Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 44 of 74
Found at i:8948990 original size:3 final size:3
Alignment explanation
Indices: 8948984--8949012 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8948974 TACCTATATA
8948984 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
8949013 ACATATCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:8950746 original size:20 final size:20
Alignment explanation
Indices: 8950708--8950746 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8950698 AATTTGTAGT
* **
8950708 TGATGGAAAACAAGTCTATA
1 TGATGGAAAAAAAACCTATA
8950728 TGATGGAAAAAAAACCTAT
1 TGATGGAAAAAAAACCTAT
8950747 TGGTTACCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (20 bp):
TGATGGAAAAAAAACCTATA
Found at i:8956415 original size:48 final size:49
Alignment explanation
Indices: 8956219--8956419 Score: 162
Period size: 48 Copynumber: 4.2 Consensus size: 49
8956209 CATTTTTAAA
* * * * * *
8956219 TTTTTAAAATTTTGTTGCCTATGTT-GTAGGAGCCCTTTCCA-A-ATAGA
1 TTTTTAAAA-TTTGTTACCTATGTTAATAGAAGCCTTTTCTAGATATAGT
* * * * *
8956266 TTTTCAAAATTTGTTACCTATGTCAATAAAAGCTTTTTCTAGACA-AGT
1 TTTTTAAAATTTGTTACCTATGTTAATAGAAGCCTTTTCTAGATATAGT
** * * * ** *
8956314 TATTTTAAAATTCATTATCAATGTTAATAGGAGCCTTTT-TCCATATAGA
1 T-TTTTAAAATTTGTTACCTATGTTAATAGAAGCCTTTTCTAGATATAGT
*
8956363 TTTTTAAAATTTGTTACCTATGTTAGTAGAAGCCTTTTCTAGATATA-T
1 TTTTTAAAATTTGTTACCTATGTTAATAGAAGCCTTTTCTAGATATAGT
8956411 TTTTTAAAA
1 TTTTTAAAA
8956420 CTCATTGCTT
Statistics
Matches: 116, Mismatches: 32, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
46 13 0.11
47 18 0.16
48 47 0.41
49 38 0.33
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (49 bp):
TTTTTAAAATTTGTTACCTATGTTAATAGAAGCCTTTTCTAGATATAGT
Found at i:8956451 original size:97 final size:97
Alignment explanation
Indices: 8956245--8956425 Score: 251
Period size: 97 Copynumber: 1.9 Consensus size: 97
8956235 GCCTATGTTG
* *
8956245 TAGGAGCC-CTTTCCAAATAGATTTTCAAAATTTGTTACCTATGTCAATAAAAGCTTTTTCTAGA
1 TAGGAGCCTTTTTCCAAATAGATTTTCAAAATTTGTTACCTATGTCAATAAAAGCCTTTTCTAGA
*
8956309 CAAGTTATTTTAAAATTCATTATCAATGTTAA
66 CAAGTTATTTTAAAACTCATTATCAATGTTAA
* * * * *
8956341 TAGGAGCCTTTTTCCATATAGATTTTTAAAATTTGTTACCTATGTTAGTAGAAGCCTTTTCTAGA
1 TAGGAGCCTTTTTCCAAATAGATTTTCAAAATTTGTTACCTATGTCAATAAAAGCCTTTTCTAGA
*
8956406 TATA-TT-TTTTAAAACTCATT
66 CA-AGTTATTTTAAAACTCATT
8956426 GCTTATGTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 21 0.28
97 52 0.70
98 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (97 bp):
TAGGAGCCTTTTTCCAAATAGATTTTCAAAATTTGTTACCTATGTCAATAAAAGCCTTTTCTAGA
CAAGTTATTTTAAAACTCATTATCAATGTTAA
Found at i:8959179 original size:27 final size:27
Alignment explanation
Indices: 8959149--8959239 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 27
8959139 TTTGTGCAAG
8959149 AAAAATTGATACTTTCAACTTTTTCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
* * *
8959176 AAAAATT--CACTTTTGAAAACTTGTTTCTA
1 AAAAATTGATAC-TTT--CAACTT-TTTCTC
*
8959205 AGGAAAATTGATACTTTCAACTTTTCCTC
1 A--AAAATTGATACTTTCAACTTTTTCTC
8959234 AAAAAT
1 AAAAAT
8959240 CCATTTTTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 12 0.24
28 5 0.10
29 11 0.22
30 5 0.10
31 6 0.12
32 3 0.06
33 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:8959375 original size:58 final size:58
Alignment explanation
Indices: 8959145--8959355 Score: 277
Period size: 58 Copynumber: 3.6 Consensus size: 58
8959135 TGCCTTTGTG
* * *
8959145 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATTCACTTTTGAAAACTT-GTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTCATTTTTGAAAACTTATTTT
* *
8959202 CTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAACTTATTTT
1 C-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTCATTTTTGAAAACTTATTTT
* * * *
8959261 TATTG-AAAATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTAGAAAGCTTATTTT
1 CA-AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTCA-TTTTT-GAAAACTTATTTT
8959319 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
8959356 ATTTTTTTTG
Statistics
Matches: 134, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
56 1 0.01
57 7 0.05
58 122 0.91
59 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTCATTTTTGAAAACTTATTTT
Found at i:8959393 original size:6 final size:6
Alignment explanation
Indices: 8959378--8959448 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
8959368 TTTTATTTAA
* *
8959378 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AAAAAT --AAAG GAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
8959423 AAAATAT AAATAAAT AAAAAT AAAAA
1 AAAA-AT -AA-AAAT AAAAAT AAAAA
8959449 GTATTAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
4 3 0.05
5 5 0.09
6 38 0.68
7 4 0.07
8 4 0.07
9 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:8959394 original size:11 final size:11
Alignment explanation
Indices: 8959379--8959447 Score: 72
Period size: 10 Copynumber: 6.4 Consensus size: 11
8959369 TTTATTTAAA
8959379 AAAAT-AAAAT
1 AAAATAAAAAT
8959389 AAAAATAAAAAT
1 -AAAATAAAAAT
8959401 AAAAATAAAAAT
1 -AAAATAAAAAT
**
8959413 -AAAGGAAAAT
1 AAAATAAAAAT
*
8959423 AAAATATAAAT
1 AAAATAAAAAT
8959434 -AAATAAAAAT
1 AAAATAAAAAT
8959444 AAAA
1 AAAA
8959448 AGTATTAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
10 17 0.35
11 15 0.31
12 17 0.35
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:8960362 original size:21 final size:21
Alignment explanation
Indices: 8960335--8960446 Score: 86
Period size: 21 Copynumber: 5.3 Consensus size: 21
8960325 AATAAAAATC
8960335 AAATAAAAAATATTAATAGAT
1 AAATAAAAAATATTAATAGAT
* *
8960356 AATTAAAAGAA-AATAATCAGAT
1 AAATAAAA-AATATTAAT-AGAT
* * *
8960378 AAAT-GAAAACATTAACAGAT
1 AAATAAAAAATATTAATAGAT
*
8960398 AAAT-AAAAATAAATAATAGAT
1 AAATAAAAAAT-ATTAATAGAT
* * *
8960419 AAATTATAATATATGAATAGAT
1 AAA-TAAAAAATATTAATAGAT
8960441 AAATAA
1 AAATAA
8960447 TAATAAATAT
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
20 14 0.20
21 31 0.44
22 21 0.30
23 4 0.06
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (21 bp):
AAATAAAAAATATTAATAGAT
Found at i:8960392 original size:42 final size:41
Alignment explanation
Indices: 8960341--8960455 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 41
8960331 AATCAAATAA
* * *
8960341 AAAATATTAATAGATAATTAAAAGA-AAATAATCAGATAAATG
1 AAAACATTAACAGATAAATAAAA-ATAAATAAT-AGATAAATG
*
8960383 AAAACATTAACAGATAAATAAAAATAAATAATAGATAAATT
1 AAAACATTAACAGATAAATAAAAATAAATAATAGATAAATG
* * * *
8960424 ATAATATATGAATAGATAAATAATAATAAATA
1 A-AA-ACATTAACAGATAAATAAAAATAAATA
8960456 TGTATATATA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 10 0.16
42 29 0.47
43 23 0.37
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (41 bp):
AAAACATTAACAGATAAATAAAAATAAATAATAGATAAATG
Found at i:8960411 original size:4 final size:4
Alignment explanation
Indices: 8960396--8960606 Score: 70
Period size: 4 Copynumber: 53.8 Consensus size: 4
8960386 ACATTAACAG
* * * *
8960396 ATAA AT-A A-AA ATAA AT-A ATAG ATAA ATTATA ATAT ATGA ATAG ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA
* * * * * * *
8960443 AT-A AT-A ATAA ATAT GTAT ATATA AT-A ATAT ATAA ATAG TTAA GTAACA
1 ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA AT-A-A
* * * *
8960491 ATAA ATAT ATAT AT-A TTAA CATAA ATAA ATAA ATAA ATATA TATTA ATAA
1 ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATA-A -ATAA ATAA
*
8960541 AT-A AT-A AT-A ATAA ATAA ATAA AT-A ATAA ATAC ATAA GAT-- ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA
* * * *
8960584 AGAA AAAA ATAT ATAA AAAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATA
8960607 TAAAAAAAAA
Statistics
Matches: 154, Mismatches: 34, Indels: 38
0.68 0.15 0.17
Matches are distributed among these distances:
2 2 0.01
3 29 0.19
4 102 0.66
5 15 0.10
6 6 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (4 bp):
ATAA
Found at i:8960437 original size:22 final size:21
Alignment explanation
Indices: 8960394--8960576 Score: 106
Period size: 22 Copynumber: 8.5 Consensus size: 21
8960384 AAACATTAAC
*
8960394 AGATAAATAAAAATAAATAAT
1 AGATAAATAATAATAAATAAT
* *
8960415 AGATAAATTATAATATATGAAT
1 AGATAAATAATAATAAAT-AAT
8960437 AGATAAATAATAATAAAT-AT
1 AGATAAATAATAATAAATAAT
* *
8960457 -GTATATATAATAATATATAAAT
1 AG-ATAAATAATAATAAAT-AAT
* * *
8960479 AGTTAAGTAACAATAAATATAT
1 AGATAAATAATAATAAATA-AT
* *
8960501 ATATATTAA-CATAAATAAATAAAT
1 AGATA--AATAAT-AATAAAT-AAT
* * *
8960525 AAATATATATTAATAAATAAT
1 AGATAAATAATAATAAATAAT
8960546 A-AT-AATAAATAAATAAATAAT
1 AGATAAAT-AAT-AATAAATAAT
* *
8960567 AAATACATAA
1 AGATAAATAA
8960577 GATATAAAGA
Statistics
Matches: 123, Mismatches: 24, Indels: 29
0.70 0.14 0.16
Matches are distributed among these distances:
19 3 0.02
20 20 0.16
21 31 0.25
22 49 0.40
23 5 0.04
24 14 0.11
25 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (21 bp):
AGATAAATAATAATAAATAAT
Found at i:8960494 original size:42 final size:42
Alignment explanation
Indices: 8960394--8960565 Score: 144
Period size: 42 Copynumber: 4.2 Consensus size: 42
8960384 AAACATTAAC
* * * * *
8960394 AGATAAATAAAAATAAATAATAGATAAATTATAATATATGAAT
1 AGATAAATAACAATAAAT-ATATATATATAATAATATATAAAT
* *
8960437 AGATAAATAATAATAAATATGTATATATAATAATATATAAAT
1 AGATAAATAACAATAAATATATATATATAATAATATATAAAT
* * *
8960479 AGTTAAGTAACAATAAATATATATATAT--T-A-ACATAAAT
1 AGATAAATAACAATAAATATATATATATAATAATATATAAAT
* * *
8960517 AAATAAAT-A-AATATATAT-TAATAAATAATAATA-ATAAAT
1 AGATAAATAACAATAAATATAT-ATATATAATAATATATAAAT
*
8960556 AAATAAATAA
1 AGATAAATAA
8960566 TAAATACATA
Statistics
Matches: 107, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
35 1 0.01
36 13 0.12
37 1 0.01
38 13 0.12
39 16 0.15
40 3 0.03
42 43 0.40
43 17 0.16
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (42 bp):
AGATAAATAACAATAAATATATATATATAATAATATATAAAT
Found at i:8960521 original size:28 final size:26
