Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, 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: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 9 of 31
Found at i:4684388 original size:21 final size:21
Alignment explanation
Indices: 4684364--4684618 Score: 67
Period size: 21 Copynumber: 11.4 Consensus size: 21
4684354 TTCTTAAATA
4684364 TATTTTTAATATCATATATTT
1 TATTTTTAATATCATATATTT
*
4684385 TATTTTTATTTATTATTATAATATTT
1 TATTTTTA---A-TATCAT-ATATTT
* * *
4684411 TATATTTTATTTTTAATATATTT
1 TAT-TTTTA-ATATCATATATTT
*
4684434 ATATTTTTATTAT--TA-ATTT
1 -TATTTTTAATATCATATATTT
* * * *
4684453 T-TATATAACATCATATCTTAAAT
1 TATTTTTAATATCATATATT---T
*
4684476 ATATTTTTAATGTCATATATTT
1 -TATTTTTAATATCATATATTT
*
4684498 TATTTTTATTTATTATTATAATATTT
1 TATTTTTA---A-TATCAT-ATATTT
* *
4684524 TATATTTAATAT-TTAATATATT
1 TATTTTTAATATCAT-ATAT-TT
* *
4684546 TATATTT-ATATTAT-TAATTT
1 TATTTTTAATATCATAT-ATTT
* * *
4684566 T-TATATAATATCATATTTTAAAT
1 TATTTTTAATATCATATATT---T
*
4684589 ATATTTTTAATGTCATATATTT
1 -TATTTTTAATATCATATATTT
4684611 TATTTTTA
1 TATTTTTA
4684619 TTTATTATTA
Statistics
Matches: 177, Mismatches: 27, Indels: 60
0.67 0.10 0.23
Matches are distributed among these distances:
17 6 0.03
18 1 0.01
19 10 0.06
20 16 0.09
21 37 0.21
22 18 0.10
23 14 0.08
24 11 0.06
25 37 0.21
26 22 0.12
27 5 0.03
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTTTTAATATCATATATTT
Found at i:4684393 original size:6 final size:6
Alignment explanation
Indices: 4684382--4684456 Score: 53
Period size: 6 Copynumber: 12.0 Consensus size: 6
4684372 ATATCATATA
* * * *
4684382 TTTTAT TTTTAT TTATTAT TATAAT ATTTTAT ATTTTAT TTTTA- ATATAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT -TTTTAT -TTTTAT TTTTAT TTTTAT
* *
4684432 TTATAT TTTTAT TATTAAT TTTTAT
1 TTTTAT TTTTAT T-TTTAT TTTTAT
4684457 ATAACATCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 3 0.05
6 31 0.56
7 21 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAT
Found at i:4684409 original size:26 final size:23
Alignment explanation
Indices: 4684377--4684450 Score: 89
Period size: 23 Copynumber: 3.1 Consensus size: 23
4684367 TTTTAATATC
4684377 ATATATTTTATTTTTATTTATTA
1 ATATATTTTATTTTTATTTATTA
4684400 TTATAATATTTTATATTTTATTT-TTA
1 --AT-ATATTTTAT-TTTTATTTATTA
4684426 ATATATTTATATTTTTA-TTATTA
1 ATATATTT-TATTTTTATTTATTA
4684449 AT
1 AT
4684451 TTTTATATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
22 2 0.04
23 16 0.36
24 5 0.11
25 2 0.04
26 12 0.27
27 8 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
ATATATTTTATTTTTATTTATTA
Found at i:4684481 original size:113 final size:113
Alignment explanation
Indices: 4684308--4684648 Score: 587
Period size: 113 Copynumber: 3.0 Consensus size: 113
4684298 AAAATATAAG
*
4684308 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAA
1 TTTAATATATTTATA-TTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAA
*
4684373 TATCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
65 TGTCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
*
4684422 TTTAATATATTTATATTTTTATTATTAATTTTTATATAACATCATATCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAAT
* *
4684487 GTCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTAATA
66 GTCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
* *
4684535 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATTTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAAT
4684600 GTCATATATTTTATTTTTATTTATTATTAT-A-ATTTTATATATTTATT
66 GTCATATATTTTATTTTTATTTATTATTATAATATTTTATAT-TTTATT
4684647 TT
1 TT
4684649 CATTTCTTTA
Statistics
Matches: 216, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
111 9 0.04
112 7 0.03
113 185 0.86
114 15 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (113 bp):
TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATATCTTAAATATATTTTTAAT
GTCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
Found at i:4684522 original size:15 final size:15
Alignment explanation
Indices: 4684504--4684576 Score: 54
Period size: 15 Copynumber: 5.2 Consensus size: 15
4684494 ATTTTATTTT
4684504 TATTTATTATTATAA
1 TATTTATTATTATAA
4684519 TATTT-TATATT-TAA
1 TATTTAT-TATTATAA
4684533 TATTTAATATATT-T-A
1 TATTT-AT-TATTATAA
*
4684548 TATTTA-TATTATTA
1 TATTTATTATTATAA
4684562 -ATTT-TTA-TATAA
1 TATTTATTATTATAA
4684574 TAT
1 TAT
4684577 CATATTTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
12 8 0.16
13 9 0.18
14 11 0.22
15 15 0.30
16 7 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTATTATTATAA
Found at i:4684531 original size:6 final size:6
Alignment explanation
Indices: 4684491--4684557 Score: 52
Period size: 6 Copynumber: 11.0 Consensus size: 6
4684481 TTTAATGTCA
*
4684491 TATATT T-TATT TTTATT TATTATT ATAATATTT TATATT TAATATT TA-A--
1 TATATT TATATT TATATT TA-TATT -T-ATA-TT TATATT T-ATATT TATATT
4684540 TATATT TATATT TATATT
1 TATATT TATATT TATATT
4684558 ATTAATTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 18
0.73 0.01 0.26
Matches are distributed among these distances:
3 2 0.04
4 1 0.02
5 6 0.12
6 22 0.43
7 13 0.25
8 4 0.08
9 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:4684566 original size:63 final size:64
Alignment explanation
Indices: 4684385--4684571 Score: 154
Period size: 70 Copynumber: 2.8 Consensus size: 64
4684375 TCATATATTT
* *
4684385 TATTTT-TATTTATTATTATAATAT-TTTATATTT-TATTTTTAATATATTTATATTTTTATTAT
1 TATTTTATATTTAATATT-TAATATATTTATATTTATA-TTTTAAT-T-TTTATATTATTATTAT
4684447 TAA
62 TAA
* * *
4684450 T-TTTTATATAACATCATATCTTAAATATATTTTTAATGTCATATATTTT-ATTTTTAT-TTATT
1 TATTTTATAT---TTAATAT-TT-AATATATTTAT-AT-T--TATATTTTAATTTTTATATTATT
4684512 ATTA-TAA
57 ATTATTAA
4684519 TATTTTATATTTAATATTTAATATATTTATATTTATATTATTAATTTTTATAT
1 TATTTTATATTTAATATTTAATATATTTATATTTATATT-TTAATTTTTATAT
4684572 AATATCATAT
Statistics
Matches: 98, Mismatches: 8, Indels: 33
0.71 0.06 0.24
Matches are distributed among these distances:
61 6 0.06
62 2 0.02
63 9 0.09
64 7 0.07
65 14 0.14
66 2 0.02
67 5 0.05
68 5 0.05
69 10 0.10
70 20 0.20
71 7 0.07
72 2 0.02
73 2 0.02
74 5 0.05
75 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (64 bp):
TATTTTATATTTAATATTTAATATATTTATATTTATATTTTAATTTTTATATTATTATTATTAA
Found at i:4684627 original size:18 final size:19
Alignment explanation
Indices: 4684606--4684689 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 19
4684596 TAATGTCATA
*
4684606 TATTTTATTTTTATTTA-T
1 TATTTTATTTTTATATATT
* *
4684624 TATTATAATTTTATATATT
1 TATTTTATTTTTATATATT
4684643 TATTTTCATTTCTT-TAATATAT
1 TATTTT-ATTT-TTAT-ATAT-T
*
4684665 T-TTTTA-TATTATATATTT
1 TATTTTATTTTTATATA-TT
4684683 TATTTTA
1 TATTTTA
4684690 ATTTGTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
18 21 0.40
19 14 0.27
20 5 0.10
21 10 0.19
22 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTATTTTTATATATT
Found at i:4684640 original size:33 final size:33
Alignment explanation
Indices: 4684603--4684687 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 33
4684593 TTTTAATGTC
*
4684603 ATATATTTTATTTTTATTTA-TTATTATAATTTT
1 ATATATTTTATTTTTATTTATTTAATAT-ATTTT
* *
4684636 ATATA-TTTATTTTCATTTCTTTAATATATTTT
1 ATATATTTTATTTTTATTTATTTAATATATTTT
* *
4684668 TTATATTATATATTTTATTT
1 ATATATTTTAT-TTTTATTT
4684688 TAATTTGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
32 21 0.49
33 15 0.35
34 7 0.16
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTATTTAATATATTTT
Found at i:4684774 original size:26 final size:27
Alignment explanation
Indices: 4684738--4684790 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
4684728 TATTTTATTT
* * *
4684738 TATTTTAATTTTTATTCTTATATTATA
1 TATTTTAATTTTAATTATAATATTATA
4684765 TATTTT-ATTTTAATTATAATATTATA
1 TATTTTAATTTTAATTATAATATTATA
4684791 AAATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
TATTTTAATTTTAATTATAATATTATA
Found at i:4686854 original size:2 final size:2
Alignment explanation
Indices: 4686847--4686883 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4686837 TGTCATACTC
*
4686847 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4686884 TAAAATTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4687543 original size:6 final size:7
Alignment explanation
Indices: 4687523--4687548 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4687513 ATCTAAATTA
4687523 TTATTTT
1 TTATTTT
4687530 TTATTTT
1 TTATTTT
4687537 TTATTTT
1 TTATTTT
4687544 TTATT
1 TTATT
4687549 CTATCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:4698809 original size:3 final size:3
Alignment explanation
Indices: 4698803--4698840 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4698793 AGAAAGGGAA
4698803 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4698841 AGCTCCGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4715810 original size:2 final size:2
Alignment explanation
Indices: 4715803--4715834 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4715793 TCCTTCTAGC
*
4715803 CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4715835 TATCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:4722127 original size:18 final size:17
Alignment explanation
Indices: 4722096--4722131 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4722086 AAAGAGCGAT
*
4722096 GGAGGAGAAGGAGAGGA
1 GGAGGAGAAAGAGAGGA
4722113 GGAGGAAGAAAGAGAGGA
1 GGAGG-AGAAAGAGAGGA
4722131 G
1 G
4722132 CAACTGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (17 bp):
GGAGGAGAAAGAGAGGA
Found at i:4725238 original size:2 final size:2
Alignment explanation
Indices: 4725233--4725259 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4725223 TATATATATA
4725233 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
4725260 TGCCATCCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4733487 original size:2 final size:2
Alignment explanation
Indices: 4733480--4733508 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4733470 CCAAGTTTGG
4733480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4733509 CACACACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4743631 original size:16 final size:17
Alignment explanation
Indices: 4743611--4743659 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
4743601 TTAATTTTAA
*
4743611 AAAATTCTTAAAAAAAT
1 AAAATTTTTAAAAAAAT
* *
4743628 -AAATTTTTGAAAGAAT
1 AAAATTTTTAAAAAAAT
4743644 AAAATTTTTAAAAAAA
1 AAAATTTTTAAAAAAA
4743660 GAGCTTCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATTTTTAAAAAAAT
Found at i:4743839 original size:14 final size:14
Alignment explanation
Indices: 4743820--4743854 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4743810 CTAAAATTGT
4743820 AACTTATAAAAAAA
1 AACTTATAAAAAAA
4743834 AACTTATTAAAAAAA
1 AACTTA-TAAAAAAA
4743849 AA-TTAT
1 AACTTAT
4743855 TAAACAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 9 0.45
15 10 0.50
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AACTTATAAAAAAA
Found at i:4743855 original size:14 final size:15
Alignment explanation
Indices: 4743820--4743858 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
4743810 CTAAAATTGT
4743820 AACTTA-TAAAAAAA
1 AACTTATTAAAAAAA
4743834 AACTTATTAAAAAAA
1 AACTTATTAAAAAAA
4743849 AA-TTATTAAA
1 AACTTATTAAA
4743859 CAACTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AACTTATTAAAAAAA
Found at i:4748056 original size:18 final size:19
Alignment explanation
