Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 55 of 143
Found at i:17773300 original size:19 final size:19
Alignment explanation
Indices: 17773274--17773327 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
17773264 GATAAACAAA
*
17773274 TAAAAATAAAAATTAAATG
1 TAAAAATAAAAATAAAATG
*
17773293 TTAAAATAAACAA-AAAATG
1 TAAAAATAAA-AATAAAATG
17773312 TAAACAATAAAAATAA
1 TAAA-AATAAAAATAA
17773328 TTGAGATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (19 bp):
TAAAAATAAAAATAAAATG
Found at i:17773360 original size:4 final size:4
Alignment explanation
Indices: 17773344--17773396 Score: 63
Period size: 4 Copynumber: 13.0 Consensus size: 4
17773334 TTATGCATTA
* *
17773344 AAAT AAAT -GAT AAAT AAAT AAAT AAAT AAACA AAAT AAAT AAAT AAATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAA-T
17773393 AAAT
1 AAAT
17773397 GTTAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 33 0.79
5 7 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:17773396 original size:17 final size:16
Alignment explanation
Indices: 17773344--17773396 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
17773334 TTATGCATTA
*
17773344 AAATAAAT-GATAAAT
1 AAATAAATAAATAAAT
*
17773359 AAATAAATAAATAAACA
1 AAATAAATAAATAAA-T
17773376 AAATAAATAAATAAATT
1 AAATAAATAAATAAA-T
17773393 AAAT
1 AAAT
17773397 GTTAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 8 0.25
16 5 0.16
17 19 0.59
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AAATAAATAAATAAAT
Found at i:17778506 original size:75 final size:75
Alignment explanation
Indices: 17778380--17778610 Score: 410
Period size: 75 Copynumber: 3.1 Consensus size: 75
17778370 AATGATTTTG
*
17778380 GTCATTGCACTGATAATTTGGATAAAGTATTGAAGCGGTGTGAAGAAACACATCTTGTCCTAAAT
1 GTCATTGCACTGATAATTTGGATAAAGTATTGAAGCGGTGTGAAGACACACATCTTGTCCTAAAT
17778445 TGGGAAAAAT
66 TGGGAAAAAT
17778455 GTCATTGCACTGATAATTTGGATAAAGTATTGAAGCGGTGTGAAGACACACATCTTGTCCTAAAT
1 GTCATTGCACTGATAATTTGGATAAAGTATTGAAGCGGTGTGAAGACACACATCTTGTCCTAAAT
17778520 TGGGAAAAAT
66 TGGGAAAAAT
* * *
17778530 GTCATTGCGCTGATAATTTGGATAAAGTATTGAAGCGGTGTGAAGACACAGATCTTATCCTAAAT
1 GTCATTGCACTGATAATTTGGATAAAGTATTGAAGCGGTGTGAAGACACACATCTTGTCCTAAAT
17778595 TCGGG-AAAAT
66 T-GGGAAAAAT
17778605 GTCATT
1 GTCATT
17778611 TCATGGCAAC
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
75 148 0.98
76 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (75 bp):
GTCATTGCACTGATAATTTGGATAAAGTATTGAAGCGGTGTGAAGACACACATCTTGTCCTAAAT
TGGGAAAAAT
Found at i:17780159 original size:47 final size:47
Alignment explanation
Indices: 17780087--17780190 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
17780077 AATTAAAAAC
17780087 ATTCATGATAAGGTTGTGAACCCTTCGAGGAAAGATTGGTCTTCTAG
1 ATTCATGATAAGGTTGTGAACCCTTCGAGGAAAGATTGGTCTTCTAG
*
17780134 ATTCATGATAAGGTTGTGAATCCTTCGAGGAAAGATTGGTCTTCTAG
1 ATTCATGATAAGGTTGTGAACCCTTCGAGGAAAGATTGGTCTTCTAG
*
17780181 ACTTGATGAT
1 A-TTCATGAT
17780191 GCTTTATGGG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 47 0.87
48 7 0.13
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (47 bp):
ATTCATGATAAGGTTGTGAACCCTTCGAGGAAAGATTGGTCTTCTAG
Found at i:17784472 original size:80 final size:80
Alignment explanation
Indices: 17784339--17784498 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
17784329 GAGGAGCCCT
17784339 AAGTGCGACACAAGAGGGAAGTGAAAGAGCAAGTCTAGTTGTCTAGGAATCGTATTCTCCACTTA
1 AAGTGCGACACAAGAGGGAAGTGAAAGAGCAAGTCTAGTTGTCTAGGAATCGTATTCTCCACTTA
17784404 TTTCTTTTACATTTC
66 TTTCTTTTACATTTC
17784419 AAGTGCGACACAAGAGGGAAGTGAAAGAGCAAGTCTAGTTGTCTAGGAATCGTATTCTCCACTTA
1 AAGTGCGACACAAGAGGGAAGTGAAAGAGCAAGTCTAGTTGTCTAGGAATCGTATTCTCCACTTA
17784484 TTTCTTTTACATTTC
66 TTTCTTTTACATTTC
17784499 CCCTAAACGC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (80 bp):
AAGTGCGACACAAGAGGGAAGTGAAAGAGCAAGTCTAGTTGTCTAGGAATCGTATTCTCCACTTA
TTTCTTTTACATTTC
Found at i:17790591 original size:20 final size:20
Alignment explanation
Indices: 17790553--17790593 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17790543 AATCTTAAAT
**
17790553 TTTTAAAATTTTATTAAAAA
1 TTTTAAAATTTTACAAAAAA
17790573 TTTTAAAATTTTACAAAAAA
1 TTTTAAAATTTTACAAAAAA
17790593 T
1 T
17790594 AAAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAAATTTTACAAAAAA
Found at i:17791214 original size:21 final size:20
Alignment explanation
Indices: 17791177--17791215 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17791167 ATAATTAAAA
*
17791177 TATTAAAAATTCAAAAAACG
1 TATTAAAAATACAAAAAACG
*
17791197 TATTTAAAATACATAAAAA
1 TATTAAAAATACA-AAAAA
17791216 TCATAAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (20 bp):
TATTAAAAATACAAAAAACG
Found at i:17792379 original size:18 final size:18
Alignment explanation
Indices: 17792345--17792379 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17792335 AACAGTTATA
17792345 TTTCATTTTTGTCTTCTC
1 TTTCATTTTTGTCTTCTC
17792363 TTTCACTTTTTGT-TTCT
1 TTTCA-TTTTTGTCTTCT
17792380 TTTTAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.06, C:0.20, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTCATTTTTGTCTTCTC
Found at i:17793243 original size:22 final size:22
Alignment explanation
Indices: 17793217--17793260 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17793207 AATATATATT
*
17793217 AATAT-ATAAAGTATATTAGATC
1 AATATGATAAAG-ATATCAGATC
*
17793239 AATATGATAGAGATATCAGATC
1 AATATGATAAAGATATCAGATC
17793261 GATTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.32
Consensus pattern (22 bp):
AATATGATAAAGATATCAGATC
Found at i:17794392 original size:13 final size:15
Alignment explanation
Indices: 17794368--17794400 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17794358 ATTTGCATAT
17794368 AAAATGATTTTC-GA
1 AAAATGATTTTCTGA
17794382 AAAATGA-TTTCTGA
1 AAAATGATTTTCTGA
17794396 AAAAT
1 AAAAT
17794401 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (15 bp):