Alignment explanation
Indices: 8960490--8960582 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 26
8960480 GTTAAGTAAC
*
8960490 AATAAATATATATATATTAACATAAATA
1 AATAAATAAATATATATT-A-ATAAATA
8960518 AATAAATAAATATATATTAATAAAT-
1 AATAAATAAATATATATTAATAAATA
*
8960543 AATAATAATAAATA-A-ATAAAT-AATA
1 AAT-A-AATAAATATATATTAATAAATA
*
8960568 AATACATAAGATATA
1 AATAAATAA-ATATA
8960583 AAGAAAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
23 4 0.07
24 7 0.12
25 12 0.21
26 8 0.14
27 9 0.16
28 17 0.30
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (26 bp):
AATAAATAAATATATATTAATAAATA
Found at i:8960526 original size:32 final size:31
Alignment explanation
Indices: 8960490--8960576 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 31
8960480 GTTAAGTAAC
*
8960490 AATAAATATATATATATTAACAT-A-AATAAATA
1 AATAAATATATAT-TAATAA-ATAATAAT-AATA
8960522 AATAAATATATATTAATAAATAATAATAATA
1 AATAAATATATATTAATAAATAATAATAATA
8960553 AATAAATA-A-A-TAATAAATACATAA
1 AATAAATATATATTAATAAATA-ATAA
8960577 GATATAAAGA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
28 9 0.18
29 5 0.10
30 3 0.06
31 18 0.35
32 16 0.31
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (31 bp):
AATAAATATATATTAATAAATAATAATAATA
Found at i:8960583 original size:18 final size:16
Alignment explanation
Indices: 8960514--8960606 Score: 84
Period size: 15 Copynumber: 5.8 Consensus size: 16
8960504 TATTAACATA
8960514 AATAAATAAATAAATAT
1 AATAAATAAATAAA-AT
*
8960531 ATATTAATAAATAATAAT
1 A-ATAAATAAATAA-AAT
8960549 AATAAATAAAT-AAAT
1 AATAAATAAATAAAAT
* *
8960564 AATAAATACATAAGAT
1 AATAAATAAATAAAAT
*
8960580 -ATAAAGAAA-AAAAT
1 AATAAATAAATAAAAT
*
8960594 ATATAAAAAAATA
1 A-ATAAATAAATA
8960607 TAAAAAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
14 4 0.06
15 20 0.32
16 12 0.19
17 11 0.18
18 14 0.23
19 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAAATAAATAAAAT
Found at i:8960603 original size:12 final size:11
Alignment explanation
Indices: 8960586--8960624 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
8960576 AGATATAAAG
8960586 AAAAAAATATA
1 AAAAAAATATA
8960597 TAAAAAAATATA
1 -AAAAAAATATA
8960609 AAAAAAA-A-A
1 AAAAAAATATA
8960618 AAAAAAA
1 AAAAAAA
8960625 AAACAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.30
10 1 0.04
11 7 0.26
12 11 0.41
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAATATA
Found at i:8960618 original size:14 final size:14
Alignment explanation
Indices: 8960578--8960633 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
8960568 AATACATAAG
*
8960578 ATATAAAGAAAAAA
1 ATATAAAAAAAAAA
*
8960592 ATAT--ATAAAAAA
1 ATATAAAAAAAAAA
8960604 ATATAAAAAAAAAA
1 ATATAAAAAAAAAA
*
8960618 A-AAAAAAAAACAAA
1 ATATAAAAAAA-AAA
8960632 AT
1 AT
8960634 GGGCCTACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 11 0.31
13 8 0.23
14 16 0.46
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (14 bp):
ATATAAAAAAAAAA
Found at i:8960930 original size:27 final size:27
Alignment explanation
Indices: 8960863--8960991 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
8960853 CACCTAAACT
* * * *
8960863 CTAAACCTTAAACCCCATACCATAACC
1 CTAAATCTCAAACCCTAAACCATAACC
* * *
8960890 TTAAATCCCGAACCCTAAACCATAACC
1 CTAAATCTCAAACCCTAAACCATAACC
* *
8960917 CTAAATCTCAAACCTTAAACCCTAACC
1 CTAAATCTCAAACCCTAAACCATAACC
* *
8960944 CTAAATC-CAAAAACCCT-AACCTTGAATC
1 CTAAATCTC--AAACCCTAAACCAT-AACC
8960972 CTAAA-CTCTAAACCCTAAAC
1 CTAAATCTC-AAACCCTAAAC
8960992 TTGAATCCCA
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
26 1 0.01
27 62 0.77
28 18 0.22
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (27 bp):
CTAAATCTCAAACCCTAAACCATAACC
Found at i:8960957 original size:21 final size:20
Alignment explanation
Indices: 8960933--8960990 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
8960923 CTCAAACCTT
8960933 AAACCCTAACCCTAAATCCAA
1 AAACCCTAACCCTAAATCC-A
* * *
8960954 AAACCCTAACCTTGAATCCT
1 AAACCCTAACCCTAAATCCA
*
8960974 AAACTCTAAACCCTAAA
1 AAACCCT-AACCCTAAA
8960991 CTTGAATCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (20 bp):
AAACCCTAACCCTAAATCCA
Found at i:8961023 original size:7 final size:7
Alignment explanation
Indices: 8961008--8961085 Score: 90
Period size: 7 Copynumber: 11.6 Consensus size: 7
8960998 CCCAAACTTG
8961008 AACCCTA
1 AACCCTA
*
8961015 AACCATA
1 AACCCTA
* *
8961022 AAACGTA
1 AACCCTA
8961029 AACCC-A
1 AACCCTA
*
8961035 AACCTTA
1 AACCCTA
8961042 AACCCTA
1 AACCCTA
8961049 AA-CCTA
1 AACCCTA
8961055 AACCCTA
1 AACCCTA
8961062 AACCCT-
1 AACCCTA
8961068 AACCCTA
1 AACCCTA
*
8961075 AACCCCA
1 AACCCTA
8961082 AACC
1 AACC
8961086 AACCTTAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
6 17 0.28
7 43 0.72
ACGTcount: A:0.46, C:0.40, G:0.01, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:8961071 original size:13 final size:13
Alignment explanation
Indices: 8960885--8961085 Score: 79
Period size: 13 Copynumber: 14.9 Consensus size: 13
8960875 CCCCATACCA
*
8960885 TAACCTTAAATCCC
1 TAACCCTAAA-CCC
* *
8960899 GAACCCTAAACCA
1 TAACCCTAAACCC
*
8960912 TAACCCTAAATCTC
1 TAACCCTAAA-CCC
* *
8960926 AAACCTTAAACCC
1 TAACCCTAAACCC
*
8960939 TAACCCTAAATCCAA
1 TAACCCTAAA-CC-C
* *
8960954 AAACCCT-AACCT
1 TAACCCTAAACCC
* *
8960966 TGAATCCTAAACTC
1 T-AACCCTAAACCC
*
8960980 TAAACCCTAAA-CT
1 T-AACCCTAAACCC
*
8960993 TGAATCCC-AAA-CT
1 T-AA-CCCTAAACCC
*
8961006 TGAACCCTAAACCA
1 T-AACCCTAAACCC
* *
8961020 TAAAACGTAAACCC
1 T-AACCCTAAACCC
* *
8961034 AAACCTTAAACCC
1 TAACCCTAAACCC
*
8961047 TAAACCTAAACCC
1 TAACCCTAAACCC
8961060 TAAACCCT-AACCC
1 T-AACCCTAAACCC
*
8961073 TAAACCCCAAACC
1 T-AACCCTAAACC
8961086 AACCTTAAAC
Statistics
Matches: 141, Mismatches: 36, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
12 3 0.02
13 76 0.54
14 56 0.40
15 6 0.04
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.18
Consensus pattern (13 bp):
TAACCCTAAACCC
Found at i:8961079 original size:20 final size:20
Alignment explanation
Indices: 8960863--8961085 Score: 94
Period size: 20 Copynumber: 10.7 Consensus size: 20
8960853 CACCTAAACT
* *
8960863 CTAAACCTTAAACCCCATACC
1 CTAAACCCTAAACCCTA-ACC
* * *
8960884 AT-AACCTTAAATCCCGAACC
1 CTAAACCCTAAA-CCCTAACC
* **
8960904 CTAAACCAT-AACCCTAAAT
1 CTAAACCCTAAACCCTAACC
*
8960923 CTCAAACCTTAAACCCTAACC
1 CT-AAACCCTAAACCCTAACC
**
8960944 CTAAATCCAAAAACCCTAACC
1 CTAAA-CCCTAAACCCTAACC
* * * *
8960965 TTGAATCCTAAACTCTAAACC
1 CTAAACCCTAAACCCT-AACC
* *
8960986 CTAAACTTGAATCCCAAA-CTTGAACC
1 CTAAAC------CCTAAACCCT-AACC
* * *
8961012 CTAAACCATAAAACGTAAACC
1 CTAAACCCTAAACCCT-AACC
* *
8961033 C-AAACCTTAAACCCTAAAC
1 CTAAACCCTAAACCCTAACC
8961052 CTAAACCCTAAACCCTAACC
1 CTAAACCCTAAACCCTAACC
*
8961072 CTAAACCCCAAACC
1 CTAAACCCTAAACC
8961086 AACCTTAAAC
Statistics
Matches: 152, Mismatches: 36, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
19 11 0.07
20 75 0.49
21 50 0.33
26 11 0.07
27 5 0.03
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.18
Consensus pattern (20 bp):
CTAAACCCTAAACCCTAACC
Found at i:8961084 original size:27 final size:27
Alignment explanation
Indices: 8960885--8961085 Score: 132
Period size: 27 Copynumber: 7.7 Consensus size: 27
8960875 CCCCATACCA
* * *
8960885 TAACCTTAAATCCCGAACCCTAAACCA
1 TAACCCTAAATCCCAAACCCTAAACCC
* *
8960912 TAACCCTAAATCTCAAACCTTAAACCC
1 TAACCCTAAATCCCAAACCCTAAACCC
8960939 TAACCCTAAAT-CC-AA----AAACCC
1 TAACCCTAAATCCCAAACCCTAAACCC
* * * *
8960960 TAACCTTGAATCCTAAACTCTAAACCC
1 TAACCCTAAATCCCAAACCCTAAACCC
* * * * *
8960987 TAAACTTGAATCCCAAA-CTTGAACCC
1 TAACCCTAAATCCCAAACCCTAAACCC
* * ** *
8961013 TAAACCATAAAACGTAAACCC-AAACCT
1 T-AACCCTAAATCCCAAACCCTAAACCC
*
8961040 TAAACCCTAAA-CCTAAACCCTAAACCC
1 T-AACCCTAAATCCCAAACCCTAAACCC
*
8961067 TAACCCTAAACCCCAAACC
1 TAACCCTAAATCCCAAACC
8961086 AACCTTAAAC
Statistics
Matches: 137, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
21 15 0.11
22 1 0.01
23 2 0.01
25 2 0.01
26 25 0.18
27 91 0.66
28 1 0.01
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.18
Consensus pattern (27 bp):
TAACCCTAAATCCCAAACCCTAAACCC
Found at i:8961567 original size:51 final size:45
Alignment explanation
Indices: 8961468--8961578 Score: 116
Period size: 46 Copynumber: 2.3 Consensus size: 45
8961458 ACTTTGGTCC
*
8961468 AAAAAGAAATTAAAAA-AAGTTTTGGTTTAAATTTGATTTTTTTTCAA
1 AAAAAGAAA--AAAAATGAGTTTTGGTTTAAATTTGATTTTTTTTC-A
* *
8961515 AAAAAGAGAAAAAATGAGTTTTGTTTTAAATTTGATTTGTTTTAATTACA
1 AAAAAGAAAAAAAATGAGTTTTGGTTTAAATTTGA-TT-TTTT--TT-CA
8961565 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
8961579 GAAAGGGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 5 0.09
46 18 0.33
47 10 0.19
48 4 0.07
50 16 0.30
51 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.37
Consensus pattern (45 bp):
AAAAAGAAAAAAAATGAGTTTTGGTTTAAATTTGATTTTTTTTCA
Found at i:8969783 original size:6 final size:6
Alignment explanation
Indices: 8969772--8969819 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
8969762 TACAAGTCTA
* * * *
8969772 AATTAC AATTAC AATTAA ATATTAT AATTGC AATTAC AATTAT AATTA
1 AATTAC AATTAC AATTAC A-ATTAC AATTAC AATTAC AATTAC AATTA
8969820 AGTATTACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (6 bp):
AATTAC
Found at i:8971648 original size:7 final size:8
Alignment explanation
Indices: 8971629--8971654 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8971619 TTTTGGTAAT
8971629 TTTTTTAA
1 TTTTTTAA
8971637 TTTTTTAA
1 TTTTTTAA
8971645 TTTTTTAA
1 TTTTTTAA
8971653 TT
1 TT
8971655 ATTTCAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:8971820 original size:4 final size:4
Alignment explanation
Indices: 8971795--8971852 Score: 59
Period size: 4 Copynumber: 14.5 Consensus size: 4
8971785 AAGTGTAAAC
*
8971795 AATA ATTA AA-A AATA AAT- -ATA AATA AATA AATA AATA ATGATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A--ATA AATA
8971842 AATA TAATA AA