Indices: 4748013--4748061 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
4748003 AATTTTTTAA
*
4748013 TAAAATTTTA-AATAAATT
1 TAAAATTTAATAATAAATT
4748031 TAATAATTTAATAATAAA-T
1 TAA-AATTTAATAATAAATT
*
4748050 TAAAATTAAATA
1 TAAAATTTAATA
4748062 TTAATAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 10 0.37
20 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAATTTAATAATAAATT
Found at i:4749031 original size:3 final size:3
Alignment explanation
Indices: 4749023--4749058 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
4749013 GGTGCTTTGT
*
4749023 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
4749059 GTATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4749065 original size:19 final size:19
Alignment explanation
Indices: 4749023--4749065 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4749013 GGTGCTTTGT
*
4749023 TTATTATTATTTATTATTA
1 TTATTATTATTTATTATTG
*
4749042 TTATTATTA-TTGTTATTG
1 TTATTATTATTTATTATTG
4749060 TATATT
1 T-TATT
4749066 TAAAAGGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTATTATTTATTATTG
Found at i:4751102 original size:18 final size:18
Alignment explanation
Indices: 4751079--4751114 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4751069 CTTCGATATA
4751079 TACTTTGTGAATTAGGTT
1 TACTTTGTGAATTAGGTT
4751097 TACTTTGTGAATTAGGTT
1 TACTTTGTGAATTAGGTT
4751115 AAGAGCCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (18 bp):
TACTTTGTGAATTAGGTT
Found at i:4763318 original size:23 final size:25
Alignment explanation
Indices: 4763292--4763343 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
4763282 TATAATATGT
*
4763292 AAATTAA-TTTATA-TTTTTTATAA
1 AAATTAATTTTAAATTTTTTTATAA
4763315 AAATTAATTTTTAAATTTTTTTATAA
1 AAATTAA-TTTTAAATTTTTTTATAA
4763341 AAA
1 AAA
4763344 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 7 0.28
25 5 0.20
26 13 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATTAATTTTAAATTTTTTTATAA
Found at i:4764061 original size:108 final size:109
Alignment explanation
Indices: 4763907--4764105 Score: 314
Period size: 108 Copynumber: 1.8 Consensus size: 109
4763897 TATAAAAAAT
* * * *
4763907 TTTGAGTTAATTTAAATAAATAGGTAAATTGGGTAAGATTTGAATAATTGT-AAAAGAATGTGTA
1 TTTGAGTAAATTTAAATAAATAGGTAAATTAGGTAAGAATTGAATAATT-TCAAAAAAATGTGTA
*
4763971 TTTGTAAATTGTGGAA-GTTGTAACTAATTTAATATATTTTACTAA
65 TTTATAAATTGT-GAATGTTGTAACTAATTTAATATATTTTACTAA
4764016 TTTGAGTAAATTTAAATAAA-AGGTAAATTAGGTAAGAATTGAATAATTTCAAAAAAATGTGTAT
1 TTTGAGTAAATTTAAATAAATAGGTAAATTAGGTAAGAATTGAATAATTTCAAAAAAATGTGTAT
4764080 TTATAAATTGTGAATGTTGTAACTAA
66 TTATAAATTGTGAATGTTGTAACTAA
4764106 ATCAACATAT
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
107 4 0.05
108 60 0.72
109 19 0.23
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.39
Consensus pattern (109 bp):
TTTGAGTAAATTTAAATAAATAGGTAAATTAGGTAAGAATTGAATAATTTCAAAAAAATGTGTAT
TTATAAATTGTGAATGTTGTAACTAATTTAATATATTTTACTAA
Found at i:4765561 original size:14 final size:16
Alignment explanation
Indices: 4765535--4765568 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4765525 CTCCAATTCT
4765535 TTTTCTATTTTAT-TA
1 TTTTCTATTTTATATA
4765550 TTTTCT-TTTTATATA
1 TTTTCTATTTTATATA
4765565 TTTT
1 TTTT
4765569 TGGACCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTATTTTATATA
Found at i:4767941 original size:16 final size:16
Alignment explanation
Indices: 4767917--4767950 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4767907 TGTATGTTAA
*
4767917 ATAATATTTTAAAATT
1 ATAAAATTTTAAAATT
*
4767933 ATAAAATTTTAAATTT
1 ATAAAATTTTAAAATT
4767949 AT
1 AT
4767951 TTTATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAAATTTTAAAATT
Found at i:4772627 original size:2 final size:2
Alignment explanation
Indices: 4772620--4772649 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4772610 AGAGTATCAC
4772620 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4772650 GGTGGGGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4790162 original size:2 final size:2
Alignment explanation
Indices: 4790155--4790216 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
4790145 ACTAGGGGAA
4790155 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4790197 AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG
4790217 CAAAGTTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4791669 original size:22 final size:22
Alignment explanation
Indices: 4791644--4791686 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4791634 AAAGTTTGTA
4791644 TGAAAATTATACAAATAAATCC
1 TGAAAATTATACAAATAAATCC
* *
4791666 TGAAAATTATTCAAATGAATC
1 TGAAAATTATACAAATAAATC
4791687 AATCTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (22 bp):
TGAAAATTATACAAATAAATCC
Found at i:4792858 original size:22 final size:23
Alignment explanation
Indices: 4792818--4792867 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
4792808 AAAATTTTAG
*
4792818 ATAATTAATAAAATATTT-ACAA
1 ATAATCAATAAAATATTTAACAA
*
4792840 ATAATCAATAAAA-AGTTTAATAA
1 ATAATCAATAAAATA-TTTAACAA
4792863 ATAAT
1 ATAAT
4792868 TTGGCCCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAATCAATAAAATATTTAACAA
Found at i:4821844 original size:159 final size:157
Alignment explanation
Indices: 4821557--4821861 Score: 430
Period size: 159 Copynumber: 1.9 Consensus size: 157
4821547 TTTTAAAAAA
* * * * *
4821557 AAAAACAAATCAACCTCTTGTCTAATGAGAAGATAAAATGACAATCTAAAGCGATTTTACTTTGA
1 AAAAACAAATCAACCTCTTATCTAATGAGAAGATAAAATCACAATCTAAAACCATTTTACTCTGA
** * * * * * *
4821622 GTCAATGTGTCCTTGACTTGTCCCATCCTCTTGTTTAATGGAAAGACAAAATCATAGACTTCACT
66 GTCAATGCATCCTTGACTTATCCCAACCTCTTATTTAAAGAAAAAACAAAATCATAGACTTCACT
*
4821687 CACCGAAGTCCTTGGCTTAATCTAAAT
131 CACCAAAGTCCTTGGCTTAATCTAAAT
4821714 AAAAACAAATCAACCTCTTATCTAATGAGAAGATAAAATCACAAATTCTAAAACCATTTTACTCT
1 AAAAACAAATCAACCTCTTATCTAATGAGAAGATAAAATCAC-AA-TCTAAAACCATTTTACTCT
* * *
4821779 GATTCAATGCATTCTTGACTTATCCCAACCTCTTATTTAAAGAAAAAACAAAATCATAGATTTCA
64 GAGTCAATGCATCCTTGACTTATCCCAACCTCTTATTTAAAGAAAAAACAAAATCATAGACTTCA
*
4821844 CTCACCAAAGTCTTTGGC
129 CTCACCAAAGTCCTTGGC
4821862 ATACCCTTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
157 40 0.31
158 2 0.02
159 86 0.67
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (157 bp):
AAAAACAAATCAACCTCTTATCTAATGAGAAGATAAAATCACAATCTAAAACCATTTTACTCTGA
GTCAATGCATCCTTGACTTATCCCAACCTCTTATTTAAAGAAAAAACAAAATCATAGACTTCACT
CACCAAAGTCCTTGGCTTAATCTAAAT
Found at i:4822282 original size:24 final size:24
Alignment explanation
Indices: 4822250--4822298 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4822240 TGTAAAACAG
4822250 TCCTTGTTCTTATATATATAGATA
1 TCCTTGTTCTTATATATATAGATA
4822274 TCCTTGTTCTTATATATATAGATA
1 TCCTTGTTCTTATATATATAGATA
4822298 T
1 T
4822299 ATATACTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (24 bp):
TCCTTGTTCTTATATATATAGATA
Found at i:4822478 original size:16 final size:16
Alignment explanation
Indices: 4822457--4822503 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
4822447 AATATAAATA
4822457 TTAATATATAAATTTT
1 TTAATATATAAATTTT
* *
4822473 TTAATAAATATACTTTT
1 TTAATATATA-AATTTT
4822490 TATAATATATAAAT
1 T-TAATATATAAAT
4822504 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 9 0.36
17 8 0.32
18 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATATATAAATTTT
Found at i:4822521 original size:22 final size:22
Alignment explanation
Indices: 4822476--4822530 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
4822466 AAATTTTTTA
* *
4822476 ATAAATATACTTTTTATAATAT
1 ATAAATATACTTTTTAAAAAAT
4822498 ATAAATATTA-TTTTTAAAAAAT
1 ATAAATA-TACTTTTTAAAAAAT
4822520 ATTTAAATATA
1 A--TAAATATA
4822531 ATTAACTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 18 0.64
23 4 0.14
24 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATATACTTTTTAAAAAAT
Found at i:4829952 original size:16 final size:16
Alignment explanation
Indices: 4829931--4829966 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4829921 CAAAAGATGA
* *
4829931 GCCATGTTAATATTGT
1 GCCATGTCAATATTAT
4829947 GCCATGTCAATATTAT
1 GCCATGTCAATATTAT
4829963 GCCA
1 GCCA
4829967 GATCATCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (16 bp):
GCCATGTCAATATTAT
Found at i:4851243 original size:24 final size:23
Alignment explanation
Indices: 4851186--4851245 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
4851176 ATTGGTAAGT
*
4851186 TTAATTTTAATTTTTAATATTTA
1 TTAATTTTATTTTTTAATATTTA
* *
4851209 TTAAATTTTATTTTTTTATATATTG
1 TT-AATTTTATTTTTTAATAT-TTA
4851234 TTAATTTTATTT
1 TTAATTTTATTT
4851246 CAATTTCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 26 0.81
25 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTAATTTTATTTTTTAATATTTA
Found at i:4853511 original size:3 final size:3
Alignment explanation
Indices: 4853503--4853527 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4853493 TTTGTGAGTA
4853503 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4853528 TGCTTTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4856358 original size:15 final size:15
Alignment explanation
Indices: 4856338--4856367 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4856328 ACCCCTTCAA
4856338 TTATTTATTTATTTT
1 TTATTTATTTATTTT
*
4856353 TTATTTTTTTATTTT
1 TTATTTATTTATTTT
4856368 ATTTAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTATTTATTTATTTT
Found at i:4871962 original size:23 final size:23
Alignment explanation
Indices: 4871936--4872011 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
4871926 ATGGTATGTT
4871936 TATGCATGCACTGCTGCAACAGA
1 TATGCATGCACTGCTGCAACAGA
4871959 TATGCATGCACTGCTGCAACAGA
1 TATGCATGCACTGCTGCAACAGA
*
4871982 TATGCATCCACTGCTGCAACAGA
1 TATGCATGCACTGCTGCAACAGA
4872005 TATGCAT
1 TATGCAT
4872012 TAAACTTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
TATGCATGCACTGCTGCAACAGA
Found at i:4875268 original size:12 final size:12
Alignment explanation
Indices: 4875253--4875282 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4875243 AAATTAAACA
4875253 TATTATTATTTT
1 TATTATTATTTT
4875265 TATTATTATTTT
1 TATTATTATTTT
*
4875277 CATTAT
1 TATTAT
4875283 CCTCGTACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTATTATTTT
Found at i:4884791 original size:18 final size:17
Alignment explanation
Indices: 4884764--4884798 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4884754 AAAAGAAGGA
4884764 TTAAATGATTAACACAT
1 TTAAATGATTAACACAT
*
4884781 TTAACATGATTAATACAT
1 TTAA-ATGATTAACACAT
4884799 GATTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (17 bp):
TTAAATGATTAACACAT
Found at i:4889276 original size:16 final size:16
Alignment explanation
Indices: 4889255--4889287 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4889245 TACACCCACA
4889255 CACACACGCACGCACG
1 CACACACGCACGCACG
4889271 CACACACGCACGCACG
1 CACACACGCACGCACG
4889287 C
1 C
4889288 GTGCACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.52, G:0.18, T:0.00
Consensus pattern (16 bp):
CACACACGCACGCACG
Found at i:4889276 original size:20 final size:20
Alignment explanation
Indices: 4889251--4889301 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4889241 TCAATACACC
4889251 CACACACACACGCACGCACG
1 CACACACACACGCACGCACG
* **
4889271 CACACACGCACGCACGCGTG
1 CACACACACACGCACGCACG
4889291 CACACACACAC
1 CACACACACAC
4889302 ACACACACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.49, G:0.16, T:0.02
