Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 49 of 143
Found at i:15571438 original size:30 final size:30
Alignment explanation
Indices: 15571402--15571600 Score: 299
Period size: 30 Copynumber: 6.6 Consensus size: 30
15571392 AGAAGTTTCG
15571402 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
* *
15571432 GGGGTCAAACTGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
* * *
15571462 TGGGTCAAAATGTAATTTTGGAAAATTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
* *
15571492 GGGGTTAAAATATAATTTTGGAAACGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
* *
15571522 GGGGTCAAAGTGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
*
15571552 TGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
*
15571582 GGGGTCGAAATATAATTTT
1 GGGGTCAAAATATAATTTT
15571601 TAGATAATTT
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 150 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (30 bp):
GGGGTCAAAATATAATTTTGGAAAAGTTTT
Found at i:15571505 original size:90 final size:90
Alignment explanation
Indices: 15571402--15571600 Score: 344
Period size: 90 Copynumber: 2.2 Consensus size: 90
15571392 AGAAGTTTCG
15571402 GGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAACTGTAATTTTGGAAAAGTTTTTGGGT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAACTGTAATTTTGGAAAAGTTTTTGGGT
* *
15571467 CAAAATGTAATTTTGGAAAATTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
* * *
15571492 GGGGTTAAAATATAATTTTGGAAACGTTTTGGGGTCAAAGTGTAATTTTGGAAAAGTTTTTGGGT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAACTGTAATTTTGGAAAAGTTTTTGGGT
15571557 CAAAATATAATTTTGGAAAAGTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
*
15571582 GGGGTCGAAATATAATTTT
1 GGGGTCAAAATATAATTTT
15571601 TAGATAATTT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 102 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (90 bp):
GGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAACTGTAATTTTGGAAAAGTTTTTGGGT
CAAAATATAATTTTGGAAAAGTTTT
Found at i:15571878 original size:152 final size:155
Alignment explanation
Indices: 15571693--15571999 Score: 356
Period size: 161 Copynumber: 2.0 Consensus size: 155
15571683 ACTAATTCGA
* * * * * *
15571693 AAACTTTGAAAAATTTTTGGACCAATTTTGTAATT-AACT-AA-GA-G-TTAATTTAAGGACTAA
1 AAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAAATAAACGATGATTAAATTAA-AAC-AA
* * * **
15571753 ATTAAAAATAGAAGGGACTAAATGCATAAATAAGCCAA-AAATTGACACGTGGCAACCTCTGGTG
64 ATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAATAAA-TGACACGTGGCAACCTCTGGCA
15571817 CAGTCAAACAATCAAAGGACTAGTTTAT
128 CAGTCAAACAATCAAAGGACTAGTTTAT
*
15571845 AAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGCTGATTTGGGATTAAATTAAA
1 AAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAAATAAA-C-GA--T--GATTAAATTAAA
* *
15571910 ACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAATACATGACACGTGGCAACCTCTG
60 ACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAATAAATGACACGTGGCAACCTCTG
*
15571975 GCACAGTCAAACAGTCAAAGGACTA
125 GCACAGTCAAACAATCAAAGGACTA
15572000 AATTATAATC
Statistics
Matches: 128, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
152 31 0.24
153 3 0.02
154 2 0.02
157 2 0.02
161 77 0.60
162 5 0.04
163 8 0.06
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.25
Consensus pattern (155 bp):
AAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAAATAAACGATGATTAAATTAAAACAAAT
TAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAATAAATGACACGTGGCAACCTCTGGCACAG
TCAAACAATCAAAGGACTAGTTTAT
Found at i:15572083 original size:161 final size:160
Alignment explanation
Indices: 15571751--15572083 Score: 352
Period size: 161 Copynumber: 2.1 Consensus size: 160
15571741 TTTAAGGACT
* * * *
15571751 AAATTAAAAATAGAAGGGACTAAATGCATAAATAAGCCAAAAATTGACACGTGGCAACCTCTGGT
1 AAATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAAAAATTGACACGTGGCAACCTCTGGC
* ** ** * * *
15571816 GCAGTCAAACAATCAAAGGACTAGTTTATAAACCTTGAAAAATTATTGGGCCAATTTCGTAATTA
66 ACAGTCAAACAATCAAAGGACTAAATTATAAACCTT-AAAAATTACAGGGCAAATTTCGCAAATA
* **** *
15571881 AAATAAAGCTGATTTGGGATTAAATTAAAAC
130 AAATAAAGATGAAGAAGGACTAAATTAAAAC
* *
15571912 AAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAATACA-TGACACGTGGCAACCTCTGG
1 AAATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAA-AAATTGACACGTGGCAACCTCTGG
* *
15571976 CACAGTCAAACAGTCAAAGGACTAAATTATAATCCAATT-AAAATTACAGGGCAAATTT-GCAAA
65 CACAGTCAAACAATCAAAGGACTAAATTATAAACC--TTAAAAATTACAGGGCAAATTTCGCAAA
* *
15572039 TAATTAA-AAAGATGCAAGAAGGACTAAATTGAAGC
128 TAA--AATAAAGATG-AAGAAGGACTAAATTAAAAC
15572074 AAA-TAAAAAT
1 AAATTAAAAAT
15572084 GCGGAAGGAT
Statistics
Matches: 142, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
160 6 0.04
161 114 0.80
162 20 0.14
163 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (160 bp):
AAATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAAAAATTGACACGTGGCAACCTCTGGC
ACAGTCAAACAATCAAAGGACTAAATTATAAACCTTAAAAATTACAGGGCAAATTTCGCAAATAA
AATAAAGATGAAGAAGGACTAAATTAAAAC
Found at i:15572695 original size:15 final size:15
Alignment explanation
Indices: 15572675--15572712 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15572665 TATAAAATAT
* *
15572675 TTATTATTATTACTG
1 TTATTATTATCACTA
15572690 TTATTATTATCACTA
1 TTATTATTATCACTA
15572705 TTATTATT
1 TTATTATT
15572713 GTTATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (15 bp):
TTATTATTATCACTA
Found at i:15572715 original size:24 final size:24
Alignment explanation
Indices: 15572679--15572734 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
15572669 AAATATTTAT
*
15572679 TATTATTACTGTTATT-ATTATCAC
1 TATTATTACTGTTATTAATAAT-AC
*
15572703 TATTATTATTGTTATTAATAATAC
1 TATTATTACTGTTATTAATAATAC
15572727 TATTATTA
1 TATTATTA
15572735 ATCATCCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTATTACTGTTATTAATAATAC
Found at i:15573437 original size:17 final size:17
Alignment explanation
Indices: 15573417--15573493 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
15573407 TTTTTTTATT
*
15573417 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
*
15573434 AATTTAAATTT---TTA
1 AATTTAAATTTAAAATA
*
15573448 CATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* * *
15573465 AATTTAAAGTTAACCATG
1 AATTTAAATTTAA-AATA
15573483 AATTTAAATTT
1 AATTTAAATTT
15573494 TGTTCAAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
14 12 0.25
17 24 0.50
18 12 0.25
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:15573493 original size:6 final size:6
Alignment explanation
Indices: 15573417--15573477 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
15573407 TTTTTTTATT
* * *
15573417 AATTTA AATTTA AA-GTA AATTTA AATTTTTA CATTTA AATTTA AA-ATA
1 AATTTA AATTTA AATTTA AATTTA AA--TTTA AATTTA AATTTA AATTTA
*
15573465 AATTTA AAGTTA A
1 AATTTA AATTTA A
15573478 CCATGAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
5 8 0.18
6 31 0.70
8 5 0.11
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:15602717 original size:16 final size:18
Alignment explanation
Indices: 15602696--15602728 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
15602686 CTAAAAATTT
15602696 TAAAATT-T-TGTTTATC
1 TAAAATTATGTGTTTATC
15602712 TAAAATTATGTGTTTAT
1 TAAAATTATGTGTTTAT
15602729 GTTCATCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (18 bp):
TAAAATTATGTGTTTATC
Found at i:15606397 original size:15 final size:16
Alignment explanation
Indices: 15606377--15606407 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15606367 GGTTTGATTC
15606377 TATAATTAATA-ACGA
1 TATAATTAATAGACGA
15606392 TATAATTAATAGACGA
1 TATAATTAATAGACGA
15606408 AAAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
TATAATTAATAGACGA
Found at i:15609721 original size:18 final size:18
Alignment explanation
Indices: 15609687--15609722 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15609677 TCACAAATCT
* *
15609687 TGAACATAAATAGTAAAA
1 TGAACATAAAGAATAAAA
15609705 TGAACATAAAGAATAAAA
1 TGAACATAAAGAATAAAA
15609723 AAAACTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (18 bp):
TGAACATAAAGAATAAAA
Found at i:15610395 original size:6 final size:6
Alignment explanation
Indices: 15610386--15610420 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
15610376 TGAAAAGATT
15610386 TGGAGA TGGAGA TGCGAGA TGGAGA TGGAGA TGGA
1 TGGAGA TGGAGA TG-GAGA TGGAGA TGGAGA TGGA
15610421 TTGGACAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.31, C:0.03, G:0.49, T:0.17
Consensus pattern (6 bp):
TGGAGA
Found at i:15610406 original size:13 final size:12
Alignment explanation
Indices: 15610386--15610420 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
15610376 TGAAAAGATT
15610386 TGGAGATGGAGA
1 TGGAGATGGAGA
15610398 TGCGAGATGGAGA
1 TG-GAGATGGAGA
15610411 TGGAGATGGA
1 TGGAGATGGA
15610421 TTGGACAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.31, C:0.03, G:0.49, T:0.17
Consensus pattern (12 bp):
TGGAGATGGAGA
Found at i:15610942 original size:22 final size:22
Alignment explanation
Indices: 15610915--15610960 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
15610905 CTAGAAAAAT
15610915 ATTTTCAACCTACATTAACTCA
1 ATTTTCAACCTACATTAACTCA
15610937 ATTTTCAACCTACATTAACTCA
1 ATTTTCAACCTACATTAACTCA
15610959 AT
1 AT
15610961 CAAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTCAACCTACATTAACTCA
Found at i:15611292 original size:9 final size:9
Alignment explanation
Indices: 15611278--15611315 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
15611268 TTCCATAGCC
15611278 TCACCATCA
1 TCACCATCA
15611287 TCACCATCA
1 TCACCATCA
*
