Found at i:63655645 original size:45 final size:45
Alignment explanation
Indices: 63655560--63655781 Score: 148
Period size: 45 Copynumber: 4.9 Consensus size: 45
63655550 CAGATCAAAA
* * * * * **
63655560 CAAGTCTTATCTTCTTGAAGTTGCAGCGGAGCGGGCTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAG
* * *
63655605 CAAGTCTTATTTCCCTGGAGTTGCAGTGGAACAGATTGAAGCTATAAAT
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT--AG
* * * * * * *
63655654 TATAGATCTCATCTCTCTGAAGTTGCAGTAGAGCATA-TCAA-A-A-
1 CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAG
* *
63655697 CAAGTCTTATCTCCCTGAAGTTGCAGCGGAACGGATTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAG
* * *
63655742 CAAGTCTTAT-TCCCCTGGAGTTGTAGTGGAACAAATTGAA
1 CAAGTCTTATCT-CCCTGAAGTTGCAGTGGAACAGATTGAA
63655782 TCTATAAATC
Statistics
Matches: 133, Mismatches: 33, Indels: 22
0.71 0.18 0.12
Matches are distributed among these distances:
41 24 0.18
42 5 0.04
43 2 0.02
44 3 0.02
45 65 0.49
47 3 0.02
49 2 0.02
50 5 0.04
51 24 0.18
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAG
Found at i:63655896 original size:44 final size:45
Alignment explanation
Indices: 63655796--63655954 Score: 150
Period size: 44 Copynumber: 3.7 Consensus size: 45
63655786 TAAATCATAG
* * *
63655796 ATCTTATCTCTCTGGAGTTGCAGTAGAGCAGG-TTAAA---ACAA
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGGATTAAAGTTACAA
* * * *
63655837 ATATCATTTCTCTGAAGTTGTAGTGGAGCAGG-TTGAAGTTACAA
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGGATTAAAGTTACAA
* * * *
63655881 ATCTTATTTTTCTGAAGTTGCAGTAGAG-TGGATTAAAGTTATAA
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGGATTAAAGTTACAA
* * *
63655925 ACCTTATCTCTCTAAAGTTGCAGTGGAGCA
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCA
63655955 CATTGATGAT
Statistics
Matches: 92, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 30 0.33
43 2 0.02
44 60 0.65
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (45 bp):
ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGGATTAAAGTTACAA
Found at i:63658983 original size:21 final size:22
Alignment explanation
Indices: 63658928--63658987 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
63658918 TTTCGTTTTC
63658928 TTTTCAAATATAAAGTCGACCCCGT
1 TTTTCAAA-A-AAA-TCGACCCCGT
*
63658953 TTTTCAAAAAAATCGACCCTGT
1 TTTTCAAAAAAATCGACCCCGT
63658975 TTTTCAAAAAAAT
1 TTTTCAAAAAAAT
63658988 GGTTTCGACA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 22 0.65
23 3 0.09
24 1 0.03
25 8 0.24
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.33
Consensus pattern (22 bp):
TTTTCAAAAAAATCGACCCCGT
Found at i:63659835 original size:61 final size:60
Alignment explanation
Indices: 63659770--63659908 Score: 145
Period size: 61 Copynumber: 2.3 Consensus size: 60
63659760 TTACACGTTC
* * *
63659770 TATCAATTCGATCTTAAATCTAAAATA-TTTAACAAATTTAGCCCTCAATGTTTACAAAATT
1 TATCAATTAGATC-TAAATCTAAAA-AGTTAAACAAATTTAGCCCTCAATATTTACAAAATT
* * * * * *
63659831 TATCATTTTAGTTCTAATTCTAAAAAGTTAAATAAATTTATCCCTCAATATTTATAAAATT
1 TATCA-ATTAGATCTAAATCTAAAAAGTTAAACAAATTTAGCCCTCAATATTTACAAAATT
*
63659892 TATCAATTTAGTTCTAA
1 TATCAA-TTAGATCTAA
63659909 TTTTAAAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
60 1 0.02
61 59 0.91
62 5 0.08
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (60 bp):
TATCAATTAGATCTAAATCTAAAAAGTTAAACAAATTTAGCCCTCAATATTTACAAAATT
Found at i:63662042 original size:29 final size:29
Alignment explanation
Indices: 63662009--63662070 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
63661999 ATATTATGAA
63662009 TATTTAATTTTTAGAATCTTTATAGTTTG
1 TATTTAATTTTTAGAATCTTTATAGTTTG
63662038 TATTTAATTTTTAGAATCTTTATAGTTTG
1 TATTTAATTTTTAGAATCTTTATAGTTTG
63662067 TATT
1 TATT
63662071 AGAATAAATA
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:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (29 bp):
TATTTAATTTTTAGAATCTTTATAGTTTG
Found at i:63663036 original size:23 final size:23
Alignment explanation
Indices: 63663009--63663053 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
63662999 TCATGTTAAG
63663009 AATAA-AATATTAATATTTAAAAT
1 AATAATAATA-TAATATTTAAAAT
*
63663032 AATAATAATATATTATTTAAAA
1 AATAATAATATAATATTTAAAA
63663054 ATGTAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AATAATAATATAATATTTAAAAT
Found at i:63665842 original size:23 final size:23
Alignment explanation
Indices: 63665816--63665860 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
63665806 TTTGGAAAGG
*
63665816 TTAAAACATAATTTTATCATTTA
1 TTAAAACATAATTTCATCATTTA
**
63665839 TTAAATTATAATTTCATCATTT
1 TTAAAACATAATTTCATCATTT
63665861 TAAGGGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAACATAATTTCATCATTTA
Found at i:63681036 original size:46 final size:46
Alignment explanation
Indices: 63680967--63681059 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
63680957 GTTGCACAAG
* *
63680967 GGAAAAAGGACTATGTGTGCAGATTGAAGAAGAGCTTGTATGGTTT
1 GGAAAAAGGACTATGTGTACAGATTGAAAAAGAGCTTGTATGGTTT
*
63681013 GGAAAGAGGACTATGTGTACAGATTGAAAAAGAGCTTGTATGGTTT
1 GGAAAAAGGACTATGTGTACAGATTGAAAAAGAGCTTGTATGGTTT
63681059 G
1 G
63681060 AAGCAAGCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.06, G:0.32, T:0.28
Consensus pattern (46 bp):
GGAAAAAGGACTATGTGTACAGATTGAAAAAGAGCTTGTATGGTTT
Found at i:63684763 original size:31 final size:31
Alignment explanation
Indices: 63684725--63684842 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
63684715 ACAAATAACA
**
63684725 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
63684756 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
63684787 AGTGAAAAATGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
63684818 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
63684843 AAGTGACAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:63684969 original size:49 final size:47
Alignment explanation
Indices: 63684864--63685027 Score: 196
Period size: 42 Copynumber: 3.6 Consensus size: 47
63684854 GATTTCCGTA
* * * *
63684864 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATGTGATATGTGATTACGTG
63684910 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-A-ATGTGATATGTGATTACGTG
* * *
63684959 TAAGACCATAGCTGGGCTATGG---C-AT-TGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATGTGATATGTGATTACGTG
*
63685001 TAAGACCATAGTTGGGCTATGGCATCA
1 TAAGACCATAGCTGGGCTATGGCATCA
63685028 TTATCTGAAG
Statistics
Matches: 103, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
42 35 0.34
43 2 0.02
45 1 0.01
46 25 0.24
47 1 0.01
48 13 0.13
49 26 0.25
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCAATGTGATATGTGATTACGTG
Found at i:63685002 original size:42 final size:42
Alignment explanation
Indices: 63684942--63685067 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
63684932 CATCAATATG
* * * *
63684942 TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCAT
1 TGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGCAT
63684984 TGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGCA-
1 TGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGCAT
* * * * **
63685025 TCATTATCTGAAGATATGTAAGACCATAGTTGAACTATGGCAT
1 TGA-TATATGAATATGTGTAAGACCATAGTTGGGCTATGGCAT
63685068 CGAGAAAACG
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 70 0.97
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGCAT
Found at i:63693883 original size:23 final size:22
Alignment explanation
Indices: 63693819--63693885 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
63693809 TGAGTTGATA
***
63693819 AACGGTAAGCTCCGAAGAGCTG
1 AACGGTAAGCTCATTAGAGCTG
*
63693841 AACGGTAAGCTTATTAGAGCTG
1 AACGGTAAGCTCATTAGAGCTG
*
63693863 AAATGGTAAGCTCA-TACGAGCTG
1 -AACGGTAAGCTCATTA-GAGCTG
63693886 TGGTGAGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 20 0.54
23 17 0.46
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (22 bp):
AACGGTAAGCTCATTAGAGCTG
Found at i:63697323 original size:42 final size:42
