Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 13 of 190
Found at i:1935385 original size:11 final size:11
Alignment explanation
Indices: 1935349--1935433 Score: 62
Period size: 11 Copynumber: 7.7 Consensus size: 11
1935339 ATTATCAACG
1935349 ATTTATTACTA
1 ATTTATTACTA
* * *
1935360 AATTAATATTA
1 ATTTATTACTA
*
1935371 ATTTACTACTA
1 ATTTATTACTA
* * *
1935382 ATTTATGAATG
1 ATTTATTACTA
1935393 ATTTATTACTA
1 ATTTATTACTA
* *
1935404 ATTTATAATTA
1 ATTTATTACTA
* *
1935415 GTTTATTATTA
1 ATTTATTACTA
*
1935426 AATTATTA
1 ATTTATTA
1935434 ATGATTTACT
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 55 1.00
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.52
Consensus pattern (11 bp):
ATTTATTACTA
Found at i:1935396 original size:44 final size:45
Alignment explanation
Indices: 1935335--1935452 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 45
1935325 TGATATACAG
* *
1935335 CTAAATTATCAACGATTTATTACTAAATTAAT-ATTAATTTACTA
1 CTAAATTATGAATGATTTATTACTAAATTAATAATTAATTTACTA
* * * *
1935379 CTAATTTATGAATGATTTATTACT-AATTTATAATTAGTTTATTA
1 CTAAATTATGAATGATTTATTACTAAATTAATAATTAATTTACTA
* * * *
1935423 TTAAATTATTAATGATTTACTATTAAATTA
1 CTAAATTATGAATGATTTATTACTAAATTA
1935453 TTGATGATTT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 6 0.10
44 50 0.83
45 4 0.07
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (45 bp):
CTAAATTATGAATGATTTATTACTAAATTAATAATTAATTTACTA
Found at i:1935476 original size:66 final size:66
Alignment explanation
Indices: 1935350--1935477 Score: 152
Period size: 66 Copynumber: 1.9 Consensus size: 66
1935340 TTATCAACGA
* * *
1935350 TTTATTACTAAATTAATATTAATTTACTACTAATTTATGAATGATTTATTACTAATTTATAATTA
1 TTTATTACTAAATTAATAATAATTTACTACTAAATTATGAATGATTTATTACTAAGTTATAATTA
1935415 G
66 G
* * * * *
1935416 TTTATTATTAAATTATTAATGATTTACTATTAAATTATTG-ATGATTTGTTA-TAAAGTTATAA
1 TTTATTACTAAATTAATAATAATTTACTACTAAATTA-TGAATGATTTATTACT-AAGTTATAA
1935478 CTGATTTACT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
65 1 0.02
66 49 0.94
67 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (66 bp):
TTTATTACTAAATTAATAATAATTTACTACTAAATTATGAATGATTTATTACTAAGTTATAATTA
G
Found at i:1935527 original size:44 final size:43
Alignment explanation
Indices: 1935433--1935541 Score: 100
Period size: 44 Copynumber: 2.6 Consensus size: 43
1935423 TTAAATTATT
* * * *** * *
1935433 AATGATTTACTATTAAATTATTGATGATTTGTTATAAAGTTAT
1 AATGATTTACTATTAATTTATCGATAATTTACGATAAAATTAC
1935476 AACTGATTTACTATTAATTTATCGATAATTTACGATAAAATTACC
1 AA-TGATTTACTATTAATTTATCGATAATTTACGATAAAATTA-C
1935521 AATGA-TTA--ATTAATTTA-CGAT
1 AATGATTTACTATTAATTTATCGAT
1935542 TATCATTGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
40 4 0.07
41 9 0.16
43 5 0.09
44 36 0.64
45 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (43 bp):
AATGATTTACTATTAATTTATCGATAATTTACGATAAAATTAC
Found at i:1935721 original size:22 final size:22
Alignment explanation
Indices: 1935662--1935943 Score: 102
Period size: 22 Copynumber: 12.8 Consensus size: 22
1935652 ATTAACCATG
* * * *
1935662 ATTTATTATCAAGTTATAACTA
1 ATTTACTATTAAGTTATTATTA
*
1935684 ATTTA-TATTAAATTATCTA-TA
1 ATTTACTATTAAGTTAT-TATTA
*
1935705 ATTTACTATTAAGTTATTATTG
1 ATTTACTATTAAGTTATTATTA
*
1935727 ATTAACTATTAAGTTATTGATGATTA
1 ATTTACTATTAAGTTA-T--T-ATTA
* * *
1935753 A-CTACTACTAAATTA-TATTA
1 ATTTACTATTAAGTTATTATTA
* *
1935773 ATTTACTTTTAAGTTTCAGTGATTA
1 ATTTACTATTAAG-TT-A-TTATTA
* * *
1935798 A-TAAC-A-CAA-TTATTATTG
1 ATTTACTATTAAGTTATTATTA
* *
1935816 ATTTATTACTAAGTTATTTATT-
1 ATTTACTATTAAGTTA-TTATTA
*
1935838 ATTTACTACTAAGTTTATTAATTA
1 ATTTACTATTAAG-TTATT-ATTA
* * * * *
1935862 A-TTACTTTTAAACTGA-AATTG
1 ATTTACTATT-AAGTTATTATTA
* * **
1935883 ATTGACTATTACA-TTATCACCA
1 ATTTACTATTA-AGTTATTATTA
*
1935905 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATTATTA
*
1935927 ATTTATTATTAAGTTAT
1 ATTTACTATTAAGTTAT
1935944 CAATTATTAA
Statistics
Matches: 193, Mismatches: 42, Indels: 50
0.68 0.15 0.18
Matches are distributed among these distances:
18 5 0.03
19 3 0.02
20 8 0.04
21 36 0.19
22 94 0.49
23 21 0.11
24 6 0.03
25 16 0.08
26 4 0.02
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATTATTA
Found at i:1935855 original size:23 final size:22
Alignment explanation
Indices: 1935810--1935867 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
1935800 AACACAATTA
*
1935810 TTATTGATTTATTACTAAGTTAT
1 TTATT-ATTTACTACTAAGTTAT
1935833 TTATTATTTACTACTAAGTTTAT
1 TTATTATTTACTACTAAG-TTAT
* *
1935856 TAATTAATTACT
1 TTATTATTTACT
1935868 TTTAAACTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (22 bp):
TTATTATTTACTACTAAGTTAT
Found at i:1935932 original size:11 final size:11
Alignment explanation
Indices: 1935912--1935945 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1935902 CCAATTTACT
1935912 ATTAAGTTATC
1 ATTAAGTTATC
* *
1935923 ATTAATTTATT
1 ATTAAGTTATC
1935934 ATTAAGTTATC
1 ATTAAGTTATC
1935945 A
1 A
1935946 ATTATTAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (11 bp):
ATTAAGTTATC
Found at i:1936282 original size:22 final size:22
Alignment explanation
Indices: 1936254--1936335 Score: 103
Period size: 22 Copynumber: 3.7 Consensus size: 22
1936244 TTAATGATTA
1936254 AAATTAT-AAGTTATTTACTACT
1 AAATTATCAA-TTATTTACTACT
*
1936276 AAATTATCAATTATTTACTATT
1 AAATTATCAATTATTTACTACT
*
1936298 AATTTATCAATTATTTACTACT
1 AAATTATCAATTATTTACTACT
* * *
1936320 AATTTATGAATGATTT
1 AAATTATCAATTATTT
1936336 GCTGTTAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 52 0.96
23 2 0.04
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (22 bp):
AAATTATCAATTATTTACTACT
Found at i:1936317 original size:44 final size:44
Alignment explanation
Indices: 1936264--1936971 Score: 129
Period size: 44 Copynumber: 16.1 Consensus size: 44
1936254 AAATTATAAG
* *
1936264 TTATTTACTACTAAATTATCAATTATTTACTATTAATTTATCAA
1 TTATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
* * * * *
1936308 TTATTTACTACTAATTTATGAATGATTTGCTGTTAAGTTATGAA
1 TTATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
* * * *** * * *
1936352 TGATTTACCATTAAATTATTGGTGATTTACTACTAACTT-TACTGA
1 TTATTTACTACTAAATTATCAATGATTTACTATTAAGTTAT-C-AA
* * * * *
1936397 TTATTTACTA-AAAAGTTATTAATGATTAACTAATTTACTACATAATTGTCAA
1 TTATTTACTACTAAA-TTATCAATGATTTACT-A--T--T--A-AGTTATCAA
* * * * **
1936449 -TAGTTTA-TAAC-AAGTTATTATTAATTTACTATTGCGTTA-CTAA
1 TTA-TTTACT-ACTAAATTATCAATGATTTACTATTAAGTTATC-AA
* * *
1936492 TGATTTACTACTAAGTTATC-A--ATTTACTACTACA-TTATCCAA
1 TTATTTACTACTAAATTATCAATGATTTACTATTA-AGTTAT-CAA
* * * ** * *
1936534 -GATTTACTATTATATT-TTTATGTATTTAGTATTATGTTATC-A
1 TTATTTACTACTAAATTATCAATG-ATTTACTATTAAGTTATCAA
* * * * * ** * *
1936576 TTAATTTACTACTTAATTTTTAATTATTTATTACAAAATTATCAC
1 TT-ATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
** * * * * * *
1936621 CAATTTACCATTAAATTATCAATGATTCACTATCAAATTAT-TA
1 TTATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
* *
1936664 TTGA-TTAATATTAAATTATGC-ATGATTTACTATTAAGTTATC-A
1 TT-ATTTACTACTAAATTAT-CAATGATTTACTATTAAGTTATCAA
* * *** * *
1936707 TTAATTAACTATTCTGTTATCAACGATTTACTATTAAGTTAT-AC
1 TT-ATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
* ** * * * *
1936751 TGATTTACTTTTAAATTTTCAATG-GTTAGCTACTAAATTATCAA
1 TTATTTACTACTAAATTATCAATGATTTA-CTATTAAGTTATCAA
* * ** * * **
1936795 TTATTTACTGCTAATTTAT-AATTGATTTACTGGTAATTTGTTTA
1 TTATTTACTACTAAATTATCAA-TGATTTACTATTAAGTTATCAA
* * * ** *
1936839 TGATTTACTACT--A-TA--AATTAATTACTATTAAACTA-AAA
1 TTATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
* * * *
1936877 TTGATTTACTATTAAATTATCACTAATTTACTATTGAGTTATC-A
1 TT-ATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
* * * * * * * * *
1936921 TTGATTTATTATTAACTTTTCAATAATTAACTACTAAGTTAGCAT
1 TT-ATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
1936966 TTATTT
1 TTATTT
1936972 TTTATTAAGT
Statistics
Matches: 470, Mismatches: 145, Indels: 98
0.66 0.20 0.14
Matches are distributed among these distances:
38 2 0.00
39 20 0.04
40 3 0.01
41 29 0.06
42 9 0.02
43 75 0.16
44 266 0.57
45 31 0.07
46 2 0.00
48 1 0.00
50 2 0.00
51 16 0.03
52 9 0.02
53 4 0.01
54 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (44 bp):
TTATTTACTACTAAATTATCAATGATTTACTATTAAGTTATCAA
Found at i:1936365 original size:22 final size:22
Alignment explanation
Indices: 1936266--1936370 Score: 102
Period size: 22 Copynumber: 4.8 Consensus size: 22
1936256 ATTATAAGTT
* * *
1936266 ATTTACTACTAAATTATCAATT
1 ATTTACTATTAATTTATCAATG
*
1936288 ATTTACTATTAATTTATCAATT
1 ATTTACTATTAATTTATCAATG
* *
1936310 ATTTACTACTAATTTATGAATG
1 ATTTACTATTAATTTATCAATG
* * * *
1936332 ATTTGCTGTTAAGTTATGAATG
1 ATTTACTATTAATTTATCAATG
* *
1936354 ATTTACCATTAAATTAT
1 ATTTACTATTAATTTAT
1936371 TGGTGATTTA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAATTTATCAATG
Found at i:1936538 original size:22 final size:20
Alignment explanation
Indices: 1936493--1936542 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
1936483 CGTTACTAAT
1936493 GATTTACTACTAAGTTATCA
1 GATTTACTACTAAGTTATCA
1936513 -ATTTACTACTACA-TTATCCAA
1 GATTTACTACTA-AGTTAT-C-A
1936534 GATTTACTA
1 GATTTACTA
1936543 TTATATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 15 0.58
20 2 0.08
21 1 0.04
22 8 0.31
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (20 bp):
GATTTACTACTAAGTTATCA
Found at i:1936658 original size:22 final size:21
Alignment explanation
Indices: 1936625--1936795 Score: 103
Period size: 22 Copynumber: 7.9 Consensus size: 21
1936615 TATCACCAAT
*
1936625 TTACCATTAAATTATCAATGA
1 TTACTATTAAATTATCAATGA
* * *
1936646 TTCACTATCAAATTATTATTGA
1 TT-ACTATTAAATTATCAATGA
*
1936668 TTAATATTAAATTATGC-ATGA
1 TTACTATTAAATTAT-CAATGA
* * *
1936689 TTTACTATTAAGTTATCATTAA
1 -TTACTATTAAATTATCAATGA
*** *
1936711 TTAACTATTCTGTTATCAACGA
1 TT-ACTATTAAATTATCAATGA
* *
1936733 TTTACTATTAAGTTAT-ACTGA
1 -TTACTATTAAATTATCAATGA
* * *
1936754 TTTACTTTTAAATTTTCAATGG
1 -TTACTATTAAATTATCAATGA
*
1936776 TTAGCTACTAAATTATCAAT
1 TTA-CTATTAAATTATCAAT
1936796 TATTTACTGC
Statistics
Matches: 113, Mismatches: 29, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
21 38 0.34
22 73 0.65
23 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (21 bp):
TTACTATTAAATTATCAATGA
Found at i:1936678 original size:43 final size:44
Alignment explanation
Indices: 1936611--1936719 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 44
1936601 ATTTATTACA
** * *
1936611 AAATTATCACCAATTTACCATTAAATTAT-CAATGATTCACTATC
1 AAATTATCATTAATTAACTATTAAATTATGC-ATGATTCACTATC
* * * *
1936655 AAATTATTATTGATTAA-TATTAAATTATGCATGATTTACTATT
