Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 95 of 113
Found at i:19474685 original size:15 final size:15
Alignment explanation
Indices: 19474653--19474685 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19474643 TTTTTTAGAA
*
19474653 TTTTTTTTGGCGAAT
1 TTTTTTTTGGCAAAT
19474668 TTTTTTTTGG-AAAT
1 TTTTTTTTGGCAAAT
19474682 TTTT
1 TTTT
19474686 GAAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (15 bp):
TTTTTTTTGGCAAAT
Found at i:19474943 original size:14 final size:15
Alignment explanation
Indices: 19474902--19474935 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19474892 CGAGTTTTTA
19474902 AAGAGAAA-AAAGAG
1 AAGAGAAAGAAAGAG
19474916 AAGAGAAAGAAAGAG
1 AAGAGAAAGAAAGAG
19474931 -AGAGA
1 AAGAGA
19474936 GGGAAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
AAGAGAAAGAAAGAG
Found at i:19475214 original size:7 final size:7
Alignment explanation
Indices: 19475204--19475249 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
19475194 TTTTTTTTCA
19475204 TTTTATT
1 TTTTATT
19475211 TTTTATT
1 TTTTATT
19475218 TTTTATT
1 TTTTATT
19475225 TATTTATT
1 T-TTTATT
*
19475233 TATTATT
1 TTTTATT
19475240 ATTATTATT
1 -TT-TTATT
19475249 T
1 T
19475250 ATTGATTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 20 0.59
8 9 0.26
9 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTATT
Found at i:19475228 original size:4 final size:4
Alignment explanation
Indices: 19475205--19475252 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
19475195 TTTTTTTCAT
19475205 TTTA TTT- TTTA TTT- TTTA TTTA TTTA TTTA -TTA -TTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
19475247 TTTA TT
1 TTTA TT
19475253 GATTAGATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 18 0.44
4 23 0.56
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:19475296 original size:6 final size:6
Alignment explanation
Indices: 19475285--19475323 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
19475275 ATTTTTTTCC
*
19475285 TTTATT TTTATT TTCATT TTTATTT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT TT
19475324 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:19475303 original size:25 final size:25
Alignment explanation
Indices: 19475275--19475324 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
19475265 TTTGTTTAAT
19475275 ATTTTT-TTCCTTTATTTTTATTTTC
1 ATTTTTATT-CTTTATTTTTATTTTC
*
19475300 ATTTTTATTTTTTATTTTTATTTTC
1 ATTTTTATTCTTTATTTTTATTTTC
19475325 TTTAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (25 bp):
ATTTTTATTCTTTATTTTTATTTTC
Found at i:19475337 original size:25 final size:25
Alignment explanation
Indices: 19475285--19475337 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
19475275 ATTTTTTTCC
** *
19475285 TTTATTTTTATTTTCATTTTTATTT
1 TTTATTTTTATTTTCATTTAAATAT
19475310 TTTATTTTTATTTTC-TTTAAATAAT
1 TTTATTTTTATTTTCATTTAAAT-AT
19475335 TTT
1 TTT
19475338 CAAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTATTTTTATTTTCATTTAAATAT
Found at i:19475614 original size:58 final size:58
Alignment explanation
Indices: 19475328--19475673 Score: 403
Period size: 59 Copynumber: 5.9 Consensus size: 58
19475318 TATTTTCTTT
* *
19475328 AAATAA-TTTTCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAATAAGTTTTC-AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * * **
19475386 AGATAAATTTTCAAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGA
1 AAATAAGTTTTCAAAAAAA-TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
19475445 AATTAAAGTTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAT-AAGTTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
19475504 AAATAAGCTTTTCAAAAAAAATATTTTTTG-GGAAAAGTTAAAAATATCAATTTTCCTTAA
1 AAATAAG-TTTTC-AAAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA
* * **
19475564 AAATAAGTTTTCAAAAATAA-ATTTTTGAAAAAAAGTTGAAAGTATTAATTTTCCTCGA
1 AAATAAGTTTTCAAAAA-AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
19475622 AATTAAAG-TTTCAAAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAT-AAGTTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
19475674 TCCTGCACAA
Statistics
Matches: 248, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
57 8 0.03
58 84 0.34
59 93 0.38
60 57 0.23
61 6 0.02
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
AAATAAGTTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:19477718 original size:33 final size:33
Alignment explanation
Indices: 19477681--19477747 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
19477671 ACTCTATTAA
19477681 ATATATAGATAGTTGATAATAATACTTTACCCT
1 ATATATAGATAGTTGATAATAATACTTTACCCT
*
19477714 ATATATAGATAGTTGATAATAATATTTTACCCT
1 ATATATAGATAGTTGATAATAATACTTTACCCT
19477747 A
1 A
19477748 AAAGTGATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (33 bp):
ATATATAGATAGTTGATAATAATACTTTACCCT
Found at i:19482080 original size:13 final size:15
Alignment explanation
Indices: 19482056--19482092 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
19482046 ATAAAGAATT
*
19482056 CATATTTCAAATAT-
1 CATATATCAAATATA
19482070 CAT-TATCAAATATA
1 CATATATCAAATATA
19482084 CATATATCA
1 CATATATCA
19482093 TTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 9 0.45
14 6 0.30
15 5 0.25
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (15 bp):
CATATATCAAATATA
Found at i:19492208 original size:43 final size:41
Alignment explanation
Indices: 19492049--19492219 Score: 211
Period size: 41 Copynumber: 4.1 Consensus size: 41
19492039 ATGATTGTCA
* * * *
19492049 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* *
19492090 AGGAGCAATTTACTTTTT-AAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* *
19492131 AGAAGCAATTTATTTTTCAAAGT-GTTGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAG
* *
19492171 AGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCAATTTAT-TTT-TCAAAGTCGTTGAGCCTCTGTTTAG
19492214 AGGAGC
1 AGGAGC
19492220 TTTGATCAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
40 30 0.26
41 53 0.46
42 11 0.09
43 22 0.19
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAG
Found at i:19492239 original size:1 final size:1
Alignment explanation
Indices: 19492233--19492276 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
19492223 GATCAAATTT
* * * *
19492233 AAAAAAAAAAAAAAAAAAAACAAAAGAAACAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19492277 TTGCCTCTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:19492337 original size:40 final size:41
Alignment explanation
Indices: 19492279--19492426 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 41
19492269 AAAAAAAATT
* *
19492279 GCCTCTGTTTAAAGGAGCTTTGTTATTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTGTTATTTCAAAAGTCGTTGA
* *
19492320 GCCT-TGATTAGAAGAGCTTTATT-TATTC-AAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTGTTAT-TTCAAAAGTCGTTGA
19492359 GCCTCTGATTAGAGGAGCTTTGTTTATGTTTTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTG-TTA----TTTCAAAAGTCGTTGA
* *
19492405 GCCTCTGCTTAGAGGAGTTTTG
1 GCCTCTGATTAGAGGAGCTTTG
19492427 ATCAAATGTC
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
39 16 0.18
40 33 0.37
41 6 0.07
45 3 0.03
46 32 0.36
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (41 bp):
GCCTCTGATTAGAGGAGCTTTGTTATTTCAAAAGTCGTTGA
Found at i:19492402 original size:46 final size:46
Alignment explanation
Indices: 19492299--19492426 Score: 162
Period size: 46 Copynumber: 2.9 Consensus size: 46
19492289 AAAGGAGCTT
*
19492299 TGTTATTTCAAAAGTCGTTGAGCCT-TGATTAGAAGAGC----TTTA
1 TGTT-TTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTA
*
19492341 T-TTATTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTA
1 TGTTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTA
* *
19492385 TGTTTTTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGTTTTG
1 TGTTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
19492427 ATCAAATGTC
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
39 15 0.20
40 15 0.20
41 2 0.03
42 1 0.01
44 5 0.07
45 5 0.07
46 31 0.42
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (46 bp):
TGTTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTA
Found at i:19492596 original size:12 final size:12
Alignment explanation
Indices: 19492581--19492624 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
19492571 CATTTTCTTT
*
19492581 TTTTATTTTATTT
1 TTTTATTTT-TTA
*
19492594 TTTTATTTTGTA
1 TTTTATTTTTTA
*
19492606 TTTTATTATTTA
1 TTTTATTTTTTA
19492618 TTTTATT
1 TTTTATT
19492625 ACATTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:19492602 original size:20 final size:20
Alignment explanation
Indices: 19492579--19492682 Score: 63
Period size: 20 Copynumber: 5.1 Consensus size: 20
19492569 CCCATTTTCT
19492579 TTTTTTATTTTATTTTTTTA
1 TTTTTTATTTTATTTTTTTA
* *
19492599 TTTTGTATTTTA-TTATTTA
1 TTTTTTATTTTATTTTTTTA
**
19492618 --TTTTATTACATTTTTATTA
1 TTTTTTATTTTATTTTT-TTA
*
19492637 TTTTTATATTATATTATATATTTA
1 TTTTT-TATTTTATT-T-T-TTTA
* *
19492661 TTTATGTA-TTTATTTATTTA
1 TTT-TTTATTTTATTTTTTTA
19492681 TT
1 TT
19492683 ACTACTATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
17 7 0.11
18 3 0.05
19 9 0.14
20 17 0.26
21 3 0.05
22 9 0.14
23 6 0.09
24 9 0.14
25 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTATTTTATTTTTTTA
Found at i:19492607 original size:15 final size:14
Alignment explanation
Indices: 19492573--19492643 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 14
19492563 GGTAAGCCCA
*
19492573 TTTTCTTTTTTTA-
1 TTTTATTTTTTTAT
19492586 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
*
19492600 TTTGTATTTTATTA-
1 TTT-TATTTTTTTAT
*
19492614 -TTTATTTTATTACAT
1 TTTTATTTT-TT-TAT
19492629 TTTTATTATTTTTAT
1 TTTTATT-TTTTTAT
19492644 ATTATATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.13
13 15 0.33
14 4 0.09
15 11 0.24
16 8 0.17
17 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:19492625 original size:12 final size:12
Alignment explanation
Indices: 19492588--19492675 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
19492578 TTTTTTTATT
19492588 TTATTT-TTTTA
1 TTATTTATTTTA
19492599 TT-TTGTATTTTA
1 TTATT-TATTTTA
19492611 TTATTTATTTTA
1 TTATTTATTTTA
**
19492623 TTACAT-TTTTA
1 TTATTTATTTTA
*
19492634 TTATTT-TTATA
1 TTATTTATTTTA
*
19492645 TTA--TATTATA
1 TTATTTATTTTA
19492655 -TATTTA-TTTA
1 TTATTTATTTTA
19492665 TGTATTTATTT
1 T-TATTTATTT
19492676 ATTTATTACT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.05
10 10 0.16
11 21 0.34
12 24 0.39
13 4 0.06
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.72
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:19492646 original size:27 final size:26
Alignment explanation
Indices: 19492608--19492678 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
19492598 ATTTTGTATT
* *
19492608 TTATTATTTATTTTATTACATTTTTA
1 TTATTATTTATTATATTACATATTTA
* *
19492634 TTATTTTTATATTATATTATATATTTA
1 TTATTATT-TATTATATTACATATTTA
19492661 TTTATGTATTTATT-TATT
1 -TTAT-TATTTATTATATT
19492679 TATTACTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
26 7 0.19
27 19 0.51
28 8 0.22
29 3 0.08
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (26 bp):
TTATTATTTATTATATTACATATTTA
Found at i:19492676 original size:12 final size:12