15611296 TCATCATCA
1 TCACCATCA
*
15611305 TCATCATCA
1 TCACCATCA
15611314 TC
1 TC
15611316 TGAGTCTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (9 bp):
TCACCATCA
Found at i:15611297 original size:3 final size:3
Alignment explanation
Indices: 15611282--15611315 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15611272 ATAGCCTCAC
*
15611282 CAT CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
15611316 TGAGTCTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.29
Consensus pattern (3 bp):
CAT
Found at i:15615993 original size:2 final size:2
Alignment explanation
Indices: 15615986--15616028 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15615976 CTCGCCGGTA
15615986 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15616028 T
1 T
15616029 GCTATTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15621362 original size:43 final size:43
Alignment explanation
Indices: 15621315--15621401 Score: 97
Period size: 43 Copynumber: 2.0 Consensus size: 43
15621305 TTTAACTATT
* *
15621315 TTATATAATTGTTATTA-ATTTATAAT-TTTTTATATTTTTAATA
1 TTATA-AATT-TTATAATATTTATAATATTTTTATAGTTTTAATA
* * *
15621358 TTATAAGTTTTATAATATTTTTTATATTTTTATAGTTTTAATA
1 TTATAAATTTTATAATATTTATAATATTTTTATAGTTTTAATA
15621401 T
1 T
15621402 GTTTATATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.14
42 10 0.27
43 22 0.59
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (43 bp):
TTATAAATTTTATAATATTTATAATATTTTTATAGTTTTAATA
Found at i:15621384 original size:26 final size:24
Alignment explanation
Indices: 15621329--15621432 Score: 75
Period size: 26 Copynumber: 4.1 Consensus size: 24
15621319 ATAATTGTTA
*
15621329 TTAAT-TTATAATTTTTTATATTT
1 TTAATATTATAATTTTTAATATTT
15621352 TTAATATTATAAGTTTTATAATATTT
1 TTAATATTATAA-TTTT-TAATATTT
* * * *
15621378 TTTATATTTTTATAGTTTTAATATGT
1 TTAATA-TTATA-ATTTTTAATATTT
* *
15621404 TTATATCAATTTTAATATTTAATATTT
1 TTA-AT--ATTATAATTTTTAATATTT
15621431 TT
1 TT
15621433 TATGATTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
23 5 0.08
24 6 0.09
25 4 0.06
26 21 0.33
27 21 0.33
28 6 0.09
29 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (24 bp):
TTAATATTATAATTTTTAATATTT
Found at i:15621401 original size:17 final size:19
Alignment explanation
Indices: 15621376--15621428 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
15621366 TTTATAATAT
* *
15621376 TTTTTATATTTT-TAT-AG
1 TTTTAATATTTTATATCAA
15621393 TTTTAATATGTTTATATCAA
1 TTTTAATAT-TTTATATCAA
*
15621413 TTTTAATATTTAATAT
1 TTTTAATATTTTATAT
15621429 TTTTTATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 9 0.30
20 10 0.33
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTAATATTTTATATCAA
Found at i:15621983 original size:22 final size:22
Alignment explanation
Indices: 15621958--15622004 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
15621948 GGGACAAAAA
* * *
15621958 GAAAAAGCTCATGTATCAAATT
1 GAAAAAGATCAAGTACCAAATT
15621980 GAAAAAGATCAAGTACCAAATT
1 GAAAAAGATCAAGTACCAAATT
15622002 GAA
1 GAA
15622005 TATTGAAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (22 bp):
GAAAAAGATCAAGTACCAAATT
Found at i:15629201 original size:22 final size:22
Alignment explanation
Indices: 15629168--15629209 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
15629158 TTATACAATT
15629168 TATAATGCATAAGA-ATTAAATC
1 TATAATGCATAA-ACATTAAATC
15629190 TATAAT-CTATAAACATTAAA
1 TATAATGC-ATAAACATTAAA
15629210 AAATATTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (22 bp):
TATAATGCATAAACATTAAATC
Found at i:15636045 original size:3 final size:3
Alignment explanation
Indices: 15636037--15636074 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
15636027 ATCGAGGAAA
15636037 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
15636075 AGCGACCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15651246 original size:29 final size:28
Alignment explanation
Indices: 15651210--15651274 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 28
15651200 GTACTTTTTA
15651210 AAAATTTAATTTTTATACTTTTGT-TTTC
1 AAAATTTAATTTTT-TACTTTTGTATTTC
* *
15651238 AGAAATTT-ATTTTTTATTTTTTTATTTC
1 A-AAATTTAATTTTTTACTTTTGTATTTC
15651266 AAAATTTAA
1 AAAATTTAA
15651275 GTTTAATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 13 0.41
28 13 0.41
29 6 0.19
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (28 bp):
AAAATTTAATTTTTTACTTTTGTATTTC
Found at i:15656819 original size:29 final size:29
Alignment explanation
Indices: 15656760--15656819 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
15656750 TATGGTTTAA
* *
15656760 TGTGCAATTGTATACATGAACTTTGATTT
1 TGTGCAATTGTATACATGAAATTTGAATT
*
15656789 TGTGCAATTGTATACATGAAATTTTAATT
1 TGTGCAATTGTATACATGAAATTTGAATT
15656818 TG
1 TG
15656820 ATTCAATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (29 bp):
TGTGCAATTGTATACATGAAATTTGAATT
Found at i:15656904 original size:29 final size:29
Alignment explanation
Indices: 15656872--15656930 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
15656862 TCATTTTATG
* * *
15656872 TTTATGTATTATAATAATAAA-TAACTATA
1 TTTATCTAATATAAAAATAAATTAA-TATA
15656901 TTTATCTAATATAAAAATAAATTAATATA
1 TTTATCTAATATAAAAATAAATTAATATA
15656930 T
1 T
15656931 ATATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (29 bp):
TTTATCTAATATAAAAATAAATTAATATA
Found at i:15657682 original size:3 final size:3
Alignment explanation
Indices: 15657674--15657724 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
15657664 AAGTTCAAGT
* * * * *
15657674 GAA GAA GAA AAA GAA GAA AAA CAA AAA GAA GAA GAA GAA GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
15657722 GAA
1 GAA
15657725 TAATAAAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15658207 original size:102 final size:101
Alignment explanation
Indices: 15658099--15659707 Score: 1571
Period size: 99 Copynumber: 16.4 Consensus size: 101
15658089 GATGAAATTG
*
15658099 AAAAGAAGG-AGAGCAATGAAAATGAGGGTGCTATTGAGGCTATTGCTGTTGCTGTTGTTGATGG
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-TG-TGTTGCTGTTGTTGATGG
15658163 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
*
15658201 AAAAGAA-GAAGTGCAATGAAAATGA-G--G--A-T---GCTA----TTGCTGTTGTTGATGGTG
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGGTG
15658252 CAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGA
66 CAATTGATGTAGGGAGTGATGAAATTG---A-AAG-----GAAGA
* *
15658297 AAAAGAAGAGGAAGAGCAATGAAAATGAGGAGGCTATAGAGGCTA----TTGCTGTTGTTGATGG
1 AAAAG-A-AGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGG
15658358 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
* *
15658396 AAAAGGAGG-AGAGCAATGAAAATGAGGATGCTATTGAAGCTATTGCTGTTGCTGTTGTTGATGG
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-TG-TGTTGCTGTTGTTGATGG
15658460 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
* *
15658498 AAAAGAAGGAGAAGAGCAACGAAAATGAGGATGCTATTGAAGCTATTGCTGTTGCTGTTGTTGAT
1 AAAAGAA-G-GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-TG-TGTTGCTGTTGTTGAT
*
15658563 GGTGCAATTGATGTAGGGA-T--T--AA-TG--A--AA-T
62 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
*
15658592 TAAA-AAGG-AGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGCTGTTGTTGATGG
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-TG-TGTTGCTGTTGTTGATGG
15658655 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
*
15658693 AAAAGAA-GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGCTGTTGCTGATGG
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-TG-TGTTGCTGTTGTTGATGG
*
15658757 TGCAATTGAAGTAGGGAGTGATGAAATTGAAAAGAAGAAAAGAAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTG---A-AAG----GAAGA
* *
15658803 AAAAGAAGAGGAAGAGCAATGAAAATGAGGAGGCTATAGAGGCTA----TTGCTGTTGTTGATGG
1 AAAAG-A-AGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGG
15658864 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
* *
15658902 AAAAAAAGGAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA----TTGCTGTTGCTGATGG
1 AAAAGAA-G-GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGG
*
15658963 TGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
*
15659001 AAAAGAAGAAGAAGAGCAATGAAAATGAGGAGGCTATTGAGGCTA----TTGCTGTTGTTGATGG
1 AAAAGAAG--GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGG
15659062 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGAA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAG-A
* *
15659101 AAAAAAGAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA-GT-TT--TGTTGATGATGGT
1 AAAAGA-AGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGGT
* *
15659162 GCAATTGATGTAGGAAGTCATGAAATT--------G-
65 GCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
* * * * * **
15659190 AAAAGAA-GAAGAGCAACGAAAATGAAGAGGCTATT---GCTGT-TGTTGATGGCGCAATTGAT-
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTG---TTGATG
** * * * * *
15659249 GTAGGGAGTGATG-A---AATTA-AAAAGATGAAA--AAGA
63 GT-GCAATTGATGTAGGGAGTGATGAAA-TTGAAAGGAAGA
* *
15659283 AGAAGAA-GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA----TTGCTGTTGTTGATGGCG
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGGTG
15659343 CAATTGATGTAGGGAGTGATG---TTGAAAGGAAGA
66 CAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
*
15659376 AAAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA----TTGCTGTTGTTAATGG
1 AAAAGAAG--GAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGG
*
15659437 TG---TTGATGTAGGGAGTGATGAAATTGAAAAGAAGAA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAG-A
* * * *
15659473 AAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGG---T-TATTGCTGTTGTTG
