Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2159
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: 33973
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Found at i:173 original size:50 final size:50
Alignment explanation
Indices: 76--200 Score: 223
Period size: 50 Copynumber: 2.5 Consensus size: 50
66 CGAAATATGA
76 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGAT--ATTTTATAGTGTATCGATACATCTGGGC
*
128 AAATTTGCCTGCATGTATCGATATTTTGTAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATATTTTATAGTGTATCGATACATCTGGGC
178 AAATTTGCCTGCATGTATCGATA
1 AAATTTGCCTGCATGTATCGATA
201 CAAAGATCAG
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
50 50 0.69
52 22 0.31
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATATTTTATAGTGTATCGATACATCTGGGC
Found at i:229 original size:13 final size:13
Alignment explanation
Indices: 211--235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
201 CAAAGATCAG
211 TGTATCGATACAA
1 TGTATCGATACAA
224 TGTATCGATACA
1 TGTATCGATACA
236 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:302 original size:19 final size:18
Alignment explanation
Indices: 278--371 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 18
268 TAGCTTAAAT
278 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
297 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
310 TGTATCGGTACAACACTTA
1 TGTATCGATACAA-ACTTA
329 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
342 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
362 TGTATCGATA
1 TGTATCGATA
372 TAAATCATTG
Statistics
Matches: 60, Mismatches: 2, Indels: 25
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.35
14 2 0.03
16 4 0.07
18 1 0.02
19 22 0.37
20 10 0.17
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:315 original size:13 final size:13
Alignment explanation
Indices: 297--353 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
287 ACAAAACTTA
297 TGTATCGATACAT
1 TGTATCGATACAT
*
310 TGTATCGGTACAACACTT
1 TGTATC-G-A-TACA--T
328 ATGTATCGATACAT
1 -TGTATCGATACAT
342 TGTATCGATACA
1 TGTATCGATACA
354 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 18 0.50
14 2 0.06
15 1 0.03
16 6 0.17
17 1 0.03
18 2 0.06
19 6 0.17
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:322 original size:32 final size:32
Alignment explanation
Indices: 276--371 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
266 AGTAGCTTAA
*
276 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
308 ATTGTATCGGTACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
340 ATTGTATCGATACAACACTTTATGTATCGATA
1 ATTGTATCGATACAACAC-TTATGTATCGATA
372 TAAATCATTG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.78
33 13 0.22
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:1280 original size:3 final size:3
Alignment explanation
Indices: 1272--1296 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1262 TGAAGAGGAA
1272 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
1297 GTGACTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:5693 original size:18 final size:19
Alignment explanation
Indices: 5670--5709 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5660 TTGATGTTTG
5670 TTATG-TTGTATGAT-TGAA
1 TTATGTTTGT-TGATATGAA
5688 TTATGTTTGTTGATATGAA
1 TTATGTTTGTTGATATGAA
5707 TTA
1 TTA
5710 GGGTTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.53
Consensus pattern (19 bp):
TTATGTTTGTTGATATGAA
Found at i:5698 original size:27 final size:28
Alignment explanation
Indices: 5646--5698 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
5636 TTTATGCTTA
5646 GTTGTTGAATGAATTTGATGTTTGTTAT
1 GTTGTTGAATGAATTTGATGTTTGTTAT
*
5674 GTTGTATGATTGAA-TT-ATGTTTGTT
1 GTTGT-TGAATGAATTTGATGTTTGTT
5699 GATATGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 9 0.39
28 7 0.30
29 7 0.30
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.55
Consensus pattern (28 bp):
GTTGTTGAATGAATTTGATGTTTGTTAT
Found at i:8510 original size:34 final size:33
Alignment explanation
Indices: 8449--8514 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
8439 CCACTATTTG
8449 TATCGATACATAGGACAATGTATCGATACATTA
1 TATCGATACATAGGACAATGTATCGATACATTA
*
