Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold496
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: 765014
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 5 of 7
Found at i:390534 original size:20 final size:19
Alignment explanation
Indices: 390493--390538 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
390483 TTTTCACTAC
*
390493 AAAAT-AAA-AAAAATTTA
1 AAAATAAAATAAAAATATA
390510 AAAATAAAATAAAAATATA
1 AAAATAAAATAAAAATATA
390529 ATAAATAAAA
1 A-AAATAAAA
390539 AAATATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 3 0.12
19 9 0.36
20 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATAAAATAAAAATATA
Found at i:390651 original size:13 final size:12
Alignment explanation
Indices: 390630--390671 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
390620 TTTTAAAATT
390630 TTTTAAAGATAA
1 TTTTAAAGATAA
390642 TTTTAGAAGATAA
1 TTTTA-AAGATAA
*
390655 TTATTAAAGATGA
1 TT-TTAAAGATAA
390668 TTTT
1 TTTT
390672 TTGTTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 7 0.26
13 17 0.63
14 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (12 bp):
TTTTAAAGATAA
Found at i:390689 original size:55 final size:53
Alignment explanation
Indices: 390597--390699 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 53
390587 TCTTAATTTA
390597 ATAATATTAAAGATGGATATTATTTTTAAAATTTTTTAAAGATAATTTTAGAAG
1 ATAATATTAAAGATGGATATTATTTTTAAAATTTTTTAAAGA-AATTTTAGAAG
* * *
390651 ATAATTATTAAAGAT-GATTTTTTGTTTTCAAAA-TTTTTAAATAAATTTT
1 ATAA-TATTAAAGATGGATATTAT-TTTT-AAAATTTTTTAAAGAAATTTT
390700 TTATCATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
54 16 0.37
55 23 0.53
56 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.49
Consensus pattern (53 bp):
ATAATATTAAAGATGGATATTATTTTTAAAATTTTTTAAAGAAATTTTAGAAG
Found at i:392887 original size:2 final size:2
Alignment explanation
Indices: 392880--392913 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
392870 CAGTATCAAG
*
392880 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
392914 CAAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:393605 original size:19 final size:21
Alignment explanation
Indices: 393559--393604 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
393549 TAAGATATTT
*
393559 TATAT-TTATATAAATTTTGA
1 TATATATTATATAAATTTCGA
393579 TATATATTATATAAATTTCGA
1 TATATATTATATAAATTTCGA
*
393600 AATAT
1 TATAT
393605 TCATGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
TATATATTATATAAATTTCGA
Found at i:393663 original size:16 final size:17
Alignment explanation
Indices: 393644--393675 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
393634 TTTAATTAAT
393644 TTTTATATC-ATATTTA
1 TTTTATATCAATATTTA
393660 TTTTATATCAATATTT
1 TTTTATATCAATATTT
393676 CATATCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATATCAATATTTA
Found at i:393714 original size:2 final size:2
Alignment explanation
Indices: 393707--393767 Score: 72
Period size: 2 Copynumber: 31.0 Consensus size: 2
393697 TCACATGTGT
* * *
393707 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TG T- TGA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
393748 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
393768 ATTTGTGTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
1 2 0.04
2 49 0.94
3 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:393757 original size:33 final size:33
Alignment explanation
Indices: 393710--393773 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
393700 CATGTGTTAT
*
393710 ATATATATATATATATATATATATTATTTGTTG
1 ATATATATATATATATATATATATAATTTGTTG
*
393743 ATATCTATATATATATATATATATAATTTGT
1 ATATATATATATATATATATATATAATTTGT
393774 GTCTTTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (33 bp):
ATATATATATATATATATATATATAATTTGTTG
Found at i:395355 original size:29 final size:29
Alignment explanation
Indices: 395314--395370 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
395304 ATATTAATAT
395314 TTATATATTTATAAAAATTAAAATTAAAA
1 TTATATATTTATAAAAATTAAAATTAAAA
* *
395343 TTATAT-TTATATATAAATTAAATTTAAA
1 TTATATATT-TATAAAAATTAAAATTAAA
395371 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTATATATTTATAAAAATTAAAATTAAAA
Found at i:395370 original size:35 final size:36
Alignment explanation
Indices: 395301--395370 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
395291 AAACATATTT
* **
395301 TTAATATTAATATTTATATATTTATAAAAATTAAAA
1 TTAAAATTAATATTTATATATAAATAAAAATTAAAA
* *
395337 TTAAAATT-ATATTTATATATAAATTAAATTTAAA
1 TTAAAATTAATATTTATATATAAATAAAAATTAAA
395371 TAATTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
TTAAAATTAATATTTATATATAAATAAAAATTAAAA
Found at i:395543 original size:13 final size:14
Alignment explanation
Indices: 395490--395544 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
395480 AAGTTTAATT
**
395490 TATAAAAATATTTT
1 TATAAAAATATTAA
**
395504 TATTTAAATA-TAA
1 TATAAAAATATTAA
395517 TTATAAAAATATTAA
1 -TATAAAAATATTAA
395532 TATAAAAA-ATTAA
1 TATAAAAATATTAA
395545 AAATCATTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
13 6 0.18
14 24 0.73
15 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAAAAATATTAA
Found at i:396260 original size:3 final size:3
Alignment explanation
Indices: 396252--396288 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
396242 CTGTATCAGT
*
396252 TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
396289 TCAAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:396393 original size:3 final size:3
Alignment explanation
Indices: 396387--396415 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
396377 TTTTATTATG
396387 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
396416 AAAGAGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:399420 original size:21 final size:21
Alignment explanation
Indices: 399395--399451 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
399385 TTTGTTTTCT
* *
399395 TTTTCTCTACTTCAGCTTTGA
1 TTTTCTCTAATTCAACTTTGA
* **
399416 TTTTCTATGTTTCAACTTTGA
1 TTTTCTCTAATTCAACTTTGA
399437 TTTTGCTCTAATTCA
1 TTTT-CTCTAATTCA
399452 TATCATTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.18, C:0.19, G:0.09, T:0.54
Consensus pattern (21 bp):
TTTTCTCTAATTCAACTTTGA
Found at i:400717 original size:59 final size:59
Alignment explanation
Indices: 400654--400834 Score: 168
Period size: 59 Copynumber: 3.1 Consensus size: 59
400644 AATTTCCATA
** * * *
400654 CATTTTGAGGTTATTTTTGTTATTTTCCATAGTCTAGGGACCATGTAGTAATTTTTATG
1 CATTTTGAGGTTATTTAAGTTATTTTTCATAATCTAGGGACCATGTAGAAATTTTTATG
* ** * * *
400713 CATTTTTAGACTATTTAAGTTATTTTTCATAATCTAGAGACTA-GTTAGAAATTTTCATG
1 CATTTTGAGGTTATTTAAGTTATTTTTCATAATCTAGGGACCATG-TAGAAATTTTTATG
** * * * * * *
400772 TTTTTTGAGGTCATTCAAGTTATTTTTCATAATCTAAGAACCAT-TAGCAATTTGTATG
1 CATTTTGAGGTTATTTAAGTTATTTTTCATAATCTAGGGACCATGTAGAAATTTTTATG
400830 CATTT
1 CATTT
400835 ATGGATCATT
Statistics
Matches: 93, Mismatches: 27, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
58 15 0.16
59 78 0.84
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (59 bp):
CATTTTGAGGTTATTTAAGTTATTTTTCATAATCTAGGGACCATGTAGAAATTTTTATG
Found at i:403557 original size:20 final size:20
Alignment explanation
Indices: 403534--403608 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
403524 AAGTACCCAG
403534 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
403554 ATGTATTGATATATGTATGA
1 ATGTATCGATACATTTTTCA
* *
403574 ATGTATCGATAAATTCTTCA
1 ATGTATCGATACATTTTTCA
*
403594 ATATATCGATACATT
1 ATGTATCGATACATT
403609 CTATCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:412016 original size:27 final size:28
Alignment explanation
Indices: 411986--412690 Score: 206
Period size: 27 Copynumber: 25.7 Consensus size: 28
411976 CGTGGTATTC
* *
411986 CTTTTAGGTCCACAACTTC-GTGATACT
1 CTTTTAAGTCCACAACTTCTGTGATACA
*
412013 CTTTTAAGTCCACAAC-TCTGTGGTACA
1 CTTTTAAGTCCACAACTTCTGTGATACA
*
412040 CTTTTAAGTCCACAACTCCATG-GCA-AC-
1 CTTTTAAGTCCACAACTTC-TGTG-ATACA
* *
412067 CTTTTCAAGTCCACAACTCCATG-G-CAC-
1 CTTTT-AAGTCCACAACTTC-TGTGATACA
* *
412094 CTTTTTAAAATCCACAAC-TCCGTGGCA-AC-
1 C-TTTT-AAGTCCACAACTTCTGT-G-ATACA
* ** *
412123 CTTTTAAGTCCACAAC-TCCGTGGCACC
1 CTTTTAAGTCCACAACTTCTGTGATACA
**
412150 CTTTTAAAGTCCACAAC-TCTGTGGCACA
1 CTTTT-AAGTCCACAACTTCTGTGATACA
* *
412178 CTTTTAAGTCCATAGCTTC-GTGGCA-AC-
1 CTTTTAAGTCCACAACTTCTGT-G-ATACA
* *
412205 CTTTTAAAGTCTACAAC-TCCGTGGCA-AC-
1 CTTTT-AAGTCCACAACTTCTGT-G-ATACA
* * ** *
412233 CTTTTAAAGTCTACAAC-TCCGTGGCACC
1 CTTTT-AAGTCCACAACTTCTGTGATACA
* *
412261 CTTTTAAAGTCCACTAC-TCCGTGGCA-AC-
1 CTTTT-AAGTCCACAACTTCTGT-G-ATACA
* * *
412289 CTTTTAAGTCCACAACTTC-ATGACACG
1 CTTTTAAGTCCACAACTTCTGTGATACA
* * ** *
412316 CTTTTAAGTCCACAGC-TCCGTGGCACC
1 CTTTTAAGTCCACAACTTCTGTGATACA
* *
412343 CTTTTAAAGTCCACAAC-TCCGTGGTA-A
1 CTTTT-AAGTCCACAACTTCTGTGATACA
* **
412370 CCTTTTAAGTCCACAAC-TCCGTGGCACA
1 -CTTTTAAGTCCACAACTTCTGTGATACA
*
412398 CTTTTAAGTCCACAAC-TCCGTGGCAT-C-
1 CTTTTAAGTCCACAACTTCTGT-G-ATACA
* ** *
412425 CTTTTAAAGTCCACAAC-TCCGTGGCACC
1 CTTTT-AAGTCCACAACTTCTGTGATACA
* *
412453 CTTTAAAGTCCACAACTCCATG-GCAT-C-
1 CTTTTAAGTCCACAACTTC-TGTG-ATACA
* *
412480 CTTTTAAAGTCCACAAC-TCTGTGGTACC
1 CTTTT-AAGTCCACAACTTCTGTGATACA
* *
412508 CTTTTAAGTCCACAAC-TCTGTGGTACC
1 CTTTTAAGTCCACAACTTCTGTGATACA
*
412535 CTTTTAAGTTCACAAC-TCTGTGGCAT-C-
1 CTTTTAAGTCCACAACTTCTGT-G-ATACA
* ****
412562 CGTTTTAAGTCCACAAC-TCCGTGACGTT
1 C-TTTTAAGTCCACAACTTCTGTGATACA
** ** *
412590 CTTTTAAAGTCCACAA-TTCCATGGCACC
1 CTTTT-AAGTCCACAACTTCTGTGATACA
** *
412618 CTTTTAAGTCCACAACTTC-GTGGCACT
1 CTTTTAAGTCCACAACTTCTGTGATACA
* *
412645 CTTTTAAGTCCATAAC-TCCGTGGCAT-C-
1 CTTTTAAGTCCACAACTTCTGT-G-ATACA
*
412672 TTTTTAAGTCCACAACTTC
1 CTTTTAAGTCCACAACTTC
412691 ATGGCATCCT
Statistics
Matches: 561, Mismatches: 63, Indels: 107
0.77 0.09 0.15
Matches are distributed among these distances:
25 1 0.00
26 17 0.03
27 283 0.50
28 250 0.45
29 10 0.02
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (28 bp):
CTTTTAAGTCCACAACTTCTGTGATACA
Found at i:412083 original size:55 final size:54
Alignment explanation
Indices: 412013--412785 Score: 806
