Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 112 of 127
Found at i:20977502 original size:60 final size:58
Alignment explanation
Indices: 20977374--20977614 Score: 249
Period size: 60 Copynumber: 4.1 Consensus size: 58
20977364 TGCTTTTATA
* ** * *
20977374 CAAGAAAAATTGATACTTTTAACTTTT-TTTCAAA-G-C-ATTTTAAAGTTTATATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCTTAAAAATGTCTTTTTTAAAATTT-TATTTT
20977429 CAAGAAAAATTGATACTTTCAACTTTTCGTTAAAAATGTCTTTTTTAAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTC-TTAAAAATGTCTTTTTT-AAAATTTTATTTT
* * * * *
20977489 CAAGAAAAATTGATATTTTCAAATTTTCCTCAAAAATGCCTTTTTGAAAACTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTT-CTTAAAAATGTCTTTTTTAAAA-TTTTATTTT
* * * * * *
20977549 CAAGAAAAATTAATACTTTCAAGTTTTCTTTAAAAATATATTTTTTTAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTC-TTAAAAATGTCTTTTTTAAAATTTTATTTT
20977608 -AAGAAAA
1 CAAGAAAA
20977615 TCATTGAAAA
Statistics
Matches: 157, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
55 26 0.17
57 5 0.03
58 8 0.05
59 15 0.10
60 96 0.61
61 7 0.04
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCTTAAAAATGTCTTTTTTAAAATTTTATTTT
Found at i:20977700 original size:15 final size:16
Alignment explanation
Indices: 20977669--20977709 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
20977659 TTTAATTAAT
20977669 TAATAAATAAGCAATAA
1 TAAT-AATAAGCAATAA
*
20977686 TAATGATAA-CAATAA
1 TAATAATAAGCAATAA
20977701 TAATAATAA
1 TAATAATAA
20977710 TACTAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 4 0.18
17 4 0.18
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (16 bp):
TAATAATAAGCAATAA
Found at i:20978522 original size:10 final size:10
Alignment explanation
Indices: 20978497--20978530 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
20978487 ACAGCCAGAT
*
20978497 TTATTTTTTA
1 TTATTTTTAA
20978507 TT-TTTTTAA
1 TTATTTTTAA
20978516 TTATTTTTAA
1 TTATTTTTAA
20978526 TTATT
1 TTATT
20978531 CTGATCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:20982610 original size:55 final size:56
Alignment explanation
Indices: 20982492--20982603 Score: 190
Period size: 55 Copynumber: 2.0 Consensus size: 56
20982482 CTTTGTTTGC
* * *
20982492 ATCAAATTATTGTCATGCTTTTTCGTGCTGATATTACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGGCATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
20982548 ATCAAATTATTGGCATGC-TTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGGCATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
20982603 A
1 A
20982604 CGAAATTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 36 0.68
56 17 0.32
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (56 bp):
ATCAAATTATTGGCATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
Found at i:20985467 original size:2 final size:2
Alignment explanation
Indices: 20985460--20985504 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
20985450 ATATTAGTGT
20985460 AG AG AG AG AG AG AG AG AG AG AG AG AG AG CAG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG AG AG AG AG AG
20985503 AG
1 AG
20985505 TACTTGAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20993526 original size:20 final size:20
Alignment explanation
Indices: 20993501--20993539 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
20993491 TTTTCCTCCC
20993501 TTTCTCT-CTCTTTCTCTTTT
1 TTTCTCTCCT-TTTCTCTTTT
20993521 TTTCTCTCCTTTTCTCTTT
1 TTTCTCTCCTTTTCTCTTT
20993540 AGGATTCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTCTCTCCTTTTCTCTTTT
Found at i:20993790 original size:20 final size:21
Alignment explanation
Indices: 20993765--20993804 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20993755 AAATTTTTTT
20993765 AAAAAAAA-CCTAAAAATTCA
1 AAAAAAAATCCTAAAAATTCA
*
20993785 AAAAAAAATCTTAAAAATTC
1 AAAAAAAATCCTAAAAATTC
20993805 TAGAACTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAAAATCCTAAAAATTCA
Found at i:20994530 original size:43 final size:43
Alignment explanation
Indices: 20994476--20994660 Score: 255
Period size: 43 Copynumber: 4.3 Consensus size: 43
20994466 TAAATAGACT
* *
20994476 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGAC
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC
* *
20994519 TTTTAAAAATAAACAAAG-TCCCTCTAAACAGAGGCTCAATGAC
1 TTTGAAAAATAAACAAAGCT-CCTCTAAACAGAGGCTCAACGAC
* *
20994562 TTTGAAAAATAAACAGAGCTCCTCTAAATAGAGGCTCAACGAC
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC
* * * * *
20994605 TTTGAAAAAAAAATAAAGCTCCTCTAAATAAAAGCTCAACGAC
1 TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC
20994648 TTTGAAAAATAAA
1 TTTGAAAAATAAA
20994661 AGGCTCATCG
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 126 0.98
44 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (43 bp):
TTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC
Found at i:20995686 original size:19 final size:18
Alignment explanation
Indices: 20995664--20995716 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
20995654 TTGTCTTGAG
20995664 TCTTTCTTTTTTATTTTTC
1 TCTTT-TTTTTTATTTTTC
20995683 TCTTTTTTTCTT-TTTTTC
1 TCTTTTTTT-TTATTTTTC
*
20995701 TC-ATTTTTTTATTTTT
1 TCTTTTTTTTTATTTTT
20995717 TTAAGCATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 2 0.06
17 10 0.32
18 12 0.39
19 7 0.23
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (18 bp):
TCTTTTTTTTTATTTTTC
Found at i:21006350 original size:60 final size:59
Alignment explanation
Indices: 21006132--21006342 Score: 261
Period size: 59 Copynumber: 3.6 Consensus size: 59
21006122 TGCTTTTATA
* * * **
21006132 CAAGAAAAATTGATACTTTTAACTTTTTCTC-AAAA---TATTTT-AAGGTTTATATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTTAAAAATTT-TATTTT
21006187 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTTAAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTTAAAAATTTTATTTT
* * *
21006246 CAAGAAAAATTGATATTTTCAAATTTTCCTCAAAAATGCTTTTTTGAAAACTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTT-AAAAATTTTATTTT
* * * *
21006306 TAAGAAAAATTAATACTTTCAACTTTTCTTTAAAAAT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
21006343 ATATTTTTTT
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
55 29 0.21
56 4 0.03
59 54 0.40
60 49 0.36
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTTAAAAATTTTATTTT
Found at i:21006447 original size:3 final size:3
Alignment explanation
Indices: 21006439--21006467 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21006429 TAAATAAGCA
21006439 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21006468 ATGAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21011315 original size:55 final size:56
Alignment explanation
Indices: 21011221--21011332 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 56
21011211 GTTTGTTTGC
* * *
21011221 ATCAAATTATTGTCATGCTTTTTCGTGCTGATATTACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGGCATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
*
21011277 ATCATATTATTGGCATGC-TTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGGCATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
21011332 A
1 A
21011333 CAAGATTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 36 0.69
56 16 0.31
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (56 bp):
ATCAAATTATTGGCATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
Found at i:21016055 original size:76 final size:76
Alignment explanation
Indices: 21015927--21016073 Score: 206
Period size: 76 Copynumber: 1.9 Consensus size: 76
21015917 AATTTGGATC
* * * *
21015927 TAAAATCTTAAAATTATGAAATCTTTTTCTTTCTACTAAATCAAAAATTCATTGGCCACTTGTAA
1 TAAAATCTTAAAATTATGAAAACTTTTCCTTACTACTAAATCAAAAACTCATTGGCCACTTGTAA
21015992 ATATAATCTTA
66 ATATAATCTTA
* ** *
21016003 TAAAATCTTAAAATT-TTAAAACATTTTCCTTACTTTTAAATCAAAAACTCATTGGCCGCTTGTA
1 TAAAATCTTAAAATTATGAAAAC-TTTTCCTTACTACTAAATCAAAAACTCATTGGCCACTTGTA
21016067 AATATAA
65 AATATAA
21016074 CCTCGTATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 5 0.08
76 57 0.92
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.39
Consensus pattern (76 bp):
TAAAATCTTAAAATTATGAAAACTTTTCCTTACTACTAAATCAAAAACTCATTGGCCACTTGTAA
ATATAATCTTA
Found at i:21017831 original size:16 final size:16
Alignment explanation
Indices: 21017810--21017864 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
21017800 ACTAATATTA
21017810 TATTTGCATGATAATT
1 TATTTGCATGATAATT
* * *
21017826 TATTTGCTTAATATTT
1 TATTTGCATGATAATT
* *
21017842 TATTTGTATGATTAATA
1 TATTTGCATGA-TAATT
21017859 TATTTG
1 TATTTG
21017865 TGTGATTTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (16 bp):
TATTTGCATGATAATT
Found at i:21017838 original size:32 final size:33