8482 TATCGATACATGATGA-AATTGTATCGATACATT
1 TATCGATACAT-AGGACAA-TGTATCGATACATT
8515 GCTTGTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (33 bp):
TATCGATACATAGGACAATGTATCGATACATTA
Found at i:13005 original size:20 final size:20
Alignment explanation
Indices: 12980--13033 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
12970 ATTACAAGCA
* *
12980 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
*
13000 ATGTATCGATACAATGGACC
1 ATGTATCGATACAATGCACC
13020 ATGTATCGATACAA
1 ATGTATCGATACAA
13034 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:15259 original size:18 final size:19
Alignment explanation
Indices: 15219--15259 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
15209 AGTTTTTTGT
* *
15219 AAATTTTTGATATTACAAG
1 AAATTTTTGAAATTAAAAG
15238 -AATTTTT-AAATTAAAAG
1 AAATTTTTGAAATTAAAAG
15255 AAATT
1 AAATT
15260 AGACCTTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (19 bp):
AAATTTTTGAAATTAAAAG
Found at i:15317 original size:10 final size:11
Alignment explanation
Indices: 15291--15353 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 11
15281 CAAAGTATTT
15291 GAAGAAGCAAGA
1 GAAGAAG-AAGA
15303 GAAGAAGAA-A
1 GAAGAAGAAGA
*
15313 GAAGAAGAAACA
1 GAAGAAG-AAGA
*
15325 GGAA-AAAAAGA
1 -GAAGAAGAAGA
*
15336 GAAGAAG-ACA
1 GAAGAAGAAGA
15346 GAAGAAGA
1 GAAGAAGA
15354 TATTAATAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 20 0.48
11 9 0.21
12 10 0.24
13 3 0.07
ACGTcount: A:0.65, C:0.05, G:0.30, T:0.00
Consensus pattern (11 bp):
GAAGAAGAAGA
Found at i:18609 original size:20 final size:21
Alignment explanation
Indices: 18567--18674 Score: 75
Period size: 21 Copynumber: 5.3 Consensus size: 21
18557 AGTTGAATTT
*
18567 TTTTCGTCCAACAAGTACATC
1 TTTTCATCCAACAAGTACATC
**
18588 TTTTCATCCAA-AAGTATGTC
1 TTTTCATCCAACAAGTACATC
* * *
18608 TTTTCATCTAACGAGTGCATC
1 TTTTCATCCAACAAGTACATC
* * *
18629 TATTT-ATCCAAAAAATATATC
1 T-TTTCATCCAACAAGTACATC
18650 ATTTT-ATCC-A-AA-TACATC
1 -TTTTCATCCAACAAGTACATC
18668 TTTTCAT
1 TTTTCAT
18675 GAAGGATAGT
Statistics
Matches: 68, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
17 4 0.06
18 7 0.10
19 2 0.03
20 18 0.26
21 33 0.49
22 4 0.06
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (21 bp):
TTTTCATCCAACAAGTACATC
Found at i:20500 original size:24 final size:22
Alignment explanation
Indices: 20466--20532 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
20456 CGGTTCAACT
20466 AAAAAAAAGAAAAAAAAAAGAG
1 AAAAAAAAGAAAAAAAAAAGAG
*
20488 AAAAAAAGGAGAAAAAAAATAGAG
1 AAAAAAA--AGAAAAAAAAAAGAG
* *
20512 AAGAAATAGAAACAAAGAAAA
1 AAAAAAAAGAAA-AAA-AAAA
20533 AAATAAGGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 12 0.32
23 3 0.08
24 22 0.59
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.03
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAAAGAG
Found at i:20504 original size:13 final size:12
Alignment explanation
Indices: 20466--20513 Score: 64
Period size: 11 Copynumber: 4.1 Consensus size: 12
20456 CGGTTCAACT
20466 AAAAAAAAGA-A
1 AAAAAAAAGAGA
20477 AAAAAAAAGAG-
1 AAAAAAAAGAGA
*
20488 AAAAAAAGGAGA
1 AAAAAAAAGAGA
20500 AAAAAAATAGAGA
1 AAAAAAA-AGAGA
20513 A
1 A
20514 GAAATAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 20 0.62
12 7 0.22
13 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAAAAGAGA
Found at i:28058 original size:52 final size:52
Alignment explanation
Indices: 27956--28080 Score: 200
Period size: 53 Copynumber: 2.4 Consensus size: 52
27946 ATATGAAAAG
* *
27956 TTGCTTGCATGTATCGATACATTTAATAGTGTTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTTATCGATACATCTGGGCAAA
28008 TTTGCCTGCATGTATCGATACATTTTAA-AATG-TATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTTATCGATACATCTGGGCAAA
28060 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
28081 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
51 21 0.30
52 20 0.29
53 23 0.33
54 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTTATCGATACATCTGGGCAAA
Found at i:28093 original size:51 final size:50
Alignment explanation
Indices: 27956--28100 Score: 170
Period size: 51 Copynumber: 2.8 Consensus size: 50
27946 ATATGAAAAG
* *