1 AA-AAGAAG--GAAG-AG--CAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTG
*
15659534 ACGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
60 ATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
*
15659576 AAAAGAAGAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTA----ATGCTGTTGTTGATGG
1 AAAAG-A-AGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGG
*
15659637 TGCAATTGATTTAGGGAGTGATGAAATTG-AA--AAGA
64 TGCAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
* * * *
15659672 AGAAGAA-GAAGAACAAAGAGAATGAGGATGCTATTG
1 AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTG
15659708 CTGTTGTTGA
Statistics
Matches: 1310, Mismatches: 86, Indels: 231
0.81 0.05 0.14
Matches are distributed among these distances:
84 4 0.00
85 5 0.00
86 4 0.00
87 73 0.06
88 1 0.00
89 8 0.01
90 94 0.07
91 13 0.01
92 2 0.00
93 98 0.07
94 7 0.01
95 5 0.00
96 115 0.09
97 10 0.01
98 19 0.01
99 354 0.27
100 11 0.01
101 51 0.04
102 175 0.13
103 8 0.01
104 40 0.03
105 73 0.06
106 3 0.00
107 43 0.03
108 49 0.04
110 10 0.01
111 1 0.00
112 1 0.00
113 33 0.03
ACGTcount: A:0.38, C:0.06, G:0.32, T:0.24
Consensus pattern (101 bp):
AAAAGAAGGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATGTGTTGCTGTTGTTGATGGTG
CAATTGATGTAGGGAGTGATGAAATTGAAAGGAAGA
Found at i:15658293 original size:9 final size:9
Alignment explanation
Indices: 15658279--15658305 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
15658269 GATGAAATTG
15658279 AAAAGAAGA
1 AAAAGAAGA
15658288 AAAAGAAGA
1 AAAAGAAGA
15658297 AAAAGAAGA
1 AAAAGAAGA
15658306 GGAAGAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:15658618 original size:90 final size:90
Alignment explanation
Indices: 15658510--15658682 Score: 310
Period size: 90 Copynumber: 1.9 Consensus size: 90
15658500 AAGAAGGAGA
15658510 AGAGCAACGAAAATGAGGATGCTATTGAAGCTATTGCTGTTGCTGTTGTTGATGGTGCAATTGAT
1 AGAGCAACGAAAATGAGGATGCTATTGAAGCTATTGCTGTTGCTGTTGTTGATGGTGCAATTGAT
*
15658575 GTAGGGATTAATGAAATTAAAAAGG
66 GTAGGGAGTAATGAAATTAAAAAGG
* *
15658600 AGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGCTGTTGTTGATGGTGCAATTGAT
1 AGAGCAACGAAAATGAGGATGCTATTGAAGCTATTGCTGTTGCTGTTGTTGATGGTGCAATTGAT
*
15658665 GTAGGGAGTGATGAAATT
66 GTAGGGAGTAATGAAATT
15658683 GAAAGGAAGA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (90 bp):
AGAGCAACGAAAATGAGGATGCTATTGAAGCTATTGCTGTTGCTGTTGTTGATGGTGCAATTGAT
GTAGGGAGTAATGAAATTAAAAAGG
Found at i:15659789 original size:87 final size:83
Alignment explanation
Indices: 15659617--15659789 Score: 179
Period size: 84 Copynumber: 2.0 Consensus size: 83
15659607 TGCTATTGAG
* ** ** *
15659617 GCTAATGCTGTTGTTGATGGTGCAATTGATTTAGGGAGTGATGAAATTGAAAAGAAGAAGAAGAA
1 GCTAATGCTGTTGTTGACGGTGCAATTGATGCAGGGAGTGATGAAACCGAAAAGAAGAAAAAGAA
* *
15659682 GAACAAAGAGAATGAGGAT
66 GAACAAAAAGAA-GAAGAT
*
15659701 GCTATTGCTGTTGTTGACGGTGCAATTGATGCAGGG-GCTGAGGATGAAACCGAAAAGAAGAAAA
1 GCTAATGCTGTTGTTGACGGTGCAATTGATGCAGGGAG-T---GATGAAACCGAAAAGAAGAAAA
*
15659765 AGAAGAAAAGAAAAAGAA-AAGAT
62 AGAAG--AACAAAAAGAAGAAGAT
15659788 GC
1 GC
15659790 AGCAGAGGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
83 1 0.01
84 33 0.45
87 30 0.41
89 9 0.12
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.20
Consensus pattern (83 bp):
GCTAATGCTGTTGTTGACGGTGCAATTGATGCAGGGAGTGATGAAACCGAAAAGAAGAAAAAGAA
GAACAAAAAGAAGAAGAT
Found at i:15670247 original size:22 final size:21
Alignment explanation
Indices: 15670222--15670269 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
15670212 TGTCAATATT
15670222 TTGTTA-TCATTTTATTATTATA
1 TTGTTACT-ATTTTATT-TTATA
*
15670244 TTGTTACTATTTTATTTTTTA
1 TTGTTACTATTTTATTTTATA
15670265 TTGTT
1 TTGTT
15670270 TGGATATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 14 0.58
23 1 0.04
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (21 bp):
TTGTTACTATTTTATTTTATA
Found at i:15682381 original size:15 final size:16
Alignment explanation
Indices: 15682356--15682385 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15682346 TTTATTTTCT
15682356 TATATAAAAATAATAA
1 TATATAAAAATAATAA
15682372 TATA-AAAAATAATA
1 TATATAAAAATAATA
15682386 CAGGTGGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TATATAAAAATAATAA
Found at i:15685682 original size:2 final size:2
Alignment explanation
Indices: 15685675--15685721 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
15685665 TGAATTATTT
15685675 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15685717 TC TC T
1 TC TC T
15685722 TTCCCATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15696884 original size:80 final size:80
Alignment explanation
Indices: 15696741--15696893 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 80
15696731 AGATCTATTT
* * * *
15696741 TACTAGAGTCATGTCTTTATTGTCAGTTCAATTAATCATATCTATGTCTTTATATTCTAGGAGTC
1 TACTAGAGTCATGTCTATATTGTCAATTCAAGTAATCACATCTATGTCTTTATATTCTAGGAGTC
15696806 ATCCGCTCCAATGTC
66 ATCCGCTCCAATGTC
* * * * *
15696821 TACTTGAGTTATGTCTATATTGTCAATTCAAGTAGTGACATCTATGTCTTTATCTTCTAGGAGTC
1 TACTAGAGTCATGTCTATATTGTCAATTCAAGTAATCACATCTATGTCTTTATATTCTAGGAGTC
15696886 ATCCGCTC
66 ATCCGCTC
15696894 AGGTGCTCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (80 bp):
TACTAGAGTCATGTCTATATTGTCAATTCAAGTAATCACATCTATGTCTTTATATTCTAGGAGTC
ATCCGCTCCAATGTC
Found at i:15703612 original size:22 final size:23
Alignment explanation
Indices: 15703586--15703638 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
15703576 TTTAAATTCT
*
15703586 AAAATATAT-ATTAAT-TATTATA
1 AAAATATATCAATAATAT-TTATA
*
15703608 AAAAT-TATCAATAATATTTTTA
1 AAAATATATCAATAATATTTATA
15703630 AAAATATAT
1 AAAATATAT
15703639 GTAAACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.12
22 19 0.73
23 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATATATCAATAATATTTATA
Found at i:15706479 original size:30 final size:30
Alignment explanation
Indices: 15706437--15706739 Score: 323
Period size: 30 Copynumber: 10.2 Consensus size: 30
15706427 TAAAAATGGC
* * * *
15706437 AATTTTTG-AAAGTTTCGAGGTCAAAGTAT
1 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
* *
15706466 AATTTTGGAAAAGTTTTGGAGTCAAAATGT
1 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
* * *
15706496 AATTTTAGAAAAGTTTTAGGGTCAAAATGT
1 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
* *
15706526 AATTTTGGAAAAGCTTTGGGGTCAAAATGT
1 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
* *
15706556 AATTTT-TAGAAAGTTTCGGGGTCAAAATAT
1 AATTTTGGA-AAAGTTTTGGGGTCAAAATAT
*
15706586 AATTTTGGAAAAGTTTTGGGGTCAAAATGT
1 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
* **
15706616 AATTTT-TAGAAAGTTTCAGGGTCAAAATAT
1 AATTTTGGA-AAAGTTTTGGGGTCAAAATAT
*
15706646 AATTTTGGAAAAGTTTTGTGGTCAAAATAT
1 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
15706676 AATTTT-GAGAAAGTTTTGGGGTCAAAATGA-
1 AATTTTGGA-AAAGTTTTGGGGTCAAAAT-AT
* * *
15706706 AATTTTCAGAAAA-TTTT-GGGTGAAAATGT
1 AATTTT-GGAAAAGTTTTGGGGTCAAAATAT
15706735 AATTT
1 AATTT
15706740 CTGAACAACT
Statistics
Matches: 234, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
29 25 0.11
30 201 0.86
31 6 0.03
32 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (30 bp):
AATTTTGGAAAAGTTTTGGGGTCAAAATAT
Found at i:15706493 original size:60 final size:61
Alignment explanation
Indices: 15706416--15706739 Score: 416
Period size: 60 Copynumber: 5.4 Consensus size: 61
15706406 GGATTTAGGG
* * * *
15706416 AAGTTTGGGGGTAAAAATGGCAATTTTT-GAAAGTTTCGA-GGTCAAAGTATAATTTTGGAA
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTAGAAAGTTTCGAGGGTCAAAATATAATTTTGGAA
* * *
15706476 AAGTTTTGGAGTCAAAATGTAA-TTTTAGAAAAGTTT-TAGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAG-AAAGTTTCGAGGGTCAAAATATAATTTTGGAA
*
15706536 AAGCTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTCG-GGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTCGAGGGTCAAAATATAATTTTGGAA
15706596 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTC-AGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTCGAGGGTCAAAATATAATTTTGGAA
* * * * *
15706656 AAGTTTTGTGGTCAAAATATAATTTTGAGAAAGTTTTG-GGGTCAAAATGA-AATTTTCAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTCGAGGGTCAAAAT-ATAATTTT-GGAA
*
15706717 AA-TTTT-GGGTGAAAATGTAATTT
1 AAGTTTTGGGGTCAAAATGTAATTT
15706740 CTGAACAACT
Statistics
Matches: 235, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
58 4 0.02
59 19 0.08
60 200 0.85
61 12 0.05
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (61 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTCGAGGGTCAAAATATAATTTTGGAA
Found at i:15708338 original size:6 final size:6
Alignment explanation
Indices: 15708327--15708392 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
15708317 TATAATAATG
* *
15708327 TTAAAT TTAAA- TTAAAT TTAAAT TTAAA- TTAAAT TCAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
15708372 TTAAAA TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
15708393 TTTCAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 17 0.35
6 32 0.65
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:15708343 original size:11 final size:11
Alignment explanation
Indices: 15708327--15708392 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
15708317 TATAATAATG
15708327 TTAAATTTAAA
1 TTAAATTTAAA
15708338 TTAAATTTAAA
1 TTAAATTTAAA
15708349 TTTAAA-TTAAA
1 -TTAAATTTAAA
*
15708360 TTCAAA-ATAAA
1 TT-AAATTTAAA
*
15708371 TTTAAAATTAAA
1 -TTAAATTTAAA
*
15708383 ATAAATTTAA
1 TTAAATTTAA
15708393 TTTCAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
10 2 0.04
11 34 0.72
12 11 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:15708347 original size:17 final size:17