1 AATA -AATA AA
8971853 ATAATAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 2 0.04
3 3 0.07
4 33 0.72
5 4 0.09
6 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:8971826 original size:18 final size:17
Alignment explanation
Indices: 8971801--8971856 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
8971791 AAACAATAAT
8971801 TAAA-AAATAAATATAAA
1 TAAATAAATAAATA-AAA
*
8971818 TAAATAAATAAATAATGA
1 TAAATAAATAAATAA-AA
8971836 TAAATAAATATAATAAAA
1 TAAATAAATA-AATAAAA
8971854 TAA
1 TAA
8971857 TAATAATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATAAATAAATAAAA
Found at i:8971854 original size:14 final size:15
Alignment explanation
Indices: 8971805--8971856 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 15
8971795 AATAATTAAA
8971805 AAATAAATATAA-AT
1 AAATAAATATAATAT
8971819 AAATAAATAAATAATGAT
1 AAATAAAT--ATAAT-AT
8971837 AAATAAATATAATA-
1 AAATAAATATAATAT
8971851 AAATAA
1 AAATAA
8971857 TAATAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 14 0.41
15 1 0.03
16 9 0.26
18 10 0.29
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
AAATAAATATAATAT
Found at i:8971868 original size:24 final size:22
Alignment explanation
Indices: 8971795--8971862 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
8971785 AAGTGTAAAC
*
8971795 AATAATTAAA-AAATAA-ATATA
1 AATAAATAAATAAATAATA-ATA
*
8971816 AATAAATAAATAAATAATGATA
1 AATAAATAAATAAATAATAATA
8971838 AATAAATATAATAAAATAATAATA
1 AATAAATA-AAT-AAATAATAATA
8971862 A
1 A
8971863 TGAAATTTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 9 0.22
22 17 0.43
23 3 0.08
24 11 0.28
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (22 bp):
AATAAATAAATAAATAATAATA
Found at i:8972721 original size:3 final size:3
Alignment explanation
Indices: 8972707--8972747 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
8972697 TTTTTTAAAT
* * *
8972707 AAC AAA AAC AAC AAC AAT AAC AAC AAC AAC AAT AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
8972748 TAATAATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.71, C:0.24, G:0.00, T:0.05
Consensus pattern (3 bp):
AAC
Found at i:8972728 original size:9 final size:9
Alignment explanation
Indices: 8972704--8972750 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
8972694 TGGTTTTTTA
*
8972704 AATAACAAA
1 AATAACAAC
*
8972713 AACAACAAC
1 AATAACAAC
8972722 AATAACAAC
1 AATAACAAC
8972731 ---AACAAC
1 AATAACAAC
8972737 AATAACAAC
1 AATAACAAC
8972746 AATAA
1 AATAA
8972751 TAATAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
6 6 0.19
9 26 0.81
ACGTcount: A:0.70, C:0.21, G:0.00, T:0.09
Consensus pattern (9 bp):
AATAACAAC
Found at i:8972733 original size:15 final size:15
Alignment explanation
Indices: 8972713--8972747 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
8972703 AAATAACAAA
8972713 AACAACAACAATAAC
1 AACAACAACAATAAC
8972728 AACAACAACAATAAC
1 AACAACAACAATAAC
8972743 AACAA
1 AACAA
8972748 TAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.06
Consensus pattern (15 bp):
AACAACAACAATAAC
Found at i:8977649 original size:13 final size:13
Alignment explanation
Indices: 8977631--8977692 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 13
8977621 TTTAATATTT
8977631 AAAAAAATAATAA
1 AAAAAAATAATAA
*
8977644 AAAAAAATTATAA
1 AAAAAAATAATAA
* *
8977657 ATGATAAATAAATATA
1 A-AAAAAAT-AATA-A
8977673 AAAAAACATAATAA
1 AAAAAA-ATAATAA
8977687 TAAAAA
1 -AAAAA
8977693 TGAAAATCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
13 13 0.34
14 6 0.16
15 15 0.39
16 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (13 bp):
AAAAAAATAATAA
Found at i:8979934 original size:22 final size:22
Alignment explanation
Indices: 8979907--8979973 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 22
8979897 TTTTAATAGG
*
8979907 TTAATAGGTTAACTTTTTTTTC
1 TTAATAGGTTAAATTTTTTTTC
*
8979929 TTAATAGGTTAAAAGTTCTTATTTC
1 TTAATAGGTT-AAA-TT-TTTTTTC
*
8979954 TTAATAGATTAAATTTTTTT
1 TTAATAGGTTAAATTTTTTT
8979974 CACATTATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 14 0.37
23 4 0.11
24 5 0.13
25 15 0.39
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (22 bp):
TTAATAGGTTAAATTTTTTTTC
Found at i:8980998 original size:39 final size:39
Alignment explanation
Indices: 8980926--8981001 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
8980916 GAACAATATG
* * *
8980926 GTAAAATTTAATTCACCTCATTATGCTTTTCATGTGTAT
1 GTAAAATTTAATTCAACTCATTACGCTTCTCATGTGTAT
*
8980965 GTAAAATTTAATT-AACTACTTTACGCTTCTCATGTGT
1 GTAAAATTTAATTCAACT-CATTACGCTTCTCATGTGT
8981002 TATCATAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (39 bp):
GTAAAATTTAATTCAACTCATTACGCTTCTCATGTGTAT
Found at i:8981707 original size:13 final size:13
Alignment explanation
Indices: 8981689--8981715 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8981679 GGAATGCACA
8981689 CTAGTTGTTATAC
1 CTAGTTGTTATAC
8981702 CTAGTTGTTATAC
1 CTAGTTGTTATAC
8981715 C
1 C
8981716 AATAGCTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (13 bp):
CTAGTTGTTATAC
Found at i:8990923 original size:21 final size:20
Alignment explanation
Indices: 8990891--8990929 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8990881 AAATAAATTT
8990891 AAAAATTAAAATAAAATAAC
1 AAAAATTAAAATAAAATAAC
*
8990911 AAAAATTATAAATTAAATA
1 AAAAATTA-AAATAAAATA
8990930 TAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATTAAAATAAAATAAC
Found at i:8990941 original size:27 final size:27
Alignment explanation
Indices: 8990877--8990943 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
8990867 TATAATTACT
8990877 TTAAAAATAAATTTAAAAATTAAAATAAA
1 TTAAAAA-AAA-TTAAAAATTAAAATAAA
* * *
8990906 ATAACAAAAATTATAAATT-AAATATAA
1 TTAAAAAAAATTAAAAATTAAAATA-AA
8990933 TTAAAAAAAAT
1 TTAAAAAAAAT
8990944 AAGTACTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 5 0.16
27 19 0.59
28 3 0.09
29 5 0.16
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (27 bp):
TTAAAAAAAATTAAAAATTAAAATAAA
Found at i:8991908 original size:2 final size:2
Alignment explanation
Indices: 8991901--8991926 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8991891 TAGTAATTGC
8991901 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
8991927 TGGATATTTA
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:9010795 original size:13 final size:13
Alignment explanation
Indices: 9010777--9010802 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9010767 TTCGTGGTAG
9010777 AAAGAAAGAAAAT
1 AAAGAAAGAAAAT
9010790 AAAGAAAGAAAAT
1 AAAGAAAGAAAAT
9010803 TTGAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (13 bp):
AAAGAAAGAAAAT
Found at i:9011665 original size:142 final size:141
Alignment explanation
Indices: 9011421--9011682 Score: 382
Period size: 142 Copynumber: 1.9 Consensus size: 141
9011411 AGCAGGCTAT
*
9011421 GGTAATGATAGAAAGGCAAAAATCCTAAGGCAAAAGGTTCTCTCCACCAACAATCACAATCAGCT
1 GGTAATGACAGAAAGGCAAAAATCCTAAGGCAAAAGGTTCTCTCCACCAACAATCACAATCAGCT
* **
9011486 TCTCTTAGATTTCTTAAATAAGGTGAAAAGGTGGTAGAGAAAAGGTGAAATTTTTCAAGGTAATC
66 TCTCCTAGATTTCTTAAATAAGGTGAAAAGGCAGTAGAGAAAAGGTGAAATTTTTCAAGGTAATC
9011551 AAATAGGTTAA
131 AAATAGGTTAA
* * * *
9011562 GGTAATGACAGAAAAGGCAAAAA-CCTTAAGGCAAAAGGTTCTCTCCACCAGCAATCATAGTTAG
1 GGTAATGACAG-AAAGGCAAAAATCC-TAAGGCAAAAGGTTCTCTCCACCAACAATCACAATCAG
* * * * *
9011626 CTTCTCCTAGATTTTTTGAATAAGGTGAAAGGGCAGTAGAGCAAATGTGAAATTTTT
64 CTTCTCCTAGATTTCTTAAATAAGGTGAAAAGGCAGTAGAGAAAAGGTGAAATTTTT
9011683 ATAGAACTAG
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
141 12 0.11
142 94 0.89
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (141 bp):
GGTAATGACAGAAAGGCAAAAATCCTAAGGCAAAAGGTTCTCTCCACCAACAATCACAATCAGCT
TCTCCTAGATTTCTTAAATAAGGTGAAAAGGCAGTAGAGAAAAGGTGAAATTTTTCAAGGTAATC
AAATAGGTTAA
Found at i:9015948 original size:6 final size:6
Alignment explanation
Indices: 9015937--9015961 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9015927 CATATACAGT
9015937 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
9015962 TTTTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:9019896 original size:3 final size:3
Alignment explanation
Indices: 9019888--9019913 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9019878 CTTGGCTATA
9019888 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
9019914 AGCGACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9020947 original size:15 final size:15
Alignment explanation
Indices: 9020914--9020947 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9020904 ATTATAAGTT
*
9020914 AAAAGAATTTTTTCA
1 AAAAGAATTTTTTAA
*
9020929 AAAATAATTTTTTAA
1 AAAAGAATTTTTTAA
9020944 AAAA
1 AAAA
9020948 CGAAGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
AAAAGAATTTTTTAA
Found at i:9024268 original size:19 final size:20
Alignment explanation
Indices: 9024240--9024279 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9024230 TTAAAATAAC
*
9024240 AAATTATA-TTATTAAATAT
1 AAATTATATTTACTAAATAT
*
9024259 AAATTTTATTTACTAAATAT
1 AAATTATATTTACTAAATAT
9024279 A
1 A
9024280 TATATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTATATTTACTAAATAT
Found at i:9025669 original size:2 final size:2
Alignment explanation
Indices: 9025664--9025690 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9025654 AAGAGGTTGT
9025664 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9025691 TTACAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9027123 original size:30 final size:30
Alignment explanation
Indices: 9027069--9027153 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
9027059 ATTTACTTGT
*
9027069 ATAAATTCTTATACTCTTATAATTTGCATCAAA
1 ATAAATTCTTA-AC-CTT-TAATTTACATCAAA
* * *
9027102 ATAAGTTCTTAACCTTTAATTTATATCTAA
1 ATAAATTCTTAACCTTTAATTTACATCAAA
**
9027132 ATAAACCCTTAACCTTTAATTT
1 ATAAATTCTTAACCTTTAATTT
9027154 TTATTTAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 30 0.67
31 3 0.07