Alignment explanation
Indices: 19492634--19492682 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
19492624 TACATTTTTA
*
19492634 TTATTTTTATA-
1 TTATTTATATAT
19492645 TTATATTATATAT
1 TTAT-TTATATAT
*
19492658 TTATTTATGTAT
1 TTATTTATATAT
*
19492670 TTATTTATTTAT
1 TTATTTATATAT
19492682 T
1 T
19492683 ACTACTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 4 0.12
12 25 0.76
13 4 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTATTTATATAT
Found at i:19492682 original size:8 final size:8
Alignment explanation
Indices: 19492582--19492682 Score: 57
Period size: 8 Copynumber: 12.2 Consensus size: 8
19492572 ATTTTCTTTT
19492582 TTTATTTTA
1 TTTA-TTTA
*
19492591 TTTTTTTA
1 TTTATTTA
*
19492599 TTT-TGTA
1 TTTATTTA
19492606 TTT-TATTA
1 TTTAT-TTA
19492614 TTTATTT-
1 TTTATTTA
*
19492621 TATTACATT-
1 T-TTA-TTTA
*
19492630 TTTATTATT
1 TTTATT-TA
19492639 TTTATATTA
1 TTTAT-TTA
*
19492648 TATTATATA
1 T-TTATTTA
19492657 TTTATTTA
1 TTTATTTA
*
19492665 TGTATTTA
1 TTTATTTA
19492673 TTTATTTA
1 TTTATTTA
19492681 TT
1 TT
19492683 ACTACTATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
7 9 0.12
8 43 0.58
9 17 0.23
10 5 0.07
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTATTTA
Found at i:19492769 original size:22 final size:23
Alignment explanation
Indices: 19492736--19492793 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
19492726 GTTAATATTA
*
19492736 TATATATTTATCTGATTATAT-GT
1 TATA-ATTTATCTGATTATATAAT
*
19492759 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
19492781 TTTAATTTATCTG
1 TATAATTTATCTG
19492794 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:19493676 original size:5 final size:5
Alignment explanation
Indices: 19493653--19493798 Score: 57
Period size: 5 Copynumber: 28.0 Consensus size: 5
19493643 GCCGTACCAG
* * **
19493653 ATTTT TTTTT ATATAT ATTTT A-TTT A-TTT ATTATT ATTATT AGATT
1 ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATT-TT ATT-TT ATTTT
* * * * *
19493699 AGGTTT ATTTA ATATT CTTTT ATTTT AATCTTT ATTTT ATTATT TTTTT
1 A-TTTT ATTTT ATTTT ATTTT ATTTT -AT-TTT ATTTT ATT-TT ATTTT
* * * *
19493748 ACTTTT CTTTAT TTTTT ATTTT CACTTT ATTTT GTTTT A--TT ATTTT
1 A-TTTT ATTT-T ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT
19493794 ATTTT
1 ATTTT
19493799 CTTTAAATAA
Statistics
Matches: 106, Mismatches: 23, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
3 3 0.03
4 8 0.08
5 55 0.52
6 37 0.35
7 3 0.03
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (5 bp):
ATTTT
Found at i:19493742 original size:28 final size:26
Alignment explanation
Indices: 19493702--19493791 Score: 73
Period size: 28 Copynumber: 3.5 Consensus size: 26
19493692 TTAGATTAGG
* *
19493702 TTTA-TTTAATATTCTTTTATTTTAATC
1 TTTATTTTATTATTCTTTTACTTT--TC
*
19493729 TTTATTTTATTATTTTTTTACTTTTC
1 TTTATTTTATTATTCTTTTACTTTTC
*
19493755 TTTATTTT-TTA-T-TTTCACTTTAT-
1 TTTATTTTATTATTCTTTTACTTT-TC
*
19493778 TTTGTTTTATTATT
1 TTTATTTTATTATT
19493792 TTATTTTCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
23 15 0.28
24 5 0.09
25 4 0.07
26 10 0.19
27 4 0.07
28 16 0.30
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (26 bp):
TTTATTTTATTATTCTTTTACTTTTC
Found at i:19493758 original size:10 final size:8
Alignment explanation
Indices: 19493729--19493803 Score: 53
Period size: 8 Copynumber: 8.5 Consensus size: 8
19493719 TATTTTAATC
19493729 TTTATTTT
1 TTTATTTT
*
19493737 ATTATTTT
1 TTTATTTT
19493745 TTTACTTTT
1 TTTA-TTTT
19493754 CTTTA-TTT
1 -TTTATTTT
19493762 TTTATTTT
1 TTTATTTT
19493770 CACTTTATTTTGT
1 ---TTTA-TTT-T
*
19493783 TTTATTAT
1 TTTATTTT
19493791 TTTATTTT
1 TTTATTTT
19493799 CTTTA
1 -TTTA
19493804 AATAAAATCC
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
7 4 0.07
8 24 0.44
9 10 0.19
10 8 0.15
11 4 0.07
12 3 0.06
13 1 0.02
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTATTTT
Found at i:19493765 original size:17 final size:17
Alignment explanation
Indices: 19493729--19493798 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
19493719 TATTTTAATC
19493729 TTTATTTTA--TTATTTT
1 TTTATTTTACTTTA-TTT
19493745 TTTACTTTT-CTTTATTT
1 TTTA-TTTTACTTTATTT
19493762 TTTATTTTCACTTTATTT
1 TTTATTTT-ACTTTATTT
*
19493780 TGTT-TTATTATTTTATTT
1 T-TTATT-TTACTTTATTT
19493798 T
1 T
19493799 CTTTAAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.17
17 11 0.24
18 23 0.50
19 4 0.09
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTATTTTACTTTATTT
Found at i:19493787 original size:21 final size:21
Alignment explanation
Indices: 19493716--19493788 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 21
19493706 TTTAATATTC
19493716 TTTTATTTTAATCTTTATTTTA
1 TTTTATTTTAA-CTTTATTTTA
*
19493738 TTATT-TTTTTACTTT-TCTTTA
1 TT-TTATTTTAACTTTAT-TTTA
* *
19493759 TTTTTTATTTTCACTTTATTTTG
1 --TTTTATTTTAACTTTATTTTA
19493782 TTTTATT
1 TTTTATT
19493789 ATTTTATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
20 1 0.02
21 15 0.36
22 9 0.21
23 16 0.38
24 1 0.02
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.75
Consensus pattern (21 bp):
TTTTATTTTAACTTTATTTTA
Found at i:19493792 original size:13 final size:13
Alignment explanation
Indices: 19493718--19493798 Score: 51
Period size: 13 Copynumber: 5.9 Consensus size: 13
19493708 TAATATTCTT
19493718 TTATTTTAATCTTTA
1 TTATTTT-AT-TTTA
*
19493733 TT-TTATTATTTTT
1 TTATT-TTATTTTA
*
19493746 TTACTTTT-CTTTA
1 TTA-TTTTATTTTA
19493759 TT-TTTTATTTTCA
1 TTATTTTATTTT-A
*
19493772 CTTTATTTTGTTTTA
1 --TTATTTTATTTTA
19493787 TTATTTTATTTT
1 TTATTTTATTTT
19493799 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
11 4 0.08
12 3 0.06
13 22 0.42
14 6 0.12
15 9 0.17
16 8 0.15
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:19493883 original size:60 final size:59
Alignment explanation
Indices: 19493815--19494154 Score: 356
Period size: 60 Copynumber: 5.7 Consensus size: 59
19493805 ATAAAATCCA
* *
19493815 AAAAAAAATATTTTTTGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAACAACTTTTC
1 AAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTC
* * *
19493874 AAAACAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTC
1 AAAA-AAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTC
* * * *
19493934 AAAAAAAGT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTC
1 AAAAAAAATATTTTTTG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTC
**
19493993 --AAAAAAGGTTTTTT-GAAAAAGTTGAAAGTATCAA-TTTTCTT-AAAA-AAATTTTC
1 AAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTC
* * *
19494046 AAAAAAAAATGGGTTTTTTTTTTAGG-AAAAGTTGAAAGTATCAATTTTCCTT-GAAACTAAAGT
1 -AAAAAAAA------TATTTTTT-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAC-AAA-T
*
19494109 TTCC
56 TTTC
*
19494113 AAAAAAAATATATTTTGGAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTTGGA-AAAAGTTGAAAGTATCAATTTT
19494155 CCCTTGTACA
Statistics
Matches: 242, Mismatches: 19, Indels: 38
0.81 0.06 0.13
Matches are distributed among these distances:
53 8 0.03
54 3 0.01
55 7 0.03
56 25 0.10
57 5 0.02
58 12 0.05
59 51 0.21
60 60 0.25
61 22 0.09
62 6 0.02
63 18 0.07
64 10 0.04
66 11 0.05
67 4 0.02
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTC
Found at i:19493938 original size:119 final size:114
Alignment explanation
Indices: 19493813--19494154 Score: 379
Period size: 119 Copynumber: 2.9 Consensus size: 114
19493803 AAATAAAATC
* *
19493813 CAAAAAAAAATATTTTTTGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAACAACTTTTCAAAA
1 CAAAAAAAAAT-TTTTTTGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTCAAAA
19493878 CAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTT
64 -AAAATATTTTT-GGAAAAAGTTGAAAGTATCAATTTTTCTTAA-AA-AAATTTT
* * *
19493933 C-AAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAA
1 CAAAAAAAAATTTTTTT--GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTCAAAA
**
19493997 AAGGT-TTTTT-GAAAAAGTTGAAAGTATCAA-TTTTCTTAAAAAAATTTT
64 AAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAATTTT
* *
19494045 CAAAAAAAAATGGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAACTAAAGT
1 CAAAAAAAAA-------TTTTTTT-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAC-AAA-T
*
19494109 TTCCAAAAAAAATATATTTTGGAGAAAAGTTGAAAGTATCAATTTT
56 TTTCAAAAAAAATAT-TTTTGGA-AAAAGTTGAAAGTATCAATTTT
19494155 CCCTTGTACA
Statistics
Matches: 190, Mismatches: 15, Indels: 29
0.81 0.06 0.12
Matches are distributed among these distances:
112 8 0.04
113 9 0.05
114 9 0.05
115 20 0.11
117 5 0.03
118 11 0.06
119 79 0.42
120 21 0.11
121 1 0.01
122 4 0.02
123 2 0.01
124 18 0.09
125 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (114 bp):
CAAAAAAAAATTTTTTTGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAACAAATTTTCAAAAAA
AATATTTTTGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAATTTT
Found at i:19495819 original size:8 final size:8
Alignment explanation
Indices: 19495806--19495830 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19495796 CAAAAATAAT
19495806 TATAAATA
1 TATAAATA
19495814 TATAAATA
1 TATAAATA
19495822 TATAAATA
1 TATAAATA
19495830 T
1 T
19495831 GCAATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAAATA
Found at i:19496226 original size:16 final size:16
Alignment explanation
Indices: 19496179--19496232 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19496169 TATTGATGAG
19496179 ATAAAAAAAT-TATAAA
1 ATAAAAAAATATA-AAA
* *
19496195 ATATAATAATATTAAAA
1 ATAAAAAAATA-TAAAA
*
19496212 ATAAAAAAATATAAAT
1 ATAAAAAAATATAAAA
19496228 ATAAA
1 ATAAA
19496233 GATGTAATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
17 12 0.39
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAAATATAAAA
Found at i:19497754 original size:16 final size:16
Alignment explanation
Indices: 19497735--19497776 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19497725 AAATTTAATA
*
19497735 ATTTAAAAAATAATTT
1 ATTTAAAAAATAATTC
*
19497751 ATTTATTAAAATAATTC
1 ATTTA-AAAAATAATTC
19497768 A-TTAAAAAA
1 ATTTAAAAAA
19497777 AAAATACTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTAAAAAATAATTC
Found at i:19501302 original size:41 final size:41
Alignment explanation
Indices: 19501257--19501515 Score: 395
Period size: 41 Copynumber: 6.5 Consensus size: 41
19501247 AATATCTGAT
*
19501257 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAA
*
19501298 CATGCAA--ATATATATTATCATGCAATTAACAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAA
*
19501337 CATGCAATTAAATATATAATCATGCAATTAAC-A-A-AAAA
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAA
* *
19501375 -ATGCAATTAAATATATTATCATGCTATTAACAATATAACA
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAA
*
19501415 CATGCAAATAAATATATTATCATGCAATTAACAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAA
* *
19501456 TATGCAATTAAATATATTATCATGCAATTAATAATATAAAA
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAA
*
19501497 CATGCAAATAAATATATTA
1 CATGCAATTAAATATATTA
19501516 GTAATTAAGC
Statistics
Matches: 197, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
37 29 0.15
38 5 0.03
39 39 0.20
40 4 0.02
41 120 0.61
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (41 bp):
CATGCAATTAAATATATTATCATGCAATTAACAATATAAAA