Consensus pattern (20 bp):
CACACACACACGCACGCACG
Found at i:4889278 original size:12 final size:12
Alignment explanation
Indices: 4889255--4889312 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
4889245 TACACCCACA
*
4889255 CACACACGCACG
1 CACACACACACG
*
4889267 CACGCACACACG
1 CACACACACACG
* * **
4889279 CACGCACGCGTG
1 CACACACACACG
*
4889291 CACACACACACA
1 CACACACACACG
4889303 CACACACACA
1 CACACACACA
4889313 AATCATAATC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.36, C:0.48, G:0.14, T:0.02
Consensus pattern (12 bp):
CACACACACACG
Found at i:4902074 original size:15 final size:15
Alignment explanation
Indices: 4902045--4902086 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
4902035 ATATCAAAGT
4902045 TGAATATAAAAATAAA
1 TGAA-ATAAAAATAAA
* *
4902061 TTAAATAAAGATAAA
1 TGAAATAAAAATAAA
4902076 TGAAATAAAAA
1 TGAAATAAAAA
4902087 ATTGCAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
TGAAATAAAAATAAA
Found at i:4912635 original size:20 final size:20
Alignment explanation
Indices: 4912605--4912660 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
4912595 TTTTACATCC
4912605 AATATCAACATTTTAAATTAA
1 AATATC-ACATTTTAAATTAA
4912626 AATATCACATTTTAAATTAA
1 AATATCACATTTTAAATTAA
4912646 AATATCACATTTTAA
1 AATATCACATTTTAA
4912661 TAGTTGAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 29 0.83
21 6 0.17
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (20 bp):
AATATCACATTTTAAATTAA
Found at i:4918017 original size:16 final size:16
Alignment explanation
Indices: 4917996--4918027 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4917986 TGAGAAAACT
4917996 CTGAAACTTGATAAGA
1 CTGAAACTTGATAAGA
4918012 CTGAAACTTGATAAGA
1 CTGAAACTTGATAAGA
4918028 TTCTGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
CTGAAACTTGATAAGA
Found at i:4939101 original size:12 final size:12
Alignment explanation
Indices: 4939078--4939110 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4939068 ACGAAATATG
4939078 ATATAA-ATAAA
1 ATATAATATAAA
4939089 ATATAATATAAA
1 ATATAATATAAA
*
4939101 AAATAATATA
1 ATATAATATA
4939111 TCAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:4949295 original size:41 final size:41
Alignment explanation
Indices: 4949238--4949320 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
4949228 CCACCTCATT
* *
4949238 TGACATTCTTCATTTATAAACGCATAAATACACAAGGGGCA
1 TGACATTCTTCATTTATAAACGCATAAACACACAAGGAGCA
*
4949279 TGACATTCTTCATTTATAAATGCATAAACACACAAGGAGCA
1 TGACATTCTTCATTTATAAACGCATAAACACACAAGGAGCA
4949320 T
1 T
4949321 CAATATCTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (41 bp):
TGACATTCTTCATTTATAAACGCATAAACACACAAGGAGCA
Found at i:4952760 original size:20 final size:21
Alignment explanation
Indices: 4952722--4952761 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4952712 TTTATTAAAT
4952722 AAATTTATTCAATAAAATTAG
1 AAATTTATTCAATAAAATTAG
*
4952743 AAATTTATTCTA-AAAATTA
1 AAATTTATTCAATAAAATTA
4952762 AATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (21 bp):
AAATTTATTCAATAAAATTAG
Found at i:4962651 original size:32 final size:32
Alignment explanation
Indices: 4962610--4962673 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
4962600 TTGGATTGAC
4962610 TGTTTCTTTTCATTAGTTTCTCGACGAGGCAG
1 TGTTTCTTTTCATTAGTTTCTCGACGAGGCAG
*
4962642 TGTTTCTTTTCATTAGTTTCTCGATGAGGCAG
1 TGTTTCTTTTCATTAGTTTCTCGACGAGGCAG
4962674 CATTTTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (32 bp):
TGTTTCTTTTCATTAGTTTCTCGACGAGGCAG
Found at i:4964143 original size:226 final size:226
Alignment explanation
Indices: 4963555--4965258 Score: 1881
Period size: 226 Copynumber: 7.6 Consensus size: 226
4963545 GCATGTATAT
* *
4963555 TTGCCAATATGCGAATCTAACATCGGGTATTTGGTGCATTCCTATTTTACAATTGAAGGTATAAT
1 TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
* * * *
4963620 GGTGCAAAATTGATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAACGGCACAATGGT
66 GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAATGGT
* * * * * *
4963685 GTTTATGTGAACATATACTTA-AAGTGAAAACCAATTTGTGGCT-TTTAGAGAAATAAACCAACT
131 GTTTATGTGAACATATACCTAGGA-TGAGAACCACTTTGTGG-TGCTTAGAGAAATAAACAAACT
** * *
4963748 TTGAGGTGCAAGAATGTATATTAAGGAATAATG
194 TTGAGGTGCGGGCATGTACATTAAGGAATAATG
** *
4963781 TTGTTGAATATGTGCATCT---ATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAA
1 TTG-CCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAA
** * * * * * * *
4963843 TGGTGCAAAAAAAATATGTCACATATTAAACAAGGCATTCTTATTGTGTAATAAAAAAACGATGG
65 TGGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAATGG
* ** *
4963908 TGTTTATGTGAACATATACATAGGATGAGAACCACTTCATGGTGCTTAGAGAAATAAACAAAGTT
130 TGTTTATGTGAACATATACCTAGGATGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAACTT
** * * *
4963973 TGAGGTGCCAGCATGAATATTAAGGAAAAATG
195 TGAGGTGCGGGCATGTACATTAAGGAATAATG
* * * * *
4964005 TTGCTAATATGTGAATTTAACATCGGGTATTTGGTGCACTCCTATTATTCAATTGAAGGTATACT
1 TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
** * * * *
4964070 GGTGCAAAACTAATATTTTGTATATTAGACAAGGGATTCCTATTGTGTACTAAAGAAACAATAGT
66 GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAATGGT
* ** *
4964135 GCTTATGTGAACATATATATAGGATGAGAACCACTTTGTGGTGATTAGAGAAATAAACAAACTTT
131 GTTTATGTGAACATATACCTAGGATGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAACTTT
* * * *
4964200 GAGGTGCTGGCCTGTATATTAAGGAATAATA
196 GAGGTGCGGGCATGTACATTAAGGAATAATG
* * * * * * *
4964231 TTGTCAATATGTGAATCTAATATTGGGTATTTTGTGCATTCCTATAACACAATTGAAGCTATAAT
1 TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
* * * * * * *
4964296 GGAGTAAAACTAATACTTCATATATTATACGAGGCATTCCTATTGTGTAATAATGGCACAATGGT
66 GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAATGGT
* ** * ** *
4964361 GTTTATGTGAAC--ATACTTAAGG-TGAGAATTACTTTGTGGTTCTTAGAGAAATAAATGAATTT
131 GTTTATGTGAACATATACCT-AGGATGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAACTT
* * ** *
4964423 TGTGTTGCGGATATGTACATTAAGCAATAATG
195 TGAGGTGCGGGCATGTACATTAAGGAATAATG
* * * * * * *
4964455 TTGCTAATATGCGAATCTAATATCGGGAATTTGGTGCATTCCTATTATACATTTGAAGGTGTAAC
1 TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
* * * *
4964520 GGTGCAAAACTAATATTTCTTATATTAGACATGACATACCTATTGTGTAATAAATG-CACAATGG
66 GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAA-GACACAATGG
* ** * * *
4964584 TGTTTATGTGAACATATACCTAAGG-TGAGAGCCTTTTTGTGTTGTTTACAGAAATAAA-AATAC
130 TGTTTATGTGAACATATACCT-AGGATGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAA-AC
* *
4964647 TTTGAGGCGTGGGCAT-TGACATTAAGGAATAATG
193 TTTGAGGTGCGGGCATGT-ACATTAAGGAATAATG
* *
4964681 TTGCCATTATGTGAATC-AAAATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
1 TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
* * * * * * *
4964745 GGTGCGAAACTAATATTTCTTATATCAGACAAGACATTCCTATTGTGTAATGAATAGACAATGGT
66 GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAATGGT
* * * * * *
4964810 GCTTATGTGAACATATACCTAAGATGAAAACCATTTTGTGGTGCTTAGTGAAATAAACAAAGTTT
131 GTTTATGTGAACATATACCTAGGATGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAACTTT
* *
4964875 GAGGTGCGGGCATTTCCATTAAGGAATAATG
196 GAGGTGCGGGCATGTACATTAAGGAATAATG
* * ** * *
4964906 TTGCCAATTTGTGAATCTAACTTCGACTGTTTAGTGCATTCCTATTATACAATTGAAGGTATAAT
1 TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
* * * *
4964971 GGTGCAAAACTAATATTTCTTATATTACACAAGGCATTCCTATTTTGTAATAAA-AGCACAATGA
66 GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGA-CACAATGG
* * ** ** *
4965035 TGCTTATATGAACATATACCTAAGG-TGAGAATGACTTTGTGGTGCTTAGTCAAATAAATAAACT
130 TGTTTATGTGAACATATACCT-AGGATGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAACT
* *
4965099 TTGAGGTTCGGGCATTTACATTAAGGAATAATG
194 TTGAGGTGCGGGCATGTACATTAAGGAATAATG
* * * * * * *
4965132 TTGCCAAAATGTGAATCTAACATTGGGAATTTAGTGCATTCCTATTATACAGTTAAAGGTGTAAT
1 TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
* * * *
4965197 GGTGCAAAACTTATATTTCATATATTAAACAAGGCATTCCTATTGTGGAATAAAGGCACAAT
66 GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAAT
4965259 CGTGCCAATC
Statistics
Matches: 1239, Mismatches: 219, Indels: 40
0.83 0.15 0.03
Matches are distributed among these distances:
223 12 0.01
224 358 0.29
225 197 0.16
226 659 0.53
227 13 0.01
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (226 bp):
TTGCCAATATGTGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTATAAT
GGTGCAAAACTAATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAATGGT
GTTTATGTGAACATATACCTAGGATGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAACTTT
GAGGTGCGGGCATGTACATTAAGGAATAATG
Found at i:4964413 original size:450 final size:447
Alignment explanation
Indices: 4963190--4965263 Score: 2049
Period size: 450 Copynumber: 4.7 Consensus size: 447
4963180 NNNNNNNNNN
* * * * * *
4963190 TAATGGTGCAAAACCAATATTTCATATATTAGCCAAGGCATTCCTATTTTGTAATAATGGCACAA
1 TAATGGTGCAAAACTAATATTT-TTATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAA
* * * * * *
4963255 TGGTGCTTATATGAAAATATACCCAAAGTAAGAACCACTTTGTGGTGCTTAGAGAAATAAATAAA
65 TGGTGCTTATGTGAACATATA-CTAAGGTGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAA
** *
4963320 CTTTGAGGTGC-GG---GTATATGTAAAGGAATAATGTTGCTGATATGTGAATCTAA-ACTCGAG
129 CTTTGAGGTGCTGGCATGTATAT-T-AAGGAATAATGTTGCCAATATGTGAATCTAATA-TCGGG
* * * * *
4963380 TATTTGATGCATTTCTATCATGCAATTGAAGGTATAATGGTG-----C--AT-TTC---TATTAT
191 TATTTGGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCAAAACTAATATTCATATATTAA
* * * * *
4963434 CCAAGGCATTCCTATTGTGTAATAAAGGCACAATGGTGCTTATGTGAGCATATACATAAAGTAAG
256 ACAAGGCATTCCTATTGTGTAATAAAGGCACAATGGTGCTTATGTGA--ACATACTTAAGGTGAG
* * * * *
4963499 AACTACTTTGTGGTGCATT-GAGAAATAAACAAACTTTGATGTG-AGG---G--CA-T---GTAT
319 AACCACTTTGTGGTGC-TTAGAGAAATAAACAAAGTTTGAGGTGCCGGCATGTACATTAAGGAAT
*
4963553 -AT-TTGCCAATATGCGAATCTAACATCGGGTATTTGGTGCATTCCTATTTTACAATTGAAGGTA
383 AATGTTGCCAATATGCGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTA
* * * * *
4963616 TAATGGTGCAAAATTGATATTTCATATATTAGACAAGGCATTCCTATTGTGTAATAACGGCACAA
1 TAATGGTGCAAAACTAATATTT-TTATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAA
* * * * * *
4963681 TGGTGTTTATGTGAACATATACTTAAAGTGAAAACCAATTTGTGGCT-TTTAGAGAAATAAACCA
65 TGGTGCTTATGTGAACATATAC-TAAGGTGAGAACCACTTTGTGG-TGCTTAGAGAAATAAACAA
** * ** *
4963745 ACTTTGAGGTGCAAGAATGTATATTAAGGAATAATGTTGTTGAATATGTGCATC---TATCGGGT
128 ACTTTGAGGTGCTGGCATGTATATTAAGGAATAATGTTG-CCAATATGTGAATCTAATATCGGGT
** *
4963807 ATTTGGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCAAAAAAAATATGTCACATATTAA
192 ATTTGGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCAAAACTAATAT-TCATATATTAA
* *** * * *
4963872 ACAAGGCATTCTTATTGTGTAATAAAAAAACGATGGTGTTTATGTGAACATA-TACATAGGATGA
256 ACAAGGCATTCCTATTGTGTAATAAAGGCACAATGGTGCTTATGTGAACATACT-TA-AGG-TGA
** * * * *
4963936 GAACCACTTCATGGTGCTTAGAGAAATAAACAAAGTTTGAGGTGCCAGCATGAATATTAAGGAAA
318 GAACCACTTTGTGGTGCTTAGAGAAATAAACAAAGTTTGAGGTGCCGGCATGTACATTAAGGAAT
* * * * *
4964001 AATGTTGCTAATATGTGAATTTAACATCGGGTATTTGGTGCACTCCTATTATTCAATTGAAGGTA
383 AATGTTGCCAATATGCGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTA
* * * *
4964066 TACTGGTGCAAAACTAATATTTTGTATATTAGACAAGGGATTCCTATTGTGTACTAAAGAAACAA
1 TAATGGTGCAAAACTAATATTTT-TATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAA
* *
4964131 TAGTGCTTATGTGAACATATA-TATAGGATGAGAACCACTTTGTGGTGATTAGAGAAATAAACAA