32 2 0.04
33 10 0.22
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (30 bp):
ATAAATTCTTAACCTTTAATTTACATCAAA
Found at i:9027163 original size:30 final size:30
Alignment explanation
Indices: 9027109--9027165 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
9027099 AAAATAAGTT
9027109 CTTAACCTTTAATTTATATCTAAATAAACC
1 CTTAACCTTTAATTTATATCTAAATAAACC
* *
9027139 CTTAACCTTTAATTTTTATTTAAATAA
1 CTTAACCTTTAATTTATATCTAAATAA
9027166 TTAATTCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.46
Consensus pattern (30 bp):
CTTAACCTTTAATTTATATCTAAATAAACC
Found at i:9029091 original size:8 final size:8
Alignment explanation
Indices: 9029078--9029174 Score: 58
Period size: 8 Copynumber: 11.9 Consensus size: 8
9029068 CAGATTGGCC
9029078 TATTTTTT
1 TATTTTTT
9029086 TA-TTTTT
1 TATTTTTT
* *
9029093 CAGTATTATT
1 TA-T-TTTTT
9029103 TATTTATTT
1 TATTT-TTT
9029112 TATTTTTAT
1 TATTTTT-T
9029121 T-TTTATTT
1 TATTT-TTT
*
9029129 TATTTATT
1 TATTTTTT
9029137 TATTTATTT
1 TATTT-TTT
*
9029146 TA-TTATT
1 TATTTTTT
*
9029153 TA-TTTAT
1 TATTTTTT
*
9029160 TATTTATT
1 TATTTTTT
9029168 TATTTTT
1 TATTTTT
9029175 ATTGTTTTAG
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
7 15 0.22
8 29 0.43
9 19 0.28
10 5 0.07
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (8 bp):
TATTTTTT
Found at i:9029107 original size:4 final size:4
Alignment explanation
Indices: 9029098--9029172 Score: 84
Period size: 4 Copynumber: 18.5 Consensus size: 4
9029088 TTTTTCAGTA
*
9029098 TTAT TTAT TTATT TTAT TT-T TATTT TTATT TTAT TTAT TTAT TTAT TT-T
1 TTAT TTAT TTA-T TTAT TTAT T-TAT TTA-T TTAT TTAT TTAT TTAT TTAT
9029147 ATTAT TTAT TTA- TTAT TTAT TTAT TT
1 -TTAT TTAT TTAT TTAT TTAT TTAT TT
9029173 TTATTGTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
3 6 0.10
4 46 0.73
5 11 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:9029119 original size:11 final size:12
Alignment explanation
Indices: 9029102--9029177 Score: 85
Period size: 11 Copynumber: 6.8 Consensus size: 12
9029092 TCAGTATTAT
9029102 TTATTTATTTTA
1 TTATTTATTTTA
9029114 TT-TTTA-TTT-
1 TTATTTATTTTA
9029123 TTATTT-TATTTA
1 TTATTTAT-TTTA
9029135 TTTATTTATTTTA
1 -TTATTTATTTTA
9029148 TTATTTA-TTTA
1 TTATTTATTTTA
9029159 TTATTTA-TTTA
1 TTATTTATTTTA
9029170 TT-TTTATT
1 TTATTTATT
9029178 GTTTTAGTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.04
10 10 0.18
11 25 0.44
12 9 0.16
13 10 0.18
14 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:9029125 original size:17 final size:17
Alignment explanation
Indices: 9029105--9029177 Score: 82
Period size: 17 Copynumber: 4.4 Consensus size: 17
9029095 GTATTATTTA
9029105 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
*
9029122 TTTATTTTATTTATT-TA
1 TTTATTTTATTT-TTATT
9029139 TTTATTTTATTATTTATT
1 TTTATTTTATT-TTTATT
9029157 TATTA-TTTA--TTTATT
1 T-TTATTTTATTTTTATT
9029172 TTTATT
1 TTTATT
9029178 GTTTTAGTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
14 3 0.06
15 8 0.16
17 26 0.53
18 9 0.18
19 3 0.06
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:9031655 original size:15 final size:16
Alignment explanation
Indices: 9031621--9031662 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
9031611 TTTCAATAGA
9031621 TTTCTCTTCCCCCCTC
1 TTTCTCTTCCCCCCTC
* *
9031637 TTTCTCTT-CTCCCTT
1 TTTCTCTTCCCCCCTC
9031652 TTTCTC-TCCCC
1 TTTCTCTTCCCC
9031663 TTTCTTTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 8 0.36
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTCTCTTCCCCCCTC
Found at i:9032147 original size:15 final size:15
Alignment explanation
Indices: 9032116--9032158 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
9032106 AGGAAACCAA
9032116 GAAAATAAATAAAAAAT
1 GAAAAT-AAT-AAAAAT
9032133 GAAAATAATAAAAAT
1 GAAAATAATAAAAAT
*
9032148 AAAAATAATAA
1 GAAAATAATAA
9032159 GAATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 16 0.64
16 3 0.12
17 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
GAAAATAATAAAAAT
Found at i:9032163 original size:15 final size:14
Alignment explanation
Indices: 9032122--9032179 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
9032112 CCAAGAAAAT
*
9032122 AAATAA-AAAATGA
1 AAATAATAAAATAA
9032135 AAATAATAAAAATAA
1 AAATAAT-AAAATAA
9032150 AAATAATAAGAATAA
1 AAATAATAA-AATAA
9032165 ATAA-AATAAAATAA
1 A-AATAATAAAATAA
9032179 A
1 A
9032180 TAAATTGGGC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
13 6 0.15
14 8 0.20
15 24 0.60
16 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AAATAATAAAATAA
Found at i:9032181 original size:24 final size:22
Alignment explanation
Indices: 9032118--9032183 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 22
9032108 GAAACCAAGA
9032118 AAAT-AAATAAA-AAATGAAAAT
1 AAATAAAATAAATAAAT-AAAAT
*
9032139 -AATAAAAATAAAAATAATAAGAAT
1 AAAT-AAAATAAATA-AATAA-AAT
9032163 AAATAAAATAAAATAAATAAA
1 AAATAAAAT-AAATAAATAAA
9032184 TTGGGCAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
20 3 0.08
22 7 0.19
23 4 0.11
24 16 0.43
25 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (22 bp):
AAATAAAATAAATAAATAAAAT
Found at i:9034787 original size:14 final size:13
Alignment explanation
Indices: 9034746--9034797 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
9034736 TTGTTATACA
* *
9034746 TAAAATTAATACT
1 TAAAATTAAAAGT
* *
9034759 AAAAATTAAATGT
1 TAAAATTAAAAGT
9034772 TAAAATTGAAAAGT
1 TAAAATT-AAAAGT
9034786 TAAAAATTAAAA
1 T-AAAATTAAAA
9034798 CCAAACTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 15 0.48
14 10 0.32
15 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (13 bp):
TAAAATTAAAAGT
Found at i:9035370 original size:16 final size:15
Alignment explanation
Indices: 9035337--9035373 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
9035327 CTCTTAAATC
9035337 ATTTAA-TTTTATAT
1 ATTTAATTTTTATAT
9035351 -TTTAATTTTTATAT
1 ATTTAATTTTTATAT
9035365 AATTTAATT
1 -ATTTAATT
9035374 CTATTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
16 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTAATTTTTATAT
Found at i:9040349 original size:14 final size:14
Alignment explanation
Indices: 9040330--9040356 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9040320 ATGTGCTGAA
9040330 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
9040344 ATTTTTATTTTTT
1 ATTTTTATTTTTT
9040357 GAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:9040669 original size:13 final size:13
Alignment explanation
Indices: 9040635--9040669 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
9040625 TTTTGAGATT
9040635 TTGTTTTGTTTTG
1 TTGTTTTGTTTTG
9040648 TT-TTATTGTTTTG
1 TTGTT-TTGTTTTG
9040661 TTGTTTTGT
1 TTGTTTTGT
9040670 ATTCTTACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (13 bp):
TTGTTTTGTTTTG
Found at i:9040672 original size:18 final size:18
Alignment explanation
Indices: 9040635--9040672 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9040625 TTTTGAGATT
*
9040635 TTGTTTTGTTTTGTTTTA
1 TTGTTTTGTTTTGTTGTA
9040653 TTGTTTTGTTGTT-TTGTA
1 TTGTTTTGTT-TTGTTGTA
9040671 TT
1 TT
9040673 CTTACAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.05, C:0.00, G:0.18, T:0.76
Consensus pattern (18 bp):
TTGTTTTGTTTTGTTGTA
Found at i:9057331 original size:212 final size:212
Alignment explanation
Indices: 9056950--9057373 Score: 706
Period size: 212 Copynumber: 2.0 Consensus size: 212
9056940 TGCTAGTTTT
* * *
9056950 GCCATCTCCACATTCAGACCAGCATCTTCTTGGTGAAACATTCGGATCTCAGAGGCATCTCTACC
1 GCCATCTCCAAATTCAGACCAGCATCTTCCTGGTGAAACATTAGGATCTCAGAGGCATCTCTACC
* *
9057015 AGGCACTGTACATAATAACATTCACAATCATAAGCAATCAGGTAAGAATGAACAAAACTTGAAGA
66 AGGCACTGTACATAATAACATTCACAATCACAAGCAATCACGTAAGAATGAACAAAACTTGAAGA
* *
9057080 ATACGGGTTACAAGATCCCTTATTCCCTTTTAATCCCCTCTCAAGAAACATTAATATTTTCTATG
131 ATACAGGTTACAAGATCCCTTATTCCCCTTTAATCCCCTCTCAAGAAACATTAATATTTTCTATG
9057145 CCTTAAGCTCTAGTAGA
196 CCTTAAGCTCTAGTAGA
*
9057162 GCCATTTCCAAATTCAGACCAGCATCTTCCTGGTGAAACATTAGGATCTCAGAGGCATCTCTACC
1 GCCATCTCCAAATTCAGACCAGCATCTTCCTGGTGAAACATTAGGATCTCAGAGGCATCTCTACC
* * *
9057227 AGGTACTGTACATAATAACATTCAGAATCACAA-CTAATCTCGTAAGAATGAACAAAACTTGAAG
66 AGGCACTGTACATAATAACATTCACAATCACAAGC-AATCACGTAAGAATGAACAAAACTTGAAG
* * *
9057291 AATACAGGTTACAAGATCCCTTATTCCCCTTTATTCCCCTCTTAAGAACCATTAATATTTTCTAT
130 AATACAGGTTACAAGATCCCTTATTCCCCTTTAATCCCCTCTCAAGAAACATTAATATTTTCTAT
9057356 GCCTTAAGCTCTAGTAGA
195 GCCTTAAGCTCTAGTAGA
9057374 ACAAAATTTG
Statistics
Matches: 197, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
211 1 0.01
212 196 0.99
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (212 bp):
GCCATCTCCAAATTCAGACCAGCATCTTCCTGGTGAAACATTAGGATCTCAGAGGCATCTCTACC
AGGCACTGTACATAATAACATTCACAATCACAAGCAATCACGTAAGAATGAACAAAACTTGAAGA
ATACAGGTTACAAGATCCCTTATTCCCCTTTAATCCCCTCTCAAGAAACATTAATATTTTCTATG
CCTTAAGCTCTAGTAGA
Found at i:9060555 original size:14 final size:16
Alignment explanation
Indices: 9060531--9060562 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9060521 ATTTAATTTA
9060531 ATTTAAAATTC-AATC
1 ATTTAAAATTCTAATC
9060546 ATTT-AAATTCTAATC
1 ATTTAAAATTCTAATC
9060561 AT
1 AT
9060563 CCCTATCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAAATTCTAATC
Found at i:9062607 original size:2 final size:2
Alignment explanation
Indices: 9062600--9062630 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9062590 TGAGTCAGAA
*
9062600 CT CT CT CT CT CT AT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9062631 CATACACCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9062876 original size:12 final size:13
Alignment explanation
Indices: 9062860--9062892 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9062850 AAGTACAAGA
9062860 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
*
9062873 -AAAGAACGAAAG
1 AAAAGAAAGAAAG
9062885 AAAAGAAA
1 AAAAGAAA
9062893 ACTAATGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:9066396 original size:81 final size:81