AAAATGATTTTCTGA
Found at i:17798961 original size:53 final size:53
Alignment explanation
Indices: 17798860--17799350 Score: 623
Period size: 53 Copynumber: 9.5 Consensus size: 53
17798850 TTCACGTTTG
17798860 ATAACTCACAATGACACAGAGTCATCGGAACCTTTAATCCATAATAGGATTCAC
1 ATAACTCACAATGACACAGAGTCATCGG-ACCTTTAATCCATAATAGGATTCAC
* * * * * *
17798914 ATAACTCACGATGATACAAATTCATCGGATCTTTAATCTATAATAGGATTCAC
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
* *
17798967 ATAACTCACGATGACACAGAGTCAACGGACCTTTAATCCATAATAGGATTCAC
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
*
17799020 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCGTAATAGG------
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
*
17799067 ATAACTCACAATGACATAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
*
17799120 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCGTAATAGG------
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
* *
17799167 ATAACTCATAATGACA-A-AGTCATCGGACCTTTAATCCATAATAGGATTCAT
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
* ** * * *
17799218 ATAACTCACGATGACACAGAGTCATTAGACCTTTAATCCGTAATAGAATTCAT
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
* * * ** * *
17799271 ATAACTCACGATAACACAGAGTCATCGGACCTTTAGTCTGTAATAGCATTCAT
1 ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
* *
17799324 ATAACTCACGATGACATAGAGTCATCG
1 ATAACTCACAATGACACAGAGTCATCG
17799351 AACTTTTTGC
Statistics
Matches: 388, Mismatches: 35, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
45 27 0.07
46 1 0.00
47 60 0.15
51 14 0.04
52 1 0.00
53 261 0.67
54 24 0.06
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (53 bp):
ATAACTCACAATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAC
Found at i:17806637 original size:9 final size:9
Alignment explanation
Indices: 17806619--17806666 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
17806609 AAACACTTCT
*
17806619 TGCATCTCA
1 TGCATTTCA
17806628 TGCATTTCA
1 TGCATTTCA
*
17806637 TGCATTCCA
1 TGCATTTCA
* **
17806646 AGCAACTCA
1 TGCATTTCA
17806655 TGCATTTCA
1 TGCATTTCA
17806664 TGC
1 TGC
17806667 GAAACATGCA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (9 bp):
TGCATTTCA
Found at i:17811302 original size:19 final size:20
Alignment explanation
Indices: 17811266--17811339 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
17811256 AATTATTATA
*
17811266 TTATAAAATT-TTTAGAATTT
1 TTAT-AAATTATTTTGAATTT
17811286 TTATAAA-TATTTTGAA-TT
1 TTATAAATTATTTTGAATTT
* *
17811304 TTAAAAATTATTTTCAATTT
1 TTATAAATTATTTTGAATTT
17811324 TTGA-AAATTATTTTGA
1 TT-ATAAATTATTTTGA
17811340 TTATTTTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.20
19 17 0.37
20 19 0.41
21 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (20 bp):
TTATAAATTATTTTGAATTT
Found at i:17811330 original size:20 final size:19
Alignment explanation
Indices: 17811281--17811337 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
17811271 AAATTTTTAG
*
17811281 AATTTTTATAAA-TATTTTG
1 AATTTTTA-AAATTATTTTC
*
17811300 AATTTTAAAAATTATTTTC
1 AATTTTTAAAATTATTTTC
17811319 AATTTTTGAAAATTATTTT
1 AATTTTT-AAAATTATTTT
17811338 GATTATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.09
19 19 0.58
20 11 0.33
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTC
Found at i:17811949 original size:19 final size:19
Alignment explanation
Indices: 17811925--17811972 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
17811915 AGGGATGGAC
17811925 AAAATTCGATTTGATTCGA
1 AAAATTCGATTTGATTCGA
17811944 AAAATTCGATTTGATTCGA
1 AAAATTCGATTTGATTCGA
17811963 AAAATTCGAT
1 AAAATTCGAT
17811973 AAAAAATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
AAAATTCGATTTGATTCGA
Found at i:17812451 original size:3 final size:3
Alignment explanation
Indices: 17812445--17812505 Score: 74
Period size: 3 Copynumber: 20.3 Consensus size: 3
17812435 GAATTATTAA
17812445 ATT ATT ATT ATTT ATT A-T ATAT ATT -TT -TT CATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT AT-T ATT ATT ATT -ATT ATT ATT ATT ATT
17812490 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
17812506 AACAGTGAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.11
3 39 0.74
4 8 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17834077 original size:20 final size:20
Alignment explanation
Indices: 17834043--17834084 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17834033 AACTATTCAA
** *
17834043 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
17834063 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
17834083 AT
1 AT
17834085 GTGTCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:17835737 original size:23 final size:23
Alignment explanation
Indices: 17835707--17835752 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17835697 CACATAGATC
17835707 GGGTCGGATCTAAGCCTGATATT
1 GGGTCGGATCTAAGCCTGATATT
17835730 GGGTCGGATCTAAGCCTGATATT
1 GGGTCGGATCTAAGCCTGATATT
17835753 AACATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (23 bp):
GGGTCGGATCTAAGCCTGATATT
Found at i:17836060 original size:10 final size:10
Alignment explanation
Indices: 17836047--17836071 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17836037 ATATATAAAA
17836047 ATAAAATATT
1 ATAAAATATT
17836057 ATAAAATATT
1 ATAAAATATT
17836067 ATAAA
1 ATAAA
17836072 CTTAAAACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAATATT
Found at i:17840012 original size:19 final size:19
Alignment explanation
Indices: 17839958--17840014 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
17839948 CAAAATAATC
*
17839958 AAAATAATTTTCAAAAATTG
1 AAAATAATTTT-AAAAATTA
*
17839978 AAAATAATTTTTAAAATTA
1 AAAATAATTTTAAAAATTA
17839997 AAAAT-ATTTATAAAAATT
1 AAAATAATTT-TAAAAATT
17840015 CTAAAATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 18 0.55
20 11 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTA
Found at i:17840160 original size:2 final size:2
Alignment explanation
Indices: 17840153--17840182 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17840143 TTACATGCTA
17840153 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
17840183 TATTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17843292 original size:40 final size:40
Alignment explanation
Indices: 17843237--17843318 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
17843227 GCTATGAGTT
17843237 TAGGAGGAAATGAGTATTTTGCATGTTATGTTGGAAGGAC
1 TAGGAGGAAATGAGTATTTTGCATGTTATGTTGGAAGGAC
*
17843277 TAGGAGGAAATGAGTATTTTGCATGTTGTGTTGGAAGGAC
1 TAGGAGGAAATGAGTATTTTGCATGTTATGTTGGAAGGAC
17843317 TA
1 TA
17843319 AATTGAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.29, C:0.05, G:0.33, T:0.33
Consensus pattern (40 bp):
TAGGAGGAAATGAGTATTTTGCATGTTATGTTGGAAGGAC
Found at i:17853546 original size:15 final size:15
Alignment explanation
Indices: 17853522--17853555 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17853512 ACTTTAAATC
17853522 CAAA-CCTTAAAACT
1 CAAACCCTTAAAACT
*
17853536 CAAACCCTTAAACCT
1 CAAACCCTTAAAACT
17853551 CAAAC
1 CAAAC
17853556 TCTAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (15 bp):
CAAACCCTTAAAACT
Found at i:17857439 original size:5 final size:5
Alignment explanation
Indices: 17857429--17857459 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
17857419 CATTTAACCG
17857429 ATTTT ATTTT ATTTT ATTTT GATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT
17857460 CAAAACAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:17857455 original size:16 final size:15
Alignment explanation
Indices: 17857429--17857459 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
17857419 CATTTAACCG
17857429 ATTTTATTTTATTTT
1 ATTTTATTTTATTTT
17857444 ATTTTGATTTTATTTT
1 ATTTT-ATTTTATTTT
17857460 CAAAACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTTATTTTATTTT
Found at i:17857564 original size:83 final size:82
Alignment explanation
Indices: 17857434--17857789 Score: 349
Period size: 83 Copynumber: 4.4 Consensus size: 82
17857424 AACCGATTTT
* * *
17857434 ATTTTATTTTATTTTGATTTTATTTTCAAAACAAGAATAAGTTGAATAAATCTGTTTCAGGATTT
1 ATTTTA-TTTATTTTGATTTTGTTTCCAAAACAAGAATAAGTTGAATAAATCTGTTTCAAGATTT
** * *
17857499 ATTCTCATCATTTAACAG
65 ATTCTCGCCGTTCAACAG
* * * *
17857517 ATTTTATTATATTTTGATTTTGTTTCCAAAACAAGAATAAGTTGAATAAAACTATTTTAAAATTT
1 ATTTTATT-TATTTTGATTTTGTTTCCAAAACAAGAATAAGTTGAATAAATCTGTTTCAAGATTT
17857582 ATTCTCGCCGTTCAACAG
65 ATTCTCGCCGTTCAACAG
* * * * *
17857600 ATTTTATTCTATTTTGGATTTAGTTTCC-TAACAAGAATTAAAATTAAATAATTCTGTTTCAAGA
1 ATTTTATT-TATTTT-GATTTTGTTTCCAAAACAAGAA-T-AAGTTGAATAAATCTGTTTCAAGA
17857664 TTTATTCTCGCCGTTCAACAG
62 TTTATTCTCGCCGTTCAACAG
* *
17857685 ATTTGATTTGATTTTGATTTTGTTTCC-AAAC-A-AA-AA-TT-AATTAAATTATGTTTCAAGAT
1 ATTTTATTT-ATTTTGATTTTGTTTCCAAAACAAGAATAAGTTGAA-TAAA-TCTGTTTCAAGAT
* *
17857744 TTAATC-CTGTCGTTCAACAG
63 TTATTCTC-GCCGTTCAACAG
*
17857764 A--TT-TTGATTTTGATTTTGTTT-CAAAA
1 ATTTTATTTATTTTGATTTTGTTTCCAAAA
17857790 TTTTAATTCT
Statistics
Matches: 234, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
74 1 0.00
75 18 0.08
76 2 0.01
77 3 0.01
78 6 0.03
79 31 0.13
82 4 0.02
83 92 0.39
84 27 0.12
85 50 0.21
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.45
Consensus pattern (82 bp):
ATTTTATTTATTTTGATTTTGTTTCCAAAACAAGAATAAGTTGAATAAATCTGTTTCAAGATTTA
TTCTCGCCGTTCAACAG
Found at i:17860918 original size:21 final size:21
Alignment explanation
Indices: 17860894--17860960 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
17860884 CATTTGCAAT
* *
17860894 TGAGTTGTGCTGCTTACTTGC
1 TGAGATGTGCTGCTCACTTGC
*
17860915 TGAGATGTGCTACTCACTTGC
1 TGAGATGTGCTGCTCACTTGC
* *
17860936 TGAGATGTACTGCTCATTTGC
1 TGAGATGTGCTGCTCACTTGC
17860957 TGAG
1 TGAG
17860961 TTGGGGCCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.37
Consensus pattern (21 bp):
TGAGATGTGCTGCTCACTTGC
Found at i:17861255 original size:26 final size:25
Alignment explanation
Indices: 17861211--17861276 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
17861201 ATTGTGCCCA
* * *
17861211 AAATTATCGCTATAGGAACTTGTTC
1 AAATTATCGCTACAGGAACATGTCC
* *
17861236 AGAATTATCGCTGCATGAACATGTCC
1 A-AATTATCGCTACAGGAACATGTCC
17861262 AAAGTTATCGCTACA
1 AAA-TTATCGCTACA
17861277 TAAATATGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.09
26 30 0.91
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (25 bp):
AAATTATCGCTACAGGAACATGTCC
Found at i:17861285 original size:26 final size:26
Alignment explanation
Indices: 17861240--17861303 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
17861230 TTGTTCAGAA
* *
17861240 TTATCGCTGCATGAACATGTCCAAAG
1 TTATCGCTACATAAACATGTCCAAAG
* *
17861266 TTATCGCTACATAAATATGTCCAGAG
1 TTATCGCTACATAAACATGTCCAAAG
*
17861292 TTTTCGCTACAT
1 TTATCGCTACAT
17861304 GAGCATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (26 bp):
TTATCGCTACATAAACATGTCCAAAG
Found at i:17862827 original size:28 final size:27
Alignment explanation
Indices: 17862794--17862873 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 27
17862784 TATAAGTCAG
17862794 GCATCCAATATAAATCCAACATAAAACA
1 GCATCCAATATAAA-CCAACATAAAACA
* * * *
17862822 TCATCC-A-AGACACCTA-A-AAAACA
1 GCATCCAATATAAACCAACATAAAACA
17862845 GCATCCAATATAAAGCCAACATAAAACA
1 GCATCCAATATAAA-CCAACATAAAACA
17862873 G
1 G
17862874 ACATAAAGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
23 11 0.28
24 2 0.05
25 6 0.15
26 6 0.15
27 2 0.05
28 12 0.31
ACGTcount: A:0.53, C:0.26, G:0.06, T:0.15
Consensus pattern (27 bp):
GCATCCAATATAAACCAACATAAAACA
Found at i:17864811 original size:33 final size:30
Alignment explanation
Indices: 17864748--17864817 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 30
17864738 GCCAGACAAA
* *
17864748 TTACT-CATCACTATCAGATAAACAACCAT
1 TTACTACATCACTATCAGAGAAACAAACAT