Period size: 55 Copynumber: 14.1 Consensus size: 54
412003 TCGTGATACT
* * *
412013 CTTTTAAGTCCACAACTCTGTGGTACACTTTT-AAGTCCACAACTCCATGGCAAC
1 CTTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCCACAACTCCGTGGCAAC
* *
412067 CTTTTCAAGTCCACAACTCCATGGCACCTTTTTAAAATCCACAACTCCGTGGCAAC
1 CTTTT-AAGTCCACAACTCCGTGGCACC-TTTTAAAGTCCACAACTCCGTGGCAAC
*
412123 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGC-AC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCAAC
* * * *
412177 ACTTTTAAGTCCATAGCTTCGTGGCAACCTTTTAAAGTCTACAACTCCGTGGCAAC
1 -CTTTTAAGTCCACAACTCCGTGGC-ACCTTTTAAAGTCCACAACTCCGTGGCAAC
* *
412233 CTTTTAAAGTCTACAACTCCGTGGCACCCTTTTAAAGTCCACTACTCCGTGGCAAC
1 CTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCAAC
* * * * *
412289 CTTTTAAGTCCACAACTTCATGACACGCTTTT-AAGTCCACAGCTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCCACAACTCCGTGGCAAC
*
412343 CTTTTAAAGTCCACAACTCCGTGGTAACCTTTT-AAGTCCACAACTCCGTGGC-AC
1 CTTTT-AAGTCCACAACTCCGTGG-CACCTTTTAAAGTCCACAACTCCGTGGCAAC
*
412397 ACTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACC
1 -CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCAAC
* * * * *
412453 CTTTAAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAACTCTGTGGTACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCAAC
* * * * *
412508 CTTTTAAGTCCACAACTCTGTGGTACCCTTTT-AAGTTCACAACTCTGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCAAC
* ** * * *
412562 CGTTTTAAGTCCACAACTCCGTGACGTTCTTTTAAAGTCCACAATTCCATGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGC-ACCTTTTAAAGTCCACAACTCCGTGGCAAC
* * *
412618 CTTTTAAGTCCACAACTTCGTGGCACTCTTTT-AAGTCCATAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCCACAACTCCGTGGCAAC
* * * * * * *
412672 TTTTTAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGTCAGTGGC-AC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCAAC
* * * * * * * * *
412726 CTTTCCAAAGTCCATAACTTCGTAGCATCCTTTTTAAGCCCACAAGTCAGTGGCACC
1 CTTT--TAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCAAC
412783 CTT
1 CTT
412786 CCAAAGCCCA
Statistics
Matches: 617, Mismatches: 77, Indels: 47
0.83 0.10 0.06
Matches are distributed among these distances:
53 1 0.00
54 128 0.21
55 342 0.55
56 142 0.23
57 4 0.01
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCAAC
Found at i:412695 original size:27 final size:27
Alignment explanation
Indices: 411987--412827 Score: 746
Period size: 28 Copynumber: 30.5 Consensus size: 27
411977 GTGGTATTCC
* * **
411987 TTTTAGGTCCACAACTTCGTGATA-CT
1 TTTTAAGTCCACAACTCCGTGGCACCT
* *
412013 CTTTTAAGTCCACAACTCTGTGGTACAC-
1 -TTTTAAGTCCACAACTCCGTGGCAC-CT
*
412041 TTTTAAGTCCACAACTCCATGGCAACCT
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* *
412069 TTTCAAGTCCACAACTCCATGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
412096 TTTTAAAATCCACAACTCCGTGGCAACC-
1 TTTT-AAGTCCACAACTCCGTGGC-ACCT
412124 TTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* *
412152 TTTAAAGTCCACAACTCTGTGGCACAC-
1 TTTTAAGTCCACAACTCCGTGGCAC-CT
* * *
412179 TTTTAAGTCCATAGCTTCGTGGCAACCT
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* *
412207 TTTAAAGTCTACAACTCCGTGGCAACCT
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* *
412235 TTTAAAGTCTACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* *
412263 TTTAAAGTCCACTACTCCGTGGCAACC-
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* * *
412290 TTTTAAGTCCACAACTTCATGACACGC-
1 TTTTAAGTCCACAACTCCGTGGCAC-CT
*
412317 TTTTAAGTCCACAGCTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* *
412345 TTTAAAGTCCACAACTCCGTGGTAACC-
1 TTTTAAGTCCACAACTCCGTGG-CACCT
412372 TTTTAAGTCCACAACTCCGTGGCACAC-
1 TTTTAAGTCCACAACTCCGTGGCAC-CT
412399 TTTTAAGTCCACAACTCCGTGGCATCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* *
412427 TTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
* *
412454 TTTAAAGTCCACAACTCCATGGCATCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* * * *
412482 TTTAAAGTCCACAACTCTGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
* * *
412509 TTTTAAGTCCACAACTCTGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
* * *
412536 TTTTAAGTTCACAACTCTGTGGCATCCG
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* **
412564 TTTTAAGTCCACAACTCCGTGACGTTCT
1 TTTTAAGTCCACAACTCCGTGGC-ACCT
* * * *
412592 TTTAAAGTCCACAATTCCATGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
412619 TTTTAAGTCCACAACTTCGTGGCA-CT
1 TTTTAAGTCCACAACTCCGTGGCACCT
* *
412645 CTTTTAAGTCCATAACTCCGTGGCATCT
1 -TTTTAAGTCCACAACTCCGTGGCACCT
* *
412673 TTTTAAGTCCACAACTTCATGGCATCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* * *
412701 TTTTAAGCCCACAAGTCAGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
** * * *
412728 TTCCAAAGTCCATAACTTCGTAGCATCCT
1 TT-TTAAGTCCACAACTCCGTGGCA-CCT
* * *
412757 TTTTAAGCCCACAAGTCAGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
*** * * *
412785 TCCAAAGCCCACAAGTCAGTGGCACCCCT
1 TTTTAAGTCCACAACTCCGTGGCA--CCT
*
412814 TTTTAAGCCCACAA
1 TTTTAAGTCCACAA
412828 GCCAGTGGCA
Statistics
Matches: 681, Mismatches: 104, Indels: 56
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.01
27 320 0.47
28 329 0.48
29 26 0.04
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCT
Found at i:412794 original size:28 final size:28
Alignment explanation
Indices: 412335--413228 Score: 360
Period size: 28 Copynumber: 31.3 Consensus size: 28
412325 CCACAGCTCC
* * * *
412335 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * *
412363 GTGGTAACCTTT-TAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
412390 GTGGCACACTTT-TAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
412417 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
412445 GTGGCACCCTTT-AAAGTCCACAACTCCA
1 GTGGCACCCTTTCAAAGCCCACAAGT-CA
* * * * *
412473 -TGGCATCCTTTTAAAGTCCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
412500 GTGGTACCCTTT-TAAGTCCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * ** * *
412527 GTGGTACCCTTT-TAAGTTCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
412554 GTGGCATCCGTTT-TAAGTCCACAACTCC
1 GTGGCA-CCCTTTCAAAGCCCACAAGTCA
* *** * * *
412582 GTGACGTTCTTTTAAAGTCCACAATTCCA
1 GTGGCACCCTTTCAAAGCCCACAAGT-CA
* * *
412611 -TGGCACCCTTT-TAAGTCCACAACTTC-
1 GTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * * * *
412637 GTGGCACTCTTT-TAAGTCCATAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* ** * *
412664 GTGGCA-TCTTTTTAAGTCCACAACTTCA
1 GTGGCACCCTTTCAAAGCCCACAA-GTCA
* **
412692 -TGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
412719 GTGGCA-CCTTTCCAAAGTCCATAACTTC-
1 GTGGCACCCTTT-CAAAGCCCACAA-GTCA
* * **
412747 GTAGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
412775 GTGGCACCCTTCCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
** *
412803 GTGGCACCCCTTTTTAAGCCCACAAGCCA
1 GTGGCA-CCCTTTCAAAGCCCACAAGTCA
***
412832 GTGGCATTATTTCAAAGCCCACACAAGTCA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
*
412862 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
* * *
412894 GTGGCAACCCATTTGAAAGCCCACACAATTCG
1 GTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
* * **
412926 GTGGCAACCTATTTCAAAACTCACACAAGTTG
1 GTGGC-ACC-CTTTCAAAGC-C-CACAAGTCA
412958 GTGGCAACCCATTTCAAAGCCCACAAGTCA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCA
* *
412988 GTGGCATCCTTCTCAAAGCCCATACAAATCA
1 GTGGCACCCTT-TCAAAGCCC--ACAAGTCA
* * * *
413019 GTGGCATCTTTTCAAAGCTCACAAATCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* ** * *
413047 ATGATATCCTTTCAAAGCCCACAAATCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
413075 GTGACATCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
** *
413103 GTGGCATGCTTTTAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
413131 GTGGCATCTTTTCAAAGCTCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* **
413159 GTGGCATCCTTTCAAAGCTCACACAAGTTG
1 GTGGCACCCTTTCAAAGC-C-CACAAGTCA
* *
413189 GTGGCAACTCTCTTCAAAGCCCACATAAGTTA
1 GTGGC-ACCCT-TTCAAAGCCCAC--AAGTCA
413221 GTGGCACC
1 GTGGCACC
413229 TTTTTTTTTA
Statistics
Matches: 720, Mismatches: 111, Indels: 67
0.80 0.12 0.07
Matches are distributed among these distances:
26 7 0.01
27 182 0.25
28 301 0.42
29 46 0.06
30 49 0.07
31 26 0.04
32 109 0.15
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:412930 original size:64 final size:64
Alignment explanation
Indices: 412840--412993 Score: 231
Period size: 64 Copynumber: 2.4 Consensus size: 64
412830 CAGTGGCATT
*
412840 ATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCC
* * * * * *
412904 ATTTGAAAGCCCACACAATTCGGTGGCAACCTATTTCAAAACTCACACAAGTTGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCC
412968 ATTTCAAAG-CC-CACAAGTCAGTGGCA
1 ATTTCAAAGCCCACACAAGTCAGTGGCA
412994 TCCTTCTCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 13 0.16
63 2 0.03
64 65 0.81
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.19
Consensus pattern (64 bp):
ATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCC
Found at i:412951 original size:96 final size:91
Alignment explanation
Indices: 412766--413136 Score: 260
Period size: 96 Copynumber: 4.2 Consensus size: 91
412756 TTTTTAAGCC
* * **
412766 CACAAGTCAGTGGC-ACCC-TTCCAAAG-CC-CACAAGTCAGTGGCACCCCTTTTTAAGCCCACA
1 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTTGAAAGCCCACA
* *
412827 AGCCAGTGGCATTATTTCAAAGCCCA
66 AGCCAGTGGCACTATTTCAAAACCCA
*
412853 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCAC
1 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCCATTTGAAAG-CC-C
** * *
412918 ACAATTCGGTGGCAACCTATTTCAAAACTCA
63 ACAAGCCAGTGGC-A-CTATTTCAAAACCCA
** * *
412949 CACAAGTTGGTGGCAACCCATTTCAAAG-CC-CACAAGTCAGTGGCATCC-TTCTCAAAGCCCAT
1 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATT-TGAAAGCCC--
** * *
413011 ACAAATCAGTGGCATCT-TTTCAAAGCTCA
63 ACAAGCCAGTGGCA-CTATTTCAAAACCCA
* * * * *
413040 CA-AA-TCAAT-G-ATATCC-TTTCAAAGCCCACA-AA-TCAGTGACATCC-TTTCAAAGCCCAC
1 CACAAGTCAGTGGCA-ACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTTGAAAGCCCAC
* *
413097 AAGTCAGTGGCATGCT-TTT--AAAGCC-
65 AAGCCAGTGGCA--CTATTTCAAAACCCA
413122 CACAAGTCAGTGGCA