1 AAATTATCATTAATTAACTATTAAATTATGCATGATTCACTATC
*
1936698 AAGTTATCATTAATTAACTATT
1 AAATTATCATTAATTAACTATT
1936720 CTGTTATCAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
43 35 0.67
44 17 0.33
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (44 bp):
AAATTATCATTAATTAACTATTAAATTATGCATGATTCACTATC
Found at i:1936831 original size:22 final size:22
Alignment explanation
Indices: 1936783--1936833 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1936773 TGGTTAGCTA
*
1936783 CTAAATTATCAATTATTTACTG
1 CTAATTTATCAATTATTTACTG
1936805 CTAATTTAT-AATTGATTTACTG
1 CTAATTTATCAATT-ATTTACTG
*
1936827 GTAATTT
1 CTAATTT
1936834 GTTTATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (22 bp):
CTAATTTATCAATTATTTACTG
Found at i:1936905 original size:22 final size:22
Alignment explanation
Indices: 1936880--1936953 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
1936870 ACTAAAATTG
*
1936880 ATTTACTATTAAATTATCACTA
1 ATTTACTATTAAATTATCAATA
* * * *
1936902 ATTTACTATTGAGTTATCATTG
1 ATTTACTATTAAATTATCAATA
* * *
1936924 ATTTATTATTAACTTTTCAATA
1 ATTTACTATTAAATTATCAATA
*
1936946 ATTAACTA
1 ATTTACTA
1936954 CTAAGTTAGC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATA
Found at i:1936977 original size:44 final size:44
Alignment explanation
Indices: 1936876--1936986 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
1936866 TTAAACTAAA
* * * * * *
1936876 ATTGATTTACTATTAAATTATCACTAATTTACTATTGAGTTATC
1 ATTGATTTATTATTAAATTATCAATAATTAACTACTAAGTTAGC
* *
1936920 ATTGATTTATTATTAACTTTTCAATAATTAACTACTAAGTTAGC
1 ATTGATTTATTATTAAATTATCAATAATTAACTACTAAGTTAGC
* * *
1936964 ATTTATTTTTTATTAAGTTATCA
1 ATTGATTTATTATTAAATTATCA
1936987 TTGATCTAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (44 bp):
ATTGATTTATTATTAAATTATCAATAATTAACTACTAAGTTAGC
Found at i:1937140 original size:22 final size:22
Alignment explanation
Indices: 1937104--1937181 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 22
1937094 TGGATTATTG
* * * *
1937104 ACTATTAAATCATCATTCATCT
1 ACTATTAAGTTATCACTAATCT
*
1937126 ACTATTAAGTTATCACTAATTT
1 ACTATTAAGTTATCACTAATCT
* *
1937148 ACTACTAAGTTATTGA-TAAT-T
1 ACTATTAAGTTA-TCACTAATCT
*
1937169 ATTATTAAGTTAT
1 ACTATTAAGTTAT
1937182 ACTCATTACA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.02
21 11 0.24
22 32 0.70
23 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (22 bp):
ACTATTAAGTTATCACTAATCT
Found at i:1939326 original size:17 final size:17
Alignment explanation
Indices: 1939299--1939342 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1939289 TTGAAAGCAT
**
1939299 AATTTTT-TTATTTAAA
1 AATTTTTATTATGCAAA
*
1939315 AATTTTTATTATGCATA
1 AATTTTTATTATGCAAA
1939332 AATTTTTATTA
1 AATTTTTATTA
1939343 AATAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
AATTTTTATTATGCAAA
Found at i:1939671 original size:14 final size:14
Alignment explanation
Indices: 1939652--1939678 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1939642 AACATTAAAT
1939652 AATCTTGAGATATC
1 AATCTTGAGATATC
1939666 AATCTTGAGATAT
1 AATCTTGAGATAT
1939679 AAATTAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
AATCTTGAGATATC
Found at i:1939854 original size:13 final size:13
Alignment explanation
Indices: 1939836--1939860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1939826 TTTTACAAGT
1939836 AAAAAGTTCAATA
1 AAAAAGTTCAATA
1939849 AAAAAGTTCAAT
1 AAAAAGTTCAAT
1939861 GAATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAAGTTCAATA
Found at i:1945529 original size:60 final size:60
Alignment explanation
Indices: 1945461--1945970 Score: 576
Period size: 58 Copynumber: 8.7 Consensus size: 60
1945451 TTTTGTGCAG
1945461 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAA
* * *
1945521 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TGA-TTTTTT-GAAATTTTTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-ATTTTTTTGGAAATTTATTTTTAA
* *
1945579 GAAAAATTGATATTTTCAACTTTTCCCCAAAAAT-TTTTTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAA
* * *
1945638 GGAAAATTGATACTTTCATCTTTTCCCC-AAAA-ATATTTTTTTGGAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAA-TTT-ATTTTTAA
* * * **** *
1945698 GGAAAATTGATACTTTCAACTCTTCCTC--AAAGCCCTTTTTTT-GAAATTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAA-TTTATTTTTAA
1945756 GAAAAATTGATACTTTCAACTTTTCCCC-AAAA-ATA-TTTTTTGG-AATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAA
* * ** *
1945812 GAAAAATTGATACTTTTAACTTTTCCTCAAAAACCCT-TTTTTTTTGAAATTT-TATTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATATTTTTTTGGAAATTTAT-TTTTAA
* ***
1945872 AAAAAAAAAATACTTTCAACTTTTCCCC-AAAA-AT-TTTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAA
1945929 -AGAAAATTGATACTTTCAACTATTT-CCCAAAAATAT-TTTTTT
1 GA-AAAATTGATACTTTCAACT-TTTCCCCAAAAATATATTTTTT
1945971 GATTTTTAAT
Statistics
Matches: 388, Mismatches: 42, Indels: 41
0.82 0.09 0.09
Matches are distributed among these distances:
56 37 0.10
57 52 0.13
58 111 0.29
59 83 0.21
60 105 0.27
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (60 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAA
Found at i:1945590 original size:58 final size:58
Alignment explanation
Indices: 1945461--1945969 Score: 601
Period size: 60 Copynumber: 8.7 Consensus size: 58
1945451 TTTTGTGCAG
1945461 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TA-TTTTTTGGAAATTTATTTTTAA
* * *
1945521 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTT-GAAATTTTTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATT-ATTTTTTGGAAATTTATTTTTAA
* *
1945579 GAAAAATTGATATTTTCAACTTTTCCCCAAAAATTTTTTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TTATTTTTTGGAAATTTATTTTTAA
* * *
1945638 GGAAAATTGATACTTTCATCTTTTCCCCAAAAA-TATTTTTTTGGAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATTA-TTTTTTGGAAA-TTT-ATTTTTAA
* * * *** *
1945698 GGAAAATTGATACTTTCAACTCTTCCTCAAAGCCCT-TTTTTT-GAAATTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAA-AATTATTTTTTGGAAA-TTTATTTTTAA
1945756 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGG-AATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGGAAATTTATTTTTAA
* * *
1945812 GAAAAATTGATACTTTTAACTTTTCCTCAAAAACCCTT-TTTTTTTGAAATTT-TATTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA---TTATTTTTTGGAAATTTAT-TTTTAA
* ***
1945872 AAAAAAAAAATACTTTCAACTTTTCCCCAAAAATT-TTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGGAAATTTATTTTTAA
1945929 -AGAAAATTGATACTTTCAACTATTT-CCCAAAAA-TATTTTTT
1 GA-AAAATTGATACTTTCAACT-TTTCCCCAAAAATTATTTTTT
1945970 TGATTTTTAA
Statistics
Matches: 391, Mismatches: 38, Indels: 43
0.83 0.08 0.09
Matches are distributed among these distances:
56 44 0.11
57 60 0.15
58 102 0.26
59 71 0.18
60 113 0.29
62 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTGGAAATTTATTTTTAA
Found at i:1945669 original size:117 final size:115
Alignment explanation
Indices: 1945461--1945970 Score: 627
Period size: 117 Copynumber: 4.4 Consensus size: 115
1945451 TTTTGTGCAG
* *
1945461 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAAT-T-TTTTTTTTGAAATTTATTTTTAAGAAAA
* *
1945526 ATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTT-GAAATTTTTTTTTAA
64 ATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTGGAAATTTATTTTTAA
* *
1945579 GAAAAATTGATATTTTCAACTTTTCCCCAAAAATTTTTTTTTTGGAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTT-GAAATTTATTTTTAAGAAAAA
* *
1945644 TTGATACTTTCATCTTTTCCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAA
65 TTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAA-TTT-ATTTTTAA
* * * **** *
1945698 GGAAAATTGATACTTTCAACTCTTCCTC-AAAGCCCTTTTTTTGAAATTTTATTTTCAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTGAAA-TTTATTTTTAAGAAAAA
1945762 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGG-AATTTATTTTTAA
65 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAA
* * * *
1945812 GAAAAATTGATACTTTTAACTTTTCCTCAAAAACCCTTTTTTTTTGAAATTT-TATTTTAAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA--TTTTTTTTTTGAAATTTAT-TTTTAAGAAA
*** *
1945876 AAAAAATACTTTCAACTTTTCCCCAAAAATTTTTTTTGGAAATTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAA
*
1945929 -AGAAAATTGATACTTTCAACTATTT-CCCAAAAATATTTTTTT
1 GA-AAAATTGATACTTTCAACT-TTTCCCCAAAAATTTTTTTTT
1945971 GATTTTTAAT
Statistics
Matches: 345, Mismatches: 34, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
114 32 0.09
115 15 0.04
116 63 0.18
117 113 0.33
118 92 0.27
119 30 0.09
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (115 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTGAAATTTATTTTTAAGAAAAAT
TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAA
Found at i:1946028 original size:6 final size:6
Alignment explanation
Indices: 1946017--1946049 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1946007 AAAGAAGTGT
*
1946017 AAAATA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
1946050 GAATATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:1946031 original size:28 final size:27
Alignment explanation
Indices: 1945983--1946036 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1945973 TTTTTAATAA
1945983 AAGTGAAAATAAATAAAAAAAAATAAAG
1 AAGTGAAAATAAAT-AAAAAAAATAAAG
*
1946011 AAGTGTAAAATAAA-AATAAAAATAAA
1 AAGTG-AAAATAAATAAAAAAAATAAA
1946037 ATAAAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 11 0.46
28 5 0.21
29 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (27 bp):
AAGTGAAAATAAATAAAAAAAATAAAG
Found at i:1946036 original size:17 final size:17
Alignment explanation
Indices: 1945993--1946049 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
1945983 AAGTGAAAAT
1945993 AAATAAAA-AAAAATAA
1 AAATAAAATAAAAATAA
1946009 AGAAGTGTAAAATAAAAATAA
1 A-AA---TAAAATAAAAATAA
*
1946030 AAATAAAATAAAGATAA
1 AAATAAAATAAAAATAA
1946047 AAA
1 AAA
1946050 GAATATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 1 0.03
17 18 0.51
20 7 0.20
21 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:1946037 original size:11 final size:11
Alignment explanation
Indices: 1945978--1946049 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 11
1945968 TTTGATTTTT
*
1945978 AATAAAAGTGAA
1 AATAAAA-TAAA
1945990 AAT-AAATAAA
1 AATAAAATAAA
1946000 AA-AAAATAAA
1 AATAAAATAAA
1946010 GAAGTGTAAAATAAA
1 -AA---TAAAATAAA
1946025 AATAAAA-ATAA
1 AATAAAATA-AA
1946036 AATAAAGATAAA
1 AATAAA-ATAAA
1946048 AA
1 AA
1946050 GAATATTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
10 13 0.26
11 18 0.36
12 8 0.16
13 1 0.02
14 2 0.04
15 8 0.16
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:1946971 original size:23 final size:23
Alignment explanation