Alignment explanation
Indices: 21017802--21017864 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
21017792 TTTGCATAAC
*
21017802 TAATATTATATTTGCATGA-TAATTTATTTGCT
1 TAATATTATATTTGCATGATTAATATATTTGCT
* *
21017834 TAATATTTTATTTGTATGATTAATATATTTG
1 TAATATTATATTTGCATGATTAATATATTTG
21017865 TGTGATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (33 bp):
TAATATTATATTTGCATGATTAATATATTTGCT
Found at i:21017897 original size:20 final size:21
Alignment explanation
Indices: 21017852--21017903 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
21017842 TATTTGTATG
* *
21017852 ATTAATATATTTGTGTGATTT
1 ATTAATATATTTGCGTGATCT
21017873 ATTAATATATTTGCGTGA-CT
1 ATTAATATATTTGCGTGATCT
21017893 ATTAATATATT
1 ATTAATATATT
21017904 ACATGATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (21 bp):
ATTAATATATTTGCGTGATCT
Found at i:21017930 original size:20 final size:20
Alignment explanation
Indices: 21017905--21017943 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21017895 TAATATATTA
21017905 CATGATTATCAATTTATTTG
1 CATGATTATCAATTTATTTG
21017925 CATGATTATCAATTTATTT
1 CATGATTATCAATTTATTT
21017944 ATTTGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (20 bp):
CATGATTATCAATTTATTTG
Found at i:21017976 original size:20 final size:19
Alignment explanation
Indices: 21017953--21018201 Score: 137
Period size: 20 Copynumber: 12.5 Consensus size: 19
21017943 TATTTGTGTG
21017953 ATTGCATGTTTATATTGTTA
1 ATTGCATGTTTATATT-TTA
* *
21017973 ATTGCTTGATTATATCTTTA
1 ATTGCATGTTTATAT-TTTA
* * * *
21017993 GTAGCTTTTTTTATATTGTTA
1 ATTGC-ATGTTTATATT-TTA
*
21018014 ATTGCATGATTATATATTTA
1 ATTGCATGTTTATAT-TTTA
*
21018034 ATTGCAAGTTTTATATTGTTA
1 ATTGCATG-TTTATATT-TTA
* * *
21018055 ATTGCATGATAATA-TATA
1 ATTGCATGTTTATATTTTA
*
21018073 TTTGCATGTTTTATATTGTTA
1 ATTGCATG-TTTATATT-TTA
* *
21018094 ATTGCATGATTATA-TATA
1 ATTGCATGTTTATATTTTA
*
21018112 TTTGCATGATTTATATTGTTA
1 ATTGCATG-TTTATATT-TTA
21018133 ATTGCAT-TATTATATATTTA
1 ATTGCATGT-TTATAT-TTTA
* * *
21018153 TTTG-GTGATTTTTATTGTTA
1 ATTGCATG-TTTATATT-TTA
* * *
21018173 ATTTCATGATTATACATTTA
1 ATTGCATGTTTATA-TTTTA
21018193 ATTGCATGT
1 ATTGCATGT
21018202 CTCTTTGCAT
Statistics
Matches: 171, Mismatches: 39, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
18 18 0.11
19 14 0.08
20 85 0.50
21 54 0.32
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (19 bp):
ATTGCATGTTTATATTTTA
Found at i:21018006 original size:41 final size:39
Alignment explanation
Indices: 21017955--21018201 Score: 261
Period size: 39 Copynumber: 6.2 Consensus size: 39
21017945 TTTGTGTGAT
* *
21017955 TGCATG-TTTATATTGTTAATTGCTTGATTATATCTTTA
1 TGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
* *
21017993 GTAGCTTTTTTTATATTGTTAATTGCATGATTATATATTTAA
1 -T-GCATGTTTTATATTGTTAATTGCATGATTATATATTT-A
* *
21018035 TTGCAAGTTTTATATTGTTAATTGCATGATAATATATATT-
1 -TGCATGTTTTATATTGTTAATTGCATGATTATATAT-TTA
21018075 TGCATGTTTTATATTGTTAATTGCATGATTATATATATT-
1 TGCATGTTTTATATTGTTAATTGCATGATTATATAT-TTA
* *
21018114 TGCATGATTTATATTGTTAATTGCATTATTATATATTTA
1 TGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
* * *
21018153 TTTG-GTGATTTT-TATTGTTAATTTCATGATTATACATTTAA
1 --TGCATG-TTTTATATTGTTAATTGCATGATTATATATTT-A
21018194 TTGCATGT
1 -TGCATGT
21018202 CTCTTTGCAT
Statistics
Matches: 179, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 72 0.40
40 33 0.18
41 68 0.38
42 4 0.02
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.54
Consensus pattern (39 bp):
TGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
Found at i:21018049 original size:21 final size:21
Alignment explanation
Indices: 21018001--21018138 Score: 85
Period size: 21 Copynumber: 6.9 Consensus size: 21
21017991 TAGTAGCTTT
*
21018001 TTTTATATTGTTAATTGCATG
1 TTTTATATTGTTAATTGCAAG
*
21018022 -ATTATATAT-TTAATTGCAAG
1 TTTTATAT-TGTTAATTGCAAG
*
21018042 TTTTATATTGTTAATTGCATG
1 TTTTATATTGTTAATTGCAAG
* * * * *
21018063 -ATAATA-T-ATATTTGCATG
1 TTTTATATTGTTAATTGCAAG
*
21018081 TTTTATATTGTTAATTGCATG
1 TTTTATATTGTTAATTGCAAG
* * * *
21018102 -ATTATA-T-ATATTTGCATG
1 TTTTATATTGTTAATTGCAAG
*
21018120 ATTTATATTGTTAATTGCA
1 TTTTATATTGTTAATTGCA
21018139 TTATTATATA
Statistics
Matches: 90, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
18 18 0.20
19 11 0.12
20 28 0.31
21 33 0.37
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.52
Consensus pattern (21 bp):
TTTTATATTGTTAATTGCAAG
Found at i:21018079 original size:18 final size:18
Alignment explanation
Indices: 21018056--21018127 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
21018046 ATATTGTTAA
*
21018056 TTGCATGATAATATATAT
1 TTGCATGATTATATATAT
* * *
21018074 TTGCATGTTTTATATTGTTAA
1 TTGCATG-ATTATA-T-ATAT
21018095 TTGCATGATTATATATAT
1 TTGCATGATTATATATAT
21018113 TTGCATGATT-TATAT
1 TTGCATGATTATATAT
21018128 TGTTAATTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.11
18 19 0.43
19 5 0.11
20 6 0.14
21 9 0.20
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (18 bp):
TTGCATGATTATATATAT
Found at i:21018269 original size:24 final size:20
Alignment explanation
Indices: 21018237--21018306 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 20
21018227 TATTTGTGTG
*
21018237 ATTGTATGATTATTAATATATTT
1 ATTGCATGATTATT-AT-TA-TT
21018260 ATTTGCATGATTATTATTATT
1 A-TTGCATGATTATTATTATT
21018281 ATTGCATGATT-TTA-TATTT
1 ATTGCATGATTATTATTA-TT
21018300 ATTGCAT
1 ATTGCAT
21018307 AATATGATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 2 0.05
19 12 0.27
20 10 0.23
21 3 0.07
22 2 0.05
23 3 0.07
24 12 0.27
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTGCATGATTATTATTATT
Found at i:21018271 original size:32 final size:32
Alignment explanation
Indices: 21018210--21018271 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
21018200 GTCTCTTTGC
* **
21018210 ATGATTATTAATTTATTTATTTGTGTGATTGT
1 ATGATTATTAATATATTTATTTGCATGATTGT
21018242 ATGATTATTAATATATTTATTTGCATGATT
1 ATGATTATTAATATATTTATTTGCATGATT
21018272 ATTATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (32 bp):
ATGATTATTAATATATTTATTTGCATGATTGT
Found at i:21018295 original size:19 final size:20
Alignment explanation
Indices: 21018248--21018306 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
21018238 TTGTATGATT
*
21018248 ATTAATATATTTATTTGCATG
1 ATTATTATATTTA-TTGCATG
21018269 ATTATTAT-TATTATTGCATG
1 ATTATTATAT-TTATTGCATG
21018289 ATT-TTATATTTATTGCAT
1 ATTATTATATTTATTGCAT
21018307 AATATGATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 13 0.37
20 12 0.34
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTATTATATTTATTGCATG
Found at i:21018316 original size:19 final size:19
Alignment explanation
Indices: 21018279--21018322 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21018269 ATTATTATTA
* * *
21018279 TTATTGCATGATTTTATAT
1 TTATTGCATAATATGATAT
21018298 TTATTGCATAATATGATAT
1 TTATTGCATAATATGATAT
21018317 TATATT
1 T-TATT
21018323 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (19 bp):
TTATTGCATAATATGATAT
Found at i:21030211 original size:3 final size:3
Alignment explanation
Indices: 21030197--21030234 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
21030187 TTAATCAATA
21030197 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21030235 TCTTGACGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21030986 original size:10 final size:10
Alignment explanation
Indices: 21030963--21031013 Score: 79
Period size: 10 Copynumber: 5.3 Consensus size: 10
21030953 GGCCAGATTC
*
21030963 ATTTTTTATT
1 ATTTTTAATT
21030973 -TTTTTAATT
1 ATTTTTAATT
21030982 ATTTTTAATT
1 ATTTTTAATT
21030992 A-TTTTAATT
1 ATTTTTAATT
21031001 ATTTTTAATT
1 ATTTTTAATT
21031011 ATT
1 ATT
21031014 CTGATCACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
9 17 0.45
10 21 0.55
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:21030987 original size:19 final size:19
Alignment explanation
Indices: 21030963--21031013 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
21030953 GGCCAGATTC
* *
21030963 ATTTTTTATTTTTTTAATT
1 ATTTTTAATTATTTTAATT
21030982 ATTTTTAATTATTTTAATT
1 ATTTTTAATTATTTTAATT
21031001 ATTTTTAATTATT
1 ATTTTTAATTATT
21031014 CTGATCACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTTTAATTATTTTAATT
Found at i:21031428 original size:44 final size:43
Alignment explanation
Indices: 21031363--21031542 Score: 211
Period size: 44 Copynumber: 4.1 Consensus size: 43
21031353 ATTTTTAGAG
* * * *
21031363 AATAAACAAAACTCCTT-TAAATAGAGGCTTAACAACTTTTGAAA
1 AATAAACAAAGCT-CTTCTAAATAGAAGCTCAACGAC-TTTGAAA
*
21031407 AATAAATAAAGCTCTTCTAAATAGAAGCTCAACGACTTTTGAAA
1 AATAAACAAAGCTCTTCTAAATAGAAGCTCAACGAC-TTTGAAA
* * *
21031451 AATAAACAAAGCCCTTCTAAACAGAAGCTCAATGACTTTGAAA