Alignment explanation
Indices: 63697264--63697347 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
63697254 GCGCCATACT
63697264 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
1 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
63697306 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
1 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
63697348 GAAATATAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (42 bp):
ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
Found at i:63700148 original size:46 final size:45
Alignment explanation
Indices: 63700096--63700403 Score: 454
Period size: 46 Copynumber: 6.7 Consensus size: 45
63700086 GATTGAGCAT
* * * * *
63700096 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
*
63700141 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
63700187 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
1 CC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
63700233 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
1 CC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
* *
63700279 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 CC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
* * *
63700325 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
*
63700371 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
63700404 GAGTAAGTTA
Statistics
Matches: 250, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
45 2 0.01
46 246 0.98
47 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (45 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACG
Found at i:63707423 original size:19 final size:20
Alignment explanation
Indices: 63707386--63707423 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63707376 ATAAGGTGGT
63707386 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
63707406 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
63707424 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:63710125 original size:17 final size:19
Alignment explanation
Indices: 63710092--63710128 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
63710082 AGCCACTTAG
63710092 TTAGTTTTGTGATTTTATT
1 TTAGTTTTGTGATTTTATT
63710111 TTAGTTTT-T-ATTTTATT
1 TTAGTTTTGTGATTTTATT
63710128 T
1 T
63710129 CAATTTAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (19 bp):
TTAGTTTTGTGATTTTATT
Found at i:63715426 original size:26 final size:26
Alignment explanation
Indices: 63715397--63715504 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
63715387 TGGTACAAAT
63715397 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
63715423 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63715449 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
63715475 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63715501 TGAT
1 TGAT
63715505 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:63717020 original size:26 final size:26
Alignment explanation
Indices: 63716991--63717043 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
63716981 TTTACAGTTT
63716991 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
63717017 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
63717043 T
1 T
63717044 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:63719152 original size:21 final size:21
Alignment explanation
Indices: 63719108--63719273 Score: 113
Period size: 21 Copynumber: 8.0 Consensus size: 21
63719098 TCGTGTTTAC
*
63719108 TTTCTGTTTAGCTC--ATGAG
1 TTTCTGTTTAACTCTTATGAG
* *
63719127 CTTCTGTTTAACTCATATGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
63719148 TTTCTGTTCAACTCTAATGGG
1 TTTCTGTTTAACTCTTATGAG
* * * *
63719169 TTTCCGTTCAGCTCTTTTGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
63719190 CTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAACTCTTATGAG
* * *
63719211 TTTCT-TTTCAGCTTTTAAGAG
1 TTTCTGTTT-AACTCTTATGAG
* * * *
63719232 CTTCTGTTCAACCCTTATGGG
1 TTTCTGTTTAACTCTTATGAG
*
63719253 TTTCTGTTTAGCTCTTATGAG
1 TTTCTGTTTAACTCTTATGAG
63719274 CTTCAGTTCA
Statistics
Matches: 106, Mismatches: 37, Indels: 6
0.71 0.25 0.04
Matches are distributed among these distances:
19 12 0.11
20 3 0.03
21 89 0.84
22 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (21 bp):
TTTCTGTTTAACTCTTATGAG
Found at i:63719210 original size:42 final size:42
Alignment explanation
Indices: 63719144--63719286 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
63719134 TTAACTCATA
* * * *
63719144 TGAGTTTCTGTTCAACTCTAATGGGTTTCCGTTCAGCTCTTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* *
63719186 TGAGCTTCTGTTTAACCCTTATGGGTTTCTTTTCAGCT-TTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* * *
63719227 AAGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTTA
1 -TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
*
63719270 TGAGCTTCAGTTCAACC
1 TGAGCTTCTGTTCAACC
63719287 TTCGGGCTTC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.03
42 81 0.94
43 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
Found at i:63721089 original size:20 final size:19
Alignment explanation
Indices: 63721064--63721172 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 19
63721054 TATTTTTAAA
63721064 TTATATATTATATGATTA-T
1 TTATATATTATAT-ATTATT
63721083 TT-TATATTACTCATATTATT
1 TTATATATTA-T-ATATTATT
63721103 TATATATATTATATATTATT
1 T-TATATATTATATATTATT
* * *
63721123 TTCACATA-TATACTTTTATA
1 TT-ATATATTATA-TATTATT
63721143 TTATATATTATAT-TTATT
1 TTATATATTATATATTATT
63721161 TTATATTATTAT
1 TTATA-TATTAT
63721173 GTCATTTTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
18 16 0.21
19 23 0.30
20 28 0.37
21 2 0.03
22 7 0.09
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (19 bp):
TTATATATTATATATTATT
Found at i:63721131 original size:22 final size:22
Alignment explanation
Indices: 63721085--63721133 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
63721075 ATGATTATTT
*
63721085 TATATTACTCATATTATTTATA
1 TATATTACTCATATTATTTACA
63721107 TATATTA-T-ATATTATTTTCACA
1 TATATTACTCATATTA-TTT-ACA
63721129 TATAT
1 TATAT
63721134 ACTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 4 0.17
22 14 0.58
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTACTCATATTATTTACA
Found at i:63721523 original size:17 final size:17
Alignment explanation
Indices: 63721466--63721523 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
63721456 TCTAAACCAT
*
63721466 TATATTTTATATTTTTA
1 TATATTATATATTTTTA
*
63721483 TATAATTAT-TATTCTTA
1 TAT-ATTATATATTTTTA
63721500 TA-A--ATATATTTTTA
1 TATATTATATATTTTTA
63721514 TATATTATAT
1 TATATTATAT
63721524 CATTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 2 0.06
17 16 0.48
18 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTATATATTTTTA
Found at i:63733581 original size:206 final size:205
Alignment explanation
Indices: 63733027--63733610 Score: 972
Period size: 205 Copynumber: 2.8 Consensus size: 205
63733017 TAGGCCGCAG
*
63733027 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCTAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCCTTGTG
* *
63733092 CTTACAATGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAACT
66 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
*
63733157 AAGATGATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
*
63733222 GGAGTAGATA
196 GGAGCAGATA
*
63733232 CATAGCAGATCTCACATTCAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCCTTGTG
* *
63733297 CTTACAAGGAGCGAATCGAAGACATAACTGAATTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
*
63733362 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGATGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
*
63733427 GGAGCGGATA
196 GGAGCAGATA
* * * * * *
63733437 CATAGTAGATCTCACCTTCAGATAATTT-CACTGAAGCAAGATCCAAAATGATTTGGCATTCTTG
1 CATAGCAGATCTCACCTTCAGAT-GTTTATACTGAAG-GAGATCCAAGATGATTTGGCATCCTTG
* * *
63733501 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