17864777 TTACTACATCACTATCAGACCAGAAACAAACAT
1 TTACTACATCACTATCAG---AGAAACAAACAT
*
17864810 TTAATACA
1 TTACTACA
17864818 ACACATGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.15
30 12 0.35
33 17 0.50
ACGTcount: A:0.44, C:0.26, G:0.04, T:0.26
Consensus pattern (30 bp):
TTACTACATCACTATCAGAGAAACAAACAT
Found at i:17865280 original size:41 final size:40
Alignment explanation
Indices: 17865219--17865341 Score: 119
Period size: 40 Copynumber: 3.0 Consensus size: 40
17865209 AAAATATGTG
17865219 AATAACAAATC-AAA-CAAATATTTAAATAACCCTAAATCAA
1 AATAA-AAATCAAAATC-AATATTTAAATAACCCTAAATCAA
* * *
17865259 AATCAAAAATGAAAATCAATA-TCAAAAAACCCTAAATCAAA
1 AAT-AAAAATCAAAATCAATATTTAAATAACCCTAAATC-AA
* * *
17865300 AATAGAAATCAAAATCAA-ATTTGAATAAACCCTAAATTAA
1 AATAAAAATCAAAATCAATATTTAAAT-AACCCTAAATCAA
17865340 AA
1 AA
17865342 ATCACAATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
39 1 0.01
40 42 0.62
41 24 0.35
42 1 0.01
ACGTcount: A:0.61, C:0.15, G:0.02, T:0.21
Consensus pattern (40 bp):
AATAAAAATCAAAATCAATATTTAAATAACCCTAAATCAA
Found at i:17871457 original size:28 final size:28
Alignment explanation
Indices: 17871398--17871457 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
17871388 AAACACTTTG
*** **
17871398 TTCTAATTAAAATAAAATAGGTGACTTA
1 TTCTAATTAAAATAAAATAAAAGAAGTA
*
17871426 TTCTAATTAAAATAAAATAAAAGAAGTC
1 TTCTAATTAAAATAAAATAAAAGAAGTA
17871454 TTCT
1 TTCT
17871458 TATATTTGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (28 bp):
TTCTAATTAAAATAAAATAAAAGAAGTA
Found at i:17872401 original size:21 final size:21
Alignment explanation
Indices: 17872384--17872438 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
17872374 TCCTAAATCT
17872384 AAAATCTCAAACCTTAAACTC
1 AAAATCTCAAACCTTAAACTC
*
17872405 AAAATCTCAAACTTTAAACTC
1 AAAATCTCAAACCTTAAACTC
*
17872426 ATAATCTCAAACC
1 AAAATCTCAAACC
17872439 CTTGAACCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATCTCAAACCTTAAACTC
Found at i:17872458 original size:42 final size:42
Alignment explanation
Indices: 17872384--17872495 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
17872374 TCCTAAATCT
* * * *
17872384 AAAATCTCAAA-CCTTAAACTCAAAATCTCAAACT-TTAAACTC
1 AAAATCTCAAACCCTTAAACCCTAAA-CCCAAACTCAT-AACTC
* *
17872426 ATAATCTCAAACCCTTGAACCCTAAACCCAAACTCATAACTC
1 AAAATCTCAAACCCTTAAACCCTAAACCCAAACTCATAACTC
*
17872468 AAAATC-CAAAACCCTTAAACCTTAAACC
1 AAAATCTC-AAACCCTTAAACCCTAAACC
17872496 TAAATTATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 45 0.78
43 12 0.21
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (42 bp):
AAAATCTCAAACCCTTAAACCCTAAACCCAAACTCATAACTC
Found at i:17872904 original size:17 final size:17
Alignment explanation
Indices: 17872871--17872903 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17872861 TTGTTTTTGA
*
17872871 ATTTTTCAATTATTTTT
1 ATTTTTAAATTATTTTT
17872888 ATTTTTAAATT-TTTTT
1 ATTTTTAAATTATTTTT
17872904 TGAAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTAAATTATTTTT
Found at i:17872923 original size:24 final size:23
Alignment explanation
Indices: 17872892--17872949 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
17872882 ATTTTTATTT
17872892 TTAA-ATTTTTTTTGAAACTTTTG
1 TTAATATTTTTTTTGAAA-TTTTG
*
17872915 TTAATATTTATTTTTTAAATTTTG
1 TTAATATTT-TTTTTGAAATTTTG
*
17872939 TACAATATTTT
1 T-TAATATTTT
17872950 AAATATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 11 0.37
25 15 0.50
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (23 bp):
TTAATATTTTTTTTGAAATTTTG
Found at i:17872950 original size:26 final size:26
Alignment explanation
Indices: 17872899--17872948 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
17872889 TTTTTAAATT
*
17872899 TTTTTTGAAACTTTTGTTAATATTTA
1 TTTTTTGAAACTTTTGTCAATATTTA
17872925 TTTTTT-AAA-TTTTGTACAATATTT
1 TTTTTTGAAACTTTTGT-CAATATTT
17872949 TAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 10 0.45
26 6 0.27
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (26 bp):
TTTTTTGAAACTTTTGTCAATATTTA
Found at i:17883191 original size:14 final size:14
Alignment explanation
Indices: 17883163--17883206 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
17883153 GGCAAAAGGG
*
17883163 AGGGAAAAGGGGAAA
1 AGGG-AAAGGAGAAA
17883178 AGGGAAAGGAGAAA
1 AGGGAAAGGAGAAA
*
17883192 AGGGAAGGGAGAAA
1 AGGGAAAGGAGAAA
17883206 A
1 A
17883207 ACTTTAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 23 0.85
15 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (14 bp):
AGGGAAAGGAGAAA
Found at i:17884175 original size:26 final size:26
Alignment explanation
Indices: 17884139--17884191 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
17884129 ATTCAACTAC
17884139 TTAGTACTTCAAATCAAAAGGAATGA
1 TTAGTACTTCAAATCAAAAGGAATGA
17884165 TTAGTACTTCAAATCAAAAGGAATGA
1 TTAGTACTTCAAATCAAAAGGAATGA
17884191 T
1 T
17884192 AATAATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.28
Consensus pattern (26 bp):
TTAGTACTTCAAATCAAAAGGAATGA
Found at i:17891855 original size:31 final size:30
Alignment explanation
Indices: 17891814--17891899 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
17891804 TCAATATAAC
*
17891814 ATTTGATACCTAAACTTGACACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCC-A
**
17891845 ATTTGGTACCTAAACTT---TTTTTTGTCCA
1 ATTTGGTACCTAAACTTGACACTTTT-TCCA
17891873 ATTTGGTA-CTCAAACTTGACACTTTTT
1 ATTTGGTACCT-AAACTTGACACTTTTT
17891900 TTAAAGTTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
27 2 0.04
28 19 0.42
29 3 0.07
30 1 0.02
31 20 0.44
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (30 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCA
Found at i:17891876 original size:28 final size:28
Alignment explanation
Indices: 17891836--17891889 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
17891826 AACTTGACAC
17891836 TTTTTCCTAATTTGGTAC-CTAAACTTTT
1 TTTTTCCTAATTTGGTACTC-AAACTTTT