27956 TTGCTTGCATGTATCGATACATTTAATAGTGTTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTG-TATCGATACATCTGGGCAAAT
28009 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
28060 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
28101 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 20 0.24
53 22 0.26
54 1 0.01
55 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:28107 original size:13 final size:13
Alignment explanation
Indices: 28089--28113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28079 CAAAGATCAG
28089 TGTATCGATACAA
1 TGTATCGATACAA
28102 TGTATCGATACA
1 TGTATCGATACA
28114 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:28196 original size:13 final size:13
Alignment explanation
Indices: 28178--28202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28168 AAAAAAAATA
28178 TGTATCGATACAT
1 TGTATCGATACAT
28191 TGTATCGATACA
1 TGTATCGATACA
28203 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29436 original size:27 final size:27
Alignment explanation
Indices: 29388--31424 Score: 2224
Period size: 27 Copynumber: 75.0 Consensus size: 27
29378 CAGTGGCATT
* * *
29388 CCTTTTAAAGTCCATAAGTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
29416 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
29443 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
29470 CCTTTTAAGTCCACAACTCCGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
29497 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
29524 CCTTTTAAGTCCATAAGTGCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
** *
29551 CCTTTTAAAGTCCACAACTCTATGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
29579 CCTTTTAAGTCCACACCTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * **
29606 TCTTTTAAGTCCACAAGTCCATAACAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
29633 CCTTTTAAAGTCCACAACTCTGTGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
29661 CCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
29689 CCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
29716 CCTTTT--GTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
29741 CCTTTTAAGTCCACAAGTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
29768 CCTTTTAAGTCCACAAGTCTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
29795 CCTTTTAAAGTCCACAACTCCGTGGTAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
29823 CCTTTTAAGTCCACAACTTTGTGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
**
29849 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* ** *
29876 CCTTTTAAGTCCACAAGTCTATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
29903 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
29930 CCTTTTAAAGTCCACAACTCCATGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
29958 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
29985 CCTTTTAAGTCCACAACACCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30012 CC-TTTAAGTCCAGAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30038 CCTTTTAAAGTCCACAACTTCGTGGCGC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
30066 TCTTTTAAGTTCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
30093 CCTTTTAAGTCCACAACTCCGTGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
30119 TCTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
30147 CCTTTTAAGTCCATAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30174 CCTTTCATGACCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
30201 CCTATTAAGTCCATAAGTGCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
30228 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30255 CCTTTTAAGTCCACAAGTGCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
30282 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30309 CCTTTTAAGTCCACAAGTCCGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30336 CC-TTTAAGTCCACAACACCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30362 CCTTTTAAGTCCAGAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30389 CCTTTTAAAGTCCATAACTTCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
30417 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30444 TCTTTTAAGTCCACAAGTCCGTAGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30471 CCTTTTAAGTCCACAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