1 AATAAACAAAGCTCTTCTAAATAGAAGCTCAACGACTTTGAAA
* * *
21031494 AATAAATAAAGCTCCTCTAAATA-AAGGCTTAACGACTTTGAAA
1 AATAAACAAAGCTCTTCTAAATAGAA-GCTCAACGACTTTGAAA
21031537 AATAAA
1 AATAAA
21031543 AGGCTCTTCG
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
42 2 0.02
43 50 0.42
44 67 0.56
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.25
Consensus pattern (43 bp):
AATAAACAAAGCTCTTCTAAATAGAAGCTCAACGACTTTGAAA
Found at i:21039061 original size:14 final size:14
Alignment explanation
Indices: 21039025--21039064 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 14
21039015 AGAATCGGTG
21039025 AGGCTATTTTGAAA
1 AGGCTATTTTGAAA
21039039 AGTGGCTATTTTGAAA
1 A--GGCTATTTTGAAA
21039055 AGGCTATTTT
1 AGGCTATTTT
21039065 TCAATAGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (14 bp):
AGGCTATTTTGAAA
Found at i:21043059 original size:55 final size:58
Alignment explanation
Indices: 21042993--21043125 Score: 177
Period size: 55 Copynumber: 2.3 Consensus size: 58
21042983 TGCTTTTATA
* *
21042993 CAAGAAAAATTGATACTTTTAACTTTTTCTC-AAA-GC-ATTTT-AAAGTTTATATTTT
1 CAAGAAAAATTGATACTTTTAACTTTTTCTCAAAATACTATTTTAAAAATTT-TATTTT
* *
21043048 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTAAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTTAACTTTTTCTC-AAAATACTATTTTAAAAATTTTATTTT
21043107 CAAGAAAAATTGATA-TTTT
1 CAAGAAAAATTGATACTTTT
21043126 CAAGAAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
55 30 0.44
57 3 0.04
58 4 0.06
59 25 0.37
60 6 0.09
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTTAACTTTTTCTCAAAATACTATTTTAAAAATTTTATTTT
Found at i:21043121 original size:59 final size:55
Alignment explanation
Indices: 21042993--21043128 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 55
21042983 TGCTTTTATA
* * *
21042993 CAAGAAAAATTGATACTTTTAACTTTTTCTCAAAGCATTTTAAAGTTTATATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAACATTTTAAAATTTATATTTT
*
21043048 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTAAAAATTT-TATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTC--AAA-AC-ATTTT-AAAATTTATATTTT
*
21043107 CAAGAAAAATTGATATTTTCAA
1 CAAGAAAAATTGATACTTTCAA
21043129 GAAAAATTGA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
55 30 0.42
57 3 0.04
58 1 0.01
59 31 0.44
60 6 0.08
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (55 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAACATTTTAAAATTTATATTTT
Found at i:21043123 original size:19 final size:19
Alignment explanation
Indices: 21043101--21043147 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
21043091 TTAAAAATTT
21043101 TATTTTCAAGAAAAATTGA
1 TATTTTCAAGAAAAATTGA
21043120 TATTTTCAAGAAAAATTGA
1 TATTTTCAAGAAAAATTGA
21043139 TATTTTCAA
1 TATTTTCAA
21043148 ATTTTCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (19 bp):
TATTTTCAAGAAAAATTGA
Found at i:21043123 original size:78 final size:78
Alignment explanation
Indices: 21043041--21043206 Score: 246
Period size: 78 Copynumber: 2.1 Consensus size: 78
21043031 TTTAAAGTTT
*
21043041 ATATTTTCAAGAAAAATTGATACTTTCAACTTTT-TCTCAAAAATACTTTTTT-AAAAATTTTAT
1 ATATTTTCAAGAAAAATTGATACTTTCAAATTTTCT-TCAAAAATACTTTTTTGAAAAATTTTAT
*
21043104 TTTCAAGAAAAATTG
65 TTTCAA-AAAAATTA
* * *
21043119 ATATTTTCAAGAAAAATTGATATTTTCAAATTTTCTTCAAAAATGCTTTTTTGAAAACTTTTATT
1 ATATTTTCAAGAAAAATTGATACTTTCAAATTTTCTTCAAAAATACTTTTTTGAAAAATTTTATT
21043184 TTCAAAAAAATTA
66 TTCAAAAAAATTA
*
21043197 ATACTTTCAA
1 ATATTTTCAA
21043207 CTTTTCTTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 63 0.79
79 17 0.21
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (78 bp):
ATATTTTCAAGAAAAATTGATACTTTCAAATTTTCTTCAAAAATACTTTTTTGAAAAATTTTATT
TTCAAAAAAATTA
Found at i:21048205 original size:56 final size:56
Alignment explanation
Indices: 21048117--21048229 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
21048107 CTTTGTTTGC
* * *
21048117 ATCAAATTATTGTCATACTTTTTCGTGCTGATATTACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGACATACTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
* *
21048173 ATCAAATTATTGACATTGC-TTTTCATGTTGATATAACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGACA-TACTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
21048229 A
1 A
21048230 CGAGATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 49 0.96
57 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (56 bp):
ATCAAATTATTGACATACTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
Found at i:21051261 original size:22 final size:22
Alignment explanation
Indices: 21051233--21051278 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21051223 CATATTCAGG
* *
21051233 AATAAATGAAT-ATATTTATAAT
1 AATAAATAAATCATAATTA-AAT
21051255 AATAAATAAATCATAATTAAAT
1 AATAAATAAATCATAATTAAAT
21051277 AA
1 AA
21051279 ATTTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AATAAATAAATCATAATTAAAT
Found at i:21051296 original size:15 final size:15
Alignment explanation
Indices: 21051251--21051297 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
21051241 AATATATTTA
*
21051251 TAATAATAAATAAATCA
1 TAAT-ATAAATAAAT-T
21051268 TAAT-TAAATAAATT
1 TAATATAAATAAATT
21051282 TAATATAAATAAATT
1 TAATATAAATAAATT
21051297 T
1 T
21051298 TAAAATAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
17 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATATAAATAAATT
Found at i:21058492 original size:1 final size:1
Alignment explanation
Indices: 21058486--21058517 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
21058476 GTTAAAATTG
*
21058486 TTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21058518 AATCTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:21059402 original size:29 final size:31
Alignment explanation
Indices: 21059356--21059422 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
21059346 TAATTATTTA
21059356 TAAAT-ATAGTTTTATTAA-ATTAA-A-ATAT
1 TAAATAATAGTTTTATTAATA-TAATATATAT
21059384 TAAATAATA-TTTGTATTAATATAATATATAT
1 TAAATAATAGTTT-TATTAATATAATATATAT
21059415 TAAATAAT
1 TAAATAAT
21059423 TAATTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
28 8 0.24
29 12 0.35
30 2 0.06
31 12 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
TAAATAATAGTTTTATTAATATAATATATAT
Found at i:21059430 original size:12 final size:14
Alignment explanation
Indices: 21059368--21059432 Score: 57
Period size: 12 Copynumber: 4.6 Consensus size: 14
21059358 AATATAGTTT
21059368 TATTAAATTAA-A-A
1 TATTAAA-TAATATA
*
21059381 TATTAAATAATATTTG
1 TATTAAATAATA--TA
21059397 TATTAATATAATATA
1 TATTAA-ATAATATA
21059412 TATTAAATAAT-TA
1 TATTAAATAATATA
21059425 -ATTAAATA
1 TATTAAATA
21059433 TTTTTTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 11 0.24
13 10 0.22
14 5 0.11
15 7 0.16
16 6 0.13
17 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TATTAAATAATATA
Found at i:21060295 original size:13 final size:13
Alignment explanation
Indices: 21060277--21060301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21060267 ATTTATCTAA
21060277 TAAAAAATAAAAT
1 TAAAAAATAAAAT
21060290 TAAAAAATAAAA
1 TAAAAAATAAAA
21060302 AATAAAGTAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAAATAAAAT
Found at i:21060302 original size:8 final size:7
Alignment explanation
Indices: 21060275--21060307 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
21060265 AAATTTATCT
21060275 AATAAAA
1 AATAAAA
21060282 AAT-AAA
1 AATAAAA
*
21060288 ATTAAAA
1 AATAAAA
21060295 AATAAAA
1 AATAAAA
21060302 AATAAA
1 AATAAA
21060308 GTAAAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AATAAAA
Found at i:21060314 original size:20 final size:20
Alignment explanation
Indices: 21060275--21060315 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21060265 AAATTTATCT
*
21060275 AATAAAAAATAAAATTAAAA
1 AATAAAAAATAAAATAAAAA
*
21060295 AATAAAAAATAAAGTAAAAA
1 AATAAAAAATAAAATAAAAA
21060315 A
1 A
21060316 GGGAAGAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAAAAATAAAATAAAAA
Found at i:21061795 original size:121 final size:119
Alignment explanation
Indices: 21061654--21061887 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 119
21061644 ATTATACTCG
* * *
21061654 AATATGTTGGTAGGATTTTATAAAAATTATTTCTTTTCTAAAAATTAATTTTTATATTTAAAAA-
1 AATATGTTGGTAGGATTTTATAAAAACTATTT-TTCTCTAAAAATTAATTTTT-TA-TAAAAAAT
* * * *
21061718 TCATAAGGTT-TTCCAATATGTTGGTAAAACCTTATTTTGAAAACCAAATTAAGTTCA
63 TAATAAAGTTCTT-CAATATGTTGATAAAACCTTATTTTAAAAACCAAATTAAGTTCA
** ** **
21061775 AATATGTTGGTAAGG-TTTTATTGAAACTATTTTTCTCTGGAAATTTGTTTTTTATAAAAAATTA
1 AATATGTTGGT-AGGATTTTATAAAAACTATTTTTCTCTAAAAATTAATTTTTTATAAAAAATTA
*
21061839 ATAAAGTTCTTCAATATGTTGATAAAACCTTATTTTAAAAATCAAATTA