Found at i:19501408 original size:78 final size:82
Alignment explanation
Indices: 19501257--19501513 Score: 400
Period size: 78 Copynumber: 3.2 Consensus size: 82
19501247 AATATCTGAT
* *
19501257 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAACATGCAA--ATATATATTATCATG
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATG
19501320 CAATTAACAATATAAAA
66 CAATTAACAATATAAAA
*
19501337 CATGCAATTAAATATATAATCATGCAATTAAC-A-A-AAAA-ATGCAATTAAATATATTATCATG
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATG
* *
19501398 CTATTAACAATATAACA
66 CAATTAACAATATAAAA
* *
19501415 CATGCAAATAAATATATTATCATGCAATTAACAATATAAAATATGCAATTAAATATATTATCATG
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATG
*
19501480 CAATTAATAATATAAAA
66 CAATTAACAATATAAAA
19501497 CATGCAAATAAATATAT
1 CATGCAAATAAATATAT
19501514 TAGTAATTAA
Statistics
Matches: 163, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
76 6 0.04
77 4 0.02
78 60 0.37
79 2 0.01
80 33 0.20
81 4 0.02
82 54 0.33
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (82 bp):
CATGCAAATAAATATATAATCATGCAATTAACAATATAAAACATGCAATTAAATATATTATCATG
CAATTAACAATATAAAA
Found at i:19501411 original size:100 final size:100
Alignment explanation
Indices: 19501195--19501504 Score: 291
Period size: 100 Copynumber: 3.1 Consensus size: 100
19501185 ATGCAAATAG
* * *
19501195 ACATGCAATTAAATAT-ACAATCATGCAATTAACAATGTAAAACATGCAATTAAATATCTGATCA
1 ACATGCAA--AAATATAAC-ATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCA
*
19501259 TGCAATTAAATATATAATCATGCAATTAACAATATAAA
63 TGCAATTAAATATATAATAATGCAATTAACAATATAAA
* **
19501297 ACATGCAAATATATATTATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGC
1 ACATGCAAAAATATAACATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGC
*
19501362 AATTAACA-A-A-AA-AATGCAATT-A-AATATATTA
66 AATTAA-ATATATAATAATGCAATTAACAATATA-AA
* * * * *
19501393 TCATGCTATTAACAATATAACA-CATGCAAAT-A-AATATATTATCATGCAATTAACAATATAAA
1 ACATGC-A--AA-AATATAACATCATGCAATTAACAATATA-AAACATGCAATT-A-AATATATA
* * *
19501455 AT-ATGCAATTAAATATATTATCATGCAATTAATAATATAAA
59 ATCATGCAATTAAATATATAATAATGCAATTAACAATATAAA
19501496 ACATGCAAA
1 ACATGCAAA
19501505 TAAATATATT
Statistics
Matches: 172, Mismatches: 20, Indels: 34
0.76 0.09 0.15
Matches are distributed among these distances:
95 6 0.03
96 7 0.04
97 15 0.09
98 14 0.08
99 23 0.13
100 75 0.44
101 2 0.01
102 17 0.10
103 7 0.04
104 6 0.03
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (100 bp):
ACATGCAAAAATATAACATCATGCAATTAACAATATAAAACATGCAATTAAATATATAATCATGC
AATTAAATATATAATAATGCAATTAACAATATAAA
Found at i:19501479 original size:119 final size:121
Alignment explanation
Indices: 19501257--19501515 Score: 409
Period size: 119 Copynumber: 2.2 Consensus size: 121
19501247 AATATCTGAT
*
19501257 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAACATGCAAATATATATTATCATGCA
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATATATATTATCATGCA
*
19501322 ATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAA-CA-A-AAAA
66 ATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAATAATATAAAA
* *
19501375 -ATGCAATTAAATATATTATCATGCTATTAACAATATAACACATGCAAATAAATATATTATCATG
1 CATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAAT--ATATATTATCATG
* *
19501439 CAATTAACAATATAAAATATGCAATTAAATATATTATCATGCAATTAATAATATAAAA
64 CAATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAATAATATAAAA
*
19501497 CATGCAAATAAATATATTA
1 CATGCAATTAAATATATTA
19501516 GTAATTAAGC
Statistics
Matches: 128, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
117 46 0.36
119 59 0.46
120 1 0.01
121 1 0.01
122 4 0.03
123 17 0.13
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (121 bp):
CATGCAATTAAATATATTATCATGCAATTAACAATATAAAACATGCAAATATATATTATCATGCA
ATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAATAATATAAAA
Found at i:19501527 original size:24 final size:24
Alignment explanation
Indices: 19501500--19501633 Score: 95
Period size: 24 Copynumber: 5.8 Consensus size: 24
19501490 TATAAAACAT
*
19501500 GCAAATAAATATATTAGTAATTAA
1 GCAAATAAATATATTAATAATTAA
* *
19501524 GCAATTAAATATATTAATAATTAT
1 GCAAATAAATATATTAATAATTAA
*
19501548 GC-AATCAAAT-TA-AATATAATTATA
1 GCAAAT-AAATATATTA-ATAATTA-A
19501572 -CAAATAAATATATTAATAA-T--
1 GCAAATAAATATATTAATAATTAA
** *
19501592 -CATGTAAATATATTAATAAATAA
1 GCAAATAAATATATTAATAATTAA
* *
19501615 CACAAATAAACATATTAAT
1 -GCAAATAAATATATTAAT
19501634 CATGCAAACA
Statistics
Matches: 87, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
20 17 0.20
21 1 0.01
22 1 0.01
23 17 0.20
24 36 0.41
25 15 0.17
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (24 bp):
GCAAATAAATATATTAATAATTAA
Found at i:19501580 original size:47 final size:45
Alignment explanation
Indices: 19501529--19501633 Score: 122
Period size: 47 Copynumber: 2.3 Consensus size: 45
19501519 ATTAAGCAAT
* * * *
19501529 TAAATATATTAATAATTATG-CAATCAAATTAAATATAATTATACAAA
1 TAAATATATTAATAATCATGTAAAT-AAATT-AATA-AATAACACAAA
*
19501576 TAAATATATTAATAATCATGTAAATATATTAATAAATAACACAAA
1 TAAATATATTAATAATCATGTAAATAAATTAATAAATAACACAAA
*
19501621 TAAACATATTAAT
1 TAAATATATTAAT
19501634 CATGCAAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
45 21 0.41
46 4 0.08
47 23 0.45
48 3 0.06
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (45 bp):
TAAATATATTAATAATCATGTAAATAAATTAATAAATAACACAAA
Found at i:19501675 original size:16 final size:17
Alignment explanation
Indices: 19501633--19501682 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19501623 AACATATTAA
*
19501633 TCATGCAAACAAATATG
1 TCATGCAAATAAATATG
* *
19501650 TTAGGCAAATAAAT-TG
1 TCATGCAAATAAATATG
19501666 TCATGCAAATATAATAT
1 TCATGCAAATA-AATAT
19501683 TAATCATGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 11 0.42
17 14 0.54
18 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (17 bp):
TCATGCAAATAAATATG
Found at i:19502550 original size:21 final size:21
Alignment explanation
Indices: 19502524--19502569 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19502514 CACAAATTTA
*
19502524 TATTTAGTATCTTTATAT-TAT
1 TATTTA-TATATTTATATATAT
*
19502545 TATTTATCTATTTATATATAT
1 TATTTATATATTTATATATAT
19502566 TATT
1 TATT
19502570 ATTTATCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TATTTATATATTTATATATAT
Found at i:19502552 original size:18 final size:20
Alignment explanation
Indices: 19502531--19502569 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19502521 TTATATTTAG
19502531 TATC-TTTATAT-TATTATT
1 TATCATTTATATATATTATT
19502549 TATCTATTTATATATATTATT
1 TATC-ATTTATATATATTATT
19502570 ATTTATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TATCATTTATATATATTATT
Found at i:19502556 original size:8 final size:7
Alignment explanation
Indices: 19502519--19502604 Score: 50
Period size: 8 Copynumber: 11.4 Consensus size: 7
19502509 TCTATCACAA
19502519 ATTTA-T
1 ATTTATT
*
19502525 ATTTAGT
1 ATTTATT
*
19502532 ATCT-TT
1 ATTTATT
19502538 ATATTATT
1 AT-TTATT
19502546 ATTTATCT
1 ATTTAT-T
19502554 ATTTATAT
1 ATTTAT-T
19502562 ATATTATT
1 AT-TTATT
19502570 ATTTATCT
1 ATTTAT-T
*
19502578 ATTAATT
1 ATTTATT
*
19502585 AATATATT
1 -ATTTATT
19502593 ATCCTTATT
1 AT--TTATT
19502602 ATT
1 ATT
19502605 ATCTTTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
6 8 0.13
7 17 0.27
8 28 0.44
9 10 0.16
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (7 bp):
ATTTATT
Found at i:19502569 original size:24 final size:26
Alignment explanation
Indices: 19502537--19502594 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
19502527 TTAGTATCTT
*
19502537 TATATTATTATTTATCTATTTA-T-A
1 TATATTATTATTTATCTATTAATTAA
19502561 TATATTATTATTTATCTATTAATTAA
1 TATATTATTATTTATCTATTAATTAA
19502587 TATATTAT
1 TATATTAT
19502595 CCTTATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 21 0.68
25 1 0.03
26 9 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATTATTATTTATCTATTAATTAA
Found at i:19502627 original size:15 final size:16
Alignment explanation
Indices: 19502597--19502629 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19502587 TATATTATCC
*
19502597 TTATTATTATCTTTTT
1 TTATTATTATCATTTT
19502613 TTATT-TTATCATTTT
1 TTATTATTATCATTTT
19502628 TT
1 TT
19502630 TCTTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTATTATCATTTT
Found at i:19502627 original size:16 final size:15
Alignment explanation
Indices: 19502597--19502635 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19502587 TATATTATCC
19502597 TTATTATTATCTTTTT
1 TTATT-TTATCTTTTT
19502613 TTATTTTATCATTTTT
1 TTATTTTATC-TTTTT
*
19502629 TTCTTTT
1 TTATTTT
19502636 CTTTTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTATCTTTTT
Found at i:19503397 original size:16 final size:16
Alignment explanation
Indices: 19503365--19503410 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19503355 GAGCCACTCC
*
19503365 ATTTTTTTTTCAT-TTT
1 ATTTTTTTAT-ATATTT
19503381 ATTTTTTTATATATTT
1 ATTTTTTTATATATTT
*
19503397 ATTTATTTAT-TATT
1 ATTTTTTTATATATT
19503411 ATTGTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTATATATTT
Found at i:19503474 original size:13 final size:13
Alignment explanation
Indices: 19503457--19503487 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
19503447 TTTTTCCTTT
19503457 ATTTTTATTTT-C
1 ATTTTTATTTTAC
19503469 ATTTTTATTTTAC
1 ATTTTTATTTTAC
19503482 ATTTTT
1 ATTTTT
19503488 TTTCTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTATTTTAC
Found at i:19503585 original size:59 final size:59
Alignment explanation
Indices: 19503504--19503834 Score: 353
Period size: 58 Copynumber: 5.7 Consensus size: 59
19503494 TAAATAATTT
* ** *
19503504 AAAAAAA-A-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTAC
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCTTCAAAATTAAAGTTTTC
* * *
19503561 AAAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTT-ACAGA-TAAA-TTTTC
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAA-TTTTCTTCA-AAATTAAAGTTTTC
* * * *
19503619 AAAAAAAGGATTTTT-GAGGAAAAGTTGAAAGTATCAATTATCCTCGAAATTAAAGTTTTC
1 AAAAAAA-TATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCTTCAAAATTAAAGTTTTC
* * *
19503679 AAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTT-AAAAAT-AAGTTTTC
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAA-TTTTCTTCAAAATTAAAGTTTTC
* *
19503737 AAAAATGA-ATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAG-TTTC
1 AAAAA-AATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCTTCAAAATTAAAGTTTTC
*
19503795 AAAAGAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTT
19503835 TCCTGCATAA
Statistics
Matches: 229, Mismatches: 27, Indels: 35
0.79 0.09 0.12
Matches are distributed among these distances:
57 16 0.07
58 99 0.43
59 87 0.38
60 27 0.12
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.35
Consensus pattern (59 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCTTCAAAATTAAAGTTTTC
Found at i:19503647 original size:118 final size:116
Alignment explanation
Indices: 19503504--19503836 Score: 483
Period size: 118 Copynumber: 2.9 Consensus size: 116
19503494 TAAATAATTT
* * *
19503504 AAAAAA-AA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAGTTTACAAAAAA
1 AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT-CAAAAAA