Alignment explanation
Indices: 15708327--15708361 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15708317 TATAATAATG
15708327 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
15708344 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
15708361 T
1 T
15708362 CAAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:15708375 original size:17 final size:17
Alignment explanation
Indices: 15708351--15708402 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
15708341 AATTTAAATT
15708351 TAAA-TTAAATTCAAAA
1 TAAATTTAAATTCAAAA
15708367 TAAATTTAAAATT-AAAA
1 TAAATTT-AAATTCAAAA
*
15708384 TAAATTTAATTTCAAAA
1 TAAATTTAAATTCAAAA
15708401 TA
1 TA
15708403 GTTTGGGCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.25
17 19 0.59
18 5 0.16
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTCAAAA
Found at i:15719025 original size:29 final size:30
Alignment explanation
Indices: 15718953--15719173 Score: 101
Period size: 30 Copynumber: 7.5 Consensus size: 30
15718943 GTCCGAGGGC
**
15718953 AAAATGGTAATTTTGGGAAAAT-GTAGGGTTA
1 AAAATGGTAATTTTTAGAAAATCG-AGGG-TA
* *
15718984 AAAAT-G-AAATTTTAGACAATCGAGGGT-
1 AAAATGGTAATTTTTAGAAAATCGAGGGTA
*
15719011 AAAATGGTAATTTTTAGAAAAATC-AGGATCA
1 AAAATGGTAATTTTTAG-AAAATCGAGGGT-A
* * *
15719042 AAAATGG-GATTTTTAG-ACATCTGAGGGTG
1 AAAATGGTAATTTTTAGAAAATC-GAGGGTA
* *
15719071 AAAAT-GTAATTTTT-GAAAGTTTCG-GGGTC
1 AAAATGGTAATTTTTAGAAA--ATCGAGGGTA
* ** *
15719100 AAAATGG-AATTTTTGGAAGTTTCGAGGGCA
1 AAAATGGTAATTTTTAGAA-AATCGAGGGTA
* **
15719130 AAAAT-GTAATTTTTGGAATTTTCG-GGGTCA
1 AAAATGGTAATTTTTAGAA-AATCGAGGGT-A
15719160 AAAAT-GTAATTTTT
1 AAAATGGTAATTTTT
15719174 GGAGAAGTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 37
0.73 0.10 0.18
Matches are distributed among these distances:
27 5 0.03
28 8 0.05
29 62 0.41
30 63 0.41
31 14 0.09
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTTAGAAAATCGAGGGTA
Found at i:15719055 original size:117 final size:117
Alignment explanation
Indices: 15718832--15719044 Score: 315
Period size: 117 Copynumber: 1.8 Consensus size: 117
15718822 GGACTCTTGG
* * * * *
15718832 GGGCAAAATGGCAATTTTGGAAAATTTTGGGGTTAAAAATGATATTTTAGACACTTAAGGGTAAA
1 GGGCAAAATGGCAATTTTGGAAAATTGTAGGGTTAAAAATGAAATTTTAGACAATCAAGGGTAAA
15718897 ATGGTAATTTTTGAAAGAATCGAGATCAAAATGAGACTTTTTGGATGTCCGA
66 ATGGTAATTTTTGAAAGAATCGAGATCAAAATGAGACTTTTTGGATGTCCGA
* *
15718949 GGGCAAAATGGTAATTTTGGGAAAA-TGTAGGGTTAAAAATGAAATTTTAGACAATCGAGGGTAA
1 GGGCAAAATGGCAATTTT-GGAAAATTGTAGGGTTAAAAATGAAATTTTAGACAATCAAGGGTAA
15719013 AATGGTAATTTTTAGAAA-AATC-AGGATCAAAA
65 AATGGTAATTTTT-GAAAGAATCGA-GATCAAAA
15719045 ATGGGATTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
116 1 0.01
117 75 0.87
118 10 0.12
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.30
Consensus pattern (117 bp):
GGGCAAAATGGCAATTTTGGAAAATTGTAGGGTTAAAAATGAAATTTTAGACAATCAAGGGTAAA
ATGGTAATTTTTGAAAGAATCGAGATCAAAATGAGACTTTTTGGATGTCCGA
Found at i:15719068 original size:59 final size:58
Alignment explanation
Indices: 15718876--15719088 Score: 186
Period size: 59 Copynumber: 3.6 Consensus size: 58
15718866 AAAAATGATA
* *
15718876 TTTTAGACA-CTTAAGGGTAAAATGGTAATTTTTGAAAGAATC-GAGATC-AAAATGAGACT
1 TTTTAGACATC-TGAGGGTAAAATGGTAATTTTTGAAA-AATCAG-GATCAAAAATGGGA-T
* ** * * * * * * * * *
15718935 TTTTGGATGTCCGAGGGCAAAATGGTAATTTTGGGAAAATGTAGGGTTAAAAAT-GAAA
1 TTTTAGACATCTGAGGGTAAAATGGTAATTTTTGAAAAAT-CAGGATCAAAAATGGGAT
15718993 TTTTAGACAATC-GAGGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGGGAT
1 TTTTAGAC-ATCTGAGGGTAAAATGGTAATTTTT-GAAAAATCAGGATCAAAAATGGGAT
15719052 TTTTAGACATCTGAGGGTGAAAAT-GTAATTTTTGAAA
1 TTTTAGACATCTGAGGGT-AAAATGGTAATTTTTGAAA
15719089 GTTTCGGGGT
Statistics
Matches: 120, Mismatches: 25, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
58 45 0.38
59 63 0.52
60 12 0.10
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (58 bp):
TTTTAGACATCTGAGGGTAAAATGGTAATTTTTGAAAAATCAGGATCAAAAATGGGAT
Found at i:15719068 original size:117 final size:117
Alignment explanation
Indices: 15718832--15719088 Score: 308
Period size: 117 Copynumber: 2.2 Consensus size: 117
15718822 GGACTCTTGG
* * * * * *
15718832 GGGCAAAATGGCAATTTTGGAAAATTTTGGGGTTAAAAATGATATTTTAGACACTTAAGGGTAAA
1 GGGCAAAATGGTAATTTTGGAAAATTGTAGGGTTAAAAATGAAATTTTAGACAATCAAGGGTAAA
* **
15718897 ATGGTAATTTTTGAAAGAATCGAGATCAAAATGAGACTTTTTGGATGTCCGA
66 ATGGTAATTTTTGAAAGAATCGAGATCAAAATGAGACTTTTTAGACATCCGA
*
15718949 GGGCAAAATGGTAATTTTGGGAAAA-TGTAGGGTTAAAAATGAAATTTTAGACAATCGAGGGTAA
1 GGGCAAAATGGTAATTTT-GGAAAATTGTAGGGTTAAAAATGAAATTTTAGACAATCAAGGGTAA
* *
15719013 AATGGTAATTTTTAGAAA-AATC-AGGATCAAAAATGGGA-TTTTTAGACATCTGA
65 AATGGTAATTTTT-GAAAGAATCGA-GATC-AAAATGAGACTTTTTAGACATCCGA
* *
15719066 GGGTGAAAAT-GTAATTTTTGAAA
1 GGG-CAAAATGGTAATTTTGGAAA
15719089 GTTTCGGGGT
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
116 5 0.04
117 93 0.77
118 23 0.19
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (117 bp):
GGGCAAAATGGTAATTTTGGAAAATTGTAGGGTTAAAAATGAAATTTTAGACAATCAAGGGTAAA
ATGGTAATTTTTGAAAGAATCGAGATCAAAATGAGACTTTTTAGACATCCGA
Found at i:15719102 original size:59 final size:57
Alignment explanation
Indices: 15718978--15719173 Score: 175
Period size: 59 Copynumber: 3.4 Consensus size: 57
15718968 GGAAAATGTA
* * ** *
15718978 GGGTTAAAAAT-GAAATTTTAGACAATC-GAGGGTAAAATGGTAATTTTTAGAAAAATCA
1 GGGTCAAAAATGGAATTTTTAGAC-ATCTGAGGGTAAAAT-GTAATTTTT-GAAATTTCG
* *
15719036 GGATCAAAAATGGGATTTTTAGACATCTGAGGGTGAAAATGTAATTTTTGAAAGTTTCG
1 GGGTCAAAAATGGAATTTTTAGACATCTGAGGGT-AAAATGTAATTTTTGAAA-TTTCG
* * * *
15719095 GGGTC-AAAATGGAATTTTTGGA-AGTTTCGAGGGCAAAAATGTAATTTTTGGAATTTTCG
1 GGGTCAAAAATGGAATTTTTAGACA-TCT-GAGGG-TAAAATGTAATTTTT-GAAATTTCG
*
15719154 GGGTCAAAAATGTAATTTTT
1 GGGTCAAAAATGGAATTTTT
15719174 GGAGAAGTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
57 1 0.01
58 33 0.29
59 60 0.52
60 21 0.18
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (57 bp):
GGGTCAAAAATGGAATTTTTAGACATCTGAGGGTAAAATGTAATTTTTGAAATTTCG
Found at i:15719141 original size:30 final size:30
Alignment explanation
Indices: 15719071--15719176 Score: 162
Period size: 30 Copynumber: 3.6 Consensus size: 30
15719061 TCTGAGGGTG
*
15719071 AAAATGTAATTTTTGAAAGTTTCGGGGTC-
1 AAAATGTAATTTTTGGAAGTTTCGGGGTCA
*
15719100 AAAATGGAATTTTTGGAAGTTTCGAGGG-CA
1 AAAATGTAATTTTTGGAAGTTTCG-GGGTCA
*
15719130 AAAATGTAATTTTTGGAATTTTCGGGGTCA
1 AAAATGTAATTTTTGGAAGTTTCGGGGTCA
15719160 AAAATGTAATTTTTGGA
1 AAAATGTAATTTTTGGA
15719177 GAAGTTTAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
29 26 0.37
30 44 0.63
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTCGGGGTCA
Found at i:15720276 original size:3 final size:3
Alignment explanation
Indices: 15720268--15720308 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15720258 TATATCCCAA
15720268 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15720309 ATAGAATAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15721473 original size:27 final size:27
Alignment explanation
Indices: 15721355--15721483 Score: 109
Period size: 27 Copynumber: 4.8 Consensus size: 27
15721345 AAAGCCAACG
15721355 GTCAACGGTCAACGGTCAACGGTCAAA
1 GTCAACGGTCAACGGTCAACGGTCAAA
* ** **
15721382 GTTAACGGTCATTGGTCAACGGTCAGTG
1 GTCAACGGTCAACGGTCAACGGTCA-AA
* * * *
15721410 GTCAACAGTCAA-AGTCAACGATCAACG
1 GTCAACGGTCAACGGTCAACGGTCAA-A
* *
15721437 GTCAA-AGTCAACGGTCAATGGTCAAA
1 GTCAACGGTCAACGGTCAACGGTCAAA
**
15721463 GTCAACGGTCAGTGGTCAACG
1 GTCAACGGTCAACGGTCAACG
15721484 CCGGTCAACG
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
26 11 0.14
27 59 0.75
28 9 0.11
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
GTCAACGGTCAACGGTCAACGGTCAAA
Found at i:15721481 original size:20 final size:20
Alignment explanation
Indices: 15721350--15721473 Score: 140
Period size: 20 Copynumber: 6.1 Consensus size: 20
15721340 CGAAAAAAGC
*
15721350 CAACGGTCAACGGTCAACGGT
1 CAACGGTCAA-AGTCAACGGT
*
15721371 CAACGGTCAAAGTTAACGGT
1 CAACGGTCAAAGTCAACGGT
** * **
15721391 CATTGGTCAACGGTCAGTGGT
1 CAACGGTCAA-AGTCAACGGT
* *
15721412 CAACAGTCAAAGTCAACGAT
1 CAACGGTCAAAGTCAACGGT
15721432 CAACGGTCAAAGTCAACGGT
1 CAACGGTCAAAGTCAACGGT
*
15721452 CAATGGTCAAAGTCAACGGT
1 CAACGGTCAAAGTCAACGGT
15721472 CA
1 CA
15721474 GTGGTCAACG
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
20 61 0.73
21 23 0.27
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (20 bp):
CAACGGTCAAAGTCAACGGT
Found at i:15721495 original size:7 final size:7
Alignment explanation
Indices: 15721350--15721483 Score: 114
Period size: 7 Copynumber: 19.7 Consensus size: 7
15721340 CGAAAAAAGC
15721350 CAACGGT
1 CAACGGT
15721357 CAACGGT
1 CAACGGT
15721364 CAACGGT
1 CAACGGT
15721371 CAACGGT
1 CAACGGT
*
15721378 CAA-AGT
1 CAACGGT
*
15721384 TAACGGT
1 CAACGGT
**
15721391 CATTGGT
1 CAACGGT
15721398 CAACGGT
1 CAACGGT
**
15721405 CAGTGGT
1 CAACGGT
*
15721412 CAACAGT
1 CAACGGT
*
15721419 CAA-AGT
1 CAACGGT
*
15721425 CAACGAT
1 CAACGGT
15721432 CAACGGT
1 CAACGGT
*
15721439 CAA-AGT
1 CAACGGT
15721445 CAACGGT
1 CAACGGT
*
15721452 CAATGGT
1 CAACGGT
*
15721459 CAA-AGT
1 CAACGGT
15721465 CAACGGT
1 CAACGGT
**
15721472 CAGTGGT
1 CAACGGT
15721479 CAACG
1 CAACG
15721484 CCGGTCAACG
Statistics
Matches: 98, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
6 20 0.20
7 78 0.80
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (7 bp):
CAACGGT
Found at i:15721546 original size:15 final size:15
Alignment explanation
Indices: 15721517--15721573 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
15721507 TGGGTTGGAC
*
