Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 61 of 147
Found at i:11608544 original size:27 final size:25
Alignment explanation
Indices: 11608481--11608571 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 25
11608471 TTTATTTTTA
*
11608481 TAAAAA-ATTTTATTTTTTAAAGTTT
1 TAAAAATATTTTAATTTTTAAA-TTT
* * *
11608506 TCATAATTTTTTAATTTTTATAATTT
1 TAAAAATATTTTAATTTTTA-AATTT
11608532 CTAAAAATATTTTATATTTTTAAATTT
1 -TAAAAATATTTTA-ATTTTTAAATTT
*
11608559 T-AAATTATTTTAA
1 TAAAAATATTTTAA
11608572 AAATATTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
24 1 0.02
25 14 0.26
26 15 0.28
27 17 0.31
28 7 0.13
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (25 bp):
TAAAAATATTTTAATTTTTAAATTT
Found at i:11608552 original size:36 final size:36
Alignment explanation
Indices: 11608511--11608600 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
11608501 AGTTTTCATA
*
11608511 ATTTTTTAATTTT-TATAATTTCTAAAAATATTTTAT
1 ATTTTTTAATTTTAAATAATTT-TAAAAATATTTTAT
* *
11608547 ATTTTTAAATTTTAAATTATTTTAAAAATATTTTAT
1 ATTTTTTAATTTTAAATAATTTTAAAAATATTTTAT
11608583 ATTTATTTTAATTTTAAA
1 A-TT-TTTTAATTTTAAA
11608601 GAATGTTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
36 27 0.57
37 8 0.17
38 12 0.26
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (36 bp):
ATTTTTTAATTTTAAATAATTTTAAAAATATTTTAT
Found at i:11609724 original size:32 final size:32
Alignment explanation
Indices: 11609683--11609749 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
11609673 CGATCTTGAG
* *
11609683 CAGAACCCATTCGATGTTTGCAGTAGCTTCAA
1 CAGAACCCATTCGACGTTTGCAATAGCTTCAA
11609715 CAGAACCCATTCGACGTTTGCAATAGCTTCAA
1 CAGAACCCATTCGACGTTTGCAATAGCTTCAA
11609747 CAG
1 CAG
11609750 TTTGCAGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (32 bp):
CAGAACCCATTCGACGTTTGCAATAGCTTCAA
Found at i:11609754 original size:19 final size:19
Alignment explanation
Indices: 11609730--11609772 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
11609720 CCCATTCGAC
*
11609730 GTTTGCAATAGCTTCAACA
1 GTTTGCAACAGCTTCAACA
*
11609749 GTTTGCAGCAGCTTCAACA
1 GTTTGCAACAGCTTCAACA
11609768 GTTTG
1 GTTTG
11609773 TAGATCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (19 bp):
GTTTGCAACAGCTTCAACA
Found at i:11609839 original size:57 final size:57
Alignment explanation
Indices: 11609751--11609911 Score: 250
Period size: 57 Copynumber: 2.8 Consensus size: 57
11609741 CTTCAACAGT
** *
11609751 TTGCAGCAGCTTCAACAGTTTGTAGATCTTGAATAGAACCCATTCGACGTTTGCAGC
1 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTGCAGC
*
11609808 TTGCAGCAGCTTCAACAGTTTGCAGATCTTGAACAGAACCCATTCGACGTTTGCAGC
1 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTGCAGC
* ** *
11609865 TTGCAGCAGCTTCAATAGTTTGTAGATCTTGAACAAAACCCATTCGA
1 TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGA
11609912 TATTTACAGC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 99 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (57 bp):
TTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGACGTTTGCAGC
Found at i:11609860 original size:31 final size:31
Alignment explanation
Indices: 11609768--11609863 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
11609758 AGCTTCAACA
* *
11609768 GTTTGTAGATCTTGAATAGAACCCATTCGAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
* * *
11609799 GTTTGCAG--CTTG--CAGCA-GC-TTCAAC
1 GTTTGCAGATCTTGAACAGAACCCATTCGAC
11609824 AGTTTGCAGATCTTGAACAGAACCCATTCGAC
1 -GTTTGCAGATCTTGAACAGAACCCATTCGAC
11609856 GTTTGCAG
1 GTTTGCAG
11609864 CTTGCAGCAG
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
25 5 0.10
26 9 0.18
27 3 0.06
28 4 0.08
29 4 0.08
30 4 0.08
31 16 0.32
32 5 0.10
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (31 bp):
GTTTGCAGATCTTGAACAGAACCCATTCGAC
Found at i:11609944 original size:19 final size:19
Alignment explanation
Indices: 11609914--11609970 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
11609904 CCATTCGATA
11609914 TTTACAGCAGCTTCAACAG
1 TTTACAGCAGCTTCAACAG
* * * *
11609933 TTTACGGTAGCTTTAACAA
1 TTTACAGCAGCTTCAACAG
*
11609952 TTTGCAGCAGCTTCAACAG
1 TTTACAGCAGCTTCAACAG
11609971 AACCCATTCG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (19 bp):
TTTACAGCAGCTTCAACAG
Found at i:11609994 original size:51 final size:50
Alignment explanation
Indices: 11609932--11610160 Score: 233
Period size: 51 Copynumber: 4.4 Consensus size: 50
11609922 AGCTTCAACA
* * * * *
11609932 GTTTACGGTAGCTTTAACAATTTGCAGCAGCTTCAACAGAACCCATTCGAC
1 GTTTACAGCAGCTTCAACAGTTTACAG-AGCTTCAACAGAACCCATTCGAC
* * *
11609983 GTTTACAGTAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGAC
1 GTTTACAGCAGCTTCAACAGTTTACAGAGCTTCAACAGAACCCATTCGAC
* *
11610033 GTTTGTAGCTTGCAGCAGCTTCAACAGTTTACAGATCTTGAACAGAACCCATTCGAC
1 G-TT-TA-----CAGCAGCTTCAACAGTTTACAGAGCTTCAACAGAACCCATTCGAC
* * * *
11610090 GTTTGCAGCAGTTTCAACAGTTTGCAACAGCTTCAACAGAACCCATTCGAC
1 GTTTACAGCAGCTTCAACAGTTTAC-AGAGCTTCAACAGAACCCATTCGAC
* *
11610141 ATTTGCAGCAGCTTCAACAG
1 GTTTACAGCAGCTTCAACAG
11610161 AACCCGATCC
Statistics
Matches: 155, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
50 40 0.26
51 65 0.42
52 2 0.01
55 1 0.01
56 2 0.01
57 45 0.29
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
GTTTACAGCAGCTTCAACAGTTTACAGAGCTTCAACAGAACCCATTCGAC
Found at i:11610114 original size:19 final size:19
Alignment explanation
Indices: 11610090--11610128 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11610080 CCCATTCGAC
* *
11610090 GTTTGCAGCAGTTTCAACA
1 GTTTGCAACAGCTTCAACA
11610109 GTTTGCAACAGCTTCAACA
1 GTTTGCAACAGCTTCAACA
11610128 G
1 G
11610129 AACCCATTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (19 bp):
GTTTGCAACAGCTTCAACA
Found at i:11610388 original size:25 final size:25
Alignment explanation
Indices: 11610360--11610413 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
11610350 GTTTAAATAA
*
11610360 GAATGCCTTAATTAAATACCTTTAT
1 GAATGCCTAAATTAAATACCTTTAT
11610385 GAATGCCTAAATTAAATACCTTTAT
1 GAATGCCTAAATTAAATACCTTTAT
11610410 GAAT
1 GAAT
11610414 ATTGTGGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACCTTTAT
Found at i:11614063 original size:21 final size:20
Alignment explanation
Indices: 11614037--11614085 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
11614027 TTAAATTTGG
11614037 TTGTTGTGTAAGTTATTATTA
1 TTGTTGTGT-AGTTATTATTA
* *
11614058 TTGTTGTTGTTGTTGTTATTA
1 TTGTTG-TGTAGTTATTATTA
11614079 TTGTTGT
1 TTGTTGT
11614086 TGTTATCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.63
Consensus pattern (20 bp):
TTGTTGTGTAGTTATTATTA
Found at i:11614066 original size:24 final size:21
Alignment explanation
Indices: 11614048--11614089 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11614038 TGTTGTGTAA
11614048 GTTATTATTATTGTTGTTGTT
1 GTTATTATTATTGTTGTTGTT
*
11614069 GTTGTTATTATTGTTGTTGTT
1 GTTATTATTATTGTTGTTGTT
11614090 ATCTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.67
Consensus pattern (21 bp):
GTTATTATTATTGTTGTTGTT
Found at i:11614076 original size:18 final size:18
Alignment explanation
Indices: 11614052--11614091 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11614042 GTGTAAGTTA
11614052 TTATTATTGTTGTTGTTG
1 TTATTATTGTTGTTGTTG
* *
11614070 TTGTTATTATTGTTGTTG
1 TTATTATTGTTGTTGTTG
11614088 TTAT
1 TTAT
11614092 CTTGAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (18 bp):
TTATTATTGTTGTTGTTG
Found at i:11614474 original size:15 final size:16
Alignment explanation
Indices: 11614443--11614475 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11614433 TAATTTCTAA
11614443 ATTTTAGTTTAGTTTT
1 ATTTTAGTTTAGTTTT
*
11614459 ATTTTA-TTTTGTTTT
1 ATTTTAGTTTAGTTTT
11614474 AT
1 AT
11614476 GTCCTTAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (16 bp):
ATTTTAGTTTAGTTTT
Found at i:11614694 original size:17 final size:18
Alignment explanation
Indices: 11614658--11614696 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11614648 GAATGGTGGA
*
11614658 TAAT-TTAAATAAAGATT
1 TAATATTAAATAAAGAAT
11614675 TAATATTAAATAAA-AAT
1 TAATATTAAATAAAGAAT
11614692 TAATA
1 TAATA
11614697 AAATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAATATTAAATAAAGAAT
Found at i:11616835 original size:12 final size:12
Alignment explanation
Indices: 11616820--11616884 Score: 87
Period size: 12 Copynumber: 5.3 Consensus size: 12
11616810 ATTTTTAATA
11616820 TAAATATAAAAT
1 TAAATATAAAAT
*
11616832 TAAATATATAAAA
1 TAAATATA-AAAT
*
11616845 AAAATATAAAAT
1 TAAATATAAAAT
11616857 TAAATATAAAAT
1 TAAATATAAAAT
11616869 TAAATA-AATAAT
1 TAAATATAA-AAT
11616881 TAAA
1 TAAA
11616885 AAATAATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
11 2 0.04
12 35 0.74
13 10 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:11616890 original size:11 final size:12
Alignment explanation
Indices: 11616815--11616892 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 12
11616805 ATATTATTTT
11616815 TAATATAAATATAA
1 TAAT-TAAATA-AA
*
11616829 -AATTAAATATA
1 TAATTAAATAAA
**
11616840 TAAAAAAAATATAA
1 T-AATTAAATA-AA
11616854 -AATTAAATATAA
1 TAATTAAATA-AA
11616866 -AATTAAATAAA
1 TAATTAAATAAA
11616877 TAATTAAA-AAA
1 TAATTAAATAAA
11616888 TAATT
1 TAATT
11616893 TTTTTATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
11 11 0.20
12 32 0.59
13 10 0.19
14 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAATTAAATAAA
Found at i:11620356 original size:24 final size:23
Alignment explanation
Indices: 11620308--11620357 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
11620298 CATCATATAG
11620308 ATAATTCAAAACATTCATCAAATC
1 ATAATTCAAAACATT-ATCAAATC
11620332 ATAATATCAAAACATT-TCAAGATC
1 ATAAT-TCAAAACATTATCAA-ATC
11620356 AT
1 AT
11620358 CGTTTTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 4 0.17
24 10 0.42
25 10 0.42
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (23 bp):
ATAATTCAAAACATTATCAAATC
Found at i:11622497 original size:13 final size:14
Alignment explanation
Indices: 11622479--11622508 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11622469 ATTATTATTA
11622479 TTTTCTTTT-TTCT
1 TTTTCTTTTCTTCT