Indices: 1946913--1947006 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 23
1946903 AATTTTCAGT
*
1946913 CAGATAAAT-AAAAAAAAA-AGA
1 CAGATAAATAAAAAAAAAATAAA
* *
1946934 -A-A-AAATCAAACAAAAATAAA
1 CAGATAAATAAAAAAAAAATAAA
*
1946954 TCAGATAAATAAAAAAAAAATTAA
1 -CAGATAAATAAAAAAAAAATAAA
* **
1946978 CAGATAAATTAAAATTAAAT-AA
1 CAGATAAATAAAAAAAAAATAAA
1947000 CAGATAA
1 CAGATAA
1947007 TTACATAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.07
19 9 0.15
20 3 0.05
22 10 0.17
23 18 0.31
24 15 0.25
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.17
Consensus pattern (23 bp):
CAGATAAATAAAAAAAAAATAAA
Found at i:1946991 original size:22 final size:22
Alignment explanation
Indices: 1946913--1947025 Score: 67
Period size: 22 Copynumber: 5.2 Consensus size: 22
1946903 AATTTTCAGT
1946913 CAGATAAA-TAAAAAAAA--AA
1 CAGATAAATTAAAAAAAATTAA
* * * *
1946932 GA-AAAAATCAAACAAAAATAAA
1 CAGATAAATTAAA-AAAAATTAA
*
1946954 TCAGATAAATAAAAAAAAAATTAA
1 -CAGATAAAT-TAAAAAAAATTAA
*
1946978 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAATTAAAA-AAAATTAA
* *
1947000 CAGAT-AATTACATAAATATTAA
1 CAGATAAATTA-AAAAAAATTAA
1947022 CAGA
1 CAGA
1947026 AAAAAAAGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
18 4 0.06
19 4 0.06
20 5 0.07
21 7 0.10
22 23 0.32
23 13 0.18
24 13 0.18
25 3 0.04
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.19
Consensus pattern (22 bp):
CAGATAAATTAAAAAAAATTAA
Found at i:1947184 original size:7 final size:6
Alignment explanation
Indices: 1947140--1947198 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
1947130 TATATAAAAT
* *
1947140 AATAAA AATAAA AATAAA GAT-AA AATAAA AATGTAAA ATACAAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA--TAAA A-A-TAAA AATAAA
1947191 AATAAA AA
1 AATAAA AA
1947199 ATATATATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.09
6 29 0.66
7 1 0.02
8 9 0.20
9 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:1947370 original size:1 final size:1
Alignment explanation
Indices: 1947359--1947417 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
1947349 AACATCTTCA
* * * * ** *
1947359 TTTTTTATTTTTTTGTTTTTGTTTTTTTGTTTTTTTTTTTTTTTGCTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1947418 GACCAAAGCT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.02, C:0.02, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:1947383 original size:14 final size:15
Alignment explanation
Indices: 1947359--1947418 Score: 77
Period size: 14 Copynumber: 4.0 Consensus size: 15
1947349 AACATCTTCA
*
1947359 TTTTTTATTTTTTTG
1 TTTTTTGTTTTTTTG
1947374 -TTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
*
1947388 TTTTTTTTTTTTTTTG
1 -TTTTTTGTTTTTTTG
*
1947404 CTTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
1947419 ACCAAAGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.33
15 13 0.33
16 13 0.33
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (15 bp):
TTTTTTGTTTTTTTG
Found at i:1947392 original size:23 final size:22
Alignment explanation
Indices: 1947360--1947417 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
1947350 ACATCTTCAT
* *
1947360 TTTTTATTTTTTTGTTTTTGTT-
1 TTTTTGTTTTTTT-TTTTTTTTC
1947382 TTTTTGTTTTTTTTTTTTTTTGC
1 TTTTTGTTTTTTTTTTTTTTT-C
1947405 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
1947418 GACCAAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 7 0.22
22 12 0.38
23 13 0.41
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (22 bp):
TTTTTGTTTTTTTTTTTTTTTC
Found at i:1947395 original size:31 final size:31
Alignment explanation
Indices: 1947359--1947418 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
1947349 AACATCTTCA
*
1947359 TTTTTTATTTTTTTG-TTTTTGTTTTTTTGT
1 TTTTTTTTTTTTTTGCTTTTTGTTTTTTTGT
1947389 TTTTTTTTTTTTTTGCTTTTTGTTTTTTTG
1 TTTTTTTTTTTTTTGCTTTTTGTTTTTTTG
1947419 ACCAAAGCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (31 bp):
TTTTTTTTTTTTTTGCTTTTTGTTTTTTTGT
Found at i:1947418 original size:8 final size:8
Alignment explanation
Indices: 1947359--1947418 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
1947349 AACATCTTCA
*
1947359 TTTTTTAT
1 TTTTTTGT
1947367 TTTTTTG-
1 TTTTTTGT
1947374 -TTTTTGT
1 TTTTTTGT
1947381 TTTTTTGT
1 TTTTTTGT
*
1947389 TTTTTTTT
1 TTTTTTGT
1947397 TTTTTTG-
1 TTTTTTGT
*
1947404 CTTTTTGT
1 TTTTTTGT
1947412 TTTTTTG
1 TTTTTTG
1947419 ACCAAAGCTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 6 0.14
7 6 0.14
8 32 0.73
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTTTGT
Found at i:1947597 original size:42 final size:41
Alignment explanation
Indices: 1947425--1947721 Score: 319
Period size: 41 Copynumber: 7.1 Consensus size: 41
1947415 TTTGACCAAA
* * * * * *
1947425 GCTCTTCTAAGCAGAGGCTCAACGACTTTGAAAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAA-GTAAATT
* * * * * *
1947468 GCTCCTCTAATCAGAAGCTCAACAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
1947509 GCCCCTCTAAACAGAGGCATCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
1947550 GCTCCTTTAAACAGAGACACCACGACTTTAGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* * *
1947592 ACTCCTCTAAACAGAGGCA--ACGAAATTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
1947633 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-GTAAATT
*
1947675 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
1947717 GCTCC
1 GCTCC
1947722 ATGAAACTCA
Statistics
Matches: 217, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
40 3 0.01
41 99 0.46
42 82 0.38
43 33 0.15
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:1947606 original size:83 final size:83
Alignment explanation
Indices: 1947448--1947721 Score: 313
Period size: 83 Copynumber: 3.3 Consensus size: 83
1947438 GAGGCTCAAC
* * * * * * *
1947448 GACTTTGAAAAACATAAATGGCTCCTCTAATCAGA-AGCTCAACAACTTTGAAAA-ATAAATTGC
1 GACTTTG-AAAA-GTAAATTGCTCCTCTAAACAGAGA-CACCACGACTTTGAAAAGGTAAATTGC
* *
1947511 CCCTCTAAACAGAGGCATCAT
63 TCCTCTAAACAGAGGCAACAT
* * *
1947532 GACTTTGAAAAGTAAATTGCTCCTTTAAACAGAGACACCACGACTTTAGGAAA-GTAAATTACTC
1 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGACACCACGACTTT-GAAAAGGTAAATTGCTC
1947596 CTCTAAACAGAGGCAACGA-
65 CTCTAAACAGAGGCAAC-AT
* * * *
1947615 AATTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGGTAAATTGCTCC
1 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGACACCACGACTTTGAAAAGGTAAATTGCTCC
*
1947680 TCTAAACAGAGGCACCAT
66 TCTAAACAGAGGCAACAT
1947698 GACTTTGAAAAAGTAAATTGCTCC
1 GACTTTG-AAAAGTAAATTGCTCC
1947722 ATGAAACTCA
Statistics
Matches: 161, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
82 32 0.20
83 106 0.66
84 23 0.14
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (83 bp):
GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGACACCACGACTTTGAAAAGGTAAATTGCTCC
TCTAAACAGAGGCAACAT
Found at i:1949900 original size:21 final size:21
Alignment explanation
Indices: 1949854--1949901 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
1949844 CATATTGCAA
* *
1949854 AAAAAGAAATCTAACATTACT
1 AAAAAGAAATCTAAAATGACT
* *
1949875 GAAAAGAAATCTTAAAATGACA
1 AAAAAGAAATC-TAAAATGACT
1949897 AAAAA
1 AAAAA
1949902 AACCTTCAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.10, G:0.08, T:0.19
Consensus pattern (21 bp):
AAAAAGAAATCTAAAATGACT
Found at i:1952920 original size:56 final size:56
Alignment explanation
Indices: 1952860--1953472 Score: 887
Period size: 56 Copynumber: 10.8 Consensus size: 56
1952850 ATTTTTTTGC
1952860 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTATTTTTA
* *
1952916 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTATTTTTA
1952972 AGGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGAAATTTATTTTTA
*
1953028 A-GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTGATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGAAA-TTT-ATTTTTA
*
1953086 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TTTTTTTGAAATTTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAA-TTTATTTTTA
*
1953142 AGGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTG-AATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTATTTTTA
* * *
1953196 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TTTTTTTTGAAA-TTTATTTTTA
* *
1953255 A-GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTATTTTTA
* *
1953310 AAGAAAATTGATACTTTCAACCTTTTCCTCAAAAACCCTTTTTTTTGAAATTTTATTTTTA
1 AGGAAAATTGATACTTTCAA-CTTTTCCCCAAAAA---TTTTTTTTGAAA-TTTATTTTTA
* * * *
1953371 AGAAAAATTGACACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTG-AAATTTATTTTTA
* *
1953428 AGAAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTTGA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGA
1953473 TTTTTAATAA
Statistics
Matches: 506, Mismatches: 32, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
54 35 0.07
55 57 0.11
56 186 0.37
57 88 0.17
58 50 0.10
59 41 0.08
60 22 0.04
61 27 0.05
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (56 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAATTTATTTTTA
Found at i:1953510 original size:17 final size:17
Alignment explanation
Indices: 1953488--1953540 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1953478 AATAAAAGTG
1953488 AAAATAAATAAAATAAA
1 AAAATAAATAAAATAAA
* *
1953505 AAAATAAAGAAGAGTAAA
1 AAAATAAATAA-AATAAA
*
1953523 ACAA-AAATAAAAATAAA
1 AAAATAAAT-AAAATAAA
1953540 A
1 A
1953541 TAAAGATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 19 0.66
18 10 0.34
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (17 bp):
AAAATAAATAAAATAAA
Found at i:1953546 original size:29 final size:28
Alignment explanation
Indices: 1953497--1953551 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
1953487 GAAAATAAAT
1953497 AAAATAAAAAAATAAAGAAGAGTAAAACA
1 AAAATAAAAAAATAAAGAAGA-TAAAACA
1953526 AAAATAAAAATAA-AATA-AAGATAAAA
1 AAAATAAAAA-AATAA-AGAAGATAAAA
1953552 AGAATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 5 0.21
29 16 0.67
30 3 0.12
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (28 bp):
AAAATAAAAAAATAAAGAAGATAAAACA
Found at i:1953549 original size:17 final size:17
Alignment explanation
Indices: 1953519--1953552 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1953509 TAAAGAAGAG
1953519 TAAAACAAAAATAAAAA
1 TAAAACAAAAATAAAAA
* *
1953536 TAAAATAAAGATAAAAA
1 TAAAACAAAAATAAAAA
1953553 GAATATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
TAAAACAAAAATAAAAA
Found at i:1953590 original size:7 final size:7
Alignment explanation
Indices: 1953578--1953627 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
1953568 CTAATCTAAT
1953578 AAATAAA
1 AAATAAA
1953585 AAATAAA