15721517 TTGGTTC-AATTGGT
1 TTGGTTCAAATGGGT
15721531 TTGGTTCAAATGGGT
1 TTGGTTCAAATGGGT
*
15721546 TTGGTTTTAAATGGGT
1 TTGG-TTCAAATGGGT
*
15721562 TTGGTTTAAATG
1 TTGGTTCAAATG
15721574 AATGGGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
14 7 0.18
15 18 0.46
16 14 0.36
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (15 bp):
TTGGTTCAAATGGGT
Found at i:15721579 original size:19 final size:19
Alignment explanation
Indices: 15721539--15721593 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
15721529 GTTTGGTTCA
*
15721539 AATGGGTTTGGTTT---TA
1 AATGGGTTTGGTTTAAATG
15721555 AATGGGTTTGGTTTAAATG
1 AATGGGTTTGGTTTAAATG
15721574 AATGGGTTTGGTTTAAATG
1 AATGGGTTTGGTTTAAATG
15721593 A
1 A
15721594 GATTTGGGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 14 0.40
19 21 0.60
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (19 bp):
AATGGGTTTGGTTTAAATG
Found at i:15721592 original size:15 final size:15
Alignment explanation
Indices: 15721528--15721592 Score: 76
Period size: 15 Copynumber: 4.0 Consensus size: 15
15721518 TGGTTCAATT
*
15721528 GGTTTGGTTCAAATG
1 GGTTTGGTTTAAATG
15721543 GGTTTGGTTTTAAATG
1 GGTTTGG-TTTAAATG
15721559 GGTTTGGTTTAAATGAATG
1 GGTTTGGTTT--A--AATG
15721578 GGTTTGGTTTAAATG
1 GGTTTGGTTTAAATG
15721593 AGATTTGGGC
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
15 14 0.32
16 14 0.32
17 2 0.05
19 14 0.32
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.45
Consensus pattern (15 bp):
GGTTTGGTTTAAATG
Found at i:15722089 original size:17 final size:17
Alignment explanation
Indices: 15722067--15722101 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15722057 GTAAGGCAAG
15722067 GAAAAAAGAAAGAAAAA
1 GAAAAAAGAAAGAAAAA
15722084 GAAAAAAGAAAGAAAAA
1 GAAAAAAGAAAGAAAAA
15722101 G
1 G
15722102 GTTTGGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAAGAAAAA
Found at i:15723377 original size:16 final size:16
Alignment explanation
Indices: 15723356--15723410 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
15723346 TTAAAACCAT
*
15723356 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
* *
15723372 TTTAAATTCAAAAGAAA
1 TTTAAATT-TAAATAAA
15723389 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
*
15723405 TCTAAA
1 TTTAAA
15723411 ATCAATTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 19 0.59
17 13 0.41
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:15723417 original size:27 final size:29
Alignment explanation
Indices: 15723387--15723444 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
15723377 ATTCAAAAGA
* * *
15723387 AATTTAAATTTAA-ATAAA-TCTAAAATC
1 AATTCAAACTTAATATAAACTCAAAAATC
15723414 AATTCAAACTTAATATAAACTCAAAAATC
1 AATTCAAACTTAATATAAACTCAAAAATC
15723443 AA
1 AA
15723445 GAATTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
28 5 0.19
29 10 0.38
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (29 bp):
AATTCAAACTTAATATAAACTCAAAAATC
Found at i:15745895 original size:25 final size:25
Alignment explanation
Indices: 15745849--15745896 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15745839 ACCTTCCTAA
* * *
15745849 TGATGCTGAAGTTGAAGCTTTGGGG
1 TGATGATGAAGCTGAAACTTTGGGG
*
15745874 TGATGATGAAGCTGAAATTTTGG
1 TGATGATGAAGCTGAAACTTTGG
15745897 TTGTCCAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.35, T:0.33
Consensus pattern (25 bp):
TGATGATGAAGCTGAAACTTTGGGG
Found at i:15746599 original size:26 final size:29
Alignment explanation
Indices: 15746538--15746607 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 29
15746528 ATATTTGTTT
*
15746538 ATTTATAGATTTTATTTTTGTTTCGTACATA
1 ATTTATAGA-TTT-TTTTTGTCTCGTACATA
*
15746569 TTTTATAGATTTTTTTTGTCT-G-A-ATA
1 ATTTATAGATTTTTTTTGTCTCGTACATA
15746595 ATTTATAGATTTT
1 ATTTATAGATTTT
15746608 ACAACAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 15 0.42
27 1 0.03
28 1 0.03
29 8 0.22
30 3 0.08
31 8 0.22
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.60
Consensus pattern (29 bp):
ATTTATAGATTTTTTTTGTCTCGTACATA
Found at i:15746970 original size:7 final size:8
Alignment explanation
Indices: 15746945--15746996 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
15746935 TGTTATTTTC
15746945 AAAATATA
1 AAAATATA
*
15746953 TGAAATATA
1 -AAAATATA
15746962 AAAAT-TA
1 AAAATATA
*
15746969 AAAAAATA
1 AAAATATA
**
15746977 AATTTATA
1 AAAATATA
15746985 AAAATATA
1 AAAATATA
15746993 AAAA
1 AAAA
15746997 ACATTAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
7 6 0.18
8 21 0.62
9 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (8 bp):
AAAATATA
Found at i:15747198 original size:2 final size:2
Alignment explanation
Indices: 15747191--15747231 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
15747181 TTCATTCTTG
*
15747191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15747232 TTTTAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15752390 original size:23 final size:23
Alignment explanation
Indices: 15752364--15752483 Score: 145
Period size: 23 Copynumber: 5.1 Consensus size: 23
15752354 CACTAGCGCT
15752364 CTCTCTGATTAGCACTGTGTGTG
1 CTCTCTGATTAGCACTGTGTGTG
* *
15752387 CTCTCTGTTTAGCAC-GTCTCGTG
1 CTCTCTGATTAGCACTGTGT-GTG
*
15752410 CTCTCTGTTATTAGCACTGTGTATG
1 CTCTCTG--ATTAGCACTGTGTGTG
*
15752435 CTCTCCGATTAGCACT-TCGTGTG
1 CTCTCTGATTAGCACTGT-GTGTG
*
15752458 CTCTCTGATTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTGTGTGTG
15752481 CTC
1 CTC
15752484 AGTACTTTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
22 4 0.05
23 60 0.72
24 1 0.01
25 15 0.18
26 3 0.04
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (23 bp):
CTCTCTGATTAGCACTGTGTGTG
Found at i:15752437 original size:48 final size:47
Alignment explanation
Indices: 15752364--15752483 Score: 156
Period size: 48 Copynumber: 2.6 Consensus size: 47
15752354 CACTAGCGCT
* *
15752364 CTCTCTG-ATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGTG
1 CTCTCTGTATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GTG
* *
15752410 CTCTCTGTTATTAGCACTGTGTATGCTCTCCGATTAGCACTTCGTGTG
1 CTCTCTG-TATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGTG
*
15752458 CTCTCTG-ATTAGCACTTTGTGTGCTC
1 CTCTCTGTATTAGCACTGTGTGTGCTC
15752484 AGTACTTTGT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 24 0.37
48 40 0.62
49 1 0.02
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (47 bp):
CTCTCTGTATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGTG
Found at i:15752512 original size:39 final size:39
Alignment explanation
Indices: 15752448--15752522 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
15752438 TCCGATTAGC
*
15752448 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
15752487 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
15752523 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:15752517 original size:23 final size:23
Alignment explanation
Indices: 15752482--15752575 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
15752472 CTTTGTGTGC
*
15752482 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
15752505 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
15752528 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
15752553 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
15752575 T
1 T
15752576 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:15762980 original size:57 final size:57
Alignment explanation
Indices: 15762884--15762993 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 57
15762874 TGGTAGATTT
* *
15762884 GAAGGTAGATCCTCTAGCTGAACAAAACCAAAACTTGATAGCGTCTACCAATCTTAC
1 GAAGGTAGATCCTCTAACTGAACAAAACCAAAACTTGATAGCCTCTACCAATCTTAC
* *
15762941 GAAGGTAGA-CCTTCTAACTGAACAAAATC-AAACTATGATATCCTCTACCAATC
1 GAAGGTAGATCC-TCTAACTGAACAAAACCAAAACT-TGATAGCCTCTACCAATC
15762994 GTTCTTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
56 7 0.15
57 40 0.85
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.24
Consensus pattern (57 bp):
GAAGGTAGATCCTCTAACTGAACAAAACCAAAACTTGATAGCCTCTACCAATCTTAC
Found at i:15765004 original size:12 final size:12
Alignment explanation
Indices: 15764975--15765004 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15764965 AGGACAGACC
15764975 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
15764987 CTTTTTCTTTTT
1 TTTTTTCTTTTT
15764999 TTTTTT
1 TTTTTT
15765005 TGTGAGGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:15770448 original size:21 final size:19
Alignment explanation
Indices: 15770415--15770457 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15770405 TTTAGTTCTT
15770415 ATTTTCATAAAAAAAAATTA
1 ATTTTCATAAAAAAAAA-TA
*
15770435 ATTTTCATTAAAAAACAATA
1 ATTTTCA-TAAAAAAAAATA
15770455 ATT
1 ATT
15770458 CAACTGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTTCATAAAAAAAAATA
Found at i:15773931 original size:16 final size:15
Alignment explanation
Indices: 15773906--15773947 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
15773896 TTCGAAAGAC
15773906 TAAA-TTAAAATAAT
1 TAAACTTAAAATAAT
* *
15773920 TACAATTTAAAATATT
1 TA-AACTTAAAATAAT
15773936 TAAACTTAAAAT
1 TAAACTTAAAAT
15773948 GACTCGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 11 0.46
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAACTTAAAATAAT
Found at i:15775713 original size:113 final size:113
Alignment explanation
Indices: 15775515--15775741 Score: 418
Period size: 113 Copynumber: 2.0 Consensus size: 113
15775505 TCATTGTAGA
15775515 ACAGAATCATTGAAGAGCAAGACCACGTAGATTGAACGCTTCTAGTATGATTTCAACTCCTGACC
1 ACAGAATCATTGAAGAGCAAGACCACGTAGATTGAACGCTTCTAGTATGATTTCAACTCCTGACC
*
15775580 TTTAGCATGTAGGGAATTTATAGTCTGACGAGACAAAATGAGTTGAGT