30498 CCTTTTAAAGTCCACAACTCCGTGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
30526 CCTTTTAAAGTCCACAACTTCGTGGCAAC
1 CCTTTT-AAGTCCACAACTCCGTGGC-AC
* * *
30555 CCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
30582 CTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
30609 CCTTTTAAATCCAGAAGTCTGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
** *
30636 CCTTTTAAGTCCACAACTTTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30663 CCTTTTAAAGTCCAC-ACTTCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
30690 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30717 CCTTTTAAGTCCACAAGTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30744 CTTTTTAAGTCCATAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30771 CCTTTTAAAGTCCACAACTTCATGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
30799 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
30826 CC-TTTAAGTCCACAACTCCATGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
30851 TCTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
30879 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30906 TCTTTTAAGTCCACAAGTCCGTAGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30933 CCTTTTAAGTCCATAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30960 CCTTTTAAAGTCCACAACTCTGTGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
30988 CCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
31016 CCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
31043 CTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
31070 CCTTTTAAATCCAGAAGTCTGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
** *
31097 CCTTTTAAGTCCACAACTTTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
31124 CCTTTTAAAGTCCACAACTTCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
31152 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
31179 CCTTTTAAGTCCACAAGTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
31206 CTTTTTAAGTCCATAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
31233 CCTTTTAAAGTCCAACAACTTCATGGCAC
1 CCTTTT-AAGTCC-ACAACTCCGTGGCAC
*
31262 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
31289 CCTTTTAAGTCCACAACTCCATGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
31315 TCTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
31343 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
31370 CCTTTCATGACCACAACTCCATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
31397 TCTTTTAAG-CTCACAAGTCAGTGGCAC
1 CCTTTTAAGTC-CACAACTCCGTGGCAC
31424 C
1 C
31425 TTTGCAAAGC
Statistics
Matches: 1709, Mismatches: 272, Indels: 57
0.84 0.13 0.03
Matches are distributed among these distances:
25 24 0.01
26 115 0.07
27 1187 0.69
28 358 0.21
29 25 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:29466 original size:54 final size:54
Alignment explanation
Indices: 29388--31684 Score: 2236
Period size: 54 Copynumber: 42.1 Consensus size: 54
29378 CAGTGGCATT
* *
29388 CCTTTTAAAGTCCATAAGTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
29443 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
29497 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAAGTGCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
** * *
29551 CCTTTTAAAGTCCACAACTCTATGGCATCCTTTTAAGTCCACACCTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * ** * * *
29606 TCTTTTAAGTCCACAAGTCCATAACACCCTTTTAAAGTCCACAACTCTGTGACAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
29661 CCTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
29716 CCTTTT--GTCCACAACTCTGTGGCACCCTTTTAAGTCCACAAGTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
29768 CCTTTTAAGTCCACAAGTCTGTGGTACCCTTTTAAAGTCCACAACTCCGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
** **
29823 CCTTTTAAGTCCACAACTTTGTGGCA-CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* ** *
29876 CCTTTTAAGTCCACAAGTCTATGGCATCCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * **
29930 CCTTTTAAAGTCCACAACTCCATGACACCCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
29985 CCTTTTAAGTCCACAACACCGTGGCATCC-TTTAAGTCCAGAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