65 TGGTGCTTATGTGAACATATACTA-AGG-TGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAA
* * * *
4964195 ACTTTGAGGTGCTGGCCTGTATATTAAGGAATAATATTGTCAATATGTGAATCTAATATTGGGTA
128 ACTTTGAGGTGCTGGCATGTATATTAAGGAATAATGTTGCCAATATGTGAATCTAATATCGGGTA
* * * * * * *
4964260 TTTTGTGCATTCCTATAACACAATTGAAGCTATAATGGAGTAAAACTAATACTTCATATATTATA
193 TTTGGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCAAAACTAATA-TTCATATATTAAA
* * * *
4964325 CGAGGCATTCCTATTGTGTAATAATGGCACAATGGTGTTTATGTGAACATACTTAAGGTGAGAAT
257 CAAGGCATTCCTATTGTGTAATAAAGGCACAATGGTGCTTATGTGAACATACTTAAGGTGAGAAC
* * ** * * * * *
4964390 TACTTTGTGGTTCTTAGAGAAATAAATGAATTTTGTGTTG-CGGATATGTACATTAAGCAATAAT
322 CACTTTGTGGTGCTTAGAGAAATAAACAAAGTTTGAGGTGCCGG-CATGTACATTAAGGAATAAT
* * * * *
4964454 GTTGCTAATATGCGAATCTAATATCGGGAATTTGGTGCATTCCTATTATACATTTGAAGGTG
386 GTTGCCAATATGCGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTA
* * * *
4964516 TAACGGTGCAAAACTAATATTTCTTATATTAGACATGACATACCTATTGTGTAATAAATG-CACA
1 TAATGGTGCAAAACTAATATTT-TTATATTAGACAAGGCATTCCTATTGTGTAATAAA-GACACA
* * ** * * *
4964580 ATGGTGTTTATGTGAACATATACCTAAGGTGAGAGCCTTTTTGTGTTGTTTACAGAAATAAA-AA
64 ATGGTGCTTATGTGAACATATA-CTAAGGTGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAA
* * * *
4964644 TACTTTGAGGCG-TGGGCAT-TGACATTAAGGAATAATGTTGCCATTATGTGAATC-AAAATCGG
128 -ACTTTGAGGTGCT-GGCATGT-ATATTAAGGAATAATGTTGCCAATATGTGAATCTAATATCGG
* * *
4964706 GTATTTGGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCGAAACTAATATTTCTTATATC
190 GTATTTGGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCAAAACTAATA-TTCATATATT
* * * *
4964771 AGACAAGACATTCCTATTGTGTAATGAATA-G-ACAATGGTGCTTATGTGAACATATACCTAAGA
254 AAACAAGGCATTCCTATTGTGTAAT-AA-AGGCACAATGGTGCTTATGTGAAC--ATACTTAAGG
* * * * * *
4964834 TGAAAACCATTTTGTGGTGCTTAGTGAAATAAACAAAGTTTGAGGTGCGGGCATTTCCATTAAGG
315 TGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAAGTTTGAGGTGCCGGCATGTACATTAAGG
* * * ** * *
4964899 AATAATGTTGCCAATTTGTGAATCTAACTTCGACTGTTTAGTGCATTCCTATTATACAATTGAAG
380 AATAATGTTGCCAATATGCGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAG
4964964 GTA
445 GTA
* *
4964967 TAATGGTGCAAAACTAATATTTCTTATATTACACAAGGCATTCCTATTTTGTAATAAA-AGCACA
1 TAATGGTGCAAAACTAATATTT-TTATATTAGACAAGGCATTCCTATTGTGTAATAAAGA-CACA
* * ** ** *
4965031 ATGATGCTTATATGAACATATACCTAAGGTGAGAATGACTTTGTGGTGCTTAGTCAAATAAATAA
64 ATGGTGCTTATGTGAACATATA-CTAAGGTGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAA
* * * * * * * *
4965096 ACTTTGAGGTTCGGGCATTTACATTAAGGAATAATGTTGCCAAAATGTGAATCTAACATTGGGAA
128 ACTTTGAGGTGCTGGCATGTATATTAAGGAATAATGTTGCCAATATGTGAATCTAATATCGGGTA
* * * * *
4965161 TTTAGTGCATTCCTATTATACAGTTAAAGGTGTAATGGTGCAAAACTTATATTTCATATATTAAA
193 TTTGGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCAAAACTAATA-TTCATATATTAAA
* *
4965226 CAAGGCATTCCTATTGTGGAATAAAGGCACAATCGTGC
257 CAAGGCATTCCTATTGTGTAATAAAGGCACAATGGTGC
4965264 CAATCAAATT
Statistics
Matches: 1352, Mismatches: 230, Indels: 106
0.80 0.14 0.06
Matches are distributed among these distances:
425 1 0.00
426 163 0.12
427 3 0.00
428 14 0.01
429 11 0.01
430 6 0.00
433 2 0.00
434 1 0.00
435 2 0.00
436 5 0.00
437 4 0.00
438 83 0.06
439 1 0.00
442 1 0.00
444 1 0.00
445 1 0.00
448 4 0.00
449 125 0.09
450 445 0.33
451 271 0.20
452 206 0.15
453 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (447 bp):
TAATGGTGCAAAACTAATATTTTTATATTAGACAAGGCATTCCTATTGTGTAATAAAGACACAAT
GGTGCTTATGTGAACATATACTAAGGTGAGAACCACTTTGTGGTGCTTAGAGAAATAAACAAACT
TTGAGGTGCTGGCATGTATATTAAGGAATAATGTTGCCAATATGTGAATCTAATATCGGGTATTT
GGTGCATTCCTATTATACAATTGAAGGTATAATGGTGCAAAACTAATATTCATATATTAAACAAG
GCATTCCTATTGTGTAATAAAGGCACAATGGTGCTTATGTGAACATACTTAAGGTGAGAACCACT
TTGTGGTGCTTAGAGAAATAAACAAAGTTTGAGGTGCCGGCATGTACATTAAGGAATAATGTTGC
CAATATGCGAATCTAACATCGGGTATTTGGTGCATTCCTATTATACAATTGAAGGTA
Found at i:4965406 original size:175 final size:175
Alignment explanation
Indices: 4965115--4965438 Score: 468
Period size: 175 Copynumber: 1.9 Consensus size: 175
4965105 TTCGGGCATT
* *
4965115 TACATTAAGGAATAATGTTGCCAAAATGTGAATCTAACATTGGGAATTTAGTGCATTCCTATTAT
1 TACATTAAGGAATAAAGTTGCCAAAATGTGAATCTAACATTGCGAATTTAGTGCATTCCTATTAT
* * * * *
4965180 ACAGTTAAAGGTGTAATGGTGCAAAACTTATATTTCATATATTAAACAAGGCATTCCTATTGTGG
66 ACAATTAAAGGTATAATGATGCAAAACTAATATTTCATATATTAAACAAGGCATTCCTATTGTAG
4965245 AATAAAGGCACAATCGTGCCAATCAAATTTTGAGATGCAGACATG
131 AATAAAGGCACAATCGTGCCAATCAAATTTTGAGATGCAGACATG
* * * * *
4965290 TACATTAAGGAATAAAGTTGGCAATATGTGAATCTAACATTGCGTATTTGGTGCATTCTTATTAT
1 TACATTAAGGAATAAAGTTGCCAAAATGTGAATCTAACATTGCGAATTTAGTGCATTCCTATTAT
* * * * * * *
4965355 ACAATTGAAGTTATAATGATGCAAAACTAATATTTTATTTATTAGACAAGGCATTTCTATTGTAT
66 ACAATTAAAGGTATAATGATGCAAAACTAATATTTCATATATTAAACAAGGCATTCCTATTGTAG
*
4965420 AATAAAGGCACAATGGTGC
131 AATAAAGGCACAATCGTGC
4965439 TTATGTGAAC
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
175 129 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (175 bp):
TACATTAAGGAATAAAGTTGCCAAAATGTGAATCTAACATTGCGAATTTAGTGCATTCCTATTAT
ACAATTAAAGGTATAATGATGCAAAACTAATATTTCATATATTAAACAAGGCATTCCTATTGTAG
AATAAAGGCACAATCGTGCCAATCAAATTTTGAGATGCAGACATG
Found at i:4965533 original size:401 final size:400
Alignment explanation
Indices: 4964891--4965656 Score: 1015
Period size: 401 Copynumber: 1.9 Consensus size: 400
4964881 CGGGCATTTC
* * *
4964891 CATTAAGGAATAATGTTGCCAATTTGTGAATCTAACTTCGACTGTTTAGTGCATTCCTATTATAC
1 CATTAAGGAATAAAGTTGCCAATATGTGAATCTAACTTCGA-TATTTAGTGCATTCCTATTATAC
* * *
4964956 AATTGAAGGTATAATGGTGCAAAACTAATATTTCTTATATTACACAAGGCATTCCTATTTTGTAA
65 AATTGAAGGTATAATGATGCAAAACTAATATTTCTTATATTACACAAGGCATTCCTATTGTATAA
* * * *
4965021 TAAAAGCACAATGATGCTTATATGAACATATACCTAAGGTGAGAATGACTTTGTGGTGCTTAGTC
130 TAAAAGCACAATGATGCTTATATGAACATATACCTAAAGTGAGAATGACTTTATGATGCTTAGAC
* *
4965086 AAATAAATAAACTTTGAGGTTCGGGCATTTACATTAAGGAATAATGTTGCCAAAATGTGAATCTA
195 AAATAAACAAACTTTGAGGTTCGGGCATTTACATTAAGGAATAATGTTGCCAAAATATGAATCTA
* * *
4965151 ACATTGGGAATTTAGTGCATTCCTATTATACAGTTAAAGGTGTAATGGTGCAAAACTTA-TATTT
260 ACATTGGGAATTTAGTGCATTCCTATTATACAATTAAAGGTATAATGGTGCAAAA-TTACTATTC
*
4965215 CATATATTAAACAAGGCATTCCTATTGTGGAATAAAGGCACAATCGTGCCAATCAAATTTTGAGA
324 CATATATTAAACAAGGCATTCCTATTGTGGAAGAAAGGCACAATCGTGCCAATCAAATTTTGAGA
4965280 TGCAGACATGTA
389 TGCAGACATGTA
* * *
4965292 CATTAAGGAATAAAGTTGGCAATATGTGAATCTAACATTGCG-TATTTGGTGCATTCTTATTATA
1 CATTAAGGAATAAAGTTGCCAATATGTGAATCTAAC-TT-CGATATTTAGTGCATTCCTATTATA
* * * *
4965356 CAATTGAAGTTATAATGATGCAAAACTAATATTT-TATTTATTAGACAAGGCATTTCTATTGTAT
64 CAATTGAAGGTATAATGATGCAAAACTAATATTTCT-TATATTACACAAGGCATTCCTATTGTAT
* * * * *
4965420 AATAAAGGCACAATGGTGCTTATGTGAACATATACCTAAATTGAGAACT-ATTTTATGATGCTTA
128 AATAAAAGCACAATGATGCTTATATGAACATATACCTAAAGTGAGAA-TGACTTTATGATGCTTA
* * * * *
4965484 GAGAAATAAACAATA-TTTGAGG-T-GTGCACTTGTATATTAAGGTATAATGTTGCCAATATATG
192 GACAAATAAACAA-ACTTTGAGGTTCGGGCA-TT-TACATTAAGGAATAATGTTGCCAAAATATG
* * * * * *
4965546 AATCTAACATTGGGTATTTGGTGTATTCTTATTATACAATTGAATGTATAATGGTGCAAAATTAC
254 AATCTAACATTGGGAATTTAGTGCATTCCTATTATACAATTAAAGGTATAATGGTGCAAAATTAC
* * * *
4965611 TATTCCTTATATTAGATAAGGCATTCCTATTGTGTAAGAAAGGCAC
319 TATTCCATATATTAAACAAGGCATTCCTATTGTGGAAGAAAGGCAC
4965657 GATGGTGCTT
Statistics
Matches: 314, Mismatches: 43, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
399 4 0.01
400 7 0.02
401 297 0.95
402 4 0.01
403 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (400 bp):
CATTAAGGAATAAAGTTGCCAATATGTGAATCTAACTTCGATATTTAGTGCATTCCTATTATACA
ATTGAAGGTATAATGATGCAAAACTAATATTTCTTATATTACACAAGGCATTCCTATTGTATAAT
AAAAGCACAATGATGCTTATATGAACATATACCTAAAGTGAGAATGACTTTATGATGCTTAGACA
AATAAACAAACTTTGAGGTTCGGGCATTTACATTAAGGAATAATGTTGCCAAAATATGAATCTAA
CATTGGGAATTTAGTGCATTCCTATTATACAATTAAAGGTATAATGGTGCAAAATTACTATTCCA
TATATTAAACAAGGCATTCCTATTGTGGAAGAAAGGCACAATCGTGCCAATCAAATTTTGAGATG
CAGACATGTA
Found at i:4965968 original size:227 final size:225
Alignment explanation
Indices: 4965286--4966062 Score: 866
Period size: 226 Copynumber: 3.4 Consensus size: 225
4965276 GAGATGCAGA
* * * * *
4965286 CATGTACATTAAGGAATAAAGTTGGCAATATGTGAATCTAACATTGCGTATTTGGTGCATTCTTA
1 CATGTAAATTAAGGTATAATGTTGCCAATATGTGAATCTAACATTGCATATTTGGTGCATTCTTA
* * * * * * *
4965351 TTATACAATTGAAGTTATAATGATGCAAAACTAATATTTTATTTATTAGACAAGGCATTTCTATT
66 TTATACAATTGAAGGTATAATGGTGCAAAA-TTATATTTCATATATTAGATAAGGCATTCCTATT
* * ** * *
4965416 GTATAAT-AAAGGCACAATGGTGCTTATGTGAACATATACCTAAATTGAGAACTATTTTATGATG
130 GTATTATAAAAGGCACGATGGTGCTTATGTGAACATATACCTAAGGTGAGAGCTACTTT-TGATG
* **
4965480 CTTAGAGAAATAAACAATA-TTTGAGGTGTGCA
194 CTTAAAGAAATAAACAA-ACTTTGAGGTGTGGG
* * * ** *
4965512 CTTGTATATTAAGGTATAATGTTGCCAATATATGAATCTAACATTGGGTATTTGGTGTATTCTTA
1 CATGTAAATTAAGGTATAATGTTGCCAATATGTGAATCTAACATTGCATATTTGGTGCATTCTTA
* * *
4965577 TTATACAATTGAATGTATAATGGTGCAAAATTACTATTCCTTATATTAGATAAGGCATTCCTATT
66 TTATACAATTGAAGGTATAATGGTGCAAAATTA-TATTTCATATATTAGATAAGGCATTCCTATT
*
4965642 GT-GTA-AGAAAGGCACGATGGTGCTTATGTGAACATATACCTAAGGTGAGCAG-TACTTTTCGA
130 GTATTATA-AAAGGCACGATGGTGCTTATGTGAACATATACCTAAGGTGAG-AGCTACTTTT-GA
* *
4965704 TGTTTAAAAAAATAAACAAACTTTGAGGTGTGGG
192 TGCTTAAAGAAATAAACAAACTTTGAGGTGTGGG
* * * * *
4965738 CATGCAAATTAAGGTATAATGTTGCCAATATGTGAATTTGACATCT-CATATTTAGTGCATTCAT
1 CATGTAAATTAAGGTATAATGTTGCCAATATGTGAATCTAACAT-TGCATATTTGGTGCATTCTT
* * * * * * *
4965802 GTTGTATAATTGAAGGTATAATGGTGCAAAATTGATATTTCAGATGTTTGATAGGGCATTCCTAT
65 ATTATACAATTGAAGGTATAATGGTGCAAAATT-ATATTTCATATATTAGATAAGGCATTCCTAT
* * * * * *
4965867 TCTATTATAAAAGGCATGATAGTGCTTATGTGAACATATACCCAAGGTGAGAGCCACTTTGTGGT
129 TGTATTATAAAAGGCACGATGGTGCTTATGTGAACATATACCTAAGGTGAGAGCTACTTT-TGAT
* *
4965932 GCTTAAAGAAATAAACAAACTTTAAGATGTGGG
193 GCTTAAAGAAATAAACAAACTTTGAGGTGTGGG
* * ** * * *
4965965 CATGTACATTAAGGTACAACATTACCAATATGTGAATCTAAC-TTCTCATATTTGGTGCATTCCT
1 CATGTAAATTAAGGTATAATGTTGCCAATATGTGAATCTAACATT-GCATATTTGGTGCATTCTT
4966029 ATTATACAATTGAAGGTATAATGGTGCAAAATTA
65 ATTATACAATTGAAGGTATAATGGTGCAAAATTA
4966063 AAGGCACGAT
Statistics
Matches: 462, Mismatches: 75, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
225 6 0.01
226 294 0.64
227 160 0.35
228 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (225 bp):
CATGTAAATTAAGGTATAATGTTGCCAATATGTGAATCTAACATTGCATATTTGGTGCATTCTTA
TTATACAATTGAAGGTATAATGGTGCAAAATTATATTTCATATATTAGATAAGGCATTCCTATTG
TATTATAAAAGGCACGATGGTGCTTATGTGAACATATACCTAAGGTGAGAGCTACTTTTGATGCT
TAAAGAAATAAACAAACTTTGAGGTGTGGG
Found at i:4972342 original size:215 final size:215
Alignment explanation
Indices: 4971940--4972349 Score: 725
Period size: 215 Copynumber: 1.9 Consensus size: 215
4971930 ATATCTAACG
*
4971940 CAGTCTTTTATTTCTCTGTAATTGTCACTCAGCTGTATGATCCTCTCTATATGAAACTGTTTTAA
1 CAGTCTTTTATTTCTCTGTAATTGTCACTCAGCTGTATGATCCTCTCTAGATGAAACTGTTTTAA
*
4972005 GTTGTCCCGGTACATTCATTTATCCAACTATAGCTTTTCATATAAAAGATTCTATTAAAGGCTAC
66 GTTGTCCCGGTACATTCATTTATCCAACTACAGCTTTTCATATAAAAGATTCTATTAAAGGCTAC
4972070 TTCACCAGTTTCTTTTAGGGTTCTACTTTTCTTGAATGTTGATAATCATATTCTAAATTTAAACA
131 TTCACCAGTTTCTTTTAGGGTTCTACTTTTCTTGAATGTTGATAATCATATTCTAAATTTAAACA
4972135 GTGGGGAAAGTAGCATGACT
196 GTGGGGAAAGTAGCATGACT
*
4972155 CAGTCTTTTATTTCTCTGTAATTGTCACTCAGCTGTATGATCCTCTCTAGATGAAATTGTTTTAA
1 CAGTCTTTTATTTCTCTGTAATTGTCACTCAGCTGTATGATCCTCTCTAGATGAAACTGTTTTAA
* * *
4972220 GTTGTCCTGGTACATTCATTTATCCAACTACAGCTTTTCATATAAAAGATT-TCTTAAATGCTAC