64 TGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
63733566 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
129 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
63733611 AAGCAGATTT
Statistics
Matches: 355, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
205 223 0.63
206 132 0.37
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
GGAGCAGATA
Found at i:63735266 original size:20 final size:19
Alignment explanation
Indices: 63735241--63735349 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 19
63735231 TATTTTTAAA
63735241 TTATATATTATATGATTA-T
1 TTATATATTATAT-ATTATT
63735260 TT-TATATTACTCATATTATT
1 TTATATATTA-T-ATATTATT
63735280 TATATATATTATATATTATT
1 T-TATATATTATATATTATT
* * *
63735300 TTCACATA-TATAATTTTATA
1 TT-ATATATTAT-ATATTATT
63735320 TTATATATTATA-ATTATT
1 TTATATATTATATATTATT
63735338 TTATATTATTAT
1 TTATA-TATTAT
63735350 GTCATTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
18 16 0.21
19 22 0.29
20 28 0.37
21 2 0.03
22 7 0.09
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (19 bp):
TTATATATTATATATTATT
Found at i:63735308 original size:22 final size:22
Alignment explanation
Indices: 63735262--63735310 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
63735252 ATGATTATTT
*
63735262 TATATTACTCATATTATTTATA
1 TATATTACTCATATTATTTACA
63735284 TATATTA-T-ATATTATTTTCACA
1 TATATTACTCATATTA-TTT-ACA
63735306 TATAT
1 TATAT
63735311 AATTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 4 0.17
22 14 0.58
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTACTCATATTATTTACA
Found at i:63735324 original size:15 final size:16
Alignment explanation
Indices: 63735244--63735327 Score: 55
Period size: 15 Copynumber: 4.8 Consensus size: 16
63735234 TTTTAAATTA
63735244 TATATTATATGATTATTT
1 TATATTATAT-A-TATTT
63735262 TATATTACTCATATTATTTAT
1 TATATTA-T-ATA-TA-TT-T
63735283 ATATATTATATATTATTT
1 -TATATTATATA-TATTT
*
63735301 TCACA-TATATA-ATTT
1 T-ATATTATATATATTT
63735316 TATATTATATAT
1 TATATTATATAT
63735328 TATAATTATT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
14 2 0.04
15 11 0.20
17 7 0.12
18 10 0.18
19 7 0.12
20 10 0.18
21 2 0.04
22 7 0.12
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (16 bp):
TATATTATATATATTT
Found at i:63735348 original size:13 final size:13
Alignment explanation
Indices: 63735234--63735349 Score: 73
Period size: 13 Copynumber: 9.1 Consensus size: 13
63735224 TATTTTTTAT
*
63735234 TTTTAAATTA-TA
1 TTTTATATTATTA
* *
63735246 TATTATATGATTA
1 TTTTATATTATTA
*
63735259 TTTTATATTACTCA
1 TTTTATATTA-TTA
*
63735273 TATTAT-TTATATA
1 TTTTATATTAT-TA
*
63735286 TATTATA-TATTA
1 TTTTATATTATTA
* *
63735298 TTTTCACATATATAA
1 TTTT-ATAT-TATTA
63735313 TTTTATATTA-TA
1 TTTTATATTATTA
*
63735325 TATTATA--ATTA
1 TTTTATATTATTA
63735336 TTTTATATTATTA
1 TTTTATATTATTA
63735349 T
1 T
63735350 GTCATTTTAT
Statistics
Matches: 79, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
10 1 0.01
11 8 0.10
12 20 0.25
13 32 0.41
14 10 0.13
15 8 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:63735359 original size:23 final size:23
Alignment explanation
Indices: 63735234--63735298 Score: 55
Period size: 25 Copynumber: 2.8 Consensus size: 23
63735224 TATTTTTTAT
*
63735234 TTTTAAATTATATATTATATGATTA
1 TTTTATATTATATATTATA--ATTA
63735259 TTTTATATTACTCATATTAT--TTA
1 TTTTATATTA-T-ATATTATAATTA
*
63735282 -TATATATTATATATTAT
1 TTTTATATTATATATTAT
63735299 TTTCACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 7 0.19
21 1 0.03
22 8 0.22
23 3 0.08
25 9 0.25
26 1 0.03
27 7 0.19
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTATATTATATATTATAATTA
Found at i:63735359 original size:77 final size:78
Alignment explanation
Indices: 63735234--63735385 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 78
63735224 TATTTTTTAT
* *
63735234 TTTTAAATTATATATTATATGATTATTTTATATTACTCATATTATTTATATATATTATATATTAT
1 TTTTAAATTATATATTATA-GATTATTTTATATTACTCATATCATTTATA-ATATTAAATATT-T
63735299 TT-TC-ACATATATAA
63 TTATCTACATATATAA
* * * *
63735313 TTTTATATTATATATTATA-ATTATTTTATATTA-TTATGTCATTTTATACTATTAAATATTTTT
1 TTTTAAATTATATATTATAGATTATTTTATATTACTCATATCA-TTTATAATATTAAATATTTTT
63735376 ATCTACATAT
65 ATCTACATAT
63735386 TGTTATCATT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
75 3 0.05
76 17 0.27
77 26 0.41
79 18 0.28
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (78 bp):
TTTTAAATTATATATTATAGATTATTTTATATTACTCATATCATTTATAATATTAAATATTTTTA
TCTACATATATAA
Found at i:63737597 original size:24 final size:25
Alignment explanation
Indices: 63737570--63737617 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
63737560 ATATATCATA
*
63737570 AAAC-AGCACATAAAAGAAATAATT
1 AAACAAGCACATAAAAAAAATAATT
*
63737594 AAACATAGCATATAAAAAAAATAA
1 AAACA-AGCACATAAAAAAAATAA
63737618 AACTATGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
26 16 0.80
ACGTcount: A:0.67, C:0.10, G:0.06, T:0.17
Consensus pattern (25 bp):
AAACAAGCACATAAAAAAAATAATT
Found at i:63738135 original size:22 final size:21
Alignment explanation
Indices: 63738109--63738174 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 21
63738099 TACAAATTAA
63738109 ATCTTCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
63738131 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
* *
63738152 ATC-T-AAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
63738171 ATCT
1 ATCT
63738175 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.44
20 1 0.02
21 9 0.22
22 13 0.32
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTTCAAGATTACAGATCAT
Found at i:63738161 original size:19 final size:19
Alignment explanation
Indices: 63738126--63738223 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
63738116 AGATTACAAG
63738126 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
63738147 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
63738166 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
63738183 ATCATATCTAAGCTTGCAT
1 ATCATATCTAAGATTGCAT
63738202 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
63738221 ATC
1 ATC
63738224 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:63738190 original size:36 final size:37
Alignment explanation
Indices: 63738126--63738223 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
63738116 AGATTACAAG
63738126 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
63738166 ATCATATCTAAGATTG-TATCATATCTAAGCTTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
63738202 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
63738224 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:63738992 original size:206 final size:206
Alignment explanation
Indices: 63738620--63739353 Score: 1134
Period size: 206 Copynumber: 3.6 Consensus size: 206
63738610 ATCTTCGGTC
* * * * *
63738620 TGTTTTCTGACAAAACAGAGATGTCAAATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAAC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* * * * *
63738685 CAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAAACATCC-TGGATTTG
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCA-CCTTGGATCTG
* * ** *
63738749 CTTCAGTCT-AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACG
130 CTTCAGTATAAAT-ATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACG
*
63738813 CCAAACTTCAATT
194 CCAAACTTCGATT
*
63738826 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAATC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
63738891 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
* * *
63738956 TTCAGTATAAATATATGAAGGCCAGATCTACTATGTGTCTGCTCTCCGTCAAATATGGAAACGCC
131 TTCAGTATAAATATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCC
*
63739021 AAACTTTGATT
196 AAACTTCGATT
* *
63739032 TATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGA
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* *