1 CACAAGTCAGTGGCA
413137 TCTTTTCAAA
Statistics
Matches: 233, Mismatches: 31, Indels: 41
0.76 0.10 0.13
Matches are distributed among these distances:
82 2 0.01
83 5 0.02
84 17 0.07
85 6 0.03
86 10 0.04
87 36 0.15
88 12 0.05
89 11 0.05
90 4 0.02
91 27 0.12
92 17 0.07
93 21 0.09
94 24 0.10
95 3 0.01
96 38 0.16
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (91 bp):
CACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTTGAAAGCCCACA
AGCCAGTGGCACTATTTCAAAACCCA
Found at i:413365 original size:25 final size:25
Alignment explanation
Indices: 413337--413409 Score: 82
Period size: 25 Copynumber: 3.1 Consensus size: 25
413327 TGGCACTTTT
413337 ATTAGCTCAATGTCGCTGGCCTTGA
1 ATTAGCTCAATGTCGCTGGCCTTGA
* * * *
413362 ATTAGCACATTGTC-C--ACCTT-T
1 ATTAGCTCAATGTCGCTGGCCTTGA
413383 ATTAGCTCAATGTCGCTGGCCTTGA
1 ATTAGCTCAATGTCGCTGGCCTTGA
413408 AT
1 AT
413410 CAACACATTG
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
21 12 0.33
22 5 0.14
24 5 0.14
25 14 0.39
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
ATTAGCTCAATGTCGCTGGCCTTGA
Found at i:413396 original size:21 final size:23
Alignment explanation
Indices: 413334--413398 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 23
413324 TATTGGCACT
*
413334 TTTATTAGCTCAATGTCGCTGGCC
1 TTTATTAGCTCAATGTCGC-GACC
* * *
413358 TTGAATTAGCACATTGTC-C-ACC
1 TT-TATTAGCTCAATGTCGCGACC
413380 TTTATTAGCTCAATGTCGC
1 TTTATTAGCTCAATGTCGC
413399 TGGCCTTGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
21 12 0.38
22 5 0.16
24 3 0.09
25 12 0.38
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (23 bp):
TTTATTAGCTCAATGTCGCGACC
Found at i:413444 original size:23 final size:23
Alignment explanation
Indices: 413418--413492 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
413408 ATCAACACAT
413418 TGTCCACTTTTCCTTTAGCTCAA
1 TGTCCACTTTTCCTTTAGCTCAA
* ** *
413441 TGT-CGC-TGGCCTTGAATCAGCACAA
1 TGTCCACTTTTCCTT---T-AGCTCAA
*
413466 TGTCCACTTTTCCCTTAGCTCAA
1 TGTCCACTTTTCCTTTAGCTCAA
413489 TGTC
1 TGTC
413493 GCTGGCCATG
Statistics
Matches: 37, Mismatches: 9, Indels: 12
0.64 0.16 0.21
Matches are distributed among these distances:
21 5 0.14
22 2 0.05
23 13 0.35
24 2 0.05
25 9 0.24
26 2 0.05
27 4 0.11
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.36
Consensus pattern (23 bp):
TGTCCACTTTTCCTTTAGCTCAA
Found at i:413455 original size:48 final size:48
Alignment explanation
Indices: 413304--413707 Score: 532
Period size: 48 Copynumber: 8.5 Consensus size: 48
413294 AAGTTCGATA
* * * *
413304 TCGCTGGCATTGAATCAGCATATTG-GCACTTTT--ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * *
413349 TCGCTGGCCTTGAATTAGCACATTGTCCACCTTT--ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* *
413395 TCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCTTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
*
413443 TCGCTGGCCTTGAATCAGCACAATGTCCACTTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * *
413491 TCGCTGGCCATGAATCAGCACATTGTACACTTTTCCCTTGGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
** *
413539 TCATTGGCCTTGAATCAGCACAATGTCCACTTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* *
413587 TCGCTGGCCTTGAATCAGCATATTGTCCACTTTTCCCTTGGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * *
413635 TCGTTGGCCTTGAATCAGCACAATGTCCACTTTTCCCTT-GACCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAG-CTCAATG
* * **
413683 TTGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
413708 GCACTCCTCC
Statistics
Matches: 320, Mismatches: 35, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
45 22 0.07
46 49 0.15
47 1 0.00
48 248 0.77
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
Found at i:414442 original size:20 final size:20
Alignment explanation
Indices: 414419--414544 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 20
414409 AAAGTACCCA
414419 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * * *
414439 AATGTATTGATATATGTATG
1 AATGTATCGATACATTTTTC
*
414459 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
414479 AATGTATCGATACATTCTATCTTTTTACC
1 AATGTATCGAT--A--C-A--TTTTT--C
414508 TAGATGTATCGATACATTTTTC
1 -A-ATGTATCGATACATTTTTC
414530 AATGTATCGATACAT
1 AATGTATCGATACAT
414545 CTAGTTAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
20 54 0.65
21 1 0.01
22 2 0.02
24 6 0.07
25 1 0.01
26 1 0.01
27 5 0.06
29 2 0.02
30 1 0.01
31 10 0.12
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:418154 original size:52 final size:50
Alignment explanation
Indices: 418093--418262 Score: 187
Period size: 52 Copynumber: 3.3 Consensus size: 50
418083 GAAATAACGA
* *
418093 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCG
* * * * *
418144 GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 G-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATC-G
*** * *
418197 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGTCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCG
418247 AGGTTGGAGTATCCCC
1 -GGTTGGAGTATCCCC
418263 TCGGAAATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
50 1 0.01
51 36 0.37
52 49 0.50
53 12 0.12
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCG
Found at i:418282 original size:28 final size:27
Alignment explanation
Indices: 418248--418319 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
418238 ATAAAGTCGA
**
418248 GGTTGGAGTATCCCCTCGGAAATAACGG
1 GGTTGGAGTATCCCCGAGG-AATAACGG
* *
418276 GGTTGGAGTATCCCCGATGATTAACGG
1 GGTTGGAGTATCCCCGAGGAATAACGG
*
418303 GGTTGGAGTGTCCCCGA
1 GGTTGGAGTATCCCCGA
418320 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGAGGAATAACGG
Found at i:418385 original size:211 final size:211
Alignment explanation
Indices: 418037--418426 Score: 595
Period size: 211 Copynumber: 1.8 Consensus size: 211
418027 ATAATAACGG
* * * *
418037 GGTTGGAGTGTTCCCTCGGAAGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
* *
418102 ATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTAAA
66 ATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
** * *
418167 GGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATT
131 GGAAAATTAATGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAAAATCAATATT
418232 TTAGAAATAAAGTCGA
196 TTAGAAATAAAGTCGA
* *
418248 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
* *
418312 GTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
66 ATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
* * *
418377 TA-GAAAATTAATGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATT
129 AAGGAAAATTAATGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATT
418427 GTGGAGAATT
Statistics
Matches: 160, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
210 28 0.17
211 93 0.58
212 39 0.24
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (211 bp):
GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGT
ATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
GGAAAATTAATGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAAAATCAATATT
TTAGAAATAAAGTCGA
Found at i:420810 original size:13 final size:13
Alignment explanation
Indices: 420792--420817 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
420782 ACAAAGATCC
420792 ATGTATCGATACA
1 ATGTATCGATACA
420805 ATGTATCGATACA
1 ATGTATCGATACA
420818 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:420817 original size:33 final size:33
Alignment explanation
Indices: 420775--420837 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
420765 TTTTCAAATT
***
420775 TATCGATACAAAGATCCATGTATCGATACAATG
1 TATCGATACAAAGAAAAATGTATCGATACAATG
*
420808 TATCGATACACAGAAAAATGTATCGATACA
1 TATCGATACAAAGAAAAATGTATCGATACA
420838 TTTCCTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (33 bp):
TATCGATACAAAGAAAAATGTATCGATACAATG
Found at i:420897 original size:13 final size:13
Alignment explanation
Indices: 420879--420903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420869 ACAATACTTA
420879 TGTATCGATACAT
1 TGTATCGATACAT
420892 TGTATCGATACA
1 TGTATCGATACA
420904 AAACTTATCG
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:421025 original size:20 final size:21
Alignment explanation
Indices: 420982--421038 Score: 107
Period size: 20 Copynumber: 2.8 Consensus size: 21
420972 GTTGGGACCC
420982 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
421003 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
421023 TGTATCGATACATTTG
1 TGTATCGATACATTTG
421039 GATTTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:424716 original size:32 final size:32
Alignment explanation
Indices: 424653--424727 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
424643 AATATATAAT
* *
424653 TAATATATTATTTTTAAAAAATTTTACTAAAAA
1 TAATATATTA-ATGTAAAAAATTTTACTAAAAA
*
424686 TAATATATTAATGTAAAAATATTTT-TTAAAAA
1 TAATATATTAATGTAAAAA-ATTTTACTAAAAA
424718 TAATA-ATTAA
1 TAATATATTAA
424728 ATAATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 5 0.13
32 18 0.47
33 15 0.39
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (32 bp):
TAATATATTAATGTAAAAAATTTTACTAAAAA
Found at i:425906 original size:26 final size:26
Alignment explanation
Indices: 425851--425920 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
425841 TCATCCATTT
* * * * *
425851 TTTTTGTTATTGTATTATTTTTAATT
1 TTTTTATTATTATATTATCTTAAATC
425877 TTTTTATTATT-TATTATCTTAAACTC
1 TTTTTATTATTATATTATCTTAAA-TC
*
425903 TTTTAATT-TTATATTATC
1 TTTTTATTATTATATTATC
425921 ATATTTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.32
26 25 0.68
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTTTATTATTATATTATCTTAAATC
Found at i:425961 original size:20 final size:21
Alignment explanation
Indices: 425936--425974 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
425926 TATTTTTTAC
*
425936 ATAAATATGA-TTTAATAAGT
1 ATAAATATAATTTTAATAAGT
425956 ATAAATATAATTTTAATAA
1 ATAAATATAATTTTAATAA
425975 TTTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
ATAAATATAATTTTAATAAGT
Found at i:425985 original size:36 final size:36
Alignment explanation
Indices: 425945--426061 Score: 87
Period size: 36 Copynumber: 3.1 Consensus size: 36
425935 CATAAATATG