65 ATAAAGTTCTTCAATATGTTGATAAAACCTTATTTTAAAAACCAAATTA
21061888 CCTTCCAATA
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
118 6 0.06
119 45 0.47
120 17 0.18
121 25 0.26
122 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (119 bp):
AATATGTTGGTAGGATTTTATAAAAACTATTTTTCTCTAAAAATTAATTTTTTATAAAAAATTAA
TAAAGTTCTTCAATATGTTGATAAAACCTTATTTTAAAAACCAAATTAAGTTCA
Found at i:21062599 original size:21 final size:21
Alignment explanation
Indices: 21062575--21062616 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21062565 ACTTTTTCTC
*
21062575 TCTTGATTTTTTCTAATTGAT
1 TCTTGATTATTTCTAATTGAT
21062596 TCTTGATTATTTCTAATTGAT
1 TCTTGATTATTTCTAATTGAT
21062617 CCTAATGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.60
Consensus pattern (21 bp):
TCTTGATTATTTCTAATTGAT
Found at i:21063186 original size:20 final size:19
Alignment explanation
Indices: 21063139--21063191 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
21063129 AATTCTTAAC
21063139 TTGAAGTTCAGAAGTTCACAA
1 TTGAA-TTCA-AAGTTCACAA
* *
21063160 TTAAATTCAAAGTTCTCAA
1 TTGAATTCAAAGTTCACAA
*
21063179 TTTGAATTTAAAG
1 -TTGAATTCAAAG
21063192 GCTTGCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 9 0.33
20 14 0.52
21 4 0.15
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (19 bp):
TTGAATTCAAAGTTCACAA
Found at i:21063357 original size:18 final size:18
Alignment explanation
Indices: 21063282--21063536 Score: 103
Period size: 18 Copynumber: 14.2 Consensus size: 18
21063272 GTTTGCAAAG
21063282 GATTCAAGATTC-TAAAA
1 GATTCAAGATTCGTAAAA
* **
21063299 AATTCAAGATTCACAAAA
1 GATTCAAGATTCGTAAAA
* * *
21063317 -TTTCAAATATTC-TCAAA
1 GATTC-AAGATTCGTAAAA
**
21063334 TTTTCAAGATTCGTAAAA
1 GATTCAAGATTCGTAAAA
* *
21063352 GATTCAAAGATTTGCAAAA
1 GATTC-AAGATTCGTAAAA
* * * *
21063371 TATTTAAGATTTG-CAAA
1 GATTCAAGATTCGTAAAA
*
21063388 GATTCAAAGATTTGTAAAA
1 GATTC-AAGATTCGTAAAA
* *
21063407 GATTCAATATTTGT-AAA
1 GATTCAAGATTCGTAAAA
* * *
21063424 TATTCAAAAATTC-AAAAA
1 GATTC-AAGATTCGTAAAA
* * *
21063442 AATTTAAAATTCGTAAAA
1 GATTCAAGATTCGTAAAA
* *
21063460 TAATTCAAGATTCGCAAGAA
1 -GATTCAAGATTCGTAA-AA
*
21063480 -ATTCAAGATTC-TCAAA
1 GATTCAAGATTCGTAAAA
* * *
21063496 GATTTAAATATTCGCAAAA
1 GA-TTCAAGATTCGTAAAA
* * *
21063515 GATTCAAAATCCGTAAGA
1 GATTCAAGATTCGTAAAA
21063533 GATT
1 GATT
21063537 AAAAAATTCA
Statistics
Matches: 183, Mismatches: 40, Indels: 29
0.73 0.16 0.12
Matches are distributed among these distances:
16 2 0.01
17 45 0.25
18 94 0.51
19 40 0.22
20 2 0.01
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (18 bp):
GATTCAAGATTCGTAAAA
Found at i:21063389 original size:36 final size:36
Alignment explanation
Indices: 21063261--21063521 Score: 114
Period size: 36 Copynumber: 7.3 Consensus size: 36
21063251 AAATATTCAA
*
21063261 AAAAG-TTCAAGGTTTGCAAAGGATTC-AAGA-TT-C
1 AAAAGATTCAAGATTTGCAAA-GATTCAAAGATTTGC
* ** *
21063294 TAAAAAATTCAAGATTCACAAA-ATTTCAAATATTCT-C
1 -AAAAGATTCAAGATTTGCAAAGA-TTCAAAGATT-TGC
** * *
21063331 -AAATTTTCAAGATTCGTAAAAGATTCAAAGATTTGC
1 AAAAGATTCAAGATTTG-CAAAGATTCAAAGATTTGC
* * *
21063367 AAAATATTTAAGATTTGCAAAGATTCAAAGATTTGT
1 AAAAGATTCAAGATTTGCAAAGATTCAAAGATTTGC
* * * *
21063403 AAAAGATTCAATATTTGTAAATATTCAAA-AATT-C
1 AAAAGATTCAAGATTTGCAAAGATTCAAAGATTTGC
* * * * * * *
21063437 AAAAAAATTTAAAATTCGTAAAATAATTC-AAGATTCGC
1 -AAAAGATTCAAGATTTG-CAAA-GATTCAAAGATTTGC
* * *
21063475 AAGAA-ATTCAAGATTCT-CAAAGATTTAAATATTCGC
1 AA-AAGATTCAAGATT-TGCAAAGATTCAAAGATTTGC
21063511 AAAAGATTCAA
1 AAAAGATTCAA
21063522 AATCCGTAAG
Statistics
Matches: 172, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
33 1 0.01
34 7 0.04
35 50 0.29
36 79 0.46
37 32 0.19
38 3 0.02
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (36 bp):
AAAAGATTCAAGATTTGCAAAGATTCAAAGATTTGC
Found at i:21063541 original size:108 final size:108
Alignment explanation
Indices: 21063342--21063546 Score: 245
Period size: 108 Copynumber: 1.9 Consensus size: 108
21063332 AATTTTCAAG
* * * * *
21063342 ATTCGTAAAAGATTCAAAGATTTGCAAAATATTTAAGATTTGCAAAGATTCAAAGATTTGTAAAA
1 ATTCGTAAAAAATTCAAAGATTCGCAAAATATTCAAGATTTGCAAAGATTCAAAGATTCGCAAAA
* ** * *
21063407 GATTCAATATTTGTAAATATTCAAAAATTCAAAAAAATTTAAA
66 GATTCAAAATCCGTAAAGATTAAAAAATTCAAAAAAATTTAAA
* *
21063450 ATTCGTAAAATAATTC-AAGATTCGCAAGAA-ATTCAAGATTCT-CAAAGATTTAAATATTCGCA
1 ATTCGTAAAA-AATTCAAAGATTCGCAA-AATATTCAAGATT-TGCAAAGATTCAAAGATTCGCA
21063512 AAAGATTCAAAATCCGTAAGAGATTAAAAAATTCA
63 AAAGATTCAAAATCCGTAA-AGATTAAAAAATTCA
21063547 CAAGAGATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
108 61 0.75
109 20 0.25
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (108 bp):
ATTCGTAAAAAATTCAAAGATTCGCAAAATATTCAAGATTTGCAAAGATTCAAAGATTCGCAAAA
GATTCAAAATCCGTAAAGATTAAAAAATTCAAAAAAATTTAAA
Found at i:21064306 original size:21 final size:20
Alignment explanation
Indices: 21064267--21064306 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21064257 CATTTTTTTA
*
21064267 AAAATTTTTCATCATAAATC
1 AAAATTTTTCATCAAAAATC
*
21064287 AAAATTTTATCTTCAAAAAT
1 AAAATTTT-TCATCAAAAAT
21064307 TATCCTCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTTTTCATCAAAAATC
Found at i:21065302 original size:9 final size:9
Alignment explanation
Indices: 21065279--21065354 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 9
21065269 TTTTTTTTTC
*
21065279 TTTTTCACA
1 TTTTTCTCA
*
21065288 TCTTTCTCA
1 TTTTTCTCA
**
21065297 TTTTTCTTT
1 TTTTTCTCA
* *
21065306 TTTCTTTTGCT
1 TTT-TTCT-CA
21065317 TTTTTCTCA
1 TTTTTCTCA
21065326 TTTTT-TCA
1 TTTTTCTCA
21065334 -TTTT-TCA
1 TTTTTCTCA
*
21065341 TTTTTTTCA
1 TTTTTCTCA
21065350 TTTTT
1 TTTTT
21065355 TTTCACTTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 7 0.13
8 7 0.13
9 30 0.56
10 6 0.11
11 4 0.07
ACGTcount: A:0.09, C:0.17, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTTTCTCA
Found at i:21065330 original size:24 final size:24
Alignment explanation
Indices: 21065297--21065355 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
21065287 ATCTTTCTCA
21065297 TTTTTC-TTTTTTC-TTTTGC-TT
1 TTTTTCATTTTTTCATTTTGCATT
*
21065318 TTTTCTCATTTTTTCATTTTTCATT
1 TTTT-TCATTTTTTCATTTTGCATT
21065343 TTTTTCATTTTTT
1 TTTTTCATTTTTT
21065356 TTCACTTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 4 0.12
22 2 0.06
23 7 0.21
24 14 0.42
25 6 0.18
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTCATTTTTTCATTTTGCATT
Found at i:21065345 original size:8 final size:8
Alignment explanation
Indices: 21065297--21065355 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 8
21065287 ATCTTTCTCA
21065297 TTTTTC-T
1 TTTTTCAT
21065304 TTTTTC--
1 TTTTTCAT
* *
21065310 TTTTGCTT
1 TTTTTCAT
21065318 TTTTCTCAT
1 TTTT-TCAT
21065327 TTTTTCA-
1 TTTTTCAT
21065334 TTTTTCATT
1 TTTTTCA-T
21065343 TTTTTCAT
1 TTTTTCAT
21065351 TTTTT
1 TTTTT
21065356 TTCACTTCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
6 5 0.11
7 13 0.30
8 13 0.30
9 13 0.30
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTTTCAT
Found at i:21065359 original size:10 final size:9
Alignment explanation
Indices: 21065316--21065356 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
21065306 TTTCTTTTGC
21065316 TTTTTTCTCA
1 TTTTTT-TCA
21065326 -TTTTTTCA
1 TTTTTTTCA
21065334 --TTTTTCA
1 TTTTTTTCA
21065341 TTTTTTTCA
1 TTTTTTTCA
21065350 TTTTTTT
1 TTTTTTT
21065357 TCACTTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.24
8 3 0.10
9 19 0.66
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:21069921 original size:4 final size:4
Alignment explanation
Indices: 21069914--21069979 Score: 62
Period size: 4 Copynumber: 16.2 Consensus size: 4
21069904 TAATATTTAC
* * * *
21069914 AAAT AAAT AAAT ACAT AAAT -AGT CAAAT AAAT AAAAT AAAG AAAT AAAC
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT
*
21069963 AAAC AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT A
21069980 GACAATTATG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 2 0.04
4 43 0.84
5 6 0.12
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:21069972 original size:20 final size:20
Alignment explanation
Indices: 21069947--21069984 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21069937 CAAATAAATA
21069947 AAATAAAGAAATAAACAAAC
1 AAATAAAGAAATAAACAAAC
* *
21069967 AAATAAATAAATAGACAA
1 AAATAAAGAAATAAACAA
21069985 TTATGATAAA
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:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (20 bp):
AAATAAAGAAATAAACAAAC
Found at i:21071138 original size:26 final size:26
Alignment explanation
Indices: 21071108--21071163 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
21071098 AATTTTAACG
* * * *
21071108 AATTATAATCTAAGAGGTATTTTCGT
1 AATTATAATATAAGAGATATTATAGT
*