17891864 TTTTGTCC-AATTTGGTACTCAAACTT
1 TTTT-TCCTAATTTGGTACTCAAACTT
17891890 GACACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (28 bp):
TTTTTCCTAATTTGGTACTCAAACTTTT
Found at i:17891891 original size:59 final size:59
Alignment explanation
Indices: 17891825--17891975 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 59
17891815 TTTGATACCT
* ***
17891825 AAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTTGTCCAATTTGGTACTC
1 AAACTTGACACTTTTTCCTAATTTGGTACCTAAACCTTTTGAGGTCCAATTTGGTACTC
* * * *
17891884 AAACTTGACACTTTTT-TTAAAGTTGGTACTTAAAACCTTTTGAGGTCCAATTTGGTACTT
1 AAACTTGACACTTTTTCCT-AATTTGGTACCT-AAACCTTTTGAGGTCCAATTTGGTACTC
* **
17891944 GAACTTGACTTTTTTTCCTAATTTGGTACCTA
1 AAACTTGACACTTTTTCCTAATTTGGTACCTA
17891976 GTTTTTTAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
58 1 0.01
59 27 0.36
60 46 0.61
61 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (59 bp):
AAACTTGACACTTTTTCCTAATTTGGTACCTAAACCTTTTGAGGTCCAATTTGGTACTC
Found at i:17892188 original size:31 final size:30
Alignment explanation
Indices: 17892147--17892255 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 30
17892137 ATCTTAAAAA
17892147 AAGTT-AGGTACCAAATTAGAAAAAAATGTC
1 AAGTTCAGGTACCAAATTAGAAAAAAAT-TC
*
17892177 AAGTTCAGGTACCAAATTAAGTCTAAAAAA---
1 AAGTTCAGGTACCAAATT-AG--AAAAAAATTC
* **
17892207 AAGTTTAGGTACCAAATTAGGAAAAACTTTC
1 AAGTTCAGGTACCAAATTA-GAAAAAAATTC
* *
17892238 AAGATCAGGTAACAAATT
1 AAGTTCAGGTACCAAATT
17892256 GGGTCAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
28 4 0.06
29 1 0.02
30 23 0.37
31 27 0.43
32 2 0.03
34 6 0.10
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.25
Consensus pattern (30 bp):
AAGTTCAGGTACCAAATTAGAAAAAAATTC
Found at i:17892217 original size:30 final size:30
Alignment explanation
Indices: 17892120--17892225 Score: 103
Period size: 30 Copynumber: 3.5 Consensus size: 30
17892110 ATTTAATAAA
* * *
17892120 TTTAGGTACTAAATTAAATCTTAAAAAAAG
1 TTTAGGTACCAAATTAAGTCTAAAAAAAAG
*
17892150 -TTAGGTACCAAATT-AG--AAAAAAATGTCAAG
1 TTTAGGTACCAAATTAAGTCTAAAAAA----AAG
*
17892180 TTCAGGTACCAAATTAAGTCTAAAAAAAAG
1 TTTAGGTACCAAATTAAGTCTAAAAAAAAG
17892210 TTTAGGTACCAAATTA
1 TTTAGGTACCAAATTA
17892226 GGAAAAACTT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
26 5 0.08
28 1 0.02
29 13 0.21
30 21 0.34
31 13 0.21
32 2 0.03
34 6 0.10
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (30 bp):
TTTAGGTACCAAATTAAGTCTAAAAAAAAG
Found at i:17892240 original size:61 final size:60
Alignment explanation
Indices: 17892123--17892312 Score: 215
Period size: 58 Copynumber: 3.2 Consensus size: 60
17892113 TAATAAATTT
* *
17892123 AGGTACTAAATTAAATCTTAAAAAAAG-TTAGGTACCAAATTAGAAAAAAATGTCAAGTTC
1 AGGTACCAAATTAAGTC-TAAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTC
* * * *
17892183 AGGTACCAAATTAAGTCTAAAAAAAAGTTTAGGTACCAAATTAGGAAAAACTTTCAAGATC
1 AGGTACCAAATTAAGTCT-AAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTC
* ** * * *
17892244 AGGTAACAAATTGGGTC--AAAAAATTTTAGATACCAAATTAAAAAAAAATGTCAAGTTC
1 AGGTACCAAATTAAGTCTAAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTC
* *
17892302 AGATATCAAAT
1 AGGTACCAAAT
17892313 GTTGTTATAT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
58 43 0.39
59 1 0.01
60 23 0.21
61 43 0.39
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (60 bp):
AGGTACCAAATTAAGTCTAAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAGTTC
Found at i:17898336 original size:108 final size:108
Alignment explanation
Indices: 17898134--17898348 Score: 313
Period size: 108 Copynumber: 2.0 Consensus size: 108
17898124 ACGAGGGTGC
* * *
17898134 ATCTTGAGGCTCTTATCAGGTTCTGCATGTACATCATCAGCCAGTTCAGTTTCAGCAGATTTTTT
1 ATCTTGAGACTCCTATCAGGTTCTGCAAGTACATCATCAGCCAGTTCAGTTTCAGCAGATTTTTT
* *
17898199 TTCATTATTCTTCTCAAGAACAGCCGCATCTTTCAAATTACAT
66 TTCATTATCCTTCTCAAGAACAGCCGCATCTGTCAAATTACAT
* * *
17898242 ATCTTGAGACTCCTATCAGGTTCTGCAAGTACATTATCTGCCGGTTCAGTTTCAGCAGATTTTTT
1 ATCTTGAGACTCCTATCAGGTTCTGCAAGTACATCATCAGCCAGTTCAGTTTCAGCAGATTTTTT
* * ** *
17898307 TTCATTATCCTTCTCCAGAACGGTTGCATCTGTCAATTTACA
66 TTCATTATCCTTCTCAAGAACAGCCGCATCTGTCAAATTACA
17898349 CAACTTAGTT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (108 bp):
ATCTTGAGACTCCTATCAGGTTCTGCAAGTACATCATCAGCCAGTTCAGTTTCAGCAGATTTTTT
TTCATTATCCTTCTCAAGAACAGCCGCATCTGTCAAATTACAT
Found at i:17900240 original size:19 final size:19
Alignment explanation
Indices: 17900189--17900240 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
17900179 TAATATATAT
*
17900189 TATAAATATATTTA-ATAG
1 TATAAATATATTTATTTAG
17900207 TAT-AATATA-TTATTTA-
1 TATAAATATATTTATTTAG
17900223 TATAAATATGATTTATTT
1 TATAAATAT-ATTTATTT
17900241 CTTAATAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 6 0.21
17 13 0.45
18 4 0.14
19 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
TATAAATATATTTATTTAG
Found at i:17905045 original size:14 final size:14
Alignment explanation
Indices: 17905013--17905039 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17905003 TTGTTTCACT
17905013 AAAAATAATTTTTG
1 AAAAATAATTTTTG
17905027 AAAAATAATTTTT
1 AAAAATAATTTTT
17905040 TTAAAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
AAAAATAATTTTTG
Found at i:17905045 original size:15 final size:14
Alignment explanation
Indices: 17905012--17905045 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17905002 TTTGTTTCAC
17905012 TAAAAATAATTTTT
1 TAAAAATAATTTTT
*
17905026 GAAAAATAATTTTT
1 TAAAAATAATTTTT
*
17905040 TTAAAA
1 TAAAAA
17905046 GTTAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
TAAAAATAATTTTT
Found at i:17905271 original size:15 final size:16
Alignment explanation
Indices: 17905245--17905298 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
17905235 ATTTTTTTAT
*
17905245 TTAAAAATATTTATTA
1 TTAATAATATTTATTA
*
17905261 TTAAT-ATATTTATAA
1 TTAATAATATTTATTA
17905276 TTGTAATAAATATTTATTA