30038 CCTTTTAAAGTCCACAACTTCGTGGC-GCTCTTTTAAGTTCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30093 CCTTTTAAGTCCACAACTCCGTGGCAT-CTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
30147 CCTTTTAAGTCCATAACTCCGTGGCATCCTTTCATGACCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30201 CCTATTAAGTCCATAAGTGCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* *
30255 CCTTTTAAGTCCACAAGTGCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30309 CCTTTTAAGTCCACAAGTCCGTGGTATCC-TTTAAGTCCACAACACCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * *
30362 CCTTTTAAGTCCAGAAGTTCGTGGCACCCTTTTAAAGTCCATAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * *
30417 CCTTTTAAGTCCACAACTCTGTGGCA-CTCTTTTAAGTCCACAAGTCCGTAGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30471 CCTTTTAAGTCCACAAGTTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGACAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
30526 CCTTTTAAAGTCCACAACTTCGTGGCAACCCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGC-ATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * * *
30582 CTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAATCCAGAAGTCTGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
** * * * *
30636 CCTTTTAAGTCCACAACTTTGTGGTACCCTTTTAAAGTCCAC-ACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
** * * *
30690 CCTTTTAAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACAAGTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
30744 CTTTTTAAGTCCATAACCCCGTGGCACCCTTTTAAAGTCCACAACTTCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
30799 CCTTTTAAGTCCACAACTCCATGGCA-CCCTTTAAGTCCACAACTCCATGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30851 TCTTTTAAATTCTATAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
30906 TCTTTTAAGTCCACAAGTCCGTAGCATCCTTTTAAGTCCATAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
30960 CCTTTTAAAGTCCACAACTCTGTGACACCCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
31016 CCTTTTAACTCCACAACTCTGTGGCATCTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * ** *
31070 CCTTTTAAATCCAGAAGTCTGTGGTATCCTTTTAAGTCCACAACTTTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* **
31124 CCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
31179 CCTTTTAAGTCCACAAGTCCGTGGCATCTTTTTAAGTCCATAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
31233 CCTTTTAAAGTCCAACAACTTCATGGCACCCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTT-AAGTCC-ACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
31289 CCTTTTAAGTCCACAACTCCATGGCAT-CTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
31343 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTCATGACCACAACTCCATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * **
31397 TCTTTTAAG-CTCACAAGTCAGTGGCA-CCTTTGCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAGTC-CACAACTCCGTGGCATCCTTT--TAAGTCCACAACTCCGTGGCAC
* * * * * * ** *
31452 CCTTTCAAAGTCCAC-AGTCAGTGACATCCTTTCAAAGCCCACGAA-TTAGTGACAC
1 CCTTT-TAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCAC-AACTCCGTGGCAC
* * * * * ** *
31507 CCTTTCAAAG-CTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAATGGTA-
1 CCTTT-TAAGTC-CACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCAC
* * * ** * * ** *
31562 TCTTTTCAAAAGCCCACAAGTTAGTGGCATCTTCTTTTTTAAAGCCCACAAGTTAGTGACAC
1 CCTTTT---AAGTCCACAACTCCGTGGCATC--C--TTTT-AAGTCCACAACTCCGTGGCAC
* **
31624 CCTTTTAAAGTCCACAAGTTAGTGGCATCCGTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCAC
31680 CCTTT
1 CCTTT
31685 CAAAACCCAC
Statistics
Matches: 1911, Mismatches: 277, Indels: 107
0.83 0.12 0.05
Matches are distributed among these distances:
52 53 0.03
53 175 0.09
54 883 0.46
55 529 0.28
56 191 0.10
57 32 0.02
58 2 0.00
59 1 0.00
60 22 0.01
61 18 0.01
62 5 0.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (54 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:31536 original size:56 final size:56
Alignment explanation
Indices: 31403--31725 Score: 298
Period size: 56 Copynumber: 5.7 Consensus size: 56
31393 GCATTCTTTT
31403 AAGCTCACAAGTCAGTGGCA-CCTTTGCAAAGCCCACAAGTTAGTGGCACCCTTTCA