66 TTTAGCATGTAGGGAATTTATAGTCTGACGAGACAAAATAAGTTGAGT
*
15775628 ACAGAATCATTGAAGAGCAAGACCACGTAGATTGAACGCTTCTAGTATGATTTCCACTCCTGACC
1 ACAGAATCATTGAAGAGCAAGACCACGTAGATTGAACGCTTCTAGTATGATTTCAACTCCTGACC
* *
15775693 TTTAGCATGTATGGAATTTATAGTCTGACGAGGCAAAATAAGTTGAGT
66 TTTAGCATGTAGGGAATTTATAGTCTGACGAGACAAAATAAGTTGAGT
15775741 A
1 A
15775742 TTGTTGAGTC
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (113 bp):
ACAGAATCATTGAAGAGCAAGACCACGTAGATTGAACGCTTCTAGTATGATTTCAACTCCTGACC
TTTAGCATGTAGGGAATTTATAGTCTGACGAGACAAAATAAGTTGAGT
Found at i:15775820 original size:94 final size:94
Alignment explanation
Indices: 15775658--15775850 Score: 296
Period size: 94 Copynumber: 2.1 Consensus size: 94
15775648 GACCACGTAG
* * * *
15775658 ATTGAACGCTTCTAGTATGATTTCCACTCCTGACCTTTAGCATGTATGGAATTTATAGTCTGACG
1 ATTGAACGCTTCTAGTATGATTTCAACTCCTGACCTTTAGCATGCAGGGAATTTATAGTCTGAAG
*
15775723 AGGCAAAATAAGTTGAGTATTGTTGAGTC
66 AGGCAAAATAAGTCGAGTATTGTTGAGTC
* * *
15775752 ATTGAATGCTTTTAGTATGATTTCAACTCCTGACCTTTAGCATGCAGGGAATTTATAGTGTGAAG
1 ATTGAACGCTTCTAGTATGATTTCAACTCCTGACCTTTAGCATGCAGGGAATTTATAGTCTGAAG
*
15775817 AGGCAAAATGAGTCGAGTATTGTTGAGTC
66 AGGCAAAATAAGTCGAGTATTGTTGAGTC
*
15775846 CTTGA
1 ATTGA
15775851 GATTGTTAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (94 bp):
ATTGAACGCTTCTAGTATGATTTCAACTCCTGACCTTTAGCATGCAGGGAATTTATAGTCTGAAG
AGGCAAAATAAGTCGAGTATTGTTGAGTC
Found at i:15777006 original size:74 final size:75
Alignment explanation
Indices: 15776924--15777063 Score: 203
Period size: 75 Copynumber: 1.9 Consensus size: 75
15776914 GAGTATTGAG
* * * *
15776924 ATTCGAAGTTAGA-TTTAAAAAATA-AGGAAAATAGTAAAATTATTAAATGGACCTCGACATTTA
1 ATTCGAAGTTAGACTTTAAAAAA-AGAAGAAAATAATAAAAATATTAAATGGACCTCGACATCTA
15776987 TGCAAGTTCAT
65 TGCAAGTTCAT
* *
15776998 ATTCGAAGTTAGACTTTAAAAAAAGAAGAAAGTAATAAAAATATTAAATGGACCTTGACATCTAT
1 ATTCGAAGTTAGACTTTAAAAAAAGAAGAAAATAATAAAAATATTAAATGGACCTCGACATCTAT
15777063 G
66 G
15777064 AGAGTCGAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 14 0.24
75 44 0.76
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.29
Consensus pattern (75 bp):
ATTCGAAGTTAGACTTTAAAAAAAGAAGAAAATAATAAAAATATTAAATGGACCTCGACATCTAT
GCAAGTTCAT
Found at i:15799009 original size:12 final size:12
Alignment explanation
Indices: 15798992--15799016 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15798982 ACCCACTTAG
15798992 TTTAAATTAATA
1 TTTAAATTAATA
15799004 TTTAAATTAATA
1 TTTAAATTAATA
15799016 T
1 T
15799017 AATAAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAAATTAATA
Found at i:15800303 original size:43 final size:43
Alignment explanation
Indices: 15800223--15800304 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
15800213 TCCGATAATA
* *
15800223 CACTGTGTATGCCAATATATTTGCTTCAGTTTGTCTGATCATG
1 CACTGTGTATGCCAATATATTCGCTTCAGTTTATCTGATCATG
* * *
15800266 CACTGTGTGTGCCAGTATATTCGTTTC-GATTTATCTGAT
1 CACTGTGTATGCCAATATATTCGCTTCAG-TTTATCTGAT
15800305 GATGTACTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (43 bp):
CACTGTGTATGCCAATATATTCGCTTCAGTTTATCTGATCATG
Found at i:15804663 original size:61 final size:61
Alignment explanation
Indices: 15804598--15804717 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 61
15804588 AGAAAGAGGT
* * *
15804598 AAAAAACATCACCTAAACCCAACTCTAATTATTTAATTTATTTTGGTTATATTTATTTACA
1 AAAAAAAATCACCTAAACCCAACTCTAATTAATAAATTTATTTTGGTTATATTTATTTACA
*
15804659 AAAAAAAATCACCTAAACCCATCTCTAATTAATAAATTTATTTTGGTTATATTTATTTA
1 AAAAAAAATCACCTAAACCCAACTCTAATTAATAAATTTATTTTGGTTATATTTATTTA
15804718 TTTAAGTTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (61 bp):
AAAAAAAATCACCTAAACCCAACTCTAATTAATAAATTTATTTTGGTTATATTTATTTACA
Found at i:15812695 original size:15 final size:15
Alignment explanation
Indices: 15812667--15812701 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15812657 AATTAAGATT
*
15812667 TTTTTTAAACATTCA
1 TTTTTAAAACATTCA
*
15812682 TTTTTAAAATATTCA
1 TTTTTAAAACATTCA
15812697 TTTTT
1 TTTTT
15812702 CTTAAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTAAAACATTCA
Found at i:15813352 original size:20 final size:20
Alignment explanation
Indices: 15813313--15813413 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
15813303 GTTTGAAACA
*
15813313 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
15813335 ATTTTAAACAAGTCAAAATG
1 ATTTTAAACAAGTCAAAATG
* * *
15813355 ATTTCAACCAAGTCAAAATC
1 ATTTTAAACAAGTCAAAATG
**
15813375 ATTTT-AACATTTCAAAATG
1 ATTTTAAACAAGTCAAAATG
* *
15813394 TTTTTCAAACAACTCAAAAT
1 ATTTT-AAACAAGTCAAAAT
15813414 AGCTCCAAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
19 14 0.22
20 32 0.49
21 14 0.22
22 5 0.08
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.34
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:15813467 original size:21 final size:22
Alignment explanation
Indices: 15813427--15813467 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15813417 TCCAAGCCAA
*
15813427 AAAGTATCGATACCTTTTTGGC
1 AAAGTATCGATACATTTTTGGC
15813449 AAAGTATCGATA-ATTTTTG
1 AAAGTATCGATACATTTTTG
15813468 AAATATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (22 bp):
AAAGTATCGATACATTTTTGGC
Found at i:15825794 original size:25 final size:25
Alignment explanation
Indices: 15825742--15825800 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
15825732 GGGAGTATTT
* **
15825742 TTTTTAATTAATATTAATATATGTA
1 TTTTTATTTAATATTAATATATAAA
15825767 TTTTTATTTAATATTAATAT-TAAAA
1 TTTTTATTTAATATTAATATAT-AAA
15825792 TTTATTATT
1 TTT-TTATT
15825801 ATTATTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 23 0.79
26 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTTATTTAATATTAATATATAAA
Found at i:15829299 original size:33 final size:35
Alignment explanation
Indices: 15829257--15829329 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
15829247 AAAATGTTTG
*
15829257 GTGTTATATTG-ATTTT-GATATGTTT-TTGTGCTT
1 GTGTAATATTGTATTTTAGATATGTTTCTTGTG-TT
* *
15829290 GTGTAATATTGTATTTTAGCTATTTTTCTTGTGTT
1 GTGTAATATTGTATTTTAGATATGTTTCTTGTGTT
15829325 GTGTA
1 GTGTA
15829330 CAATATTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 10 0.29
34 5 0.15
35 14 0.41
36 5 0.15
ACGTcount: A:0.16, C:0.04, G:0.21, T:0.59
Consensus pattern (35 bp):
GTGTAATATTGTATTTTAGATATGTTTCTTGTGTT
Found at i:15830219 original size:25 final size:24
Alignment explanation
Indices: 15830178--15830229 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15830168 TTTTTATATT
* *
15830178 TTTGAAATTTTTATATATTTTTAA
1 TTTGAAATTTTTATATAATTATAA
*
15830202 TTTGAAATTTTTGTTATAATTATAA
1 TTTGAAATTTTT-ATATAATTATAA
15830227 TTT
1 TTT
15830230 ATTTTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTGAAATTTTTATATAATTATAA
Found at i:15834560 original size:74 final size:74
Alignment explanation
Indices: 15834439--15834591 Score: 297
Period size: 74 Copynumber: 2.1 Consensus size: 74
15834429 TGTAGTTTAA
15834439 GGTTTCAGTTTAGAGGTTTTGGTTCGGTGTCGACATGGGATTTCAATTTCAATTGTTATTTGGGT
1 GGTTTCAGTTTAGAGGTTTTGGTTCGGTGTCGACATGGGATTTCAATTTCAATTGTTATTTGGGT
15834504 TTTTAGATT
66 TTTTAGATT
*
15834513 GGTTTCAGTTTAGAGGTTTTGGTTTGGTGTCGACATGGGATTTCAATTTCAATTGTTATTTGGGT
1 GGTTTCAGTTTAGAGGTTTTGGTTCGGTGTCGACATGGGATTTCAATTTCAATTGTTATTTGGGT
15834578 TTTTAGATT
66 TTTTAGATT
15834587 GGTTT
1 GGTTT
15834592 TGGTTTGGGG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 78 1.00
ACGTcount: A:0.17, C:0.07, G:0.27, T:0.48
Consensus pattern (74 bp):
GGTTTCAGTTTAGAGGTTTTGGTTCGGTGTCGACATGGGATTTCAATTTCAATTGTTATTTGGGT
TTTTAGATT
Found at i:15835258 original size:41 final size:41
Alignment explanation
Indices: 15835201--15835284 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
15835191 CTAGAATTTT
* *
15835201 ATACACCTACCAAGTAGGCAAAAGAATATACTCTTTTTTGA
1 ATACACCCACCAAGTAGGCAAAAAAATATACTCTTTTTTGA
15835242 ATACACCCACCAAGTAGGCAAAAAAATATACTCTTTTTTGA
1 ATACACCCACCAAGTAGGCAAAAAAATATACTCTTTTTTGA
15835283 AT
1 AT
15835285 TTAGGATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (41 bp):
ATACACCCACCAAGTAGGCAAAAAAATATACTCTTTTTTGA
Found at i:15835724 original size:19 final size:18
Alignment explanation
Indices: 15835680--15835725 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
15835670 GAGTTAAACG
* *
15835680 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAGTC
15835698 AATCGAATTATTCGAGTC
1 AATCGAATTATTCGAGTC
15835716 AACTCGAATT
1 AA-TCGAATT
15835726 TTTTTTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAGTC
Found at i:15846628 original size:24 final size:24
Alignment explanation
Indices: 15846583--15846630 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15846573 ATGGATGTTC
* *
15846583 AACCTTTCATCTTTCTTGACCTTT
1 AACCTTCCATCTTTCTTAACCTTT
15846607 AACCTTCCATC-TTCTTTAACCTTT
1 AACCTTCCATCTTTC-TTAACCTTT
15846631 TATATTCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.19, C:0.31, G:0.02, T:0.48
Consensus pattern (24 bp):
AACCTTCCATCTTTCTTAACCTTT
Found at i:15855376 original size:54 final size:54
Alignment explanation
Indices: 15855311--15855413 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
15855301 GTGAAAGAAA
* * *
15855311 GTTCATGTTACCTGATTCTCAACATCCATATACTCTGATTGAGATGAAAAGATT
1 GTTCATATTACCTGATTATCAACATCCATAGACTCTGATTGAGATGAAAAGATT
* * *
15855365 GTTCATATTACCTGATTATCAACATTCATAGCCTCTGATTGTGATGAAA
1 GTTCATATTACCTGATTATCAACATCCATAGACTCTGATTGAGATGAAA
15855414 TAGGTATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (54 bp):
GTTCATATTACCTGATTATCAACATCCATAGACTCTGATTGAGATGAAAAGATT
Found at i:15856378 original size:34 final size:34
Alignment explanation