63739097 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTCCTTCGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
* * * *
63739162 TTTAGTATAAACATATGAAGGCCAGATCTGCTATGCGTCTGCTCTCCGTTGAATATGGAGACGCC
131 TTCAGTATAAATATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCC
63739227 AAACTTCGATT
196 AAACTTCGATT
*
63739238 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAA--ACTGTGAAAG
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC-GTGAAAG
*
63739301 CCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
65 CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
63739354 TGCTATCTTC
Statistics
Matches: 488, Mismatches: 37, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
204 2 0.00
205 60 0.12
206 423 0.87
207 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
TTCAGTATAAATATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCC
AAACTTCGATT
Found at i:63739373 original size:44 final size:43
Alignment explanation
Indices: 63739323--63739651 Score: 252
Period size: 44 Copynumber: 7.5 Consensus size: 43
63739313 TGTCTTCGAT
* * * *
63739323 TTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
* * *** * *
63739367 TTGTTCCCTATAAAAACAAGGATGCC-ATGCTAAAATCTTTGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATC-TTCAAC
** * * * * * * *
63739411 TACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
1 TTGTTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
** *
63739455 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
* * * * *
63739497 TCTGCTTCGCTGTAAGCACAGGGATGCCAGATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
*
63739543 TTGTTCCCTATAAACACGGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
**
63739587 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
*
63739630 TCGTTCCCTATAAACACAGGGA
1 TTGTTCCCTATAAACACAGGGA
63739652 CACGATGCTG
Statistics
Matches: 224, Mismatches: 49, Indels: 25
0.75 0.16 0.08
Matches are distributed among these distances:
42 7 0.03
43 51 0.23
44 142 0.63
45 19 0.08
46 5 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
TTGTTCCCTATAAACACAGGGATGCCAATCTGCTATCTTCAAC
Found at i:63739480 original size:88 final size:88
Alignment explanation
Indices: 63739331--63739744 Score: 462
Period size: 88 Copynumber: 4.7 Consensus size: 88
63739321 ATTTGTTCCT
* * * * *
63739331 TGTAAGCACAAGG-ATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAAACAAGGATGCCAT
1 TGTAAGCAC-AGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAT
* * *
63739395 GCTAAAATCTTTGATCTACTTCAC
65 GCTGAAATCTTTGATCTGCTTCGC
*
63739419 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATG
1 TGTAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATG
*
63739484 CTGAAATCTTCGATCTGCTTCGC
66 CTGAAATCTTTGATCTGCTTCGC
* *
63739507 TGTAAGCACAGGGATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACGGGGATGCCAAA
1 TGTAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCC--A
** * * *
63739572 T-CTGCTATC-TTCAACTTG-TTCCC
64 TGCTGAAATCTTTGATC-TGCTTCGC
* * * ** * * * ** *
63739595 TATAAACACAGGGATGCC--ATGCTGAAATCTTCAACTCGTTCCCTATAAACACAGGGACACGAT
1 TGTAAGCACAGGAATGCCAGAT-CTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAT
63739658 GCTGAAATCTTTGATCTGCTTCGC
65 GCTGAAATCTTTGATCTGCTTCGC
* * *
63739682 TGTAAGCACAGGAGTGTCAGATCTACTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
1 TGTAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
63739745 AATCTTGTTT
Statistics
Matches: 267, Mismatches: 49, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
85 2 0.01
86 10 0.04
87 55 0.21
88 188 0.70
89 10 0.04
90 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (88 bp):
TGTAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATG
CTGAAATCTTTGATCTGCTTCGC
Found at i:63739736 original size:44 final size:43
Alignment explanation
Indices: 63739315--63739742 Score: 244
Period size: 44 Copynumber: 9.8 Consensus size: 43
63739305 ATTAGCTATG
* * * * * *
63739315 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATG-CAGATCTACTA
* * * * * **
63739359 TCTTCAACTTGTTCCCTATAAAAACAAGGATGC-CATGCTAAAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCAGAT-CTACTA
* ** * * * * *
63739402 TCTTTGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
1 TCTTCGAT-TTGTTCCCTATAAACACAGGGATG-CAGATCTACTA
* *
63739447 TCTTCGATTTGTTCCCTATAAACACAGGGATGC-CATGCTGA-AA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCAGAT-CT-ACTA
* * * * *
63739490 TCTTCGATCTGCTTCGCTGTAAGCACAGGGATGCCAGATCTGCTA
1 TCTTCGATTTG-TTCCCTATAAACACAGGGATG-CAGATCTACTA
* * *
63739535 TCTTCGATTTGTTCCCTATAAACACGGGGATGCCAAATCTGCTA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATG-CAGATCTACTA
* * * *
63739579 TCTTCAACTTGTTCCCTATAAACACAGGGATGC-CATGCTGA-AA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCAGAT-CT-ACTA
* * * *
63739622 TCTTCAACTCGTTCCCTATAAACACAGGGA--CACGATGCTGA-AA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCA-GAT-CT-ACTA
* * * * *
63739665 TCTTTGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTACTA
1 TCTTCGATTTG-TTCCCTATAAACACAGGGA-TG-CAGATCTACTA
63739710 TCTTCGATTTGTTCCCTATAAACACAGGGATGC
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGC
63739743 CAAATCTTGT
Statistics
Matches: 293, Mismatches: 70, Indels: 43
0.72 0.17 0.11
Matches are distributed among these distances:
41 1 0.00
42 6 0.02
43 75 0.26
44 162 0.55
45 40 0.14
46 7 0.02
47 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCAGATCTACTA
Found at i:63745741 original size:26 final size:25
Alignment explanation
Indices: 63745706--63745755 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
63745696 ATATATATCA
*
63745706 TAAAATAGCACATAAAAGAAATAAT
1 TAAAATAGCACATAAAAAAAATAAT
*
63745731 TAAACATAGCATATAAAAAAAATAA
1 TAAA-ATAGCACATAAAAAAAATAA
63745756 AACTATGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.66, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAAATAGCACATAAAAAAAATAAT
Found at i:63746275 original size:22 final size:21
Alignment explanation
Indices: 63746245--63746329 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 21
63746235 TACAAATTAA
63746245 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
63746267 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
63746288 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
63746307 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
63746326 ATCT
1 ATCT
63746330 AAGATTGTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
19 38 0.63
21 10 0.17
22 12 0.20
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:63746297 original size:19 final size:19
Alignment explanation
Indices: 63746262--63746359 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
63746252 AGATTACAAG
63746262 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
63746283 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
63746302 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
63746321 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
63746338 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
63746357 ATC
1 ATC
63746360 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:63753284 original size:27 final size:27
Alignment explanation
Indices: 63753238--63753482 Score: 300
Period size: 27 Copynumber: 9.1 Consensus size: 27
63753228 GCTGAAATGG
63753238 TGACTGAAATA-CCCTCATAGGGTAAAA
1 TGACTGAAATACCCCT-ATAGGGTAAAA
* *
63753265 TAACTAAAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
63753292 TGACTGAAATACCCC-ATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
** *
63753318 TGACCAAAATACCTCC-ATAAGGTAAAA
1 TGACTGAAATACC-CCTATAGGGTAAAA
* *
63753345 TGTCTGAAATACCTCC-ATAGGATAAAA
1 TGACTGAAATACC-CCTATAGGGTAAAA
*
63753372 TGACCGAAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
* *
63753399 TGACTAAAATACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
**
63753426 TGACTTTAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
* * *