* * *
19503567 ATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTTACAGATAAATTTTC
65 ATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
19503619 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTATCCTCGAAATTAAAGTTTTCAAAAA
1 -AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTTCAAAAA
* *
19503684 AATATTTTTGGGGAAAAGTTGAAAA-TATCAATTTTTCTTAAAAATAAGTTTTC
64 AATATTTTTGGGAAAAAGTT-AAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
19503737 AAAAATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCAAAAGAA
1 AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAAA
*
19503802 TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
66 TATTTTTGGGAAAAAGTTAAAAGTATCAATTTTTC
19503837 CTGCATAAAA
Statistics
Matches: 195, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
115 3 0.02
116 45 0.23
117 51 0.26
118 89 0.46
119 7 0.04
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (116 bp):
AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAAA
TATTTTTGGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:19507824 original size:8 final size:8
Alignment explanation
Indices: 19507795--19507842 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
19507785 AAATTTTAAA
19507795 AAAAAATG
1 AAAAAATG
19507803 AAAGAAA-G
1 AAA-AAATG
19507811 AAAAAAAATG
1 --AAAAAATG
19507821 AAAAAATG
1 AAAAAATG
*
19507829 AGAAAATG
1 AAAAAATG
19507837 AAAAAA
1 AAAAAA
19507843 AAATTCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 24 0.71
9 6 0.18
10 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:19507834 original size:18 final size:17
Alignment explanation
Indices: 19507793--19507826 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
19507783 AAAAATTTTA
19507793 AAAAAAAATGAAAGAAAG
1 AAAAAAAATGAAA-AAAG
19507811 AAAAAAAATGAAAAAA
1 AAAAAAAATGAAAAAA
19507827 TGAGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAAAATGAAAAAAG
Found at i:19507839 original size:26 final size:26
Alignment explanation
Indices: 19507795--19507844 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
19507785 AAATTTTAAA
19507795 AAAAAATGAAAGAAAGAAAAAAAATG
1 AAAAAATGAAAGAAAGAAAAAAAATG
*
19507821 AAAAAATGAGAA-AATGAAAAAAAA
1 AAAAAATGA-AAGAAAGAAAAAAAA
19507845 ATTCAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (26 bp):
AAAAAATGAAAGAAAGAAAAAAAATG
Found at i:19507844 original size:10 final size:10
Alignment explanation
Indices: 19507757--19507826 Score: 63
Period size: 10 Copynumber: 7.0 Consensus size: 10
19507747 AAAAGAAGAT
19507757 AATGAAAAAA
1 AATGAAAAAA
*
19507767 AATGGAAAAA
1 AATGAAAAAA
19507777 AATGGAAAAAA
1 AAT-GAAAAAA
** *
19507788 TTTTAAAAAAA
1 -AATGAAAAAA
*
19507799 AATG-AAAGA
1 AATGAAAAAA
19507808 AA-GAAAAAA
1 AATGAAAAAA
19507817 AATGAAAAAA
1 AATGAAAAAA
19507827 TGAGAAAATG
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 1 0.02
9 12 0.26
10 20 0.43
11 12 0.26
12 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (10 bp):
AATGAAAAAA
Found at i:19509685 original size:84 final size:82
Alignment explanation
Indices: 19509509--19509816 Score: 404
Period size: 84 Copynumber: 3.7 Consensus size: 82
19509499 ATGATTGTGA
* *
19509509 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGTAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTC-AAAGT
19509574 TGAGGTGCCTCTG-TTTAG
65 TGAGGTGCCTC-GATTTAG
* * *
19509592 AGGGGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTGTTTAGAGGAGCAATTTATTTTTCAAAG
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTC--TATTTAGAGGAGCAATTTACTTTTCAAAG
19509657 TTGAGGTGCCTCGATTTAG
64 TTGAGGTGCCTCGATTTAG
* * *
19509676 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGTAATTTACTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTT
* * *
19509741 GTGGTTGCCCCCTATTTAG
66 GAGG-TG-CCTCGATTTAG
** * * *
19509760 AAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTTTGTTTAGAGGAGC-ATTTATTTTT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTT
19509817 GAAGTCATGG
Statistics
Matches: 199, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
82 29 0.15
83 43 0.22
84 105 0.53
85 22 0.11
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTT
GAGGTGCCTCGATTTAG
Found at i:19509767 original size:125 final size:126
Alignment explanation
Indices: 19509512--19509816 Score: 402
Period size: 125 Copynumber: 2.4 Consensus size: 126
19509502 ATTGTGAAGG
* * *
19509512 AGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGTAATTTACTTTTCAAAAGTTGA
1 AGCAATTTACTTTTCAAAGTTGTGGTGCCTCGATTTAGAGGAGCAATTTACTTTTCAAAAGTTGA
* * * * ** * **
19509577 GGTGCCTCTGTTTAGAGGGGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTGTTTAGAGG
66 GGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCCCTATTTAGAAA
* * *
19509638 AGCAATTTATTTTTCAAAGTTGAGGTGCCTCGATTTAGAGGAGCAATTTACTTTTC-AAAGTTGT
1 AGCAATTTACTTTTCAAAGTTGTGGTGCCTCGATTTAGAGGAGCAATTTACTTTTCAAAAGTTGA
*
19509702 GGTGCCTCTATTTAGAGGAGTAATTTACTTTCCAAAGTCGTGGTTGCC-CCCTATTTAGAAA
66 GGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG-TGCCTCCCTATTTAGAAA
* *
19509763 AGCAATTTACTTTTCAAAGTTGTGGTGCCTTTG-TTTAGAGGAGC-ATTTATTTTT
1 AGCAATTTACTTTTCAAAGTTGTGGTGCC-TCGATTTAGAGGAGCAATTTACTTTT
19509817 GAAGTCATGG
Statistics
Matches: 157, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
124 9 0.06
125 91 0.58
126 57 0.36
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (126 bp):
AGCAATTTACTTTTCAAAGTTGTGGTGCCTCGATTTAGAGGAGCAATTTACTTTTCAAAAGTTGA
GGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCCCTATTTAGAAA
Found at i:19510010 original size:41 final size:41
Alignment explanation
Indices: 19509509--19510009 Score: 443
Period size: 41 Copynumber: 12.1 Consensus size: 41
19509499 ATGATTGTGA
*
19509509 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
19509550 AGGAGTAATTTACTTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* *
19509592 AGGGGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTC--TGTTTAG
* * *
19509635 AGGAGCAATTTATTTTTCAAAGTTGAGGTGCCTC-GATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG-TTTAG
* *
19509676 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
19509717 AGGAGTAATTTACTTTCCAAAGTCGTGGTTGCCCCCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGG-TG-CCTCTGTTTAG
** * *
19509760 AAAAGCAATTTACTTTTCAAAGTTGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
** * * *
19509801 AGGAGC-ATTTA-TTTTTGAAGTCATGGTGCTTCTGCTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *** * * * * *
19509840 AGAATTTATTTATTTTTCAAAGTCGTTGAGCATCTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * **
19509881 AGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *** * * *
19509922 AGGAGCCATTTATTTTTCAAAGTCGTTAAGCTTCTGATTGG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
19509963 AAGAGCTATTTA-TTTCTCAAAGTCGTAGAGCCTCTGCTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
19510004 AGGAGC
1 AGGAGC
19510010 TTTAATCAAA
Statistics
Matches: 388, Mismatches: 62, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
39 24 0.06
40 14 0.04
41 239 0.62
42 40 0.10
43 71 0.18
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:19510083 original size:88 final size:90
Alignment explanation
Indices: 19509979--19510194 Score: 230
Period size: 87 Copynumber: 2.5 Consensus size: 90
19509969 TATTTATTTC
19509979 TCAAAGTCG-TAGAGCCTCTGCTTAGAGGAGCTTTAATCAAAATTAAAAAAAAAATT-A-CCTCC
1 TCAAAGTCGTTA-AGCCTCTGCTTAGAGGAGCTTTAATCAAAATTAAAAAAAAAATTGAGCCTCC
*
19510041 -ATTTAGAGGAGCTTTGTTTATGCTTT
65 GA-TTAGAGGAGCATTGTTTATGCTTT
* * *** ***
19510067 TCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTATTC---ATTTTCAAAGTCATTGAGCCTCCG
1 TCAAAGTCGTTAAGCCTCTGCTTAGAGGAGCTTTAATCAAAATTAAAAAAAAAATTGAGCCTCCG
*
19510129 ATTAGAGGAGCATTGTTTATGTTTT
66 ATTAGAGGAGCATTGTTTATGCTTT
* * * * *
19510154 TCAAAATCGTTGAGCTTCTGCTTAGAGGAGCCTTGATCAAA
1 TCAAAGTCGTTAAGCCTCTGCTTAGAGGAGCTTTAATCAAA
19510195 TCTTAAACAC
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
85 9 0.09
86 1 0.01
87 58 0.56
88 34 0.33
89 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (90 bp):
TCAAAGTCGTTAAGCCTCTGCTTAGAGGAGCTTTAATCAAAATTAAAAAAAAAATTGAGCCTCCG
ATTAGAGGAGCATTGTTTATGCTTT
Found at i:19510158 original size:87 final size:84
Alignment explanation
Indices: 19509844--19510184 Score: 234
Period size: 82 Copynumber: 4.0 Consensus size: 84
19509834 GCTTAGAGAA
* * * *
19509844 TTTATTTATTTTTCAAAGTCGTTGAGCATCTGATTAGAGGAGCCA--TTTATTTTTCAAAGTCGT
1 TTTATTCA-TTTTCAAAGTCATTGAGCCTCCGATTAGAGGAG-CATGTTTATTTTTCAAAGTCGT
* *
19509907 TGAGCCTCTAATTAGAGGAGCC
64 TAAGCCTCTGATTAGAGGAG-C
* * * * * * * *
19509929 ATTTA-T--TTTTCAAAGTCGTTAAGCTTCTGATTGGAAGAGC-TATTTATTTCTCAAAGTCG-T
1 -TTTATTCATTTTCAAAGTCATTGAGCCTCCGATTAGAGGAGCATGTTTATTTTTCAAAGTCGTT
*
19509989 AGAGCCTCTGCTTAGAGGAGC
65 A-AGCCTCTGATTAGAGGAGC
* *** *** *
19510010 TTTAATCAAAATTAAAAAAAAAATT-A-CCTCC-ATTTAGAGGAGCTTTGTTTATGCTTTTCAAA
1 TTTATTC---ATTTTCAAAGTCATTGAGCCTCCGA-TTAGAGGAGC-ATGTTTAT--TTTTCAAA
19510072 GTCGTTAAGCCTCTGATTAGAGGAGC
59 GTCGTTAAGCCTCTGATTAGAGGAGC
*
19510098 TTTATTCATTTTCAAAGTCATTGAGCCTCCGATTAGAGGAGCATTGTTTATGTTTTTCAAAATCG
1 TTTATTCATTTTCAAAGTCATTGAGCCTCCGATTAGAGGAGCA-TGTTTA--TTTTTCAAAGTCG
* * *
19510163 TTGAGCTTCTGCTTAGAGGAGC
63 TTAAGCCTCTGATTAGAGGAGC
19510185 CTTGATCAAA
Statistics
Matches: 200, Mismatches: 34, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
80 4 0.02
81 4 0.02
82 61 0.31
83 1 0.00
84 11 0.05
85 11 0.05
86 18 0.09
87 51 0.25
88 36 0.18
89 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (84 bp):
TTTATTCATTTTCAAAGTCATTGAGCCTCCGATTAGAGGAGCATGTTTATTTTTCAAAGTCGTTA
AGCCTCTGATTAGAGGAGC
Found at i:19510168 original size:45 final size:44
Alignment explanation
Indices: 19509853--19510184 Score: 199
Period size: 41 Copynumber: 7.8 Consensus size: 44
19509843 ATTTATTTAT
* **
19509853 TTTTCAAAGTCGTTGAGCATCTGATTAGAGGAGC-CATTTAT--
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATGA
* **
19509894 TTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGC-CATTTAT--
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATGA
* * * * *
19509935 TTTTCAAAGTCGTTAAGCTTCTGATTGGAAGAGC-TATTTAT--
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATGA
* * * * **
19509976 TTCTCAAAGTCGTAGAGCCTCTGCTTAGAGGAGCTT-TAATCAAAA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGT--TTATGA
*** **** * *
19510021 TTAAAAAAAAAATT-A-CCTC-CATTTAGAGGAGCTTTGTTTATGC
1 TTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGC-TTGTTTATGA
* * *
19510064 TTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTT-TAT-TCA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATGA
* * *
19510106 TTTTCAAAGTCATTGAGCCTCCGATTAGAGGAGCATTGTTTATGT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TTGTTTATGA
* * *
19510151 TTTTCAAAATCGTTGAGCTTCTGCTTAGAGGAGC
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
19510185 CTTGATCAAA
Statistics
Matches: 224, Mismatches: 53, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
41 102 0.46
42 33 0.15
43 29 0.13
44 8 0.04
45 51 0.23
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (44 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATGA
Found at i:19510412 original size:29 final size:29