1 -T-TAAT-AATATTTATTA
17905295 TTAA
1 TTAA
17905299 AATGTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 9 0.29
16 5 0.16
17 7 0.23
18 1 0.03
19 9 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTAATAATATTTATTA
Found at i:17905448 original size:38 final size:39
Alignment explanation
Indices: 17905372--17905449 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 39
17905362 TAAAATTGAA
*
17905372 ATATTAAATAATTTATTAAAATAATAAAGTATATTAATT
1 ATATTAAATAATTTATTAAAATAATAAAGTATAATAATT
*
17905411 ATATT-AATAATTTATT-ATATGAATAAA-TATAAATAATT
1 ATATTAAATAATTTATTAAAAT-AATAAAGTAT-AATAATT
17905449 A
1 A
17905450 AATATGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 6 0.17
38 24 0.69
39 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (39 bp):
ATATTAAATAATTTATTAAAATAATAAAGTATAATAATT
Found at i:17908844 original size:29 final size:29
Alignment explanation
Indices: 17908781--17908845 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
17908771 AAATTTTAAA
*
17908781 TTAATAATGGTAAAATTGTATTTCCTCCTC
1 TTAA-AATGGTAAAATTGTATTTACTCCTC
* * *
17908811 CTAAAATGGTAAAATTTTGATTTATTCCT-
1 TTAAAATGGTAAAATTGT-ATTTACTCCTC
17908840 TTAAAA
1 TTAAAA
17908846 ATTATAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (29 bp):
TTAAAATGGTAAAATTGTATTTACTCCTC
Found at i:17910511 original size:30 final size:29
Alignment explanation
Indices: 17910439--17910512 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
17910429 GTCAAAAAAG
17910439 TTTTATCAACTTTTAAGGAGTTCGATTTT
1 TTTTATCAACTTTTAAGGAGTTCGATTTT
* * *
17910468 TTTTTTTAGCTTTTAAGG-GTCTCGAATTTT
1 TTTTATCAACTTTTAAGGAGT-TCG-ATTTT
*
17910498 TTTTACCAACTTTTA
1 TTTTATCAACTTTTA
17910513 TGAAAACTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 2 0.06
29 18 0.50
30 16 0.44
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (29 bp):
TTTTATCAACTTTTAAGGAGTTCGATTTT
Found at i:17912408 original size:18 final size:18
Alignment explanation
Indices: 17912376--17912418 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
17912366 CTAAAAGTTT
17912376 ATTTTAATATATTAT-AC
1 ATTTTAATATATTATCAC
*
17912393 ATTTTAATTTTATTATGCAC
1 ATTTTAA-TATATTAT-CAC
17912413 ATTTTA
1 ATTTTA
17912419 TTACCTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 7 0.32
20 8 0.36
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTAATATATTATCAC
Found at i:17912768 original size:21 final size:20
Alignment explanation
Indices: 17912709--17912768 Score: 50
Period size: 22 Copynumber: 2.8 Consensus size: 20
17912699 ACATTAAATT
*
17912709 AAAAAATAACTC-TTAATTTA
1 AAAAAATAACTCATT-ATCTA
*
17912729 AAGAAAATAAACGTAATTATCTA
1 AA-AAAAT-AAC-TCATTATCTA
17912752 AAAAAATCAACTCATTA
1 AAAAAAT-AACTCATTA
17912769 GAAAAACTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 2 0.06
21 10 0.31
22 11 0.34
23 7 0.22
24 2 0.06
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAAATAACTCATTATCTA
Found at i:17914445 original size:16 final size:17
Alignment explanation
Indices: 17914410--17914447 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
17914400 ACATATTATT
* *
17914410 TATTTTAATAACTCAAA
1 TATTTCAATAACTAAAA
17914427 TATTTCAATAA-TAAAA
1 TATTTCAATAACTAAAA
17914443 TATTT
1 TATTT
17914448 ACCAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTTCAATAACTAAAA
Found at i:17918922 original size:193 final size:195
Alignment explanation
Indices: 17918568--17918928 Score: 485
Period size: 193 Copynumber: 1.9 Consensus size: 195
17918558 GAAATCGACG
* * * *
17918568 CGATGGCTGAGGTATCGCATATGTTGCGAGTCCTCGACAACTCGTGTGAGCAGCATCGTGAGTCC
1 CGATGGCTGAGGTACCGCATATGTTACGAGCCCTCGACAACTCGTGTGAGAAGCATCGTGAGTCC
* * *
17918633 AAAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCCACGATGGCTAAGATTTATGCATAAGT
66 AAAAAAGAGAAAAGAATCCAAGAATGGATTACAGACCCCACAATGGCTAAGATTTATGCATAAGT
* *
17918698 GCATATTCTCGATAGCTCGTGTGAATAGCATCGTTAGGGAACAGTTATATGCACAGATACGGAAT
131 GCATATTCTCGAAAACTCGTGTGAATAGCATCGTTAGGGAACAGTTATATGCACAGATACGGAAT
* * *
17918763 CGATGGCTGAGGTACCGCATATGTTACGAGCCCTCGATAGCTTGTGTGAGAAGCATCGTGAGT-C
1 CGATGGCTGAGGTACCGCATATGTTACGAGCCCTCGACAACTCGTGTGAGAAGCATCGTGAGTCC
* * * * ** * * * *
17918827 AAAAAAGAGATACGAATCCTA-AATGGATTATAGACCTTATAATGGTTGAGATTTATGCTTTAA-
66 AAAAAAGAGAAAAGAATCCAAGAATGGATTACAGACCCCACAATGGCTAAGATTTATGC-ATAAG
*
17918890 TGCATATTCTCGAAAACTCGTGTGAGTAGCATCGTTAGG
130 TGCATATTCTCGAAAACTCGTGTGAATAGCATCGTTAGG
17918929 AGATAGACAC
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
193 65 0.46
194 21 0.15
195 56 0.39
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (195 bp):
CGATGGCTGAGGTACCGCATATGTTACGAGCCCTCGACAACTCGTGTGAGAAGCATCGTGAGTCC
AAAAAAGAGAAAAGAATCCAAGAATGGATTACAGACCCCACAATGGCTAAGATTTATGCATAAGT
GCATATTCTCGAAAACTCGTGTGAATAGCATCGTTAGGGAACAGTTATATGCACAGATACGGAAT
Found at i:17922516 original size:20 final size:20
Alignment explanation
Indices: 17922491--17922534 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17922481 TGTCAACGCA
17922491 TTTTTACATTTACTT-TTATC
1 TTTTTACATTTACTTGTT-TC
*
17922511 TTTTTACTTTTACTTGTTTC
1 TTTTTACATTTACTTGTTTC
17922531 TTTT
1 TTTT
17922535 AAATCTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTACATTTACTTGTTTC
Found at i:17922535 original size:13 final size:14
Alignment explanation
Indices: 17922499--17922535 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
17922489 CATTTTTACA
17922499 TTTACTTTTATCTT
1 TTTACTTTTATCTT
17922513 TTTACTTTTA-CTT
1 TTTACTTTTATCTT
17922526 GTTT-CTTTTA
1 -TTTACTTTTA
17922536 AATCTAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTACTTTTATCTT
Found at i:17924879 original size:17 final size:18
Alignment explanation
Indices: 17924836--17924889 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
17924826 ATGCATAGCA
*
17924836 TTTAGTTGTCATTACATT
1 TTTAGTTGTCACTACATT
* *
17924854 TTTAATTGTCACTGCA-T
1 TTTAGTTGTCACTACATT
* *
17924871 TTTAGTTGTTAGTACATT