63753453 TGACTGTAGTACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
63753480 TGA
1 TGA
63753483 TTGATTTGCC
Statistics
Matches: 191, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 24 0.13
27 163 0.85
28 4 0.02
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (27 bp):
TGACTGAAATACCCCTATAGGGTAAAA
Found at i:63756417 original size:27 final size:27
Alignment explanation
Indices: 63756387--63756546 Score: 205
Period size: 27 Copynumber: 5.9 Consensus size: 27
63756377 AATGGTGATC
*
63756387 GAAATACCCCTATAGGGTAAAATGACC
1 GAAATACCCCTATAGGGTAAAATGACT
63756414 GAAATA-CCCTCATAGGGTAAAATGACT
1 GAAATACCCCT-ATAGGGTAAAATGACT
*
63756441 GAAATACCCTTATAGGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* * *
63756468 AAAATACCTCTATAAGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* *
63756495 GTAATACCCCTGTAGGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* * * *
63756522 GTAGTACCCCTGTAAGGTAAAATGA
1 GAAATACCCCTATAGGGTAAAATGA
63756547 TTGATTTGCC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.03
27 111 0.94
28 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAAAATGACT
Found at i:63762087 original size:20 final size:20
Alignment explanation
Indices: 63762062--63762100 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
63762052 GGTTCGAATT
63762062 TTAGACACATTTTTTTGTGC
1 TTAGACACATTTTTTTGTGC
63762082 TTAGACACATTTTTTTGTG
1 TTAGACACATTTTTTTGTG
63762101 TTTTCCATTA
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:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (20 bp):
TTAGACACATTTTTTTGTGC
Found at i:63764432 original size:64 final size:64
Alignment explanation
Indices: 63764352--63764480 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
63764342 CATTCATACC
** * * *
63764352 CTAGTCGTTAATTTCCATAAATGGATAGATAGTTTATCACCATTAACTTATTTTCTTAAATCTT
1 CTAGTCGTTAATTTCCATAAACAGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
* *
63764416 CTAGTCGTTGATTTCCATAAACAGATAGATAGTCTGTCACCATCAACTCATTTTCTTAAATCTT
1 CTAGTCGTTAATTTCCATAAACAGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
63764480 C
1 C
63764481 AAATGTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.40
Consensus pattern (64 bp):
CTAGTCGTTAATTTCCATAAACAGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
Found at i:63771278 original size:33 final size:33
Alignment explanation
Indices: 63771236--63771301 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
63771226 GAGAGAATAA
63771236 GACCAGTGGCTTATCCACTTATATTACCATCAG
1 GACCAGTGGCTTATCCACTTATATTACCATCAG
63771269 GACCAGTGGCTTATCCACTTATATTACCATCAG
1 GACCAGTGGCTTATCCACTTATATTACCATCAG
63771302 AACTTGAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (33 bp):
GACCAGTGGCTTATCCACTTATATTACCATCAG
Found at i:63775827 original size:29 final size:29
Alignment explanation
Indices: 63775785--63775842 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
63775775 GCTGCTTCAT
63775785 ATGCAACTTGCTTGTTAGAGTTTTCGACA
1 ATGCAACTTGCTTGTTAGAGTTTTCGACA
*
63775814 ATGCAAGTTGCTTGTTAGAGTTTTCGACA
1 ATGCAACTTGCTTGTTAGAGTTTTCGACA
63775843 TACATATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (29 bp):
ATGCAACTTGCTTGTTAGAGTTTTCGACA
Found at i:63777483 original size:43 final size:43
Alignment explanation
Indices: 63777436--63777557 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 43
63777426 ATTGTACTGT
* * *
63777436 GATTATGTGTAAGACCATCTTTGGGATATTGGCATCATT-ATAC
1 GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAAT-C
** * *
63777479 GATTACATGTAAGACCATGTCTGGGACATCGGCATCGTTAATC
1 GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAATC
* * * *
63777522 GATTTTGTGTAAAACCCTGTCTGGGACAGT-GGCATC
1 GATTATGTGTAAGACCATCTCTGGGACA-TCGGCATC
63777558 GATATGTGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 62 0.95
44 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAATC
Found at i:63777547 original size:86 final size:85
Alignment explanation
Indices: 63777393--63777598 Score: 202
Period size: 86 Copynumber: 2.4 Consensus size: 85
63777383 ACCTAGATGA
* * * * * * *
63777393 GATTACATGTAAGACCATGTCTAGAACATTGGCATTGTACTGTGATTATGTGTAAGACCATCTTT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAATGCGATTATGTGTAAAACCATCTCT
* *
63777458 GGGATATTGGCATC-ATTATAC
65 GGGACAGTGGCATCGA-TATAC
* * *
63777479 GATTACATGTAAGACCATGTCTGGGACATCGGCATCGTTAAT-CGATTTTGTGTAAAACCCTGTC
1 GATTACATGTAAGACCATGTCTGGGACAT-GGCATCG-TAATGCGATTATGTGTAAAACCATCTC
**
63777543 TGGGACAGTGGCATCGATATGT
64 TGGGACAGTGGCATCGATATAC
* *
63777565 G-TTAACATGTAAGACCATATCTGGGATATGGCAT
1 GATT-ACATGTAAGACCATGTCTGGGACATGGCAT
63777599 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
85 8 0.08
86 88 0.88
87 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATCGTAATGCGATTATGTGTAAAACCATCTCTG
GGACAGTGGCATCGATATAC
Found at i:63784183 original size:278 final size:277
Alignment explanation
Indices: 63783648--63784472 Score: 1035
Period size: 278 Copynumber: 3.0 Consensus size: 277
63783638 TTGTGGAAGG
* * * *
63783648 TTCAAC-CTGTTTTTCCTCTTATAACCCTCAAAGATTGGTTTGGCTTCTTGCATCCATCGAACGA
1 TTCAACTC-GTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGA
* * * * **
63783712 TCCATGTCGAATCGAGTAGCACGTTCTCGCTTAGATGTTGTTTTGTCTTTATCGCTCTCTTTTGT
65 TCCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCAT
* * * ** *
63783777 TTCTGATTCCCTATAAGATATTCCACACTCAGTTTTGAGATCGGAAACTTGTTTGGTTGTAAATC
130 TTTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTGCTTGGTTGTAAATC
* ** ** * *
63783842 ATGACTCGATCGTCCCATCAACACCTTCATTTGTCAGCATAAAACTGTCACTATGTATGGGAAAA
195 ACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAA
* *
63783907 ATAGTTTCACCTCATTTTT
260 GTAGTTCCACCTCA-TTTT
* **
63783926 TTCAACTCGTTTTTCCTCTCATAATCTTCAAATATTGGTTCAACTTCTTGCATCCATCGAACGAT
1 TTCAACTCGTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * * *
63783991 CCATTTCGAACCGAGTAACACATTCTTGCCTAGATGTGGTTTTGTCTTCATGGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
*
63784056 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTACTTGGTTGTAAATCA
131 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTGCTTGGTTGTAAATCA
* * * * * * *
63784121 CAACTCAATCGTCCCATCGGCACCTTCATTTTTCTGTATCAGGCTATCACTAAGTGTGGGAAAAG
196 CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAAG
63784186 TAGTTCCACCTCATTTT
261 TAGTTCCACCTCATTTT
* * * * * * * *
63784203 TTCAATTCATTTTTCCTCGCAGAATCTTTAAAGATTGATTTGACTTCTTGCAT-CATTGAATGAT
1 TTCAACTCGTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * * *
63784267 CTATTTTGAATCGAGTAGCGCATTCTCACCTAGATGTGGTTTTGTCTTTATTGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
* * * *
63784332 TTTGATTCCTTATAAGATATTCCACACTCGATTCTAAGAT-AGAAAACTTGCTTAGTTGTAAATC
131 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCA-AAAACTTGCTTGGTTGTAAATC
* * * * *
63784396 ACGACTTGACCGTCCCATTGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGCGAGAAAA
195 ACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAA
63784461 GTAGTTCCACCT
260 GTAGTTCCACCT
63784473 TGTTTTTCCT
Statistics
Matches: 467, Mismatches: 78, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
275 1 0.00
276 187 0.40
277 48 0.10
278 230 0.49
279 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (277 bp):
TTCAACTCGTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTGCTTGGTTGTAAATCA
CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAAG
TAGTTCCACCTCATTTT
Found at i:63803009 original size:22 final size:22
Alignment explanation
Indices: 63802984--63803034 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
63802974 AGGAAGGCAG
63802984 GAAATAAAAATGAAAGGAGACC
1 GAAATAAAAATGAAAGGAGACC
*
63803006 GAAATAAAAATGAAAGGAGAGC
1 GAAATAAAAATGAAAGGAGACC
*
63803028 AAAATAA
1 GAAATAA
63803035 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.63, C:0.06, G:0.22, T:0.10
Consensus pattern (22 bp):
GAAATAAAAATGAAAGGAGACC
Found at i:63804871 original size:15 final size:15