11622492 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
11622506 TTT
1 TTT
11622509 GTGTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:11622581 original size:4 final size:4
Alignment explanation
Indices: 11622559--11622595 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
11622549 CATATGTATA
* *
11622559 TATT GATT TATT TAGT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
11622596 TTGTTAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:11622646 original size:3 final size:3
Alignment explanation
Indices: 11622638--11622674 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
11622628 GTTATATATG
11622638 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11622675 AATATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11622652 original size:20 final size:19
Alignment explanation
Indices: 11622629--11622675 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
11622619 ATTTATATAG
11622629 TTATATATGTATTATTATTA
1 TTATATAT-TATTATTATTA
11622649 TTATATTATTATTATTATTA
1 TTATA-TATTATTATTATTA
*
11622669 TTTTATA
1 TTATATA
11622676 ATATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATATATTATTATTATTA
Found at i:11622655 original size:14 final size:14
Alignment explanation
Indices: 11622638--11622666 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11622628 GTTATATATG
11622638 TATTATTATTATTA
1 TATTATTATTATTA
11622652 TATTATTATTATTA
1 TATTATTATTATTA
11622666 T
1 T
11622667 TATTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:11622658 original size:17 final size:17
Alignment explanation
Indices: 11622632--11622674 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
11622622 TATATAGTTA
11622632 TATATGTATTATTATTAT
1 TATAT-TATTATTATTAT
11622650 TATATTATTATTATTAT
1 TATATTATTATTATTAT
*
11622667 TATTTTAT
1 TATATTAT
11622675 AATATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATATTATTATTATTAT
Found at i:11623594 original size:21 final size:20
Alignment explanation
Indices: 11623543--11623602 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
11623533 GCCGCTCCAG
*
11623543 GTTTTTTTT-TTTTTTCTTT
1 GTTTTTTTTATTTTTTATTT
11623562 GAATTTTTTTTATTTGTTTATTT
1 G--TTTTTTTTATTT-TTTATTT
*
11623585 GTTTTTTTTATTTATTAT
1 GTTTTTTTTATTTTTTAT
11623603 ATTAGGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 20 0.57
22 3 0.09
23 7 0.20
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.80
Consensus pattern (20 bp):
GTTTTTTTTATTTTTTATTT
Found at i:11623643 original size:17 final size:16
Alignment explanation
Indices: 11623589--11623648 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
11623579 TTATTTGTTT
11623589 TTTTTATTTATTATATTA
1 TTTTTATTTA--ATATTA
** *
11623607 GGTTTATTTAATATTC
1 TTTTTATTTAATATTA
*
11623623 TTTTTATCTTAATTTTA
1 TTTTTAT-TTAATATTA
11623640 TTTTTATTT
1 TTTTTATTT
11623649 TTGTTTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 12 0.35
17 14 0.41
18 8 0.24
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTATTTAATATTA
Found at i:11623648 original size:11 final size:11
Alignment explanation
Indices: 11623624--11623691 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
11623614 TTAATATTCT
* *
11623624 TTTTATCTTAA
1 TTTTATTTTTA
11623635 TTTTATTTTTA
1 TTTTATTTTTA
11623646 TTTT-TGTTTTA
1 TTTTAT-TTTTA
*
11623657 CTTTTCTTTATT-
1 -TTTTATTT-TTA
11623669 TTTTATTATTTA
1 TTTTATT-TTTA
11623681 TTTATATTTTT
1 TTT-TATTTTT
11623692 TATTATTCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
10 1 0.02
11 26 0.55
12 13 0.28
13 7 0.15
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11623677 original size:10 final size:10
Alignment explanation
Indices: 11623664--11623698 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
11623654 TTACTTTTCT
11623664 TTATTTTTTA
1 TTATTTTTTA
11623674 TTATTTATTTA
1 TTATTT-TTTA
11623685 -TATTTTTTA
1 TTATTTTTTA
11623694 TTATT
1 TTATT
11623699 CTATTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.17
10 15 0.65
11 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:11623688 original size:20 final size:21
Alignment explanation
Indices: 11623665--11623704 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
11623655 TACTTTTCTT
11623665 TATTTTTTATTATT-TATTTA
1 TATTTTTTATTATTCTATTTA
11623685 TATTTTTTATTATTCTATTT
1 TATTTTTTATTATTCTATTT
11623705 TCTTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTTTTTATTATTCTATTTA
Found at i:11624246 original size:59 final size:59
Alignment explanation
Indices: 11623715--11624244 Score: 664
Period size: 61 Copynumber: 8.9 Consensus size: 59
11623705 TCTTCAAATA
*
11623715 AAAATCAAATTTTCCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATCAAATTTT-C--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* **** *
11623777 AAAAT-AAA-GTTCAAAAAGGGGTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTG
1 AAAATCAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
11623834 AAAATCAAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-
1 AAAATC-AAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
11623894 AAGAAT-AAA-TTTCCAAAAAATATTTTT-AGGGAAAGTTGAAAGTATCAATTTTTCTCG
1 AA-AATCAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
11623951 AAAATAAAAGTTTTC-AAAAAACATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAA-TTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
** *
11624010 AAAATCAAAGTTTTCAAAGAAAAGGTTTTTGAGAAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAA-TTTTCAAA-AAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTG
*
11624072 AAAATCAAAATTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATC-AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
11624131 GAAATCAAAGTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTA
1 AAAATCAAATTTTC--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
11624192 AAAAT-AAATTTTCAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAATCAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
11624245 TCTTACACAA
Statistics
Matches: 410, Mismatches: 41, Indels: 38
0.84 0.08 0.08
Matches are distributed among these distances:
56 29 0.07
57 62 0.15
58 60 0.15
59 83 0.20
60 27 0.07
61 103 0.25
62 43 0.10
63 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (59 bp):
AAAATCAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:11626503 original size:2 final size:2
Alignment explanation
Indices: 11626496--11626525 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11626486 AAAGGATAAC
*
11626496 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11626526 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11628041 original size:2 final size:2
Alignment explanation
Indices: 11628034--11628071 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11628024 ATGCGATCAT
11628034 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
11628072 ATTCAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11630308 original size:3 final size:3
Alignment explanation
Indices: 11630300--11630350 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
11630290 ACATTAGATT
11630300 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11630348 TAA
1 TAA
11630351 AAAATTTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11631233 original size:16 final size:16
Alignment explanation
Indices: 11631187--11631238 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
11631177 TCCGATTTCT
*
11631187 AGAAAGAGAAGGAAAG
1 AGAAAGAAAAGGAAAG
**
11631203 AGAAAAGAAGGGGAAAG
1 AG-AAAGAAAAGGAAAG
*
11631220 AGAAAGAAAAGGAAGG
1 AGAAAGAAAAGGAAAG
11631236 AGA
1 AGA
11631239 GATCTAAAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAAGGAAAG
Found at i:11636048 original size:15 final size:16
Alignment explanation
Indices: 11635994--11636130 Score: 84
Period size: 16 Copynumber: 8.2 Consensus size: 16
11635984 AATGGATGAA
11635994 AAAAGATAAAAAAAGAG
1 AAAA-ATAAAAAAAGAG
*
11636011 AAATAA-AAAAAATAGGTG
1 AAA-AATAAAAAA-A-GAG
*
11636029 GAAAA-AAAAAAAGAG
1 AAAAATAAAAAAAGAG
* *
11636044 AAAAATGAAAAATG-G
1 AAAAATAAAAAAAGAG
* *
11636059 AAAAAGAAAAAAAGTAAAA
1 AAAAATAAAAAAAG---AG
*
11636078 AAAAAGTAAAAAAAAAG
1 AAAAA-TAAAAAAAGAG
*
11636095 AAAAATGAAAAAAGAG
1 AAAAATAAAAAAAGAG
11636111 -AAAATGAAAAAAAGATG
1 AAAAAT-AAAAAAAGA-G
11636128 AAA
1 AAA
11636131 GGAGAAAAAG
Statistics
Matches: 92, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
15 23 0.25
16 30 0.33
17 20 0.22
18 7 0.08
19 5 0.05
20 7 0.08
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAAATAAAAAAAGAG
Found at i:11636053 original size:7 final size:6
Alignment explanation
Indices: 11636031--11636121 Score: 51
Period size: 6 Copynumber: 13.8 Consensus size: 6
11636021 AATAGGTGGA
* *
11636031 AAAAAA AAAAGAG AAAAATG AAAAATGG AAAAAG AAAAA- AAGTAAAA
1 AAAAAG AAAA-AG AAAAA-G AAAAA--G AAAAAG AAAAAG AA--AAAG
*
11636078 AAAAAG TAAAA- AAAAAG AAAAATG AAAAAAG AGAAAATG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAA-G -AAAAAG A-AAAA-G AAAAA
11636122 AAGATGAAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
5 6 0.09
6 24 0.35
7 24 0.35
8 15 0.22
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:11636078 original size:44 final size:42
Alignment explanation
Indices: 11636032--11636123 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 42
11636022 ATAGGTGGAA
* * *
11636032 AAAAAAAAAG-AGAAAAATGAAAAATGGAAAAAGAAAAAAAG
1 AAAAAAAAAGAAAAAAAAAGAAAAATGAAAAAAGAAAAAAAG
* *
11636073 TAAAAAAAAAGTAAAAAAAAAGAAAAATGAAAAAAGAGAAAATG
1 -AAAAAAAAAG-AAAAAAAAAGAAAAATGAAAAAAGAAAAAAAG
11636117 AAAAAAA
1 AAAAAAA
11636124 GATGAAAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 10 0.23
43 7 0.16
44 26 0.60
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (42 bp):
AAAAAAAAAGAAAAAAAAAGAAAAATGAAAAAAGAAAAAAAG
Found at i:11636081 original size:11 final size:11
Alignment explanation
Indices: 11636065--11636099 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
11636055 ATGGAAAAAG
11636065 AAAAAAAGTAA
1 AAAAAAAGTAA
11636076 AAAAAAAGTAA
1 AAAAAAAGTAA
11636087 AAAAAAAG-AA
1 AAAAAAAGTAA
11636097 AAA
1 AAA
11636100 TGAAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