Alignment explanation
Indices: 19510379--19510484 Score: 124
Period size: 29 Copynumber: 3.6 Consensus size: 29
19510369 TTTTTTTTTA
*
19510379 TTATTATTTTGTATTTTATATTTTATATT
1 TTATTATTTTTTATTTTATATTTTATATT
19510408 TTATTATTTTATTATTTT-TATTTTATATT
1 TTATTATTTT-TTATTTTATATTTTATATT
* * *
19510437 TTATATTTTTTTTCTTTTATATTTTATGTAT
1 TTAT-TATTTTTTATTTTATATTTTATAT-T
*
19510468 TTATTATTCATTTATTT
1 TTATTATT-TTTTATTT
19510485 ATTGTTACTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
29 31 0.48
30 23 0.35
31 11 0.17
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (29 bp):
TTATTATTTTTTATTTTATATTTTATATT
Found at i:19510460 original size:36 final size:37
Alignment explanation
Indices: 19510369--19510461 Score: 136
Period size: 36 Copynumber: 2.5 Consensus size: 37
19510359 GTCCACCTTG
*
19510369 TTTTTTTTTATTATTATTTTGTATTTTATATTTTATA
1 TTTTTTTTTTTTATTATTTTGTATTTTATATTTTATA
* *
19510406 TTTTATTATTTTATTATTTT-TATTTTATATTTTATA
1 TTTTTTTTTTTTATTATTTTGTATTTTATATTTTATA
19510442 TTTTTTTTCTTTTA-TATTTT
1 TTTTTTTT-TTTTATTATTTT
19510462 ATGTATTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 28 0.56
37 22 0.44
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (37 bp):
TTTTTTTTTTTTATTATTTTGTATTTTATATTTTATA
Found at i:19510463 original size:7 final size:7
Alignment explanation
Indices: 19510383--19510445 Score: 92
Period size: 7 Copynumber: 8.9 Consensus size: 7
19510373 TTTTTATTAT
*
19510383 TATTTTG
1 TATTTTA
19510390 TATTTTA
1 TATTTTA
19510397 TATTTTA
1 TATTTTA
19510404 TATTTTA
1 TATTTTA
19510411 TTATTTTA
1 -TATTTTA
19510419 TTATTTT-
1 -TATTTTA
19510426 TATTTTA
1 TATTTTA
19510433 TATTTTA
1 TATTTTA
19510440 TATTTT
1 TATTTT
19510446 TTTTCTTTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
6 6 0.11
7 33 0.62
8 14 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (7 bp):
TATTTTA
Found at i:19510536 original size:36 final size:35
Alignment explanation
Indices: 19510375--19510536 Score: 89
Period size: 36 Copynumber: 4.8 Consensus size: 35
19510365 CTTGTTTTTT
*
19510375 TTTATTATTATTTT-GTATTTTA-TATT--T-TATA
1 TTTATT-TTATTTTATTATTTTATTATTAATATATA
* *
19510406 TTT-TATTATTTTATTATTTTTATT-TTATATTTTATA
1 TTTATTTTATTTTATTA-TTTTATTATTA-A-TATATA
* *
19510442 TTTTTTTTCTTTTA-TATTTTATGTATT--TAT-TA
1 TTTATTTTATTTTATTATTTTAT-TATTAATATATA
* * *
19510474 TTCA-TTTA-TTTATTGTTACTATTTATTAATATATA
1 TTTATTTTATTTTATTATT-TTA-TTATTAATATATA
19510509 TTTATTTTATTTTATTACTTTTATTATT
1 TTTATTTTATTTTATTA-TTTTATTATT
19510537 TATCTGTTGA
Statistics
Matches: 98, Mismatches: 13, Indels: 35
0.67 0.09 0.24
Matches are distributed among these distances:
29 7 0.07
30 7 0.07
31 16 0.16
32 11 0.11
33 3 0.03
34 3 0.03
35 12 0.12
36 19 0.19
37 18 0.18
38 2 0.02
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (35 bp):
TTTATTTTATTTTATTATTTTATTATTAATATATA
Found at i:19510588 original size:14 final size:14
Alignment explanation
Indices: 19510377--19510633 Score: 69
Period size: 14 Copynumber: 18.4 Consensus size: 14
19510367 TGTTTTTTTT
*
19510377 TATTATTATTT-TG
1 TATTATTATTTATA
*
19510390 TATTTTATATTTTATA
1 TATTAT-TA-TTTATA
*
19510406 TTTTATTATTT-TA
1 TATTATTATTTATA
*
19510419 TTATTTTTATTT-TA
1 -TATTATTATTTATA
19510433 TATT-TTATATT-T-
1 TATTATTAT-TTATA
*
19510445 T-TT-TTCTTT-TA
1 TATTATTATTTATA
* *
19510456 TATT-TTATGTATT
1 TATTATTATTTATA
*
19510469 TATTATTCATTTATT
1 TATTATT-ATTTATA
* * *
19510484 TATTGTTA-CTATT
1 TATTATTATTTATA
* * *
19510497 TATTAATATATATT
1 TATTATTATTTATA
19510511 TATT-TTATTTTATTA
1 TATTATTA-TTTA-TA
* *
19510526 CTTTTATTATTTATC
1 -TATTATTATTTATA
* * *
19510541 TGTTGATATATATATG
1 TATT-AT-TATTTATA
*
19510557 TATTATTATTTATC
1 TATTATTATTTATA
19510571 TATT-TATATATTAT-
1 TATTAT-TAT-TTATA
19510585 TATTATTTATCTATATA
1 TATTA-TTAT-T-TATA
*
19510602 TATTATTATTTATC
1 TATTATTATTTATA
*
19510616 TATTA--ATTAATA
1 TATTATTATTTATA
19510628 TATTAT
1 TATTAT
19510634 CCTTATTATT
Statistics
Matches: 189, Mismatches: 31, Indels: 48
0.71 0.12 0.18
Matches are distributed among these distances:
10 3 0.02
11 6 0.03
12 21 0.11
13 32 0.17
14 58 0.31
15 32 0.17
16 29 0.15
17 8 0.04
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTATTATTTATA
Found at i:19510600 original size:91 final size:84
Alignment explanation
Indices: 19510397--19510612 Score: 197
Period size: 91 Copynumber: 2.5 Consensus size: 84
19510387 TTGTATTTTA
* * *
19510397 TATTT-TATATT-TTATTATTTTATTATTTTTATTTTATATTTTATATTTTTTTTCTTTTATATT
1 TATTTATATATTATTATTA-TTTATTATATTTATTTTATTTTTTATATTTTTTTTCTTTGATATT
* *
19510460 TTATGTATTTATTATTCATT
65 ATATGTATTTATTATTCATC
* * * *
19510480 TATTTAT-TGTTACTATTTATTAATATATATTTATTTTATTTTATTACTTTTATTATTTATCTGT
1 TATTTATATATTATTA-TTATTTAT-TATATTTATTTTATTTT-TTA-TATT-TT-TTT-TCT-T
*
19510544 TGATATATATATGTA-TTATTATTTATC
58 TGATAT-TATATGTATTTATTATTCATC
*
19510571 TATTTATATATTATTATTATTTATCTATATATATTATTATTT
1 TATTTATATATTATTATTATTTAT-TATATTTATT-TTATTT
19510613 ATCTATTAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
83 8 0.08
84 7 0.07
85 18 0.17
86 3 0.03
87 3 0.03
88 2 0.02
89 3 0.03
90 3 0.03
91 39 0.37
92 19 0.18
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (84 bp):
TATTTATATATTATTATTATTTATTATATTTATTTTATTTTTTATATTTTTTTTCTTTGATATTA
TATGTATTTATTATTCATC
Found at i:19510644 original size:20 final size:18
Alignment explanation
Indices: 19510559--19510645 Score: 79
Period size: 20 Copynumber: 4.6 Consensus size: 18
19510549 TATATATGTA
19510559 TTATTATTTATCTATTTAT-
1 TTATTA-TTAT-TATTTATC
*
19510578 ATATTATTATTATTTATC
1 TTATTATTATTATTTATC
19510596 TATATATATTATTATTTATC
1 T-TAT-TATTATTATTTATC
*
19510616 -TATTAATTAATATATTATCC
1 TTATT-ATTATTAT-TTAT-C
19510636 TTATTATTAT
1 TTATTATTAT
19510646 CTTTTTTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 8 0.14
18 14 0.25
19 12 0.21
20 19 0.33
21 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATTATTATTTATC
Found at i:19510662 original size:12 final size:13
Alignment explanation
Indices: 19510639--19510668 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
19510629 ATTATCCTTA
19510639 TTATTATCTTTTT
1 TTATTATCTTTTT
19510652 TTATTAT-TTTTT
1 TTATTATCTTTTT
19510664 TTATT
1 TTATT
19510669 TTATCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATCTTTTT
Found at i:19510678 original size:16 final size:15
Alignment explanation
Indices: 19510636--19510680 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
19510626 TATATTATCC
19510636 TTATTATTATCTTTTT
1 TTATT-TTATCTTTTT
19510652 TTA--TTAT-TTTTT
1 TTATTTTATCTTTTT
19510664 TTATTTTATCATTTTT
1 TTATTTTATC-TTTTT
19510680 T
1 T
19510681 CTCTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.32
13 4 0.16
14 4 0.16
16 9 0.36
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTATCTTTTT
Found at i:19511556 original size:9 final size:10
Alignment explanation
Indices: 19511527--19511566 Score: 55
Period size: 9 Copynumber: 3.9 Consensus size: 10
19511517 TTTTTTTACA
19511527 TATTTATATATT
1 TATTTAT-TA-T
19511539 TATTTATTAT
1 TATTTATTAT
19511549 TA-TTATTAT
1 TATTTATTAT
19511558 TATTTATTA
1 TATTTATTA
19511567 ATTAGATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.33
10 9 0.33
11 2 0.07
12 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTTATTAT
Found at i:19511575 original size:19 final size:19
Alignment explanation
Indices: 19511538--19511575 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19511528 ATTTATATAT
*
19511538 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
19511557 TTATTTATTAATTA-GATTA
1 TTATTTATT-ATTATGATTA
19511576 GATTTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:19511609 original size:6 final size:6
Alignment explanation
Indices: 19511598--19511636 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
19511588 ATTTTTTTCC
*
19511598 TTTATT TTTATT TTCATT TTTATT TTATATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT TT
19511637 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:19511805 original size:58 final size:57
Alignment explanation
Indices: 19511654--19511928 Score: 347
Period size: 58 Copynumber: 4.7 Consensus size: 57
19511644 TAATTTTCAA
* *
19511654 AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAGATAAATTTTC
1 AAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAA-ATAAAGTTTC
* * *
19511712 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTC
* *
19511771 TAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTCC
1 AAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAG-TTT-C
* * *
19511830 AAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAATGTTTC
1 -AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTC
*
19511889 AAAAGAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
19511929 TCCTGCACAA
Statistics
Matches: 190, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
57 7 0.04
58 87 0.46
59 43 0.23
60 48 0.25
61 5 0.03
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (57 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTC
Found at i:19511870 original size:118 final size:116
Alignment explanation
Indices: 19511655--19511928 Score: 419
Period size: 118 Copynumber: 2.3 Consensus size: 116
19511645 AATTTTCAAA
*
19511655 AAAAAATATTTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTCAAAAAAA
1 AAAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTCCAAAAAAA
*
19511719 GGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
65 AGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
*
19511771 TAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAA-ATAAGCTTTCCAAAAA
1 -AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAGATAA-ATTTCCAAAAA
* * *
19511835 AAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAATGTTTC
63 AAAGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
19511889 AAAAGAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTT
19511929 TCCTGCACAA
Statistics
Matches: 146, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
116 8 0.05
117 45 0.31
118 93 0.64
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (116 bp):
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTCCAAAAAAAA
GATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTC
Found at i:19512429 original size:17 final size:17
Alignment explanation
Indices: 19512407--19512441 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19512397 TGGCAACTCC
19512407 ACTGGGGAATCTCCGAG
1 ACTGGGGAATCTCCGAG
*
19512424 ACTGGGGAATCTTCGAG
1 ACTGGGGAATCTCCGAG
19512441 A
1 A
19512442 GTCAGGCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (17 bp):
ACTGGGGAATCTCCGAG
Found at i:19515888 original size:27 final size:26
Alignment explanation
Indices: 19515858--19515953 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 26
19515848 ATCAACAATG
19515858 GATGAAAAATGAGAAAAAAGAAAAAAA
1 GATGAAAAATGA-AAAAAAGAAAAAAA
*
19515885 GATG----ATG-AAAAAAGAAAAAATG
1 GATGAAAAATGAAAAAAAGAAAAAA-A
** *
19515907 GAAAAAAAATGAAAGAAAGAAAAAAA
1 GATGAAAAATGAAAAAAAGAAAAAAA
*
19515933 AATGAAAAAATGAAAAAAAGA
1 GATG-AAAAATGAAAAAAAGA
19515954 TTCAAATTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
21 13 0.25
22 2 0.04
23 3 0.06
26 4 0.08
27 31 0.58
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (26 bp):