Alignment explanation
Indices: 63804849--63804881 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
63804839 AATTTGATTT
*
63804849 TTAAAATTTATA-TA
1 TTAAAAATTATACTA
63804863 TTAAAAATTATACTA
1 TTAAAAATTATACTA
63804878 TTAA
1 TTAA
63804882 GTTAAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAATTATACTA
Found at i:63808495 original size:23 final size:24
Alignment explanation
Indices: 63808451--63808495 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
63808441 TGATTTAGTC
63808451 CTATAAAAAATATAAAAATATAGA
1 CTATAAAAAATATAAAAATATAGA
*
63808475 CTATAAAAAAT-TAAAATTATA
1 CTATAAAAAATATAAAAATATA
63808496 TTCGGAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
CTATAAAAAATATAAAAATATAGA
Found at i:63815519 original size:5 final size:5
Alignment explanation
Indices: 63815509--63815548 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
63815499 TAGGACTTTG
* *
63815509 TATGA TATGA TATGA TCTGA TATAA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
63815549 ATCAATATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (5 bp):
TATGA
Found at i:63815538 original size:20 final size:20
Alignment explanation
Indices: 63815513--63815564 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
63815503 ACTTTGTATG
*
63815513 ATATGATATGATCTGATAT-A
1 ATATGATATGATATGA-ATCA
63815533 ATATGATATGATATGAATCA
1 ATATGATATGATATGAATCA
*
63815553 ATATGGTATGAT
1 ATATGATATGAT
63815565 TTATGATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (20 bp):
ATATGATATGATATGAATCA
Found at i:63825222 original size:15 final size:15
Alignment explanation
Indices: 63825202--63825231 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63825192 AATTATAAGT
*
63825202 ACATACTCTCAACTA
1 ACATACACTCAACTA
63825217 ACATACACTCAACTA
1 ACATACACTCAACTA
63825232 TCAAAGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
ACATACACTCAACTA
Found at i:63831151 original size:17 final size:18
Alignment explanation
Indices: 63831120--63831155 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
63831110 ACTAAATTTG
63831120 TCATTATACCCTTTTTTT
1 TCATTATACCCTTTTTTT
63831138 TCATTATA-CCTTTTTTT
1 TCATTATACCCTTTTTTT
63831155 T
1 T
63831156 AACTACCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (18 bp):
TCATTATACCCTTTTTTT
Found at i:63831347 original size:20 final size:19
Alignment explanation
Indices: 63831305--63831369 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
63831295 TATTTAAAAA
* *
63831305 TAAAAATACATAAATATTTT
1 TAAAAATACATAAA-AATAT
63831325 TAAAAATACATAAAAACTAT
1 TAAAAATACATAAAAA-TAT
*
63831345 TAAAAAAACCA-AAAAATAT
1 TAAAAATA-CATAAAAATAT
63831364 TAAAAA
1 TAAAAA
63831370 ATATTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 10 0.25
20 28 0.70
21 2 0.05
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAAATACATAAAAATAT
Found at i:63835253 original size:19 final size:19
Alignment explanation
Indices: 63835181--63835253 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
63835171 GATGAAAACC
*
63835181 ATTAATTAAATTAATTATA-
1 ATTAACTAAATTAATTA-AG
*
63835200 ATTAA-TATATATTATTTAAG
1 ATTAACTA-A-ATTAATTAAG
63835220 -TTAAC--AATTAATTAAG
1 ATTAACTAAATTAATTAAG
63835236 ATTAACTAAATTAATTAA
1 ATTAACTAAATTAATTAA
63835254 ACTTTAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
16 9 0.20
17 6 0.13
18 2 0.04
19 21 0.47
20 7 0.16
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTAACTAAATTAATTAAG
Found at i:63835579 original size:17 final size:17
Alignment explanation
Indices: 63835557--63835591 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
63835547 GAAATTGATA
*
63835557 GTTAATAAGCTTAGATT
1 GTTAATAAGATTAGATT
*
63835574 GTTAATATGATTAGATT
1 GTTAATAAGATTAGATT
63835591 G
1 G
63835592 GAAATTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (17 bp):
GTTAATAAGATTAGATT
Found at i:63845829 original size:36 final size:36
Alignment explanation
Indices: 63845782--63845852 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
63845772 ATAGGCTAAG
63845782 TTAATAAAAATCATCACTAGTTAACCATACAGTTTT
1 TTAATAAAAATCATCACTAGTTAACCATACAGTTTT
63845818 TTAATAAAAATCATCACTAGTTAACCATACAGTTT
1 TTAATAAAAATCATCACTAGTTAACCATACAGTTT
63845853 AATTGCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (36 bp):
TTAATAAAAATCATCACTAGTTAACCATACAGTTTT
Found at i:63855609 original size:40 final size:40
Alignment explanation
Indices: 63855563--63855641 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
63855553 AAATACCATG
63855563 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
* *
63855603 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGT
63855642 GGTACTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.34, G:0.16, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
Found at i:63862827 original size:40 final size:40
Alignment explanation
Indices: 63862749--63862827 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
63862739 ACACACCATG
*
63862749 TGGGGATAAAATCGACCCACCCAGCCCTACAAATCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
* *
63862789 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGT
63862828 GGTACTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
Found at i:63868880 original size:18 final size:18
Alignment explanation
Indices: 63868859--63868900 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
63868849 TTTAAGTTTA
63868859 TAATATTTT-TATATTATG
1 TAAT-TTTTATATATTATG
63868877 TAATTTTTATATATTATG
1 TAATTTTTATATATTATG
63868895 TAATTT
1 TAATTT
63868901 GTACCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TAATTTTTATATATTATG
Found at i:63886007 original size:38 final size:38
Alignment explanation
Indices: 63885964--63886036 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
63885954 ATGCAGCACA
63885964 AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
1 AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
63886002 AACTATTTTAAATATATACTTAAAAAAATTAAAAT
1 AACTATTTTAAATATATACTTAAAAAAATTAAAAT
63886037 TATTTTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (38 bp):
AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
Found at i:63887116 original size:20 final size:20
Alignment explanation
Indices: 63887091--63887131 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
63887081 AAAATAAAAA
*
63887091 TAAAAATACATAAATAAATTT
1 TAAAAA-ACAAAAATAAATTT
*
63887112 TAAAAAATAAAAATAAATTT
1 TAAAAAACAAAAATAAATTT
63887132 ATATTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAACAAAAATAAATTT
Found at i:63892302 original size:13 final size:13
Alignment explanation
Indices: 63892284--63892309 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63892274 TTATTTCTTT
63892284 TTATATATATATA
1 TTATATATATATA
63892297 TTATATATATATA
1 TTATATATATATA
63892310 GCAAATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATATATATA
Found at i:63894457 original size:14 final size:14
Alignment explanation
Indices: 63894438--63894467 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63894428 CCTTTTTTGG
63894438 AAAAAAAACCAAGA
1 AAAAAAAACCAAGA
*
63894452 AAAAAAAACGAAGA
1 AAAAAAAACCAAGA
63894466 AA
1 AA
63894468 GACCTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAACCAAGA
Found at i:63899379 original size:22 final size:22
Alignment explanation
Indices: 63899353--63899398 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
63899343 TAATGAATTA
63899353 AATT-ATTATTATTA-TTATAAGT
1 AATTAATTA-TATTATTTA-AAGT
63899375 AATTAATTATATTATTTAAAGT
1 AATTAATTATATTATTTAAAGT
63899397 AA
1 AA
63899399 AAAGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
AATTAATTATATTATTTAAAGT
Found at i:63899685 original size:14 final size:15
Alignment explanation
Indices: 63899661--63899689 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63899651 TACACCTAAA
63899661 TTTATGTTAATTAGC
1 TTTATGTTAATTAGC
63899676 TTTA-GTTAATTAGC
1 TTTATGTTAATTAGC
63899690 GCTAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (15 bp):