425945 ATTTAATAAGTATAAATATAATTTTAATAATTTTTA
1 ATTTAATAAGTATAAATATAATTTTAATAATTTTTA
* *
425981 ATTTATTATTATTAGTAATAAATATAA-TTTCATATTTTTTTA
1 ATTTA--A-TA--AGT-ATAAATATAATTTTAATA-ATTTTTA
* * *
426023 TTATTCAAT-A-TATAGATATAATTTTAATAATCTTTA
1 --ATTTAATAAGTATAAATATAATTTTAATAATTTTTA
426059 ATT
1 ATT
426062 ATTTTTATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 22
0.69 0.08 0.24
Matches are distributed among these distances:
34 3 0.05
36 19 0.30
37 7 0.11
38 2 0.03
39 2 0.03
41 10 0.16
42 17 0.27
44 4 0.06
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (36 bp):
ATTTAATAAGTATAAATATAATTTTAATAATTTTTA
Found at i:426003 original size:42 final size:40
Alignment explanation
Indices: 425955--426069 Score: 116
Period size: 37 Copynumber: 3.0 Consensus size: 40
425945 ATTTAATAAG
425955 TATAAATATAATTTTAATAATTTTTAATTTATTATTATTA
1 TATAAATATAATTTTAATAATTTTTAATTTATTATTATTA
* *
425995 GTAATAAATATAA-TTTCAT-A-TTTT--TTTATTATTCAATA
1 -T-ATAAATATAATTTTAATAATTTTTAATTTATTATT-ATTA
* * *
426033 TATAGATATAATTTTAATAATCTTTAA-TTATTTTTAT
1 TATAAATATAATTTTAATAATTTTTAATTTATTATTAT
426070 ATAATACATT
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
36 9 0.15
37 15 0.25
38 4 0.07
39 8 0.13
40 8 0.13
41 6 0.10
42 10 0.17
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (40 bp):
TATAAATATAATTTTAATAATTTTTAATTTATTATTATTA
Found at i:426104 original size:78 final size:78
Alignment explanation
Indices: 425955--426105 Score: 173
Period size: 78 Copynumber: 1.9 Consensus size: 78
425945 ATTTAATAAG
* * * *
425955 TATAAATATAATTTTAATAATTTTTAATTTATTATTATTAGTAATAAATATAATTTCATATTTTT
1 TATAAATATAATTTTAATAATCTTTAATTTATTATTATTAGTAATAAATATAATCTAATATTTTA
*
426020 TTATTATTCAATA
66 TAATTATTCAATA
* * * *
426033 TATAGATATAATTTTAATAATCTTTAA-TTATTTTTA-TA-TAATACATTTTAATCTAATATCTT
1 TATAAATATAATTTTAATAATCTTTAATTTATTATTATTAGTAATA-AATATAATCTAATAT-TT
426095 TAATAATTATT
64 T-ATAATTATT
426106 TTTTTCTCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
75 5 0.08
76 13 0.21
77 11 0.18
78 32 0.52
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (78 bp):
TATAAATATAATTTTAATAATCTTTAATTTATTATTATTAGTAATAAATATAATCTAATATTTTA
TAATTATTCAATA
Found at i:427578 original size:27 final size:25
Alignment explanation
Indices: 427547--427604 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 25
427537 TATAGTGAAT
427547 ATATATTAT-TAATAATATTAAATTAAA
1 ATATATTATATAAT-A-ATT-AATTAAA
427574 ATATA-TATATAATAATTAATTAAA
1 ATATATTATATAATAATTAATTAAA
427598 AT-TATTA
1 ATATATTA
427605 AATTTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 2 0.07
24 11 0.38
25 3 0.10
26 4 0.14
27 9 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTATATAATAATTAATTAAA
Found at i:427582 original size:33 final size:33
Alignment explanation
Indices: 427524--427593 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
427514 ATAATTGTGG
* * *
427524 TAATAAATTAAATTATAGTGAATATAT-ATTAT
1 TAATAAATTAAATTAAAATGAATATATAATAAT
427556 TAATAATATTAAATTAAAAT-ATATATATAATAAT
1 TAATAA-ATTAAATTAAAATGA-ATATATAATAAT
427590 TAAT
1 TAAT
427594 TAAAATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 7 0.22
33 17 0.53
34 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (33 bp):
TAATAAATTAAATTAAAATGAATATATAATAAT
Found at i:427619 original size:38 final size:39
Alignment explanation
Indices: 427582--427675 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 39
427572 AAATATATAT
427582 ATAATAATTAATTAAAATTATTAAATTTATATTTATATTAA
1 ATAATAA--AATTAAAATTATTAAATTTATATTTATATTAA
*
427623 ATAATAAAATATAAATATATATTGAAA-TTATATTTATATCAA
1 ATAATAAAAT-TAAA-AT-TATT-AAATTTATATTTATATTAA
*
427665 ATTATTAAAAT
1 A-TAATAAAAT
427676 ATATAAACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
39 3 0.07
40 4 0.09
41 9 0.20
42 19 0.41
43 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (39 bp):
ATAATAAAATTAAAATTATTAAATTTATATTTATATTAA
Found at i:428161 original size:18 final size:18
Alignment explanation
Indices: 428116--428175 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
428106 TAAATGATTA
*
428116 AAAATAAAAATATAAAAAT
1 AAAATAAAATTAT-AAAAT
**
428135 ATATTTAAATATT-TAAAAT
1 A-AAATAAA-ATTATAAAAT
*
428154 AAAATAAAATTATTAAAT
1 AAAATAAAATTATAAAAT
428172 AAAA
1 AAAA
428176 ATAATAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
17 3 0.09
18 14 0.44
19 7 0.22
20 6 0.19
21 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAATTATAAAAT
Found at i:428176 original size:24 final size:23
Alignment explanation
Indices: 428149--428198 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
428139 TTAAATATTT
428149 AAAATAA-AATAAAATTATTAAATA
1 AAAATAATAAT-AAATTATTAAA-A
*
428173 AAAATAATAATAAGTTATTAAAA
1 AAAATAATAATAAATTATTAAAA
428196 AAA
1 AAA
428199 TTACAAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 17 0.71
25 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAATAATAATAAATTATTAAAA
Found at i:428958 original size:14 final size:13
Alignment explanation
Indices: 428932--428988 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
428922 TTTAACATAA
428932 TAAATATAAAATT
1 TAAATATAAAATT
428945 TAAATATCAAAATT
1 TAAATAT-AAAATT
428959 TAAAT-T-AAA-T
1 TAAATATAAAATT
*
428969 TATAATATAAAAAT
1 TA-AATATAAAATT
428983 TAAATA
1 TAAATA
428989 ATATATTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
10 3 0.08
11 6 0.15
12 1 0.03
13 15 0.38
14 14 0.36
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATATAAAATT
Found at i:429177 original size:15 final size:15
Alignment explanation
Indices: 429159--429217 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 15
429149 ATTTTCATTT
429159 TAAATATAATATAAA
1 TAAATATAATATAAA
*
429174 TAAAT-TAATAT-AT
1 TAAATATAATATAAA
* *
429187 TAAAAATTATATAATA
1 TAAATATAATATAA-A
429203 TAAAATATTAATATA
1 T-AAATA-TAATATA
429218 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
13 5 0.15
14 11 0.33
15 6 0.18
16 1 0.03
17 4 0.12
18 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATATAATATAAA
Found at i:429199 original size:33 final size:33
Alignment explanation
Indices: 429162--429248 Score: 131
Period size: 32 Copynumber: 2.6 Consensus size: 33
429152 TTCATTTTAA
429162 ATATAATATAAATAAATTAATATATTAAAAATT
1 ATATAATATAAATAAATTAATATATTAAAAATT
* *
429195 ATATAATATAAA-ATATTAATATATTAAAATTT
1 ATATAATATAAATAAATTAATATATTAAAAATT
429227 ATATAAATATATAATAAATTAA
1 ATAT-AATATA-AATAAATTAA
429249 ATTATAATCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
32 22 0.46
33 18 0.38
34 2 0.04
35 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
ATATAATATAAATAAATTAATATATTAAAAATT
Found at i:429221 original size:40 final size:40
Alignment explanation
Indices: 429166--429242 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
429156 TTTTAAATAT
*
429166 AATATAAATAAATTAATATATTA-A-AAATTATATAATATAA
1 AATATAAATAAATTAAAAT-TTATATAAA-TATATAATATAA
* *
429206 AATATTAATATATTAAAATTTATATAAATATATAATA
1 AATATAAATAAATTAAAATTTATATAAATATATAATA
429243 AATTAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 3 0.09
40 26 0.81
41 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (40 bp):
AATATAAATAAATTAAAATTTATATAAATATATAATATAA
Found at i:429403 original size:2 final size:2
Alignment explanation
Indices: 429396--429428 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
429386 TTCTTTAAAC
429396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
429429 CACATATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:430069 original size:14 final size:13
Alignment explanation
Indices: 430035--430074 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
430025 TAAATAAAGA
430035 AATAATTTTATA-
1 AATAATTTTATAT
*
430047 AAAAATTTTATATT
1 AATAATTTTATA-T
430061 AATAATTTTATAT
1 AATAATTTTATAT
430074 A
1 A
430075 TTTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATAATTTTATAT
Found at i:430282 original size:20 final size:21
Alignment explanation
Indices: 430237--430283 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
430227 TTTACTTTTT
*
430237 ATATTTATATTTAAATTATTAT
1 ATATTTATA-TTAAATTATTAC
430259 ATATTTATA-TAAATT-TTAAC
1 ATATTTATATTAAATTATT-AC
430279 ATATT
1 ATATT
430284 AATAACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 2 0.09
20 12 0.52
22 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTTATATTAAATTATTAC
Found at i:430352 original size:19 final size:19
Alignment explanation
Indices: 430323--430380 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
430313 CATATATTAA
430323 TTTTA-TATTTAAATTATT
1 TTTTATTATTTAAATTATT
430341 TTTTATTATTTAAATTA-T
1 TTTTATTATTTAAATTATT
*
430359 TTTTATTAAATTTATATTATT
1 TTTTATT--ATTTAAATTATT
430380 T
1 T
430381 CATATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 13 0.37
19 11 0.31
20 9 0.26
21 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATTATTTAAATTATT
Found at i:430387 original size:10 final size:9
Alignment explanation
Indices: 430315--430387 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 9
430305 AATACATTCA
430315 TATATTAATT
1 TATATT-ATT
430325 T-TA-TATT
1 TATATTATT
*
430332 TAAATTATTT
1 TATATTA-TT
*
430342 TTTATTATT
1 TATATTATT
*
430351 TAAATTATT
1 TATATTATT
*
430360 TTTATTAAATT
1 TATATT--ATT
430371 TATATTATT
1 TATATTATT
430380 TCATATTA
1 T-ATATTA
430388 AAATTACAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
7 4 0.08
8 2 0.04
9 21 0.43
10 14 0.29
11 8 0.16
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
TATATTATT
Found at i:430739 original size:34 final size:36
Alignment explanation
Indices: 430702--430769 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
430692 TGATATTTTT
* *
430702 AAAA-AATATA-TAATTAATAAATATTTTAAAATTTA
1 AAAATAATATATTAAGT-ATAAAAATTTTAAAATTTA
430737 AAAATAATATATTAAGTATAAAAATTTTAAAAT
1 AAAATAATATATTAAGTATAAAAATTTTAAAAT
430770 AATAAGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 4 0.14
36 21 0.72
37 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (36 bp):
AAAATAATATATTAAGTATAAAAATTTTAAAATTTA
Found at i:432578 original size:2 final size:2
Alignment explanation
Indices: 432571--432609 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
432561 GCACCCTTTA