21071134 AATTATGATATAAGAGATATTATAGT
1 AATTATAATATAAGAGATATTATAGT
21071160 AATT
1 AATT
21071164 TTAACAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (26 bp):
AATTATAATATAAGAGATATTATAGT
Found at i:21071641 original size:62 final size:61
Alignment explanation
Indices: 21071515--21071651 Score: 159
Period size: 62 Copynumber: 2.2 Consensus size: 61
21071505 AAAAATGGTA
* * * * * **
21071515 TTTTCATAATTATGGTAAAAAGATATTATAGTAATTTGGGTAAATTATAATTAGAGGGGGT
1 TTTTCGTAATTATGGTAAAAAGATATTATAATAATTTGGGTAAATGATAAGTAGAAGGCAT
* * *
21071576 TTTTTGTAATTATGGTAAGAAAGATATTATAATAATTTTGGTAAATGAT-GGTAGGAAGGCAT
1 TTTTCGTAATTATGGTAA-AAAGATATTATAATAATTTGGGTAAATGATAAGTA-GAAGGCAT
21071638 TTTTCGTAATTATG
1 TTTTCGTAATTATG
21071652 ATTGTAAGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 18 0.29
62 45 0.71
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (61 bp):
TTTTCGTAATTATGGTAAAAAGATATTATAATAATTTGGGTAAATGATAAGTAGAAGGCAT
Found at i:21072388 original size:19 final size:18
Alignment explanation
Indices: 21072364--21072402 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21072354 TTTTTTTAAA
21072364 AAGTAAAGAAACAAAAAAT
1 AAGTAAA-AAACAAAAAAT
**
21072383 AAGTAAAACCCAAAAAAT
1 AAGTAAAAAACAAAAAAT
21072401 AA
1 AA
21072403 CACTCGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.72, C:0.10, G:0.08, T:0.10
Consensus pattern (18 bp):
AAGTAAAAAACAAAAAAT
Found at i:21074310 original size:20 final size:20
Alignment explanation
Indices: 21074276--21074325 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
21074266 CATATATCAT
* *
21074276 ATTAATATATATTTAGAAAA
1 ATTAATAAATATTTACAAAA
* *
21074296 ATTAATAAATTTTTACAATA
1 ATTAATAAATATTTACAAAA
21074316 ATTAAATAAA
1 ATT-AATAAA
21074326 CGTGTGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATTAATAAATATTTACAAAA
Found at i:21074864 original size:118 final size:118
Alignment explanation
Indices: 21074728--21074943 Score: 405
Period size: 118 Copynumber: 1.8 Consensus size: 118
21074718 TTACAACTAC
*
21074728 ATATATATCTTCCACACTTGAAAGAGAAAGTGTCTGCCATTATTATAGAATTTCAAGCCTTTACT
1 ATATATATCTTCCACACTTGAAAGAGAAAGTGTCTGCCATTATTATAGAATTTCAAGCCTTTACC
21074793 AGCCTCCTTAGAACCACAAAACATCTGTAAATTACAACTATATATATATATAT
66 AGCCTCCTTAGAACCACAAAACATCTGTAAATTACAACTATATATATATATAT
*
21074846 ATATATATCTTCCACACTTGAAAGAGAAAGTGTCTGCCATTATTATTGAATTTCAAGCCTTTACC
1 ATATATATCTTCCACACTTGAAAGAGAAAGTGTCTGCCATTATTATAGAATTTCAAGCCTTTACC
*
21074911 AGCCTCCTTATAACCACAAAACATCTGTAAATT
66 AGCCTCCTTAGAACCACAAAACATCTGTAAATT
21074944 GTTAGGTATA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 95 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (118 bp):
ATATATATCTTCCACACTTGAAAGAGAAAGTGTCTGCCATTATTATAGAATTTCAAGCCTTTACC
AGCCTCCTTAGAACCACAAAACATCTGTAAATTACAACTATATATATATATAT
Found at i:21076165 original size:25 final size:25
Alignment explanation
Indices: 21076123--21076174 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
21076113 TGTAAAAATA
*
21076123 ATAAAATATATTATTTTAATTTTAT
1 ATAAAATATATTATTTTAATTGTAT
21076148 ATAAAATA-ATTATATTTAATTGTAT
1 ATAAAATATATTAT-TTTAATTGTAT
21076173 AT
1 AT
21076175 CATATTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATAAAATATATTATTTTAATTGTAT
Found at i:21079970 original size:24 final size:24
Alignment explanation
Indices: 21079924--21079970 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
21079914 AAATACATAT
*
21079924 ATAAAATATCAATTTTATTTTTTA
1 ATAAAATATCAATTTTATATTTTA
*
21079948 ATAAATTAT-AATTTTATCATTTT
1 ATAAAATATCAATTTTAT-ATTTT
21079971 TACGCCTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
ATAAAATATCAATTTTATATTTTA
Found at i:21087981 original size:2 final size:2
Alignment explanation
Indices: 21087974--21088009 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
21087964 ATCAAGAAAA
*
21087974 TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21088010 ACACACACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:21088014 original size:2 final size:2
Alignment explanation
Indices: 21088009--21088052 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
21087999 CTCTCTCTCT
*
21088009 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
21088051 CA
1 CA
21088053 ATACAAAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:21090642 original size:44 final size:44
Alignment explanation
Indices: 21090582--21090666 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
21090572 GTCATCCTGT
*
21090582 CTTGCTTCAAGATACCACAGAATGCTACCTCTAACAAAATTATC
1 CTTGCTTCAAGATACCACAGAATGCTAACTCTAACAAAATTATC
* * *
21090626 CTTGCTTCAAGGTACCAGAGAATGCTAACTCTGACAAAATT
1 CTTGCTTCAAGATACCACAGAATGCTAACTCTAACAAAATT
21090667 CACTAAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (44 bp):
CTTGCTTCAAGATACCACAGAATGCTAACTCTAACAAAATTATC
Found at i:21093249 original size:21 final size:21
Alignment explanation
Indices: 21093225--21093264 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21093215 AAATGTGCCA
*
21093225 TTTCACAAAATAAATGATCAT
1 TTTCACAAAACAAATGATCAT
* *
21093246 TTTCGCCAAACAAATGATC
1 TTTCACAAAACAAATGATC
21093265 GTTTGGCTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCACAAAACAAATGATCAT
Found at i:21094522 original size:17 final size:17
Alignment explanation
Indices: 21094502--21094554 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
21094492 AAAATATTTT
21094502 TTAAATATAAATAAAAA
1 TTAAATATAAATAAAAA
* *
21094519 TTAAATTTAATATAAAAT
1 TTAAATATAA-ATAAAAA
*
21094537 TTAAAAAATAAA-AAAAA
1 TT-AAATATAAATAAAAA
21094554 T
1 T
21094555 ATTTTACACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 14 0.48
18 9 0.31
19 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAATATAAATAAAAA
Found at i:21094540 original size:35 final size:36
Alignment explanation
Indices: 21094476--21094554 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 36
21094466 ACAATGATAA
** * *
21094476 AAATAAAAA-TAAATTTAAAAT-ATTTTTTAAATAT
1 AAATAAAAATTAAATTTAAAATAAAATTTAAAAAAT
*
21094510 AAATAAAAATTAAATTTAATATAAAATTTAAAAAAT
1 AAATAAAAATTAAATTTAAAATAAAATTTAAAAAAT
21094546 AAA-AAAAAT
1 AAATAAAAAT
21094555 ATTTTACACT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 9 0.24
35 17 0.45
36 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (36 bp):
AAATAAAAATTAAATTTAAAATAAAATTTAAAAAAT
Found at i:21096917 original size:29 final size:30
Alignment explanation
Indices: 21096856--21096921 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
21096846 TATATAATTT
* *
21096856 TAAAAATTTATGATTTTACTTACCACAAAA
1 TAAAAATTTATAAATTTACTTACCACAAAA
* * *
21096886 TAAAAATTTATAAATTTATTTA-CATACAA
1 TAAAAATTTATAAATTTACTTACCACAAAA
21096915 TAAAAAT
1 TAAAAAT
21096922 AATTAAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAAAATTTATAAATTTACTTACCACAAAA
Found at i:21100991 original size:58 final size:58
Alignment explanation
Indices: 21100922--21101033 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
21100912 CTAATCCTCA
21100922 AGAATTTCACTCAAAGGAAAGGGGTTGACTGCCCTTTTCATCAAAGAATGCCTTGTCC
1 AGAATTTCACTCAAAGGAAAGGGGTTGACTGCCCTTTTCATCAAAGAATGCCTTGTCC
* * *
21100980 AGAATTTCACTCGAGGGAGAGGGGTTGACTGCCCTTTTCATCAAAGAATGCCTT
1 AGAATTTCACTCAAAGGAAAGGGGTTGACTGCCCTTTTCATCAAAGAATGCCTT
21101034 TTCTATATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (58 bp):
AGAATTTCACTCAAAGGAAAGGGGTTGACTGCCCTTTTCATCAAAGAATGCCTTGTCC
Found at i:21102108 original size:2 final size:2
Alignment explanation
Indices: 21102101--21102128 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21102091 ATGTTACAAA
21102101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21102129 GTGTGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21104589 original size:71 final size:71
Alignment explanation
Indices: 21104503--21104648 Score: 267
Period size: 71 Copynumber: 2.1 Consensus size: 71
21104493 TCATAAGCTT
21104503 GAGCAAGTGGGATCTATGAAGGACAAG-TAATACATTATCTTCTTGATACATGATATATTTACAT
1 GAGCAAGTGGGATCTATGAAGGAC-AGTTAATACATTATCTTCTTGATACATGATATATTTACAT
21104567 ATTTCTA
65 ATTTCTA
*
21104574 GAGCAAGTGGGATCTATGAAGGACAGTTAATGCATTATCTTCTTGATACATGATATATTTACATA
1 GAGCAAGTGGGATCTATGAAGGACAGTTAATACATTATCTTCTTGATACATGATATATTTACATA
21104639 TTTCTA
66 TTTCTA
21104645 GAGC
1 GAGC
21104649 TTTGTTGCAT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 2 0.03
71 71 0.97
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (71 bp):
GAGCAAGTGGGATCTATGAAGGACAGTTAATACATTATCTTCTTGATACATGATATATTTACATA
TTTCTA
Found at i:21105020 original size:2 final size:2
Alignment explanation
Indices: 21105013--21105041 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21105003 TTCCTAGCAA