Alignment explanation
Indices: 9066290--9066454 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 81
9066280 ACACAATCAG
*
9066290 TCAATTCAGTCTGCGTATACTAATCTAATTCATGAAGC-AACATAGCAAACAGCTTTTTAGGAA-
1 TCAATTCAGTCTGCGTATAATAATCTAATTCATGAAGCAAACATAGCAAACAGCTTTTTA-GAAC
*
9066353 AGCATAACCATTTGACAC
65 AGCATAA-AATTTGACAC
9066371 TCAATTCAGTCTGTC-TATAATAATCTAATTCATGAAGCATAACATAGCAAACAGCTTTTTAGAA
1 TCAATTCAGTCTG-CGTATAATAATCTAATTCATGAAGCA-AACATAGCAAACAGCTTTTTAGAA
9066435 CAGCATAAAATTTGACAC
64 CAGCATAAAATTTGACAC
9066453 TC
1 TC
9066455 TATTTACAAG
Statistics
Matches: 78, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
81 35 0.45
82 15 0.19
83 28 0.36
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (81 bp):
TCAATTCAGTCTGCGTATAATAATCTAATTCATGAAGCAAACATAGCAAACAGCTTTTTAGAACA
GCATAAAATTTGACAC
Found at i:9070337 original size:63 final size:62
Alignment explanation
Indices: 9070161--9071036 Score: 335
Period size: 63 Copynumber: 13.9 Consensus size: 62
9070151 AAAGCAACGT
* * *** * * **
9070161 AATAATTGATTATTTAAAAAAATTACAA-TGATCAATTATTACATTATCAAATAAA-ATAATGT
1 AATAATTGATTATTTTAAAAAATTA-AATTTATCAATTATTGTGTTATAAAACAAAGA-AATAC
* * * *
9070223 AATAATTGATCA-TTAAATTAAAATTACAA-TTATCAATTTATAT-T-TTATAAAACAAAGCAAC
1 AATAATTGATTATTTTAA--AAAATTA-AATTTATCAA-TTAT-TGTGTTATAAAACAAAGAAAT
9070284 AC
61 AC
* * * *
9070286 AATATTTAATTATTTTAAAATAATTATATTTATCAATTATTGTAGTT-TAAAACAAATAAATAC
1 AATAATTGATTATTTTAAAA-AATTAAATTTATCAATTATTGT-GTTATAAAACAAAGAAATAC
** * * * * *
9070349 AATAATTGATTATTTGTTTAAAATTAAAATTATCAAGTATTGTGTTATAAAACTAAGTAATAT
1 AATAATTGATTATTT-TAAAAAATTAAATTTATCAATTATTGTGTTATAAAACAAAGAAATAC
* * * ** * * *
9070412 AGTAATTGATTGTTTTAAAACAATTAAATTTATCAATTGTTACGTTTTAAAATTAAAAAAAATAC
1 AATAATTGATTATTTTAAAA-AATTAAATTTATCAATTATTGTGTTATAAAA--CAAAGAAATAC
* * * * * * ** * * *
9070477 AATAATTAATCATTTGATTAAAATTATAA-TTATTAATTACTG-CATATAATACAAAGCAATGC
1 AATAATTGATTATTTTA-AAAAATTA-AATTTATCAATTATTGTGTTATAAAACAAAGAAATAC
* * * * ** * * * *
9070539 AACATTTGATTATTTTAAAATAATCACATTTATCAATTATTACGTTTTGAAATAAAGAAATGC
1 AATAATTGATTATTTTAAAA-AATTAAATTTATCAATTATTGTGTTATAAAACAAAGAAATAC
* * ** * * *
9070602 AATAATTGATCATTTGCT-TAAAATTACAA-TTATCAATTATTACGTTTTAAAATAAAGAAATGC
1 AATAATTGATTATTT--TAAAAAATTA-AATTTATCAATTATTGTGTTATAAAACAAAGAAATAC
* * * * *** * * * *
9070665 AATAATTGATCATTTGATTAAAATTACAA-TTATCAATTACTACATTATAATATAAAGCAACAC
1 AATAATTGATTATTTTA-AAAAATTA-AATTTATCAATTATTGTGTTATAAAACAAAGAAATAC
** * * ** * * * **
9070728 AGCATTTGATTATTTTGAAACAATTGCATTTATCAATTATTGTGTTTTAAAATAAAAAAATGT
1 AATAATTGATTATTTT-AAAAAATTAAATTTATCAATTATTGTGTTATAAAACAAAGAAATAC
* * * ** * *
9070791 AATAATTGA-TAATTTAATTGAAATTAAAATTATCAATTATTACGTTATAAAACCAAA-CAATGC
1 AATAATTGATTATTTTAA--AAAATTAAATTTATCAATTATTGTGTTATAAAA-CAAAGAAATAC
* * * * ** * * *
9070854 AATTATTGACTATTTTAAAATAATTACATTTACCAATTA-TGCATTTTAAAACAAAAAAAAAAC
1 AATAATTGATTATTTTAAAA-AATTAAATTTATCAATTATTGTGTTATAAAAC-AAAGAAATAC
* * * * * * ** * * *
9070917 AGTAATTGATCATTTGATTAAAACT-AATATTATTAATTATTGCATTATAAAACCAAGCAACAC
1 AATAATTGATTATTTTA-AAAAATTAAAT-TTATCAATTATTGTGTTATAAAACAAAGAAATAC
* * * ** *
9070980 AATAATTGATTGTTTTAAAATAATTATATTTATTAATTATTACGATATAAAACAAAG
1 AATAATTGATTATTTTAAAA-AATTAAATTTATCAATTATTGTGTTATAAAACAAAG
9071037 GAATGCAACA
Statistics
Matches: 607, Mismatches: 167, Indels: 79
0.71 0.20 0.09
Matches are distributed among these distances:
61 12 0.02
62 81 0.13
63 428 0.71
64 48 0.08
65 34 0.06
66 4 0.01
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (62 bp):
AATAATTGATTATTTTAAAAAATTAAATTTATCAATTATTGTGTTATAAAACAAAGAAATAC
Found at i:9070450 original size:31 final size:31
Alignment explanation
Indices: 9070298--9070463 Score: 85
Period size: 32 Copynumber: 5.3 Consensus size: 31
9070288 TATTTAATTA
* *
9070298 TTTTAAAATAATTATATTTATCAATT-ATTG
1 TTTTAAAACAATTAAATTTATCAATTGATTG
* ** *
9070328 TAGTTTAAAACAAATAAATACAAT-AATTGATTA
1 T--TTTAAAACAATTAAAT-TTATCAATTGATTG
** * *
9070361 TTTGTTTAA-AATTAAAATTATCAAGT-ATTG
1 TTT-TAAAACAATTAAATTTATCAATTGATTG
* *
9070391 TGTTATAAAACTAAGT-AATATAGT-AATTGATTG
1 T-TT-TAAAAC-AATTAAATTTA-TCAATTGATTG
9070424 TTTTAAAACAATTAAATTTATCAATTG-TTACG
1 TTTTAAAACAATTAAATTTATCAATTGATT--G
9070456 TTTTAAAA
1 TTTTAAAA
9070464 TTAAAAAAAA
Statistics
Matches: 98, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
30 13 0.13
31 32 0.33
32 38 0.39
33 15 0.15
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (31 bp):
TTTTAAAACAATTAAATTTATCAATTGATTG
Found at i:9070667 original size:29 final size:29
Alignment explanation
Indices: 9070572--9070667 Score: 70
Period size: 29 Copynumber: 3.1 Consensus size: 29
9070562 TCACATTTAT
*
9070572 CAATTATTACGTTTTGAAATAAAGAAATG
1 CAATTATTACGTTTTAAAATAAAGAAATG
* * **
9070601 CAATAATTGATCATTTGCTTAAAATTACAA-TTAT-
1 CAATTATT-A-C-GTT--TTAAAA-TA-AAGAAATG
9070635 CAATTATTACGTTTTAAAATAAAGAAATG
1 CAATTATTACGTTTTAAAATAAAGAAATG
9070664 CAAT
1 CAAT
9070668 AATTGATCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 18
0.64 0.12 0.24
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 17 0.35
30 1 0.02
31 3 0.06
32 3 0.06
33 1 0.02
34 12 0.24
35 4 0.08
36 2 0.04
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (29 bp):
CAATTATTACGTTTTAAAATAAAGAAATG
Found at i:9070701 original size:126 final size:126
Alignment explanation
Indices: 9070117--9070842 Score: 506
Period size: 126 Copynumber: 5.8 Consensus size: 126
9070107 AATAATGACA
* * * * * * *
9070117 AAAATTATAAATATTAATTATTACATTATAAAATAAAGCAACGTAATAATTGATTA-TTTAAAAA
1 AAAATTACAATTATCAATTATTACGTTATAAAATAAAGCAATGCAATAATTGATTATTTTAAAAT
* * * * ** **
9070181 AATTACAATGATCAATTATTACATTATCAAATAAA-ATAATGTAATAATTGATCATTAAATT
66 AATTACAATTATCAATTATTACGTTTTAAAATAAAGA-AATACAATAATTGATCATTTGATT
** * ** * *
9070242 AAAATTACAATTATCAATT-TATATTTTATAAAACAAAGCAACACAATATTTAATTATTTTAAAA
1 AAAATTACAATTATCAATTAT-TACGTTATAAAATAAAGCAATGCAATAATTGATTATTTTAAAA
* * * * * *
9070306 TAATTATATTTATCAATTATT--GTAGTTTAAAACAAATAAATACAATAATTGATTATTTGTTT
65 TAATTACAATTATCAATTATTACGT--TTTAAAATAAAGAAATACAATAATTGATCATTTGATT
* * ** * ** * *
9070368 AAAATTAAAATTATCAAGTATTGTGTTATAAAACT-AAGTAATATAGTAATTGATTGTTTTAAAA
1 AAAATTACAATTATCAATTATTACGTTATAAAA-TAAAGCAATGCAATAATTGATTATTTTAAAA
* * * *
9070432 CAATTA-AATTTATCAATTGTTACGTTTTAAAATTAAAAAAAATACAATAATTAATCATTTGATT
65 TAATTACAA-TTATCAATTATTACGTTTTAAAA-T-AAAGAAATACAATAATTGATCATTTGATT
* * * * * * * * *
9070496 AAAATTATAATTATTAATTACTGC-ATATAATACAAAGCAATGCAACATTTGATTATTTTAAAAT
1 AAAATTACAATTATCAATTATTACGTTATAAAATAAAGCAATGCAATAATTGATTATTTTAAAAT
* * * * *
9070560 AATCACATTTATCAATTATTACGTTTTGAAATAAAGAAATGCAATAATTGATCATTTGCTT
66 AATTACAATTATCAATTATTACGTTTTAAAATAAAGAAATACAATAATTGATCATTTGATT
* * * * *
9070621 AAAATTACAATTATCAATTATTACGTTTTAAAATAAAGAAATGCAATAATTGATCATTTGATTAA
1 AAAATTACAATTATCAATTATTACGTTATAAAATAAAGCAATGCAATAATTGATTATTTTA-AAA
* * * * * * ** * *
9070686 -AATTACAATTATCAATTACTACATTATAATATAAAGCAACACAGCATTTGATTATTTTGA--
65 TAATTACAATTATCAATTATTACGTTTTAAAATAAAGAAATACAATAATTGATCA-TTTGATT
* * ** * ** * * *
9070746 AACAATTGCATTTATCAATTATTGTGTTTTAAAATAAAAAAATGTAATAATTGA-TAATTT-AAT
1 AA-AATTACAATTATCAATTATTACGTTATAAAATAAAGCAATGCAATAATTGATTATTTTAAAA
* *
9070809 TGAAATTAAAATTATCAATTATTACGTTATAAAA
65 T--AATTACAATTATCAATTATTACGTTTTAAAA
9070843 CCAAACAATG
Statistics
Matches: 468, Mismatches: 112, Indels: 41
0.75 0.18 0.07
Matches are distributed among these distances:
123 1 0.00
124 2 0.00
125 95 0.20
126 262 0.56
127 61 0.13
128 47 0.10
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (126 bp):
AAAATTACAATTATCAATTATTACGTTATAAAATAAAGCAATGCAATAATTGATTATTTTAAAAT
AATTACAATTATCAATTATTACGTTTTAAAATAAAGAAATACAATAATTGATCATTTGATT
Found at i:9070763 original size:189 final size:189
Alignment explanation
Indices: 9070433--9070842 Score: 545
Period size: 189 Copynumber: 2.2 Consensus size: 189
9070423 GTTTTAAAAC
*
9070433 AATTAAATTTATCAATTGTTACGTTTTAAAATTAAAAAAAATACAATAATTAATCATTTGATTAA
1 AATTAAA-TTATCAATTATTACGTTTTAAAATTAAAAAAAATACAATAATTAATCATTTGATTAA
* * * ** *
9070498 AATTATAATTATTAATTACTGCATATAATACAAAGCAATGCAACATTTGATTATTTTAAAATAAT
65 AATTACAATTATCAATTACTACATATAATACAAAGCAACACAACATTTGATTATTTTAAAACAAT
* * * **
9070563 CACATTTATCAATTATTACGTTTTGAAATAAAGAAATGCAATAATTGATCATTTGCTTAA
130 CACATTTATCAATTATTACGTTTTAAAATAAAAAAATGCAATAATTGATAATTTAATTAA
* * *
9070623 AATTACAATTATCAATTATTACGTTTTAAAA-T-AAAGAAATGCAATAATTGATCATTTGATTAA
1 AATTA-AATTATCAATTATTACGTTTTAAAATTAAAAAAAATACAATAATTAATCATTTGATTAA
* * *
9070686 AATTACAATTATCAATTACTACATTATAATATAAAGCAACACAGCATTTGATTATTTTGAAACAA
65 AATTACAATTATCAATTACTACA-TATAATACAAAGCAACACAACATTTGATTATTTTAAAACAA
** ** * *
9070751 TTGCATTTATCAATTATTGTGTTTTAAAATAAAAAAATGTAATAATTGATAATTTAATTGA
129 TCACATTTATCAATTATTACGTTTTAAAATAAAAAAATGCAATAATTGATAATTTAATTAA
*
9070812 AATTAAAATTATCAATTATTACGTTATAAAA
1 AATT-AAATTATCAATTATTACGTTTTAAAA
9070843 CCAAACAATG
Statistics
Matches: 192, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
188 48 0.25
189 114 0.59
190 28 0.15
191 2 0.01
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (189 bp):
AATTAAATTATCAATTATTACGTTTTAAAATTAAAAAAAATACAATAATTAATCATTTGATTAAA
ATTACAATTATCAATTACTACATATAATACAAAGCAACACAACATTTGATTATTTTAAAACAATC
ACATTTATCAATTATTACGTTTTAAAATAAAAAAATGCAATAATTGATAATTTAATTAA
Found at i:9070868 original size:126 final size:127
Alignment explanation
Indices: 9070623--9071020 Score: 387
Period size: 126 Copynumber: 3.2 Consensus size: 127
9070613 ATTTGCTTAA
* * * *
9070623 AATTACAATTATCAATTATTACGTTTTAAAATAAAGAAATGCAATAATTGATCATTTGATTAAAA
1 AATTACATTTATCAATTATTGCGTTTTAAAATAAAAAAATGAAATAATTGATCATTTGATTAAAA
* * * * * *
9070688 TTACAATTATCAATTACTACATTATAATA-TAAAGCAACACAGCATTTGATTATTTTGAAAC
66 TTAAAATTATCAATTATTACATTATAAAACCAAAGCAACACAGCATTTGACTATTTTAAAAC
* * * * * *
9070749 AATTGCATTTATCAATTATTGTGTTTTAAAATAAAAAAATGTAATAATTGATAATTTAATTGAAA