66 GTTGTCCCGGTACATTCATTTATCCAACTACAGCTTTTCATATAAAAGATTCTATTAAAGGCTAC
*
4972284 TTCACCAGTCTT-TTTTAGGGTTCTACTTTTCTTGACTGTTGATAATCATATCTCTAAATTTAAA
131 TTCACCAGT-TTCTTTTAGGGTTCTACTTTTCTTGAATGTTGATAATCATAT-TCTAAATTTAAA
4972348 CA
194 CA
4972350 ACATTGTTTC
Statistics
Matches: 186, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
214 58 0.31
215 128 0.69
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (215 bp):
CAGTCTTTTATTTCTCTGTAATTGTCACTCAGCTGTATGATCCTCTCTAGATGAAACTGTTTTAA
GTTGTCCCGGTACATTCATTTATCCAACTACAGCTTTTCATATAAAAGATTCTATTAAAGGCTAC
TTCACCAGTTTCTTTTAGGGTTCTACTTTTCTTGAATGTTGATAATCATATTCTAAATTTAAACA
GTGGGGAAAGTAGCATGACT
Found at i:4981145 original size:2 final size:2
Alignment explanation
Indices: 4981140--4981169 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4981130 TTAGTTATAT
4981140 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4981170 CTTAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4983924 original size:24 final size:24
Alignment explanation
Indices: 4983886--4983935 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
4983876 TTCTTTTTTT
* *
4983886 TTTCTTGTATTGTAAAGTTTCATC
1 TTTCTTGTATAGTAAAATTTCATC
*
4983910 TTTCTTTTATAGTAAAATTTCATC
1 TTTCTTGTATAGTAAAATTTCATC
4983934 TT
1 TT
4983936 GTTTTCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTCTTGTATAGTAAAATTTCATC
Found at i:4987917 original size:76 final size:76
Alignment explanation
Indices: 4987791--4987941 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 76
4987781 AAGCAGATGT
4987791 CATCTTACAATAAACAAACCTCAAAGTATCAGTTAATACATGAAGAGCTGCTTTAGATGCAGTGT
1 CATCTTACAATAAACAAACCTCAAAGTATCAGTTAATACATGAAGAGCTGCTTTAGATGCAGTGT
4987856 AGACACCAGAA
66 AGACACCAGAA
* * *
4987867 CATCTT-CTAATAAACTAACCTCAGAGTATCAGTTAATGCATGAAGAGCTGCTTTAGATGCAGTG
1 CATCTTAC-AATAAACAAACCTCAAAGTATCAGTTAATACATGAAGAGCTGCTTTAGATGCAGTG
4987931 TAGACACCAGA
65 TAGACACCAGA
4987942 CCATGGCCCA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
75 1 0.01
76 70 0.99
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (76 bp):
CATCTTACAATAAACAAACCTCAAAGTATCAGTTAATACATGAAGAGCTGCTTTAGATGCAGTGT
AGACACCAGAA
Found at i:4989341 original size:37 final size:37
Alignment explanation
Indices: 4989252--4989324 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
4989242 CAGTTGGTAT
4989252 CAGAGCCATTGCGATCCAGGTGCTCGACGAAATTCCG
1 CAGAGCCATTGCGATCCAGGTGCTCGACGAAATTCCG
4989289 CAGAGCCATTGCGATCCAGGTGCTCGACGAAATTCC
1 CAGAGCCATTGCGATCCAGGTGCTCGACGAAATTCC
4989325 TAGAGCAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (37 bp):
CAGAGCCATTGCGATCCAGGTGCTCGACGAAATTCCG
Found at i:5001492 original size:36 final size:36
Alignment explanation
Indices: 5001452--5001523 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
5001442 AATTACAATC
5001452 AATAATAATCAGAAATAATGAGAAATAAAATAGAAG
1 AATAATAATCAGAAATAATGAGAAATAAAATAGAAG
5001488 AATAATAATCAGAAATAATGAGAAATAAAATAGAAG
1 AATAATAATCAGAAATAATGAGAAATAAAATAGAAG
5001524 TTCTTCTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.19
Consensus pattern (36 bp):
AATAATAATCAGAAATAATGAGAAATAAAATAGAAG
Found at i:5001572 original size:12 final size:12
Alignment explanation
Indices: 5001555--5001584 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5001545 ACCAGAAGTT
*
5001555 TTTTCTCAATTC
1 TTTTCTCAATTA
5001567 TTTTCTCAATTA
1 TTTTCTCAATTA
5001579 TTTTCT
1 TTTTCT
5001585 TAGAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTCTCAATTA
Found at i:5002520 original size:28 final size:27
Alignment explanation
Indices: 5002459--5002530 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
5002449 CCTATGATTT
5002459 TAATTGAAAAAAAAATTCATAACATAC
1 TAATTGAAAAAAAAATTCATAACATAC
* *
5002486 TAATTGAAAAGTAAAATTCATAAGAT-C
1 TAATTGAAAA-AAAAATTCATAACATAC
*
5002513 TCATTTGAAAAAAAAATT
1 T-AATTGAAAAAAAAATT
5002531 AAAATCATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 18 0.46
28 21 0.54
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (27 bp):
TAATTGAAAAAAAAATTCATAACATAC
Found at i:5003368 original size:16 final size:16
Alignment explanation
Indices: 5003344--5003377 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5003334 TCATAAGAAG
*
5003344 AATTGATAGTAAACTT
1 AATTAATAGTAAACTT
*
5003360 AATTAATAGTATACTT
1 AATTAATAGTAAACTT
5003376 AA
1 AA
5003378 AATATATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
AATTAATAGTAAACTT
Found at i:5003585 original size:24 final size:25
Alignment explanation
Indices: 5003545--5003591 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
5003535 TTGCTGCATA
5003545 TTAATATGTTATAATTAT-TAAACT
1 TTAATATGTTATAATTATATAAACT
*
5003569 TTAATAATGTT-TCATTATATAAA
1 TTAAT-ATGTTATAATTATATAAA
5003592 ATGTTATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (25 bp):
TTAATATGTTATAATTATATAAACT
Found at i:5004863 original size:15 final size:16
Alignment explanation
Indices: 5004832--5004862 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5004822 TATTTGATTC
5004832 ATGAAAT-AAATAAAA
1 ATGAAATAAAATAAAA
5004847 ATGAAATAAAATAAAA
1 ATGAAATAAAATAAAA
5004863 TAAAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
ATGAAATAAAATAAAA
Found at i:5005050 original size:14 final size:14
Alignment explanation
Indices: 5005033--5005066 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
5005023 AAAGATAAAA
5005033 ATATTTTTTATTAT
1 ATATTTTTTATTAT
5005047 ATATTTTTTATTAT
1 ATATTTTTTATTAT
5005061 AT-TTTT
1 ATATTTT
5005067 AAAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
ATATTTTTTATTAT
Found at i:5005372 original size:20 final size:20
Alignment explanation
Indices: 5005335--5005396 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
5005325 TATTTTTAAA
*
5005335 TATTAATAAATT--ATATTT
1 TATTGATAAATTAAATATTT
*
5005353 TGTTGATAATATT-AATATTT
1 TATTGATAA-ATTAAATATTT
*
5005373 TATTTATAAATTAAATATTAT
1 TATTGATAAATTAAATATT-T
5005394 TAT
1 TAT
5005397 GATTATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 7 0.19
19 6 0.17
20 19 0.53
21 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TATTGATAAATTAAATATTT
Found at i:5005386 original size:155 final size:155
Alignment explanation
Indices: 5005069--5005367 Score: 386
Period size: 154 Copynumber: 1.9 Consensus size: 155
5005059 ATATTTTTAA
* *
5005069 AATATTAATATTTTATTTAAAATCTAATCATTAACATTACAAAATATTAATATTTTATTTATAAT
1 AATATTAATATTTTATTTAAAATCTAATCATTAACATTACAAAATAATAATATTTAATTTATAAT
* * *
5005134 TTAAAAATTATTATCATTATTTATTTGAAATTATTTTATTTTATATTAATAATTTATAATTTATT
66 TTAAAAACTATTATCAATATTTATTTGAAATTATTTTATTTTATATTAATAAATTATAATTTATT
*
5005199 TAAAATATTAAAAATTGATATTTTG
131 GAAAATATTAAAAATTGATATTTTG
* *
5005224 AATATTAATATTTTATTTATAATTTAATCATT-ACTATTA-AAAATAATAATATTTAATTTATAA
1 AATATTAATATTTTATTTAAAATCTAATCATTAAC-ATTACAAAATAATAATATTTAATTTATAA
** * ** * *
5005287 TTTAAATGCTATTATGAATATTTATTTTTATTTCATTTTATTTTTAAATATTAATAAATTATATT
65 TTTAAAAACTATTATCAATATTTATTTGAAATT-ATTTTA-TTTT--ATATTAATAAATTATAAT
* *
5005352 TTGTTGATAATATTAA
126 TTATTGAAAATATTAA
5005368 TATTTTATTT
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
154 49 0.40
155 40 0.33
156 4 0.03
158 29 0.24
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (155 bp):
AATATTAATATTTTATTTAAAATCTAATCATTAACATTACAAAATAATAATATTTAATTTATAAT
TTAAAAACTATTATCAATATTTATTTGAAATTATTTTATTTTATATTAATAAATTATAATTTATT
GAAAATATTAAAAATTGATATTTTG
Found at i:5005442 original size:28 final size:28
Alignment explanation
Indices: 5005411--5005469 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
5005401 ATTTATTTTT
* *
5005411 ATTTA-ATTTTATCTTTTAAATAGTAATA
1 ATTTATATTTT-TATTTAAAATAGTAATA
*
5005439 ATTTATATTTTTATTTAAAATATTAATA
1 ATTTATATTTTTATTTAAAATAGTAATA
5005467 ATT
1 ATT
5005470 GATCATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTATATTTTTATTTAAAATAGTAATA
Found at i:5005752 original size:185 final size:185
Alignment explanation
Indices: 5005373--5005707 Score: 458
Period size: 185 Copynumber: 1.8 Consensus size: 185
5005363 ATTAATATTT
* *
5005373 TATTTATAAATTAAATATTATTATGATTATTTATTTTTATTTAATTTTATCTTTTAAATAGTAAT
1 TATTTATAATTTAAATATTATTATGATTATTTATTTTTATTTAATTTTATCTTTTAAATAGTAAA
* * * *
5005438 AATTTATATTTTTATTTAAAATATTAATAATTGATCATTTAAATATTAATATTTTATTTATAATT
66 AATTAATATATTGATTTAAAATATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATT
** * * * *
5005503 TAATCATTAATATTATAAAAGACTATGATATTATGATTATTTATAAATAATATTT
131 TAATCATTAATAAGATAAAAGACTATAATATTATAATTATTTATAAATAATAATA
* * * *
5005558 TATTTATAATTTTAATATTATTATGATTATTTATTTTTATTTTATTTTATTTTTTAAATATTAAA
1 TATTTATAATTTAAATATTATTATGATTATTTATTTTTATTTAATTTTATCTTTTAAATAGTAAA
* **
5005623 AATTAATA-ATTGATTTAAGATATTGTTAATTGATAATTTAAATATTAATATTTTATTTATAATT
66 AATTAATATATTGATTTAAAATATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATT
*
5005687 TAAAT-ATTACTAAGATTAAAA
131 T-AATCATTAATAAGA-TAAAA
5005708 TATTAATACT
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
184 58 0.44
185 74 0.56
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (185 bp):
TATTTATAATTTAAATATTATTATGATTATTTATTTTTATTTAATTTTATCTTTTAAATAGTAAA
AATTAATATATTGATTTAAAATATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATT
TAATCATTAATAAGATAAAAGACTATAATATTATAATTATTTATAAATAATAATA
Found at i:5005858 original size:15 final size:15
Alignment explanation
Indices: 5005838--5005877 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5005828 TATATTTCAC
5005838 TTAATAATTTAAA-AA
1 TTAAT-ATTTAAAGAA
*
5005853 TTAATATTTAAAGTA
1 TTAATATTTAAAGAA
5005868 TTAATATTTA
1 TTAATATTTA
5005878 TTTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAATATTTAAAGAA
Found at i:5016421 original size:30 final size:29
Alignment explanation
Indices: 5016379--5016445 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
5016369 TTGTGATTTT
*
5016379 TTTTC-CTAAATTAACATATTGTAGGTATC
1 TTTTCTCTAAATTAACATA-TGTAGGTAAC
*
5016408 TTTTCTCTCAATTAACATATGTAGGTAAC
1 TTTTCTCTAAATTAACATATGTAGGTAAC
5016437 TTTTGCTCT
1 TTTT-CTCT
5016446 TCCAAAGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.46
Consensus pattern (29 bp):
TTTTCTCTAAATTAACATATGTAGGTAAC
Found at i:5022985 original size:24 final size:25
Alignment explanation
Indices: 5022956--5023003 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
5022946 AAATATTTAA
*
5022956 AAAAC-AATTGATCAAATATAAAAG
1 AAAACAAATTGACCAAATATAAAAG
5022980 AAAACAAATTGACCAAATATAAAA
1 AAAACAAATTGACCAAATATAAAA
5023004 TTAATTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.19
Consensus pattern (25 bp):
AAAACAAATTGACCAAATATAAAAG
Found at i:5023514 original size:214 final size:215
Alignment explanation
Indices: 5023117--5023573 Score: 572
Period size: 215 Copynumber: 2.1 Consensus size: 215
5023107 TATATACAAA
*
5023117 TTATGTATAAATTAAATATATGTATATATAATATATTACTTTATTATATATGCGACATTAATGAC
1 TTATGTATAAATTAAATATATGTATATATAATATATTACTTTATTATATATACGACATTAATGAC
* *
5023182 ACAACTTATATGTTATAATATTTTAATTTTGATATCATAGTTTGTATAAATAATAACTAATTACA
66 ACAACTTATATGTTATAATATTTTAA--TTGATATCAAAGTTTGTATAAATAATAACTAATTAAA
* * *
5023247 ACAATATGTTATGAAAACTAAGATAATAACTCAAAAATTATTAAGTGTAATCATAT-AAGAAAGT
129 ACAATATGTTATAAAAACTAAGATAATAACTCAAAAAGTATTAAGTATAATCATATAAAGAAAGT
* *
5023311 CTATTATAAGTTACAGTAATGC
194 CTATTATAAGCTACAGTAATAC
*
5023333 TTATGTATAAATTAAATATATGTATATTTATAATATATTACTTTATTATGTATATATGA-AGTTA
1 TTATGTATAAATTAAATATATGTATA--TATAATATATTACTTTATTA--TATATACGACA-TTA
* *