AAAAAAAGTAA
Found at i:11637717 original size:57 final size:57
Alignment explanation
Indices: 11637562--11638132 Score: 831
Period size: 59 Copynumber: 9.7 Consensus size: 57
11637552 TCTTGTGTAG
*
11637562 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTGAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAATTTA-TTTCTAA
11637621 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
*
11637677 GGAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
* *
11637734 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAA-TTT-ATTTCTAA
* * *
11637794 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTTG-AAATTTATTTCTAA
11637855 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTT-GAAATTTATTTCTAA
* *
11637914 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAA-TTT-ATTTCTAA
* * * *
11637975 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTAAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTT-GAAATTTATTTCTAA
*
11638034 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATTTATTTCTAA
*
11638091 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
11638133 TATTTAAAGA
Statistics
Matches: 471, Mismatches: 24, Indels: 35
0.89 0.05 0.07
Matches are distributed among these distances:
56 40 0.08
57 120 0.25
58 20 0.04
59 132 0.28
60 62 0.13
61 82 0.17
62 11 0.02
63 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:11637937 original size:120 final size:116
Alignment explanation
Indices: 11637562--11638133 Score: 848
Period size: 120 Copynumber: 4.9 Consensus size: 116
11637552 TCTTGTGTAG
*
11637562 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTG-AAATTTATTTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATT-TTTTTTTGAAAATTTA-TTTCTAAGGAAA
*
11637626 ATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAATTTATTTCTAA
64 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTCTAA
* *
11637677 GGAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTTG-AAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAAATTTATTTCTAAGGAAAAT
*
11637741 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAA-TTT-ATTTCTAA
* *
11637794 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TTTTTTTTTGAAAATTTATTTCTAAGGAA
*
11637859 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT-GAAATTTATTTCTAA
* * *
11637914 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCC-CCAAAA-ATTTTTTTTTGAAAATTT-ATTTCTAAGGAA
* ** *
11637979 AATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTAAAAATTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTTGAAATTTATTTCTAA
* *
11638034 GGAAAATTGATACTTTCAACTTTTTCCCAAAAA-TATTTTTTGAAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAAATTTATTTCTAAGGAAAAT
11638098 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
11638134 ATTTAAAGAA
Statistics
Matches: 416, Mismatches: 28, Indels: 26
0.89 0.06 0.06
Matches are distributed among these distances:
113 40 0.10
114 15 0.04
115 50 0.12
116 44 0.11
117 52 0.12
118 1 0.00
119 21 0.05
120 119 0.29
121 69 0.17
122 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.45
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTCTAA
Found at i:11638167 original size:26 final size:24
Alignment explanation
Indices: 11638137--11638217 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 24
11638127 TTTTTTTATT
*
11638137 TAAAGAATATAAAACAAAATAAAAG
1 TAAAGAA-ATAAAACAAAATAAAAA
11638162 TAAAAGTAAATAAAGA-AGAAA-AAAAA
1 T-AAAG-AAATAAA-ACA-AAATAAAAA
11638188 TAAAGAAAAGTAAAACAAAAATAAAAA
1 TAAAG-AAA-TAAAAC-AAAATAAAAA
11638215 TAA
1 TAA
11638218 GATAAAGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
25 9 0.20
26 22 0.48
27 15 0.33
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (24 bp):
TAAAGAAATAAAACAAAATAAAAA
Found at i:11638197 original size:21 final size:21
Alignment explanation
Indices: 11638180--11638234 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
11638170 AATAAAGAAG
11638180 AAAAAAAATAAAGAAAAGTAA
1 AAAAAAAATAAAGAAAAGTAA
*
11638201 AACAAAAATAAA-AATAAGATAA
1 AAAAAAAATAAAGAA-AAG-TAA
11638223 AGATAAAAAATA
1 A-A-AAAAAATA
11638235 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 14 0.50
22 4 0.14
23 1 0.04
24 7 0.25
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAAAAAATAAAGAAAAGTAA
Found at i:11638293 original size:23 final size:23
Alignment explanation
Indices: 11638252--11638295 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11638242 AATCTAATCT
*
11638252 AATAAATAAAAAATAGAAAAATA
1 AATAAACAAAAAATAGAAAAATA
11638275 AATAAACAAATAAAT-GAAAAA
1 AATAAACAAA-AAATAGAAAAA
11638296 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (23 bp):
AATAAACAAAAAATAGAAAAATA
Found at i:11638759 original size:47 final size:45
Alignment explanation
Indices: 11638699--11638853 Score: 192
Period size: 47 Copynumber: 3.4 Consensus size: 45
11638689 ATCCTGATTT
*
11638699 TTTC-AATGAGAATCTTTAAAAAATCCTCAAATGAGAATCTTTGAG
1 TTTCAAATGAGAATCTTT-AAAAATCTTCAAATGAGAATCTTTGAG
* * *
11638744 TTTTAAATGGAGAATCTTTAAGAAATCTTCAAATGAGAAACATTGAG
1 TTTCAAAT-GAGAATCTTTAA-AAATCTTCAAATGAGAATCTTTGAG
* *
11638791 TCTTCAAATGAGAATCTTT--AAAT-TTCAAATGAGAATCTTTAAA
1 T-TTCAAATGAGAATCTTTAAAAATCTTCAAATGAGAATCTTTGAG
11638834 TTTCAAATGAGAATCTTTAA
1 TTTCAAATGAGAATCTTTAA
11638854 GATGTGAAAC
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
42 17 0.18
43 17 0.18
44 4 0.04
45 3 0.03
46 5 0.05
47 43 0.45
48 6 0.06
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (45 bp):
TTTCAAATGAGAATCTTTAAAAATCTTCAAATGAGAATCTTTGAG
Found at i:11638852 original size:21 final size:21
Alignment explanation
Indices: 11638699--11638853 Score: 141
Period size: 21 Copynumber: 7.0 Consensus size: 21
11638689 ATCCTGATTT
11638699 TTTC-AATGAGAATCTTTAAAAAA
1 TTTCAAATGAGAATCTTT---AAA
* * *
11638722 TCCTCAAATGAGAATCTTTGAG
1 T-TTCAAATGAGAATCTTTAAA
*
11638744 TTTTAAATGGAGAATCTTTAAGAAA
1 TTTCAAAT-GAGAATCTTT---AAA
* * * *
11638769 TCTTCAAATGAGAAACATTGAG
1 T-TTCAAATGAGAATCTTTAAA
11638791 TCTTCAAATGAGAATCTTTAAA
1 T-TTCAAATGAGAATCTTTAAA
11638813 TTTCAAATGAGAATCTTTAAA
1 TTTCAAATGAGAATCTTTAAA
11638834 TTTCAAATGAGAATCTTTAA
1 TTTCAAATGAGAATCTTTAA
11638854 GATGTGAAAC
Statistics
Matches: 109, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
21 45 0.41
22 32 0.29
23 1 0.01
24 2 0.02
25 23 0.21
26 6 0.06
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (21 bp):
TTTCAAATGAGAATCTTTAAA
Found at i:11639563 original size:5 final size:5
Alignment explanation
Indices: 11639553--11639614 Score: 56
Period size: 5 Copynumber: 11.6 Consensus size: 5
11639543 TAGATGTTTC
11639553 TTATT TTATT TTATTT TTATT CTTATT CTTATT TT-TT ATT-TT TTATTTT
1 TTATT TTATT TTA-TT TTATT -TTATT -TTATT TTATT -TTATT TTA--TT
11639602 TTATT TTATT TTA
1 TTATT TTATT TTA
11639615 GGATAATAGG
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
4 4 0.08
5 26 0.51
6 16 0.31
7 5 0.10
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:11639572 original size:6 final size:6
Alignment explanation
Indices: 11639556--11639613 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
11639546 ATGTTTCTTA
* *
11639556 TTTTA- TTTTAT TTTTAT TCTTAT TCTTATT TTTTATT TTTTAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTA-T TTTTAT TTTTAT
11639604 ATTTTAT TTT
1 -TTTTAT TTT
11639614 AGGATAATAG
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
5 6 0.13
6 28 0.60
7 13 0.28
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:11639590 original size:19 final size:16
Alignment explanation
Indices: 11639553--11639614 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
11639543 TAGATGTTTC
11639553 TTATTTTATTTTATTT
1 TTATTTTATTTTATTT
11639569 TTATTCTTATTCTTATTT
1 TTATT-TTATT-TTATTT
*
11639587 TT-TATT-TTTTATTTT
1 TTATTTTATTTTA-TTT
11639602 TTATTTTATTTTA
1 TTATTTTATTTTA
11639615 GGATAATAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 10 0.26
17 11 0.28
18 8 0.21
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTATTTTATTT
Found at i:11639593 original size:7 final size:7
Alignment explanation
Indices: 11639561--11639608 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
11639551 TCTTATTTTA
11639561 TTTTA-T
1 TTTTATT
11639567 TTTTA-T
1 TTTTATT
*
11639573 TCTTA-T
1 TTTTATT
*
11639579 TCTTATT
1 TTTTATT
11639586 TTTTATT
1 TTTTATT
11639593 TTTTATT
1 TTTTATT
11639600 TTTTATT
1 TTTTATT
11639607 TT
1 TT
11639609 ATTTTAGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 16 0.41
7 23 0.59
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:11640545 original size:16 final size:17
Alignment explanation
Indices: 11640516--11640552 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
11640506 TTAAATTCAG
11640516 AAAAAAGAGAAAAAAAT
1 AAAAAAGAGAAAAAAAT
*
11640533 AAAAAATAG-AAAAAAT
1 AAAAAAGAGAAAAAAAT
11640549 AAAA
1 AAAA
11640553 TTTTAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAAGAGAAAAAAAT
Found at i:11640850 original size:177 final size:170
Alignment explanation
Indices: 11640634--11641047 Score: 437
Period size: 170 Copynumber: 2.4 Consensus size: 170
11640624 TTTTTATGTG
* * *
11640634 AGAAATTTTGTCTAAATTTGTCTCAAATGGTGGAATAATTTAGATAAAGTTTCAATATCAATAAT
1 AGAAATTTT-CCTAAATTTGTCCCAAATGGTGGAATAATTTAGATAAAGTTTCAATA-AAATAAT
** * *
11640699 TAATATT-TATTTCAAAACAAAAAATATAAAAATTTTGAAATTAAAT-ACAAATTATCCAAGGAT
64 TAATATTCT-TTTC-AAA-AAAAAAT-T---AAGGTTGAAAATAAATGA-AAATTATCCAAAGAT
*
11640762 -AAGATTTTTAAAAATTTCAAATGGTAAATT-TCTAAGAAATCTCTAGGTA
121 GAA-ATTCTTAAAAATTTCAAATGGTAAATTCTCTAAGAAATCTCTAGGTA
* *
11640811 AGAAATTTTACCTAAATTTGTCCCAAATGGTGAAATAATTTAGATGAAGTTTCAATAAAAGTAAT
1 AGAAATTTT-CCTAAATTTGTCCCAAATGGTGGAATAATTTAGATAAAGTTTCAATAAAA-TAAT
* * * ** ** *
11640876 T-GTATTCTTTTCCAAATAAAATTTGGGTTGAAAATATTTGATAATTATCCAAAGATGAAATTCT
64 TAATATTCTTTTCAAAAAAAAATTAAGGTTGAAAATAAATGAAAATTATCCAAAGATGAAATTCT
* *
11640940 TAGAAATTTCAAATGGTAAATTCTCTAAGAAATCTCTAGGTG
129 TAAAAATTTCAAATGGTAAATTCTCTAAGAAATCTCTAGGTA
* *
11640982 AGAAA-TTTCTTTAAATTTGTCCCAAATGGTGGAATAATTTAAATGAAA-TTTCAATAAAAATAA
1 AGAAATTTTC-CTAAATTTGTCCCAAATGGTGGAATAATTTAGAT-AAAGTTTCAAT-AAAATAA