TTTATGTTAATTAGC
Found at i:63908787 original size:20 final size:20
Alignment explanation
Indices: 63908762--63908807 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
63908752 CGGCCTACCA
63908762 TGCGGCCTGGCACACGACCG
1 TGCGGCCTGGCACACGACCG
*
63908782 TGCGGCCTGGCGCACGACCG
1 TGCGGCCTGGCACACGACCG
63908802 TGCGGC
1 TGCGGC
63908808 ATCAATAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.39, G:0.39, T:0.11
Consensus pattern (20 bp):
TGCGGCCTGGCACACGACCG
Found at i:63910354 original size:17 final size:17
Alignment explanation
Indices: 63910317--63910356 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
63910307 TAGGTAGTAG
63910317 AAGAAAAAGAAGAGAGA
1 AAGAAAAAGAAGAGAGA
*
63910334 AAGAAGAAGAAGAG-GA
1 AAGAAAAAGAAGAGAGA
63910350 TAAGAAA
1 -AAGAAA
63910357 TGAAGATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAGAGAGA
Found at i:63912206 original size:15 final size:15
Alignment explanation
Indices: 63912186--63912216 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63912176 TGCAGTTTGA
63912186 GGGCTACCAAAAGTG
1 GGGCTACCAAAAGTG
*
63912201 GGGCTACTAAAAGTG
1 GGGCTACCAAAAGTG
63912216 G
1 G
63912217 AAAGAGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (15 bp):
GGGCTACCAAAAGTG
Found at i:63912672 original size:5 final size:5
Alignment explanation
Indices: 63912662--63912702 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
63912652 TCAAATGTAG
63912662 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT A
63912703 ATTTTGTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:63916465 original size:27 final size:27
Alignment explanation
Indices: 63916435--63916578 Score: 94
Period size: 27 Copynumber: 5.3 Consensus size: 27
63916425 AGTCCATCGA
* *
63916435 GACATTAAACATGGGGTAGTTCGCTAG
1 GACAATAAACACGGGGTAGTTCGCTAG
* * * *
63916462 GACAACAAACACAGGGTAGTCCG-TCAA
1 GACAATAAACACGGGGTAGTTCGCT-AG
* *
63916489 GACAATAAACACGAGGTAGTTCACTAG
1 GACAATAAACACGGGGTAGTTCGCTAG
* * * *
63916516 GACAATAGATATGGGGTAG-TCTGCTGG
1 GACAATAAACACGGGGTAGTTC-GCTAG
* * * * *
63916543 GACAGTAAAAACGTGGTAGTTCACTAA
1 GACAATAAACACGGGGTAGTTCGCTAG
*
63916570 GATAATAAA
1 GACAATAAA
63916579 AATGGTGTAT
Statistics
Matches: 85, Mismatches: 28, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
26 3 0.04
27 79 0.93
28 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (27 bp):
GACAATAAACACGGGGTAGTTCGCTAG
Found at i:63916684 original size:27 final size:27
Alignment explanation
Indices: 63916624--63916695 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
63916614 AATTCGTTGA
* * *
63916624 GACAGTAAAAATATGGTAGTCTATCGG
1 GACAGTAAAAATAAGGTAGTCCACCGG
*
63916651 GCCAGTAAAAATAAGGTAGTCCACCGG
1 GACAGTAAAAATAAGGTAGTCCACCGG
* * *
63916678 GATAGTAAACACAAGGTA
1 GACAGTAAAAATAAGGTA
63916696 ATCTGTTGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (27 bp):
GACAGTAAAAATAAGGTAGTCCACCGG
Found at i:63916773 original size:27 final size:27
Alignment explanation
Indices: 63916712--63916766 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
63916702 TGGAACAGTT
*
63916712 ACACGGGGTAGTCCATCGAGACAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
*
63916739 ACACGGGGTAGTCTATCAAGACAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
63916766 A
1 A
63916767 ATTGGGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (27 bp):
ACACGGGGTAGTCCATCAAGACAGTAA
Found at i:63924378 original size:19 final size:18
Alignment explanation
Indices: 63924320--63924434 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
63924310 TTTCTAGTTC
* *
63924320 TTTTATATATTTTTATAA
1 TTTTATATATTTATATAT
* * *
63924338 ATTTATAAATCTATCA-AT
1 TTTTATATATTTAT-ATAT
*
63924356 TTTTATTTATTATATATAT
1 TTTTATATATT-TATATAT
*
63924375 TTTTATATATTTATAAAT
1 TTTTATATATTTATATAT
* * * *
63924393 CTTCA-ATATTTGTAAAT
1 TTTTATATATTTATATAT
* *
63924410 GTATATATATTT-TATAT
1 TTTTATATATTTATATAT
63924427 TTTTATAT
1 TTTTATAT
63924435 TTTTCAAAAC
Statistics
Matches: 73, Mismatches: 20, Indels: 9
0.72 0.20 0.09
Matches are distributed among these distances:
17 23 0.32
18 34 0.47
19 16 0.22
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTATATATTTATATAT
Found at i:63924387 original size:45 final size:45
Alignment explanation
Indices: 63924323--63924433 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
63924313 CTAGTTCTTT
* * **
63924323 TATATATTTTTATAAATTTATAAATCTATCAATTTTTATTTAT-TA
1 TATATATTTTTATATATTTATAAATCT-TCAATATTTATAAATGTA
*
63924368 TATATATTTTTATATATTTATAAATCTTCAATATTTGTAAATGTA
1 TATATATTTTTATATATTTATAAATCTTCAATATTTATAAATGTA
*
63924413 TATATA-TTTTATATTTTTATA
1 TATATATTTTTATATATTTATA
63924434 TTTTTCAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 25 0.42
45 34 0.58
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (45 bp):
TATATATTTTTATATATTTATAAATCTTCAATATTTATAAATGTA
Found at i:63932731 original size:10 final size:10
Alignment explanation
Indices: 63932718--63932758 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
63932708 TTTATAATTC
63932718 TTTTCTTA-T
1 TTTTCTTATT
63932727 TTTT-TTATT
1 TTTTCTTATT
*
63932736 TTTCCTTATT
1 TTTTCTTATT
*
63932746 TTCTCTTATT
1 TTTTCTTATT
63932756 TTT
1 TTT
63932759 AAAATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 3 0.12
9 8 0.31
10 15 0.58
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCTTATT
Found at i:63947910 original size:31 final size:31
Alignment explanation
Indices: 63947867--63947950 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
63947857 TTAGTCTTGA
63947867 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
63947897 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
63947928 CATTTCACTAGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
63947951 ACTGTAAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:63948021 original size:42 final size:42
Alignment explanation
Indices: 63947974--63948065 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
63947964 TGGCCCATAG
* ** *
63947974 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
63948016 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
63948058 GCCCATTT
1 GCCCATTT
63948066 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:63948228 original size:25 final size:26
Alignment explanation
Indices: 63948198--63948307 Score: 163
Period size: 26 Copynumber: 4.3 Consensus size: 26
63948188 CTGGAGGCCT
* *
63948198 AGCCTTTTTTAAT-AACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
63948222 AGCCCTTTTCAGTAAACTGTGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
63948247 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
63948273 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
63948299 AGCCCTTTT
1 AGCCCTTTT
63948308 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 10 0.13
25 32 0.41
26 36 0.46
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:63948289 original size:51 final size:50
Alignment explanation
Indices: 63948198--63948307 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 50
63948188 CTGGAGGCCT
* * * *
63948198 AGCCTTTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGTGGCA-A
1 AGCCCTTTTCAATAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
63948247 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAAT-AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATA
63948299 AGCCCTTTT
1 AGCCCTTTT
63948308 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
49 11 0.20
50 10 0.19
51 23 0.43
52 10 0.19
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (50 bp):
AGCCCTTTTCAATAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
Found at i:63948382 original size:20 final size:20
Alignment explanation
Indices: 63948357--63948443 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
63948347 TTAGGAATAC
63948357 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
63948377 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