1 AATTACATTTATCAATTATTGCGTTTTAAAATAAAAAAATGAAATAATTGATCATTTGATTAAAA
* ** *
9070814 TTAAAATTATCAATTATTACGTTATAAAACCAAA-CAATGCA--ATTATTGACTATTTTAAAAT
66 TTAAAATTATCAATTATTACATTATAAAACCAAAGCAACACAGCA-T-TTGACTATTTTAAAAC
* * * *
9070875 AATTACATTTACCAATTA-TGCATTTTAAAACAAAAAAA-AAACAGTAATTGATCATTTGATTAA
1 AATTACATTTATCAATTATTGCGTTTTAAAATAAAAAAATGAA-A-TAATTGATCATTTGATTAA
* * * * ** * * * *
9070938 AACTAATATTATTAATTATTGCATTATAAAACC-AAGCAACACAATAATTGATTGTTTTAAAAT
64 AATTAAAATTATCAATTATTACATTATAAAACCAAAGCAACACAGCATTTGACTATTTTAAAAC
* *
9071001 AATTATATTTATTAATTATT
1 AATTACATTTATCAATTATT
9071021 ACGATATAAA
Statistics
Matches: 221, Mismatches: 42, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
124 2 0.01
125 21 0.10
126 193 0.87
127 4 0.02
128 1 0.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (127 bp):
AATTACATTTATCAATTATTGCGTTTTAAAATAAAAAAATGAAATAATTGATCATTTGATTAAAA
TTAAAATTATCAATTATTACATTATAAAACCAAAGCAACACAGCATTTGACTATTTTAAAAC
Found at i:9070881 original size:189 final size:188
Alignment explanation
Indices: 9070433--9070892 Score: 512
Period size: 189 Copynumber: 2.4 Consensus size: 188
9070423 GTTTTAAAAC
* * * * * * * *
9070433 AATTAAATTTATCAATTGTTACGTTTTAAAATTAAAAAAAATACAATAATTAATCATTTGATTAA
1 AATTAAAATTATCAATTATTACGTTATAAAA--CAAAGAAATGCAATAATTGATCATTTGATAAA
* * * ** *
9070498 AATTATAATTATTAATTACTGCATATAATACAAAGCAATGCAACATTTGATTATTTTAAAATAAT
64 AATTACAATTATCAATTACTACATATAATACAAAGCAACACAACATTTGATTATTTTAAAACAAT
* * * **
9070563 CACATTTATCAATTATTACGTTTTGAAATAAAGAAATGCAATAATTGATCATTTGCTTAA
129 CACATTTATCAATTATTACGTTTTAAAATAAAAAAATGCAATAATTGATAATTTAATTAA
* * * *
9070623 AATTACAATTATCAATTATTACGTTTTAAAATAAAGAAATGCAATAATTGATCATTTGATTAAAA
1 AATTAAAATTATCAATTATTACGTTATAAAACAAAGAAATGCAATAATTGATCATTTGATAAAAA
* * * *
9070688 TTACAATTATCAATTACTACATTATAATATAAAGCAACACAGCATTTGATTATTTTGAAACAATT
66 TTACAATTATCAATTACTACA-TATAATACAAAGCAACACAACATTTGATTATTTTAAAACAATC
* ** * *
9070753 GCATTTATCAATTATTGTGTTTTAAAATAAAAAAATGTAATAATTGATAATTTAATTGA
130 ACATTTATCAATTATTACGTTTTAAAATAAAAAAATGCAATAATTGATAATTTAATTAA
* * *
9070812 AATTAAAATTATCAATTATTACGTTATAAAACCAAA-CAATGCAATTATTGA-CTATTTTA-AAA
1 AATTAAAATTATCAATTATTACGTTATAAAA-CAAAGAAATGCAATAATTGATC-ATTTGATAAA
* *
9070874 TAATTACATTTACCAATTA
64 -AATTACAATTATCAATTA
9070893 TGCATTTTAA
Statistics
Matches: 230, Mismatches: 36, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
188 51 0.22
189 148 0.64
190 31 0.13
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (188 bp):
AATTAAAATTATCAATTATTACGTTATAAAACAAAGAAATGCAATAATTGATCATTTGATAAAAA
TTACAATTATCAATTACTACATATAATACAAAGCAACACAACATTTGATTATTTTAAAACAATCA
CATTTATCAATTATTACGTTTTAAAATAAAAAAATGCAATAATTGATAATTTAATTAA
Found at i:9082725 original size:18 final size:18
Alignment explanation
Indices: 9082694--9082733 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9082684 GTTTTTTCAT
*
9082694 TAAT-GTATGAGTTAGAA
1 TAATAGTATGAGTTAAAA
*
9082711 TAATAGTATGTGTTAAAA
1 TAATAGTATGAGTTAAAA
9082729 TAATA
1 TAATA
9082734 CTATTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (18 bp):
TAATAGTATGAGTTAAAA
Found at i:9082805 original size:30 final size:30
Alignment explanation
Indices: 9082770--9082896 Score: 125
Period size: 30 Copynumber: 4.3 Consensus size: 30
9082760 AAAAGCAAGC
9082770 TCTTAAATTGATGCT-TTATATTTAGTAGGT
1 TCTTAAATTGATG-TGTTATATTTAGTAGGT
*
9082800 TCTTAAATAGATGTGTTATATTTAGTAGGT
1 TCTTAAATTGATGTGTTATATTTAGTAGGT
* * *
9082830 TCTTATA-TGAATGTGTTATATTAAGTAGAT
1 TCTTAAATTG-ATGTGTTATATTTAGTAGGT
* ** * **
9082860 TCTT-AATGGATGCATTATACTTAACAGGT
1 TCTTAAATTGATGTGTTATATTTAGTAGGT
9082889 TCTTAAAT
1 TCTTAAAT
9082897 CGATTTGCTA
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
29 20 0.25
30 59 0.75
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.46
Consensus pattern (30 bp):
TCTTAAATTGATGTGTTATATTTAGTAGGT
Found at i:9082837 original size:17 final size:17
Alignment explanation
Indices: 9082785--9082837 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
9082775 AATTGATGCT
9082785 TTATATTTAGTAGGTTC
1 TTATATTTAGTAGGTTC
* * *
9082802 TTA-A-ATAG-ATG-TG
1 TTATATTTAGTAGGTTC
9082815 TTATATTTAGTAGGTTC
1 TTATATTTAGTAGGTTC
9082832 TTATAT
1 TTATAT
9082838 GAATGTGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 4 0.15
14 3 0.12
15 6 0.23
16 3 0.12
17 10 0.38
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (17 bp):
TTATATTTAGTAGGTTC
Found at i:9085392 original size:14 final size:14
Alignment explanation
Indices: 9085360--9085441 Score: 55
Period size: 14 Copynumber: 5.9 Consensus size: 14
9085350 TAACAAAATG
*
9085360 ATTTAGGGTTTA-T
1 ATTTGGGGTTTAGT
9085373 ATTTTGGGGTTTAGT
1 A-TTTGGGGTTTAGT
*
9085388 ATTTGAGGTTTAG-
1 ATTTGGGGTTTAGT
* *
9085401 GTTTGGGCTTTGAGGT
1 ATTTGGGGTTT-A-GT
9085417 -TTTGGGGTTT-GT
1 ATTTGGGGTTTAGT
*
9085429 GGTTTGGGGTTTA
1 -ATTTGGGGTTTA
9085442 AGCGTTTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
12 2 0.04
13 9 0.16
14 32 0.58
15 12 0.22
ACGTcount: A:0.12, C:0.01, G:0.37, T:0.50
Consensus pattern (14 bp):
ATTTGGGGTTTAGT
Found at i:9085448 original size:15 final size:13
Alignment explanation
Indices: 9085375--9085582 Score: 98
Period size: 14 Copynumber: 14.8 Consensus size: 13
9085365 GGGTTTATAT
*
9085375 TTTGGGGTTTAGTA
1 TTTGGGGTTTAG-G
*
9085389 TTTGAGGTTTAGG
1 TTTGGGGTTTAGG
*
9085402 TTTGGGCTTTGAGG
1 TTTGGGGTTT-AGG
*
9085416 TTTTGGGGTTTGTGG
1 -TTTGGGGTTT-AGG
9085431 TTTGGGGTTTAAGCG
1 TTTGGGGTTT-AG-G
* **
9085446 TTTAGAATTT-GTG
1 TTTGGGGTTTAG-G
9085459 ATTTGGGGTTTAGG
1 -TTTGGGGTTTAGG
*
9085473 AACTTT--GGTTTAAG
1 ---TTTGGGGTTTAGG
*
9085487 TTTAGGGTTTATGG
1 TTTGGGGTTTA-GG
* *
9085501 ATTGGGGTTTATGT
1 TTTGGGGTTTA-GG
9085515 TTTGGGGTTTAGG
1 TTTGGGGTTTAGG
*
9085528 TTTGGGTTTTAAGG
1 TTTGGGGTTT-AGG
*
9085542 TTTTGGGGTTTTGGG
1 -TTTGGGG-TTTAGG
**
9085557 TTTAAGGTTTAAGG
1 TTTGGGGTTT-AGG
9085571 TTTAGGGGTTTA
1 TTT-GGGGTTTA
9085583 TGATTTGTGA
Statistics
Matches: 148, Mismatches: 31, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
11 3 0.02
13 29 0.20
14 76 0.51
15 34 0.23
16 6 0.04
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.48
Consensus pattern (13 bp):
TTTGGGGTTTAGG
Found at i:9085568 original size:29 final size:29
Alignment explanation
Indices: 9085513--9085581 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
9085503 TGGGGTTTAT
*
9085513 GTTTTGGGG-TTTAGGTTTGGGTTTTAAG
1 GTTTTGGGGTTTTAGGTTTAGGTTTTAAG
*
9085541 GTTTTGGGGTTTTGGGTTTAAGG-TTTAAG
1 GTTTTGGGGTTTTAGGTTT-AGGTTTTAAG
*
9085570 GTTTAGGGGTTT
1 GTTTTGGGGTTT
9085582 ATGATTTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.25
29 25 0.69
30 2 0.06
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.49
Consensus pattern (29 bp):
GTTTTGGGGTTTTAGGTTTAGGTTTTAAG
Found at i:9085579 original size:22 final size:20
Alignment explanation
Indices: 9085520--9085582 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
9085510 TATGTTTTGG
*
9085520 GGTTTAGGTTTGGGTTTTAA
1 GGTTTAGGTTTGGGGTTTAA
* *
9085540 GGTTTTGGGGTTTTGGGTTTAA
1 GG-TTT-AGGTTTGGGGTTTAA
9085562 GGTTTAAGGTTTAGGGGTTTA
1 GGTTT-AGGTTT-GGGGTTTA
9085583 TGATTTGTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.06
21 11 0.32
22 21 0.62
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (20 bp):
GGTTTAGGTTTGGGGTTTAA
Found at i:9085582 original size:8 final size:7
Alignment explanation
Indices: 9085486--9085582 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
9085476 TTTGGTTTAA
9085486 GTTTAGG
1 GTTTAGG
*
9085493 GTTTATG
1 GTTTAGG
* *
9085500 GATTGGG
1 GTTTAGG
*
9085507 GTTTATG
1 GTTTAGG
* *
9085514 TTTTGGG
1 GTTTAGG
9085521 GTTTA-G
1 GTTTAGG
9085527 GTTT-GG
1 GTTTAGG
9085533 GTTTTAAGG
1 G-TTT-AGG
* *
9085542 TTTTGGG
1 GTTTAGG
*
9085549 GTTTTGG
1 GTTTAGG
*
9085556 GTTTAAG
1 GTTTAGG
*
9085563 GTTTAAG
1 GTTTAGG
9085570 GTTTAGGG
1 GTTTA-GG
9085578 GTTTA
1 GTTTA
9085583 TGATTTGTGA
Statistics
Matches: 66, Mismatches: 19, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
6 7 0.11
7 48 0.73
8 9 0.14
9 2 0.03
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:9085587 original size:126 final size:126
Alignment explanation
Indices: 9085361--9085589 Score: 311
Period size: 126 Copynumber: 1.8 Consensus size: 126
9085351 AACAAAATGA
** *
9085361 TTTAGGGTTTATATTTTGGGGTTTAGTATTTGAGGTTTAGGTTTGGGCTTTGAGGTTTTGGGGTT
1 TTTAGGGTTTATAGATTGGGGTTTAGTATTTGAGGTTTAGGTTTGGGCTTTAAGGTTTTGGGGTT
** *
9085426 TGTGGTTTGGGGTTTAAGCGTTTAGAATTTGTGATTTGGGGTTTAGGAACTTTGGTTTAAG
66 TGTGGTTTAAGGTTTAAGCGTTTAGAATTTATGATTTGGGGTTTAGGAACTTTGGTTTAAG
* * *
9085487 TTTAGGGTTTATGGATTGGGGTTTATGT-TTTGGGGTTTAGGTTTGGGTTTTAAGGTTTTGGGGT
1 TTTAGGGTTTATAGATTGGGGTTTA-GTATTTGAGGTTTAGGTTTGGGCTTTAAGGTTTTGGGGT
**
9085551 TT-TGGGTTTAAGGTTTAAG-GTTTAGGGGTTTATGATTTG
65 TTGT-GGTTTAAGGTTTAAGCGTTTA-GAATTTATGATTTG
9085590 TGATTTGGGG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
125 6 0.07
126 81 0.91
127 2 0.02
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.48
Consensus pattern (126 bp):
TTTAGGGTTTATAGATTGGGGTTTAGTATTTGAGGTTTAGGTTTGGGCTTTAAGGTTTTGGGGTT
TGTGGTTTAAGGTTTAAGCGTTTAGAATTTATGATTTGGGGTTTAGGAACTTTGGTTTAAG
Found at i:9086318 original size:20 final size:20
Alignment explanation
Indices: 9086277--9086318 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9086267 GCAAATGATA
*
9086277 AATTTTATTATTTTATTTTT
1 AATTTTATTATTTTATTGTT
*
9086297 AATTTTGTTGATTTT-TTGTT
1 AATTTTATT-ATTTTATTGTT
9086317 AA
1 AA
9086319 AATAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
AATTTTATTATTTTATTGTT
Found at i:9093828 original size:23 final size:23
Alignment explanation
Indices: 9093802--9093847 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9093792 CTATATTAGG
9093802 AGTACTATGATTTTTTTAATTAT
1 AGTACTATGATTTTTTTAATTAT
* *
9093825 AGTATTGTGATTTTTTTAATTAT
1 AGTACTATGATTTTTTTAATTAT