1 AAATAAA
*
1953592 CAAATAAC
1 -AAATAAA
1953600 AAATAAA
1 AAATAAA
*
1953607 TAA-AAA
1 AAATAAA
*
1953613 AATTAAA
1 AAATAAA
1953620 AAA-AAA
1 AAATAAA
1953626 AA
1 AA
1953628 CCTGGAGCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
6 9 0.26
7 20 0.57
8 6 0.17
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:1954021 original size:11 final size:12
Alignment explanation
Indices: 1954005--1954038 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1953995 TTTTTCATCG
1954005 AAAGTTGGTC-A
1 AAAGTTGGTCGA
*
1954016 AAAGTTGGCCGA
1 AAAGTTGGTCGA
1954028 AAAGTTGGTCG
1 AAAGTTGGTCG
1954039 GTTTTTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (12 bp):
AAAGTTGGTCGA
Found at i:1954524 original size:22 final size:20
Alignment explanation
Indices: 1954435--1954527 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 20
1954425 AATTTCCAGT
*
1954435 CAGATAAATAAAAAAATAAA
1 CAGATAAATAAAAAAATTAA
* * * *
1954455 AAAAAAAATCAAATGAAAATAAA
1 CAGATAAAT-AAA--AAAATTAA
1954478 TCAGATAAATAAAAAAATTAA
1 -CAGATAAATAAAAAAATTAA
1954499 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAA-TAAAA--AAATTAA
1954521 CAGATAA
1 CAGATAA
1954528 TTACATAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 14 0.24
21 15 0.25
22 10 0.17
23 14 0.24
24 6 0.10
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (20 bp):
CAGATAAATAAAAAAATTAA
Found at i:1954663 original size:3 final size:3
Alignment explanation
Indices: 1954651--1954688 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
1954641 ATATACATAT
*
1954651 ATA A-A ATA ATA ATA ATA ATA ATA ATA AAA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1954689 AAATGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:1954699 original size:13 final size:11
Alignment explanation
Indices: 1954653--1954716 Score: 60
Period size: 12 Copynumber: 5.6 Consensus size: 11
1954643 ATACATATAT
1954653 AAAATAATAATA
1 AAAATAA-AATA
*
1954665 ATAATAATAATA
1 AAAATAA-AATA
1954677 AAAATAAAATA
1 AAAATAAAATA
1954688 AAAATGTAAAAT-
1 AAAA--TAAAATA
*
1954700 ACAA-AAAATA
1 AAAATAAAATA
1954710 AAAATAA
1 AAAATAA
1954717 TATATATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
9 5 0.11
10 3 0.07
11 10 0.23
12 20 0.45
13 6 0.14
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:1955412 original size:8 final size:8
Alignment explanation
Indices: 1955399--1955423 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1955389 ATGTTTATAT
1955399 ATGAATGC
1 ATGAATGC
1955407 ATGAATGC
1 ATGAATGC
1955415 ATGAATGC
1 ATGAATGC
1955423 A
1 A
1955424 ATAAAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGAATGC
Found at i:1958608 original size:17 final size:16
Alignment explanation
Indices: 1958586--1958634 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
1958576 TATGTTAATT
1958586 ATCATGCAATAATAACA
1 ATCATGCAATAATAA-A
* *
1958603 ATCATGTAAATATATAAT
1 ATCATG-CAATA-ATAAA
1958621 ATCATGCAATAATA
1 ATCATGCAATAATA
1958635 TAAAATACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.11
17 10 0.37
18 10 0.37
19 4 0.15
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
ATCATGCAATAATAAA
Found at i:1958635 original size:18 final size:18
Alignment explanation
Indices: 1958585--1958637 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
1958575 ATATGTTAAT
1958585 TATCATGCAATAATA-ACA
1 TATCATGCAATAATATA-A
*
1958603 -ATCATGTAA-ATATATAA
1 TATCATGCAATA-ATATAA
1958620 TATCATGCAATAATATAA
1 TATCATGCAATAATATAA
1958638 AATACCATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 1 0.03
17 12 0.41
18 15 0.52
19 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (18 bp):
TATCATGCAATAATATAA
Found at i:1958984 original size:32 final size:32
Alignment explanation
Indices: 1958941--1959048 Score: 119
Period size: 32 Copynumber: 3.7 Consensus size: 32
1958931 TAACAATGTA
*
1958941 AATCATGCAAATAAACATATAATTAAATATAT
1 AATCATACAAATAAACATATAATTAAATATAT
*
1958973 AATCATACAAAT-AATA-AT-ATT-AATA-AT
1 AATCATACAAATAAACATATAATTAAATATAT
1959000 --T-ATACAAATAAACATGA-AATTAAATATAT
1 AATCATACAAATAAACAT-ATAATTAAATATAT
1959029 AATCATACAAATAAA-ATATA
1 AATCATACAAATAAACATATA
1959049 TAAACTATGC
Statistics
Matches: 63, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
24 8 0.13
25 4 0.06
27 6 0.10
28 8 0.13
29 5 0.08
30 3 0.05
31 7 0.11
32 22 0.35
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (32 bp):
AATCATACAAATAAACATATAATTAAATATAT
Found at i:1959045 original size:21 final size:21
Alignment explanation
Indices: 1959020--1959073 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1959010 AACATGAAAT
1959020 TAAATATATAATC-ATACAAA
1 TAAATATATAATCTATACAAA
* *
1959040 TAAAATATATAAACTATGCAAA
1 T-AAATATATAATCTATACAAA
1959062 TAAATATATAAT
1 TAAATATATAAT
1959074 TAAATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 21 0.72
22 7 0.24
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATATATAATCTATACAAA
Found at i:1959075 original size:54 final size:54
Alignment explanation
Indices: 1958945--1959118 Score: 248
Period size: 54 Copynumber: 3.2 Consensus size: 54
1958935 AATGTAAATC
*
1958945 ATGCAAATAAACATATAATTAAATATATAATCATACAAATAATAATAT-TAATAATT
1 ATGCAAATAAACATATAATTAAATATATAATCATACAAATAA-AATATAT-A-AACT
*
1959001 ATACAAATAAACATGA-AATTAAATATATAATCATACAAATAAAATATATAAACT
1 ATGCAAATAAACAT-ATAATTAAATATATAATCATACAAATAAAATATATAAACT
*
1959055 ATGCAAATAAATATATAATTAAATATATAATCA-AGCAAATAAAATATATAAAC-
1 ATGCAAATAAACATATAATTAAATATATAATCATA-CAAATAAAATATATAAACT
1959108 ATGCAAATAAA
1 ATGCAAATAAA
1959119 TATAAAAATA
Statistics
Matches: 110, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
53 13 0.12
54 50 0.45
55 6 0.05
56 40 0.36
57 1 0.01
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.29
Consensus pattern (54 bp):
ATGCAAATAAACATATAATTAAATATATAATCATACAAATAAAATATATAAACT
Found at i:1959079 original size:33 final size:33
Alignment explanation
Indices: 1959042--1959105 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1959032 CATACAAATA
*
1959042 AAATATATAAACTATGCAAAT-AAATATATAATT
1 AAATATATAAAC-AAGCAAATAAAATATATAATT
*
1959075 AAATATATAATCAAGCAAATAAAATATATAA
1 AAATATATAAACAAGCAAATAAAATATATAA
1959106 ACATGCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (33 bp):
AAATATATAAACAAGCAAATAAAATATATAATT
Found at i:1959101 original size:21 final size:20
Alignment explanation
Indices: 1959074--1959122 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
1959064 AATATATAAT
*
1959074 TAAATATATAATCAAGCAAA
1 TAAATATATAAACAAGCAAA
*
1959094 TAAAATATATAAACATGCAAA
1 T-AAATATATAAACAAGCAAA
1959115 TAAATATA
1 TAAATATA
1959123 AAAATAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAATATATAAACAAGCAAA
Found at i:1959693 original size:30 final size:27
Alignment explanation
Indices: 1959638--1959693 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
1959628 AAGCCCATCC
*
1959638 TCAAATAGAAGCAATAGCTATAAGAGT
1 TCAAATAGAAGCAATAGCTACAAGAGT
*
1959665 TCAAATAGAAGTCATTCGAGCTACAAGAG
1 TCAAATAGAAG-CAAT--AGCTACAAGAG
1959694 CAAAAGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.46
28 3 0.12
30 10 0.42
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (27 bp):
TCAAATAGAAGCAATAGCTACAAGAGT
Found at i:1972543 original size:13 final size:13
Alignment explanation
Indices: 1972525--1972572 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
1972515 ATGCTTGAAA
1972525 AAAATGAAAAAAG
1 AAAATGAAAAAAG
*
1972538 AAAATGAAAAAGG
1 AAAATGAAAAAAG
1972551 AAAAATGAAAAAA-
1 -AAAATGAAAAAAG
1972564 AAAAGTGAA
1 AAAA-TGAA
1972573 TGGAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 4 0.13
13 16 0.52
14 11 0.35
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (13 bp):
AAAATGAAAAAAG
Found at i:1972547 original size:20 final size:20
Alignment explanation
Indices: 1972524--1972561 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1972514 TATGCTTGAA
*
1972524 AAAAATGAAAAAAGAAAATG
1 AAAAAGGAAAAAAGAAAATG
*
1972544 AAAAAGGAAAAATGAAAA
1 AAAAAGGAAAAAAGAAAA
1972562 AAAAAAGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAAAGGAAAAAAGAAAATG
Found at i:1973667 original size:42 final size:42
Alignment explanation
Indices: 1973600--1973989 Score: 454
Period size: 42 Copynumber: 9.4 Consensus size: 42
1973590 AAGTTGTGAT
* *
1973600 GCCTTTGATTAGAGGAGC--AATTTATTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * * *
1973640 GCCTCTGATTAAATGAGCTTTATTTATTTCCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
1973682 GCCTCTGATTAGAGGAGC--TATTTATTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * * *
1973722 ACCTCTGATTAAAGGAGCTTTATTTATTTTTAAAGTCATTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
*
1973764 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * *
1973806 GCCTTTGATTAGAGGAGC--CATTTATTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* *
1973846 GCCTCTAATTAGAGGAGC--TATTTATTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * * *
1973886 GTCTTTGATTAGATGAGCTTTATTTATTTTCAAAGTCGTTAA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * * * *
1973928 GCTTTTAATTAGAAGAGCTTTGTTTATGTTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTA---TTTTCAAAGTCGTTGA
* *
1973973 GCCTTTGCTTAGAGGAG
1 GCCTCTGATTAGAGGAG
1973990 TTTTGATCAA
Statistics
Matches: 301, Mismatches: 40, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
40 123 0.41
42 150 0.50
45 28 0.09
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (42 bp):
GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
Found at i:1973692 original size:82 final size:82
Alignment explanation
Indices: 1973590--1973976 Score: 456
Period size: 82 Copynumber: 4.7 Consensus size: 82
1973580 CCTTTTTTTT
* * *
1973590 AAGTTG-TGATGCCTTTGATTAGAGGAGCAATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAAT
1 AAGTTGTTGA-GCCTCTGATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAAG
*
1973654 GAGCTTTATTTATTTCCA
65 GAGCTTTATTTATTTTCA
*
1973672 AAGTTGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAACCTCTGATTAAAGG
1 AAGTTGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAAGG
*
1973737 AGCTTTATTTATTTTTA
66 AGCTTTATTTATTTTCA
** * * *
1973754 AAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTTGTTGAGCCTTTGATTAGA
1 AAGTTGTTGAGCCTCTGATTAGAGGAGC--TATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAA
*
1973819 GGAGC--CATTTATTTTCA
64 GGAGCTTTATTTATTTTCA
* * * * * *
1973836 AAGTTGTTGAGCCTCTAATTAGAGGAGCTATTTATTTTCAAAGTTGTTGAGTCTTTGATTAGATG
1 AAGTTGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAAGG
1973901 AGCTTTATTTATTTTCA
66 AGCTTTATTTATTTTCA
* * * * * * *
1973918 AAGTCGTTAAGCTTTTAATTAGAAGAGCTTTGTTTATGTTTTTCAAAGTCGTTGAGCCT