5023397 ATGATACAACTTATA-GTTTATAATGTTTT-A-T-AT-T-AAAGTTTGTATAAATAATAACTAAT
61 ATGACACAACTTATATG-TTATAATATTTTAATTGATATCAAAGTTTGTATAAATAATAACTAAT
* * * *
5023456 TATAAACAATATGTTATAAAAACTAAGGTGATAA-TTAATAAGGTATTAAGTATAATCATATAAA
125 TA-AAACAATATGTTATAAAAACTAAGATAATAACTCAA-AAAGTATTAAGTATAATCATATAAA
* * * *
5023520 TAAAGTTTATTATAAGCTATAGTAATAT
188 GAAAGTCTATTATAAGCTACAGTAATAC
* *
5023548 TTATGTATAAATTAAACATATATATA
1 TTATGTATAAATTAAATATATGTATA
5023574 ATGTTATTCA
Statistics
Matches: 211, Mismatches: 21, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
213 29 0.14
214 47 0.22
215 50 0.24
216 27 0.13
218 20 0.09
219 3 0.01
220 35 0.17
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (215 bp):
TTATGTATAAATTAAATATATGTATATATAATATATTACTTTATTATATATACGACATTAATGAC
ACAACTTATATGTTATAATATTTTAATTGATATCAAAGTTTGTATAAATAATAACTAATTAAAAC
AATATGTTATAAAAACTAAGATAATAACTCAAAAAGTATTAAGTATAATCATATAAAGAAAGTCT
ATTATAAGCTACAGTAATAC
Found at i:5024714 original size:17 final size:17
Alignment explanation
Indices: 5024685--5024726 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5024675 AAGTTTAAAA
*
5024685 AAAGATAAA-AAAATA-
1 AAAGAAAAACAAAATAG
5024700 AAATGAAAAACAAAATAG
1 AAA-GAAAAACAAAATAG
5024718 AAAGAAAAA
1 AAAGAAAAA
5024727 GAAGAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 5 0.22
17 12 0.52
18 3 0.13
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAGAAAAACAAAATAG
Found at i:5026370 original size:28 final size:27
Alignment explanation
Indices: 5026329--5026400 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
5026319 ACAAAAATAG
*
5026329 AAAATAATA-TACATGTTATATTTAAA
1 AAAATATTATTACATGTTATATTTAAA
*
5026355 AAAATTATTATTACATGTTATGTTTAAA
1 AAAA-TATTATTACATGTTATATTTAAA
*
5026383 AAAATATTGTTACA-GTTA
1 AAAATATTATTACATGTTA
5026401 CAAAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 8 0.20
27 13 0.32
28 20 0.49
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATATTATTACATGTTATATTTAAA
Found at i:5026424 original size:20 final size:21
Alignment explanation
Indices: 5026381--5026424 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
5026371 GTTATGTTTA
*
5026381 AAAAAATATTGTTACAGTTAC
1 AAAAAATATTGTTACAATTAC
5026402 AAAAAA-ATTGTTACACATT-C
1 AAAAAATATTGTTACA-ATTAC
5026422 AAA
1 AAA
5026425 TTCCAAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAAAATATTGTTACAATTAC
Found at i:5028757 original size:17 final size:17
Alignment explanation
Indices: 5028728--5028760 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5028718 ATATTTTTAT
5028728 TTTAAATTAAATAATTA
1 TTTAAATTAAATAATTA
5028745 TTTATAATT-AATAATT
1 TTTA-AATTAAATAATT
5028761 GACTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAAATTAAATAATTA
Found at i:5028916 original size:16 final size:17
Alignment explanation
Indices: 5028888--5028929 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5028878 GATCTAAAAT
5028888 ATTTAATAAATTT-TT-A
1 ATTTAA-AAATTTATTCA
5028904 ATTATAAAAATTTATTCA
1 ATT-TAAAAATTTATTCA
5028922 ATTTAAAA
1 ATTTAAAA
5028930 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 9 0.39
17 10 0.43
18 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAAAAATTTATTCA
Found at i:5035557 original size:40 final size:40
Alignment explanation
Indices: 5035501--5035684 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 40
5035491 ATGCGTACTG
* * * **
5035501 ACAGTATATTCTAAGGCAAATATGTCTCTCGTGGGGC-CTA
1 ACAGTATATTCCAAGGCAAATAAGTCTATC-ACGGGCACTA
* * *
5035541 ACAGTGTATTCCAAGGCAAAAAAGTCTATCACGGGCACTG
1 ACAGTATATTCCAAGGCAAATAAGTCTATCACGGGCACTA
* * ** *
5035581 ACAGTCTATTCCAAGGCAAATAAGGTTTATCGTGGGTACTA
1 ACAGTATATTCCAAGGCAAATAA-GTCTATCACGGGCACTA
* * * * * * *
5035622 ACAGTATCTTCCAAGACAAAAAAGTTTCTCATGGGTACTA
1 ACAGTATATTCCAAGGCAAATAAGTCTATCACGGGCACTA
* ** *
5035662 ACAGCACGTTCCAAGGCAGATAA
1 ACAGTATATTCCAAGGCAAATAA
5035685 ACACTACTAA
Statistics
Matches: 115, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 4 0.03
40 80 0.70
41 31 0.27
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (40 bp):
ACAGTATATTCCAAGGCAAATAAGTCTATCACGGGCACTA
Found at i:5038076 original size:21 final size:20
Alignment explanation
Indices: 5038038--5038081 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
5038028 AGGTAAGATT
**
5038038 CAATAAGCAAATCCAAATATA
1 CAATAAGCAAATAAAAAT-TA
*
5038059 CAATTAGCAAATAAAAATTA
1 CAATAAGCAAATAAAAATTA
5038079 CAA
1 CAA
5038082 AAAGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.20
Consensus pattern (20 bp):
CAATAAGCAAATAAAAATTA
Found at i:5047766 original size:24 final size:24
Alignment explanation
Indices: 5047738--5047786 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
5047728 TAAAATAATA
5047738 TAAAAGATAATAAAAAT-TAAAAAT
1 TAAAAG-TAATAAAAATATAAAAAT
*
5047762 TAAAAGTTATAAAAATATAAAAAT
1 TAAAAGTAATAAAAATATAAAAAT
5047786 T
1 T
5047787 TACATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
TAAAAGTAATAAAAATATAAAAAT
Found at i:5049529 original size:15 final size:15
Alignment explanation
Indices: 5049501--5049541 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
5049491 GTTTTATTAC
5049501 ATATGTTGATTGGAGT
1 ATATGTT-ATTGGAGT
5049517 ATATGTTATTGGAGT
1 ATATGTTATTGGAGT
*
5049532 ATATATTATT
1 ATATGTTATT
5049542 TGTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (15 bp):
ATATGTTATTGGAGT
Found at i:5051346 original size:141 final size:142
Alignment explanation
Indices: 5051194--5051470 Score: 432
Period size: 141 Copynumber: 2.0 Consensus size: 142
5051184 AAATTATGAT
*
5051194 AATACTCTATAAACATTGCAGAACCCAATAATTAAT-CATGAAAAAATCACTTTCAAGTTGCAAG
1 AATACTATATAAACATTGCAGAACCCAAT-ATTAATGCATGAAAAAATCACTTTCAAGTTGCAAG
* * * * *
5051258 AAAGCTCCAAGGCCTTTTTTTTTTT-TTTGTTTTATGTTGATTGGATTTAAGTTTCTATTTGTAG
65 AAAGCCCCAAGGCCTTTTTTTTTTTGGTTATTTTATGTTGATTGGATTTAAGTTACTAATTGTAG
5051322 TTTACTACTAAAA
130 TTTACTACTAAAA
* * *
5051335 AATACTATATAAACATTGCAGAACCCAATATTAATGTATTAAAAAATCACTTTCAAGTTTCAAGA
1 AATACTATATAAACATTGCAGAACCCAATATTAATGCATGAAAAAATCACTTTCAAGTTGCAAGA
*
5051400 AAGCCCCAAGGCCTTTTTTTTTTTGGGTTATTTTATGTTGATTGGATTTAAGTTACTAATTGTGG
66 AAGCCCCAAGGCCTTTTTTTTTTT-GGTTATTTTATGTTGATTGGATTTAAGTTACTAATTGTAG
5051465 TTTACT
130 TTTACT
5051471 GCTCAATATA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
140 6 0.05
141 77 0.63
143 40 0.33
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (142 bp):
AATACTATATAAACATTGCAGAACCCAATATTAATGCATGAAAAAATCACTTTCAAGTTGCAAGA
AAGCCCCAAGGCCTTTTTTTTTTTGGTTATTTTATGTTGATTGGATTTAAGTTACTAATTGTAGT
TTACTACTAAAA
Found at i:5053004 original size:15 final size:15
Alignment explanation
Indices: 5052984--5053017 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5052974 GGCTGGAGGG
*
5052984 CTTCCTCATCTTCAT
1 CTTCCTCATCCTCAT
5052999 CTTCCTCATCCTCAT
1 CTTCCTCATCCTCAT
5053014 CTTC
1 CTTC
5053018 GTTTTCTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (15 bp):
CTTCCTCATCCTCAT
Found at i:5053077 original size:15 final size:15
Alignment explanation
Indices: 5053073--5053122 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
5053063 CTCTTCCTCA
5053073 TCATCATCCTCATCC
1 TCATCATCCTCATCC
* *
5053088 TCATCATCATCATCT
1 TCATCATCCTCATCC
*
5053103 TCATCATCGTCATCC
1 TCATCATCCTCATCC
5053118 TCATC
1 TCATC
5053123 CTCTGGGTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.22, C:0.40, G:0.02, T:0.36
Consensus pattern (15 bp):
TCATCATCCTCATCC
Found at i:5053078 original size:3 final size:3
Alignment explanation
Indices: 5053070--5053122 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
5053060 ATCCTCTTCC
* * * * *
5053070 TCA TCA TCA TCC TCA TCC TCA TCA TCA TCA TCT TCA TCA TCG TCA TCC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
5053118 TCA TC
1 TCA TC
5053123 CTCTGGGTCT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.23, C:0.40, G:0.02, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:5053123 original size:6 final size:6
Alignment explanation
Indices: 5053059--5053125 Score: 71
Period size: 6 Copynumber: 11.2 Consensus size: 6
5053049 TCTTCTCCAC
* * * * * *
5053059 CATCCT CTTCCT CATCAT CATCCT CATCCT CATCAT CATCAT CTTCAT
1 CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT
*
5053107 CATCGT CATCCT CATCCT C
1 CATCCT CATCCT CATCCT C
5053126 TGGGTCTTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.19, C:0.43, G:0.01, T:0.36
Consensus pattern (6 bp):
CATCCT
Found at i:5055380 original size:22 final size:22
Alignment explanation
Indices: 5055355--5055414 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
5055345 AATTATACTA
* *
5055355 AAAAGAAAATATAATTTTTTTT
1 AAAAGAAAAGACAATTTTTTTT
* *
5055377 AAAAGAAAGGACAGTTTTTTTT
1 AAAAGAAAAGACAATTTTTTTT
*
5055399 AGAAGAAAAAGACAAT
1 AAAAG-AAAAGACAAT
5055415 AAACCACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.32
Consensus pattern (22 bp):
AAAAGAAAAGACAATTTTTTTT
Found at i:5062338 original size:2 final size:2
Alignment explanation
Indices: 5062333--5062369 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5062323 ACATACATAC
*
5062333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5062370 AAATTTTGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5076971 original size:17 final size:17
Alignment explanation
Indices: 5076940--5076973 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5076930 TTTTTTGACT
*
5076940 TTTTCTTTAATCCAAAA
1 TTTTCTTTAACCCAAAA
*
5076957 TTTTCTTTCACCCAAAA
1 TTTTCTTTAACCCAAAA
5076974 CCTCTAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTCTTTAACCCAAAA
Found at i:5079790 original size:21 final size:22
Alignment explanation
Indices: 5079765--5079805 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5079755 TTTAATTTTT
5079765 AAATAAAAATAA-TAAAAATAA
1 AAATAAAAATAATTAAAAATAA
**
5079786 AAATAATTATAATTAAAAAT
1 AAATAAAAATAATTAAAAAT
5079806 TACTATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAAAATAATTAAAAATAA
Found at i:5079800 original size:250 final size:246
Alignment explanation
Indices: 5079207--5080652 Score: 1006
Period size: 249 Copynumber: 5.8 Consensus size: 246
5079197 TATAAAAAGT
* * * * * *
5079207 AAATATTTAAATTTATATTTTAAGGGTAAAAGTATTTAATCATATACAAATTTTAATTTTAAAAT
1 AAATATTTAAATTTATATTATCA-GATTAAAGTATTTAATGATATATAAATTTTAATTTTAAAAT
* * * * *
5079272 -AAAA-AAT-AATATGGATAAAAATAATTATAGTTAAAAGTT-ATCATTGATAAA-TCTTAACGT
65 AAAAATAATAAAAAT-AAAAAAAATAATTATAGTTAAAAGTTGCT-ATTGA-AAAGTCTTAACAT
* * ** * * *
5079332 AAAATTGTAAGAATTAATATAAAAAATTATAAATGT-AGAATAAATAAATTTTAAATCTTAATGT
127 AAAATTATAAAAATTAACGTAAAAACTTATAAAAGTGA-AAT-AACAAA-TTTAAATCTTAATGT
* * *
5079396 AAATGTGTGAGAGTTAATATAAAAAGTCAATTAAATAAAAATAA-ATAAATTTTAACAAAA
189 AAATGTGTGAGAGTTAATGTAACAAGTCAATT-AATAAAAA-AATAT-AATTTTAATAAAA
* * * * * * *
5079456 ATCAAAAATCAATATTTATATTCTAAGGTTAAAAGTATTTAACGATATATAAATTTTAAATTTT-
1 A--AATATTTAA-ATTTATATTATCAGATT-AAAGTATTTAATGATATATAAATTTT-AATTTTA
* * *
5079520 AAATAAAGAATAATAAGAAT---AAAAATAATTATAGTTAAAAGTTGTTATT-AAAATGTCTTGA
61 AAATAAA-AATAATAAAAATAAAAAAAATAATTATAGTTAAAAGTTGCTATTGAAAA-GTCTTAA
* *
5079581 CATAAAATTATAAAAATTAACGTAAAAATTTATAAAAGTGAAATAACAAATTTAAATTTTAATGT
124 CATAAAATTATAAAAATTAACGTAAAAACTTATAAAAGTGAAATAACAAATTTAAATCTTAATGT
*
5079646 AAATGTGTGAGAATTAATGTAACAAGTCAATTACATAAAAAAAATATAATTTTAAT-AAA
189 AAATGTGTGAGAGTTAATGTAACAAGTCAATTA-AT-AAAAAAATATAATTTTAATAAAA
* ** * * *
5079705 AAATAGTTAAATTTATATTATCCTACTAAAGTATTTAATGATATATAAGTTTTAATTTTTAAATA