Indices: 15856335--15856413 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
15856325 CTTTAAAAAT
15856335 GAGTGTGTGTGCATGTGTATGTGAGCAAGCGAGC
1 GAGTGTGTGTGCATGTGTATGTGAGCAAGCGAGC
* *
15856369 GAGTGTGTGTGCATGTGTATGTGAGCGAGTGAGC
1 GAGTGTGTGTGCATGTGTATGTGAGCAAGCGAGC
*
15856403 AAGTGTGTGTG
1 GAGTGTGTGTG
15856414 TGTGTGTGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.19, C:0.09, G:0.43, T:0.29
Consensus pattern (34 bp):
GAGTGTGTGTGCATGTGTATGTGAGCAAGCGAGC
Found at i:15856441 original size:42 final size:40
Alignment explanation
Indices: 15856371--15856453 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
15856361 AAGCGAGCGA
* *
15856371 GTGTGTGTGCATGTGTATGTGAGCGAGTGAGCAAGTGTGTGT
1 GTGTGTGTGCATGGGTAGGTGAGCGAGT--GCAAGTGTGTGT
* * *
15856413 GTGTGTGTGCATGGGTGGGTGCGTGAGTGCAAGTGTGTGT
1 GTGTGTGTGCATGGGTAGGTGAGCGAGTGCAAGTGTGTGT
15856453 G
1 G
15856454 GGTGGGTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 13 0.36
42 23 0.64
ACGTcount: A:0.13, C:0.07, G:0.47, T:0.33
Consensus pattern (40 bp):
GTGTGTGTGCATGGGTAGGTGAGCGAGTGCAAGTGTGTGT
Found at i:15856476 original size:28 final size:29
Alignment explanation
Indices: 15856414--15856477 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
15856404 AGTGTGTGTG
15856414 TGTGTGTGCATGGGTGGGTGCGTGAGTGCA
1 TGTGTGTG-ATGGGTGGGTGCGTGAGTGCA
* *
15856444 AGTGTGTG-TGGGTGGGTGGGT-ATGTGCA
1 TGTGTGTGATGGGTGGGTGCGTGA-GTGCA
15856472 TGTGTG
1 TGTGTG
15856478 CATGCGTGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 22 0.73
30 7 0.23
ACGTcount: A:0.09, C:0.06, G:0.52, T:0.33
Consensus pattern (29 bp):
TGTGTGTGATGGGTGGGTGCGTGAGTGCA
Found at i:15860496 original size:35 final size:33
Alignment explanation
Indices: 15860435--15860508 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 33
15860425 GGGTTTGCTC
*
15860435 TAGGGTTTGGGGCTATGTTATGGGATGGTGGTT
1 TAGGGTGTGGGGCTATGTTATGGGATGGTGGTT
*
15860468 TAGGGTGTGGGGTTAATGGTTATGGGATGGTGGTT
1 TAGGGTGTGGGGCT-AT-GTTATGGGATGGTGGTT
15860503 TAGGGT
1 TAGGGT
15860509 AGTGAATTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 12 0.32
34 2 0.05
35 23 0.62
ACGTcount: A:0.14, C:0.01, G:0.47, T:0.38
Consensus pattern (33 bp):
TAGGGTGTGGGGCTATGTTATGGGATGGTGGTT
Found at i:15860618 original size:14 final size:14
Alignment explanation
Indices: 15860582--15860618 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15860572 TTGTTAGGGG
15860582 TTAGGGTTTTGGGT
1 TTAGGGTTTTGGGT
*
15860596 ATAGGGTTTTGGGT
1 TTAGGGTTTTGGGT
*
15860610 TTAGTGTTT
1 TTAGGGTTT
15860619 GTGCAAGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (14 bp):
TTAGGGTTTTGGGT
Found at i:15866897 original size:8 final size:8
Alignment explanation
Indices: 15866881--15866910 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15866871 TATATCAAGC
15866881 AGCATTAT
1 AGCATTAT
*
15866889 AGTATTAT
1 AGCATTAT
15866897 AGCATTAT
1 AGCATTAT
15866905 AGCATT
1 AGCATT
15866911 TGGTACCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (8 bp):
AGCATTAT
Found at i:15867779 original size:7 final size:7
Alignment explanation
Indices: 15867739--15867803 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
15867729 AACAAAATTT
15867739 AAAC-AA
1 AAACAAA
15867745 AAACAAA
1 AAACAAA
*
15867752 GAACAACA
1 AAACAA-A
15867760 ATAACAAAAA
1 A-AAC--AAA
15867770 AAACAAA
1 AAACAAA
15867777 AAACAAA
1 AAACAAA
*
15867784 AAACACA
1 AAACAAA
*
15867791 AACCAAA
1 AAACAAA
*
15867798 CAACAA
1 AAACAA
15867804 CAAAGAACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
6 4 0.09
7 32 0.68
8 1 0.02
9 6 0.13
10 2 0.04
11 2 0.04
ACGTcount: A:0.77, C:0.20, G:0.02, T:0.02
Consensus pattern (7 bp):
AAACAAA
Found at i:15867791 original size:25 final size:25
Alignment explanation
Indices: 15867743--15867792 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15867733 AAATTTAAAC
* *
15867743 AAAAACAAAGAACAACAATAACAAA
1 AAAAACAAAAAACAACAAAAACAAA
15867768 AAAAACAAAAAACAA-AAAACACAAA
1 AAAAACAAAAAACAACAAAA-ACAAA
15867793 CCAAACAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.80, C:0.16, G:0.02, T:0.02
Consensus pattern (25 bp):
AAAAACAAAAAACAACAAAAACAAA
Found at i:15869345 original size:15 final size:16
Alignment explanation
Indices: 15869320--15869350 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15869310 GAACATATTT
15869320 TAATGGAATAAATGAA
1 TAATGGAATAAATGAA
15869336 TAAT-GAATAAATGAA
1 TAATGGAATAAATGAA
15869351 AAAGCAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (16 bp):
TAATGGAATAAATGAA
Found at i:15869870 original size:82 final size:82
Alignment explanation
Indices: 15869762--15869921 Score: 275
Period size: 82 Copynumber: 2.0 Consensus size: 82
15869752 TTTCAGCTTT
* * *
15869762 AAAATAAGTTTGTGTTTGCCTATTAATCTCTGTTTTAATTTCATATGTACGTTTCTTGACATTTT
1 AAAACAAGTTTGTATTTGCCTATTAATCTCTGTTTTAATTTCATATGCACGTTTCTTGACATTTT
*
15869827 TTCAGTGGGTTTTTGTG
66 TTCAATGGGTTTTTGTG
*
15869844 AAAACAAGTTTGTATTTGCCTCTTAATCTCTGTTTTAATTTCATATGCACGTTTCTTGACATTTT
1 AAAACAAGTTTGTATTTGCCTATTAATCTCTGTTTTAATTTCATATGCACGTTTCTTGACATTTT
15869909 TTCAATGGGTTTT
66 TTCAATGGGTTTT
15869922 GTTTTAGATT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.22, C:0.13, G:0.15, T:0.50
Consensus pattern (82 bp):
AAAACAAGTTTGTATTTGCCTATTAATCTCTGTTTTAATTTCATATGCACGTTTCTTGACATTTT
TTCAATGGGTTTTTGTG
Found at i:15875425 original size:3 final size:3
Alignment explanation
Indices: 15875411--15875471 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
15875401 GTGGGTGTTA
*
15875411 AAG AAG ATG AAG AAG AAG -AG AAGG AAG AAG AAG -AG AAG AAAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG -AAG AAG
* *
15875456 AAG AAA AAG AGG AAG A
1 AAG AAG AAG AAG AAG A
15875472 CATTGTAGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:15875437 original size:15 final size:15
Alignment explanation
Indices: 15875419--15875459 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
15875409 TAAAGAAGAT
15875419 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
15875434 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
*
15875449 AAAGAAGAAGA
1 GAAGAAGAAGA
15875460 AAAAGAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAGAGAAG
Found at i:15878506 original size:56 final size:56
Alignment explanation
Indices: 15878444--15878554 Score: 141
Period size: 56 Copynumber: 2.0 Consensus size: 56
15878434 AGGTACAAGA
* * **
15878444 GACACACAAGCTGAGCACACGTGCGTGTGCTAGACCGTGTGTGTATACTGTTTTGT
1 GACACACAAGCTGAGCACACGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTGT
** * * *
15878500 GACACACTGGCTGGGCATATGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTG
1 GACACACAAGCTGAGCACACGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTG
15878555 CAATTGTAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (56 bp):
GACACACAAGCTGAGCACACGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTGT
Found at i:15886782 original size:11 final size:10
Alignment explanation
Indices: 15886759--15886796 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15886749 TATATACATA
15886759 TTTTTTTT-C
1 TTTTTTTTCC
*
15886768 TTTTTTTCCC
1 TTTTTTTTCC
15886778 TTTTTTTTCC
1 TTTTTTTTCC
15886788 TTTTCTTTT
1 TTTT-TTTT
15886797 TTTTATGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 7 0.28
10 14 0.56
11 4 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCC
Found at i:15898033 original size:36 final size:37
Alignment explanation
Indices: 15897969--15898047 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 37
15897959 ACTAATGTCA
* *
15897969 CTGCATGAGCACTTCTAGATTGCGCCCAAAACTATCG
1 CTGCATGAGCACTTCTAGATTACACCCAAAACTATCG
* *
15898006 CTGCATGAGCAC-TCTAGATTACACCCAAGACTATTG
1 CTGCATGAGCACTTCTAGATTACACCCAAAACTATCG
15898042 CTGCAT
1 CTGCAT
15898048 AAACATTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
36 26 0.68
37 12 0.32
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
CTGCATGAGCACTTCTAGATTACACCCAAAACTATCG
Found at i:15898118 original size:37 final size:38
Alignment explanation
Indices: 15898035--15898128 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
15898025 TACACCCAAG
* *
15898035 ACTATTGCTGCATAAACATTCTTCAAATTGCATACAGA
1 ACTATCGCTGCATAAACATTCTTCAAATTGCACACAGA
** *
15898073 ACTATCGCTGCATAAGTATTCTTC-AATTGCACCCAGGA
1 ACTATCGCTGCATAAACATTCTTCAAATTGCACACA-GA
* *
15898111 A-TGTCGCTGCATGAACAT
1 ACTATCGCTGCATAAACAT
15898129 GTCCAGAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 22 0.48
38 24 0.52
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (38 bp):
ACTATCGCTGCATAAACATTCTTCAAATTGCACACAGA
Found at i:15909567 original size:52 final size:52
Alignment explanation
Indices: 15909484--15909670 Score: 275
Period size: 52 Copynumber: 3.6 Consensus size: 52
15909474 GTAAACGAAA
* * *
15909484 AGGTTCGATGACTAAGTGTCTTCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
15909536 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * ** *
15909588 AGGTCCGATGACTATGTATCATCGTGAGTGTATGACTCCTTTACGGAACAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
15909640 AGGTCCGATGACTATATGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
15909671 TAAATGAAAC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:15911807 original size:26 final size:25
Alignment explanation
Indices: 15911747--15911807 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
15911737 GTAGTTGTTC
* *
15911747 AATAATAATTATTAAGTACTCAAAG
1 AATAATAATTATAAAGGACTCAAAG
* *
15911772 AAGACA-AATTAGTAAAGGACTTAAAG
1 AATA-ATAATTA-TAAAGGACTCAAAG
15911798 AATAATAATT
1 AATAATAATT
15911808 CATTTAATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (25 bp):