1 AAGCTCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTTAGTGGCACCCTTTCA
* *
31459 AAG-TC-CACAGTCAGTGACATCCTTTCAAAGCCCACGAA-TTAGTGACACCCTTTCA
1 AAGCTCACA-AGTCAGTGGCATCCTTTCAAAGCCCAC-AAGTTAGTGGCACCCTTTCA
* * * * * *
31514 AAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAATGGTATCTTTTCAA
1 AAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTC-A
* * * * *
31571 AAGCCCACAAGTTAGTGGCATCTTCTTTTTTAAAGCCCACAAGTTAGTGACACCCTTTTA
1 AAGCTCACAAGTCAGTGGCATC--C--TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCA
* * * * **
31631 AAG-TCCACAAGTTAGTGGCATCCGTTT-TAAGTCCACAACTCCGTGGCACCCTTTCA
1 AAGCT-CACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCA
* * *
31687 AAACCCACAAGTCAGTGGCACCCTTCTCTAAAGCCCACA
1 AAGCTCACAAGTCAGTGGCATCCTT-TC-AAAGCCCACA
31726 CAAGTCGGTG
Statistics
Matches: 215, Mismatches: 36, Indels: 30
0.77 0.13 0.11
Matches are distributed among these distances:
54 2 0.01
55 45 0.21
56 88 0.41
57 26 0.12
58 9 0.04
59 1 0.00
60 21 0.10
61 23 0.11
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (56 bp):
AAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCA
Found at i:31606 original size:32 final size:29
Alignment explanation
Indices: 29379--31725 Score: 363
Period size: 27 Copynumber: 85.9 Consensus size: 29
29369 TCCACGATTC
* * * *
29379 AGTGGCATTCCTTTTAAAGTCCATAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
29408 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
29435 CGTGGCA-CCCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
29462 CGTGGCA-CCCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * *
29489 CGTGGTAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
29516 CGTGGCAT-CCTTTT-AAGTCCATAAGTG
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
29543 CGTGGCA-CCCTTTTAAAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* **
29572 A-TGGCAT-CCTTTT-AAGTCCACACCTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
29599 -GTGGCA-CTCTTTT-AAGTCCACAAGTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
** * *
29626 A-TAACA-CCCTTTTAAAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
29654 -GTGACA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
29681 CGTGGCA-CCCTTTT-AA-CTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGC-CCACAAGT-T
* *
29709 -GTGGCAT-CCTTTT---GTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
*
29734 -GTGGCA-CCCTTTT-AAGTCCACAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
*
29761 -GTGGCAT-CCTTTT-AAGTCCACAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * * *
29788 -GTGGTA-CCCTTTTAAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
29815 CGTGGTA-CCCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
29842 TGTGGCA--CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
29868 TGTGGCA-CCCTTTT-AAGTCCACAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * * *
29896 A-TGGCAT-CCTTTT-AAGTCCATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
29922 CGTGGCA-CCCTTTTAAAGTCCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
29951 A-TGACA-CCCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * ***
29977 TGTGGCA-CCCTTTT-AAGTCCACAACAC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30004 CGTGGCAT-CC-TTT-AAGTCCAGAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30030 CGTGGCA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * ** * *
30058 CGTGGC-GCTCTTTT-AAGTTCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30085 CGTGGCA-CCCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* ** * * * *
30112 CGTGGCAT--CTTTTAAATTCTATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * *
30139 CGTGGCAT-CCTTTT-AAGTCCATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * * *
30166 CGTGGCAT-CC-TTTCATGACCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * *
30193 CGTGGCAT-CCTATT-AAGTCCATAAGTG
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30220 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30247 CGTGGCA-CCCTTTT-AAGTCCACAAGTG
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30274 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30301 CGTGGCA-CCCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * ***