1 AAGTTGTTGAGCCTCTGATTAGAGGAGC--TATTTA---TTTTCAAAGTCGTTGAGCCT
1973977 TTGCTTAGAG
Statistics
Matches: 267, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
80 38 0.14
82 167 0.63
83 3 0.01
84 41 0.15
87 18 0.07
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (82 bp):
AAGTTGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAAGG
AGCTTTATTTATTTTCA
Found at i:1973839 original size:124 final size:122
Alignment explanation
Indices: 1973607--1973945 Score: 471
Period size: 124 Copynumber: 2.8 Consensus size: 122
1973597 GATGCCTTTG
* * * *
1973607 ATTAGAGGAGCAATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAATGAGCTTTATTTATTTCCA
1 ATTAAAGGAGCTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGATGAGCTTTATTTATTTTCA
* * *
1973672 AAGTTGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAACCTCTG
66 AAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTATTTTCAAAGTCGTTGAACCTCTA
* * *
1973729 ATTAAAGGAGCTTTATTTATTTTTAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTT
1 ATTAAAGGAGC--TATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGATGAGCTTTATTTATTTT
* *
1973794 CAAAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTATTTTCAAAGTTGTTGAGCCTCTA
64 CAAAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTATTTTCAAAGTCGTTGAACCTCTA
* * * *
1973853 ATTAGAGGAGCTATTTATTTTCAAAGTTGTTGAGTCTTTGATTAGATGAGCTTTATTTATTTTCA
1 ATTAAAGGAGCTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGATGAGCTTTATTTATTTTCA
* * * * *
1973918 AAGTCGTTAAGCTTTTAATTAGAAGAGC
66 AAGTTGTTGAGCCTTTGATTAGAGGAGC
1973946 TTTGTTTATG
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
122 81 0.42
124 110 0.58
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.41
Consensus pattern (122 bp):
ATTAAAGGAGCTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGATGAGCTTTATTTATTTTCA
AAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTATTTTCAAAGTCGTTGAACCTCTA
Found at i:1973876 original size:164 final size:165
Alignment explanation
Indices: 1973600--1973989 Score: 516
Period size: 164 Copynumber: 2.4 Consensus size: 165
1973590 AAGTTGTGAT
* * * * *
1973600 GCCTTTGATTAGAGGAGC--AATTTATTTTCAAAGTCGTTGAGCCTCTGATTAAATGAGCTTTAT
1 GCCTTTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGC-TCAT
*
1973663 TTATTTCCAAAGTTGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAACCTCT
65 TTATTTCCAAAGTTGTTGAGCCTCTAATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAACCTCT
* *
1973728 GATTAAAGGAGCTTTATTTATTTTTAAAGTCATTGA
130 GATTAAAGGAGCTTTATTTATTTTCAAAGTCATTAA
* *
1973764 GCCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTTGTTGAGCCTTTGATTAGAGGAGC-CATT
1 GCCTTTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTCATT
* * ** *
1973828 TATTTTCAAAGTTGTTGAGCCTCTAATTAGAGGAGCTATTTATTTTCAAAGTTGTTGAGTCTTTG
66 TATTTCCAAAGTTGTTGAGCCTCTAATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAACCTCTG
* * *
1973893 ATTAGATGAGCTTTATTTATTTTCAAAGTCGTTAA
131 ATTAAAGGAGCTTTATTTATTTTCAAAGTCATTAA
* * * * *
1973928 GCTTTTAATTAGAAGAGCTTTGTTTATGTTTTTCAAAGTCGTTGAGCCTTTGCTTAGAGGAG
1 GCCTTTGATTAGAGGAGCTTTATTTA---TTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAG
1973990 TTTTGATCAA
Statistics
Matches: 196, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
164 130 0.66
166 35 0.18
167 31 0.16
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (165 bp):
GCCTTTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTCATT
TATTTCCAAAGTTGTTGAGCCTCTAATTAGAGGAGCTATTTATTTTCAAAGTCGTTGAACCTCTG
ATTAAAGGAGCTTTATTTATTTTCAAAGTCATTAA
Found at i:1974184 original size:7 final size:6
Alignment explanation
Indices: 1974169--1974211 Score: 59
Period size: 7 Copynumber: 6.7 Consensus size: 6
1974159 GGTAGGCCCA
1974169 TTTTAT TTTGTAT TTTATAT TTTTAT TTTTAT TTTATAT TTTT
1 TTTTAT TTT-TAT TTT-TAT TTTTAT TTTTAT TTT-TAT TTTT
1974212 TTTCTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
6 16 0.47
7 18 0.53
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:1974185 original size:12 final size:12
Alignment explanation
Indices: 1974168--1974214 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1974158 GGGTAGGCCC
*
1974168 ATTTTATTTTGT
1 ATTTTATTTTAT
*
1974180 ATTTTATATTTTT
1 ATTTTAT-TTTAT
1974193 ATTTTTATTTTAT
1 A-TTTTATTTTAT
1974206 ATTTT-TTTT
1 ATTTTATTTT
1974215 CTTTTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.13
12 11 0.35
13 10 0.32
14 6 0.19
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
ATTTTATTTTAT
Found at i:1974194 original size:8 final size:7
Alignment explanation
Indices: 1974169--1974260 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
1974159 GGTAGGCCCA
1974169 TTTTATT
1 TTTTATT
*
1974176 TTGTATT
1 TTTTATT
*
1974183 TTATA-T
1 TTTTATT
1974189 TTTTA-T
1 TTTTATT
1974195 TTTTATT
1 TTTTATT
*
1974202 TTATATT
1 TTTTATT
1974209 TTTT-TT
1 TTTTATT
*
1974215 CTTTTTTT
1 -TTTTATT
*
1974223 CTTTTATA
1 -TTTTATT
*
1974231 TCTTATGT
1 TTTTAT-T
*
1974239 ATTTATT
1 TTTTATT
*
1974246 ATTTATT
1 TTTTATT
1974253 TATTTATT
1 T-TTTATT
1974261 ATTACTATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
6 13 0.19
7 37 0.54
8 18 0.26
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (7 bp):
TTTTATT
Found at i:1974201 original size:19 final size:20
Alignment explanation
Indices: 1974169--1974211 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
1974159 GGTAGGCCCA
1974169 TTTTATTTTGTATTTTATAT
1 TTTTATTTTGTATTTTATAT
1974189 TTTTATTTT-TATTTTATAT
1 TTTTATTTTGTATTTTATAT
1974208 TTTT
1 TTTT
1974212 TTTCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTATTTTGTATTTTATAT
Found at i:1974251 original size:4 final size:4
Alignment explanation
Indices: 1974233--1974385 Score: 50
Period size: 4 Copynumber: 40.8 Consensus size: 4
1974223 CTTTTATATC
*
1974233 TTAT GTAT TTA- TTAT TTAT TTAT TTA- TTAT TACTAT TTAT TAATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT
* * * * *
1974279 ATAT TTA- TTA- TTA- TTA- TTA- TTAT TTAT CT-G TTAGT ATAT GTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT
* *
1974322 GTAT TTA- TTA- TTAT TTAT CTA- TTA- TTA- TTA- TTA- TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* *
1974363 CTAT TAAT ATT-T TTAT TTAT TTA
1 TTAT TTAT -TTAT TTAT TTAT TTA
1974386 ATTAGTTTCT
Statistics
Matches: 119, Mismatches: 17, Indels: 26
0.73 0.10 0.16
Matches are distributed among these distances:
3 44 0.37
4 65 0.55
5 3 0.03
6 7 0.06
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:1974262 original size:3 final size:3
Alignment explanation
Indices: 1974241--1974379 Score: 82
Period size: 3 Copynumber: 41.7 Consensus size: 3
1974231 TCTTATGTAT
* *
1974241 TTA TTA TTTA TTTA TTTA TTA TTA CTA TTTA TTA ATA TATA TTTA TTA
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA T-TA -TTA TTA
* *
1974289 TTA TTA TTA TTA TTTA TCTG TTA GTA -TA TGTA TGTA TTTA TTA TTA
1 TTA TTA TTA TTA -TTA T-TA TTA TTA TTA T-TA T-TA -TTA TTA TTA
* *
1974335 TTTA TCTA TTA TTA TTA TTA TTA TTTA TCTA TTA ATA TTT TTA TT
1 -TTA T-TA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TT
1974380 TATTTAATTA
Statistics
Matches: 112, Mismatches: 11, Indels: 26
0.75 0.07 0.17
Matches are distributed among these distances:
2 2 0.02
3 66 0.59
4 42 0.38
5 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1974335 original size:34 final size:33
Alignment explanation
Indices: 1974242--1974368 Score: 114
Period size: 34 Copynumber: 3.6 Consensus size: 33
1974232 CTTATGTATT
* * *
1974242 TATTATTTATTTATTTATTATTA-CTATTTATTAA
1 TATTA-TTA-TTATTTATTATTATTTATCTATTAG
*
1974276 TATATATTTATTATTATTATTATTATTTATCTGTTAG
1 TAT-TA-TTATTA-T-TTATTATTATTTATCTATTAG
*
1974313 TA-TATGTATGTATTTATTATTATTTATCTATTAT
1 TATTAT-TAT-TATTTATTATTATTTATCTATTAG
1974347 TATTATTATTATTTATCTATTA
1 TATTATTATTATTTAT-TATTA
1974369 ATATTTTTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
33 7 0.09
34 36 0.46
35 16 0.20
36 11 0.14
37 9 0.11
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (33 bp):
TATTATTATTATTTATTATTATTTATCTATTAG
Found at i:1974356 original size:23 final size:22
Alignment explanation
Indices: 1974241--1974385 Score: 97
Period size: 23 Copynumber: 6.5 Consensus size: 22
1974231 TCTTATGTAT
1974241 TTATTATTTA-T-TTATTTATTA
1 TTATTATTTATTATTA-TTATTA
* *
1974262 TTACTATTTATTAATA-TA-TA
1 TTATTATTTATTATTATTATTA
1974282 TTTATTA-TTATTATTATTATTTA
1 -TTATTATTTATTATTATTA-TTA
* *
1974305 TCTGTTA-GTA-TATGTATGTATTTA
1 T-TATTATTTATTAT-TAT-TA-TTA
1974329 TTATTATTTATCTATTATTATTA
1 TTATTATTTAT-TATTATTATTA
* *
1974352 TTATTATTTATCTATTAATATTT
1 TTATTATTTAT-TATTATTATTA
1974375 TTATTTATTTA
1 TTA-TTATTTA
1974386 ATTAGTTTCT
Statistics
Matches: 101, Mismatches: 10, Indels: 23
0.75 0.07 0.17
Matches are distributed among these distances:
20 10 0.10
21 18 0.18
22 5 0.05
23 44 0.44
24 18 0.18
25 3 0.03
26 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (22 bp):
TTATTATTTATTATTATTATTA
Found at i:1974373 original size:20 final size:20
Alignment explanation
Indices: 1974241--1974385 Score: 121
Period size: 20 Copynumber: 7.7 Consensus size: 20
1974231 TCTTATGTAT
1974241 TTATTATTTATTTA-T-TTA
1 TTATTATTTATTTATTATTA
* *
1974259 TTATTA-CTATTTATTAATA
1 TTATTATTTATTTATTATTA
1974278 -TA-TATTTA-TTATTATTA
1 TTATTATTTATTTATTATTA
* * *
1974295 TTATTATTTATCTGTTAGTA
1 TTATTATTTATTTATTATTA
*
1974315 -TATGTATGTATTTATTATTA
1 TTAT-TATTTATTTATTATTA
*
1974335 -T-TTATCTA-TTATTATTA
1 TTATTATTTATTTATTATTA
* *
1974352 TTATTATTTATCTATTAATA
1 TTATTATTTATTTATTATTA
*
1974372 TTTTTATTTATTTA
1 TTATTATTTATTTA
1974386 ATTAGTTTCT
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
17 25 0.25
18 19 0.19
19 18 0.18
20 38 0.38
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTATTTATTTATTATTA
Found at i:1974384 original size:57 final size:57
Alignment explanation
Indices: 1974241--1974387 Score: 151
Period size: 57 Copynumber: 2.6 Consensus size: 57
1974231 TCTTATGTAT
* * *
1974241 TTATTATTTATTTATTTATTATTACTATTTA-TTAATATATA--T-TTATTATTATTA
1 TTATTATTTATCTA-TTAATATTTCTATTTATTTAATATATATTTATTATTATTATTA
* * * * * *
1974295 TTATTATTTATCTGTTAGTATATGTATGTATTTATTAT-TATTTATCTATTATTATTA
1 TTATTATTTATCTATTAATATTTCTATTTATTTAATATATATTTAT-TATTATTATTA
*
1974352 TTATTATTTATCTATTAATATTTTTATTTATTTAAT
1 TTATTATTTATCTATTAATATTTCTATTTATTTAAT
1974388 TAGTTTCTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
53 13 0.18
54 18 0.24
55 1 0.01
56 1 0.01
57 41 0.55
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (57 bp):
TTATTATTTATCTATTAATATTTCTATTTATTTAATATATATTTATTATTATTATTA
Found at i:1975222 original size:4 final size:4