AATAATAATTATAAAGGACTCAAAG
Found at i:15913525 original size:21 final size:21
Alignment explanation
Indices: 15913499--15913599 Score: 87
Period size: 21 Copynumber: 5.3 Consensus size: 21
15913489 TGTGCCTAGT
15913499 AGGCTTCGTGCCGGTGTATTC
1 AGGCTTCGTGCCGGTGTATTC
* *
15913520 AGGCTTTGTG-C--T-TAGT-
1 AGGCTTCGTGCCGGTGTATTC
*
15913536 AGGCTTCGTGCTGGTGTATTC
1 AGGCTTCGTGCCGGTGTATTC
* *
15913557 AGGCTTTGTGCC----TAGT-
1 AGGCTTCGTGCCGGTGTATTC
15913573 AGGCTTCGTGCCGGTGTATTC
1 AGGCTTCGTGCCGGTGTATTC
15913594 AGGCTT
1 AGGCTT
15913600 TATGCTTAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
16 20 0.33
17 6 0.10
18 1 0.02
19 1 0.02
20 7 0.12
21 25 0.42
ACGTcount: A:0.11, C:0.20, G:0.33, T:0.37
Consensus pattern (21 bp):
AGGCTTCGTGCCGGTGTATTC
Found at i:15913529 original size:37 final size:37
Alignment explanation
Indices: 15913479--15913621 Score: 232
Period size: 37 Copynumber: 3.9 Consensus size: 37
15913469 ACATCTAAAA
*
15913479 ATTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGT
1 ATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGT
* *
15913516 ATTCAGGCTTTGTGCTTAGTAGGCTTCGTGCTGGTGT
1 ATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGT
15913553 ATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGT
1 ATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGT
* * *
15913590 ATTCAGGCTTTATGCTTAGTAGGCTTTGTGCC
1 ATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCC
15913622 AGTGATCAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.13, C:0.20, G:0.30, T:0.38
Consensus pattern (37 bp):
ATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGT
Found at i:15913541 original size:16 final size:16
Alignment explanation
Indices: 15913520--15913620 Score: 58
Period size: 16 Copynumber: 5.7 Consensus size: 16
15913510 CGGTGTATTC
15913520 AGGCTTTGTGCTTAGT
1 AGGCTTTGTGCTTAGT
* *
15913536 AGGCTTCGTGCTGGTGTATT
1 AGGCTT--TG-TGCT-TAGT
*
15913556 CAGGCTTTGTGCCTAGT
1 -AGGCTTTGTGCTTAGT
* *
15913573 AGGCTTCGTGCCGGTGTATT
1 AGGCTTTGTG-C--T-TAGT
*
15913593 CAGGCTTTATGCTTAGT
1 -AGGCTTTGTGCTTAGT
15913610 AGGCTTTGTGC
1 AGGCTTTGTGC
15913621 CAGTGATCAA
Statistics
Matches: 63, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
16 25 0.40
17 7 0.11
18 5 0.08
19 5 0.08
20 7 0.11
21 14 0.22
ACGTcount: A:0.12, C:0.18, G:0.32, T:0.39
Consensus pattern (16 bp):
AGGCTTTGTGCTTAGT
Found at i:15913600 original size:74 final size:74
Alignment explanation
Indices: 15913479--15913620 Score: 257
Period size: 74 Copynumber: 1.9 Consensus size: 74
15913469 ACATCTAAAA
*
15913479 ATTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTATTCAGGCTTTGTGCTTAGTAGGCTTCG
1 ATTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTATTCAGGCTTTATGCTTAGTAGGCTTCG
15913544 TGCTGGTGT
66 TGCTGGTGT
* *
15913553 ATTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTATTCAGGCTTTATGCTTAGTAGGCTTTG
1 ATTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTATTCAGGCTTTATGCTTAGTAGGCTTCG
15913618 TGC
66 TGC
15913621 CAGTGATCAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.13, C:0.19, G:0.30, T:0.38
Consensus pattern (74 bp):
ATTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTATTCAGGCTTTATGCTTAGTAGGCTTCG
TGCTGGTGT
Found at i:15925884 original size:16 final size:16
Alignment explanation
Indices: 15925844--15925884 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
15925834 GTTGGCTAAC
*
15925844 TTTGGGTTGGAGTTTT
1 TTTGGGTTTGAGTTTT
15925860 TTTGGGTTTGAGTTTT
1 TTTGGGTTTGAGTTTT
15925876 TTTGGGTTT
1 TTTGGGTTT
15925885 AAGCATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.00, G:0.34, T:0.61
Consensus pattern (16 bp):
TTTGGGTTTGAGTTTT
Found at i:15926192 original size:24 final size:24
Alignment explanation
Indices: 15926165--15926213 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
15926155 AGAAATTAGC
15926165 CCATTTT-AGTGTCTCCTTGTACAA
1 CCATTTTAAG-GTCTCCTTGTACAA
* *
15926189 CCATTTTAAGGTCTCTTTGTGCAA
1 CCATTTTAAGGTCTCCTTGTACAA
15926213 C
1 C
15926214 GGATTTTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (24 bp):
CCATTTTAAGGTCTCCTTGTACAA
Found at i:15930656 original size:52 final size:52
Alignment explanation
Indices: 15930543--15930835 Score: 428
Period size: 52 Copynumber: 5.7 Consensus size: 52
15930533 TGCATATTTG
* * * * *
15930543 ATACTCACGATGACACAGAGTCATCGGACCT-TTAATCCGTAGAGGAATCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
15930594 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
15930646 ATACTTACGATGACACGTAGTCATCAGACCTCACAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
15930698 ATGCTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
*
15930750 ATACTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
15930802 ATACTCACGATAACATATAGTCATC-GAACCTCAT
1 ATACTCACGATGACACATAGTCATCAG-ACCTCAT
15930836 TCATTTACGG
Statistics
Matches: 223, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
51 31 0.14
52 192 0.86
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:15930730 original size:26 final size:26
Alignment explanation
Indices: 15930701--15930782 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
15930691 GATTCATATG
15930701 CTCACGATGACACGTAGTCATCAGAC
1 CTCACGATGACACGTAGTCATCAGAC
** * * * *
15930727 CTCATAATCCGTA-AAGGATTCAT-ATA-
1 CTCACGAT--G-ACACGTAGTCATCAGAC
15930753 CTCACGATGACACGTAGTCATCAGAC
1 CTCACGATGACACGTAGTCATCAGAC
15930779 CTCA
1 CTCA
15930783 TAATCCGTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 12
0.61 0.19 0.19
Matches are distributed among these distances:
23 1 0.03
24 8 0.21
25 2 0.05
26 16 0.42
27 2 0.05
28 8 0.21
29 1 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (26 bp):
CTCACGATGACACGTAGTCATCAGAC
Found at i:15930808 original size:26 final size:26
Alignment explanation
Indices: 15930727--15930808 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
15930717 GTCATCAGAC
15930727 CTCATAATCCGTAAAGGATTCATATA
1 CTCATAATCCGTAAAGGATTCATATA
** * * * *
15930753 CTCACGAT--G-ACACGTAGTCATCAGA
1 CTCATAATCCGTA-AAGGATTCAT-ATA
15930778 CCTCATAATCCGTAAAGGATTCATATA
1 -CTCATAATCCGTAAAGGATTCATATA
15930805 CTCA
1 CTCA
15930809 CGATAACATA
Statistics
Matches: 38, Mismatches: 12, Indels: 12
0.61 0.19 0.19
Matches are distributed among these distances:
23 1 0.03
24 8 0.21
25 2 0.05
26 16 0.42
27 2 0.05
28 8 0.21
29 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (26 bp):
CTCATAATCCGTAAAGGATTCATATA
Found at i:15938465 original size:16 final size:16
Alignment explanation
Indices: 15938444--15938475 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15938434 AGAATTTTTT
*
15938444 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
15938460 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
15938476 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:15942727 original size:12 final size:12
Alignment explanation
Indices: 15942686--15942727 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
15942676 CACGACAAAG
*
15942686 TCTTCCTCTTTC
1 TCTTCTTCTTTC
*
15942698 TCGTCTTCCTTTC
1 TCTTCTT-CTTTC
15942711 T-TTCTTCTTTC
1 TCTTCTTCTTTC
15942722 TCTTCT
1 TCTTCT
15942728 GGCTTCTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 6 0.24
12 13 0.52
13 6 0.24
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (12 bp):
TCTTCTTCTTTC
Found at i:15953605 original size:22 final size:23
Alignment explanation
Indices: 15953564--15953608 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15953554 GGGTTGTATG
15953564 GCTGACGTGGCATTTGACGTGGC
1 GCTGACGTGGCATTTGACGTGGC
*
15953587 GCTGATGTGGCA-TTGACGTGGC
1 GCTGACGTGGCATTTGACGTGGC
15953609 CATGAGGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (23 bp):
GCTGACGTGGCATTTGACGTGGC
Found at i:15953607 original size:11 final size:11
Alignment explanation
Indices: 15953566--15953608 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
15953556 GTTGTATGGC
15953566 TGACGTGGCATT
1 TGACGTGGCA-T
**
15953578 TGACGTGGCGC
1 TGACGTGGCAT
*
15953589 TGATGTGGCAT
1 TGACGTGGCAT
15953600 TGACGTGGC
1 TGACGTGGC
15953609 CATGAGGAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.14, C:0.19, G:0.40, T:0.28
Consensus pattern (11 bp):
TGACGTGGCAT
Found at i:15955303 original size:58 final size:58
Alignment explanation
Indices: 15955281--15955435 Score: 195
Period size: 58 Copynumber: 2.7 Consensus size: 58
15955271 TGTTCAGATA
*
15955281 TTTGTCACAAAGACATTCCTTTAACAGAGATAAACACAATAGCTTTCCTGTCTAGAGT
1 TTTGCCACAAAGACATTCCTTTAACAGAGATAAACACAATAGCTTTCCTGTCTAGAGT
** * * *
15955339 TTTGCCACAAAGACATTCCTTTAACAGAGATAGTCATAA-AGGCTTTCCTATCCAGAGT
1 TTTGCCACAAAGACATTCCTTTAACAGAGATAAACACAATA-GCTTTCCTGTCTAGAGT
* * * * *
15955397 TTTTCCACAAAGGCACTCCTTTAACAAAGATAGACACAA
1 TTTGCCACAAAGACATTCCTTTAACAGAGATAAACACAA
15955436 ATGCTTCTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 1 0.01
58 83 0.99
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (58 bp):
TTTGCCACAAAGACATTCCTTTAACAGAGATAAACACAATAGCTTTCCTGTCTAGAGT
Found at i:15955318 original size:29 final size:29
Alignment explanation
Indices: 15955286--15955370 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 29
15955276 AGATATTTGT
15955286 CACAAAGACATTCCTTTAACAGAGATAAA
1 CACAAAGACATTCCTTTAACAGAGATAAA
* * * ***
15955315 CACAATAG-CTTTCCTGT--CTAGAGTTTTGC
1 CACAA-AGACATTCCTTTAAC-AGAG-ATAAA
15955344 CACAAAGACATTCCTTTAACAGAGATA
1 CACAAAGACATTCCTTTAACAGAGATA
15955371 GTCATAAAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
27 1 0.03
28 6 0.15
29 26 0.65
30 6 0.15
31 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (29 bp):
CACAAAGACATTCCTTTAACAGAGATAAA
Done.