432571 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
432610 TATATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:432636 original size:2 final size:2
Alignment explanation
Indices: 432631--432662 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
432621 TACCCTTAAA
432631 AT AT AT 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 AT AT AT
432663 TCTTTTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:433158 original size:21 final size:19
Alignment explanation
Indices: 433118--433214 Score: 63
Period size: 20 Copynumber: 4.7 Consensus size: 19
433108 AAATTCATGA
*
433118 ATTTTTATTATATTTTTAT
1 ATTTTTATTATATATTTAT
433137 ATTTTTACTTATTATATTTAT
1 ATTTTTA-TTA-TATATTTAT
*
433158 AGTTAAATTATTATATAATTATAT
1 A-TT--TTTATTATAT-ATT-TAT
* *
433182 AAATTTTA--ATATATTAAT
1 -ATTTTTATTATATATTTAT
433200 AATTTTTATTATATA
1 -ATTTTTATTATATA
433215 ATTTTTAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
18 9 0.15
19 10 0.16
20 12 0.19
21 9 0.15
22 8 0.13
23 6 0.10
24 7 0.11
25 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
ATTTTTATTATATATTTAT
Found at i:433205 original size:17 final size:16
Alignment explanation
Indices: 433183--433228 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
433173 TAATTATATA
433183 AATTTTAATATATTAAT
1 AATTTTAATATATT-AT
*
433200 AATTTTTAT-TA-TAT
1 AATTTTAATATATTAT
433214 AATTTTTAATATATT
1 AA-TTTTAATATATT
433229 CATACATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.17
15 7 0.29
16 4 0.17
17 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTAATATATTAT
Found at i:433214 original size:32 final size:33
Alignment explanation
Indices: 433175--433246 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
433165 TTATTATATA
**
433175 ATTATATAAATTTTAATATATTAATA-ATTTTT
1 ATTATATAAATTTTAATATATTAATACATTAAT
* *
433207 ATTATATAATTTTTAATATATTCATACATTAAT
1 ATTATATAAATTTTAATATATTAATACATTAAT
433240 ATTATAT
1 ATTATAT
433247 TTAAATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (33 bp):
ATTATATAAATTTTAATATATTAATACATTAAT
Found at i:433217 original size:14 final size:14
Alignment explanation
Indices: 433193--433227 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
433183 AATTTTAATA
433193 TATTA-ATAATTTT
1 TATTATATAATTTT
433206 TATTATATAATTTT
1 TATTATATAATTTT
*
433220 TAATATAT
1 TATTATAT
433228 TCATACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATATAATTTT
Found at i:433238 original size:40 final size:40
Alignment explanation
Indices: 433165--433240 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
433155 TATAGTTAAA
* *
433165 TTATTATATAATTATATAAATTTTAATATATTAATAATTT
1 TTATTATATAATTATATAAATATTAATACATTAATAATTT
* *
433205 TTATTATATAATT-TTTAATATATTCATACATTAATA
1 TTATTATATAATTATATAA-ATATTAATACATTAATA
433241 TTATATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.13
40 27 0.87
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (40 bp):
TTATTATATAATTATATAAATATTAATACATTAATAATTT
Found at i:434250 original size:13 final size:14
Alignment explanation
Indices: 434232--434265 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
434222 AATTTTGAAT
434232 TTATTAAA-TTATA
1 TTATTAAACTTATA
*
434245 TTATTAAACTTCTA
1 TTATTAAACTTATA
434259 TTATTAA
1 TTATTAA
434266 TAATAACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATTAAACTTATA
Found at i:434749 original size:22 final size:22
Alignment explanation
Indices: 434724--434766 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
434714 AATTTTAAAA
434724 ATATTTTTAT-ATTAATATTTAT
1 ATATTTTTATAATTAA-ATTTAT
434746 ATATTTTTATAATTAAATTTA
1 ATATTTTTATAATTAAATTTA
434767 AATAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:435412 original size:12 final size:12
Alignment explanation
Indices: 435379--435423 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
435369 ATAAATATTC
435379 ATATAA-AAATA
1 ATATAATAAATA
*
435390 ATAT-TTAAATA
1 ATATAATAAATA
435401 ATATAATAAATA
1 ATATAATAAATA
*
435413 ATAAAATAAAT
1 ATATAATAAAT
435424 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATAATAAATA
Found at i:438517 original size:17 final size:18
Alignment explanation
Indices: 438473--438519 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
438463 TGAGTTGCAT
438473 AAATATT-AATATAATAA
1 AAATATTAAATATAATAA
*
438490 AAATTATTAAATATATTAA
1 AAA-TATTAAATATAATAA
438509 AAA-ATTAAATA
1 AAATATTAAATA
438520 CAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 12 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATTAAATATAATAA
Found at i:438559 original size:27 final size:27
Alignment explanation
Indices: 438529--438592 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
438519 ACAAAAATAA
*
438529 ATATATATTAAATAAATGTAT-TATTTT
1 ATATATATTAAATAAATATATATA-TTT
* * *
438556 ATATTTATTATATATATATATATATTT
1 ATATATATTAAATAAATATATATATTT
438583 ATATAATATT
1 ATAT-ATATT
438593 TAAAATTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
ATATATATTAAATAAATATATATATTT
Found at i:439078 original size:21 final size:22
Alignment explanation
Indices: 439052--439108 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
439042 AATGATCAAT
*
439052 AATTATTTTTAAAAA-ATAAAA
1 AATTATTTTTAAAAATAAAAAA
* *
439073 AATTATCTCTAAAAATTTAAAAAA
1 AATTATTTTTAAAAA--TAAAAAA
439097 AATTATTTTTAA
1 AATTATTTTTAA
439109 TATTTATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 13 0.46
24 15 0.54
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTATTTTTAAAAATAAAAAA
Found at i:439248 original size:21 final size:22
Alignment explanation
Indices: 439224--439264 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
439214 GAGATGACCT
439224 TTTTTATCTTAA-TTTTATCAC
1 TTTTTATCTTAACTTTTATCAC
* *
439245 TTTTTCTTTTAACTTTTATC
1 TTTTTATCTTAACTTTTATC
439265 TTATATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTTATCTTAACTTTTATCAC
Found at i:439753 original size:30 final size:29
Alignment explanation
Indices: 439705--439792 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
439695 TCTTTTTATT
* *
439705 ATATTTAAATACTTTTTAATTTTTAATTG
1 ATATTTAAATAGTTTTTAATATTTAATTG
*
439734 ATATTTAAATATGTTTTTAACATTTAATTTG
1 ATATTTAAATA-GTTTTTAATATTTAA-TTG
*
439765 -TATTCAAATAAGTTTTTAATATTTAATT
1 ATATTTAAAT-AGTTTTTAATATTTAATT
439793 TGTATTGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.25
30 34 0.67
31 4 0.08
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (29 bp):
ATATTTAAATAGTTTTTAATATTTAATTG
Found at i:439793 original size:30 final size:30
Alignment explanation
Indices: 439717--439798 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
439707 ATTTAAATAC
* * *
439717 TTTTTAATTTTTAA-TTGATATTTAAATATG
1 TTTTTAATATTTAATTTG-TATTCAAATAAG
*
439747 TTTTTAACATTTAATTTGTATTCAAATAAG
1 TTTTTAATATTTAATTTGTATTCAAATAAG
439777 TTTTTAATATTTAATTTGTATT
1 TTTTTAATATTTAATTTGTATT
439799 GAATTTAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 43 0.93
31 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (30 bp):
TTTTTAATATTTAATTTGTATTCAAATAAG
Found at i:439938 original size:30 final size:28
Alignment explanation
Indices: 439904--439960 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
439894 TAAAAATATA
439904 AAATATAAAATATATT-TTTTAATTAAATTT
1 AAATA-AAAAT-TATTATTTT-ATTAAATTT
439934 AAATAAAAATTATTATTTTATTAAATT
1 AAATAAAAATTATTATTTTATTAAATT
439961 AAAAGTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 12 0.46
29 9 0.35
30 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AAATAAAAATTATTATTTTATTAAATTT
Found at i:441149 original size:18 final size:19
Alignment explanation
Indices: 441118--441176 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
441108 TTAACATGTT
441118 ATATATTTACATAAATTTTA
1 ATATA-TTACATAAATTTTA
441138 ATATATTA-AT-AA--TT-
1 ATATATTACATAAATTTTA
*
441152 -TATATTATATAAATTTTA
1 ATATATTACATAAATTTTA
441170 ATATATT
1 ATATATT
441177 TATATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
13 7 0.21
14 2 0.06
15 4 0.12
17 4 0.12
18 2 0.06
19 9 0.27
20 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATTACATAAATTTTA
Found at i:441165 original size:32 final size:34
Alignment explanation
Indices: 441119--441185 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
441109 TAACATGTTA
441119 TATATTTACATAAATTTTAATATATTAATA-ATT
1 TATATTTACATAAATTTTAATATATTAATATATT
* *
441152 TATA-TTATATAAATTTTAATATATTTATATATT
1 TATATTTACATAAATTTTAATATATTAATATATT
441185 T
1 T
441186 TTATAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 23 0.74
33 8 0.26
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
TATATTTACATAAATTTTAATATATTAATATATT
Found at i:441174 original size:14 final size:14
Alignment explanation
Indices: 441128--441175 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
441118 ATATATTTAC
441128 ATAAATTTTAATAT
1 ATAAATTTTAATAT
*
441142 ATTAATAATTTATATTAT
1 A-T-A-AATTT-TAATAT
441160 ATAAATTTTAATAT
1 ATAAATTTTAATAT
441174 AT
1 AT
441176 TTATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 2 0.07
17 6 0.21
18 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATTTTAATAT
Found at i:441199 original size:18 final size:18
Alignment explanation
Indices: 441118--441203 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
441108 TTAACATGTT
*
441118 ATATATTTACATAAATTTTA
1 ATATATTT--ATATATTTTA
*
441138 ATATA-TTA-ATAATTT-
1 ATATATTTATATATTTTA
* *
441153 ATAT-TATATAAATTTTA
1 ATATATTTATATATTTTA
*
441170 ATATATTTATATATTTTT
1 ATATATTTATATATTTTA
441188 ATA-ATTTAATATATTT
1 ATATATTT-ATATATTT
441204 ATATCGTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.11
16 10 0.19
17 9 0.17
18 21 0.40
19 2 0.04
20 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATATTTATATATTTTA
Found at i:441222 original size:9 final size:9
Alignment explanation
Indices: 441149--441223 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
441139 TATATTAATA
441149 ATTTATATT
1 ATTTATATT
* *
441158 ATATAAATT
1 ATTTATATT
*
441167 -TTAATA-T
1 ATTTATATT
441174 ATTTATA-T
1 ATTTATATT
* *
441182 ATTTTTATA
1 ATTTATATT
441191 ATTTA-ATAT
1 ATTTATAT-T
441200 ATTTATATCGT
1 ATTTATAT--T
441211 ATTTATATT
1 ATTTATATT
441220 ATTT
1 ATTT