GATGAAAAATGAAAAAAAGAAAAAAA
Found at i:19515892 original size:30 final size:28
Alignment explanation
Indices: 19515858--19515942 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 28
19515848 ATCAACAATG
19515858 GATGAAAAATGAGAAAAAA-GAAAAAAAGAT
1 GATGAAAAA--AGAAAAAAGGAAAAAAA-AT
19515888 GATGAAAAAAGAAAAAATGGAAAAAAAAT
1 GATGAAAAAAGAAAAAA-GGAAAAAAAAT
* *
19515917 GAAAGAAAGAAA-AAAAAATGAAAAAA
1 G-ATGAAA-AAAGAAAAAAGGAAAAAA
19515943 TGAAAAAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
28 8 0.16
29 10 0.20
30 28 0.57
31 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (28 bp):
GATGAAAAAAGAAAAAAGGAAAAAAAAT
Found at i:19515896 original size:21 final size:19
Alignment explanation
Indices: 19515862--19515904 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
19515852 ACAATGGATG
19515862 AAAAATGAGAAAAAAGAAA
1 AAAAATGAGAAAAAAGAAA
19515881 AAAAGATGATGAAAAAAGAAA
1 AAAA-ATGA-GAAAAAAGAAA
19515902 AAA
1 AAA
19515905 TGGAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 14 0.64
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (19 bp):
AAAAATGAGAAAAAAGAAA
Found at i:19515905 original size:38 final size:35
Alignment explanation
Indices: 19515862--19515953 Score: 96
Period size: 38 Copynumber: 2.5 Consensus size: 35
19515852 ACAATGGATG
*
19515862 AAAAATGAGAAAAAAGAAAAAAAGATGATGAAAAAA-GA
1 AAAAATGA-AAAAAAGAAAAAAAGA--A-AAAAAAATGA
*
19515900 AAAAATGGAAAAAAAATGAAAGAAAGAAAAAAAAATGA
1 AAAAAT-G-AAAAAAA-GAAAAAAAGAAAAAAAAATGA
19515938 AAAAATGAAAAAAAGA
1 AAAAATGAAAAAAAGA
19515954 TTCAAATTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
35 2 0.04
36 7 0.15
37 7 0.15
38 15 0.31
39 7 0.15
40 10 0.21
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (35 bp):
AAAAATGAAAAAAAGAAAAAAAGAAAAAAAAATGA
Found at i:19515913 original size:11 final size:10
Alignment explanation
Indices: 19515862--19515951 Score: 61
Period size: 10 Copynumber: 9.4 Consensus size: 10
19515852 ACAATGGATG
*
19515862 AAAAATGAGA
1 AAAAATGAAA
19515872 AAAAA-GAAA
1 AAAAATGAAA
*
19515881 AAAAGATGATGA
1 AAAA-ATGA-AA
19515893 AAAAA-G--A
1 AAAAATGAAA
19515900 AAAAATGGAAA
1 AAAAAT-GAAA
19515911 AAAAATG-AA
1 AAAAATGAAA
*
19515920 AGAAA-GAAAA
1 AAAAATG-AAA
19515930 AAAAATG--A
1 AAAAATGAAA
19515938 AAAAATGAAA
1 AAAAATGAAA
19515948 AAAA
1 AAAA
19515952 GATTCAAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
7 6 0.09
8 9 0.14
9 14 0.22
10 19 0.30
11 11 0.17
12 5 0.08
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.08
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:19515914 original size:19 final size:18
Alignment explanation
Indices: 19515862--19515951 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 18
19515852 ACAATGGATG
19515862 AAAAATGAGAAAAAAGAA-A
1 AAAAATGA-AAAAAA-AAGA
**
19515881 AAAAGATGATGAAAAAAGA
1 AAAA-ATGAAAAAAAAAGA
*
19515900 AAAAATGGAAAAAAAATGA
1 AAAAAT-GAAAAAAAAAGA
19515919 AAGAAA-GAAAAAAAAATGA
1 AA-AAATGAAAAAAAAA-GA
19515938 AAAAATGAAAAAAA
1 AAAAATGAAAAAAA
19515952 GATTCAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
18 16 0.27
19 36 0.61
20 7 0.12
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAAATGAAAAAAAAAGA
Found at i:19517676 original size:41 final size:41
Alignment explanation
Indices: 19517619--19518098 Score: 473
Period size: 41 Copynumber: 11.6 Consensus size: 41
19517609 GATTGTCAAT
*
19517619 GAGCAATTTACTTTTCAAAGTCGTCGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
19517660 GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAAAA
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
19517701 TAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAG
* * * *
19517743 GAGCAATTTACTTCTTTTCCAAAGTTGAGGTGCCTTTATTTAGAG
1 GAGCAATTTA---CTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAG
* *
19517788 GAGAAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
19517829 GAGCAATTTA-TTTTCCAAAGTCGTGGTTACCTCTATTTAGAG
1 GAGCAATTTACTTTT-CAAAGTCGTGG-TGCCTCTGTTTAGAG
* *
19517871 GAGCAATTTACTTTCCAAAGTCGTGGTTGCCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGG-TGCCTCTGTTTAGAG
*
19517913 GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * * *
19517954 GA-TAATTTA-TTTTTAAAGTCATGGTGCTTCTGCTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *** * * * * *
19517993 AATTTATTTATTTTTCAAAGTCGTTGAGCATCTGATTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * * * * * *
19518034 GAGCCATTTATTTTTTAAAGTCGTTGAGCCTTTGATTATAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
19518075 GAGCCATTTA-TTGCTCAAAGTCGT
1 GAGCAATTTACTT-TTCAAAGTCGT
19518099 TAAGCCTCTA
Statistics
Matches: 380, Mismatches: 48, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
39 26 0.07
40 18 0.05
41 186 0.49
42 109 0.29
43 3 0.01
45 37 0.10
46 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:19517797 original size:128 final size:124
Alignment explanation
Indices: 19517619--19517950 Score: 459
Period size: 128 Copynumber: 2.6 Consensus size: 124
19517609 GATTGTCAAT
* ** *
19517619 GAGCAATTTACTTTTCAAAGTCGTCGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGT
1 GAGCAATTTACTTTCCAAAGTCGAGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGT
* * * *
19517684 GGTGCCTCTGTTTAAAATAGCAATTTACTTTTCAAAAGTTGAGG-TGCCTCTGTTTAGAG
66 GGTGCCTCTGTTTAAAAGAGCAATTTA-TTTTCAAAAGTCGAGGTTACCTCTATTTAGAG
* * *
19517743 GAGCAATTTACTTCTTTTCCAAAGTTGAGGTGCCTTTATTTAGAGGAGAAATTTACTTTTCAAAG
1 GAGCAATTTA---C-TTTCCAAAGTCGAGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAG
* * * *
19517808 TTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTTACCTCTATTTAGAG
62 TTGTGGTGCCTCTGTTTAAAAGAGCAATTTATTTTCAAAAGTCGAGGTTACCTCTATTTAGAG
*
19517871 GAGCAATTTACTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTG
1 GAGCAATTTACTTTCCAAAGTCGAGG-TGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTG
19517936 TGGTGCCTCTGTTTA
65 TGGTGCCTCTGTTTA
19517951 GAGGATAATT
Statistics
Matches: 183, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
124 23 0.13
125 52 0.28
127 14 0.08
128 94 0.51
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (124 bp):
GAGCAATTTACTTTCCAAAGTCGAGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGT
GGTGCCTCTGTTTAAAAGAGCAATTTATTTTCAAAAGTCGAGGTTACCTCTATTTAGAG
Found at i:19518258 original size:132 final size:131
Alignment explanation
Indices: 19518040--19518278 Score: 306
Period size: 132 Copynumber: 1.8 Consensus size: 131
19518030 AGAGGAGCCA
* * *
19518040 TTTATTTTTTAAAGTCGTTGAGCCTTTGATTATAGGAGCCATTTATTGCTCAAAGTCGTTAAGCC
1 TTTATTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTCATTGCTCAAAGTCGTTAAGCC
* * **
19518105 TCTACTTAGAGGAGCTTTGATCAAAAT-TTAAA-A-AAAAAAATTACCTCCATTTAGAGGAGCTT
66 TCTACTTAGAGAAACCGTGATC-AAATCTTAAACACAAAAAAATTACCTCCATTTAGAGGAGCTT
19518167 TG
130 TG
* * *
19518169 TTTATGTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCATT-TTCAAAGTCGTTG
1 TTTAT-TTTTT-AAAGTCGTTGAGCCTCTGATTAGAGGAGC--CATTCATTGCTCAAAGTCGTTA
*
19518233 AGCCTCTGCTTAGAGAAACCGTGATCAAATCTTAAACACAAAAAAA
62 AGCCTCTACTTAGAGAAACCGTGATCAAATCTTAAACACAAAAAAA
19518279 GAAAATGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
129 5 0.05
130 5 0.05
131 31 0.34
132 37 0.40
133 7 0.08
134 7 0.08
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (131 bp):
TTTATTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTCATTGCTCAAAGTCGTTAAGCC
TCTACTTAGAGAAACCGTGATCAAATCTTAAACACAAAAAAATTACCTCCATTTAGAGGAGCTTT
G
Found at i:19518466 original size:7 final size:6
Alignment explanation
Indices: 19518440--19518530 Score: 85
Period size: 7 Copynumber: 14.0 Consensus size: 6
19518430 GTCCACTTTG
*
19518440 TTTT-T TTTTAT TATTAT TTTGTAT TTTATATT TTATTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTT-TA-T TT-TTAT TTTTAT TTTTAT
*
19518491 TTTTAT TTTATAT TTTATAT TTTTTT TCTTTAT ATTTTAT
1 TTTTAT TTT-TAT TTT-TAT TTTTAT T-TTTAT -TTTTAT
19518531 CTATTTATTA
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
5 4 0.05
6 30 0.41
7 33 0.45
8 6 0.08
9 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:19518475 original size:22 final size:22
Alignment explanation
Indices: 19518450--19518542 Score: 106
Period size: 22 Copynumber: 4.4 Consensus size: 22
19518440 TTTTTTTTTA
*
19518450 TTATTATTTTGTATTTTATATT
1 TTATTATTTTATATTTTATATT
19518472 TTATTATTTT-TATTTT-TA-T
1 TTATTATTTTATATTTTATATT
19518491 TT-TTATTTTATATTTTATATT
1 TTATTATTTTATATTTTATATT
* *
19518512 TT-TTTTCTTTATATTTTATCTAT
1 TTATTAT-TTTATATTTTATAT-T
19518535 TTATTATT
1 TTATTATT
19518543 CATTTATTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.11
19 9 0.15
20 4 0.06
21 12 0.19
22 23 0.37
23 4 0.06
24 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (22 bp):
TTATTATTTTATATTTTATATT
Found at i:19518497 original size:40 final size:38
Alignment explanation
Indices: 19518440--19518539 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 38
19518430 GTCCACTTTG
* *
19518440 TTTT-TTTTTATTATTATTTTGTATTTTATATTTTATTAT
1 TTTTATTTTTATTTTTATTTTATATTTTATATTTT-TT-T
19518479 TTTTATTTTTATTTTTATTTTATATTTTATATTTTTTT
1 TTTTATTTTTATTTTTATTTTATATTTTATATTTTTTT
19518517 TCTTTATATTTTATCTATTTATT
1 T-TTTAT-TTTTAT-T-TTTATT
19518540 ATTCATTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
38 2 0.04
39 11 0.20
40 34 0.63
41 1 0.02
42 6 0.11
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.77
Consensus pattern (38 bp):
TTTTATTTTTATTTTTATTTTATATTTTATATTTTTTT
Found at i:19518503 original size:33 final size:32
Alignment explanation
Indices: 19518444--19518530 Score: 120
Period size: 34 Copynumber: 2.6 Consensus size: 32
19518434 ACTTTGTTTT
*
19518444 TTTTTATTATTATTTTGTATTTTATATTTTATTA
1 TTTTTATTTTTATTTT-TATTTTATATTTTA-TA
19518478 TTTTTATTTTTATTTTTATTTTATATTTTATA
1 TTTTTATTTTTATTTTTATTTTATATTTTATA
*
19518510 TTTTTTTTCTTTATATTTTAT
1 TTTTTATT-TTTAT-TTTTAT
19518531 CTATTTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
32 9 0.18
33 19 0.39
34 21 0.43
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.77
Consensus pattern (32 bp):
TTTTTATTTTTATTTTTATTTTATATTTTATA
Found at i:19518550 original size:15 final size:17
Alignment explanation
Indices: 19518532--19518567 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
19518522 ATATTTTATC
19518532 TATTTATTATT-C-ATT
1 TATTTATTATTACTATT
19518547 TATTTATTATTACTATT
1 TATTTATTATTACTATT
19518564 TATT
1 TATT
19518568 AATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 1 0.05
17 7 0.37
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTATTATTACTATT
Found at i:19518576 original size:66 final size:61
Alignment explanation
Indices: 19518446--19518591 Score: 141
Period size: 66 Copynumber: 2.3 Consensus size: 61
19518436 TTTGTTTTTT
** * *
19518446 TTTATTATTATTTTGTATTTTATATTTTATTATTTTTATTTTTATTTTTATTTTATATTTTATA
1 TTTATT-TTA-TTT-TATTTTATATTTTATTATTTTTATTTTTATTACTATTTTATAATATATA
* * *
19518510 TTTTTTTTCTTTATATTTTATCTATTTATTATTCATTTATTTATTATTACTA-TTTATTAATATA
1 TTTATTTTATTT-TATTTTATAT-TTTATTATT--TTTATTT-TTATTACTATTTTA-TAATATA
19518574 TA
60 TA
19518576 TTTATTTTATTTTATT
1 TTTATTTTATTTTATT
19518592 ATCTTTCTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
62 12 0.18
63 11 0.16
64 5 0.07
65 15 0.22
66 24 0.36
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.72