21105013 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21105042 TTTCTGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21105529 original size:26 final size:28
Alignment explanation
Indices: 21105491--21105547 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
21105481 AAGAATAATT
* *
21105491 ATATTTTAATAATAT-ATAATA-TTAAA
1 ATATTATAATAATATAAAAATATTTAAA
*
21105517 ATATTATATTAATATAAAAATATTTAAA
1 ATATTATAATAATATAAAAATATTTAAA
21105545 ATA
1 ATA
21105548 AAACTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.50
27 5 0.19
28 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATTATAATAATATAAAAATATTTAAA
Found at i:21105531 original size:19 final size:18
Alignment explanation
Indices: 21105498--21105540 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
21105488 ATTATATTTT
* *
21105498 AATAATATATAATATTAA
1 AATATTATATAATATAAA
21105516 AATATTATATTAATATAAA
1 AATATTATA-TAATATAAA
21105535 AATATT
1 AATATT
21105541 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATTATATAATATAAA
Found at i:21105539 original size:34 final size:31
Alignment explanation
Indices: 21105458--21105562 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 31
21105448 TGAAATTATC
*
21105458 TATTATTAAAATTATTAATATTCAAGAATAATTA
1 TATTATTAAAAATATTAATATT-AA-AAT-ATTA
*
21105492 TATT-TTAATAATATATAATATTAAAATATTA
1 TATTATTAAAAATAT-TAATATTAAAATATTA
*
21105523 TATTAATATAAAAATATTTAA-AATAAAACTATT-
1 TATT-AT-TAAAAATA-TTAATATTAAAA-TATTA
21105556 TATTATT
1 TATTATT
21105563 CTTTATATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
31 9 0.15
32 5 0.08
33 21 0.34
34 25 0.41
35 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (31 bp):
TATTATTAAAAATATTAATATTAAAATATTA
Found at i:21105621 original size:42 final size:42
Alignment explanation
Indices: 21105574--21105655 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
21105564 TTTATATTAA
* *
21105574 TATTTTAAAATATTTAAAATAGTATTA-CTATTATTAAAATGT
1 TATTTT-AAATAATTAAAATAGTAATATCTATTATTAAAATGT
* * *
21105616 TATTTTTATTAATTAAAATAGTAATATTTATTATTAAAAT
1 TATTTTAAATAATTAAAATAGTAATATCTATTATTAAAAT
21105656 ATTTATACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 16 0.47
42 18 0.53
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (42 bp):
TATTTTAAATAATTAAAATAGTAATATCTATTATTAAAATGT
Found at i:21105632 original size:21 final size:21
Alignment explanation
Indices: 21105587--21105656 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
21105577 TTTAAAATAT
* *
21105587 TTAAAATAGTATTA-CTATTA
1 TTAAAATAGTAATATTTATTA
* *
21105607 TTAAAAT-GTTATTTTTATTAA
1 TTAAAATAGTAATATTTATT-A
21105628 TTAAAATAGTAATATTTATTA
1 TTAAAATAGTAATATTTATTA
21105649 TTAAAATA
1 TTAAAATA
21105657 TTTATACTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 3 0.07
20 11 0.27
21 17 0.41
22 10 0.24
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (21 bp):
TTAAAATAGTAATATTTATTA
Found at i:21105703 original size:23 final size:23
Alignment explanation
Indices: 21105657--21105699 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21105647 TATTAAAATA
*
21105657 TTTATACTATGAAATATTTATAT
1 TTTATACTATGAAATATCTATAT
*
21105680 TTTATATTAT-AAATATCTAT
1 TTTATACTATGAAATATCTAT
21105700 TATTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTATACTATGAAATATCTATAT
Found at i:21105918 original size:39 final size:38
Alignment explanation
Indices: 21105830--21105918 Score: 90
Period size: 41 Copynumber: 2.3 Consensus size: 38
21105820 AAATATTCAC
*
21105830 ATTAAAA-AATAATATTAGTATATATTTAACATTAATT
1 ATTAAAATAAAAATATTAGTATATATTTAACATTAATT
* ** *
21105867 ATTAAAATAATAAAAATATTATTATATATGTTATTATTTATT
1 ATT--AA-AATAAAAATATTAGTATATAT-TTAACATTAATT
21105909 ATTAAAATAA
1 ATTAAAATAA
21105919 TAATCGAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
37 3 0.07
39 7 0.17
40 4 0.10
41 16 0.38
42 12 0.29
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (38 bp):
ATTAAAATAAAAATATTAGTATATATTTAACATTAATT
Found at i:21105921 original size:42 final size:41
Alignment explanation
Indices: 21105840--21105921 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
21105830 ATTAAAAAAT
21105840 AATATTAGTATATATTTAACATTAATTATTAAAATAATAAA
1 AATATTAGTATATATTTAACATTAATTATTAAAATAATAAA
* ** *
21105881 AATATTATTATATATGTTATTATTTATTATTAAAATAATAA
1 AATATTAGTATATAT-TTAACATTAATTATTAAAATAATAA
21105922 TCGAATACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 14 0.39
42 22 0.61
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (41 bp):
AATATTAGTATATATTTAACATTAATTATTAAAATAATAAA
Found at i:21121334 original size:3 final size:3
Alignment explanation
Indices: 21121328--21121382 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
21121318 TTTTAAAGAG
21121328 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21121376 TAA TAA T
1 TAA TAA T
21121383 CAAAGCGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:21121842 original size:16 final size:15
Alignment explanation
Indices: 21121811--21121861 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
21121801 AAAAAATAAA
21121811 ATTTTA-TTTT-TAT
1 ATTTTATTTTTATAT
21121824 ATTTTATCTTTTATAT
1 ATTTTAT-TTTTATAT
*
21121840 ATTTATATTTTGATA-
1 ATTT-TATTTTTATAT
21121855 ATTTTAT
1 ATTTTAT
21121862 AAATATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 6 0.18
14 3 0.09
15 8 0.24
16 13 0.39
17 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
ATTTTATTTTTATAT
Found at i:21121859 original size:24 final size:22
Alignment explanation
Indices: 21121810--21121862 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
21121800 AAAAAAATAA
21121810 AATTTTAT-TTTTATATTTTAT
1 AATTTTATATTTTATATTTTAT
*
21121831 -CTTTTATATATTTATATTTTGAT
1 AATTTTATAT-TTTATATTTT-AT
21121854 AATTTTATA
1 AATTTTATA
21121863 AATATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 6 0.23
21 1 0.04
22 10 0.38
23 2 0.08
24 7 0.27
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
AATTTTATATTTTATATTTTAT
Found at i:21121862 original size:16 final size:14
Alignment explanation
Indices: 21121811--21121862 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
21121801 AAAAAATAAA
21121811 ATTTTAT-TTTTAT
1 ATTTTATATTTTAT
*
21121824 ATTTTATCTTTTAT
1 ATTTTATATTTTAT
21121838 ATATTTATATTTTGAT
1 AT-TTTATATTTT-AT
21121854 AATTTTATA
1 -ATTTTATA
21121863 AATATATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
13 7 0.21
14 8 0.24
15 9 0.26
16 8 0.24
17 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
ATTTTATATTTTAT
Found at i:21121863 original size:8 final size:7
Alignment explanation
Indices: 21121811--21121862 Score: 61
Period size: 7 Copynumber: 7.1 Consensus size: 7
21121801 AAAAAATAAA
21121811 ATTTTAT
1 ATTTTAT
21121818 -TTTTAT
1 ATTTTAT
21121824 ATTTTAT
1 ATTTTAT
*
21121831 CTTTTAT
1 ATTTTAT
21121838 ATATTTAT
1 AT-TTTAT
21121846 ATTTTGAT
1 ATTTT-AT
21121854 AATTTTAT
1 -ATTTTAT
21121862 A
1 A
21121863 AATATATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 6 0.15
7 17 0.44
8 11 0.28
9 5 0.13
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
ATTTTAT
Found at i:21121912 original size:19 final size:18
Alignment explanation
Indices: 21121874--21121927 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
21121864 ATATATATTA
*
21121874 ATATTTTTTCAAAAAATTT
1 ATATTATTT-AAAAAATTT
21121893 A-ATTAATTTAAAATAATTT
1 ATATT-ATTTAAAA-AATTT
21121912 ATATTATTTAATAAAA
1 ATATTATTTAA-AAAA
21121928 AATATATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 7 0.23
19 18 0.60
20 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTATTTAAAAAATTT
Found at i:21125972 original size:8 final size:8
Alignment explanation
Indices: 21125959--21126036 Score: 97
Period size: 8 Copynumber: 9.5 Consensus size: 8
21125949 ACTATGCGTG
21125959 AAAATGAA
1 AAAATGAA
21125967 AAAATGAA
1 AAAATGAA
21125975 GAAAA-GAA
1 -AAAATGAA
21125983 AAAATGAAA
1 AAAATG-AA
21125992 AAAATGAA
1 AAAATGAA
*
21126000 AAAAAGAAA
1 AAAATG-AA
21126009 AAAATG-A
1 AAAATGAA
21126016 AAAATAGAA
1 AAAAT-GAA
21126025 AAAATGAA
1 AAAATGAA
21126033 AAAA
1 AAAA
21126037 AAGTGAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
7 10 0.16
8 27 0.44
9 25 0.40
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (8 bp):
AAAATGAA
Found at i:21125978 original size:17 final size:17
Alignment explanation
Indices: 21125959--21126036 Score: 108
Period size: 16 Copynumber: 4.7 Consensus size: 17
21125949 ACTATGCGTG
*
21125959 AAAATGAAAAAATGAAG
1 AAAATGAAAAAATGAAA
21125976 AAAA-GAAAAAATGAAA
1 AAAATGAAAAAATGAAA
*
21125992 AAAATGAAAAAAAGAAA
1 AAAATGAAAAAATGAAA
21126009 AAAATG-AAAAAT-AGAA
1 AAAATGAAAAAATGA-AA
21126025 AAAATGAAAAAA
1 AAAATGAAAAAA
21126037 AAGTGAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
15 1 0.02
16 28 0.51
17 26 0.47