11641045 TTA
63 TTA
11641048 TCATATTATT
Statistics
Matches: 203, Mismatches: 25, Indels: 24
0.81 0.10 0.10
Matches are distributed among these distances:
169 1 0.00
170 93 0.46
171 32 0.16
173 1 0.00
174 6 0.03
175 2 0.01
176 10 0.05
177 58 0.29
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (170 bp):
AGAAATTTTCCTAAATTTGTCCCAAATGGTGGAATAATTTAGATAAAGTTTCAATAAAATAATTA
ATATTCTTTTCAAAAAAAAATTAAGGTTGAAAATAAATGAAAATTATCCAAAGATGAAATTCTTA
AAAATTTCAAATGGTAAATTCTCTAAGAAATCTCTAGGTA
Found at i:11647108 original size:21 final size:22
Alignment explanation
Indices: 11647079--11647119 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
11647069 ACATACCTTA
11647079 TTTAAACATT-TAA-ATCATTC
1 TTTAAACATTATAACATCATTC
11647099 TTTACAACATTATAACATCAT
1 TTTA-AACATTATAACATCAT
11647120 GTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 3 0.17
23 5 0.28
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAAACATTATAACATCATTC
Found at i:11649228 original size:2 final size:2
Alignment explanation
Indices: 11649221--11649246 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11649211 ATGTGCAAGC
11649221 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11649247 TCTTTCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11651224 original size:19 final size:19
Alignment explanation
Indices: 11651200--11651239 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
11651190 CCAAGGAAAT
*
11651200 TTCTCTAGTAGTTTAAAAG
1 TTCTCTAGCAGTTTAAAAG
11651219 TTCTCTAGCAGTTTAAAAG
1 TTCTCTAGCAGTTTAAAAG
11651238 TT
1 TT
11651240 TGTGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (19 bp):
TTCTCTAGCAGTTTAAAAG
Found at i:11651994 original size:2 final size:2
Alignment explanation
Indices: 11651987--11652011 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11651977 TGATGAATAC
11651987 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 A
11652012 ATTTTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11654885 original size:63 final size:63
Alignment explanation
Indices: 11654786--11654907 Score: 208
Period size: 63 Copynumber: 1.9 Consensus size: 63
11654776 AGTAGACTTC
* * *
11654786 CATTTGAATTCTGGATTTGGATATACCCTGATTTGTTGAAGATCAACCGAGAACTGGTTTCGA
1 CATTTGAATTCTGGAATTGGATATACCCTGACTTGTTGAAGATCAACCGAGAACCGGTTTCGA
*
11654849 CATTTGAATTCTGGAATTGGATATACCCTGACTTGTTGAAGATCAACTGAGAACCGGTT
1 CATTTGAATTCTGGAATTGGATATACCCTGACTTGTTGAAGATCAACCGAGAACCGGTT
11654908 CCAAAACTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (63 bp):
CATTTGAATTCTGGAATTGGATATACCCTGACTTGTTGAAGATCAACCGAGAACCGGTTTCGA
Found at i:11656039 original size:31 final size:32
Alignment explanation
Indices: 11656001--11656080 Score: 110
Period size: 31 Copynumber: 2.5 Consensus size: 32
11655991 GAAGGCTATT
11656001 TTATTCATGGAACAACTCTTTTATCA-AACAG-
1 TTATTCATGGAACAACTCTTTTA-CATAACAGC
11656032 TTATTCATGGAACAACTCTTTTACATAACAGC
1 TTATTCATGGAACAACTCTTTTACATAACAGC
** *
11656064 ACATTTATGGAACAACT
1 TTATTCATGGAACAACT
11656081 ATTGTCAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.05
31 28 0.64
32 14 0.32
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (32 bp):
TTATTCATGGAACAACTCTTTTACATAACAGC
Found at i:11657605 original size:20 final size:20
Alignment explanation
Indices: 11657562--11657606 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11657552 ATAATAGCCT
* *
11657562 AAATTACGTCTATAATATTG
1 AAATTACGTCTATAATACTA
* *
11657582 AAATTCCGTTTATAATACTA
1 AAATTACGTCTATAATACTA
11657602 AAATT
1 AAATT
11657607 TTATCTGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (20 bp):
AAATTACGTCTATAATACTA
Found at i:11663171 original size:36 final size:37
Alignment explanation
Indices: 11663088--11663248 Score: 116
Period size: 37 Copynumber: 4.4 Consensus size: 37
11663078 AAAAACGTTC
* **
11663088 TCATTACTTA-TTTT-TATATTTTTAAAAAAAG-CATT
1 TCATTACTTATTTTTCTATTTTTTTAGGAAAAGAC-TT
* *
11663123 TCTATTAATTATTTTTCTA-TTTTTTAGGAAAAGATTT
1 TC-ATTACTTATTTTTCTATTTTTTTAGGAAAAGACTT
* * *
11663160 TCATTACTTATTCTAT-TAGTTTTTTTGGGAAAAAACTT
1 TCATTACTTATT-TTTCTA-TTTTTTTAGGAAAAGACTT
* ** * * *
11663198 CCATTACTTGCTTTACAATTTTTTTAGGAAAATACTT
1 TCATTACTTATTTTTCTATTTTTTTAGGAAAAGACTT
*
11663235 ACATTACTTATTTT
1 TCATTACTTATTTT
11663249 CATATTTATT
Statistics
Matches: 97, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
35 2 0.02
36 18 0.19
37 50 0.52
38 27 0.28
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.52
Consensus pattern (37 bp):
TCATTACTTATTTTTCTATTTTTTTAGGAAAAGACTT
Found at i:11663183 original size:37 final size:37
Alignment explanation
Indices: 11663142--11663247 Score: 106
Period size: 38 Copynumber: 2.8 Consensus size: 37
11663132 TATTTTTCTA
* * * **
11663142 TTTTTTAGGAAAAGATTTTCATTACTTATTCTATTAGT
1 TTTTTTAGGAAAAAACTTACATTACTTATT-TACAAGT
* * *
11663180 TTTTTTGGGAAAAAACTTCCATTACTTGCTTTACAA-T
1 TTTTTTAGGAAAAAACTTACATTACTT-ATTTACAAGT
*
11663217 TTTTTTAGGAAAATACTTACATTACTTATTT
1 TTTTTTAGGAAAAAACTTACATTACTTATTT
11663248 TCATATTTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
36 3 0.05
37 25 0.45
38 26 0.46
39 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (37 bp):
TTTTTTAGGAAAAAACTTACATTACTTATTTACAAGT
Found at i:11664277 original size:2 final size:2
Alignment explanation
Indices: 11664270--11664297 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11664260 AAATATTTCT
11664270 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
11664298 AGAAACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11665090 original size:28 final size:28
Alignment explanation
Indices: 11665050--11665131 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 28
11665040 ACATTTGATG
**
11665050 ATATAATACAAAAAAATATATAAAATTT
1 ATATAATTTAAAAAAATATATAAAATTT
*** *
11665078 ATATAATTTAAAATTTTA-ATAAAAATT
1 ATATAATTTAAAAAAATATATAAAATTT
*
11665105 ATATATATTTAATAAAAAT-TAAAAAAT
1 ATATA-ATTTAA-AAAAATATATAAAAT
11665132 AAATTTCATG
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
27 13 0.32
28 19 0.47
29 8 0.20
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (28 bp):
ATATAATTTAAAAAAATATATAAAATTT
Found at i:11666564 original size:18 final size:20
Alignment explanation
Indices: 11666522--11666561 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11666512 TCAAACCAAA
11666522 TTATATATTTTTATTAATTT
1 TTATATATTTTTATTAATTT
11666542 TTATATATTTTT-TTAATTT
1 TTATATATTTTTATTAATTT
11666561 T
1 T
11666562 ATAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATATATTTTTATTAATTT
Found at i:11666677 original size:22 final size:21
Alignment explanation
Indices: 11666633--11666674 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
11666623 TTAATACATA
11666633 AAAAACAAAAAATTAAATTTC
1 AAAAACAAAAAATTAAATTTC
*
11666654 AAAAACTAATAAAATTGAATT
1 AAAAAC-AA-AAAATTAAATT
11666675 CAATTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAACAAAAAATTAAATTTC
Found at i:11673993 original size:31 final size:32
Alignment explanation
Indices: 11673958--11674018 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
11673948 TTGATTTATG
* *
11673958 AAATTTTTCAATAGTTTAGT-GAATTCTATAA
1 AAATTCTTCAATAGGTTAGTAGAATTCTATAA
11673989 AAATTCTTCAATAGGTTAGTAGAATTCTAT
1 AAATTCTTCAATAGGTTAGTAGAATTCTAT
11674019 GAATTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (32 bp):
AAATTCTTCAATAGGTTAGTAGAATTCTATAA
Found at i:11674201 original size:7 final size:7
Alignment explanation
Indices: 11674191--11674221 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11674181 AGTAAAACCA
11674191 AAAAATT
1 AAAAATT
11674198 AAAAATT
1 AAAAATT
11674205 AAAAATT
1 AAAAATT
11674212 AAAAA-T
1 AAAAATT
11674218 AAAA
1 AAAA
11674222 TAAGCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:11674619 original size:21 final size:20
Alignment explanation
Indices: 11674595--11674635 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
11674585 TGTTCTTCCC
11674595 AAAAAT-CTAGATTTTTTTAG
1 AAAAATCCTA-ATTTTTTTAG
11674615 AAAAATCCTAATTTTTTTAG
1 AAAAATCCTAATTTTTTTAG
11674635 A
1 A
11674636 CCTATTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (20 bp):
AAAAATCCTAATTTTTTTAG
Found at i:11675081 original size:3 final size:3
Alignment explanation
Indices: 11675073--11675151 Score: 131
Period size: 3 Copynumber: 26.0 Consensus size: 3
11675063 AATAAAAAGT
*
11675073 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
11675121 ATA ATA ATA ATA ATA ATA TATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
11675152 TATTGCCATA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11675628 original size:17 final size:17
Alignment explanation
Indices: 11675608--11675647 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11675598 GATTTCTTTA
11675608 TTATTAAGTTTTCATTT
1 TTATTAAGTTTTCATTT
* *
11675625 TTATAAATTTTTCATTT
1 TTATTAAGTTTTCATTT
11675642 TT-TTAA
1 TTATTAA
11675648 TCATGATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTAAGTTTTCATTT
Found at i:11676414 original size:27 final size:26
Alignment explanation
Indices: 11676362--11676414 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11676352 CATAATTTTT
* *
11676362 TATTTTATTTTGAAGGTATGAATTGA
1 TATTTTATTTTGAAGGAATCAATTGA
* *
11676388 TATTTTATTTTTAGGGAATCAAGTTGA
1 TATTTTATTTTGAAGGAATCAA-TTGA
11676415 CATAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (26 bp):
TATTTTATTTTGAAGGAATCAATTGA
Found at i:11676818 original size:23 final size:23
Alignment explanation
Indices: 11676791--11676842 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
11676781 AGATTTTTCA
11676791 AAAAAACT-T-TAAAACATTGAAA
1 AAAAAACTATATAAAA-ATTGAAA
*
11676813 ATAAAAACTATATAAAAATTGCAA
1 A-AAAAACTATATAAAAATTGAAA
11676837 AAAAAA
1 AAAAAA
11676843 TTATGAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 12 0.46
24 8 0.31
25 5 0.19
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAAAACTATATAAAAATTGAAA
Found at i:11677210 original size:17 final size:19
Alignment explanation
Indices: 11677179--11677218 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
11677169 TAAAAATTTT
11677179 ATTTTTTAAAGTTTTCATA