Consensus pattern (61 bp):
TTTATTTTATTTTATTTTATATTTTATTATTTTTATTTTTATTACTATTTTATAATATATA
Found at i:19518633 original size:30 final size:27
Alignment explanation
Indices: 19518526--19518679 Score: 87
Period size: 28 Copynumber: 5.8 Consensus size: 27
19518516 TTCTTTATAT
*
19518526 TTTATCTATTTAT-TAT-TCA-T-TTA
1 TTTATCTATTTATATATATTATTATTA
* *
19518549 TTTAT-TA-TTACTATTTATTAATATATA
1 TTTATCTATTTA-TATATATTATTAT-TA
* *
19518576 TTTATTTTATTT-TAT-TATCT-TTCTTA
1 TTTA-TCTATTTATATATAT-TATTATTA
*
19518602 TTTATCTGTTGATATATATATGTATTATTA
1 TTTATCTATT--TATATATAT-TATTATTA
19518632 TTTATCTATTTATATATATTATTATTTA
1 TTTATCTATTTATATATATTATTA-TTA
* *
19518660 TCTAT-TAATTA-ATATATTAT
1 TTTATCTATTTATATATATTAT
19518680 CCTTATTATT
Statistics
Matches: 104, Mismatches: 11, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
21 3 0.03
22 3 0.03
23 7 0.07
24 2 0.02
25 5 0.05
26 16 0.15
27 22 0.21
28 24 0.23
29 6 0.06
30 16 0.15
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTATCTATTTATATATATTATTATTA
Found at i:19518645 original size:24 final size:24
Alignment explanation
Indices: 19518618--19518679 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
19518608 TGTTGATATA
*
19518618 TATATGTATTATTATTTATCTATT
1 TATATATATTATTATTTATCTATT
19518642 TATATATATTATTATTTATCTATT
1 TATATATATTATTATTTATCTATT
*
19518666 AATTAATATATTAT
1 TA-T-ATATATTAT
19518680 CCTTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 24 0.71
25 1 0.03
26 9 0.26
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (24 bp):
TATATATATTATTATTTATCTATT
Found at i:19519030 original size:41 final size:41
Alignment explanation
Indices: 19518973--19519433 Score: 419
Period size: 41 Copynumber: 11.1 Consensus size: 41
19518963 ATGATTGTCA
* *
19518973 AGGAGCAATTTACTTTTCAAAGTAGTGGTGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
19519014 AGGAGCAATTTACTTTTCAAAGTTGTAGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
** * *
19519055 AATAGCAATTTAATTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCTGTTTAG
* *
19519097 AGGAGCAATTTACTTCTTTTCCAAAGTTGAGGTGCCTCTATTTAG
1 AGGAGCAATTTA---CTTTT-CAAAGTTGTGGTGCCTCTGTTTAG
*
19519142 AGGAGAAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
19519183 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTACTTTT-CAAAGTTGTGG-TGCCTCTGTTTAG
*
19519225 AGGAGCAATTTACTTTTCAAAGTTGTAGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* ** * *
19519266 AGGAG-AATTTA-TTTTTAAAGTCATGGTGCTTCTGCTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *** * * * *** *
19519305 AGAATTTATTTATTTTTTAAAGTCGTTAAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* ** *** *
19519346 AGGAGCCATTTA-TCTTTCAAAGTCATTAAGCCTCTGATTAG
1 AGGAGCAATTTACT-TTTCAAAGTTGTGGTGCCTCTGTTTAG
* * * * * *
19519387 AGGAGCCATTTA-TTTCTCAAAGTCGTTGAGCCTCTGCTTAA
1 AGGAGCAATTTACTTT-TCAAAGTTGTGGTGCCTCTGTTTAG
19519428 AGGAGC
1 AGGAGC
19519434 TTTGATCAAA
Statistics
Matches: 360, Mismatches: 48, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
39 25 0.07
40 18 0.05
41 207 0.57
42 68 0.19
43 4 0.01
45 37 0.10
46 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
Found at i:19519158 original size:128 final size:123
Alignment explanation
Indices: 19518973--19519286 Score: 418
Period size: 128 Copynumber: 2.5 Consensus size: 123
19518963 ATGATTGTCA
* * *
19518973 AGGAGCAATTTACTTTTCAAAGTAGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTTGAGGTGCCTCTGTTTAGAGGAG-AATTTACTTTTCAAAGTT
* * *
19519038 GTAGTGCCTCTGTTTAAAATAGCAATTTAATTTTCAAAAGTTGAGG-TGCCTCTGTTTAG
65 GTAGTGCCTCTGTTTAAAAGAGCAATTT-ATTTTCAAAAGTCGAGGTTGCCTCTATTTAG
*
19519097 AGGAGCAATTTACTTCTTTTCCAAAGTTGAGGTGCCTCTATTTAGAGGAGAAATTTACTTTTCAA
1 AGGAGCAATTTA---CTTTT-CAAAGTTGAGGTGCCTCTGTTTAGAGGAG-AATTTACTTTTCAA
* * * * *
19519162 AGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
61 AGTTGTAGTGCCTCTGTTTAAAAGAGCAATTTATTTTCAAAAGTCGAGGTTGCCTCTATTTAG
*
19519225 AGGAGCAATTTACTTTTCAAAGTTGTA-GTGCCTCTGTTTAGAGGAGAATTTA-TTTTTAAAGT
1 AGGAGCAATTTACTTTTCAAAGTTG-AGGTGCCTCTGTTTAGAGGAGAATTTACTTTTCAAAGT
19519287 CATGGTGCTT
Statistics
Matches: 169, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
122 9 0.05
123 6 0.04
124 38 0.22
125 6 0.04
127 19 0.11
128 91 0.54
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (123 bp):
AGGAGCAATTTACTTTTCAAAGTTGAGGTGCCTCTGTTTAGAGGAGAATTTACTTTTCAAAGTTG
TAGTGCCTCTGTTTAAAAGAGCAATTTATTTTCAAAAGTCGAGGTTGCCTCTATTTAG
Found at i:19519246 original size:83 final size:83
Alignment explanation
Indices: 19518973--19519281 Score: 426
Period size: 83 Copynumber: 3.7 Consensus size: 83
19518963 ATGATTGTCA
* *
19518973 AGGAGCAATTTACTTTTCAAAGTAGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
* * *
19519037 TGTAGTGCCTCTGTTTAA
66 TGTGGTGCCTCTATTTAG
** * *
19519055 AATAGCAATTTAATTTTCAAAAGTTGAGGTGCCTCTGTTTAGAGGAGCAATTTACTTCTTTTCCA
1 AGGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA---CTTTTCCA
*
19519120 AAGTTGAGGTGCCTCTATTTAG
62 AAGTTGTGGTGCCTCTATTTAG
*
19519142 AGGAGAAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
*
19519206 CGTGGTTGCCTCTATTTAG
66 TGTGG-TGCCTCTATTTAG
* *
19519225 AGGAGCAATTTACTTTTCAAAGTTGTAGTGCCTCTGTTTAGAGGAG-AATTTATTTTT
1 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT
19519282 AAAGTCATGG
Statistics
Matches: 201, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
82 35 0.17
83 93 0.46
86 39 0.19
87 34 0.17
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (83 bp):
AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
TGTGGTGCCTCTATTTAG
Found at i:19519338 original size:80 final size:82
Alignment explanation
Indices: 19518976--19519433 Score: 319
Period size: 83 Copynumber: 5.5 Consensus size: 82
19518966 ATTGTCAAGG
* * * * ** *
19518976 AGCAATTTACTTTTCAAAGTAGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGTA
1 AGCAATTTACTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTCATG
** *
19519041 G-TGCCTCTGTTTA-AAA
65 GTTGCCTCTACTTAGAGA
* * *
19519057 TAGCAATTTAATTTTCAAAAGTTG-AGGTGCCTCTGTTTAGAGGAGCAATTTACTTCTTTTCCAA
1 -AGCAATTTACTTTTC-AAAGTCGTA-GAGCCTCTGTTTAGAGGAGCAATTTA----TTTT-CAA
* * *
19519121 AGT--TGAGGTGCCTCTATTTAGAGG
58 AGTCATG-GTTGCCTCTACTTAGAGA
* * * * *
19519145 AGAAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTG
1 AGCAATTTACTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAGCAATTTATTTT-CAAAGTCATG
* *
19519210 GTTGCCTCTATTTAGAGG
65 GTTGCCTCTACTTAGAGA
* * *
19519228 AGCAATTTACTTTTCAAAGTTGTAGTGCCTCTGTTTAGAGGAG-AATTTATTTTTAAAGTCATGG
1 AGCAATTTACTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCATGG
* *
19519292 -TGCTTCTGCTTAGAGA
66 TTGCCTCTACTTAGAGA
*** * * * *
19519308 ATTTATTTATTTTTTAAAGTCGTTA-AGCCTCTGATTAGAGGAGCCATTTATCTTTCAAAGTCAT
1 AGCAATTTACTTTTCAAAGTCG-TAGAGCCTCTGTTTAGAGGAGCAATTTAT-TTTCAAAGTCAT
* *
19519372 --TAAGCCTCTGA-TTAGAGG
64 GGT-TGCCTCT-ACTTAGAGA
* * * *
19519390 AGCCATTTA-TTTCTCAAAGTCGTTGAGCCTCTGCTTAAAGGAGC
1 AGCAATTTACTTT-TCAAAGTCGTAGAGCCTCTGTTTAGAGGAGC
19519434 TTTGATCAAA
Statistics
Matches: 315, Mismatches: 41, Indels: 40
0.80 0.10 0.10
Matches are distributed among these distances:
80 44 0.14
81 21 0.07
82 88 0.28
83 89 0.28
84 2 0.01
85 1 0.00
86 39 0.12
87 30 0.10
88 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (82 bp):
AGCAATTTACTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCATGG
TTGCCTCTACTTAGAGA
Found at i:19519517 original size:45 final size:43
Alignment explanation
Indices: 19519468--19519565 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 43
19519458 TTGCCTCCAT
*
19519468 TTAGAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTGAGCCTCTGA
1 TTAGAGGAGC-TTGTTTAT-TTTTTCAAAGTCGTTAAGCCTCTGA
*
19519513 TTAGAGGAGCATTGTTTATGTTTTTCAAAGTCGTTAAGCCTCTGC
1 TTAGAGGAGC-TTGTTTAT-TTTTTCAAAGTCGTTAAGCCTCTGA
19519558 TTAGAGGA
1 TTAGAGGA
19519566 ACCGTGATCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (43 bp):
TTAGAGGAGCTTGTTTATTTTTTCAAAGTCGTTAAGCCTCTGA
Found at i:19519781 original size:7 final size:7
Alignment explanation
Indices: 19519769--19519833 Score: 71
Period size: 7 Copynumber: 9.1 Consensus size: 7
19519759 TTTTTATTAT
*
19519769 TATTTTG
1 TATTTTA
19519776 TATTTTA
1 TATTTTA
19519783 TATTTTA
1 TATTTTA
19519790 TTATTTT-
1 -TATTTTA
19519797 TATTTTA
1 TATTTTA
19519804 TATTTTA
1 TATTTTA
19519811 TATATTT-
1 TAT-TTTA
*
19519818 TTTCTTTA
1 TAT-TTTA
19519826 TATTTTA
1 TATTTTA
19519833 T
1 T
19519834 GTATTTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
6 6 0.12
7 33 0.66
8 11 0.22
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (7 bp):
TATTTTA
Found at i:19519790 original size:22 final size:22
Alignment explanation
Indices: 19519765--19519845 Score: 105
Period size: 22 Copynumber: 3.7 Consensus size: 22
19519755 TTTTTTTTTA
19519765 TTAT-TATTTTGTATTTTATATT
1 TTATATATTTT-TATTTTATATT
19519787 TTAT-TATTTTTATTTTATATT
1 TTATATATTTTTATTTTATATT
19519808 TTATATATTTTT-TCTTTATATT
1 TTATATATTTTTAT-TTTATATT
*
19519830 TTATGTATTTATTATT
1 TTATATATTT-TTATT
19519846 CATTTATTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
21 16 0.30
22 34 0.63
23 3 0.06
24 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.73
Consensus pattern (22 bp):
TTATATATTTTTATTTTATATT
Found at i:19519799 original size:28 final size:28
Alignment explanation
Indices: 19519757--19519903 Score: 102
Period size: 28 Copynumber: 5.1 Consensus size: 28
19519747 CCACTTTGTT
* *
19519757 TTTTTTTATTATTATTTTGTATTTTATA
1 TTTTTTTATTTTTATTTTATATTTTATA
*
19519785 TTTTATTATTTTTATTTTATATTTTATA
1 TTTTTTTATTTTTATTTTATATTTTATA
* * *
19519813 TATTTTTTCTTTATATTTTATGTATTTATTA
1 T-TTTTTTATTTTTATTTTATAT-TTTA-TA
** *
19519844 TTCATTTATTTATTATTACTAT-TTATTAATA
1 TTTTTTTATTT-TTATT-TTATATT-TT-ATA
* *
19519875 TATATTTA-TTTTATTTTATTATTTT-TA
1 TTTTTTTATTTTTATTTTA-TATTTTATA
19519902 TT
1 TT
19519904 ATTTATCTGT
Statistics
Matches: 94, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
27 3 0.03
28 28 0.30
29 25 0.27
30 16 0.17
31 18 0.19
32 4 0.04
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.71
Consensus pattern (28 bp):
TTTTTTTATTTTTATTTTATATTTTATA
Found at i:19519820 original size:11 final size:11
Alignment explanation
Indices: 19519758--19519857 Score: 60
Period size: 11 Copynumber: 8.8 Consensus size: 11
19519748 CACTTTGTTT
19519758 TTTTTTATTATTA
1 TTTTTTA-T-TTA
*
19519771 TTTTGTATTTTA
1 TTTTTTA-TTTA
*
19519783 TATTTTA-TTA
1 TTTTTTATTTA
19519793 -TTTTTATTTTA
1 TTTTTTA-TTTA
* *
19519804 TATTTTATATA
1 TTTTTTATTTA
*
19519815 TTTTTTCTTTA
1 TTTTTTATTTA
* *
19519826 TATTTTATGTA
1 TTTTTTATTTA
* *
19519837 TTTATTATTCA
1 TTTTTTATTTA
19519848 TTTATTTATT
1 TTT-TTTATT
19519858 ATTACTATTT
Statistics
Matches: 66, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 32 0.48
12 18 0.27
13 8 0.12
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:19519854 original size:4 final size:4
Alignment explanation
Indices: 19519807--19519966 Score: 50
Period size: 4 Copynumber: 40.5 Consensus size: 4
19519797 TATTTTATAT
* * * * *
19519807 TTTA TATA TTT- TTTC TTTA TAT- TTTA TGTA TTTA -TTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
19519852 TTTA -TTA TTACTA TTTA TTAATA TATA TTTA TTTTA TTT- TATTA TTTT