Alignment explanation
Indices: 1975215--1975276 Score: 80
Period size: 4 Copynumber: 16.8 Consensus size: 4
1975205 TTTTCTTTTC
*
1975215 ATTT ATTT ATCT ATTT A-TT ATTT ATTT ATTT ATTT ATTT ATTT A-TT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1975261 A-TT A-TT A-TT ATTT ATT
1 ATTT ATTT ATTT ATTT ATT
1975277 GATTAGATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 15 0.28
4 39 0.72
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:1975281 original size:20 final size:21
Alignment explanation
Indices: 1975215--1975281 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 21
1975205 TTTTCTTTTC
1975215 ATTTATTTATCTATTTATTATTT
1 ATTTATTTAT-TATTTATTA-TT
1975238 ATTTATTTATTTATTTATTTATT
1 ATTTATTTA-TTATTTA-TTATT
1975261 A-TTA-TTATTATTTATTGATT
1 ATTTATTTATTATTTATT-ATT
1975281 A
1 A
1975282 GATTAGAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.05
20 11 0.27
21 3 0.07
22 3 0.07
23 18 0.44
24 4 0.10
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (21 bp):
ATTTATTTATTATTTATTATT
Found at i:1975312 original size:5 final size:5
Alignment explanation
Indices: 1975302--1975369 Score: 68
Period size: 5 Copynumber: 12.8 Consensus size: 5
1975292 GTTTAATACT
1975302 TTTTA TTTTA TTTATA TTTT- TCTTTA TTTATA TTTTCAA TTTATA TTTTA
1 TTTTA TTTTA TTT-TA TTTTA T-TTTA TTT-TA TTTT--A TTT-TA TTTTA
1975352 -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
1975370 CTTTAAAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
4 5 0.09
5 30 0.55
6 15 0.27
7 4 0.07
8 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:1975327 original size:16 final size:15
Alignment explanation
Indices: 1975308--1975364 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 15
1975298 TACTTTTTAT
1975308 TTTATTTATATTTTTC
1 TTTATTTATA-TTTTC
1975324 TTTATTTATATTTTC
1 TTTATTTATATTTTC
* *
1975339 --AATTTATATTTTA
1 TTTATTTATATTTTC
1975352 TTTATTT-TATTTT
1 TTTATTTATATTTT
1975365 ATTTTCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 11 0.31
14 6 0.17
15 9 0.25
16 10 0.28
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTATATTTTC
Found at i:1975345 original size:29 final size:27
Alignment explanation
Indices: 1975302--1975364 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
1975292 GTTTAATACT
*
1975302 TTTTATTTT--ATTTATATTTTTCTTTA
1 TTTTATTTTCAATTTATA-TTTTATTTA
1975328 TTTATATTTTCAATTTATATTTTATTTA
1 TTT-TATTTTCAATTTATATTTTATTTA
1975356 TTTTATTTT
1 TTTTATTTT
1975365 ATTTTCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 3 0.09
27 12 0.36
28 11 0.33
29 7 0.21
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTATTTTCAATTTATATTTTATTTA
Found at i:1975540 original size:57 final size:59
Alignment explanation
Indices: 1975376--1975553 Score: 306
Period size: 60 Copynumber: 3.0 Consensus size: 59
1975366 TTTTCTTTAA
1975376 AATTTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
1 AATTTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
* *
1975435 AAGTTTTTCAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
1 AA-TTTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
*
1975495 AATTTTTCTAAAAAAA-A-TTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
1 AATTTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
1975552 AA
1 AA
1975554 GCTTTTTGAG
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
57 40 0.35
58 1 0.01
59 15 0.13
60 57 0.50
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (59 bp):
AATTTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAAT
Found at i:1975560 original size:102 final size:103
Alignment explanation
Indices: 1975454--1975652 Score: 328
Period size: 102 Copynumber: 1.9 Consensus size: 103
1975444 AAAAAAAATA
**
1975454 TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAATTTTTCTAAAAAA-AATTTTGA
1 TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATAATTTTGA
** *
1975518 GGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGC
66 AAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
* *
1975556 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTTGA
1 TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATAATTTTGA
1975621 AAAAAAGTTGAAAGTATCAATTTTCCTTGAAA
66 AAAAAAGTTGAAAGTATCAATTTTCCTTGAAA
1975653 CAAAAGCGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 53 0.60
103 36 0.40
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.37
Consensus pattern (103 bp):
TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATAATTTTGA
AAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
Found at i:1975563 original size:45 final size:45
Alignment explanation
Indices: 1975512--1975603 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
1975502 CTAAAAAAAA
*
1975512 TTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGCT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCT
1975557 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCT
1975602 TT
1 TT
1975604 CTAAAAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (45 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCT
Found at i:1976247 original size:22 final size:22
Alignment explanation
Indices: 1976167--1976249 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
1976157 GTTATGACAG
*
1976167 ATAACTTAATAATAAATCATTA
1 ATAACTTAGTAATAAATCATTA
* * *
1976189 ATAACGTAGTATTAAATTATTA
1 ATAACTTAGTAATAAATCATTA
* *
1976211 ATAACTTAGTTATAAATCAGTA
1 ATAACTTAGTAATAAATCATTA
* *
1976233 ATAATTTGGTAATAAAT
1 ATAACTTAGTAATAAAT
1976250 TAGTTAATCA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (22 bp):
ATAACTTAGTAATAAATCATTA
Found at i:1976377 original size:66 final size:66
Alignment explanation
Indices: 1976290--1976433 Score: 166
Period size: 66 Copynumber: 2.2 Consensus size: 66
1976280 CATTGGTAAA
* * * * * * *
1976290 TTATAACTTTATAAAACATCATTAATAACTTAGTAGTAAATTA-TCAATAATTTAATGGTAAATC
1 TTATAACTTAATAAAACATCATTAATAAATTAGTAGAAAATAACT-AATAACTTAATAGTAAATA
1976354 AT
65 AT
* *
1976356 TTATAACTTAATCACAA-ATCATTCATAAATTAGTAGAAAATAACTAATAACTTAATAGTAAATA
1 TTATAACTTAAT-AAAACATCATTAATAAATTAGTAGAAAATAACTAATAACTTAATAGTAAATA
1976420 AT
65 AT
*
1976422 TGATAACTTAAT
1 TTATAACTTAAT
1976434 TGTTAATCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
66 62 0.94
67 4 0.06
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (66 bp):
TTATAACTTAATAAAACATCATTAATAAATTAGTAGAAAATAACTAATAACTTAATAGTAAATAA
T
Found at i:1976427 original size:22 final size:22
Alignment explanation
Indices: 1976307--1976623 Score: 133
Period size: 22 Copynumber: 14.1 Consensus size: 22
1976297 TTTATAAAAC
*
1976307 ATCATTAATAACTTAGTAGTAA
1 ATCATTAATAACTTAATAGTAA
* * * *
1976329 ATTATCAATAATTTAATGGTAA
1 ATCATTAATAACTTAATAGTAA
* *
1976351 ATCATTTATAACTTAATCA-CAA
1 ATCATTAATAACTTAAT-AGTAA
* * * *
1976373 ATCATTCATAAATTAGTAGAAA
1 ATCATTAATAACTTAATAGTAA
* *
1976395 ATAACTAATAACTTAATAGTAA
1 ATCATTAATAACTTAATAGTAA
* * * *
1976417 ATAATTGATAACTTAATTGTTA
1 ATCATTAATAACTTAATAGTAA
* *
1976439 ATCATTGATAACTTGATAATTTTGT-A
1 ATCATTAATAAC-T--TAA--TAGTAA
* * *
1976465 ATAAATAATTAAAAATTAAGTAGTAA
1 ATCATTAA-T--AACTTAA-TAGTAA
* * * * *
1976491 ATTAATGAT-ACCTAATACTAA
1 ATCATTAATAACTTAATAGTAA
*
1976512 ATACA-TAA-AAATATAATAGTAA
1 AT-CATTAATAACT-TAATAGTAA
* *
1976534 ATCATTGATAATTTAATAGTAA
1 ATCATTAATAACTTAATAGTAA
* *
1976556 ATCATTAATAACGTAGTAGTAA
1 ATCATTAATAACTTAATAGTAA
* *
1976578 ATTATTAATAACTTAGTTA-TAA
1 ATCATTAATAACTTA-ATAGTAA
* * * *
1976600 ATCAGTGATAATTTAGTAGTAA
1 ATCATTAATAACTTAATAGTAA
1976622 AT
1 AT
1976624 TAGTTAATCA
Statistics
Matches: 221, Mismatches: 56, Indels: 36
0.71 0.18 0.12
Matches are distributed among these distances:
21 15 0.07
22 169 0.76
23 6 0.03
25 7 0.03
26 16 0.07
27 5 0.02
28 1 0.00
29 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (22 bp):
ATCATTAATAACTTAATAGTAA
Found at i:1976642 original size:52 final size:52
Alignment explanation
Indices: 1976572--1976675 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
1976562 AATAACGTAG
* * *
1976572 TAGTAAATTATTAATAACTTAGTT-ATAAATCAGT-GATAATTTAGTAGTAAAT
1 TAGTAAATCATTAATAACTT-GTTAATAAATCA-TCGATAAATTAATAGTAAAT
* *
1976624 TAGTTAATCATTAATAACTTTTTAATAAATCATCGATAAATTAATAGTAAAT
1 TAGTAAATCATTAATAACTTGTTAATAAATCATCGATAAATTAATAGTAAAT
1976676 CGTCATAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
51 3 0.07
52 42 0.93
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (52 bp):
TAGTAAATCATTAATAACTTGTTAATAAATCATCGATAAATTAATAGTAAAT
Found at i:1976686 original size:43 final size:43
Alignment explanation
Indices: 1976637--1976743 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
1976627 TTAATCATTA
* * *
1976637 ATAACTTTTTAATAAATCATCGATAAATTAATAGTAAATCGTC
1 ATAACTTTATAATAAATCATCAATAAATTAATAGTAAATCATC
* *
1976680 ATAACTTTATAATAAATCATCAATAATTTAGTAGTAAATCATC
1 ATAACTTTATAATAAATCATCAATAAATTAATAGTAAATCATC
1976723 ACTAA-TTTAATAATAAATCAT
1 A-TAACTTT-ATAATAAATCAT
1976744 TCATAGCTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
43 42 0.74
44 15 0.26
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (43 bp):
ATAACTTTATAATAAATCATCAATAAATTAATAGTAAATCATC
Found at i:1976754 original size:22 final size:21
Alignment explanation
Indices: 1976637--1976755 Score: 103
Period size: 22 Copynumber: 5.5 Consensus size: 21
1976627 TTAATCATTA
**
1976637 ATAACTTTTTAATAAATCATC
1 ATAACTTAATAATAAATCATC
* * *
1976658 GATAAATTAATAGTAAATCGTC
1 -ATAACTTAATAATAAATCATC
*
1976680 ATAACTTTATAATAAATCATC
1 ATAACTTAATAATAAATCATC
* * *
1976701 AATAATTTAGTAGTAAATCATC
1 -ATAACTTAATAATAAATCATC
*
1976723 ACTAATTTAATAATAAATCATTC
1 A-TAACTTAATAATAAATCA-TC
*
1976746 ATAGCTTAAT
1 ATAACTTAAT
1976756 CGCAAATTAT
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
21 18 0.23
22 56 0.73
23 3 0.04
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
ATAACTTAATAATAAATCATC
Found at i:1976795 original size:22 final size:22
Alignment explanation
Indices: 1976770--1976819 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1976760 AATTATTAAT
*
1976770 AACTTCGTAGTAAATAATTGAA
1 AACTTAGTAGTAAATAATTGAA
*
1976792 AACTTAGTAGTAAATAATTGAT
1 AACTTAGTAGTAAATAATTGAA
1976814 AACTTA
1 AACTTA
1976820 ATTGTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (22 bp):
AACTTAGTAGTAAATAATTGAA
Found at i:1977134 original size:22 final size:22
Alignment explanation
Indices: 1977109--1977180 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
1977099 ATAAAAAAAG
* *
1977109 TGATAACTTAGTAGTTAA-TAA
1 TGATAACTTAATAGTAAATTAA
*
1977130 TTGATAACTTAATAATAAATTAA
1 -TGATAACTTAATAGTAAATTAA
*
1977153 TGATAACTTAATAGTAAATTAG
1 TGATAACTTAATAGTAAATTAA
1977175 TGATAA
1 TGATAA