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAATGAAAAAATGAAA
Found at i:21125996 original size:33 final size:33
Alignment explanation
Indices: 21125959--21126037 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
21125949 ACTATGCGTG
* *
21125959 AAAATGAAAAAATGAAGAAAA-GAAAAA-ATGAAA
1 AAAATGAAAAAAAGAAAAAAATGAAAAATA-G-AA
21125992 AAAATGAAAAAAAGAAAAAAATGAAAAATAGAA
1 AAAATGAAAAAAAGAAAAAAATGAAAAATAGAA
21126025 AAAATGAAAAAAA
1 AAAATGAAAAAAA
21126038 AGTGAAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 34 0.81
34 7 0.17
35 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (33 bp):
AAAATGAAAAAAAGAAAAAAATGAAAAATAGAA
Found at i:21126025 original size:42 final size:44
Alignment explanation
Indices: 21125965--21126046 Score: 134
Period size: 42 Copynumber: 1.9 Consensus size: 44
21125955 CGTGAAAATG
21125965 AAAAAATGAAGAAAAGAAAAAATG-AAAAAAA-TGAAAAAAAGA
1 AAAAAATGAAGAAAAGAAAAAATGAAAAAAAAGTGAAAAAAAGA
21126007 AAAAAATGAA-AAATAGAAAAAATGAAAAAAAAGTGAAAAA
1 AAAAAATGAAGAAA-AGAAAAAATGAAAAAAAAGTGAAAAA
21126047 GGAGGACTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
41 3 0.08
42 20 0.54
43 7 0.19
44 7 0.19
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (44 bp):
AAAAAATGAAGAAAAGAAAAAATGAAAAAAAAGTGAAAAAAAGA
Found at i:21127179 original size:42 final size:42
Alignment explanation
Indices: 21127059--21127351 Score: 384
Period size: 42 Copynumber: 7.1 Consensus size: 42
21127049 GATTGTGAAA
21127059 GAGCAATTTA-TTTTCCAAAGTTTCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAG--TCGTGGTGCCTCTGTTTAGAG
*
21127100 GAGC-ATTTAC-TTTCCAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * * *
21127140 GAGCAATTTACTTTTCTAAAGTCGTGGTACTTCTATTTAGAA
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
21127182 GAGCAATTTAC-TTTCAAAAGTCGTGGTACCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
*
21127223 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAT
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
21127265 GAGCAATTTACTTTTCAAAAGTTGTTGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
21127307 GAGCAATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAA
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
21127348 GAGC
1 GAGC
21127352 TTTGGTCAAA
Statistics
Matches: 224, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
38 3 0.01
40 33 0.15
41 78 0.35
42 110 0.49
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (42 bp):
GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:21127214 original size:83 final size:83
Alignment explanation
Indices: 21127059--21127351 Score: 382
Period size: 83 Copynumber: 3.6 Consensus size: 83
21127049 GATTGTGAAA
* * * *
21127059 GAGCAATTTA-TTTTCCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGC-ATTTACTTTCCAAAGT
1 GAGCAATTTACTTTTCCAAAG--TCGTGGTACCTCTATTTAGAAGAGCAATTTACTTTCAAAAGT
21127120 TGTGGTGCCTCTGTTTAGAG
64 TGTGGTGCCTCTGTTTAGAG
* * *
21127140 GAGCAATTTACTTTTCTAAAGTCGTGGTACTTCTATTTAGAAGAGCAATTTACTTTCAAAAGTCG
1 GAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTATTTAGAAGAGCAATTTACTTTCAAAAGTTG
*
21127205 TGGTACCTCTGTTTAGAG
66 TGGTGCCTCTGTTTAGAG
* * *
21127223 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTTCAAAAGTT
1 GAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTATTTAGAAGAGCAATTTAC-TTTCAAAAGTT
*
21127288 GTTGTGCCTCTGTTTAGAG
65 GTGGTGCCTCTGTTTAGAG
* *
21127307 GAGCAATTTA-TTTTCCAAAGTCGTTG-AGCCTCTGTTTAGAAGAGC
1 GAGCAATTTACTTTTCCAAAGTCGTGGTA-CCTCTATTTAGAAGAGC
21127352 TTTGGTCAAA
Statistics
Matches: 187, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
80 4 0.02
81 10 0.05
82 24 0.13
83 112 0.60
84 37 0.20
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (83 bp):
GAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTATTTAGAAGAGCAATTTACTTTCAAAAGTTG
TGGTGCCTCTGTTTAGAG
Found at i:21127277 original size:125 final size:122
Alignment explanation
Indices: 21127057--21127351 Score: 396
Period size: 125 Copynumber: 2.4 Consensus size: 122
21127047 ATGATTGTGA
* *
21127057 AAGAGCAATTTATTTTCCAAAGTTTCGT-TGCCTCTGTTTAGAGGAGCATTTACTTTCCAAAGTT
1 AAGAGCAATTTATTTTCCAAAG--TCGTGTACCTCTGTTTAGAGGAGCATTTACTTTCCAAAGTC
* *
21127121 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCTAAAGTCGTGGTACTTCTATTTAG
64 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTACCTCTATTTAG
* *
21127180 AAGAGCAATTTACTTTCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
1 AAGAGCAATTTATTTTCCAAAGTCGT-GTACCTCTGTTTAGAGGAGC-ATTTAC-TTTCCAAAGT
* * * * *
21127245 CGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTTCAAAAGTTGTTGTGCCTCTGTTTAG
63 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTACCTCTATTTAG
* *
21127305 AGGAGCAATTTATTTTCCAAAGTCGT-TGAGCCTCTGTTTAGAAGAGC
1 AAGAGCAATTTATTTTCCAAAGTCGTGT-A-CCTCTGTTTAGAGGAGC
21127352 TTTGGTCAAA
Statistics
Matches: 151, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
121 4 0.03
123 39 0.26
124 7 0.05
125 101 0.67
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (122 bp):
AAGAGCAATTTATTTTCCAAAGTCGTGTACCTCTGTTTAGAGGAGCATTTACTTTCCAAAGTCGT
GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTACCTCTATTTAG
Found at i:21127381 original size:11 final size:10
Alignment explanation
Indices: 21127359--21127406 Score: 62
Period size: 11 Copynumber: 4.7 Consensus size: 10
21127349 AGCTTTGGTC
21127359 AAAAAAA-AA
1 AAAAAAACAA
*
21127368 AAAACAACAA
1 AAAAAAACAA
21127378 AAAAAACACAA
1 AAAAAA-ACAA
21127389 AAAAAAACAA
1 AAAAAAACAA
21127399 AACAAAAA
1 AA-AAAAA
21127407 ATGACAATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 6 0.18
10 13 0.38
11 15 0.44
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:21127381 original size:12 final size:12
Alignment explanation
Indices: 21127364--21127407 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
21127354 TGGTCAAAAA
21127364 AAAAAAAACAAC
1 AAAAAAAACAAC
21127376 AAAAAAAAC-AC
1 AAAAAAAACAAC
21127387 AAAAAAAAACAA-
1 -AAAAAAAACAAC
21127399 AACAAAAAA
1 AA-AAAAAA
21127408 TGACAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.14
12 24 0.83
13 1 0.03
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:21127413 original size:15 final size:15
Alignment explanation
Indices: 21127358--21127407 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 15
21127348 GAGCTTTGGT
21127358 CAAAAAAAAA-AAAA
1 CAAAAAAAAACAAAA
* *
21127372 CAACAAAAAA-AACA
1 CAAAAAAAAACAAAA
21127386 CAAAAAAAAACAAAA
1 CAAAAAAAAACAAAA
21127401 CAAAAAA
1 CAAAAAA
21127408 TGACAATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 21 0.68
15 10 0.32
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAACAAAA
Found at i:21127634 original size:3 final size:3
Alignment explanation
Indices: 21127608--21127652 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
21127598 CTTTCTTTTG
21127608 TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
21127653 GTATATCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.11
3 28 0.74
4 6 0.16
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:21127817 original size:26 final size:25
Alignment explanation
Indices: 21127763--21127822 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
21127753 GATTTATTTT
21127763 ATTTTATTTTTTAATTATCTG-TTA
1 ATTTTATTTTTTAATTATCTGTTTA
*
21127787 ATTTTATTTTATTCATTTATCTGATTT-
1 ATTTTATTTT-TT-AATTATCTG-TTTA
*
21127814 TTTTTATTT
1 ATTTTATTT
21127823 ATCCGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 10 0.33
25 2 0.07
26 8 0.27
27 8 0.27
28 2 0.07
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (25 bp):
ATTTTATTTTTTAATTATCTGTTTA
Found at i:21127838 original size:18 final size:18
Alignment explanation
Indices: 21127795--21127839 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
21127785 TAATTTTATT
* *
21127795 TTATTCATTTATCTGATTT
1 TTATT-ATTTATCCGATTA
*
21127814 TTTTTATTTATCCGATTA
1 TTATTATTTATCCGATTA
21127832 TTATTATT
1 TTATTATT
21127840 ATTATTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (18 bp):
TTATTATTTATCCGATTA
Found at i:21128036 original size:86 final size:86
Alignment explanation
Indices: 21127891--21128057 Score: 334
Period size: 86 Copynumber: 1.9 Consensus size: 86
21127881 AAGAATCCCA
21127891 CTGTGAATGGGAATTCAATCAAAGGAGTCCAGTTGGATTCAAAGATTGAATTCCTGTCCAAGGAA
1 CTGTGAATGGGAATTCAATCAAAGGAGTCCAGTTGGATTCAAAGATTGAATTCCTGTCCAAGGAA
21127956 GAATTGAGATTGATCAGGAGT
66 GAATTGAGATTGATCAGGAGT
21127977 CTGTGAATGGGAATTCAATCAAAGGAGTCCAGTTGGATTCAAAGATTGAATTCCTGTCCAAGGAA
1 CTGTGAATGGGAATTCAATCAAAGGAGTCCAGTTGGATTCAAAGATTGAATTCCTGTCCAAGGAA
21128042 GAATTGAGATTGATCA
66 GAATTGAGATTGATCA
21128058 AGAACTCCTG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (86 bp):
CTGTGAATGGGAATTCAATCAAAGGAGTCCAGTTGGATTCAAAGATTGAATTCCTGTCCAAGGAA