63948397 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
63948417 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
63948437 ATCATGT
1 ATCATGT
63948444 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:63949307 original size:27 final size:27
Alignment explanation
Indices: 63949277--63949378 Score: 79
Period size: 27 Copynumber: 3.8 Consensus size: 27
63949267 CAAATCAAGA
**
63949277 GTATTTCTGTAATTTTGTAAATT-AGGG
1 GTATTTCTGTAATTTTACAAATTGA-GG
63949304 GTATTT-TGGTAATTTTACAAATTGAGG
1 GTATTTCT-GTAATTTTACAAATTGAGG
* **
63949331 GTATTTC-GATAATTTCACAAA-CCAGTG
1 GTATTTCTG-TAATTTTACAAATTGAG-G
63949358 GTATTT-TGGTAATTTTACAAA
1 GTATTTCT-GTAATTTTACAAA
63949379 CTAGGGGTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
26 4 0.06
27 56 0.90
28 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (27 bp):
GTATTTCTGTAATTTTACAAATTGAGG
Found at i:63949323 original size:54 final size:54
Alignment explanation
Indices: 63949253--63949378 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 54
63949243 TACAAAGGTG
* * *** **
63949253 TTTTGGTAAATCTACAAATCAAGAGTATTTCTG-TAATTTTGTAAATTAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGAGTATTTC-GATAATTTCACAAACCAGGGGTA
** * *
63949307 TTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGAGTATTTCGATAATTTCACAAACCAGGGGTA
63949361 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
63949379 CTAGGGGTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGAGTATTTCGATAATTTCACAAACCAGGGGTA
Found at i:63949504 original size:54 final size:54
Alignment explanation
Indices: 63949430--63949682 Score: 167
Period size: 54 Copynumber: 4.6 Consensus size: 54
63949420 GTAATTTCAC
* * *
63949430 AATCGAGGGTAAAATGGTAATTTTGTAAATCAGGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAGGGGTAAAATAGTAATTTTATA
* *** *
63949484 AATCGAGGGTAAAATAGTAATTCTATAAATC-GAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAG-GGGTAAAATAGTAATTTTATA
** * *** *
63949537 CAAGTCGAGGGT-ATTTCAGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACA
1 -AA-TCGAGGGTAAAAT-AGTAATTTTATAAATCA-GGGGTAAAATAGTAATTTTATA
* *** * * *
63949594 AA-CCAGGGGTATTTTAGTAA-TTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
1 AATCGA-GGGTAAAATAGTAATTTTATAAATCAG-GGGTAAAATAGTAATTTTATA
* * *
63949647 GATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
1 AATCGAGGGTAAAATAGTAATTTTATAAATC-AGGG
63949683 TAGAACGATA
Statistics
Matches: 153, Mismatches: 32, Indels: 27
0.72 0.15 0.13
Matches are distributed among these distances:
52 1 0.01
53 29 0.19
54 66 0.43
55 33 0.22
56 22 0.14
57 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.34
Consensus pattern (54 bp):
AATCGAGGGTAAAATAGTAATTTTATAAATCAGGGGTAAAATAGTAATTTTATA
Found at i:63949548 original size:28 final size:26
Alignment explanation
Indices: 63949302--63949630 Score: 152
Period size: 27 Copynumber: 12.2 Consensus size: 26
63949292 TGTAAATTAG
* *
63949302 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * *
63949329 GGGTATTTCGATAATTTCACAAA-CCA
1 GGGTATTTAG-TAATTTTACAAATCGA
* *
63949355 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTA-TTTAGTAATTTTACAAATCGA
* * ** *
63949382 GGGGTGTTTTAGTAATTCTATCCTATAG-
1 -GGGT-ATTTAGTAATTTTA-CAAATCGA
*
63949410 GGGTATTTCAGTAATTTCAC-AATCGA
1 GGGTATTT-AGTAATTTTACAAATCGA
** * **
63949436 GGGTAAAATGGTAATTTTGTAAATC-A
1 GGGT-ATTTAGTAATTTTACAAATCGA
** **
63949462 GGGGTAAAATAGTAATTTTGTAAATCGA
1 -GGGT-ATTTAGTAATTTTACAAATCGA
** * *
63949490 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
* *
63949517 GGGTACTTTGGTAATTTTTACAAGTCGA
1 GGGTA-TTTAGTAA-TTTTACAAATCGA
*
63949545 GGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTT-AGTAATTTTACAAATC-GA
*
63949573 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTA-TTTAGTAATTTTACAAATCGA
63949599 GGGGTATTTTAGTAATTTGT--AAATCGA
1 -GGGTA-TTTAGTAATTT-TACAAATCGA
63949626 GGGTA
1 GGGTA
63949631 AAATGGTAAT
Statistics
Matches: 241, Mismatches: 40, Indels: 43
0.74 0.12 0.13
Matches are distributed among these distances:
25 3 0.01
26 31 0.13
27 156 0.65
28 48 0.20
29 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:63949569 original size:55 final size:53
Alignment explanation
Indices: 63949499--63949630 Score: 133
Period size: 55 Copynumber: 2.4 Consensus size: 53
63949489 AGGGTAAAAT
* * **
63949499 AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTC-GAGGGTATTTC
1 AGTAATTTTA-AAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTTC
* * *
63949554 AGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AGTAATTTTA-AAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTC
63949609 AGTAATTTGT-AAATCGAGGGTA
1 AGTAATTT-TAAAATCGAGGGTA
63949631 AAATGGTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
53 6 0.09
54 5 0.08
55 39 0.60
56 15 0.23
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (53 bp):
AGTAATTTTAAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTC
Found at i:63949607 original size:190 final size:189
Alignment explanation
Indices: 63949357--63949723 Score: 465
Period size: 190 Copynumber: 1.9 Consensus size: 189
63949347 ACAAACCAGT
** * ** *
63949357 GGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTAGTAATTCTATCCTATAGGGGTATTTCAGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
* * * *
63949422 AATTT-CACAATCGAGGGTAAAATGGTAATTTTGTAAATC-AGGGGTAAAATAGTAATTTTGTAA
66 AATTTGCA-AATCGAGGGTAAAATGGTAATTCTATAAATCGA-GGGTAAAATAGTAATTCTATAA
*
63949485 ATCGAGGGTAAAATAG-TAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
129 ATCGAGGGTAAAA-AGATAATTCTATAAACCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
* *
63949546 GGTATTTCAGTAATTTTACAAA-TCAGGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTT
1 GGTATTTCAGTAATTTTACAAACT-A-GGGGTATTTTAGTAATTCTATCAAA-CAGGGGTATTTC
* * *
63949609 AGTAATTTGTAAATCGAGGGTAAAATGGTAATTCTATAGATCGAGGGTAAAATGGTAATTCTATA
63 AGTAATTTGCAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATA
* * * *
63949674 AATCGAGGGTAGAACGATAATTCTGTAAACCGGGGGTACTTTGGTAATTT
128 AATCGAGGGTAAAAAGATAATTCTATAAACCGAGGGTACTTTGGTAATTT
63949724 GGTAAACTAA
Statistics
Matches: 152, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
188 1 0.01
189 24 0.16
190 125 0.82
191 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (189 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
AATTTGCAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAAT
CGAGGGTAAAAAGATAATTCTATAAACCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
Found at i:63949651 original size:27 final size:27
Alignment explanation
Indices: 63949610--63949711 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
63949600 GGGTATTTTA
*
63949610 GTAATT-TGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
63949636 GTAATTCTATAGATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
63949663 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
63949690 ATAATTCTGTAAACCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
63949712 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 6 0.09
27 60 0.91
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:63949719 original size:54 final size:53
Alignment explanation
Indices: 63949584--63949723 Score: 127
Period size: 54 Copynumber: 2.6 Consensus size: 53
63949574 GGTATTTTAG
* * * * * * * *
63949584 TAATTTTACAAACCAGGGGTATTTTAGTAATTTGTAAATCGAGGGTAAAATGG
1 TAATTCTATAAACCGGGGGTAATTTGGTAATTTATAAATCGAGGGTAAAACGA
* * * ** *
63949637 TAATTCTATAGATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAACGA
1 TAATTCTATAAACCGGGGGTAATTTGGTAATT-TATAAATCGAGGGTAAAACGA
* *
63949691 TAATTCTGTAAACCGGGGGTACTTTGGTAATTT
1 TAATTCTATAAACCGGGGGTAATTTGGTAATTT
63949724 GGTAAACTAA
Statistics
Matches: 65, Mismatches: 21, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
53 23 0.35
54 42 0.65
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (53 bp):
TAATTCTATAAACCGGGGGTAATTTGGTAATTTATAAATCGAGGGTAAAACGA
Done.