441224 TTATATTATA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
7 1 0.02
8 17 0.34
9 21 0.42
10 2 0.04
11 9 0.18
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (9 bp):
ATTTATATT
Found at i:441223 original size:38 final size:39
Alignment explanation
Indices: 441150--441246 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 39
441140 ATATTAATAA
* *
441150 TTTATATTAT-ATAA-ATTTTA-AT-ATATTTATATATT
1 TTTATATTATAATAATATTATATATCGTATTTATATATT
441185 TTTATAATT-TAAT-ATATT-TATATCGTATTTATATTATT
1 TTTAT-ATTATAATAATATTATATATCGTATTTATA-TATT
441223 TTTATATTATAATAATATTATATA
1 TTTATATTATAATAATATTATATA
441247 ATTATATACG
Statistics
Matches: 52, Mismatches: 1, Indels: 13
0.79 0.02 0.20
Matches are distributed among these distances:
35 9 0.17
36 10 0.19
37 11 0.21
38 13 0.25
39 5 0.10
40 4 0.08
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (39 bp):
TTTATATTATAATAATATTATATATCGTATTTATATATT
Found at i:441773 original size:15 final size:16
Alignment explanation
Indices: 441753--441793 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
441743 TTTTAAAAAA
441753 ATTAAATAT-ATTTAT
1 ATTAAATATAATTTAT
441768 ATTAAATATAAATTTAT
1 ATTAAATAT-AATTTAT
*
441785 ATTTAATAT
1 ATTAAATAT
441794 TTATCTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTAAATATAATTTAT
Found at i:445393 original size:2 final size:2
Alignment explanation
Indices: 445386--445429 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
445376 GTTAAAAGTA
*
445386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
445428 AT
1 AT
445430 TATGTATGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:447907 original size:396 final size:396
Alignment explanation
Indices: 447175--447969 Score: 1545
Period size: 396 Copynumber: 2.0 Consensus size: 396
447165 TTCTTGCTTC
*
447175 TTTGAACATCAATTAATCACACCTAAACCAAAGCTGAAGTAATAACCAGTTGTACTCTTCATGTC
1 TTTGAACACCAATTAATCACACCTAAACCAAAGCTGAAGTAATAACCAGTTGTACTCTTCATGTC
447240 ATCAAATGAACCTACCCAGTCACTGTCAGAAAAACCTAATAACTTGAAATTTAGGCAACTTACAT
66 ATCAAATGAACCTACCCAGTCACTGTCAGAAAAACCTAATAACTTGAAATTTAGGCAACTTACAT
* *
447305 ACTTTACACCATAGTCAATAGTTCCCTTGATGTATTGAACAATGCATTTAGCAACATGCATATGT
131 ACTTTACACCATAGTCAACAGTTCCCTTGATGTATCGAACAATGCATTTAGCAACATGCATATGT
447370 TCCTCACTTGCACAATGCATAAACTTGGACAAAAGACTCACGACTTGTACAATATCAGGTCTAGA
196 TCCTCACTTGCACAATGCATAAACTTGGACAAAAGACTCACGACTTGTACAATATCAGGTCTAGA
447435 AGCAGTAAGGTACATAGGGCATCTAATTAAACTCCTGTTATAATTTTCATCCACTTGATGCGCCA
261 AGCAGTAAGGTACATAGGGCATCTAATTAAACTCCTGTTATAATTTTCATCCACTTGATGCGCCA
447500 TCATCCTTACAAAACTTGACTCTAGACTGCATAGGAGTATCAGTTGATTTACATCATTCCATTTG
326 TCATCCTTACAAAACTTGACTCTAGACTGCATAGGAGTATCAGTTGATTTACATCATTCCATTTG
447565 AAACTT
391 AAACTT
*
447571 TTTGAACACCAATTAATCACACCTGAACCAAAGCTGAAGTAATAACCAGTTGTACTCTTCATGTC
1 TTTGAACACCAATTAATCACACCTAAACCAAAGCTGAAGTAATAACCAGTTGTACTCTTCATGTC
447636 ATCAAATGAACCTACCCAGTCACTGTCAGAAAAACCTAATAACTTGAAATTTAGGCAACTTACAT
66 ATCAAATGAACCTACCCAGTCACTGTCAGAAAAACCTAATAACTTGAAATTTAGGCAACTTACAT
*
447701 ACTTTACACCATAGTCAACAGTTCCCTTGATGTATCGAACAATGCATTTAGTAACATGCATATGT
131 ACTTTACACCATAGTCAACAGTTCCCTTGATGTATCGAACAATGCATTTAGCAACATGCATATGT
447766 TCCTCACTTGCACAATGCATAAACTTGGACAAAAGACTCACGACTTGTACAATATCAGGTCTAGA
196 TCCTCACTTGCACAATGCATAAACTTGGACAAAAGACTCACGACTTGTACAATATCAGGTCTAGA
447831 AGCAGTAAGGTACATAGGGCATCTAATTAAACTCCTGTTATAATTTTCATCCACTTGATGCGCCA
261 AGCAGTAAGGTACATAGGGCATCTAATTAAACTCCTGTTATAATTTTCATCCACTTGATGCGCCA
447896 TCATCCTTACAAAACTTGACTCTAGACTGCATAGGAGTATCAGTTGATTTACATCATTCCATTTG
326 TCATCCTTACAAAACTTGACTCTAGACTGCATAGGAGTATCAGTTGATTTACATCATTCCATTTG
447961 AAACTT
391 AAACTT
447967 TTT
1 TTT
447970 TAGGATCTCC
Statistics
Matches: 394, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
396 394 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (396 bp):
TTTGAACACCAATTAATCACACCTAAACCAAAGCTGAAGTAATAACCAGTTGTACTCTTCATGTC
ATCAAATGAACCTACCCAGTCACTGTCAGAAAAACCTAATAACTTGAAATTTAGGCAACTTACAT
ACTTTACACCATAGTCAACAGTTCCCTTGATGTATCGAACAATGCATTTAGCAACATGCATATGT
TCCTCACTTGCACAATGCATAAACTTGGACAAAAGACTCACGACTTGTACAATATCAGGTCTAGA
AGCAGTAAGGTACATAGGGCATCTAATTAAACTCCTGTTATAATTTTCATCCACTTGATGCGCCA
TCATCCTTACAAAACTTGACTCTAGACTGCATAGGAGTATCAGTTGATTTACATCATTCCATTTG
AAACTT
Found at i:465216 original size:23 final size:23
Alignment explanation
Indices: 465190--465234 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
465180 TATGCGCTTA
*
465190 ATAACTATTGTTA-TAAAATATAT
1 ATAACTA-TATTATTAAAATATAT
*
465213 ATAATTATATTATTAAAATATA
1 ATAACTATATTATTAAAATATA
465235 AATTTCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATAACTATATTATTAAAATATAT
Found at i:468477 original size:31 final size:31
Alignment explanation
Indices: 468431--468581 Score: 142
Period size: 31 Copynumber: 4.9 Consensus size: 31
468421 ATTTCAAACT
* *
468431 GTGCTACCGGTTAAGAATAGTGGTTTTCGTC
1 GTGCCACCGGATAAGAATAGTGGTTTTCGTC
* * * * *
468462 GTTCTACCGGATAAGAATGGTGATTTTC-AC
1 GTGCCACCGGATAAGAATAGTGGTTTTCGTC
* * * * *
468492 TGTACCATCAGATAAGCATAGTGGTTTTTGTC
1 -GTGCCACCGGATAAGAATAGTGGTTTTCGTC
***
468524 GTGCCACCGGATAAGAATAGTGGTTTTTACC
1 GTGCCACCGGATAAGAATAGTGGTTTTCGTC
*
468555 GTGCCACCGAATAAGAATAGTGGTTTT
1 GTGCCACCGGATAAGAATAGTGGTTTT
468582 TATTCTAACC
Statistics
Matches: 97, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
30 1 0.01
31 95 0.98
32 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (31 bp):
GTGCCACCGGATAAGAATAGTGGTTTTCGTC
Found at i:468582 original size:62 final size:62
Alignment explanation
Indices: 468442--468582 Score: 176
Period size: 62 Copynumber: 2.3 Consensus size: 62
468432 TGCTACCGGT
* * * * * *
468442 TAAGAATAGTGGTTTTCGTCGTTCTACCGGATAAGAATGGTGATTTTCACTGTACCATCAGA
1 TAAGAATAGTGGTTTTTGTCGTGCCACCGGATAAGAATAGTGATTTTCACCGTACCACCAGA
* * * *
468504 TAAGCATAGTGGTTTTTGTCGTGCCACCGGATAAGAATAGTGGTTTTTACCGTGCCACC-GAA
1 TAAGAATAGTGGTTTTTGTCGTGCCACCGGATAAGAATAGTGATTTTCACCGTACCACCAG-A
468566 TAAGAATAGTGGTTTTT
1 TAAGAATAGTGGTTTTT
468583 ATTCTAACCT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
61 1 0.01
62 66 0.99
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (62 bp):
TAAGAATAGTGGTTTTTGTCGTGCCACCGGATAAGAATAGTGATTTTCACCGTACCACCAGA
Found at i:472429 original size:20 final size:20
Alignment explanation
Indices: 472401--472494 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
472391 TTTTACCCAG
472401 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
472421 ATATATCGATACATGTGTGA
1 ATGTATCGATACATTTTTCA
* *
472441 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
**
472461 ATGTATCGATACATTAAAT-A
1 ATGTATCGATACATT-TTTCA
472481 ATGTATCGATACAT
1 ATGTATCGATACAT
472495 CTAGTTAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 59 0.98
21 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:472484 original size:40 final size:40
Alignment explanation
Indices: 472401--472494 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
472391 TTTTACCCAG
* *
472401 ATGTATCGATACATTTTTCAATATATCGATACATGTGTGA
1 ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
* *
472441 ATGTATCGATATATTCTTCAATGTATCGATACAT-TAAAT-A
1 ATGTATCGATACATTCTTCAATATATCGATACATGT--ATGA
472481 ATGTATCGATACAT
1 ATGTATCGATACAT
472495 CTAGTTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.02
40 45 0.96
41 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATATATCGATACATGTATGA
Found at i:486407 original size:9 final size:9
Alignment explanation
Indices: 486393--486465 Score: 71
Period size: 9 Copynumber: 8.0 Consensus size: 9
486383 TCCTTTACAC
486393 CAAAAAAAA
1 CAAAAAAAA
486402 CAAAAAAAA
1 CAAAAAAAA
486411 CAAAAAAAA
1 CAAAAAAAA
* *
486420 -ACAAAACA
1 CAAAAAAAA
486428 -AAAAAAAA
1 CAAAAAAAA
486436 CAAAAAACAA
1 CAAAAAA-AA
486446 -AGAAAAAATA
1 CA-AAAAAA-A
486456 GCAAAAAAAA
1 -CAAAAAAAA
486466 GAAAGGGGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
8 12 0.22
9 26 0.48
10 9 0.17
11 6 0.11
12 1 0.02
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:486409 original size:10 final size:10
Alignment explanation
Indices: 486394--486453 Score: 77
Period size: 11 Copynumber: 5.8 Consensus size: 10
486384 CCTTTACACC
486394 AAAAAAAAC-
1 AAAAAAAACA
486403 AAAAAAAACA
1 AAAAAAAACA
486413 AAAAAAAACA
1 AAAAAAAACA
*
486423 AAACAAAAAAA
1 AAA-AAAAACA
486434 AACAAAAAACA
1 AA-AAAAAACA
486445 AAGAAAAAA
1 AA-AAAAAA
486454 TAGCAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 9 0.20
10 13 0.29
11 22 0.49
12 1 0.02
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:486425 original size:15 final size:15
Alignment explanation
Indices: 486393--486440 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
486383 TCCTTTACAC
*
486393 CAAAA-AAAACAAAA
1 CAAAACAAAAAAAAA
486407 -AAAACAAAAAAAAA
1 CAAAACAAAAAAAAA
486421 CAAAACAAAAAAAAA
1 CAAAACAAAAAAAAA
486436 CAAAA
1 CAAAA
486441 AACAAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
13 4 0.13
14 8 0.26
15 19 0.61
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAACAAAAAAAAA
Found at i:486465 original size:1 final size:1
Alignment explanation
Indices: 486394--486453 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
486384 CCTTTACACC
* * * * * * *
486394 AAAAAAAACAAAAAAAACAAAAAAAAACAAAACAAAAAAAAACAAAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
486454 TAGCAAAAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:487720 original size:28 final size:28
Alignment explanation
Indices: 487680--488760 Score: 1098
Period size: 28 Copynumber: 37.5 Consensus size: 28
487670 ATGTTCATCC
487680 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
487708 CTTTCAAAGCCCACAAGTTAGTAGCACTT
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-T
*
487737 TTTTC-AAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
487764 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
487792 CTTTCAGAGTCCACACAAGTCAGTGGCACC
1 CTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
487822 CTTTCAAAGCCCACAATTTAGTGGCATT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
487850 CTTTCAAAACCCACAAGTCAGTGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
487877 CCTTTCAAAGCCCACACAAGTCAGTGGCACT
1 -CTTTCAAAG-CC-CACAAGTCAGTGGCACT