1 ATTTTTTAAAGTTTTCATA
*
11677198 ATTTTTT-AA-TTTTTATA
1 ATTTTTTAAAGTTTTCATA
11677215 ATTT
1 ATTT
11677219 CTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTTAAAGTTTTCATA
Found at i:11677240 original size:35 final size:36
Alignment explanation
Indices: 11677200--11677274 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 36
11677190 TTTTCATAAT
11677200 TTTTTAA-TTTTT-ATAATTTCTAAAAATATTTTATA
1 TTTTTAATTTTTTAATAATTT-TAAAAATATTTTATA
11677235 TTTTTAATTTTTTAAATAATTTTAAAAATATTTTATA
1 TTTTTAATTTTTT-AATAATTTTAAAAATATTTTATA
11677272 TTT
1 TTT
11677275 ATTTTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 7 0.19
36 5 0.14
37 18 0.49
38 7 0.19
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (36 bp):
TTTTTAATTTTTTAATAATTTTAAAAATATTTTATA
Found at i:11677256 original size:26 final size:26
Alignment explanation
Indices: 11677168--11677258 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 26
11677158 TTTATTTTTA
*
11677168 TTAAA-AATTTTAT-TTTTTAAAGTT
1 TTAAATAATTTTATATTTTTAAATTT
* *
11677192 TT-CATAATTTTTTAATTTTTATAATTT
1 TTAAATAATTTTAT-ATTTTTA-AATTT
* * *
11677219 CTAAAAATATTTTATATTTTTAATTTT
1 TTAAATA-ATTTTATATTTTTAAATTT
11677246 TTAAATAATTTTA
1 TTAAATAATTTTA
11677259 AAAATATTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.02
24 9 0.18
26 12 0.24
27 14 0.27
28 9 0.18
29 6 0.12
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (26 bp):
TTAAATAATTTTATATTTTTAAATTT
Found at i:11678250 original size:17 final size:18
Alignment explanation
Indices: 11678217--11678251 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11678207 TGGTGGATAA
*
11678217 TTTAAATAAAGATTTAAT
1 TTTAAATAAAGAATTAAT
11678235 TTTAAATAAA-AATTAAT
1 TTTAAATAAAGAATTAAT
11678252 AAAATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTAAATAAAGAATTAAT
Found at i:11678276 original size:18 final size:18
Alignment explanation
Indices: 11678213--11678277 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
11678203 AGAATGGTGG
11678213 ATAATTTAAATAAAGATTT
1 ATAATTTAAATAAA-ATTT
*
11678232 A-ATTTTAAATAAAAATTAAT
1 ATAATTTAAAT-AAAATT--T
11678252 AAAATAATTTAAATAAAATTT
1 ---ATAATTTAAATAAAATTT
11678273 ATAAT
1 ATAAT
11678278 AATTATCTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
18 16 0.43
19 4 0.11
20 1 0.03
21 1 0.03
23 7 0.19
24 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATTTAAATAAAATTT
Found at i:11680567 original size:196 final size:196
Alignment explanation
Indices: 11680347--11680717 Score: 606
Period size: 196 Copynumber: 1.9 Consensus size: 196
11680337 AGCTTTTTTA
*
11680347 TTTTTTTTTTAATTCAAGGAAAAGAGATTGAACATTGTTTTTTGAATAAAAAGATTATGTCAATG
1 TTTTTTTTTTAATTCAAGGAAAAGAAATTGAACATTGTTTTTTGAATAAAAAGATTATGTCAATG
* *
11680412 AATCTCGAGATTAATTTAATTAATTCATATAATTACTTTTAAGAAATGACATTTATT-AGATCT-
66 AATCCCAAGATTAATTTAATTAATTCATATAATTACTTTTAAGAAATGACATTTATTAAG-TCTA
*
11680475 GAAGTTTAAAATTT-AGTATTTATAATTTTTTTGTTAATTATGTCAATAATTTTAGTATTGTAAA
130 GAA-TTT-AAATTTGAGTATTTATAATTTTTTTATTAATTATGTCAATAATTTTAGTATTGTAAA
11680539 GCTT
193 GCTT
11680543 TTTTTTTTTTAATTCGAA-GAAAAGAAATTGAACATTGTTTTTTGAATAAAAAGATTATGTCAAT
1 TTTTTTTTTTAATTC-AAGGAAAAGAAATTGAACATTGTTTTTTGAATAAAAAGATTATGTCAAT
* * * *
11680607 GAATCCCAAGATTAATTTAATTAATTCATATAATTATTTTTAAGAAGTGATATTTATTAAGTTTA
65 GAATCCCAAGATTAATTTAATTAATTCATATAATTACTTTTAAGAAATGACATTTATTAAGTCTA
11680672 GAATTTAAATTTGAGTATTTATAATTTTTTTATTAATTATGTCAAT
130 GAATTTAAATTTGAGTATTTATAATTTTTTTATTAATTATGTCAAT
11680718 CATTAAATTA
Statistics
Matches: 163, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
195 6 0.04
196 150 0.92
197 7 0.04
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.46
Consensus pattern (196 bp):
TTTTTTTTTTAATTCAAGGAAAAGAAATTGAACATTGTTTTTTGAATAAAAAGATTATGTCAATG
AATCCCAAGATTAATTTAATTAATTCATATAATTACTTTTAAGAAATGACATTTATTAAGTCTAG
AATTTAAATTTGAGTATTTATAATTTTTTTATTAATTATGTCAATAATTTTAGTATTGTAAAGCT
T
Found at i:11688324 original size:5 final size:5
Alignment explanation
Indices: 11688311--11688394 Score: 56
Period size: 5 Copynumber: 18.0 Consensus size: 5
11688301 AAATTTGTCA
* * **
11688311 AAAAT AAAAC AAAA- AAAAT -AAA- AATAT AAAAT AAAAT AAGTT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
11688357 AATAT AAAAT -AAAT AAAAT -CAA- AAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
11688395 GAGAAAAGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
4 20 0.33
5 35 0.58
6 5 0.08
ACGTcount: A:0.77, C:0.02, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11688329 original size:14 final size:13
Alignment explanation
Indices: 11688310--11688393 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 13
11688300 AAAATTTGTC
11688310 AAAAATAAAACAAA
1 AAAAATAAAA-AAA
*
11688324 AAAAATAAAAATA
1 AAAAATAAAAAAA
*
11688337 TAAAATAAAATAAGTTA
1 AAAAATAAAA-AA---A
11688354 AAAAATATAAAATAA
1 AAAAATA-AAAA-AA
*
11688369 ATAAAATCAAAAAAT
1 A-AAAAT-AAAAAAA
11688384 AAAAATAAAA
1 AAAAATAAAA
11688394 TGAGAAAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
13 15 0.26
14 16 0.28
15 4 0.07
16 9 0.16
17 9 0.16
18 4 0.07
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.18
Consensus pattern (13 bp):
AAAAATAAAAAAA
Found at i:11688362 original size:24 final size:25
Alignment explanation
Indices: 11688310--11688394 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 25
11688300 AAAATTTGTC
*
11688310 AAAA-ATAAAACAAAA-AAAAT--A
1 AAAATATAAAATAAAATAAAATCAA
* *
11688331 AAAATATAAAATAAAAT-AAGTTAA
1 AAAATATAAAATAAAATAAAATCAA
11688355 AAAATATAAAAT-AAATAAAATCAA
1 AAAATATAAAATAAAATAAAATCAA
11688379 AAAATA-AAAATAAAAT
1 AAAATATAAAATAAAAT
11688395 GAGAAAAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.07
22 13 0.24
23 9 0.17
24 28 0.52
ACGTcount: A:0.78, C:0.02, G:0.01, T:0.19
Consensus pattern (25 bp):
AAAATATAAAATAAAATAAAATCAA
Found at i:11688401 original size:19 final size:19
Alignment explanation
Indices: 11688367--11688406 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11688357 AATATAAAAT
*
11688367 AAATAAAATCAAAAAATAA
1 AAATAAAATCAAAAAAGAA
* *
11688386 AAATAAAATGAGAAAAGAA
1 AAATAAAATCAAAAAAGAA
11688405 AA
1 AA
11688407 CCTTACGATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (19 bp):
AAATAAAATCAAAAAAGAA
Found at i:11689231 original size:3 final size:3
Alignment explanation
Indices: 11689223--11689252 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11689213 AATAAAAAGT
11689223 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11689253 TAACAATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11690563 original size:475 final size:475
Alignment explanation
Indices: 11689627--11690896 Score: 1104
Period size: 475 Copynumber: 2.7 Consensus size: 475
11689617 ATTGAGATTA
* * * ** * * * * *
11689627 AAAATAAATGATTGAGATCAAACCATAAGTCATAAGAAATTATCTGGATTGAGCCAAGATTAGGT
1 AAAATAAATAATCGAGA-GAAACCACGAGTCATAAAAAATAATCTAGAATGAGCCAAGATCAGGT
* * * ** * * *
11689692 GATCGAGATGAAACCATGAGT--TAAATACAA-TGACTAGGATCGAGTCAAGATTAAAAATAAAT
65 GACCGGGATAAAACCACAAGTCAAAAATA-AAGTGACCAAGATCGAGTCAAGA-TAAAAA-AAAT
** * * * * * * * * *
11689754 GATTGAGA-TGAAACCACGAGTTTATAAGAAATGATCTGGACCGAGCCAAGATCAGGTGATCAAG
127 GATCAAAACAG-AACCACTAG-TCATAAAAAATGATTTGAACTGAGCCAAGATCAGGTGATCGAG
* * * * * ** *
11689818 ACAAAACCATGAGTTAAAAATGAAACGA-CTAGGATCGAGTCGAGGTTGAAAATAAATGATCGAG
190 ACAAAACCACGAGTAAAAAATGAAGCGACCT-GAATTGAGTCGAGGTAAAAAATAAATGACCGAG
* * * **
11689882 ATGAAACCATGAGTCATAAGAAATGATCTGAATTG-AGCAAGATCA-AGTGAGTGGGACAAAACC
254 ATGAAACCATGAGTCATAAGAAATGATCTGAATTGAACCAAGATCAGA-TGACTAGGATGAAACC
* * * * * *
11689945 ATGAGTCAAATGAGGCAACTAGGACCAAGTCAAGGTAAAAAATAAATAATCGAGATGAAATCAGG
318 ATGAGTAAAATAAAGCAACCAAGACCAAGTCAAGGTAAAAAATAAATAACCGAGATGAAATCAGG
* * * *
11690010 AGTTATAAGAAATGATATGGATTAAGCCAAGATCAGGTGACCGAGACAAAATCATGAGTTCAAAA
383 AGTCATAAGAAATGATATGGACTAAGCCAAGATCAGGTAACCGAGACAAAATCAGGAGTTCAAAA
*
11690075 TAAAGCGACCAAGATCGAGT-AAGATCG
448 TAAAGCAACCAAGATCGAGTCAAGATCG
* * * * * * * * *
11690102 AAAA-AAATAACTGGGGCA-AAACTACGAGTTATAAGAAATGATCTAGAATGAGCTAGGATTAGG
1 AAAATAAATAA-TCGAG-AGAAACCACGAGTCATAAAAAATAATCTAGAATGAGCCAAGATCAGG
* * * * * *
11690165 TGACTGGGATGAAACTACAAGTCAAAAATGAAA-TGATCAAGATCGAGTCGAGGTAAAATATAAA
64 TGACCGGGATAAAACCACAAGTCAAAAAT-AAAGTGACCAAGATCGAGTCAAGATAAAA-A-AAA
* * * *
11690229 TGA-CAGGAACAGAACCA-TGAGTCATAAAAAATGATTTGAATTGAGCCAAGATCAAGTGATCGG
126 TGATCA-AAACAGAACCACT-AGTCATAAAAAATGATTTGAACTGAGCCAAGATCAGGTGATCGA
* *
11690292 GACAAAACCACGAGTAAAAAATGAAGCGACCTGAATTGAGTTGAGGTAAAAAATAAATAACCGAG
189 GACAAAACCACGAGTAAAAAATGAAGCGACCTGAATTGAGTCGAGGTAAAAAATAAATGACCGAG
* * * * * * *
11690357 AAGGAACCATGAGTTATAAGAAATGATCTGGACTGAACCAAGATCAGATGACTAGAATGAAACTA
254 ATGAAACCATGAGTCATAAGAAATGATCTGAATTGAACCAAGATCAGATGACTAGGATGAAACCA
* * * * *
11690422 TGAGTAAAAAATAAAGCAACCAAGATCGAGTCTAGGTAAAAAATAAATGACCGAGA-CATAA-CT
319 TGAGT--AAAATAAAGCAACCAAGACCAAGTCAAGGTAAAAAATAAATAACCGAGATGA-AATC-
* * * * * *
11690485 ATGAGTCATAAGAAATGATCTGGACTAAGCCAAGATCAGGTAATCGGGACAAACT-AGGAG-T-G
380 AGGAGTCATAAGAAATGATATGGACTAAGCCAAGATCAGGTAACCGAGACAAAATCAGGAGTTCA
* * * * *
11690547 GAATGAGGCAACCAAGATCGAGTCAATATTG
445 AAATAAAGCAACCAAGATCGAGTCAAGATCG
* *
11690578 AAAATAAATGATCGAGATGAAACCACGAGTCATAAAAAATAATCTAGATTGAGCCAAGATCAGGT
1 AAAATAAATAATCGAGA-GAAACCACGAGTCATAAAAAATAATCTAGAATGAGCCAAGATCAGGT
* *
11690643 GACCGGGATAAAACCGCAAGTCAAAAATAAAGTGACCAGGATCGAGTCAAGATAAAAAAAATGAT
65 GACCGGGATAAAACCACAAGTCAAAAATAAAGTGACCAAGATCGAGTCAAGATAAAAAAAATGAT
** * * * * * **
11690708 CAAAATGGAATCACTAGTCATAAGAAATGATTTGGACTGAGTCAAGATTAGGTGATCGAGATTAA
130 CAAAACAGAACCACTAGTCATAAAAAATGATTTGAACTGAGCCAAGATCAGGTGATCGAGACAAA
* * * * * * * *
11690773 ACCACGAGTCAAAAATAAAGTGACC-AAGATTGAGTCAATGTAAAAAATAAATGACTGGGATGAA
195 ACCACGAGTAAAAAATGAAGCGACCTGA-ATTGAGTCGAGGTAAAAAATAAATGACCGAGATGAA
* * * *
11690837 ACTATGAGTCATAAGAAATGAT-TCGAATTGAGCCAAGATCAGGTGACCAGGATGAAACCA
259 ACCATGAGTCATAAGAAATGATCT-GAATTGAACCAAGATCAGATGACTAGGATGAAACCA
11690897 CAAGTCATAA
Statistics
Matches: 629, Mismatches: 141, Indels: 50
0.77 0.17 0.06
Matches are distributed among these distances:
474 59 0.09
475 300 0.48
476 85 0.14
477 97 0.15
478 88 0.14
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (475 bp):
AAAATAAATAATCGAGAGAAACCACGAGTCATAAAAAATAATCTAGAATGAGCCAAGATCAGGTG
ACCGGGATAAAACCACAAGTCAAAAATAAAGTGACCAAGATCGAGTCAAGATAAAAAAAATGATC
AAAACAGAACCACTAGTCATAAAAAATGATTTGAACTGAGCCAAGATCAGGTGATCGAGACAAAA
CCACGAGTAAAAAATGAAGCGACCTGAATTGAGTCGAGGTAAAAAATAAATGACCGAGATGAAAC
CATGAGTCATAAGAAATGATCTGAATTGAACCAAGATCAGATGACTAGGATGAAACCATGAGTAA
AATAAAGCAACCAAGACCAAGTCAAGGTAAAAAATAAATAACCGAGATGAAATCAGGAGTCATAA
GAAATGATATGGACTAAGCCAAGATCAGGTAACCGAGACAAAATCAGGAGTTCAAAATAAAGCAA
CCAAGATCGAGTCAAGATCG
Found at i:11690650 original size:117 final size:117
Alignment explanation
Indices: 11690437--11690650 Score: 268
Period size: 117 Copynumber: 1.8 Consensus size: 117
11690427 AAAAAATAAA
* * * * * *
11690437 GCAACCAAGATCGAGTCTAGGTAAAAAATAAATGACCGAGACATAACTATGAGTCATAAGAAATG
1 GCAACCAAGATCGAGTCAAGATAAAAAATAAATGACCGAGACATAACCACGAGTCATAAAAAATA
* *
11690502 ATCTGGACTAAGCCAAGATCAGGTAATCGGGACAAACTAGGAGTGGAATGAG
66 ATCTAGACTAAGCCAAGATCAGGTAACCGGGACAAACTAGGAGTGGAATGAG
* ** * *
11690554 GCAACCAAGATCGAGTCAATATTGAAAATAAATGATCGAGATGA-AACCACGAGTCATAAAAAAT
1 GCAACCAAGATCGAGTCAAGATAAAAAATAAATGACCGAGA-CATAACCACGAGTCATAAAAAAT
* * *
11690618 AATCTAGATTGAGCCAAGATCAGGTGACCGGGA
65 AATCTAGACTAAGCCAAGATCAGGTAACCGGGA
11690651 TAAAACCGCA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
117 79 0.99
118 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (117 bp):
GCAACCAAGATCGAGTCAAGATAAAAAATAAATGACCGAGACATAACCACGAGTCATAAAAAATA
ATCTAGACTAAGCCAAGATCAGGTAACCGGGACAAACTAGGAGTGGAATGAG
Found at i:11690672 original size:595 final size:594
Alignment explanation
Indices: 11689765--11690882 Score: 1285
Period size: 595 Copynumber: 1.9 Consensus size: 594
11689755 ATTGAGATGA
* *
11689765 AACCACGAGTTTATAAGAAATGATCTGGACCGAGCCAAGATCAGGTGATCAAGACAAAACCATGA
1 AACCACGAGTTTATAAGAAATGATCTGGACCGAACCAAGATCAGATGATCAAGACAAAACCATGA
* * * * ** * *
11689830 GTTAAAAATGAAACGACTAGGATCGAGTCGAGGTTGAAAATAAATGATCGAGATGAAACCATGAG
66 GTAAAAAATGAAACAACCAAGATCGAGTCGAGGTAAAAAATAAATGACCGAGATCAAACCATGAG
* * * *
11689895 TCATAAGAAATGATCTGAATTGAGCAAGATCAAGTGAGTGGGACAAAACCATGAGTCAAATGAGG
131 TCATAAGAAATGATCTGAACTAAGCAAGATCAAGTGAATGGGACAAAACCAGGAGTCAAATGAGG
* * * * * * * *
11689960 CAACTAGGACCAAGTCAAGGTAAAAAATAAATAATCGAGATGAAATCAGGAGTTATAAGAAATGA
196 CAACCAAGACCAAGTCAAGATAAAAAATAAATAATCGAGATGAAACCACGAGTCATAAAAAATAA
* * **
11690025 TATGGATTAAGCCAAGATCAGGTGACCGAGACAAAATCATGAGTTCAAAATAAAGCGACCAAGAT
261 TATAGATTAAGCCAAGATCAGGTGACCGAGACAAAACCACAAGTTCAAAATAAAGCGACCAAGAT
** * *
11690090 CGAGT-AAGATCGAAAAAA-AT-AACTGGGGCAAAACTACGAGTTATAAGAAATGATCTAGAATG
326 CGAGTCAAGATAAAAAAAAGATAAAAT--GG--AAAC-ACGAGTCATAAGAAATGATCTAGAATG
* * * *
11690152 AG-CTAGGATTAGGTGA-CTGGGATGAAACTACAAGTCAAAAATGAAA-TGATCAAGATCGAGTC
386 AGTC-AAGATTAGGTGATC-GAGATGAAACCACAAGTCAAAAAT-AAAGTGACCAAGATCGAGTC
* * *
11690214 GAGGTAAAATATAAATGACAGGAACAG-AACCATGAGTCATAAAAAATGATTTGAATTGAGCCAA
448 AAGGTAAAAAATAAATGACAGGAA-AGAAACCATGAGTCATAAAAAATGATTCGAATTGAGCCAA
11690278 GATCAAGTGATCGGGACAAAACCACGAGTAAAAAATGAAGCGACCTGAATTGAGTTGAGGTAAAA
512 GATCAAGTGATCGGGACAAAACCACGAGTAAAAAATGAAGCGACCTGAATTGAGTTGAGGTAAAA
11690343 AATAAATAACCGAGAAGG
577 AATAAATAACCGAGAAGG
* * * *
11690361 AACCATGAG-TTATAAGAAATGATCTGGACTGAACCAAGATCAGATGA-CTAGA-ATGAAACTAT
1 AACCACGAGTTTATAAGAAATGATCTGGACCGAACCAAGATCAGATGATCAAGACA--AAACCAT
* *
11690423 GAGTAAAAAAT-AAAGCAACCAAGATCGAGTCTAGGTAAAAAATAAATGACCGAGA-CATAACTA
64 GAGTAAAAAATGAAA-CAACCAAGATCGAGTCGAGGTAAAAAATAAATGACCGAGATCA-AACCA
* * * **
11690486 TGAGTCATAAGAAATGATCTGGACTAAGCCAAGATCAGGT-AATCGGGAC-AAACTAGGAGTGGA
127 TGAGTCATAAGAAATGATCTGAACTAAG-CAAGATCAAGTGAAT-GGGACAAAACCAGGAGTCAA
* * * ** *
11690549 ATGAGGCAACCAAGATCGAGTCAATATTGAAAATAAATGATCGAGATGAAACCACGAGTCATAAA
190 ATGAGGCAACCAAGACCAAGTCAAGATAAAAAATAAATAATCGAGATGAAACCACGAGTCATAAA
* * * * * *
11690614 AAATAATCTAGATTGAGCCAAGATCAGGTGACCGGGATAAAACCGCAAG-TCAAAAATAAAGTGA
255 AAATAATATAGATTAAGCCAAGATCAGGTGACCGAGACAAAACCACAAGTTC-AAAATAAAGCGA
* * * * *
11690678 CCAGGATCGAGTCAAGATAAAAAAAATGATCAAAATGGAATCACTAGTCATAAGAAATGATTTGG
319 CCAAGATCGAGTCAAGATAAAAAAAA-GAT-AAAATGGAAACACGAGTCATAAGAAATGATCTAG
* * * *
11690743 ACTGAGTCAAGATTAGGTGATCGAGATTAAACCACGAGTCAAAAATAAAGTGACCAAGATTGAGT
382 AATGAGTCAAGATTAGGTGATCGAGATGAAACCACAAGTCAAAAATAAAGTGACCAAGATCGAGT
* * * * * *
11690808 CAATGTAAAAAATAAATGACTGGGATGAAACTATGAGTCATAAGAAATGATTCGAATTGAGCCAA
447 CAAGGTAAAAAATAAATGACAGGAAAGAAACCATGAGTCATAAAAAATGATTCGAATTGAGCCAA
*
11690873 GATCAGGTGA
512 GATCAAGTGA
11690883 CCAGGATGAA
Statistics
Matches: 430, Mismatches: 76, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
593 1 0.00
594 14 0.03
595 369 0.86
596 39 0.09
598 4 0.01
600 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.19
Consensus pattern (594 bp):
AACCACGAGTTTATAAGAAATGATCTGGACCGAACCAAGATCAGATGATCAAGACAAAACCATGA
GTAAAAAATGAAACAACCAAGATCGAGTCGAGGTAAAAAATAAATGACCGAGATCAAACCATGAG
TCATAAGAAATGATCTGAACTAAGCAAGATCAAGTGAATGGGACAAAACCAGGAGTCAAATGAGG
CAACCAAGACCAAGTCAAGATAAAAAATAAATAATCGAGATGAAACCACGAGTCATAAAAAATAA
TATAGATTAAGCCAAGATCAGGTGACCGAGACAAAACCACAAGTTCAAAATAAAGCGACCAAGAT
CGAGTCAAGATAAAAAAAAGATAAAATGGAAACACGAGTCATAAGAAATGATCTAGAATGAGTCA
AGATTAGGTGATCGAGATGAAACCACAAGTCAAAAATAAAGTGACCAAGATCGAGTCAAGGTAAA
AAATAAATGACAGGAAAGAAACCATGAGTCATAAAAAATGATTCGAATTGAGCCAAGATCAAGTG
ATCGGGACAAAACCACGAGTAAAAAATGAAGCGACCTGAATTGAGTTGAGGTAAAAAATAAATAA
CCGAGAAGG
Found at i:11690895 original size:120 final size:119
Alignment explanation
Indices: 11689471--11690903 Score: 751
Period size: 120 Copynumber: 12.0 Consensus size: 119
11689461 GAAACTATGG
* * * * ** * * *
11689471 GTCAAGAATGAAGCGAACAAGATCGGGTTGAGGTAAAAAATAAATGAC-CAGGATGAAATCACGA
1 GTCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGA-GATGAAACCATGA
* * ** * * * * ** * *
11689535 GTTATAAAAAATGATCTAAACTAAGTCAAGATCAGATGATTGGGATGAAACCATGA
65 GTCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
** * ** * * * * *
11689591 GTC--AAATGAGAAGCGAATAAGATCGAATTGAGATTAAAAATAAATGATTGAGATCAAACCATA
1 GTCAAAAAT-A-AAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGAGATGAAACCATG
* * * * * *
11689654 AGTCATAAGAAATTATCTGGATTGAGCCAAGATTAGGTGATCGAGATGAAACCATGA
64 AGTCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * * * * *
11689711 GT--TAAATACAA-TGACTAGGATCGAGTCAAGATTAAAAATAAATGATTGAGATGAAACCACGA
1 GTCAAAAATA-AAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGAGATGAAACCATGA
* ** * ** * *
11689773 GTTTATAAGAAATGATCTGGACCGAGCCAAGATCAGGTGATCAAGACAAAACCATGA
65 G-TCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * **
11689830 GTTAAAAATGAAA-CGACTAGGATCGAGTCGAGGTTGAAAATAAATGA-TCGAGATGAAACCATG
1 GTCAAAAAT-AAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACT-GAGATGAAACCATG
* * ** * *
11689893 AGTCATAAGAAATGATCTGAATTGAG-CAAGATCAAGTGAGTGGGACAAAACCATGA
64 AGTCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * * * * * * *
11689949 GTC--AAATGAGGCAACTAGGACCAAGTCAAGGTAAAAAATAAAT-AATCGAGATGAAATCAGGA
1 GTCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACT-GAGATGAAACCATGA
* * * * * * *
11690011 GTTATAAGAAATGATATGGATTAAGCCAAGATCAGGTGACCGAGACAAAATCATGA
65 GTCATAAGAAATGAT-CGGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* ** * * *** * *
11690067 GTTC-AAAATAAAGCGACCAAGATCGAGT-AAGATCGAAAA-AAATAACTGGGGCAAAACTACGA
1 G-TCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGAGATGAAACCATGA
* * * * * * * * * *
11690129 GTTATAAGAAATGATCTAGAATGAGCTAGGATTAGGTGACTGGGATGAAACTACAA
65 GTCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * * **
11690185 GTCAAAAATGAAA-TGATCAAGATCGAGTCGAGGTAAAATATAAATGACAG-GAACAGAACCATG
1 GTCAAAAAT-AAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGAGATGA-AACCATG
* * * * * *
11690248 AGTCATAAAAAATGATTTGAATTGAGCCAAGATCAAGTGATCGGGACAAAACCACGA
64 AGTCATAAGAAATGA-TCGGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * ** * * * *
11690305 GTAAAAAATGAAGCGACC-TGAATTGAGTTGAGGTAAAAAATAAATAACCGAGAAGGAACCATGA
1 GTCAAAAATAAAGCGACCAAG-ATCGAGTCAAGGTAAAAAATAAATGACTGAGATGAAACCATGA
* * * * ** * * * *
11690369 GTTATAAGAAATGATCTGGACTGAACCAAGATCAGATGACTAGAATGAAACTATGA
65 GTCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * * *
11690425 GTAAAAAATAAAGCAACCAAGATCGAGTCTAGGTAAAAAATAAATGACCGAGA-CATAACTATGA
1 GTCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGAGATGA-AACCATGA
* * * * * * *
11690489 GTCATAAGAAATGATCTGGACTAAGCCAAGATCAGGTAATCGGGA-CAAACTAGGA
65 GTCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
** * * * ** ** *
11690544 GT--GGAATGAGGCAACCAAGATCGAGTCAATATTGAAAATAAATGA-TCGAGATGAAACCACGA
1 GTCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACT-GAGATGAAACCATGA
* * * * *
11690606 GTCATAAAAAATAATCTAGATTGAGCCAAGATCAGGTGACCGGGATAAAACCGCAA
65 GTCATAAGAAATGATC-GGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * * * *
11690662 GTCAAAAATAAAGTGACCAGGATCGAGTCAAGAT-AAAAA-AAATGA-TCAAAATGGAATCACT-
1 GTCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACT-GAGATGAAACCA-TG
* * * * * * *
11690723 AGTCATAAGAAATGATTTGGACTGAGTCAAGATTAGGTGATCGAGATTAAACCACGA
64 AGTCATAAGAAATGA-TCGGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
* * * * *
11690780 GTCAAAAATAAAGTGACCAAGATTGAGTCAATGTAAAAAATAAATGACTGGGATGAAACTATGAG
1 GTCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGAGATGAAACCATGAG
* * * *
11690845 TCATAAGAAATGATTCGAATTGAGCCAAGATCAGGTGACCAGGATGAAACCACAA
66 TCATAAGAAATGA-TCGGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
11690900 GTCA
1 GTCA
11690904 TAAGAAATGA
Statistics
Matches: 1012, Mismatches: 261, Indels: 80
0.75 0.19 0.06
Matches are distributed among these distances:
116 2 0.00
117 149 0.15
118 240 0.24
119 127 0.13
120 435 0.43
121 58 0.06
122 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (119 bp):
GTCAAAAATAAAGCGACCAAGATCGAGTCAAGGTAAAAAATAAATGACTGAGATGAAACCATGAG
TCATAAGAAATGATCGGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACGA
Found at i:11690948 original size:56 final size:56
Alignment explanation