1 AAATATTTAAATTTATATTATCAGATTAAAGTATTTAATGATATATAAATTTTAATTTTAAAATA
* * * * * *
5079770 AAAATAATAAAAAT---AAAAATAATTATAATTAAAAATTACTATTGAAGAGCCTTGACA-AAAA
66 AAAATAATAAAAATAAAAAAAATAATTATAGTTAAAAGTTGCTATTGAAAAGTCTTAACATAAAA
* * * *
5079831 GTAGTAAAAATTGACGTAAAAACTTA-AAAAG-GTAGAATAATCAAATCTAAAATCTTAACGTAA
131 TTA-TAAAAATTAACGTAAAAACTTATAAAAGTG-A-AATAA-CAAAT-TTAAATCTTAATGTAA
* *
5079894 ATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AAAAAATTTAATTTTAATGAAAAA
191 ATGTGTGAGAGTTAATGTAACAAGTCAATTAA-TAAAAAAATATAATTTTAAT--AAAA
* * *
5079952 TAAATATTTAAATTTATATTCTCAAATTAGAAATATTTAATGATATATAAATTTTAATTTTAAAA
1 -AAATATTTAAATTTATATTATCAGATTA-AAGTATTTAATGATATATAAATTTTAATTTTAAAA
* * *
5080017 TAAAAAATAATAAAAAT---AAAAATAATTATATTTAAAAGTTGATATTGAAAAGTCTTAACGTA
64 T-AAAAATAATAAAAATAAAAAAAATAATTATAGTTAAAAGTTGCTATTGAAAAGTCTTAACATA
* * * * *
5080079 AAGTTGA-AAAAATTAACGT-AAAACTGTAAAAATTAATATAGAAACTTATAAATGTAGATAAAT
128 AAATT-ATAAAAATTAACGTAAAAACT-T-ATAA--AA-GT-GAAA-TAACAAAT-T---TAAAT
* * * * * *
5080142 AAATTTAAAATCTTACAAAAATTTATGAGAGTTACA-GTAATAAATCAATTAAGT-AAAAAATAT
181 ---CTT--AAT-GT----AAATGTGTGAGAGTTA-ATGTAACAAGTCAATTAA-TAAAAAAATAT
5080205 AATTTTAATAAAA
234 AATTTTAATAAAA
* * * *
5080218 AAACATTTAAATTTATATTAT-TGAGTTAAAAGT-TGTTAATGATATACAAATTTTAATTTTTAA
1 AAATATTTAAATTTATATTATCAGA-TT-AAAGTAT-TTAATGATATATAAATTTTAATTTTAAA
* ** *
5080281 ATAAAAAATAATAAGAAT---AAAAATAATTATAGTTAAAAGTTGCTATTGAAAAACCTTTACA-
63 AT-AAAAATAATAAAAATAAAAAAAATAATTATAGTTAAAAGTTGCTATTGAAAAGTCTTAACAT
* * ** * * **
5080342 CAAATATATAAGAATTAGTGTAAAAACTTATAAAAGTGGAATAACCAAATTTAAAATATTAACAT
127 AAAAT-TATAAAAATTAACGTAAAAACTTATAAAAGTGAAATAA-CAAATTT-AAATCTTAATGT
* * * * *
5080407 AAATGTGCGAGAGTTAATATAACAAATCAATTATGTAAAAAAATATATTTTTAATGAAAA
189 AAATGTGTGAGAGTTAATGTAACAAGTCAATTA-ATAAAAAAATATAATTTTAAT-AAAA
** * * ** * **
5080467 CAAACCTTTAAAATTATATTATTAGACCAAAGTATTTCACAATATATAAATTTTAATTTTAAAAT
1 -AAATATTTAAATTTATATTATCAGATTAAAGTATTTAATGATATATAAATTTTAATTTTAAAAT
** * * *
5080532 AAAAATTAATAAGGAT---AAAAATAATTATAATTAAAAGTTG-TCATTGAAAA-ACTTTAACGT
65 AAAAA-TAATAAAAATAAAAAAAATAATTATAGTTAAAAGTTGCT-ATTGAAAAGTC-TTAACAT
* * * * * * *
5080592 AAAACTGTTAGAATTAACATAAAAACTTATAAAAGTAAAATAAATAAATTTAAAATCTTAA
127 AAAATTATAAAAATTAACGTAAAAACTTATAAAAGTGAAAT-AACAAATTT-AAATCTTAA
5080653 CATGCACCCA
Statistics
Matches: 978, Mismatches: 144, Indels: 150
0.77 0.11 0.12
Matches are distributed among these distances:
242 1 0.00
243 12 0.01
244 92 0.09
245 40 0.04
246 55 0.06
247 36 0.04
248 47 0.05
249 167 0.17
250 145 0.15
251 30 0.03
252 110 0.11
253 10 0.01
254 6 0.01
255 10 0.01
256 7 0.01
257 5 0.01
258 4 0.00
259 3 0.00
260 7 0.01
261 3 0.00
262 2 0.00
263 2 0.00
264 10 0.01
265 115 0.12
266 11 0.01
268 47 0.05
269 1 0.00
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.34
Consensus pattern (246 bp):
AAATATTTAAATTTATATTATCAGATTAAAGTATTTAATGATATATAAATTTTAATTTTAAAATA
AAAATAATAAAAATAAAAAAAATAATTATAGTTAAAAGTTGCTATTGAAAAGTCTTAACATAAAA
TTATAAAAATTAACGTAAAAACTTATAAAAGTGAAATAACAAATTTAAATCTTAATGTAAATGTG
TGAGAGTTAATGTAACAAGTCAATTAATAAAAAAATATAATTTTAATAAAA
Found at i:5080037 original size:15 final size:16
Alignment explanation
Indices: 5080013--5080042 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5080003 TTTTAATTTT
5080013 AAAATAAAAAATAATA
1 AAAATAAAAAATAATA
5080029 AAAAT-AAAAATAAT
1 AAAATAAAAAATAAT
5080043 TATATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:5080096 original size:20 final size:20
Alignment explanation
Indices: 5080071--5080114 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
5080061 TTGAAAAGTC
**
5080071 TTAACGTAAAGTTGAAAAAA
1 TTAACGTAAAACTGAAAAAA
*
5080091 TTAACGTAAAACTGTAAAAA
1 TTAACGTAAAACTGAAAAAA
5080111 TTAA
1 TTAA
5080115 TATAGAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (20 bp):
TTAACGTAAAACTGAAAAAA
Found at i:5080123 original size:21 final size:20
Alignment explanation
Indices: 5080086--5080124 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5080076 GTAAAGTTGA
*
5080086 AAAAATTAACGTAAAACTGT
1 AAAAATTAACATAAAACTGT
*
5080106 AAAAATTAATATAGAAACT
1 AAAAATTAACATA-AAACT
5080125 TATAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (20 bp):
AAAAATTAACATAAAACTGT
Found at i:5080260 original size:265 final size:269
Alignment explanation
Indices: 5079850--5080332 Score: 685
Period size: 265 Copynumber: 1.8 Consensus size: 269
5079840 ATTGACGTAA
** *
5079850 AAACTTAAAAAGGTAGAATAATCAAATCTAAAATCTTAACGTAAATGTGTGAGAGTTAACGTAAC
1 AAACTTAAAAAGGTAGAATAATCAAATCTAAAATCTTAACAAAAATGTATGAGAGTTAACGTAAC
* * * *
5079915 AAGTCAATTAAGTAAAAAATTTAATTTTAATGAAAAATAAATATTTAAATTTATATTCTCAAATT
66 AAATCAATTAAGTAAAAAATATAATTTTAAT-AAAAATAAACATTTAAATTTATATTATCAAATT
*
5079980 AGAAATATTTAATGATATATAAATTTTAATTTTAAAATAAAAAATAATAAAAATAAAAATAATTA
130 AGAAATATTTAATGATATACAAATTTTAATTTTAAAATAAAAAATAATAAAAATAAAAATAATTA
*
5080045 TATTTAAAAGTTGATATTGAAAAGTCTTAACGTAAAGTTGAAAAAATTAACGTAAAACTGTAAAA
195 TAGTTAAAAGTTGATATTGAAAAGTCTTAACGTAAAGTTGAAAAAATTAACGTAAAACTGTAAAA
5080110 ATTAATATAG
260 ATTAATATAG
* * * *
5080120 AAACTTATAAATGTAG-ATAAAT-AAATTTAAAATCTT-ACAAAAATTTATGAGAGTT-ACAGTA
1 AAACTTAAAAAGGTAGAAT-AATCAAATCTAAAATCTTAACAAAAATGTATGAGAGTTAAC-GTA
* ** *
5080181 ATAAATCAATTAAGTAAAAAATATAATTTTAAT-AAAA-AAACATTTAAATTTATATTATTGAGT
64 ACAAATCAATTAAGTAAAAAATATAATTTTAATAAAAATAAACATTTAAATTTATATTATCAAAT
* *
5080244 TA-AAAGT-TGTTAATGATATACAAATTTTAATTTTTAAATAAAAAATAATAAGAATAAAAATAA
129 TAGAAA-TAT-TTAATGATATACAAATTTTAATTTTAAAATAAAAAATAATAAAAATAAAAATAA
*
5080307 TTATAGTTAAAAGTTGCTATTGAAAA
192 TTATAGTTAAAAGTTGATATTGAAAA
5080333 ACCTTTACAC
Statistics
Matches: 189, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
264 4 0.02
265 99 0.52
266 4 0.02
267 2 0.01
268 48 0.25
269 15 0.08
270 17 0.09
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (269 bp):
AAACTTAAAAAGGTAGAATAATCAAATCTAAAATCTTAACAAAAATGTATGAGAGTTAACGTAAC
AAATCAATTAAGTAAAAAATATAATTTTAATAAAAATAAACATTTAAATTTATATTATCAAATTA
GAAATATTTAATGATATACAAATTTTAATTTTAAAATAAAAAATAATAAAAATAAAAATAATTAT
AGTTAAAAGTTGATATTGAAAAGTCTTAACGTAAAGTTGAAAAAATTAACGTAAAACTGTAAAAA
TTAATATAG
Found at i:5080609 original size:514 final size:511
Alignment explanation
Indices: 5079684--5080615 Score: 1218
Period size: 515 Copynumber: 1.8 Consensus size: 511
5079674 AATTACATAA
*
5079684 AAAAAATATAATTTTAATAAAAAATAGTTAAATTTATATTATCCTACTAAAGTATTTAATGATAT
1 AAAAAATATAATTTTAATAAAAAACAGTTAAATTTATATTAT-CTACTAAAGTATTTAATGATAT
* *
5079749 ATAAGTTTTAATTTTTAAATAAAAATAATAAAAATAAAAATAATTATAATTAAAAATTACTATTG
65 ACAAATTTTAATTTTTAAATAAAAATAATAAAAATAAAAATAATTATAATTAAAAATTACTATTG
* * *
5079814 AAGAGCCTTGACAAAAAGTAGTAAAAATTGACGTAAAAACTTAAAAAGGTAGAATAATCAAATCT
130 AAAAACCTTGACAAAAAGTAGTAAAAATTGACGTAAAAACTTAAAAAGGTAGAATAACCAAATCT
* * * * * *
5079879 AAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAATTTAATTTTA
195 AAAATATTAACATAAATGTGCGAGAGTTAACATAACAAATCAATTAAGTAAAAAATATAATTTTA
* * * * ** **
5079944 ATGAAAAATAAATATTTAAATTTATATTCTCAAATTAGAAATATTTAATGATATATAAATTTTAA
260 ATGAAAAACAAACATTTAAAATTATATTATCAAACCAGAAATATTTAACAATATATAAATTTTAA
* *
5080009 TTTTAAAATAAAAAATAATAAAAATAAAAATAATTATATTTAAAAGTTGATATTGAAAAGTCTTA
325 TTTTAAAATAAAAAATAATAAAAATAAAAATAATTATAATTAAAAGTTGATATTGAAAACTCTTA
** *
5080074 ACGTAAAGTTGAAAAAATTAACGTAAAACTGTAAAAATTAATATAGAAACTTATAAATGTAGATA
390 ACGTAAAACTGAAAAAATTAACATAAAACTGTAAAAATTAATATAGAAACTTATAAATGTAGATA
5080139 AATAAATTTAAAATCTTACAAAAATTTATGAGAGTTACAGTAATAAATCAATTAAGT
455 AATAAATTTAAAATCTTACAAAAATTTATGAGAGTTACAGTAATAAATCAATTAAGT
* *
5080196 AAAAAATATAATTTTAATAAAAAAACATTTAAATTTATATTAT-TGAGTTAAAAGT-TGTTAATG
1 AAAAAATATAATTTTAAT-AAAAAACAGTTAAATTTATATTATCT-A-CT-AAAGTAT-TTAATG
* * * *
5080259 ATATACAAATTTTAATTTTTAAATAAAAAATAATAAGAATAAAAATAATTATAGTTAAAAGTTGC
61 ATATACAAATTTTAATTTTTAAAT-AAAAATAATAAAAATAAAAATAATTATAATTAAAAATTAC
* * * *
5080324 TATTGAAAAACCTTTACACAAATA-TA-TAAGAATT-AGTGTAAAAACTTATAAAA-GTGGAATA
125 TATTGAAAAACCTTGACA-AAA-AGTAGTAAAAATTGA-CGTAAAAACTTA-AAAAGGTAGAATA
* * *
5080385 ACCAAATTTAAAATATTAACATAAATGTGCGAGAGTTAATATAACAAATCAATTATGTAAAAAAA
186 ACCAAATCTAAAATATTAACATAAATGTGCGAGAGTTAACATAACAAATCAATTAAGT-AAAAAA
* * * * * *
5080450 TATATTTTTAATG-AAAACAAACCTTTAAAATTATATTATTAGACCA-AAGTATTTCACAATATA
250 TATAATTTTAATGAAAAACAAACATTTAAAATTATATTATCAAACCAGAAATATTTAACAATATA
* **
5080513 TAAATTTTAATTTTAAAATAAAAATTAATAAGGATAAAAATAATTATAATTAAAAGTTG-TCATT
315 TAAATTTTAATTTTAAAATAAAAAATAATAAAAATAAAAATAATTATAATTAAAAGTTGAT-ATT
** *
5080577 GAAAAACT-TTAACGTAAAACTGTTAGAATTAACATAAAA
379 G-AAAACTCTTAACGTAAAACTGAAAAAATTAACATAAAA
5080616 ACTTATAAAA
Statistics
Matches: 357, Mismatches: 50, Indels: 24
0.83 0.12 0.06
Matches are distributed among these distances:
511 1 0.00
512 19 0.05
513 25 0.07
514 131 0.37
515 154 0.43
516 26 0.07
517 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (511 bp):
AAAAAATATAATTTTAATAAAAAACAGTTAAATTTATATTATCTACTAAAGTATTTAATGATATA
CAAATTTTAATTTTTAAATAAAAATAATAAAAATAAAAATAATTATAATTAAAAATTACTATTGA
AAAACCTTGACAAAAAGTAGTAAAAATTGACGTAAAAACTTAAAAAGGTAGAATAACCAAATCTA
AAATATTAACATAAATGTGCGAGAGTTAACATAACAAATCAATTAAGTAAAAAATATAATTTTAA
TGAAAAACAAACATTTAAAATTATATTATCAAACCAGAAATATTTAACAATATATAAATTTTAAT
TTTAAAATAAAAAATAATAAAAATAAAAATAATTATAATTAAAAGTTGATATTGAAAACTCTTAA
CGTAAAACTGAAAAAATTAACATAAAACTGTAAAAATTAATATAGAAACTTATAAATGTAGATAA
ATAAATTTAAAATCTTACAAAAATTTATGAGAGTTACAGTAATAAATCAATTAAGT
Found at i:5081233 original size:248 final size:249
Alignment explanation
Indices: 5080749--5081723 Score: 1056
Period size: 248 Copynumber: 3.9 Consensus size: 249
5080739 AAAAATATTA
* * * * *
5080749 AAATGTGAAAGTTAACGTAAAAAATCAATTAAGTAAAATAAACTAATTTTAATGAAAAATAAACA
1 AAATATGAGAGTTAACATAAAAAGTTAATTAAGTAAAA-AAACTAATTTTAATGAAAAATAAACA
* * * * *
5080814 TTTAAATTCATATTCTCAAACTAAAAGT-GTTAA-GAATATATGAATTTTAATTTTTAAATAAAG
65 TTTAAATTTATATTCTCAGACTAAAAGTATTTAATG-ATATATAAATTTTAATTTTAAAATAAAG
* * * * * * * * * *
5080877 -AGTATTAAGGATAAAATTAATTATAATTAAAAATTACTATTGAAAAGCCTTA-AGATAAACATA
129 AAATAATAAGAATAAAAATAATTATAGTTAAAAGTTACTATTGAAAAACTTTATAG-TAAAAATG
* * * *
5080940 TAAGAATTGACGTAAAAAATTATAAAAGTGAAATAAACAAATTTAAAATCATAATGT
193 TAAGAATTGACGTAAAAATTTATAAAAGTGAAATAAAAAAATTTAAAATCTTAACGT
* * * *
5080997 AAACGTATGAGAGTTAACATAATAAGTTAATTATGTAAAAAAA-TATTTTTAATGAAAAAAAAAC
1 AAA--TATGAGAGTTAACATAAAAAGTTAATTAAGTAAAAAAACTAATTTTAATGAAAAATAAAC
*
5081061 ATTTAAATTTATATTTTCAGACTAAAAGTATTTAATGATATATAAATTTTAA-TTTAAAATAAA-
64 ATTTAAATTTATATTCTCAGACTAAAAGTATTTAATGATATATAAATTTTAATTTTAAAATAAAG
* * **
5081124 AAATAACAAGAATAAAAATAATTATAGTTAAAAGTTACTATTAAAAAACTTTATAGTAAAGTTGT
129 AAATAATAAGAATAAAAATAATTATAGTTAAAAGTTACTATTGAAAAACTTTATAGTAAAAATGT
*
5081189 AAGAATTGACGTAAAAATTTATAAAAGT-AGAATAAATAAATTTAAAATCTTAACGT
194 AAGAATTGACGTAAAAATTTATAAAAGTGA-AATAAAAAAATTTAAAATCTTAACGT
* * * * *
5081245 AAATAAGTGAAAGTTAACATAAAAAATTAATTAAATAAAAAAACTAATTTTAATGAAAAATATAT
1 AAAT-A-TGAGAGTTAACATAAAAAGTTAATTAAGTAAAAAAACTAATTTTAATGAAAAATAAAC
* * *
5081310 ATTT--ATATATATTATCTG-CTTAAAAGTATTTAACT-ATATATAAATTTTAATTTTAAAATAA
64 ATTTAAATTTATATTCTCAGAC-TAAAAGTATTTAA-TGATATATAAATTTTAATTTTAAAATAA
* * * *
5081371 AGAAA-GATAAGGATAAAAATAATTATAGTTAAAAGTTTC-ATTGAAAAACTTTAATA-TAAAAC
127 AGAAATAATAAGAATAAAAATAATTATAGTTAAAAGTTACTATTGAAAAACTTT-ATAGTAAAAA
*
5081433 TGTAAGAATTGA-GATAAAAATTTATAAAGGTGAAATAAAAAAATTTAAAATCTTAACGT