*
487908 CCTTTCAAAGCCCACACAAGTCGGTGGCAACT
1 -CTTTCAAAG-CC-CACAAGTCAGTGGC-ACT
487940 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 -CTTTCAAAGCCCACAAGTCAGTGGCACT
*
487969 CTTTTCAAAGCCCACAAGTCAGTGGCACC
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
487998 CTTTC-AAGCCCACGAGTCAGTGGCAC-
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
488024 CTTTTCAAAGCCCACGAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
488053 CTTTCAAAGCTCACAAGTCAGTGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
488080 CCTTTCAAAGCCTACGCAAGTTAGTGGCACC
1 -CTTTCAAAGCC--CACAAGTCAGTGGCACT
*
488111 CTTTTAAAGCCCACGCAAGTCAGTGGCAC-
1 CTTTCAAAGCCCA--CAAGTCAGTGGCACT
**
488140 CTTTTCAAAGCCCATGAGTCAGTGGCACCT
1 C-TTTCAAAGCCCACAAGTCAGTGGCA-CT
* *
488170 TTTTCAAAGCCCACGAGTCAGTGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
488197 CCTTTCAAAGCCCATGCAAGTCAGTGGCACC
1 -CTTTCAAAGCCCA--CAAGTCAGTGGCACT
*
488228 CTTTTAAAGCCCACGCAAGTCAGTGGCAC-
1 CTTTCAAAGCCCA--CAAGTCAGTGGCACT
**
488257 CTTTTCAAAGCCCATGAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
488286 CTTTCAAAGCCCACAAGTCAATGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
488313 CCTTTCAAAGCCTACGCAAGTCAGTAGCACT
1 -CTTTCAAAGCC--CACAAGTCAGTGGCACT
*
488344 CTTTTAAAGCCCACGCAAGTCAGTGGCACAT
1 CTTTCAAAGCCCA--CAAGTCAGTGGCAC-T
* *
488375 -TTTC-AAGCCCACGAGCCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
488401 CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
488428 CCTTTCGAAGCCCACGCAAGTCAATGGCACC
1 -CTTTCAAAGCCCA--CAAGTCAGTGGCACT
* * **
488459 CTTTTAAAGCCCACACAATTCAGTAACACT
1 CTTTCAAAG-CC-CACAAGTCAGTGGCACT
*
488489 CTTTTCAAAGCCCACGCAAGTCAATGGCACT
1 C-TTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
488520 CTTTTCAAAGCCCACGAGTCAGTGGCACC
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
* * *
488549 CATTCAAAGCCCATAAGTCAGTGACAC-
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
488576 CTTTTC-AAGCCCACAAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
* * *
488604 TTTTC-AAGCCCACAAGTTAATGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
488631 TTTTCAAAGCCTACAAGTTAGTGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
488658 CCTTTCAAAGCCCACAAGTCAATGGCACAT
1 -CTTTCAAAGCCCACAAGTCAGTGGCAC-T
*
488688 -TTTCAAAGCCCACAAGTCAGTGACACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * **
488715 CTTTTCAAAACCCACAAGCCAGTAGTAACT
1 C-TTTCAAAGCCCACAAGTCAGT-GGCACT
488745 CTTTTCAAAGCCCACA
1 C-TTTCAAAGCCCACA
488761 CGTGTCGGTG
Statistics
Matches: 900, Mismatches: 98, Indels: 108
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.00
27 101 0.11
28 365 0.41
29 111 0.12
30 240 0.27
31 66 0.07
32 15 0.02
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:488108 original size:233 final size:225
Alignment explanation
Indices: 487679--488760 Score: 1203
Period size: 233 Copynumber: 4.7 Consensus size: 225
487669 AATGTTCATC
* * **
487679 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTAGCACTTTTTTC-A
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAA
* * *
487743 AGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAGAGTCCACAC
65 AGCCCACAAGTCAGTGGCACCCTTTC-AAGCCCACAAGTCAGTGGCACCTTTTCAAAG-CC-CAC
* * * * * *
487808 AAGTCAGTGGCACCCTTTCAAAGCCCACAATTTAGTGGCATTCTTTCAAAACCCACAAGTCAGTG
127 GAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
487873 GCATCCTTTCAAAGCCCACACAAGTCAGTGGCACT
192 GCA-CCTTTCAAAGCCCACACAAGTCAGTGGCACT
* *
487908 CCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-ACT-CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTT
*
487973 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCCA
61 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCA
* * *
488038 CGAGTCAGTGGCACTCTTTCAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCTACGCAAGTTA
126 CGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC--CACAAGTCA
* *
488103 GTGGCACCCTTTTAAAGCCCACGCAAGTCAGTGGCAC-
189 GTGGCA-CCTTTCAAAGCCCACACAAGTCAGTGGCACT
* ** * *
488140 CTTTTCAAAGCCCATGAGTCAGTGGCACCTTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
*
488205 AGCCCATGCAAGTCAGTGGCACCCTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCC
65 AGCCCA--CAAGTCAGTGGCACCC-TTTCAAGCCCA--CAAGTCAGTGGCACCTTTTCAAAGCCC
* * *
488270 ATGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCTACGCAAGTC
125 ACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC--CACAAGTC
* * *
488335 AGTAGCACTCTTTTAAAGCCCACGCAAGTCAGTGGCACAT
188 AGTGGCAC-CTTTCAAAGCCCACACAAGTCAGTGGCAC-T
* * *
488375 --TTTC-AAGCCCACGAGCCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCGAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* * * **
488437 GCCCACGCAAGTCAATGGCACCCTTTTAAAGCCCACACAATTCAGTAACACTCTTTTCAAAGCCC
66 GCCCA--CAAGTCAGTGGCACCC-TTTCAAG-CC-CACAAGTCAGTGGCAC-CTTTTCAAAGCCC
* * * * *
488502 ACGCAAGTCAATGGCACTCTTTTCAAAGCCCACGAGTCAGTGGCACCCATTCAAAGCCCATAAGT
125 ACG--AGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
*
488567 CAGTGACACCTTTTC-AAG-CC-CACAAGTCAGTGGCACT
187 CAGTGGCACC-TTTCAAAGCCCACACAAGTCAGTGGCACT
* * * * * *
488604 -TTTTC-AAGCCCACAAGTTAATGGCACTTTTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* ** * * *
488667 GCCCACAAGTCAATGGCACATTTTCAAAGCCCACAAGTCAGTGACACTCTTTTCAAAACCCACAA
66 GCCCACAAGTCAGTGGCACCCTTTC-AAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACGA
* **
488732 GCCAGTAGTAACTCTTTTCAAAGCCCACA
129 GTCAGT-GGCACTC-TTTCAAAGCCCACA
488761 CGTGTCGGTG
Statistics
Matches: 751, Mismatches: 76, Indels: 56
0.85 0.09 0.06
Matches are distributed among these distances:
224 5 0.01
225 19 0.03
226 29 0.04
227 5 0.01
228 31 0.04
229 36 0.05
230 105 0.14
231 151 0.20
232 54 0.07
233 243 0.32
234 39 0.05
235 34 0.05
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (225 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
GCCCACAAGTCAGTGGCACCCTTTCAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACGAGT
CAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC
CTTTCAAAGCCCACACAAGTCAGTGGCACT
Found at i:489396 original size:20 final size:20
Alignment explanation
Indices: 489368--489442 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
489358 TTTTACCCAG
489368 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
489388 ATATATCGATACATGTATAA
1 ATGTATCGATACATTTTTCA
* *
489408 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
489428 ATGGATCGATACATT
1 ATGTATCGATACATT
489443 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:489484 original size:20 final size:20
Alignment explanation
Indices: 489459--489512 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
489449 TTTTACCTAG
489459 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
489479 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
489499 ATGTATCGATACAT
1 ATGTATCGATACAT
489513 CTAGTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:494759 original size:62 final size:62
Alignment explanation
Indices: 494657--494778 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 62
494647 TGATTTCAAA
* * *
494657 CCGTGCCACCGATTAAAAATATTGATTTTCGTCGTACCACCGGGTAAGAATAGTAGTTTTCG
1 CCGTGCCACCGATTAAAAATAGTGATTTTCGCCGTACCACCGGATAAGAATAGTAGTTTTCG
* * * *
494719 CCGTGCCACCGCA-TAAGAATAGTGATTTTTGCCGTGCCACCGGATAAGAATAGTGGTTTT
1 CCGTGCCACCG-ATTAAAAATAGTGATTTTCGCCGTACCACCGGATAAGAATAGTAGTTTT
494779 TGTTCTAACC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (62 bp):
CCGTGCCACCGATTAAAAATAGTGATTTTCGCCGTACCACCGGATAAGAATAGTAGTTTTCG
Found at i:494780 original size:31 final size:31
Alignment explanation
Indices: 494657--494778 Score: 140
Period size: 31 Copynumber: 3.9 Consensus size: 31
494647 TGATTTCAAA
* *
494657 CCGTGCCACC-GATTAAAAATATTGATTTTCG
1 CCGTGCCACCGGA-TAAGAATAGTGATTTTCG
* * *
494688 TCGTACCACCGGGTAAGAATAGT-AGTTTTCG
1 CCGTGCCACCGGATAAGAATAGTGA-TTTTCG
* *
494719 CCGTGCCACCGCATAAGAATAGTGATTTTTG
1 CCGTGCCACCGGATAAGAATAGTGATTTTCG
*
494750 CCGTGCCACCGGATAAGAATAGTGGTTTT
1 CCGTGCCACCGGATAAGAATAGTGATTTT
494779 TGTTCTAACC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
30 1 0.01
31 73 0.96
32 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (31 bp):
CCGTGCCACCGGATAAGAATAGTGATTTTCG
Found at i:499946 original size:2 final size:2
Alignment explanation
Indices: 499939--499966 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
499929 AATCCAAAAC
499939 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
499967 TTTACCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:500852 original size:8 final size:8
Alignment explanation
Indices: 500839--500872 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
500829 TGAAGAAAGG
500839 TTTTTCTT
1 TTTTTCTT
500847 TTTTTCTT
1 TTTTTCTT
*
500855 TCTTTCTT
1 TTTTTCTT
500863 TTTTT-TT
1 TTTTTCTT
500870 TTT
1 TTT
500873 CTTTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 5 0.21
8 19 0.79
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTCTT
Found at i:501249 original size:16 final size:17
Alignment explanation
Indices: 501230--501269 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
501220 TTTTTATATT
501230 ATTAATAT-TTTAATAA
1 ATTAATATATTTAATAA
*
501246 ATTAAT-TATTTAATTA
1 ATTAATATATTTAATAA
501262 A-TAATATA
1 ATTAATATA
501270 ATTATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAATATATTTAATAA
Found at i:505046 original size:13 final size:13
Alignment explanation
Indices: 505028--505054 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
505018 CCAAAAATGT
505028 AAAATAAATGACA
1 AAAATAAATGACA
505041 AAAATAAATGACA
1 AAAATAAATGACA
505054 A
1 A
505055 TGTTCGTTCA
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:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAATAAATGACA
Found at i:508708 original size:21 final size:23
Alignment explanation
Indices: 508684--508733 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
508674 TTTTTTAAAT
508684 TTTTTTAC-CTATTTTC-TTC-TA
1 TTTTTT-CTCTATTTTCTTTCTTA
*
508705 TTTTTTCTCTGTTTTCTTTCTTA
1 TTTTTTCTCTATTTTCTTTCTTA
508728 TTTTTT
1 TTTTTT
508734 TTTCCCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 13 0.52
22 3 0.12
23 8 0.32