Indices: 11690843--11690970 Score: 143
Period size: 56 Copynumber: 2.3 Consensus size: 56
11690833 TGAAACTATG
* * * *
11690843 AGTCATAAGAAATGATTCGAATTGAGCCAAGATCAGGTGACCAGGATGAAACCACA
1 AGTCATAAGAAATGATTCAAACTAAGCCAAGATCAGGTGACCAGAATGAAACCACA
* * *
11690899 AGTCATAAGAAATGA-TCTAAACTAAGCCAAGATCAGGTGATC-GAAATGAAATCACG
1 AGTCATAAGAAATGATTC-AAACTAAGCCAAGATCAGGTGACCAG-AATGAAACCACA
*
11690955 AGTCAAAATGAAATGA
1 AGTCATAA-GAAATGA
11690971 CCAGGACCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
55 3 0.05
56 51 0.84
57 7 0.11
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.19
Consensus pattern (56 bp):
AGTCATAAGAAATGATTCAAACTAAGCCAAGATCAGGTGACCAGAATGAAACCACA
Found at i:11691155 original size:120 final size:119
Alignment explanation
Indices: 11690887--11691297 Score: 380
Period size: 120 Copynumber: 3.4 Consensus size: 119
11690877 AGGTGACCAG
* * * * * *
11690887 GATGAAACCACAAGTCATAAGAAATGATCTAAACTAAGCCAAGATCAGGTGATCGAAATGAAATC
1 GATGAAACCACGAGTCATAAGAAATGATCTAGACTGAGCCAAGATTAGGTGATTGAAATGAAACC
* * ** *
11690952 ACGAGTCAAAATGAAATGACCAGGACCAAGTTGAGGTCGAAAATAAATGACAAG
66 ACGAGTCAAAATGAAACGACCAGGACCAAGTTAAGGTAAAAAATAAATGACAAC
* * * *
11691006 GAT-AGAACCATGAGTTATAAGAAATGATCTAGATTGAGCCAATATTAGGTGATTGAAATGAAAC
1 GATGA-AACCACGAGTCATAAGAAATGATCTAGACTGAGCCAAGATTAGGTGATTGAAATGAAAC
* * * *
11691070 CACGAGTCGAATATGAAGCGACCAGGATCAAGTTAAGGTAAAAAATAAATGACTAC
65 CACGAGTC-AAAATGAAACGACCAGGACCAAGTTAAGGTAAAAAATAAATGACAAC
* * * **
11691126 GATGAAATCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATTAGGTGACTGGGATGAAACC
1 GATGAAACCACGAGTCATAAGAAATGATCTAGACTGAGCCAAGATTAGGTGATTGAAATGAAACC
* * * * ** ** ** *
11691191 ATGAGTAAAAACT-AAAGTGACTAGGACTGAGTCGAGGTCGAAAATAAATGATCGA-
66 ACGAGTCAAAA-TGAAA-CGACCAGGACCAAGTTAAGGTAAAAAATAAATGA-CAAC
* * * * *
11691246 GATGGAGCCACGAGTCATAAAAAATGAT-TTGAACTGAGCCAAGATCAGGTGA
1 GATGAAACCACGAGTCATAAGAAATGATCTAG-ACTGAGCCAAGATTAGGTGA
11691298 ATAATAATAG
Statistics
Matches: 237, Mismatches: 48, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
118 1 0.00
119 67 0.28
120 166 0.70
121 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.20
Consensus pattern (119 bp):
GATGAAACCACGAGTCATAAGAAATGATCTAGACTGAGCCAAGATTAGGTGATTGAAATGAAACC
ACGAGTCAAAATGAAACGACCAGGACCAAGTTAAGGTAAAAAATAAATGACAAC
Found at i:11692026 original size:12 final size:11
Alignment explanation
Indices: 11692011--11692059 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
11692001 AGTTTAAGTT
11692011 TTTTTTTCTTTC
1 TTTTTTT-TTTC
11692023 TTTTTTTTTTTAC
1 -TTTTTTTTTT-C
*
11692036 TTTTTTTTCTC
1 TTTTTTTTTTC
11692047 TTTTTTTGTTTC
1 TTTTTTT-TTTC
11692059 T
1 T
11692060 CTTTCCCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 8 0.25
12 16 0.50
13 8 0.25
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:11692026 original size:14 final size:14
Alignment explanation
Indices: 11692009--11692064 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
11691999 TTAGTTTAAG
11692009 TTTTTTTTTCTTTC
1 TTTTTTTTTCTTTC
*
11692023 TTTTTTTTT-TTAC
1 TTTTTTTTTCTTTC
11692036 TTTTTTTTCTCTTT-
1 TTTTTTTT-TCTTTC
*
11692050 TTTTGTTTCTCTTTC
1 TTTT-TTTTTCTTTC
11692065 CCTCTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 11 0.31
14 19 0.54
15 5 0.14
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTCTTTC
Found at i:11692039 original size:10 final size:9
Alignment explanation
Indices: 11692010--11692053 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
11692000 TAGTTTAAGT
11692010 TTTTTTTTC
1 TTTTTTTTC
*
11692019 TTTCTTTT-
1 TTTTTTTTC
*
11692027 TTTTTTTAC
1 TTTTTTTTC
11692036 TTTTTTTTC
1 TTTTTTTTC
11692045 TCTTTTTTT
1 T-TTTTTTT
11692054 GTTTCTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 6 0.21
9 16 0.55
10 7 0.24
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:11692397 original size:42 final size:42
Alignment explanation
Indices: 11692351--11692432 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
11692341 TTTTTGCTTA
* * *
11692351 TTTTTGGGTGGAGCACATTGGTATTTTGCC-CTATCAATTTTT
1 TTTTTCGGTAGAGCACATTGGTATTTTACCTC-ATCAATTTTT
11692393 TTTTTCGGTAGAGCACATTGGTATTTTACCTCATCAATTT
1 TTTTTCGGTAGAGCACATTGGTATTTTACCTCATCAATTT
11692433 CTCTTCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTTTCGGTAGAGCACATTGGTATTTTACCTCATCAATTTTT
Found at i:11695950 original size:30 final size:31
Alignment explanation
Indices: 11695916--11695975 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
11695906 TTGATTTATG
* *
11695916 AAATTTTTCAATAGTTTAGT-GAATTCTATA
1 AAATTCTTCAATAGGTTAGTAGAATTCTATA
11695946 AAATTCTTCAATAGGTTAGTAGAATTCTAT
1 AAATTCTTCAATAGGTTAGTAGAATTCTAT
11695976 GAATTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (31 bp):
AAATTCTTCAATAGGTTAGTAGAATTCTATA
Found at i:11696595 original size:20 final size:20
Alignment explanation
Indices: 11696572--11696612 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11696562 TGTTCTTCTA
11696572 AAAAAT-CTAGAGTTTTTTAG
1 AAAAATCCTA-AGTTTTTTAG
*
11696592 AAAAATCCTAATTTTTTTAG
1 AAAAATCCTAAGTTTTTTAG
11696612 A
1 A
11696613 CCTATTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAAATCCTAAGTTTTTTAG
Found at i:11697048 original size:3 final size:3
Alignment explanation
Indices: 11697042--11697100 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
11697032 AAAAAAAAGT
11697042 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
11697089 ATA ACA ATA ATA
1 ATA ATA ATA ATA
11697101 TATTGCAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11697388 original size:16 final size:17
Alignment explanation
Indices: 11697360--11697394 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11697350 TTGTGTTTTC
11697360 ATTTTGATAATTTTATA
1 ATTTTGATAATTTTATA
*
11697377 ATTTTG-TAATTTTTTA
1 ATTTTGATAATTTTATA
11697393 AT
1 AT
11697395 CATGATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
ATTTTGATAATTTTATA
Found at i:11698365 original size:27 final size:26
Alignment explanation
Indices: 11698313--11698365 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11698303 CATAATTTTT
* *
11698313 TATTTTATTTTGAAGGTATGAATTGA
1 TATTTTATTTTGAAGGAATCAATTGA
* *
11698339 TATTTTATTTTTAGGGAATCAAGTTGA
1 TATTTTATTTTGAAGGAATCAA-TTGA
11698366 CATAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (26 bp):
TATTTTATTTTGAAGGAATCAATTGA
Found at i:11699173 original size:17 final size:19
Alignment explanation
Indices: 11699142--11699181 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
11699132 TAAAAATTTT
11699142 ATTTTTTAAAGTTTTCATA
1 ATTTTTTAAAGTTTTCATA
*
11699161 ATTTTTT-AA-TTTTTATA
1 ATTTTTTAAAGTTTTCATA
11699178 ATTT
1 ATTT
11699182 CTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTTAAAGTTTTCATA
Found at i:11699203 original size:35 final size:36
Alignment explanation
Indices: 11699163--11699237 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
11699153 TTTTCATAAT
*
11699163 TTTTTAATT-TTT-ATAATTTCTAAAAATATTTTATA
1 TTTTTAATTCTTTAATAATTT-AAAAAATATTTTATA
11699198 TTTTTAATTCTTTAAATAATTTAAAAAATATTTTATA
1 TTTTTAATTCTTT-AATAATTTAAAAAATATTTTATA
11699235 TTT
1 TTT
11699238 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
35 9 0.25
36 3 0.08
37 17 0.47
38 7 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (36 bp):
TTTTTAATTCTTTAATAATTTAAAAAATATTTTATA
Found at i:11699417 original size:15 final size:15
Alignment explanation
Indices: 11699397--11699429 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11699387 TCGCTCCAGT
11699397 TATA-TTAAAATATAA
1 TATATTTAAAA-ATAA
11699412 TATATTTAAAAATAA
1 TATATTTAAAAATAA
11699427 TAT
1 TAT
11699430 TTCATACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATTTAAAAATAA
Found at i:11699993 original size:15 final size:16
Alignment explanation
Indices: 11699962--11699994 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11699952 TAATTTCTAA
11699962 ATTTTAGTTTAGTTTT
1 ATTTTAGTTTAGTTTT
*
11699978 ATTTTA-TTTTGTTTT
1 ATTTTAGTTTAGTTTT
11699993 AT
1 AT
11699995 GTCCTTAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (16 bp):
ATTTTAGTTTAGTTTT
Found at i:11700213 original size:17 final size:18
Alignment explanation
Indices: 11700177--11700215 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11700167 GAATGGTGGA
*
11700177 TAAT-TTAAATAAAGATT
1 TAATATTAAATAAAGAAT
11700194 TAATATTAAATAAA-AAT
1 TAATATTAAATAAAGAAT
11700211 TAATA
1 TAATA
11700216 AAATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAATATTAAATAAAGAAT
Found at i:11702378 original size:14 final size:15
Alignment explanation
Indices: 11702351--11702393 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
11702341 TTTAATATAA
11702351 ATATAAAATTAAATAT
1 ATATAAAA-TAAATAT
11702367 ATATAAAA-AAATAT
1 ATATAAAATAAATAT
*
11702381 ATA-AAATTAAATA
1 ATATAAAATAAATA
11702394 AATAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 14 0.56
16 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATAAATAT
Found at i:11702385 original size:28 final size:29
Alignment explanation
Indices: 11702351--11702408 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
11702341 TTTAATATAA
*
11702351 ATATAAAATTAAATATAT-ATAAAAAAAT
1 ATATAAAATTAAATAAATAATAAAAAAAT
*
11702379 ATATAAAATTAAATAAATAATTAAAAAAT
1 ATATAAAATTAAATAAATAATAAAAAAAT
11702408 A
1 A
11702409 ATTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (29 bp):
ATATAAAATTAAATAAATAATAAAAAAAT
Found at i:11702398 original size:14 final size:14
Alignment explanation
Indices: 11702353--11702409 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 14
11702343 TAATATAAAT
11702353 ATAAAATTAAATATA
1 ATAAAATTAAATA-A
*
11702368 TATAAAA--AAATAT
1 -ATAAAATTAAATAA
11702381 ATAAAATTAAATAA
1 ATAAAATTAAATAA
11702395 AT--AATTAAA-AA
1 ATAAAATTAAATAA
11702406 ATAA
1 ATAA
11702410 TTTTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
11 4 0.11
12 13 0.37
14 12 0.34
16 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAAATTAAATAA
Found at i:11706077 original size:47 final size:47
Alignment explanation
Indices: 11705978--11706079 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 47