1 TTTA TTTA TT--TA TTTA TT--TA TTTA TTTA -TTTA TTTA T-TTA TTTA
* * * * * * *
19519900 TATTA TTTA TCTG TTGA TATA TATA TGTA -TTA -TTA TTTA TCTA TTTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
19519947 TATA -TTA -TTA TTTA TCTA TT
1 TTTA TTTA TTTA TTTA TTTA TT
19519967 AATTAATATA
Statistics
Matches: 114, Mismatches: 28, Indels: 28
0.67 0.16 0.16
Matches are distributed among these distances:
3 22 0.19
4 77 0.68
5 8 0.07
6 7 0.06
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:19519885 original size:46 final size:47
Alignment explanation
Indices: 19519831--19519961 Score: 130
Period size: 46 Copynumber: 2.8 Consensus size: 47
19519821 CTTTATATTT
*
19519831 TATGTATTTATTATTCATTTATTTATTATTACTATTTATT-A-ATATA
1 TATGTATTTATTATT-ATTTATTTATTATTATTATTTATTGATATATA
* * *
19519877 TATTTATTTTATT-TTA-TTATTT-TTATTATTTATCTGTTGATATATA
1 TATGTA-TTTATTATTATTTATTTATTATTA-TTATTTATTGATATATA
*
19519923 TATGTA-TTATTATTTATCTATTTATATATTATTATTTAT
1 TATGTATTTATTA-TTATTTATTTAT-TATTATTATTTAT
19519962 CTATTAATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
43 6 0.09
44 17 0.25
45 2 0.03
46 20 0.29
47 11 0.16
48 7 0.10
49 5 0.07
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (47 bp):
TATGTATTTATTATTATTTATTTATTATTATTATTTATTGATATATA
Found at i:19519958 original size:14 final size:14
Alignment explanation
Indices: 19519779--19519980 Score: 87
Period size: 14 Copynumber: 13.9 Consensus size: 14
19519769 TATTTTGTAT
*
19519779 TTTATATTTTATTA
1 TTTATATATTATTA
* *
19519793 TTTTTATTTTA-TA
1 TTTATATATTATTA
* *
19519806 TTTTATATATTTTTTC
1 -TTTATATA-TTATTA
*
19519822 TTTATATTTTATGTA
1 TTTATATATTAT-TA
19519837 TTTAT-TATTCATTTA
1 TTTATATATT-A-TTA
*
19519852 TTTAT-TATTACTA
1 TTTATATATTATTA
19519865 TTTATTAATATATATTTA
1 TTTA-T-ATAT-TA-TTA
*
19519883 TTT-TATTTTATTA
1 TTTATATATTATTA
* *
19519896 TTTTTATTATTTATCTG
1 TTTATA-TA-TTAT-TA
*
19519913 TTGATATATATATGTA
1 TTTATATAT-TAT-TA
19519929 -TTAT-TATTTATCTA
1 TTTATATA-TTAT-TA
19519943 TTTATATATTATTA
1 TTTATATATTATTA
*
19519957 TTTATCTATTA--A
1 TTTATATATTATTA
*
19519969 TTAATATATTAT
1 TTTATATATTAT
19519981 CCTTATTATT
Statistics
Matches: 145, Mismatches: 23, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
12 10 0.07
13 14 0.10
14 47 0.32
15 44 0.30
16 18 0.12
17 7 0.05
18 5 0.03
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:19520004 original size:13 final size:13
Alignment explanation
Indices: 19519986--19520016 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
19519976 ATTATCCTTA
19519986 TTATTATCTTTTT
1 TTATTATCTTTTT
19519999 TTATTATCTTTTT
1 TTATTATCTTTTT
19520012 TTATT
1 TTATT
19520017 TTATCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATCTTTTT
Found at i:19520004 original size:16 final size:16
Alignment explanation
Indices: 19519983--19520028 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
19519973 TATATTATCC
19519983 TTATTATTATC--TTT
1 TTATTATTATCTTTTT
19519997 TT-TTATTATCTTTTT
1 TTATTATTATCTTTTT
19520012 TTATT-TTATCATTTTT
1 TTATTATTATC-TTTTT
19520028 T
1 T
19520029 CTCTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 10 0.36
16 8 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTATTATCTTTTT
Found at i:19520337 original size:15 final size:15
Alignment explanation
Indices: 19520305--19520337 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19520295 TTTTTTAGAA
*
19520305 TTTTTTTTGGCGAAT
1 TTTTTTTTGGCAAAT
19520320 TTTTTTTTGG-AAAT
1 TTTTTTTTGGCAAAT
19520334 TTTT
1 TTTT
19520338 GAAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (15 bp):
TTTTTTTTGGCAAAT
Found at i:19520851 original size:4 final size:4
Alignment explanation
Indices: 19520837--19520878 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
19520827 TTTTTTTCAT
19520837 TTTA TTT- TTTA TTTA TTTA TTTA TTTA -TTA -TTA -TTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
19520879 GATTAGATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 12 0.33
4 24 0.67
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:19520922 original size:6 final size:6
Alignment explanation
Indices: 19520911--19520949 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
19520901 ATTTTTTTCC
19520911 TTTATT TTTATT TTTATT TTTATTT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT TT
19520950 CTTTAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:19521146 original size:58 final size:57
Alignment explanation
Indices: 19520954--19521240 Score: 294
Period size: 58 Copynumber: 4.9 Consensus size: 57
19520944 TATTTTCTTT
19520954 AAATAA-TTTTCAAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAGTTTTC--AAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAA
* * * * **
19521013 AGATAAATTTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGA
1 AAATAAGTTTTCAAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * *
19521072 AATTAAAGTTTCCAAAAAAATATTTTTTGGGAAAAGTTAAAAATATCAATTTTCCTTAA
1 AAAT-AAGTTTTCAAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
19521131 AAATAAGTTTTCAAAAATAA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-CTTCGA
1 AAATAAGTTTTCAAAAA-AATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AA
* * * *
19521189 AATTAAAG-TCTCAAAAGAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTT
1 AAAT-AAGTTTTCAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
19521241 TCCTGCACAA
Statistics
Matches: 193, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
57 12 0.06
58 82 0.42
59 73 0.38
60 26 0.13
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAATAAGTTTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:19521181 original size:27 final size:27
Alignment explanation
Indices: 19521150--19521241 Score: 66
Period size: 27 Copynumber: 3.3 Consensus size: 27
19521140 TTCAAAAATA
19521150 AATTTTTGAGAAAAAGTTGAAAGTATC
1 AATTTTTGAGAAAAAGTTGAAAGTATC
* *
19521177 AATTTTCTTCGA-AATTAAAGTCTCAAAAGAAT-
1 AA-TTT-TT-GAGAA--AAAGT-T-GAAAGTATC
19521209 -ATTTTTG-GAAAAAAGTTGAAAGTATC
1 AATTTTTGAG-AAAAAGTTGAAAGTATC
19521235 AATTTTT
1 AATTTTT
19521242 CCTGCACAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
27 13 0.26
28 4 0.08
29 8 0.16
30 5 0.10
31 6 0.12
32 1 0.02
33 6 0.12
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (27 bp):
AATTTTTGAGAAAAAGTTGAAAGTATC
Found at i:19521244 original size:117 final size:116
Alignment explanation
Indices: 19520967--19521240 Score: 401
Period size: 118 Copynumber: 2.3 Consensus size: 116
19520957 TAATTTTCAA
*
19520967 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTCAAAAAAA
1 AAAAAAATATTTTT-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
* *
19521032 GGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
65 -GATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTCTCC
* * * *
19521085 AAAAAAATATTTTTTGGGAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGTTTTCAAAAATA
1 AAAAAAATA-TTTTTGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA-A
19521150 A-ATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAGTCT-C
64 AGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TCGAAATTAAAGTCTCC
*
19521201 AAAAGAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGG-AAAAAGTTGAAAGTATCAATTTT
19521241 TCCTGCACAA
Statistics
Matches: 141, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
115 7 0.05
116 34 0.24
117 41 0.29
118 52 0.37
119 7 0.05
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (116 bp):
AAAAAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTCTCC
Found at i:19523266 original size:33 final size:33
Alignment explanation
Indices: 19523229--19523295 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
19523219 ACTCTATTAA
19523229 ATATATAGATAGTTGATAATAATACTTTACCCT
1 ATATATAGATAGTTGATAATAATACTTTACCCT
19523262 ATATATAGATAGTTGATAATAATACTTTACCCT
1 ATATATAGATAGTTGATAATAATACTTTACCCT
19523295 A
1 A
19523296 AAAGTGATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (33 bp):
ATATATAGATAGTTGATAATAATACTTTACCCT
Found at i:19527649 original size:13 final size:15
Alignment explanation
Indices: 19527625--19527661 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
19527615 ATAAAGAATT
*
19527625 CATATTTCAAATAT-
1 CATATATCAAATATA
19527639 CAT-TATCAAATATA
1 CATATATCAAATATA
19527653 CATATATCA
1 CATATATCA
19527662 TTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 9 0.45
14 6 0.30
15 5 0.25
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (15 bp):
CATATATCAAATATA
Found at i:19538377 original size:26 final size:27
Alignment explanation
Indices: 19538324--19538377 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
19538314 TAATAATTTA
* **
19538324 ATTATAAAATTATAAATTTTAACGTAT
1 ATTATAAAATTACAAATTTTAAAATAT
19538351 ATTAT-AAATTACAAATTTTAAAATAT
1 ATTATAAAATTACAAATTTTAAAATAT
19538377 A
1 A
19538378 AAATTCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (27 bp):
ATTATAAAATTACAAATTTTAAAATAT
Found at i:19538541 original size:21 final size:22
Alignment explanation
Indices: 19538515--19538556 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
19538505 TTATTATTTA
19538515 TATTTATTAAAATATA-AATAT
1 TATTTATTAAAATATATAATAT
*
19538536 TATTTATTAATATATATAATA
1 TATTTATTAAAATATATAATA
19538557 ATTAATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTATTAAAATATATAATAT
Found at i:19538774 original size:17 final size:16
Alignment explanation
Indices: 19538754--19538802 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
19538744 TAATTAATCA
19538754 TTTTTACTAATATTTAT
1 TTTTTACTAAT-TTTAT
*
19538771 TTTTTATTAATTTTAT
1 TTTTTACTAATTTTAT
* * *
19538787 TTATTATTAACTTTAT
1 TTTTTACTAATTTTAT
19538803 AATTATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTACTAATTTTAT
Found at i:19539186 original size:17 final size:17
Alignment explanation
Indices: 19539161--19539194 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19539151 GGTTTTAAAG
*
19539161 TGATTTAATTACAAAAT
1 TGATCTAATTACAAAAT
19539178 TGATCTAATTACAAAAT
1 TGATCTAATTACAAAAT
19539195 AATTTTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (17 bp):
TGATCTAATTACAAAAT
Found at i:19540930 original size:58 final size:59
Alignment explanation
Indices: 19540867--19540981 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 59
19540857 TGCTACCTAT
*
19540867 CTATTTTCGGTTTATAATAAATGCACACATT-ATTTCCCAAATAATTTC-AAAACCAAAC
1 CTATTTTCGGCTTATAATAAATGCACACATTGATTTCCC-AATAATTTCGAAAACCAAAC
* ** * * *
19540925 CTATTTTGGGCTTATAATAGGTGGACACATTGTTTTCCCAATAATTTCGAAATCCAA
1 CTATTTTCGGCTTATAATAAATGCACACATTGATTTCCCAATAATTTCGAAAACCAA
19540982 TCTATTTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 35 0.73
59 13 0.27
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (59 bp):
CTATTTTCGGCTTATAATAAATGCACACATTGATTTCCCAATAATTTCGAAAACCAAAC
Found at i:19543297 original size:35 final size:35
Alignment explanation
Indices: 19543251--19543319 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
19543241 GTCTCTACAT
*
19543251 TTTCCCTGTCTGTGTATTGCACTGTCTGTATTAGG
1 TTTCCCTGTCTGTGTACTGCACTGTCTGTATTAGG
*
19543286 TTTCCTTGTCTGTGTACTGCACTGTCTGTATTAG
1 TTTCCCTGTCTGTGTACTGCACTGTCTGTATTAG
19543320 TGTATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (35 bp):
TTTCCCTGTCTGTGTACTGCACTGTCTGTATTAGG
Done.