30328 CGTGGTAT-CC-TTT-AAGTCCACAACAC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30354 CGTGGCAT-CCTTTT-AAGTCCAGAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30381 CGTGGCA-CCCTTTTAAAGTCCATAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30409 CGTGGCAT-CCTTTT-AAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
30437 -GTGGCA-CTCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30463 CGTAGCAT-CCTTTT-AAGTCCACAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30490 CGTGGCA-CCCTTTTAAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30518 CGTGACA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30546 CGTGGCAACCCTTTT-AA-CTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGC-CCACAAGT-T
* * * *
30575 -GTGGCAT--CTTTTTAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30601 CGTGGCA-CCCTTTTAAA-TCCAGAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
30629 -GTGGTAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30655 TGTGGTA-CCCTTTTAAAGTCCAC-ACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30682 CGTGGCAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30709 TGTGGCA-CCCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * ***
30736 CGTGGCAT--CTTTTTAAGTCCATAACCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30763 CGTGGCA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30791 CA-TGGCA-CCCTTTT-AAGTCCACAACTCC
1 -AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
30819 A-TGGCA-CCC-TTT-AAGTCCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
** * * * *
30845 A-TGGCAT--CTTTTAAATTCTATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30871 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30898 CGTGGCA-CTCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
30925 CGTAGCAT-CCTTTT-AAGTCCATAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
30952 CGTGGCA-CCCTTTTAAAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
30981 -GTGACA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
31008 CGTGGCA-CCCTTTT-AA-CTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGC-CCACAAGT-T
* * * *
31036 -GTGGCAT--CTTTTTAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
31062 CGTGGCA-CCCTTTTAAA-TCCAGAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
31090 -GTGGTAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
31116 TGTGGTA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
31144 CGTGGCAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
31171 TGTGGCA-CCCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * ***
31198 CGTGGCAT--CTTTTTAAGTCCATAACCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
31225 CGTGGCA-CCCTTTTAAAGTCCAACAACTT
1 AGTGGCATCCCTTTTAAAG-CCCACAAGTT
* * *
31254 CA-TGGCA-CCCTTTT-AAGTCCACAACTCC
1 -AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
31282 A-TGGCA-CCCTTTT-AAGTCCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
** * * * *
31309 A-TGGCAT--CTTTTAAATTCTATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
31335 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * * *
31362 CGTGGCAT-CC-TTTCATGACCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
31390 A-TGGCAT-TCTTTT-AAGCTCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
*
31416 AGTGGCA--CCTTTGCAAAGCCCACAAGTT
1 AGTGGCATCCCTTT-TAAAGCCCACAAGTT
* * *
31444 AGTGGCA-CCCTTTCAAAGTCCAC-AGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
31471 AGTGACAT-CCTTTCAAAGCCCACGAA-TT
1 AGTGGCATCCCTTTTAAAGCCCAC-AAGTT
* * * *
31499 AGTGACA-CCCTTTCAAAGCTCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
31527 AGTGGCAT-CCTTTCAAAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
31555 AATGGTAT--CTTTTCAAAAGCCCACAAGTT
1 AGTGGCATCCCTTTT--AAAGCCCACAAGTT
*
31584 AGTGGCATCTTCTTTTTTAAAGCCCACAAGTT
1 AGTGGCATC--C-CTTTTAAAGCCCACAAGTT
* *
31616 AGTGACA-CCCTTTTAAAGTCCACAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
31644 AGTGGCATCCGTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
31672 CGTGGCA-CCCTTTCAAAACCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
31700 AGTGGCA-CCCTTCTCTAAAGCCCACA
1 AGTGGCATCCCTT-T-TAAAGCCCACA