11705968 ATAATCAAAC
* * ** *
11705978 TAAATCATGGATCAATCATTAAAAATCATCATAATCATTTTTATATA
1 TAAATCATGGAACAATCATTAAAAATCATCAAAATCATCATCATATA
* * *
11706025 CAAATCATGGAACAGTCTTTAAAAATCATCACAAATCATCATCAT-TA
1 TAAATCATGGAACAATCATTAAAAATCATCA-AAATCATCATCATATA
11706072 TAAATCAT
1 TAAATCAT
11706080 CATTATCATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
47 36 0.80
48 9 0.20
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (47 bp):
TAAATCATGGAACAATCATTAAAAATCATCAAAATCATCATCATATA
Found at i:11710626 original size:6 final size:7
Alignment explanation
Indices: 11710608--11710638 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
11710598 AAGATTAAAA
11710608 CTTTTTT
1 CTTTTTT
11710615 CTTTTTT
1 CTTTTTT
11710622 CTTTTTT
1 CTTTTTT
11710629 CTTTTTT
1 CTTTTTT
11710636 CTT
1 CTT
11710639 AATTAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
CTTTTTT
Found at i:11710860 original size:5 final size:5
Alignment explanation
Indices: 11710850--11710897 Score: 64
Period size: 5 Copynumber: 9.6 Consensus size: 5
11710840 CTAGATTTTC
11710850 TTATT TTATT TTATT TTATTT TTATT TT-TT ATT-TT TTATT TTATT TTA
1 TTATT TTATT TTATT TTA-TT TTATT TTATT -TTATT TTATT TTATT TTA
11710898 GGATAATAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.10
5 31 0.77
6 5 0.12
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:11710880 original size:7 final size:7
Alignment explanation
Indices: 11710844--11710891 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
11710834 TTAGGCCTAG
11710844 ATTTTCTT
1 ATTTT-TT
11710852 ATTTTATT
1 ATTTT-TT
11710860 -TTATTTT
1 ATT-TTTT
11710867 A-TTTTT
1 ATTTTTT
11710873 ATTTTTT
1 ATTTTTT
11710880 ATTTTTT
1 ATTTTTT
11710887 ATTTT
1 ATTTT
11710892 ATTTTAGGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
6 5 0.14
7 22 0.61
8 9 0.25
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (7 bp):
ATTTTTT
Found at i:11712131 original size:188 final size:186
Alignment explanation
Indices: 11711792--11712137 Score: 502
Period size: 188 Copynumber: 1.8 Consensus size: 186
11711782 CAAAAAAGAG
* ** *
11711792 AAAAAAATAAAAAAATAAAATTTTGGAAATAAATATTAATTATCCAATGATGAAATTTATAAAAA
1 AAAAAAATAAAAAAATAAAACTTTGGAAATAAATACAAATTATCCAAGGATGAAATTTATAAAAA
* *
11711857 TTTCAAATGGTAAATTTTCTGTAAAATTCCTAGGTGAGAAATTTTATCTAAATTTATCCCAAATG
66 TTTCAAATGGTAAATTTCCTATAAAATTCCTAGGTGAGAAATTTTATCTAAATTTATCCCAAATG
**
11711922 GTGGAATAATTTAGATAAAGTTTCAATATCAATAATTAATATTTATTTTCAAACAC
131 GTAAAATAATTTAGATAAAGTTTCAATATCAATAATTAATATTTATTTTCAAACAC
* *
11711978 AAAAAATATAAAAAATATAAAAACTTTGGAATTAAATACAAATTATCCAAGGATGAGATTCT-TA
1 AAAAAA-ATAAAAAA-AT-AAAACTTTGGAAATAAATACAAATTATCCAAGGATGAAATT-TATA
*
11712042 GAAATTTCAAATGGTAAA-TTCCTA-ATAAA-TCTCTAGGTGAGAAATTTTATCTAAATTTATCC
62 AAAATTTCAAATGGTAAATTTCCTATA-AAATTC-CTAGGTGAGAAATTTTATCTAAATTTATCC
*
11712104 CAAATTGTAAAATAATTTAGATAAAGTTTCAATA
125 CAAATGGTAAAATAATTTAGATAAAGTTTCAATA
11712138 AAAGTAATTG
Statistics
Matches: 142, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
186 6 0.04
187 11 0.08
188 70 0.49
189 54 0.38
190 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.35
Consensus pattern (186 bp):
AAAAAAATAAAAAAATAAAACTTTGGAAATAAATACAAATTATCCAAGGATGAAATTTATAAAAA
TTTCAAATGGTAAATTTCCTATAAAATTCCTAGGTGAGAAATTTTATCTAAATTTATCCCAAATG
GTAAAATAATTTAGATAAAGTTTCAATATCAATAATTAATATTTATTTTCAAACAC
Found at i:11716282 original size:27 final size:29
Alignment explanation
Indices: 11716252--11716342 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 29
11716242 AAAAAAGATA
*
11716252 AAAAAGGGAAAG-AGAAA-AAAAAAAAAG
1 AAAAAGGGAAAGAAAAAAGAAAAAAAAAG
*
11716279 AAAAAGGGATAGAAAAAATGAAAAAAAAAG
1 AAAAAGGGAAAGAAAAAA-GAAAAAAAAAG
*
11716309 AAAAA--AAAAGAAAAAA-AAGAGAAAAAAG
1 AAAAAGGGAAAGAAAAAAGAA-A-AAAAAAG
11716337 TAAAAA
1 -AAAAA
11716343 AAATGAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.04
27 12 0.22
28 20 0.37
29 5 0.09
30 15 0.28
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (29 bp):
AAAAAGGGAAAGAAAAAAGAAAAAAAAAG
Found at i:11716284 original size:21 final size:20
Alignment explanation
Indices: 11716260--11716355 Score: 88
Period size: 19 Copynumber: 4.7 Consensus size: 20
11716250 TAAAAAAGGG
11716260 AAAGAGAAAAAAAAAAAAGAA
1 AAAGAGAAAAAAAAAAAA-AA
*
11716281 AAAGGGATAGAAAAAATGAAAAAA
1 AAAGAGA-A-AAAAAA--AAAAAA
*
11716305 AAAGA-AAAAAAAAGAAAAA
1 AAAGAGAAAAAAAAAAAAAA
**
11716324 AAAGAGAAAAAAGTAAAAAA
1 AAAGAGAAAAAAAAAAAAAA
*
11716344 AATGA-AAAAAAA
1 AAAGAGAAAAAAA
11716356 TGAAAAAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
19 16 0.26
20 15 0.24
21 12 0.19
22 2 0.03
23 7 0.11
24 6 0.10
25 4 0.06
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (20 bp):
AAAGAGAAAAAAAAAAAAAA
Found at i:11716304 original size:49 final size:50
Alignment explanation
Indices: 11716268--11716364 Score: 142
Period size: 49 Copynumber: 1.9 Consensus size: 50
11716258 GGAAAGAGAA
*
11716268 AAAAAAAAAAGAAAAAGGGATAGAAAAAATGAAAAAAAAAGAAAAAAAAAG
1 AAAAAAAAGAGAAAAA-GGATAGAAAAAATGAAAAAAAAAGAAAAAAAAAG
* * *
11716319 AAAAAAAAGAGAAAAAAG-TAAAAAAAATGAAAAAAAATGAAAAAAA
1 AAAAAAAAGAGAAAAAGGATAGAAAAAATGAAAAAAAAAGAAAAAAA
11716365 GATGAAAGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 26 0.62
50 1 0.02
51 15 0.36
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.05
Consensus pattern (50 bp):
AAAAAAAAGAGAAAAAGGATAGAAAAAATGAAAAAAAAAGAAAAAAAAAG
Found at i:11716369 original size:11 final size:10
Alignment explanation
Indices: 11716291--11716371 Score: 103
Period size: 10 Copynumber: 8.1 Consensus size: 10
11716281 AAAGGGATAG
11716291 AAAAAATGAA
1 AAAAAATGAA
*
11716301 AAAAAAAGAA
1 AAAAAATGAA
*
11716311 AAAAAAAGAA
1 AAAAAATGAA
*
11716321 AAAAAA-GAG
1 AAAAAATGAA
11716330 AAAAAA-GTAA
1 AAAAAATG-AA
11716340 AAAAAATGAA
1 AAAAAATGAA
11716350 AAAAAATGAA
1 AAAAAATGAA
11716360 AAAAAGATGAA
1 AAAAA-ATGAA
11716371 A
1 A
11716372 GGAGAAAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.14
10 49 0.75
11 7 0.11
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:11716381 original size:39 final size:38
Alignment explanation
Indices: 11716242--11716386 Score: 123
Period size: 39 Copynumber: 3.7 Consensus size: 38
11716232 ACAATGGATG
* * *
11716242 AAAAAAGATAAAAAAGGGAAAGAGAAA-AAAAAAAAAGAA
1 AAAAAAGAGAAAAAA--GAAAAAAAAAGAAAAAAAAAGAA
** *
11716281 AAAGGGATAGAAAAAATGAAAAAAAAAGAAAAAAAAAGAA
1 AAA-AAAGAGAAAAAA-GAAAAAAAAAGAAAAAAAAAGAA
* *
11716321 AAAAAAGAGAAAAAAGTAAAAAAAATGAAAAAAAATG-A
1 AAAAAAGAGAAAAAAG-AAAAAAAAAGAAAAAAAAAGAA
** *
11716359 AAAAAAGATGAAAGGAGAAAAAAGAAGA
1 AAAAAAGA-GAAAAAAGAAAAAAAAAGA
11716387 CTCAAATTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
38 19 0.22
39 44 0.51
40 23 0.27
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (38 bp):
AAAAAAGAGAAAAAAGAAAAAAAAAGAAAAAAAAAGAA
Found at i:11716382 original size:10 final size:10
Alignment explanation
Indices: 11716264--11716364 Score: 91
Period size: 10 Copynumber: 9.9 Consensus size: 10
11716254 AAAGGGAAAG
11716264 AGAAAAAAAA
1 AGAAAAAAAA
11716274 A-AAAGAAAAA
1 AGAAA-AAAAA
*
11716284 GGGATAGAAAAAA
1 -AGA-A-AAAAAA
*
11716297 TGAAAAAAAA
1 AGAAAAAAAA
11716307 AGAAAAAAAA
1 AGAAAAAAAA
11716317 AG-AAAAAAA
1 AGAAAAAAAA
*
11716326 AG-AGAAAAA
1 AGAAAAAAAA
11716335 AGTAAAAAAAA
1 AG-AAAAAAAA
*
11716346 TGAAAAAAAA
1 AGAAAAAAAA
*
11716356 TGAAAAAAA
1 AGAAAAAAA
11716365 GATGAAAGGA
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
9 20 0.26
10 40 0.51
11 8 0.10
12 3 0.04
13 6 0.08
14 1 0.01
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:11717608 original size:46 final size:46
Alignment explanation
Indices: 11717555--11717665 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
11717545 AATCCTGATT
11717555 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGA-AAATCTTTGAG
1 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAAA-CTTTGAG
* *
11717601 TCTTAAATGAGAATCTTTAAGAAATCTTCAAATGAGAAACTTTGAG
1 TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAAACTTTGAG
11717647 TCTTCAAATGAGAATCTTT
1 TCTT-AAATGAGAATCTTT
11717666 GAGATGTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
46 44 0.72
47 17 0.28
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (46 bp):
TCTTAAATGAGAATCTTTAAAAAATCCTCAAATGAGAAACTTTGAG
Found at i:11717634 original size:25 final size:22
Alignment explanation
Indices: 11717555--11717667 Score: 104
Period size: 25 Copynumber: 5.0 Consensus size: 22
11717545 AATCCTGATT
*
11717555 TCTT-AAATGAGAATCTTTAAAAAA
1 TCTTCAAATGAGAATCTTT---GAA
* * *
11717579 TCCTCAAATGAAAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAA
11717601 TCTT-AAATGAGAATCTTTAAGAAA
1 TCTTCAAATGAGAATCTTT--G-AA
* *
11717625 TCTTCAAATGAGAAACTTTGAG
1 TCTTCAAATGAGAATCTTTGAA
11717647 TCTTCAAATGAGAATCTTTGA
1 TCTTCAAATGAGAATCTTTGA
11717668 GATGTGAAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
21 13 0.18
22 25 0.34
23 2 0.03
24 8 0.11
25 26 0.35
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (22 bp):
TCTTCAAATGAGAATCTTTGAA
Found at i:11717653 original size:22 final size:22
Alignment explanation
Indices: 11717582--11717668 Score: 97
Period size: 22 Copynumber: 3.9 Consensus size: 22
11717572 TAAAAAATCC
11717582 TCAAATGA-AAATCTTTGAGTCT
1 TCAAATGAGAAA-CTTTGAGTCT
* *
11717604 T-AAATGAGAATCTTTAAGAAATCT
1 TCAAATGAGAAACTTT--G-AGTCT
11717628 TCAAATGAGAAACTTTGAGTCT
1 TCAAATGAGAAACTTTGAGTCT
*
11717650 TCAAATGAGAATCTTTGAG
1 TCAAATGAGAAACTTTGAG
11717669 ATGTGAAACC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
21 10 0.18
22 25 0.45
23 2 0.04
24 5 0.09
25 13 0.24
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (22 bp):
TCAAATGAGAAACTTTGAGTCT
Found at i:11717874 original size:21 final size:21
Alignment explanation
Indices: 11717838--11717889 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
11717828 GAACTTCTAG
*
11717838 ATGAGAATCTAAAAATTTTGA
1 ATGAGAATCTAAAAATGTTGA
** *
11717859 ATGAGAATCTCTAAATGTTGG
1 ATGAGAATCTAAAAATGTTGA
*
11717880 ATGTGAATCT
1 ATGAGAATCT
11717890 TATGATTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (21 bp):
ATGAGAATCTAAAAATGTTGA
Done.