GAATTGAGATTGATCAGGAGT
Found at i:21128399 original size:11 final size:11
Alignment explanation
Indices: 21128364--21128402 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
21128354 CCCAGAAACT
* *
21128364 GGTGACCTTCT
1 GGTGAACTTCC
21128375 GGTGAACTTCC
1 GGTGAACTTCC
*
21128386 GGTGAACTTTC
1 GGTGAACTTCC
21128397 GGTGAA
1 GGTGAA
21128403 AAAACCCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (11 bp):
GGTGAACTTCC
Found at i:21128854 original size:17 final size:16
Alignment explanation
Indices: 21128820--21128859 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
21128810 TTAGATTAGG
*
21128820 TTTATTTAATATTCTT
1 TTTATTTAATATTATT
*
21128836 TTTATCTTAATTTTATT
1 TTTAT-TTAATATTATT
21128853 TTTATTT
1 TTTATTT
21128860 TTGTTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTAATATTATT
Found at i:21128866 original size:17 final size:17
Alignment explanation
Indices: 21128846--21128893 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
21128836 TTTATCTTAA
21128846 TTTTATTTTTATTT-TT
1 TTTTATTTTTATTTATT
* *
21128862 GTTTTACTTTTCTTTATT
1 -TTTTATTTTTATTTATT
21128880 TTTCTATTTTTATT
1 TTT-TATTTTTATT
21128894 ATTCTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTATTTATT
Found at i:21128893 original size:14 final size:14
Alignment explanation
Indices: 21128846--21128903 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
21128836 TTTATCTTAA
21128846 TTTTA-TTTT-TAT
1 TTTTATTTTTCTAT
* * *
21128858 TTTTGTTTTACTTT
1 TTTTATTTTTCTAT
21128872 TCTTTATTTTTCTAT
1 T-TTTATTTTTCTAT
*
21128887 TTTTATTATTCTAT
1 TTTTATTTTTCTAT
21128901 TTT
1 TTT
21128904 CTTTAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
12 4 0.11
13 3 0.08
14 18 0.50
15 11 0.31
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTCTAT
Found at i:21128908 original size:17 final size:17
Alignment explanation
Indices: 21128869--21128908 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
21128859 TTTGTTTTAC
*
21128869 TTTTCTTTATTTTTCTA
1 TTTTCTTTATTATTCTA
21128886 --TT-TTTATTATTCTA
1 TTTTCTTTATTATTCTA
21128900 TTTTCTTTA
1 TTTTCTTTA
21128909 AATAAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 11 0.58
15 2 0.11
16 2 0.11
17 4 0.21
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCTTTATTATTCTA
Found at i:21129145 original size:57 final size:58
Alignment explanation
Indices: 21128930--21129145 Score: 335
Period size: 58 Copynumber: 3.7 Consensus size: 58
21128920 AAATTTCCAA
* *
21128930 AAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 AAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * *
21128988 CAAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTT
1 AAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
*
21129046 CAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTT
1 AAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
21129103 AAAAAAAATGTTTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCC
21129146 CTATACAAAA
Statistics
Matches: 145, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 43 0.30
58 102 0.70
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (58 bp):
AAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:21133963 original size:28 final size:29
Alignment explanation
Indices: 21133913--21133970 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
21133903 CCTTATCTTT
*
21133913 TAGATAAAAAATTCTTCTCATTAATACAA
1 TAGATAAAAAATTCTACTCATTAATACAA
*
21133942 TAGATAAAAAA-TCTACTGATTAATACAA
1 TAGATAAAAAATTCTACTCATTAATACAA
21133970 T
1 T
21133971 CTCATATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (29 bp):
TAGATAAAAAATTCTACTCATTAATACAA
Found at i:21138532 original size:2 final size:2
Alignment explanation
Indices: 21138525--21138553 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21138515 ACAGACAATG
21138525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21138554 TTTTACCGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21143867 original size:8 final size:7
Alignment explanation
Indices: 21143856--21143908 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
21143846 ATATTTATAA
21143856 AAAATAT
1 AAAATAT
21143863 CAAAATAT
1 -AAAATAT
21143871 AAATATAT
1 AAA-ATAT
*
21143879 AAAAGAT
1 AAAATAT
*
21143886 AAAATAA
1 AAAATAT
21143893 AAAATA-
1 AAAATAT
21143899 AAAAT-T
1 AAAATAT
21143905 AAAA
1 AAAA
21143909 AAAATAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 9 0.22
7 17 0.43
8 14 0.35
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (7 bp):
AAAATAT
Found at i:21143915 original size:28 final size:29
Alignment explanation
Indices: 21143864--21143918 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
21143854 AAAAAATATC
* * *
21143864 AAAATATAAATATATAAAAGATAAAATAA
1 AAAATAAAAATATAAAAAAAATAAAATAA
21143893 AAAATAAAAAT-TAAAAAAAATAAAAT
1 AAAATAAAAATATAAAAAAAATAAAAT
21143919 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (29 bp):
AAAATAAAAATATAAAAAAAATAAAATAA
Found at i:21143918 original size:15 final size:15
Alignment explanation
Indices: 21143864--21143919 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
21143854 AAAAAATATC
*
21143864 AAAATATAAATATATAA
1 AAAATA-AAAT-TAAAA
*
21143881 AAGATAAAA-TAAAA
1 AAAATAAAATTAAAA
*
21143895 AATA-AAAATTAAAA
1 AAAATAAAATTAAAA
21143909 AAAATAAAATT
1 AAAATAAAATT
21143920 TTAATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 4 0.12
14 15 0.45
15 6 0.18
16 3 0.09
17 5 0.15
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATAAAATTAAAA
Found at i:21144354 original size:3 final size:3
Alignment explanation
Indices: 21144346--21144373 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21144336 AAACGCTTTG
21144346 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21144374 CTCTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:21145037 original size:16 final size:17
Alignment explanation
Indices: 21145018--21145057 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
21145008 TTTTTTGTAT
21145018 TTTATGTATT-TTATTA
1 TTTATGTATTATTATTA
21145034 TTTAT-TATTATTATTA
1 TTTATGTATTATTATTA
21145050 -TTATGTAT
1 TTTATGTAT
21145058 ATCTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATGTATTATTATTA
Found at i:21145137 original size:70 final size:65
Alignment explanation
Indices: 21145015--21145155 Score: 167
Period size: 70 Copynumber: 2.1 Consensus size: 65
21145005 TTTTTTTTTG
* * * *
21145015 TATTTTATGTATTTTATTATTTATTATTATTATTATTATGTATATCTTTATTTTTTTTCTATTAA
1 TATTTTATGTAATTTATTATATATTATTATTATTATTATGTATATATTTATTTTTTTTCTAGTAA
*
21145080 TATTTATATGTAATTTATTTATATAGTTATATATTTATTATTATAT-TATAATTTATTTTTTTTC
1 TATTT-TATGTAATTTA-TTATATA-TTAT-TA-TTATTATTATGTATAT-ATTTATTTTTTTTC
*
21145144 TGGTAA
60 TAGTAA
21145150 TATTTT
1 TATTTT
21145156 TGGATTTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
65 5 0.08
66 10 0.16
67 6 0.09
68 4 0.06
69 6 0.09
70 33 0.52
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (65 bp):
TATTTTATGTAATTTATTATATATTATTATTATTATTATGTATATATTTATTTTTTTTCTAGTAA
Found at i:21145238 original size:18 final size:18
Alignment explanation
Indices: 21145195--21145239 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
21145185 TAATTTTATT
* *
21145195 TTATTCATTTATCTGATTT
1 TTATT-ATTTATCCGATTA
*
21145214 TTTTTATTTATCCGATTA
1 TTATTATTTATCCGATTA
21145232 TTATTATT
1 TTATTATT
21145240 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (18 bp):
TTATTATTTATCCGATTA
Found at i:21146088 original size:13 final size:12
Alignment explanation
Indices: 21146059--21146101 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 12
21146049 GCTCCAGGTT
21146059 TTTTTTTTTTTAAA
1 TTTTTTTTTTT--A
21146073 TTTTTTTTGTTTA
1 TTTTTTTT-TTTA
21146086 TTTGTTTTTTTTA
1 TTT-TTTTTTTTA
21146099 TTT
1 TTT
21146102 ATTAGATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 11 0.41
14 13 0.48
15 3 0.11
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:21146147 original size:17 final size:16
Alignment explanation
Indices: 21146113--21146152 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
21146103 TTAGATTAGG
*
21146113 TTTATTTAATATTCTT
1 TTTATTTAATATTATT
*
21146129 TTTATCTTAATTTTATT
1 TTTAT-TTAATATTATT
21146146 TTTATTT
1 TTTATTT
21146153 TTGTTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTAATATTATT
Found at i:21146159 original size:17 final size:17
Alignment explanation
Indices: 21146139--21146186 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
21146129 TTTATCTTAA
21146139 TTTTATTTTTATTT-TT
1 TTTTATTTTTATTTATT
* *
21146155 GTTTTACTTTTCTTTATT
1 -TTTTATTTTTATTTATT
21146173 TTTCTATTTTTATT
1 TTT-TATTTTTATT
21146187 ATTCTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTATTTATT
Done.