1977181 TGTAATCACT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 41 0.93
23 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAA
Found at i:1977616 original size:24 final size:22
Alignment explanation
Indices: 1977571--1977640 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
1977561 AATTTAGCAG
*
1977571 TAGTTAATTATCAATAATTTAA
1 TAGTTAATTATAAATAATTTAA
*
1977593 TAGTTAATTAATAAAATAACTTAA
1 TAGTTAATT-AT-AAATAATTTAA
*
1977617 TAGTAAATTATAAATAATTTAA
1 TAGTTAATTATAAATAATTTAA
1977639 TA
1 TA
1977641 AAAATAAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 21 0.50
23 4 0.10
24 17 0.40
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTTAATTATAAATAATTTAA
Found at i:1977772 original size:22 final size:22
Alignment explanation
Indices: 1977723--1977779 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
1977713 ATAAAAAAAA
*
1977723 TTAAGTAGTAAATCAATGATAAC
1 TTAA-TAGTAAATCAATAATAAC
* * *
1977746 ATAATAGTAAATCACTAATAAT
1 TTAATAGTAAATCAATAATAAC
*
1977768 TTAATGGTAAAT
1 TTAATAGTAAAT
1977780 ATATGATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (22 bp):
TTAATAGTAAATCAATAATAAC
Found at i:1978378 original size:17 final size:17
Alignment explanation
Indices: 1978358--1978397 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1978348 ACTTTTTCTC
**
1978358 AAAAATTTATTTTTTTG
1 AAAAATTTATTTTTAAG
1978375 -AAAATTTATTTTTAAG
1 AAAAATTTATTTTTAAG
1978391 AAAAATT
1 AAAAATT
1978398 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AAAAATTTATTTTTAAG
Found at i:1978397 original size:60 final size:58
Alignment explanation
Indices: 1978271--1978548 Score: 328
Period size: 58 Copynumber: 4.7 Consensus size: 58
1978261 TTTGTGCAGA
* * **
1978271 AAAATTGATACTTTCAAC-TTTTCCCAAAAAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCC----AAAAATATTTTTTTGAAACTTTATTTTTAAGG
* * * *
1978332 AAAATTGATACCTTCAACTTTTTCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAA--TATTTTTTTGAAACTTTATTTTTAAGG
1978392 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTT-TTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT-GAAACTTTATTTTT-AAGG
*
1978451 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAACTTTATTTTTAAGG
* * * * *
1978509 AAAATTAATGCTTCCAACTTTTCCCCAAAGATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
1978549 TATTTTTATT
Statistics
Matches: 191, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
58 65 0.34
59 53 0.28
60 50 0.26
61 17 0.09
62 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTATTTTTAAGG
Found at i:1978549 original size:59 final size:59
Alignment explanation
Indices: 1978271--1978549 Score: 319
Period size: 60 Copynumber: 4.7 Consensus size: 59
1978261 TTTGTGCAGA
* * * * * **
1978271 AAAATTGATACTTTCAACTTTTCCCAAAAAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCC-CAAAAATAT-TTTTTTTGAAATTTTATTTTTAAGG
* * * * * *
1978332 AAAATTGATACCTTCAACTTTTTCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTGAAATTTTATTTTTAAGG
* * *
1978392 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTT-TTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAA-TTTTATTTTTAAGG
*
1978451 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
* * * *
1978509 AAAATTAATGCTTCCAACTTTTCCCCAAAGATATTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1978550 ATTTTTATTT
Statistics
Matches: 187, Mismatches: 28, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
57 4 0.02
58 46 0.25
59 55 0.29
60 60 0.32
61 22 0.12
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
Found at i:1978651 original size:11 final size:11
Alignment explanation
Indices: 1978577--1978652 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 11
1978567 ATAGAATAAT
*
1978577 AAAACAAAATA
1 AAAATAAAATA
1978588 AAAATGAGAAATA
1 AAAAT-A-AAATA
1978601 AATAA-ATAAATA
1 AA-AATA-AAATA
* *
1978613 AAGA-AAAGTA
1 AAAATAAAATA
1978623 AAACA-AAAATA
1 AAA-ATAAAATA
1978634 AAAATAAAATA
1 AAAATAAAATA
*
1978645 AAGATAAA
1 AAAATAAA
1978653 GAACATTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
10 7 0.13
11 28 0.53
12 9 0.17
13 7 0.13
14 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:1979086 original size:20 final size:20
Alignment explanation
Indices: 1979053--1979102 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1979043 CGATTGAATA
* *
1979053 TTCATCGGATTCTGAAATTT
1 TTCATCGAAATCTGAAATTT
***
1979073 TTCATCGAAATCTGGGTTTT
1 TTCATCGAAATCTGAAATTT
1979093 TTCATCGAAA
1 TTCATCGAAA
1979103 GTTCATCGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
TTCATCGAAATCTGAAATTT
Found at i:1979269 original size:25 final size:23
Alignment explanation
Indices: 1979230--1979282 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
1979220 CGGAATCTGG
* *
1979230 AAATTTTCCAAAAATTTTTAAAA
1 AAATTTTCCAAAAATCTCTAAAA
1979253 AAATTTTCGCCAAAAATCTCTAAAA
1 AAATTTT--CCAAAAATCTCTAAAA
1979278 AAATT
1 AAATT
1979283 ATTTTCGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
25 19 0.73
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATTTTCCAAAAATCTCTAAAA
Found at i:1979630 original size:22 final size:20
Alignment explanation
Indices: 1979539--1979633 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 20
1979529 AATTTCCAGC
*
1979539 CAGATAAATAAAAAAAAATAA
1 CAGATAAAT-AAAAAAATTAA
* * *
1979560 AAGAAAAAATCAAACGAAAATAAA
1 CAG-ATAAAT-AAA--AAAATTAA
1979584 TCAGATAAATAAAAAAATTAA
1 -CAGATAAATAAAAAAATTAA
1979605 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAA-TAAAA--AAATTAA
1979627 CAGATAA
1 CAGATAA
1979634 TCACATAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
20 8 0.14
21 14 0.24
22 18 0.31
23 6 0.10
24 11 0.19
25 2 0.03
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (20 bp):
CAGATAAATAAAAAAATTAA
Found at i:1979796 original size:26 final size:26
Alignment explanation
Indices: 1979767--1979832 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
1979757 ATATACATAT
* *
1979767 ATAAAATAATAATAATAAAA-ATAAAA
1 ATAAAATAAAAAT-ATAAAATAAAAAA
*
1979793 ATAAAATAAAAATGTAAAATAAAAAA
1 ATAAAATAAAAATATAAAATAAAAAA
1979819 ATAAAAATAAAAAT
1 AT-AAAATAAAAAT
1979833 GAAATGAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.14
26 19 0.54
27 11 0.31
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (26 bp):
ATAAAATAAAAATATAAAATAAAAAA
Found at i:1979804 original size:6 final size:6
Alignment explanation
Indices: 1979774--1979832 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
1979764 TATATAAAAT
* *
1979774 AATAAT AATAAA AATAAA AAT-AA AATAAA AATGTAAA ATAAAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA--TAAA A-ATAAA AATAAA
1979824 AATAAA AAT
1 AATAAA AAT
1979833 GAAATGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.11
6 31 0.67
7 4 0.09
8 5 0.11
9 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:1979811 original size:39 final size:39
Alignment explanation
Indices: 1979727--1979837 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 39
1979717 CCTAAGATAA
* * * * *
1979727 AAAATAATAATAAAAGAAAAGAAAAAATATATATACATATAT
1 AAAATAATAATAATA-AAAA-TAAAAATA-AAATAAAAATAT
*
1979769 AAAATAATAATAATAAAAATAAAAATAAAATAAAAATGT
1 AAAATAATAATAATAAAAATAAAAATAAAATAAAAATAT
* *
1979808 AAAATAA-AAAAATAAAAATAAAAATGAAAT
1 AAAATAATAATAATAAAAATAAAAATAAAAT
1979838 GAAGAAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 21 0.34
39 15 0.25
40 7 0.11
41 4 0.07
42 14 0.23
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.22
Consensus pattern (39 bp):
AAAATAATAATAATAAAAATAAAAATAAAATAAAAATAT
Found at i:1979838 original size:32 final size:32
Alignment explanation
Indices: 1979769--1979852 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
1979759 ATACATATAT
*
1979769 AAAAT-AATAATAATAAAAATAAAAATAAAATA
1 AAAATGAAGAATAA-AAAAATAAAAATAAAATA
1979801 AAAATGTAA-AATAAAAAAATAAAAATAAAA-A
1 AAAATG-AAGAATAAAAAAATAAAAATAAAATA
*
1979832 TGAAATGAAGAA-AAAAAAATA
1 -AAAATGAAGAATAAAAAAATA
1979853 TAGACTTACC
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
31 12 0.26
32 28 0.60
33 5 0.11
34 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (32 bp):
AAAATGAAGAATAAAAAAATAAAAATAAAATA
Found at i:1979845 original size:27 final size:26
Alignment explanation
Indices: 1979789--1979852 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
1979779 TAATAAAAAT
1979789 AAAAAT-AAAATAAAAATGTAAAATAA
1 AAAAATAAAAATAAAAATG-AAAATAA
1979815 AAAAATAAAAATAAAAATG-AAATGAA
1 AAAAATAAAAATAAAAATGAAAAT-AA
*
1979841 GAAAA-AAAAATA
1 AAAAATAAAAATA
1979853 TAGACTTACC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
25 11 0.31
26 12 0.34
27 12 0.34
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (26 bp):
AAAAATAAAAATAAAAATGAAAATAA
Found at i:1980218 original size:42 final size:42
Alignment explanation
Indices: 1980038--1980591 Score: 688
Period size: 42 Copynumber: 13.1 Consensus size: 42
1980028 TTTGATCAAA
** * * * *
1980038 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACA-TAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATT
* * * * * *
1980081 GCTCCTCTAATCAGAGGCTCAACAAGTTTGAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAAGTAAATT
1980124 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
1980165 GCTCCTTTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
1980207 ACTCCTCTAAACAGAGGCACCACGACTTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAAGTAAATT
* *
1980249 GCTCCTTTAAACAGAGGCACCACGACTTTTAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
1980291 GCTCCTCTAAACAGAGGTACCACGACTTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAAGTAAATT
* * * * * *
1980333 ACTCCTCTAAATATAAGCACCACGACTTTTAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * * *
1980375 GCTCCTTTAAATAGAAGCACCATGACTTTTGGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAAGTAAATT
1980419 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
1980460 GTTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
1980502 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAAGTAAATT
* * *
1980545 GCTCTTCTAAACAGAGGCACCACAACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
1980586 ACTCCT
1 GCTCCT
1980592 TGACAATCAT
Statistics
Matches: 451, Mismatches: 49, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
41 99 0.22
42 208 0.46
43 110 0.24
44 34 0.08
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:1981854 original size:19 final size:19
Alignment explanation
Indices: 1981830--1981877 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
1981820 TTTTTTCTCA
*
1981830 TTTTTTCATTCATTCTTTTT
1 TTTTTTCATTCA-TCATTTT
1981850 TTTTTTCA-TCATCATTTT
1 TTTTTTCATTCATCATTTT
*
1981868 TTTTCTCATT
1 TTTTTTCATT