9093848 TCAATCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (23 bp):
AGTACTATGATTTTTTTAATTAT
Found at i:9094198 original size:7 final size:7
Alignment explanation
Indices: 9094186--9094215 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
9094176 TTCATTGGTG
9094186 ATTATTC
1 ATTATTC
9094193 ATTATTC
1 ATTATTC
9094200 ATTATTC
1 ATTATTC
9094207 ATTATTC
1 ATTATTC
9094214 AT
1 AT
9094216 ATTTTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATTC
Found at i:9104395 original size:31 final size:31
Alignment explanation
Indices: 9104293--9104398 Score: 104
Period size: 31 Copynumber: 3.4 Consensus size: 31
9104283 AATAAAGATA
* ** *
9104293 ACCGAGATTGAACCGCAAGTTGAATGGAGTG
1 ACCGAGATTGAACCACAAGTCAAATGAAGTG
* * * *
9104324 ATCGAAATTGAACTATAAGTCAAATGAAGTG
1 ACCGAGATTGAACCACAAGTCAAATGAAGTG
* *
9104355 ACCGAGATTGAACCACAAGTCAAGTGAGGTG
1 ACCGAGATTGAACCACAAGTCAAATGAAGTG
* *
9104386 ACTGGGATTGAAC
1 ACCGAGATTGAAC
9104399 AGCAGGTGGG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (31 bp):
ACCGAGATTGAACCACAAGTCAAATGAAGTG
Found at i:9104572 original size:32 final size:32
Alignment explanation
Indices: 9104536--9104907 Score: 164
Period size: 32 Copynumber: 11.9 Consensus size: 32
9104526 TGAATGCCAA
*
9104536 CTAAAATGAGCTTAAATTTTCATAGGTGCTAG
1 CTAAACTGAGCTTAAATTTTCATAGGTGCTAG
* * * *
9104568 CTAAACTAAGATTAAA-TTTCATGGGTGATAG
1 CTAAACTGAGCTTAAATTTTCATAGGTGCTAG
* ** * * * *
9104599 CTAAACTGGGCTTGAAA-CCTGA-A--AGCCAA
1 CTAAACTGAGCTT-AAATTTTCATAGGTGCTAG
* * * *
9104628 CTAAAATGGGATTGAATTTTCA-AGGGTG-TCAG
1 CTAAACTGAGCTTAAATTTTCATA-GGTGCT-AG
* * *
9104660 CTAAACT-AGCTTAAA---ACCTTGGTGCTAG
1 CTAAACTGAGCTTAAATTTTCATAGGTGCTAG
* * * * * *
9104688 CTAAACTGTGCATAAATTTTTATAAGTGCCAA
1 CTAAACTGAGCTTAAATTTTCATAGGTGCTAG
* * * *
9104720 CTAAATTGGGCTTAAATTTTCATAAGTGCAAG
1 CTAAACTGAGCTTAAATTTTCATAGGTGCTAG
* * *
9104752 CTAAAATG-GACTTAAATTTTCATAAGTGTTAG
1 CTAAACTGAG-CTTAAATTTTCATAGGTGCTAG
* * * *
9104784 CT-AACTAAGCTTAAATCTTCATAAGTG-TCAA
1 CTAAACTGAGCTTAAATTTTCATAGGTGCT-AG
* * * *
9104815 CTAAACTAAGCTTAAATTTTTATCGATGCTAG
1 CTAAACTGAGCTTAAATTTTCATAGGTGCTAG
* **
9104847 CTAAACT-AGACTTAAATTTTTATAAATGAC-AG
1 CTAAACTGAG-CTTAAATTTTCATAGGTG-CTAG
* *
9104879 CTAAACTGGGCTTAAATTTTCATGGGTGC
1 CTAAACTGAGCTTAAATTTTCATAGGTGC
9104908 CATCTAAAGC
Statistics
Matches: 253, Mismatches: 67, Indels: 41
0.70 0.19 0.11
Matches are distributed among these distances:
28 16 0.06
29 23 0.09
30 1 0.00
31 55 0.22
32 155 0.61
33 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (32 bp):
CTAAACTGAGCTTAAATTTTCATAGGTGCTAG
Found at i:9104881 original size:95 final size:96
Alignment explanation
Indices: 9104686--9104915 Score: 230
Period size: 95 Copynumber: 2.4 Consensus size: 96
9104676 CCTTGGTGCT
** * * * **
9104686 AGCTAAACTGTGCATAAATTTTTATAAGTGCCAACTAAATTGGGCTTAAATTTTCATAAGTGCAA
1 AGCTAAACTAAGCTTAAATTTTCATAAGTGCCAACTAAACTAAGCTTAAATTTTCATAAGTGCAA
* * **
9104751 GCTAAAATGGACTTAAATTTTCATAAGTGTT
66 GCTAAAATAGACTTAAATTTTCATAAATGAC
* * * * *
9104782 AGCT-AACTAAGCTTAAATCTTCATAAGTGTCAACTAAACTAAGCTTAAATTTTTAT-CGATGCT
1 AGCTAAACTAAGCTTAAATTTTCATAAGTGCCAACTAAACTAAGCTTAAATTTTCATAAG-TGCA
* *
9104845 AGCTAAACTAGACTTAAATTTTTATAAATGAC
65 AGCTAAAATAGACTTAAATTTTCATAAATGAC
** ** *
9104877 AGCTAAACTGGGCTTAAATTTTCATGGGTGCCATCTAAA
1 AGCTAAACTAAGCTTAAATTTTCATAAGTGCCAACTAAA
9104916 GCAGGCTTAA
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
94 1 0.01
95 75 0.70
96 31 0.29
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (96 bp):
AGCTAAACTAAGCTTAAATTTTCATAAGTGCCAACTAAACTAAGCTTAAATTTTCATAAGTGCAA
GCTAAAATAGACTTAAATTTTCATAAATGAC
Found at i:9104915 original size:32 final size:32
Alignment explanation
Indices: 9104681--9104915 Score: 186
Period size: 32 Copynumber: 7.4 Consensus size: 32
9104671 TAAAACCTTG
* * * *
9104681 GTGCTAGCTAAACTGTGCATAAATTTTTATAA
1 GTGCCAGCTAAACTGGGCTTAAATTTTCATAA
* *
9104713 GTGCCAACTAAATTGGGCTTAAATTTTCATAA
1 GTGCCAGCTAAACTGGGCTTAAATTTTCATAA
* * *
9104745 GTGCAAGCTAAAATGGACTTAAATTTTCATAA
1 GTGCCAGCTAAACTGGGCTTAAATTTTCATAA
** ** *
9104777 GTGTTAGCT-AACTAAGCTTAAATCTTCATAA
1 GTGCCAGCTAAACTGGGCTTAAATTTTCATAA
* * ** * *
9104808 GTGTCAACTAAACTAAGCTTAAATTTTTAT-C
1 GTGCCAGCTAAACTGGGCTTAAATTTTCATAA
* * * *
9104839 GATGCTAGCTAAACTAGACTTAAATTTTTATAA
1 G-TGCCAGCTAAACTGGGCTTAAATTTTCATAA
* * **
9104872 ATGACAGCTAAACTGGGCTTAAATTTTCATGG
1 GTGCCAGCTAAACTGGGCTTAAATTTTCATAA
*
9104904 GTGCCATCTAAA
1 GTGCCAGCTAAA
9104916 GCAGGCTTAA
Statistics
Matches: 161, Mismatches: 39, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
31 25 0.16
32 136 0.84
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (32 bp):
GTGCCAGCTAAACTGGGCTTAAATTTTCATAA
Found at i:9105804 original size:17 final size:16
Alignment explanation
Indices: 9105776--9105815 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
9105766 TTCTTTTTTC
9105776 TTTTTGTTTTTCATTCA
1 TTTTT-TTTTTCATTCA
*
9105793 TTCTTTTTTTTCTTTCA
1 TT-TTTTTTTTCATTCA
9105810 TTTTTT
1 TTTTTT
9105816 CCTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 3 0.14
ACGTcount: A:0.07, C:0.12, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTTCATTCA
Found at i:9105845 original size:14 final size:14
Alignment explanation
Indices: 9105810--9105845 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9105800 TTTTCTTTCA
9105810 TTTTTTC-CTTTTT
1 TTTTTTCACTTTTT
9105823 TCTTTTTCACTTTTT
1 T-TTTTTCACTTTTT
9105838 TTTTTTCA
1 TTTTTTCA
9105846 TTCTTTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 13 0.62
15 7 0.33
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTCACTTTTT
Found at i:9105852 original size:22 final size:22
Alignment explanation
Indices: 9105793--9105864 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
9105783 TTTTCATTCA
*
9105793 TTCTTTTTT-TTCTTTCATTTT
1 TTCTTTTTTCTTCTTTCACTTT
9105814 TTCCTTTTTTCTT-TTTCACTTT
1 TT-CTTTTTTCTTCTTTCACTTT
*
9105836 TT-TTTTTTCATTCTTTCACTTC
1 TTCTTTTTTC-TTCTTTCACTTT
9105858 TTCTTTT
1 TTCTTTT
9105865 CCTTTTCTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 27 0.61
23 6 0.14
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (22 bp):
TTCTTTTTTCTTCTTTCACTTT
Found at i:9105862 original size:36 final size:37
Alignment explanation
Indices: 9105795--9105864 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
9105785 TTCATTCATT
* *
9105795 CTTTTTTTTCTTTCATTTTTTCCTTTTTTCTTTTTCA
1 CTTTTTTTTCTTTCATTCTTTCCTTTCTTCTTTTTCA
9105832 CTTTTTTTT-TTTCATTCTTTCAC-TTCTTCTTTT
1 CTTTTTTTTCTTTCATTCTTTC-CTTTCTTCTTTT
9105865 CCTTTTCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 20 0.67
37 10 0.33
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (37 bp):
CTTTTTTTTCTTTCATTCTTTCCTTTCTTCTTTTTCA
Found at i:9111558 original size:20 final size:20
Alignment explanation
Indices: 9111533--9111596 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
9111523 AGTTTACCTA
9111533 TAGGATTTAGGTTTACATTT
1 TAGGATTTAGGTTTACATTT
*
9111553 TAGGATTCGAGGTTT-C-TTT
1 TAGGATT-TAGGTTTACATTT
* * *
9111572 TGGGGTTTAGGGTTTATATTT
1 TAGGATTTA-GGTTTACATTT
9111593 TAGG
1 TAGG
9111597 GTTTTATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 1 0.03
19 13 0.38
20 8 0.24
21 12 0.35
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.48
Consensus pattern (20 bp):
TAGGATTTAGGTTTACATTT
Found at i:9111770 original size:3 final size:3
Alignment explanation
Indices: 9111762--9111786 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9111752 CTTCAAACAC
9111762 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
9111787 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9111791 original size:3 final size:3
Alignment explanation
Indices: 9111785--9111810 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9111775 AATAATAATA
9111785 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
9111811 ACTTTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9112167 original size:21 final size:22
Alignment explanation
Indices: 9112138--9112214 Score: 81
Period size: 21 Copynumber: 3.6 Consensus size: 22
9112128 AAACATGATT
*
9112138 ATAATAATA-AAAATAATAATG
1 ATAACAATACAAAATAATAATG
* *
9112159 ATAACAATACAAAA-AGATATTT
1 ATAACAATACAAAATA-ATAATG
*
9112181 A-AACATTA-AAAATAATAATG
1 ATAACAATACAAAATAATAATG
9112201 ATAACAATACAAAA
1 ATAACAATACAAAA
9112215 AGATATTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
20 9 0.20
21 22 0.50
22 13 0.30
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (22 bp):
ATAACAATACAAAATAATAATG
Found at i:9112192 original size:42 final size:42
Alignment explanation
Indices: 9112145--9112229 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
9112135 ATTATAATAA
9112145 TAAAAATAATAATGATAACAATACAAAAAGATATTTAAACAT
1 TAAAAATAATAATGATAACAATACAAAAAGATATTTAAACAT
9112187 TAAAAATAATAATGATAACAATACAAAAAGATATTTAAACAT
1 TAAAAATAATAATGATAACAATACAAAAAGATATTTAAACAT
9112229 T
1 T
9112230 CATATGGCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (42 bp):
TAAAAATAATAATGATAACAATACAAAAAGATATTTAAACAT
Found at i:9113694 original size:9 final size:9
Alignment explanation
Indices: 9113680--9113714 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
9113670 TTTCTGGCTT
9113680 CATGGCATA
1 CATGGCATA
9113689 CATGGCATA
1 CATGGCATA
9113698 CATGGCATA
1 CATGGCATA
9113707 CATGGCAT
1 CATGGCAT
9113715 GCATATTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (9 bp):
CATGGCATA
Found at i:9120096 original size:20 final size:20
Alignment explanation
Indices: 9120071--9120108 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9120061 TTATCATTGG
9120071 AAAAATTATCATT-TATTTCC
1 AAAAATTAT-ATTATATTTCC
9120091 AAAAATTATATTATATTT
1 AAAAATTATATTATATTT
9120109 TATCTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAATTATATTATATTTCC
Found at i:9126075 original size:17 final size:18
Alignment explanation
Indices: 9126037--9126079 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