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTTCTCTATTTTCTTTCTTA
Found at i:509383 original size:16 final size:18
Alignment explanation
Indices: 509358--509391 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
509348 AAGAAAACTC
509358 GATTTCTCAAA-AAAAAA
1 GATTTCTCAAAGAAAAAA
509375 GATTT-TCAAAGAAAAAA
1 GATTTCTCAAAGAAAAAA
509392 TTTAAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (18 bp):
GATTTCTCAAAGAAAAAA
Found at i:510900 original size:27 final size:28
Alignment explanation
Indices: 510862--510919 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
510852 TAAAATTATT
*
510862 AAAAATTAAA-TTTAATCGTTGAAATAA
1 AAAAATTAAATTTTAATCATTGAAATAA
* *
510889 AAAAATTTAATTTTAATCATTGAAATTA
1 AAAAATTAAATTTTAATCATTGAAATAA
510917 AAA
1 AAA
510920 CTTAAGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (28 bp):
AAAAATTAAATTTTAATCATTGAAATAA
Found at i:511450 original size:10 final size:11
Alignment explanation
Indices: 511418--511590 Score: 51
Period size: 10 Copynumber: 16.0 Consensus size: 11
511408 TGATATGATT
*
511418 ATATAACATAAA
1 ATATAA-ATATA
*
511430 ATA-AAAAATA
1 ATATAAATATA
511440 AT-TAAATATA
1 ATATAAATATA
*
511450 ATATAAAATATG
1 ATAT-AAATATA
*
511462 ATAT-AATAAA
1 ATATAAATATA
* *
511472 AAATAAAAAATA
1 ATAT-AAATATA
* *
511484 ATAT-TATATT
1 ATATAAATATA
511494 ATATAAAATATGA
1 ATAT-AAATAT-A
*
511507 ATATATTAAAAT-
1 ATATA--AATATA
* * * *
511519 TTATATATTTT
1 ATATAAATATA
* *
511530 ATATAAATTTT
1 ATATAAATATA
* *
511541 TTATATATA-A
1 ATATAAATATA
*
511551 TTATA-ATATA
1 ATATAAATATA
511561 AT--AAATAT-
1 ATATAAATATA
511569 ATATAAATATA
1 ATATAAATATA
511580 ATATAAATATA
1 ATATAAATATA
511591 TAAATATTTA
Statistics
Matches: 118, Mismatches: 27, Indels: 33
0.66 0.15 0.19
Matches are distributed among these distances:
8 3 0.03
9 7 0.06
10 42 0.36
11 29 0.25
12 29 0.25
13 4 0.03
14 4 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
ATATAAATATA
Found at i:511455 original size:22 final size:23
Alignment explanation
Indices: 511419--511503 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 23
511409 GATATGATTA
*
511419 TATAACATAAAATAAAAAATAAT
1 TATAATATAAAATAAAAAATAAT
* * *
511442 TA-AATATAATATAAAATATGA-
1 TATAATATAAAATAAAAAATAAT
*
511463 TATAATAAAAAATAAAAAATAATAT
1 TATAATATAAAATAAAAAAT-A-AT
511488 TATATTATATAAAATA
1 TATA--ATATAAAATA
511504 TGAATATATT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
21 2 0.04
22 29 0.62
23 2 0.04
24 1 0.02
25 4 0.09
27 9 0.19
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (23 bp):
TATAATATAAAATAAAAAATAAT
Found at i:511476 original size:44 final size:45
Alignment explanation
Indices: 511418--511517 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 45
511408 TGATATGATT
* *
511418 ATATAACATAAAATAAAAAATAAT-TAAATATAATATAAAATATG-
1 ATATAATAAAAAATAAAAAATAATAT-AATATAATATAAAATATGA
* *
511462 ATATAATAAAAAATAAAAAATAATATTATATTATATAAAATATGA
1 ATATAATAAAAAATAAAAAATAATATAATATAATATAAAATATGA
*
511507 ATATATTAAAA
1 ATATAATAAAA
511518 TTTATATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 38 0.78
45 11 0.22
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (45 bp):
ATATAATAAAAAATAAAAAATAATATAATATAATATAAAATATGA
Found at i:511579 original size:19 final size:19
Alignment explanation
Indices: 511402--511597 Score: 72
Period size: 17 Copynumber: 10.4 Consensus size: 19
511392 CTAATAATCT
* * *
511402 TAAATATGATATGATTATA
1 TAAATATAATATAAATATA
* *
511421 TAACATAAAATA-AAAAATAA
1 TAA-ATATAATATAAATAT-A
511441 TTAAATATAATATAAA-ATA
1 -TAAATATAATATAAATATA
* *
511460 T-GATATAATA-AAAAATA
1 TAAATATAATATAAATATA
* *
511477 -AAAAATAATAT-TATAT-
1 TAAATATAATATAAATATA
* * *
511493 TATATAAAATATGAATATA
1 TAAATATAATATAAATATA
* **
511512 TTAAA-ATTTATATATTTTATA
1 -TAAATA-TAATATA-AATATA
* *
511533 TAAATTTTTTATATATAAT-TA
1 TAAA--TATAATATA-AATATA
511554 T-AATATAATA-AATATATA
1 TAAATATAATATAA-ATATA
511572 TAAATATAATATAAATATA
1 TAAATATAATATAAATATA
511591 TAAATAT
1 TAAATAT
511598 TTAAGTATTT
Statistics
Matches: 131, Mismatches: 26, Indels: 40
0.66 0.13 0.20
Matches are distributed among these distances:
16 4 0.03
17 32 0.24
18 13 0.10
19 29 0.22
20 31 0.24
21 13 0.10
22 9 0.07
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAATATAATATAAATATA
Found at i:511857 original size:26 final size:26
Alignment explanation
Indices: 511825--511875 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
511815 AATAAAAATT
511825 TATTTATTATATTT-TATTTTAATTAA
1 TATTTATTAT-TTTATATTTTAATTAA
*
511851 TATTTATTATTTTATTTTTTAATTA
1 TATTTATTATTTTATATTTTAATTA
511876 TAGATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTTATTATTTTATATTTTAATTAA
Found at i:511876 original size:19 final size:19
Alignment explanation
Indices: 511823--511876 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
511813 AAAATAAAAA
511823 TTTATTTATTATATT-TTAT
1 TTTATTTATTA-ATTATTAT
* * *
511842 TTTAATTAATATTTATTAT
1 TTTATTTATTAATTATTAT
*
511861 TTTATTTTTTAATTAT
1 TTTATTTATTAATTAT
511877 AGATAAATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTATTAATTATTAT
Found at i:515377 original size:20 final size:21
Alignment explanation
Indices: 515354--515393 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
515344 AAAAAGATTT
515354 TGATCAAATC-AAAATTCAAC
1 TGATCAAATCAAAAATTCAAC
**
515374 TGATTGAATCAAAAATTCAA
1 TGATCAAATCAAAAATTCAA
515394 ATTTTAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (21 bp):
TGATCAAATCAAAAATTCAAC
Found at i:520792 original size:19 final size:19
Alignment explanation
Indices: 520751--520809 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
520741 TAGGAGGCAT
* *
520751 TATTATATGAAATATTAAT-
1 TATTGTATGTAATA-TAATA
520770 TATTGTATGTAATATAATA
1 TATTGTATGTAATATAATA
*
520789 TATTGT-TATAA-ATAATA
1 TATTGTATGTAATATAATA
520806 TATT
1 TATT
520810 AACAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 10 0.28
18 8 0.22
19 18 0.50
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
TATTGTATGTAATATAATA
Found at i:521107 original size:12 final size:12
Alignment explanation
Indices: 521090--521117 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
521080 AAAATCTTGA
521090 GACAATCACGTT
1 GACAATCACGTT
521102 GACAATCACGTT
1 GACAATCACGTT
521114 GACA
1 GACA
521118 TAAAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (12 bp):
GACAATCACGTT
Found at i:521583 original size:18 final size:17
Alignment explanation
Indices: 521480--521583 Score: 58
Period size: 16 Copynumber: 6.0 Consensus size: 17
521470 TTCATGACAT
* *
521480 TATTTTATTTTTAATTA
1 TATTTTATATTTAATAA
*
521497 TA-TTTATAGTTTATTTATAT
1 TATTTTATA-TTTA---ATAA
*
521517 TATTTTATCATGTAATAA
1 TATTTTAT-ATTTAATAA
521535 -A--TTATATTTAA-AA
1 TATTTTATATTTAATAA
521548 TATTTTATATTTATATAA
1 TATTTTATATTTA-ATAA
521566 T-TTTTGATATGTTAATAA
1 TATTTT-ATAT-TTAATAA
521584 ATTATATTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 25
0.69 0.06 0.25
Matches are distributed among these distances:
13 2 0.03
14 6 0.09
15 4 0.06
16 14 0.21
17 12 0.18
18 14 0.21
19 3 0.04
20 4 0.06
21 8 0.12
22 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (17 bp):
TATTTTATATTTAATAA
Found at i:521922 original size:16 final size:15
Alignment explanation
Indices: 521900--521940 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
521890 CACGATTAAC
521900 ATTAATATAATAAAA
1 ATTAATATAATAAAA
**
521915 ATTTAATACGATAAAA
1 A-TTAATATAATAAAA
521931 ATTAATATAA
1 ATTAATATAA
521941 ACATAATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATTAATATAATAAAA
Found at i:524521 original size:11 final size:11
Alignment explanation
Indices: 524492--524529 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
524482 ATAATGATAT
*
524492 TATTTTATTTT
1 TATTTTATTTA
524503 TAATTTTATTTA
1 T-ATTTTATTTA
524515 TATTTTATTTA
1 TATTTTATTTA
524526 TATT
1 TATT
524530 ATTTTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTTTATTTA
Found at i:524524 original size:16 final size:17
Alignment explanation
Indices: 524491--524534 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
524481 AATAATGATA
524491 TTAT-TTTATTTTTAAT
1 TTATATTTATTTTTAAT
524507 TT-TATTTATATTTT-AT
1 TTATATTTAT-TTTTAAT
524523 TTATA-TTATTTT
1 TTATATTTATTTT
524535 ATCATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATATTTATTTTTAAT
Found at i:524577 original size:30 final size:29
Alignment explanation
Indices: 524509--524579 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
524499 TTTTTAATTT
* *
524509 TATTTATAT--TTTATTTATATTATTTTA
1 TATTTATATAATTTATTTAAAATATTTTA
*
524536 TCATATA-ATAATTATATTTAAAATATTTTA
1 T-ATTTATATAATT-TATTTAAAATATTTTA
524566 TATTTATATAATTT
1 TATTTATATAATTT
524580 TTAATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
27 3 0.09
28 4 0.11
29 7 0.20
30 21 0.60
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (29 bp):
TATTTATATAATTTATTTAAAATATTTTA
Found at i:524594 original size:18 final size:18
Alignment explanation
Indices: 524547--524594 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
524537 CATATAATAA
524547 TTATAT-TTAA-AATATT
1 TTATATATTAATAATATT
524563 TTATAT-TTATATAAT-TT
1 TTATATATTA-ATAATATT
524580 TTAATATATTAATAA
1 TT-ATATATTAATAA
524595 ATCATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 9 0.32
17 5 0.18
18 11 0.39
19 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATATTAATAATATT
Found at i:525472 original size:2 final size:2
Alignment explanation
Indices: 525455--525509 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
525445 ACTATAAGTC
* * *
525455 TA TA -A TA TA TA AA TA TA TA TA TA TA TA TA TT TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
525496 TT TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA T
525510 TATTCATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:529154 original size:17 final size:18
Alignment explanation
Indices: 529113--529154 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
529103 ATTATCATTT
*
529113 TTTTTAATTTTTTATAAA
1 TTTTTAATTTTATATAAA
**
529131 TAATTAA-TTTATATAAA
1 TTTTTAATTTTATATAAA
529148 TTTTTAA
1 TTTTTAA
529155 AATAATTTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAATTTTATATAAA
Done.