191 TGTAAGAATTGACG-TAAAAATTTATAAAAGTGAAATAAAAAAATTTAAAATCTTAACGT
* *
5081492 AAATATGTAAGAGTTAACGA-AAAAAGTCAATTAAGTTAAAAAAATTAATTTTAATGAAAAATAA
1 AAATATG--AGAGTTAAC-ATAAAAAGTTAATTAAG-TAAAAAAACTAATTTTAATGAAAAATAA
* * *
5081556 ATATTTAAATTTATATTCTC-GAACTAAAATTTTTTAATGATATATAAATTTTAAATTTT-AAAT
62 ACATTTAAATTTATATTCTCAG-ACTAAAAGTATTTAATGATATATAAATTTT-AATTTTAAAAT
* * * * *
5081619 AAATAGTAATAATAATAA-AAAAATAATTATAGTTAAAAGTTGCTATTGAAAAATCTTGACA-TA
125 -AA-AGAAATAATAAGAATAAAAATAATTATAGTTAAAAGTTACTATTGAAAAA-CTTTATAGTA
* * ** *
5081682 AAAATGTAAAAATTAATATAAAAATTTATAAAATTGAAATAA
187 AAAATGTAAGAATTGACGTAAAAATTTATAAAAGTGAAATAA
5081724 CTAACTATAT
Statistics
Matches: 618, Mismatches: 76, Indels: 61
0.82 0.10 0.08
Matches are distributed among these distances:
245 2 0.00
246 4 0.01
247 134 0.22
248 269 0.44
249 49 0.08
250 67 0.11
251 9 0.01
252 28 0.05
253 53 0.09
254 3 0.00
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.34
Consensus pattern (249 bp):
AAATATGAGAGTTAACATAAAAAGTTAATTAAGTAAAAAAACTAATTTTAATGAAAAATAAACAT
TTAAATTTATATTCTCAGACTAAAAGTATTTAATGATATATAAATTTTAATTTTAAAATAAAGAA
ATAATAAGAATAAAAATAATTATAGTTAAAAGTTACTATTGAAAAACTTTATAGTAAAAATGTAA
GAATTGACGTAAAAATTTATAAAAGTGAAATAAAAAAATTTAAAATCTTAACGT
Found at i:5081460 original size:495 final size:501
Alignment explanation
Indices: 5080753--5081671 Score: 1233
Period size: 495 Copynumber: 1.8 Consensus size: 501
5080743 ATATTAAAAT
* *
5080753 GTGAAAGTTAACGTAAAAAATCAATTAAGTAAAATAAACTAATTTTAATGAAAAATAAACATTTA
1 GTGAAAGTTAACATAAAAAATCAATTAAATAAAATAAACTAATTTTAATGAAAAATAAACATTTA
* * * *
5080818 AATTCATATTCTCAAACTAAAAGTGTTAAGAATATATGAATTTTAATTTTTAAATAAAGAGTATT
66 AATTCATATTATCAAACTAAAAGTGTTAACAATATATAAATTTTAATTTTAAAATAAAGAGTATT
* *
5080883 AAGGATAAAATTAATTATAATTAAAAATTACTATTGAAAAGCCTTAAGATAAACATATAAGAATT
131 AAGGATAAAAATAATTATAATTAAAAATTACTATTGAAAAACCTTAAGATAAACATATAAGAATT
* *
5080948 GACGTAAAAAATTATAAAAGTGAAATAAACAAATTTAAAATCATAATGTAAACGTATG-AGAGTT
196 GACGTAAAAAATTATAAAAGTGAAATAAAAAAATTTAAAATCATAACGTAAA--TATGAAGAGTT
* * * *
5081012 AAC-ATAATAAGTTAATTATG-TAAAAAAA-TATTTTTAATGAAAAAAAAACATTTAAATTTATA
259 AACGA-AAAAAGTCAATTAAGTTAAAAAAATTAATTTTAATGAAAAAAAAACATTTAAATTTATA
*
5081074 TTTTC-AGACTAAAAGTATTTAATGATATATAAATTTT-AATTTAAAATAAA-A-AATAACAAGA
323 TTCTCGA-ACTAAAAGTATTTAATGATATATAAATTTTAAATTTAAAATAAATAGAATAACAAGA
5081135 ATAAAAATAATTATAGTTAAAAGTTACTATTAAAAAACTTTATAGTAAAGTTGTAAGAATTGACG
387 A-AAAAATAATTATAGTTAAAAGTTACTATTAAAAAACTTTATAGTAAAGTTGTAAGAATTGACG
5081200 TAAAAATTTATAAAAGTAGAATAAATAAATTTAAAATCTTAACGTAAATAA
451 TAAAAATTTATAAAAGTAGAATAAATAAATTTAAAATCTTAACGTAAATAA
* * *
5081251 GTGAAAGTTAACATAAAAAATTAATTAAATAAAA-AAACTAATTTTAATGAAAAATATATATTTA
1 GTGAAAGTTAACATAAAAAATCAATTAAATAAAATAAACTAATTTTAATGAAAAATAAACATTTA
* ** * *
5081315 TA-T-ATATTATC-TGCTTAAAAGTATTTAACTATATATAAATTTTAATTTTAAAATAAAGAAAG
66 AATTCATATTATCAAAC-TAAAAGT-GTTAACAATATATAAATTTTAATTTTAAAATAAAG--AG
* * * * * *
5081377 -A-TAAGGATAAAAATAATTATAGTTAAAAGTTTC-ATTGAAAAACTTTAATATAAA-ACTGTAA
127 TATTAAGGATAAAAATAATTATAATTAAAAATTACTATTGAAAAACCTTAAGATAAACA-TATAA
* * *
5081438 GAATTGA-GATAAAAATTTATAAAGGTGAAATAAAAAAATTTAAAATCTTAACGTAAATATGTAA
191 GAATTGACG-TAAAAAATTATAAAAGTGAAATAAAAAAATTTAAAATCATAACGTAAATATG-AA
* *
5081502 GAGTTAACGAAAAAAGTCAATTAAGTTAAAAAAATTAATTTTAATGAAAAATAAATATTTAAATT
254 GAGTTAACGAAAAAAGTCAATTAAGTTAAAAAAATTAATTTTAATGAAAAAAAAACATTTAAATT
* * * *
5081567 TATATTCTCGAACTAAAATTTTTTAATGATATATAAATTTTAAATTTTAAATAAATAGTAATAAT
319 TATATTCTCGAACTAAAAGTATTTAATGATATATAAATTTTAAATTTAAAATAAATAG-AATAAC
* * *
5081632 AATAAAAAAATAATTATAGTTAAAAGTTGCTATTGAAAAA
383 AAGAAAAAAATAATTATAGTTAAAAGTTACTATTAAAAAA
5081672 TCTTGACATA
Statistics
Matches: 364, Mismatches: 41, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
493 4 0.01
494 3 0.01
495 107 0.29
496 68 0.19
497 93 0.26
498 46 0.13
499 1 0.00
500 33 0.09
501 9 0.02
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.34
Consensus pattern (501 bp):
GTGAAAGTTAACATAAAAAATCAATTAAATAAAATAAACTAATTTTAATGAAAAATAAACATTTA
AATTCATATTATCAAACTAAAAGTGTTAACAATATATAAATTTTAATTTTAAAATAAAGAGTATT
AAGGATAAAAATAATTATAATTAAAAATTACTATTGAAAAACCTTAAGATAAACATATAAGAATT
GACGTAAAAAATTATAAAAGTGAAATAAAAAAATTTAAAATCATAACGTAAATATGAAGAGTTAA
CGAAAAAAGTCAATTAAGTTAAAAAAATTAATTTTAATGAAAAAAAAACATTTAAATTTATATTC
TCGAACTAAAAGTATTTAATGATATATAAATTTTAAATTTAAAATAAATAGAATAACAAGAAAAA
AATAATTATAGTTAAAAGTTACTATTAAAAAACTTTATAGTAAAGTTGTAAGAATTGACGTAAAA
ATTTATAAAAGTAGAATAAATAAATTTAAAATCTTAACGTAAATAA
Found at i:5081723 original size:21 final size:20
Alignment explanation
Indices: 5081674--5081723 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5081664 TTGAAAAATC
*
5081674 TTGACATAAAAATGTAAAAA
1 TTGAAATAAAAATGTAAAAA
*
5081694 TT-AATATAAAAATTTATAAAA
1 TTGAA-ATAAAAATGTA-AAAA
5081715 TTGAAATAA
1 TTGAAATAA
5081724 CTAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 12 0.48
21 10 0.40
22 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (20 bp):
TTGAAATAAAAATGTAAAAA
Found at i:5082261 original size:24 final size:23
Alignment explanation
Indices: 5082234--5082286 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
5082224 TTATTTTTCA
* *
5082234 TTATATT-CAATTAAATATATATTT
1 TTATATTAAAATTAAATA-A-ATCT
5082258 TTAT-TTAAAATTAAATAAATCT
1 TTATATTAAAATTAAATAAATCT
5082280 TTATATT
1 TTATATT
5082287 TAATAACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 7 0.28
23 5 0.20
24 13 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATATTAAAATTAAATAAATCT
Found at i:5082287 original size:24 final size:24
Alignment explanation
Indices: 5082242--5082289 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5082232 CATTATATTC
* *
5082242 AATTAAATATATATTTTTATTTAA
1 AATTAAATAAATATTTATATTTAA
*
5082266 AATTAAATAAATCTTTATATTTAA
1 AATTAAATAAATATTTATATTTAA
5082290 TAACTGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AATTAAATAAATATTTATATTTAA
Found at i:5093504 original size:2 final size:2
Alignment explanation
Indices: 5093497--5093539 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
5093487 TTTCCAATAG
5093497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5093539 T
1 T
5093540 CTCCAGGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5096453 original size:15 final size:15
Alignment explanation
Indices: 5096433--5096476 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
5096423 TGTTATTTTT
5096433 CTTGCAATCACATTA
1 CTTGCAATCACATTA
*
5096448 CTTGCAATCATATTA
1 CTTGCAATCACATTA
* *
5096463 CCTGTAATCACATT
1 CTTGCAATCACATT
5096477 GTATTGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (15 bp):
CTTGCAATCACATTA
Found at i:5110872 original size:16 final size:16
Alignment explanation
Indices: 5110826--5110875 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
5110816 AGATAAAATG
5110826 ACATAATCATTAAAAA
1 ACATAATCATTAAAAA
* *
5110842 A-AGTAATAAGATAAAAA
1 ACA-TAATCA-TTAAAAA
5110859 ACATAATCATTAAAAA
1 ACATAATCATTAAAAA
5110875 A
1 A
5110876 ATTTCTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 12 0.44
18 1 0.04
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.22
Consensus pattern (16 bp):
ACATAATCATTAAAAA
Found at i:5110874 original size:17 final size:17
Alignment explanation
Indices: 5110826--5110876 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
5110816 AGATAAAATG
5110826 ACATAATCATTAAAAAA
1 ACATAATCATTAAAAAA
* **
5110843 A-GTAAT-AAGATAAAAA
1 ACATAATCATTA-AAAAA
5110859 ACATAATCATTAAAAAA
1 ACATAATCATTAAAAAA
5110876 A
1 A
5110877 TTTCTTATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
15 2 0.08
16 10 0.40
17 11 0.44
18 2 0.08
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.22
Consensus pattern (17 bp):
ACATAATCATTAAAAAA
Found at i:5112260 original size:14 final size:16
Alignment explanation
Indices: 5112230--5112262 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
5112220 TTTTTCTTGA
5112230 ATAAATTTTTAATTTT
1 ATAAATTTTTAATTTT
5112246 ATAAA-TTTT-ATTTT
1 ATAAATTTTTAATTTT
5112260 ATA
1 ATA
5112263 TTTTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 4 0.24
16 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATAAATTTTTAATTTT
Found at i:5112312 original size:27 final size:30
Alignment explanation
Indices: 5112245--5112321 Score: 81
Period size: 32 Copynumber: 2.6 Consensus size: 30
5112235 TTTTTAATTT
5112245 TATAAATTTTATTTTATATTTTATTATAATC
1 TATAAATTTTATTTTATATTTTATTATAA-C
* *
5112276 TCCTATATTTTATTTT-TA-TTTATTATAA-
1 T-ATAAATTTTATTTTATATTTTATTATAAC
*
5112304 TATAAA-TTTAGTTTATAT
1 TATAAATTTTATTTTATAT
5112322 ATGTCATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
26 7 0.18
27 5 0.13
28 1 0.03
30 10 0.26
31 3 0.08
32 12 0.32
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (30 bp):
TATAAATTTTATTTTATATTTTATTATAAC
Found at i:5114521 original size:3 final size:3
Alignment explanation
Indices: 5114513--5114570 Score: 82
Period size: 3 Copynumber: 19.0 Consensus size: 3
5114503 AGATCATTTA
*
5114513 TTC TTC TTC -TC TAC TATTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC T-T-C TTC TTC TTC TTC TTC TTC TTC TTC TTC
5114559 TTC TTC TTC TTC
1 TTC TTC TTC TTC
5114571 CACCTCAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 1 0.02
5 2 0.04
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:5118373 original size:3 final size:3
Alignment explanation
Indices: 5118367--5118397 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5118357 CTTCTTCTTC
*
5118367 AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
5118398 ACATGATAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5121158 original size:15 final size:12
Alignment explanation
Indices: 5121117--5121151 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5121107 GAATGGGAAT
5121117 GGTG-CGGCGGC
1 GGTGACGGCGGC
*
5121128 TGTGACGGCGGC
1 GGTGACGGCGGC
5121140 GGTGACGGCGGC
1 GGTGACGGCGGC
5121152 AGAGGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.06, C:0.26, G:0.57, T:0.11
Consensus pattern (12 bp):
GGTGACGGCGGC
Found at i:5122279 original size:16 final size:16
Alignment explanation
Indices: 5122258--5122288 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5122248 TTTTTTTTAT
*
5122258 TGAAAACAAAAAGAAA
1 TGAAAAAAAAAAGAAA
5122274 TGAAAAAAAAAAGAA
1 TGAAAAAAAAAAGAA
5122289 GAAGATAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.06
Consensus pattern (16 bp):
TGAAAAAAAAAAGAAA
Found at i:5132252 original size:2 final size:2
Alignment explanation
Indices: 5132245--5132271 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5132235 CATTACAAAA
5132245 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
5132272 AGAGTATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:5135317 original size:2 final size:2
Alignment explanation
Indices: 5135310--5135342 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5135300 ACTTATCAAT
5135310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5135343 GTTTGTGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5143894 original size:18 final size:18
Alignment explanation
Indices: 5143843--5143895 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
5143833 TTTTATTTAA
5143843 TTTTAATTATAAAATATAT
1 TTTTAATTATAAAAT-TAT
** *
5143862 TTCAAAATATAAAATTAT
1 TTTTAATTATAAAATTAT
*
5143880 TTTTAATTATTAAATT
1 TTTTAATTATAAAATT
5143896 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAATTATAAAATTAT
Done.