31726 CAAGTCGGTG
Statistics
Matches: 1946, Mismatches: 231, Indels: 281
0.79 0.09 0.11
Matches are distributed among these distances:
25 23 0.01
26 154 0.08
27 1145 0.59
28 524 0.27
29 66 0.03
30 9 0.00
31 1 0.00
32 20 0.01
34 4 0.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (29 bp):
AGTGGCATCCCTTTTAAAGCCCACAAGTT
Found at i:31713 original size:117 final size:117
Alignment explanation
Indices: 31403--31713 Score: 329
Period size: 117 Copynumber: 2.7 Consensus size: 117
31393 GCATTCTTTT
* * * * *
31403 AAGCTCACAAGTCAGTGGCA-CCTTTGCAAAGCCCACAAGTTAGTGGCACCCTTTC-AAAGTCCA
1 AAGCTCACAAGTCAGTGGCATCCTTT-CAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCCA
* * *
31466 C-AGTCAGT-G-A-CATC-CTTTCAAAGCCCACGAATTAGTGACACCCTTTCA
65 CAAGTCAGTGGCACCTTCTTTTTTAAAGCCCACGAATTAGTGACACCCTTTCA
* * * *
31514 AAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAATGGTATCTTTTCAAAAGCCCAC
1 AAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCCAC
* * *
31579 AAGTTAGTGGCATCTTCTTTTTTAAAGCCCAC-AAGTTAGTGACACCCTTTTA
66 AAGTCAGTGGCACCTTCTTTTTTAAAGCCCACGAA-TTAGTGACACCCTTTCA
* * **
31631 AAG-TCCACAAGTTAGTGGCATCCGTTT-TAAGTCCACAACTCCGTGGCACCCTTTCAAAA-CCC
1 AAGCT-CACAAGTCAGTGGCATCC-TTTCAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCC
31693 ACAAGTCAGTGGCACCCTTCT
64 ACAAGTCAGTGGCA-CCTTCT
31714 CTAAAGCCCA
Statistics
Matches: 167, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
111 43 0.26
112 13 0.08
113 6 0.04
114 1 0.01
115 1 0.01
116 22 0.13
117 78 0.47
118 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (117 bp):
AAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCCAC
AAGTCAGTGGCACCTTCTTTTTTAAAGCCCACGAATTAGTGACACCCTTTCA
Found at i:31737 original size:32 final size:31
Alignment explanation
Indices: 31692--31857 Score: 183
Period size: 32 Copynumber: 5.2 Consensus size: 31
31682 TTTCAAAACC
*
31692 CACAAGTCAGTGGC-ACCCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCC-TCTC-AAAGCCCA
*
31724 CACAAGTCGGTGGCAACCCTCTCCAAAGTCCA
1 CACAAGTCGGTGGCAACCCTCT-CAAAGCCCA
* *
31756 CACAAGTCGCTAGCAACCC-CATTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTC--TCAAAGCCCA
* *
31788 CACAAGTCGGTGGCAACCCTCTCCAAGTCCA
1 CACAAGTCGGTGGCAACCCTCTCAAAGCCCA
* * *
31819 CACAAGTCGCTGGCAACCCCCTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTC-TCAAAGCCCA
31851 CACAAGT
1 CACAAGT
31858 TGTGGCATTT
Statistics
Matches: 114, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
31 28 0.25
32 79 0.69
33 7 0.06
ACGTcount: A:0.30, C:0.39, G:0.16, T:0.16
Consensus pattern (31 bp):
CACAAGTCGGTGGCAACCCTCTCAAAGCCCA
Found at i:31761 original size:64 final size:63
Alignment explanation
Indices: 31692--31857 Score: 232
Period size: 64 Copynumber: 2.6 Consensus size: 63
31682 TTTCAAAACC
31692 CACAAGTCAG-TGGC-ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCC
1 CACAAGTC-GCTGGCAACCC-TCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCC-AAGTCC
31755 A
63 A
*
31756 CACAAGTCGCTAGCAACCC-CAT-TCAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAGTCCA
1 CACAAGTCGCTGGCAACCCTC-TCT-AAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAGTCCA
* *
31819 CACAAGTCGCTGGCAACCCCCTTTAAAGCCCACACAAGT
1 CACAAGTCGCTGGCAACCCTCTCTAAAGCCCACACAAGT
31858 TGTGGCATTT
Statistics
Matches: 94, Mismatches: 2, Indels: 13
0.86 0.02 0.12
Matches are distributed among these distances:
63 44 0.47
64 46 0.49
65 4 0.04
ACGTcount: A:0.30, C:0.39, G:0.16, T:0.16
Consensus pattern (63 bp):
CACAAGTCGCTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAGTCCA
Found at i:31848 original size:63 final size:64
Alignment explanation
Indices: 31715--31857 Score: 252
Period size: 63 Copynumber: 2.2 Consensus size: 64
31705 CACCCTTCTC
31715 TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
* * *
31779 CAAAGCCCACACAAGTCGGTGGCAACCCTCTCC-AAGTCCACACAAGTCGCTGGCAACCCCCTT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
31842 TAAAGCCCACACAAGT
1 TAAAGCCCACACAAGT
31858 TGTGGCATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
63 43 0.57
64 32 0.43
ACGTcount: A:0.31, C:0.38, G:0.16, T:0.15
Consensus pattern (64 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
Done.