1981878 TTTCATCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.52
19 4 0.16
20 8 0.32
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTCATTCATCATTTT
Found at i:1981857 original size:16 final size:16
Alignment explanation
Indices: 1981818--1981877 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
1981808 TTGAATATCC
1981818 TTTTTTTTC--TCATT
1 TTTTTTTTCATTCATT
** *
1981832 TTTTCATTCATTCTTT
1 TTTTTTTTCATTCATT
1981848 TTTTTTTTCATCATCATT
1 TTTTTTTTCAT--TCATT
*
1981866 TTTTTTCTCATT
1 TTTTTTTTCATT
1981878 TTTCATCCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 7 0.20
16 14 0.40
18 14 0.40
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTTTCATTCATT
Found at i:1985872 original size:60 final size:57
Alignment explanation
Indices: 1985808--1986088 Score: 355
Period size: 60 Copynumber: 4.7 Consensus size: 57
1985798 GTTTTTGTGC
* * *
1985808 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAAAATATTCTTTTGAAACTTTAATTTCG
1 AGGAAAATTGATACTTTCAACTTTTCCC---AAAAATATTTTTTTGAAACTTTATTTTCA
* * *
1985868 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTAAAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTTGAAACTTTATTTTCA
*
1985928 AGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTTTTTTTCA
1 AGGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTT-GAAAC-TTTATTTTCA
* * * *
1985988 AGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAATTTTATTTTTA
1 AGGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAACTTTATTTTCA
*
1986046 AGGAAAATTGATACTTTCAACTTTTCCCCAAAGATATTTTTTT
1 AGGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTT
1986089 TAATTTTTTT
Statistics
Matches: 196, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
57 4 0.02
58 57 0.29
59 7 0.04
60 121 0.62
61 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (57 bp):
AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAACTTTATTTTCA
Found at i:1986010 original size:32 final size:32
Alignment explanation
Indices: 1985974--1986070 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 32
1985964 TTTTTTTGGA
1985974 AACTTTTTTTTTCAAGAAAAATTGATACTTTC
1 AACTTTTTTTTTCAAGAAAAATTGATACTTTC
* * * *
1986006 AAC--TTTTTCTCAA-AAATATT--T-TTTTG
1 AACTTTTTTTTTCAAGAAAAATTGATACTTTC
* *
1986032 AAATTTTATTTTT-AAGGAAAATTGATACTTTC
1 AACTTTT-TTTTTCAAGAAAAATTGATACTTTC
1986064 AACTTTT
1 AACTTTT
1986071 CCCCAAAGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 14
0.65 0.15 0.19
Matches are distributed among these distances:
26 5 0.11
27 1 0.02
28 4 0.09
29 15 0.32
30 9 0.19
31 1 0.02
32 12 0.26
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.49
Consensus pattern (32 bp):
AACTTTTTTTTTCAAGAAAAATTGATACTTTC
Found at i:1986099 original size:118 final size:117
Alignment explanation
Indices: 1985808--1986107 Score: 408
Period size: 118 Copynumber: 2.5 Consensus size: 117
1985798 GTTTTTGTGC
* * * * * *
1985808 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAAAATATTCTTTTGAAACTTTAATTTCGAGGAA
1 AGGAAAATTGATACTTTCAACTTTTCCC--CAAAAATATTTTTTTGAAATTTTTATTTCAAGAAA
1985873 AATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTAAAAATTTATTTTTA
64 AATTGATACTTTCAACTTTTCCTCAAAAA-TTATTTTTTTAAAAATTTATTTTTA
* *
1985928 AGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTTTTTTTCAAGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAA-TTTTTATTTCAAGAAA
* * *
1985993 AATTGATACTTTCAACTTTTTCTCAAAAA-TATTTTTTTGAAATTTTATTTTTA
64 AATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTAAAAATTTATTTTTA
* * *
1986046 AGGAAAATTGATACTTTCAACTTTTCCCCAAAGATATTTTTTT-TAATTTTT-TTTAAAGAAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTTATTTCAAGAAAA
1986108 TAGAATAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
114 10 0.06
115 5 0.03
116 2 0.01
118 76 0.47
119 4 0.02
120 66 0.40
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (117 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTTATTTCAAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTAAAAATTTATTTTTA
Found at i:1986130 original size:23 final size:24
Alignment explanation
Indices: 1986104--1986188 Score: 79
Period size: 24 Copynumber: 3.5 Consensus size: 24
1986094 TTTTTTAAAG
1986104 AAAATAGAATAATAAAACAAAATA
1 AAAATAGAATAATAAAACAAAATA
*
1986128 AAAATGAGAAATAA-AAAA-TAAATA
1 AAAAT-AG-AATAATAAAACAAAATA
1986152 AATAA-AGAA-AAGTAAAACAAATATA
1 AA-AATAGAATAA-TAAAACAAA-ATA
*
1986177 AAAATAAAATAA
1 AAAATAGAATAA
1986189 AGATAAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
21 2 0.04
22 2 0.04
23 6 0.12
24 16 0.33
25 16 0.33
26 7 0.14
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.16
Consensus pattern (24 bp):
AAAATAGAATAATAAAACAAAATA
Found at i:1986190 original size:27 final size:28
Alignment explanation
Indices: 1986143--1986195 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 28
1986133 GAGAAATAAA
1986143 AAATAAATAAATAAAGAAAAG-TAAAAC
1 AAATAAATAAATAAAGAAAAGATAAAAC
1986170 AAATATAA-AAATAAA-ATAAAGATAAA
1 AAATA-AATAAATAAAGA-AAAGATAAA
1986196 GAACATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.04
27 16 0.70
28 6 0.26
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (28 bp):
AAATAAATAAATAAAGAAAAGATAAAAC
Found at i:1986235 original size:14 final size:13
Alignment explanation
Indices: 1986218--1986247 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
1986208 AACCTAATCT
1986218 AATAAATATAAATA
1 AATAAATA-AAATA
1986232 AATAAATAAAATA
1 AATAAATAAAATA
1986245 AAT
1 AAT
1986248 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAATAAAATA
Found at i:1987131 original size:9 final size:10
Alignment explanation
Indices: 1987105--1987154 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
1987095 AAATCAAACG
1987105 AAAATAAATT
1 AAAATAAATT
*
1987115 -AGATAAATT
1 AAAATAAATT
1987124 AAAA-AAATT
1 AAAATAAATT
1987133 AATAGATAAATT
1 AA-A-ATAAATT
1987145 AAAATTAAAT
1 AAAA-TAAAT
1987155 AACAGATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
9 15 0.45
10 4 0.12
11 7 0.21
12 7 0.21
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAATAAATT
Found at i:1987165 original size:21 final size:21
Alignment explanation
Indices: 1987115--1987181 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
1987105 AAAATAAATT
*
1987115 AGATAAATTAAAAAAATTAAT
1 AGATAAATTAAAAAAATTAAC
1987136 AGATAAATTAAAATTAAA-TAAC
1 AGATAAATTAAAA--AAATTAAC
*
1987158 AGAT-AATTACATAAATATTAAC
1 AGATAAATTA-A-AAAAATTAAC
1987180 AG
1 AG
1987182 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 20 0.51
22 14 0.36
23 5 0.13
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.28
Consensus pattern (21 bp):
AGATAAATTAAAAAAATTAAC
Found at i:1987306 original size:17 final size:17
Alignment explanation
Indices: 1987299--1987371 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 17
1987289 ATATACATAT
1987299 ATAAAATAATAATAATA
1 ATAAAATAATAATAATA
1987316 ATAAAATAA-AATAA-A
1 ATAAAATAATAATAATA
*
1987331 ATAAAA-ATGTAA-AATA
1 ATAAAATA-ATAATAATA
* *
1987347 CAAAAAATAATAATAAAA
1 -ATAAAATAATAATAATA
1987365 ATAAAAT
1 ATAAAAT
1987372 GAAGAAAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
16 8 0.18
17 23 0.51
18 4 0.09
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (17 bp):
ATAAAATAATAATAATA
Found at i:1987319 original size:48 final size:50
Alignment explanation
Indices: 1987261--1987388 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 50
1987251 TAAGATAAAA
* * *
1987261 AATAATAATAAAAGAAAAGAAAA-AAAATATAT-ACATATATAAAATAAT
1 AATAATAATAAAAGAAAAGAAAACAAAATATATAAAATACAAAAAATAAT
* * * *
1987309 AATAATAATAAAATAAAATAAAATAAAA-ATGTAAAATACAAAAAATAAT
1 AATAATAATAAAAGAAAAGAAAACAAAATATATAAAATACAAAAAATAAT
*
1987358 AATAAAAATAAAATG--AAGAAAACAAAATATA
1 AATAATAATAAAA-GAAAAGAAAACAAAATATA
1987389 GACTTACCCA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
48 34 0.52
49 31 0.48
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (50 bp):
AATAATAATAAAAGAAAAGAAAACAAAATATATAAAATACAAAAAATAAT
Found at i:1987383 original size:33 final size:32
Alignment explanation
Indices: 1987318--1987384 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
1987308 TAATAATAAT
*
1987318 AAAATAAAATAAAATAAAAATGTAAAATACAA
1 AAAATAAAATAAAATAAAAATGTAAAAAACAA
1987350 AAAATAATAATAAAA-ATAAAATG-AAGAAAACAA
1 AAAATAA-AATAAAATA-AAAATGTAA-AAAACAA
1987383 AA
1 AA
1987385 TATAGACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 10 0.32
33 21 0.68
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.16
Consensus pattern (32 bp):
AAAATAAAATAAAATAAAAATGTAAAAAACAA
Found at i:1987575 original size:22 final size:21
Alignment explanation
Indices: 1987474--1987575 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 21
1987464 AATCATTGAT
* *
1987474 AATTTTATAGTAAATTATTGCAA
1 AATTTAATAGTAAATCA-T-CAA
*
1987497 AA-TTAATAGTAAATCAATTAA
1 AATTTAATAGTAAATC-ATCAA
* ** *
1987518 AATTTTATAACAAATCATCAGT
1 AATTTAATAGTAAATCATCA-A
*
1987540 AATTTAATAATAAATCATCAA
1 AATTTAATAGTAAATCATCAA
1987561 CAATTTAATAGTAAA
1 -AATTTAATAGTAAA
1987576 CCAATTATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
21 7 0.11
22 53 0.84
23 3 0.05
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTTAATAGTAAATCATCAA
Found at i:1987619 original size:22 final size:22
Alignment explanation
Indices: 1987572--1987619 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1987562 AATTTAATAG
* *
1987572 TAAACCAATTATAAATTAGTAG
1 TAAACCAAATATAAATTAGTAA
*
1987594 TAAACCAAATATTAACTT-GTAA
1 TAAACCAAATA-TAAATTAGTAA
1987616 TAAA
1 TAAA
1987620 TCATTGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (22 bp):
TAAACCAAATATAAATTAGTAA
Found at i:1987674 original size:22 final size:22
Alignment explanation
Indices: 1987648--1987690 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1987638 TATATCATTA
*
1987648 ATAGTAGTAAATCATTAATAAT
1 ATAGTAGTAAATCAATAATAAT
*
1987670 ATAGTTGTAAATCAATAATAA
1 ATAGTAGTAAATCAATAATAA
1987691 CTATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAGTAGTAAATCAATAATAAT
Found at i:1988089 original size:21 final size:21
Alignment explanation
Indices: 1988037--1988132 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
1988027 GAAGATTATA
1988037 AAAATTGTATCAATAGTTACC
1 AAAATTGTATCAATAGTTACC
* * *
1988058 GATATCGTATCAATAGTTACC
1 AAAATTGTATCAATAGTTACC
*
1988079 AAAATTATATC-ATAAGTTACC
1 AAAATTGTATCAAT-AGTTACC
* *
1988100 AAAATTGTATTAA-AATTACC
1 AAAATTGTATCAATAGTTACC
1988120 AAAAGTT-TATCAA
1 AAAA-TTGTATCAA
1988133 AGGTTATCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 17 0.28
21 43 0.70
22 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAATTGTATCAATAGTTACC
Done.