9126027 TATCTAATTT
9126037 TTTTAAATTATATGATAC
1 TTTTAAATTATATGATAC
*
9126055 TTTTAAA-TATAATGAT-G
1 TTTTAAATTAT-ATGATAC
9126072 TTTTAAAT
1 TTTTAAAT
9126080 GATGCTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
TTTTAAATTATATGATAC
Found at i:9134420 original size:12 final size:11
Alignment explanation
Indices: 9134388--9134430 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
9134378 AACATAAAGA
9134388 TAAATAAAAAC
1 TAAATAAAAAC
9134399 GTAAA-AAAAAC
1 -TAAATAAAAAC
*
9134410 TAAATATAAAAA
1 TAAATA-AAAAC
9134422 TAAATAAAA
1 TAAATAAAA
9134431 TGTTAAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 4 0.14
11 10 0.36
12 14 0.50
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (11 bp):
TAAATAAAAAC
Found at i:9134431 original size:17 final size:17
Alignment explanation
Indices: 9134381--9134447 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
9134371 CTCTTCAAAC
*
9134381 ATAAAGATAAATAAAA-
1 ATAAAAATAAATAAAAT
9134397 ACGTAAAAA-AAACT-AAAT
1 A--TAAAAATAAA-TAAAAT
9134415 ATAAAAATAAATAAAAT
1 ATAAAAATAAATAAAAT
* * *
9134432 GTTAAGATAAATAAAA
1 ATAAAAATAAATAAAA
9134448 AAATAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 8 0.20
17 26 0.63
18 7 0.17
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAATAAAAT
Found at i:9134449 original size:29 final size:29
Alignment explanation
Indices: 9134410--9134484 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
9134400 TAAAAAAAAC
*
9134410 TAAATATAAAAATAAATAAAATGTTAAGA
1 TAAATAAAAAAATAAATAAAATGTTAAGA
9134439 TAAATAAAAAAATAAATAAAATGTTAAGA
1 TAAATAAAAAAATAAATAAAATGTTAAGA
*
9134468 TAAAGAAACAAAA-AAAT
1 TAAATAAA-AAAATAAAT
9134485 GGTTTTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 39 0.91
30 4 0.09
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (29 bp):
TAAATAAAAAAATAAATAAAATGTTAAGA
Found at i:9134453 original size:12 final size:12
Alignment explanation
Indices: 9134402--9134459 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 12
9134392 TAAAAACGTA
9134402 AAAAAAACTAAAT
1 AAAAAAA-TAAAT
*
9134415 ATAAAAATAAAT
1 AAAAAAATAAAT
9134427 AAAATGTTAAGATAAAT
1 AAAA----AA-ATAAAT
9134444 AAAAAAATAAAT
1 AAAAAAATAAAT
9134456 AAAA
1 AAAA
9134460 TGTTAAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
12 18 0.47
13 8 0.21
16 2 0.05
17 10 0.26
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAAAATAAAT
Found at i:9134470 original size:17 final size:17
Alignment explanation
Indices: 9134421--9134471 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
9134411 AAATATAAAA
9134421 ATAAATAAAATGTTAAG
1 ATAAATAAAATGTTAAG
9134438 ATAAATAAAA----AA-
1 ATAAATAAAATGTTAAG
9134450 ATAAATAAAATGTTAAG
1 ATAAATAAAATGTTAAG
9134467 ATAAA
1 ATAAA
9134472 GAAACAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 10 0.34
13 2 0.07
16 2 0.07
17 15 0.52
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
ATAAATAAAATGTTAAG
Found at i:9137832 original size:14 final size:15
Alignment explanation
Indices: 9137813--9137841 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9137803 TATGATTATT
9137813 TTTTAT-TTTTTTAA
1 TTTTATATTTTTTAA
9137827 TTTTATATTTTTTAA
1 TTTTATATTTTTTAA
9137842 ATATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATATTTTTTAA
Found at i:9138263 original size:24 final size:23
Alignment explanation
Indices: 9138229--9138279 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
9138219 AAATAATAAT
* *
9138229 AAAATTTATTATAATTATGATTG
1 AAAATTTATTATAATTATAATTA
9138252 AAAATATTATTATAATTATAATTA
1 AAAAT-TTATTATAATTATAATTA
9138276 AAAA
1 AAAA
9138280 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAATTTATTATAATTATAATTA
Found at i:9142214 original size:14 final size:15
Alignment explanation
Indices: 9142183--9142216 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9142173 TTACATATAT
9142183 TAAATATAAAATAAA
1 TAAATATAAAATAAA
*
9142198 TAAATAT-AAATACA
1 TAAATATAAAATAAA
9142212 TAAAT
1 TAAAT
9142217 TATCATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATATAAAATAAA
Found at i:9145597 original size:22 final size:22
Alignment explanation
Indices: 9145572--9145613 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9145562 TTATCTATCC
*
9145572 TAATTTTAGGGATACAAATACT
1 TAATTTTAGAGATACAAATACT
*
9145594 TAATTTTAGAGATATAAATA
1 TAATTTTAGAGATACAAATA
9145614 TAAATATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (22 bp):
TAATTTTAGAGATACAAATACT
Found at i:9149562 original size:22 final size:22
Alignment explanation
Indices: 9149528--9149570 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9149518 TTGTTTATCC
* *
9149528 TAATTTTAGAGATATAAATATT
1 TAATTCTAAAGATATAAATATT
9149550 TAATTCTAAAGATATAAATAT
1 TAATTCTAAAGATATAAATAT
9149571 AAATATACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (22 bp):
TAATTCTAAAGATATAAATATT
Found at i:9154565 original size:9 final size:9
Alignment explanation
Indices: 9154551--9154580 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9154541 ATCACATTAT
9154551 ATTTTTTTA
1 ATTTTTTTA
9154560 ATTTTTTTA
1 ATTTTTTTA
9154569 ATTTTTTATA
1 ATTTTTT-TA
9154579 AT
1 AT
9154581 AATTTAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:9158569 original size:107 final size:107
Alignment explanation
Indices: 9158403--9158621 Score: 298
Period size: 107 Copynumber: 2.0 Consensus size: 107
9158393 AAAATATTTT
* * ***
9158403 TTTTATAAATATTATAATAAATTAAACTTATTAAATTAATTTCGGGTTGGATTGGATTGATTATA
1 TTTTATAAATATTATAATAAATTAAAATTATTAAATTAATTTCAGGTTGGATCAAATTGATTA-A
* **
9158468 G-TTTTATACATATGTGGATAAAGTTGGGTATGAAAAATAATA
65 GATTTTATACATAAGTGGATAAAGTTAAGTATGAAAAATAATA
* *
9158510 TTTTATAAATATTATATTAAATTAAAATTATTAAATTAATTTCAGGTTAGG-TCAAATTGATTAC
1 TTTTATAAATATTATAATAAATTAAAATTATTAAATTAATTTCAGGTT-GGATCAAATTGATTAA
* *
9158574 GATTTTATACATAAGTGGATCAAGTTAAGTATGAAAATTAATA
65 GATTTTATACATAAGTGGATAAAGTTAAGTATGAAAAATAATA
9158617 TTTTA
1 TTTTA
9158622 AGTACTTACT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 95 0.97
108 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (107 bp):
TTTTATAAATATTATAATAAATTAAAATTATTAAATTAATTTCAGGTTGGATCAAATTGATTAAG
ATTTTATACATAAGTGGATAAAGTTAAGTATGAAAAATAATA
Found at i:9159769 original size:14 final size:15
Alignment explanation
Indices: 9159750--9159780 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9159740 CTTTATTTTT
9159750 AAAATTTTT-ATAAA
1 AAAATTTTTAATAAA
9159764 AAAATTTTTAATAAA
1 AAAATTTTTAATAAA
9159779 AA
1 AA
9159781 TCTCACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTTTTAATAAA
Found at i:9159876 original size:15 final size:14
Alignment explanation
Indices: 9159850--9159879 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9159840 TTTTACTATT
9159850 TAATTTTTAAAAAA
1 TAATTTTTAAAAAA
9159864 TAATTTTTAAAAAA
1 TAATTTTTAAAAAA
9159878 TA
1 TA
9159880 TATTAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATTTTTAAAAAA
Found at i:9160622 original size:16 final size:17
Alignment explanation
Indices: 9160591--9160623 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9160581 TATCTAATTA
*
9160591 AATTATAATTATTAAAT
1 AATTATAATAATTAAAT
9160608 AATTA-AATAATTAAAT
1 AATTATAATAATTAAAT
9160624 TCATATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTATAATAATTAAAT
Found at i:9176387 original size:127 final size:124
Alignment explanation
Indices: 9176210--9176497 Score: 371
Period size: 127 Copynumber: 2.3 Consensus size: 124
9176200 CTCTCTTATA
* * * * *
9176210 ACTTTTTTCTTTATGATCACTTGAGATTCTGAATTGATTTGAGTGTCAAGACTCATCCCAGAGTT
1 ACTTTTTTCTCTATGATCACTTGAGATCCTAAATTGATTTGAATGTCAAGACACATCCCAGAGTT
* * * * *
9176275 AATGATTTGATAAGACATAACACCAACTATAGGTTTTTTTTTTTCTCTAAAAGTCTCCAACT
66 AATGATTTGATAAGACATAACACAAAC--CA-GATGTTTTTTTTCTCTAAAAATCTCCAACT
* * * * *
9176337 ACTTTTTTCTCTACGATAAATTGAGATCCTAAATTGATTTGAATGTCAAGACACGTCCTAGAGTT
1 ACTTTTTTCTCTATGATCACTTGAGATCCTAAATTGATTTGAATGTCAAGACACATCCCAGAGTT
* *
9176402 AATGATTTGATAAGACATAACTCAAACCAGATGTTTTTTTTCTCTAAAAATCTCTAACT
66 AATGATTTGATAAGACATAACACAAACCAGATGTTTTTTTTCTCTAAAAATCTCCAACT
*
9176461 ACTTTTCTT-TCTATGATCACCTGAGATCCTAAATTGA
1 ACTTTT-TTCTCTATGATCACTTGAGATCCTAAATTGA
9176498 CTTATGTATT
Statistics
Matches: 139, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
124 56 0.40
125 3 0.02
127 80 0.58
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (124 bp):
ACTTTTTTCTCTATGATCACTTGAGATCCTAAATTGATTTGAATGTCAAGACACATCCCAGAGTT
AATGATTTGATAAGACATAACACAAACCAGATGTTTTTTTTCTCTAAAAATCTCCAACT
Found at i:9176518 original size:124 final size:122
Alignment explanation
Indices: 9176231--9176568 Score: 333
Period size: 124 Copynumber: 2.7 Consensus size: 122
9176221 TATGATCACT
* * * * *
9176231 TGAGATTCTGAATTGATTTGAGTGTCAAGACTCATCCCAGAGTTAATGATTTGATAAGACATAAC
1 TGAGATCCTAAATTGATTTGAATGTCAAGA--CGTCCTAGAGTTAATGATTTGATAAGACATAAC
* * * * *
9176296 ACCAACTATAGGTTTTTTTTTTTCTCTAAAAGTCTCCAACTACTTTTTTCTCTACGATAAAT
64 ACAAAC--TA-GATATTTTTTTTCTCTAAAAATCTCCAACTACTTTTTTCTCTACGATAAAC
9176358 TGAGATCCTAAATTGATTTGAATGTCAAGACACGTCCTAGAGTTAATGATTTGATAAGACATAAC
1 TGAGATCCTAAATTGATTTGAATGTCAAG--ACGTCCTAGAGTTAATGATTTGATAAGACATAAC
* * * * * * *
9176423 TCAAACCAGATGTTTTTTTTCTCTAAAAATCTCTAACTACTTTTCTT-TCTATGATCACC
64 ACAAACTAGATATTTTTTTTCTCTAAAAATCTCCAACTACTTTT-TTCTCTACGATAAAC
* * * *
9176482 TGAGATCCTAAATTGACTTATGTAT-TGCATTG-CGTCCT-GAAGTTATTGATTTGACAAGACAT
1 TGAGATCCTAAATTGA-TT-TGAATGT-CA-AGACGTCCTAG-AGTTAATGATTTGATAAGACAT
*
9176544 AACACAAACTAGATATTTTCTTTCT
61 AACACAAACTAGATATTTTTTTTCT
9176569 AAAACTTTTT
Statistics
Matches: 179, Mismatches: 24, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
123 1 0.01
124 103 0.58
125 6 0.03
126 6 0.03
127 62 0.35
129 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (122 bp):
TGAGATCCTAAATTGATTTGAATGTCAAGACGTCCTAGAGTTAATGATTTGATAAGACATAACAC
AAACTAGATATTTTTTTTCTCTAAAAATCTCCAACTACTTTTTTCTCTACGATAAAC
Done.