1 TTTAGTTGTCACTACATT
17924889 T
1 T
17924890 GCATTGTAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.22, C:0.11, G:0.13, T:0.54
Consensus pattern (18 bp):
TTTAGTTGTCACTACATT
Found at i:17930028 original size:32 final size:32
Alignment explanation
Indices: 17929992--17930052 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
17929982 GGGTGCAACA
17929992 AACCCCCAAGAGGTATGTAATTGCACCAATAC
1 AACCCCCAAGAGGTATGTAATTGCACCAATAC
17930024 AACCCCCAAGAGGTATGTAATTGCACCAA
1 AACCCCCAAGAGGTATGTAATTGCACCAA
17930053 CACACACTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (32 bp):
AACCCCCAAGAGGTATGTAATTGCACCAATAC
Found at i:17932499 original size:66 final size:66
Alignment explanation
Indices: 17932428--17932567 Score: 262
Period size: 66 Copynumber: 2.1 Consensus size: 66
17932418 ATTTCACTAA
17932428 AAAAAATGTAAAAGTAAACAACAAAAAGGAAACAAGTTAGTGACGAATAAAATTTAGATAATAAA
1 AAAAAATGTAAAAGTAAACAACAAAAAGGAAACAAGTTAGTGACGAATAAAATTTAGATAATAAA
17932493 G
66 G
*
17932494 AAAAAATGTAAAAGTAAACAACAAAAAGGGAACAAGTTAGTGACGAATAAAATTTAGATAATAAA
1 AAAAAATGTAAAAGTAAACAACAAAAAGGAAACAAGTTAGTGACGAATAAAATTTAGATAATAAA
17932559 G
66 G
*
17932560 AATAAATG
1 AAAAAATG
17932568 CAACGACAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 72 1.00
ACGTcount: A:0.60, C:0.06, G:0.16, T:0.19
Consensus pattern (66 bp):
AAAAAATGTAAAAGTAAACAACAAAAAGGAAACAAGTTAGTGACGAATAAAATTTAGATAATAAA
G
Found at i:17936617 original size:3 final size:3
Alignment explanation
Indices: 17936611--17936666 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
17936601 TTTTGAAAAC
* * * * *
17936611 TAT TAT TAT TAT TAT TAT TGT TAT TGT TAT TGT TGT TAT TAT TAAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
17936657 TAT TAT TAT T
1 TAT TAT TAT T
17936667 TTTAGGATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:17937462 original size:140 final size:139
Alignment explanation
Indices: 17937036--17937516 Score: 601
Period size: 140 Copynumber: 3.4 Consensus size: 139
17937026 TAAAATAAAT
* *
17937036 TTTTTTTAACTATTTCAAAATAAAAGTTTTGATTTTTAAGAAAAATAGTGATTT-AAAAAAAGTT
1 TTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTAAAAAAAAGTT
* * * ** *
17937100 CAGATTTTTAAAAATAAAAATTTGTTTTTTAGGAATTTTAAAAGAAAAATGTTTAAATTTTTAAA
66 TAGATTTTTAAAAATAAAAATATG-TTTTTAGGTATTTTAAAAGAAAAAAATTTAAATTTGTAAA
*
17937165 CAAAGTTGGA
130 CAAAGTTTGA
* * *
17937175 -TTTTTTAACTATTTTGAAATAAAAATTTTGATTTTTAAGTAAAGTAGTGATCTTTTTTTTAAAA
1 TTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGA-------TTT---A
*
17937239 AAAAGAAAGTTTAGATTTTTAAAAATAAAAATAT-ATTTTAGGTATTTTAAAAGAAAAAAATTTA
56 AAAA-AAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGGTATTTTAAAAGAAAAAAATTTA
17937303 AATTTGTAAACAAAGTTTGA
120 AATTTGTAAACAAAGTTTGA
* * *
17937323 TTTTTTTAACTATTTCGAAATAAAAGTTTTAATTTTTAA-ATAAATTAGTGATTTAAAAAAAAGT
1 TTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGA-AAAATAGTGATTTAAAAAAAAGT
* * * *
17937387 TTGGATTTTTAAAAATAAAAATCTGTTTTTAGTTATTTTAAAGAGAAAAAAAATTAAATTTGTAA
65 TTAGATTTTTAAAAATAAAAATATGTTTTTAGGTATTTTAAA-AGAAAAAAATTTAAATTTGTAA
**
17937452 ACGGAGTTTGA
129 ACAAAGTTTGA
*
17937463 TTTTTTTAACTATTTCGAAATAAAAATTTCGATTTTTAAGAAAAATAGTGATTT
1 TTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTT
17937517 TGTTTTAAAA
Statistics
Matches: 296, Mismatches: 29, Indels: 33
0.83 0.08 0.09
Matches are distributed among these distances:
138 72 0.24
139 20 0.07
140 78 0.26
141 1 0.00
142 3 0.01
145 3 0.01
148 44 0.15
149 48 0.16
150 27 0.09
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.43
Consensus pattern (139 bp):
TTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTAAAAAAAAGTT
TAGATTTTTAAAAATAAAAATATGTTTTTAGGTATTTTAAAAGAAAAAAATTTAAATTTGTAAAC
AAAGTTTGA
Found at i:17937561 original size:25 final size:24
Alignment explanation
Indices: 17937514--17937561 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
17937504 AAAATAGTGA
* * *
17937514 TTTTGTTTTAAAAAAAGAGAAAAC
1 TTTTGTTTCAAAAAAACAAAAAAC
17937538 TTTTGATTTCAAAAAAACAAAAAA
1 TTTTG-TTTCAAAAAAACAAAAAA
17937562 AAAAATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.31
Consensus pattern (24 bp):
TTTTGTTTCAAAAAAACAAAAAAC
Found at i:17937642 original size:24 final size:24
Alignment explanation
Indices: 17937608--17937657 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
17937598 GGAAGCCGGA
17937608 GAGCTGATAGGCTCTCCGATGGTG
1 GAGCTGATAGGCTCTCCGATGGTG
*
17937632 GAGCTGGTAGGCTCTCCGATGGTG
1 GAGCTGATAGGCTCTCCGATGGTG
17937656 GA
1 GA
17937658 ACTATGGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.40, T:0.24
Consensus pattern (24 bp):
GAGCTGATAGGCTCTCCGATGGTG
Found at i:17938803 original size:12 final size:12
Alignment explanation
Indices: 17938788--17938854 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 12
17938778 CCGAAACAAC
17938788 ACCAAAAACAGT
1 ACCAAAAACAGT
* *
17938800 ACC-AAAATAGC
1 ACCAAAAACAGT
*
17938811 ACCAAAAATAGT
1 ACCAAAAACAGT
* *
17938823 ACC-AAAACTGC
1 ACCAAAAACAGT
*
17938834 A-TAAAAACAGT
1 ACCAAAAACAGT
17938845 ACCAAAAACA
1 ACCAAAAACA
17938855 ACATCAAATC
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
11 22 0.52
12 20 0.48
ACGTcount: A:0.58, C:0.24, G:0.07, T:0.10
Consensus pattern (12 bp):
ACCAAAAACAGT
Found at i:17938851 original size:11 final size:11
Alignment explanation
Indices: 17938760--17938851 Score: 53
Period size: 11 Copynumber: 8.4 Consensus size: 11
17938750 AAACAACAAT
*
17938760 AAAACAGAACC
1 AAAACAGTACC
17938771 AAAACA-T-CC
1 AAAACAGTACC
* **
17938780 GAAACAACACC
1 AAAACAGTACC
17938791 AAAAACAGTACC
1 -AAAACAGTACC
* *
17938803 AAAATAGCACC
1 AAAACAGTACC
*
17938814 AAAAATAGTACC
1 -AAAACAGTACC
* * **
17938826 AAAACTGCATA
1 AAAACAGTACC
17938837 AAAACAGTACC
1 AAAACAGTACC
17938848 AAAA
1 AAAA
17938852 ACAACATCAA
Statistics
Matches: 59, Mismatches: 18, Indels: 8
0.69 0.21 0.09
Matches are distributed among these distances:
9 7 0.12
11 34 0.58
12 18 0.31
ACGTcount: A:0.59, C:0.25, G:0.08, T:0.09
Consensus pattern (11 bp):
AAAACAGTACC
Found at i:17938853 original size:23 final size:24
Alignment explanation
Indices: 17938787--17938851 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
17938777 TCCGAAACAA
17938787 CACCAAAAACAGTACCAAAA-TAG
1 CACCAAAAACAGTACCAAAACTAG
*
17938810 CACCAAAAATAGTACCAAAACT-G
1 CACCAAAAACAGTACCAAAACTAG
*
17938833 CA-TAAAAACAGTACCAAAA
1 CACCAAAAACAGTACCAAAA
17938852 ACAACATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.39
23 22 0.58
24 1 0.03
ACGTcount: A:0.57, C:0.25, G:0.08, T:0.11
Consensus pattern (24 bp):
CACCAAAAACAGTACCAAAACTAG
Found at i:17940393 original size:22 final size:22
Alignment explanation
Indices: 17940368--17940411 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17940358 TAAATCGGAT
*
17940368 CGACCCAACCCGTTGACCAACC
1 CGACCCAACCCGTTAACCAACC
***
17940390 CGACTTGACCCGTTAACCAACC
1 CGACCCAACCCGTTAACCAACC
17940412 TGACTTGAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.45, G:0.14, T:0.14
Consensus pattern (22 bp):
CGACCCAACCCGTTAACCAACC
Found at i:17940416 original size:22 final size:22
Alignment explanation
Indices: 17940375--17940419 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17940365 GATCGACCCA
*
17940375 ACCCGTTGACCAACCCGACTTG
1 ACCCGTTAACCAACCCGACTTG
*
17940397 ACCCGTTAACCAACCTGACTTG
1 ACCCGTTAACCAACCCGACTTG
17940419 A
1 A
17940420 ACTATTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.20
Consensus pattern (22 bp):
ACCCGTTAACCAACCCGACTTG
Found at i:17940471 original size:28 final size:28
Alignment explanation
Indices: 17940427--17940499 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
17940417 TGAACTATTG
* * * *
17940427 ACTTTGATTAAACCGAACTAAACCTTTGA
1 ACTTTGACTGAACCGAACCAAACCGTT-A
* *
17940456 A-TTTGACTGAATCGAACCAAATCGTTA
1 ACTTTGACTGAACCGAACCAAACCGTTA
17940483 ACTTTGACTGAACCGAA
1 ACTTTGACTGAACCGAA
17940500 TCGTTGACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.06
28 33 0.92
29 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (28 bp):
ACTTTGACTGAACCGAACCAAACCGTTA
Found at i:17941231 original size:18 final size:18
Alignment explanation
Indices: 17941194--17941232 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17941184 TGTAATATCA
* *
17941194 TGAGATTGAGATTGAGAT
1 TGAGATTGAGATTAAAAT
*
17941212 TGAGATTGGGATTAAAAT
1 TGAGATTGAGATTAAAAT
17941230 TGA
1 TGA
17941233 AATATACATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (18 bp):
TGAGATTGAGATTAAAAT
Found at i:17941235 original size:6 final size:6
Alignment explanation
Indices: 17941194--17941224 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
17941184 TGTAATATCA
*
17941194 TGAGAT TGAGAT TGAGAT TGAGAT TGGGAT T
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT T
17941225 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (6 bp):
TGAGAT
Found at i:17945307 original size:194 final size:195
Alignment explanation
Indices: 17944944--17945390 Score: 632
Period size: 194 Copynumber: 2.3 Consensus size: 195
17944934 GAAATCGACA
* *
17944944 CGATGGCTGATGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAATAGCATCGTGAGTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCG
* * * *
17945009 AGAAATGAGAAATGAATCCAAGAATGGATTACATGCCCTACGATGGTTGGGATTTATGCATAATT
66 AGAAAAGAGAAATGAATCCAAGAATGAATTACATGCCCTACGATGGCTGGGATTTATGCATAAAT
* * * * *
17945074 GCATATTCTCGATAGCTCGTGTGAGCAGCATCATTAGGGAAACAATTATA-TGCACATATACTGT
131 GCATATTCTCGACAGCTCGTGTGAGCAGCATCATTAGGGAAACAATT-TACAG-ACAAACACCGT
17945138 AT
194 AT
* *
17945140 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTTGACAGCTCGTTTGAGTAGCATCGTGAGTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCG
* * * *
17945205 A-AAAAGAGATATGAATCCTA-AATGAATTATA-GACCCTACGATGGCTGGGATTTATGCTTAAA
66 AGAAAAGAGAAATGAATCCAAGAATGAATTACATG-CCCTACGATGGCTGGGATTTATGCATAAA
* *
17945267 TGCATATTCTCGACAGCTCGTGTGAGCAGCATCGTTAGGGAAACAGTTTACAGACAAACACCGTA
130 TGCATATTCTCGACAGCTCGTGTGAGCAGCATCATTAGGGAAACAATTTACAGACAAACACCGTA
17945332 T
195 T
* * * *
17945333 CGATGGCTGGGGTACCTCATATGTTGCGAGTCCTCGACAGCTCATGTGAGCAGCATCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGTAGCATCG
17945391 GGTACTGGTG
Statistics
Matches: 224, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
193 65 0.29
194 81 0.36
195 16 0.07
196 62 0.28
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (195 bp):
CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCG
AGAAAAGAGAAATGAATCCAAGAATGAATTACATGCCCTACGATGGCTGGGATTTATGCATAAAT
GCATATTCTCGACAGCTCGTGTGAGCAGCATCATTAGGGAAACAATTTACAGACAAACACCGTAT
Found at i:17946135 original size:21 final size:21
Alignment explanation
Indices: 17946087--17946138 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
17946077 GAAGTTTTTA
* *
17946087 GTATCGGTAGAAGTATGACAT
1 GTATCAGTAGAAGTATCACAT
* * *
17946108 GTTTCAGTAGAAGTCTCACTT
1 GTATCAGTAGAAGTATCACAT
17946129 GTATCAGTAG
1 GTATCAGTAG
17946139 TACTGCTTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATCAGTAGAAGTATCACAT
Found at i:17951089 original size:7 final size:7
Alignment explanation
Indices: 17951077--17951102 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17951067 AACTGAACCT
17951077 TTGACCG
1 TTGACCG
17951084 TTGACCG
1 TTGACCG
17951091 TTGACCG
1 TTGACCG
17951098 TTGAC
1 TTGAC
17951103 TTTTCTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (7 bp):
TTGACCG
Found at i:17952274 original size:4 final size:4
Alignment explanation
Indices: 17952265--17952299 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
17952255 GATTATAAAC
*
17952265 TGTA TGTA TGTA TGTA TGTA TTTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
17952300 GAATGAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (4 bp):
TGTA
Found at i:17954713 original size:34 final size:33
Alignment explanation
Indices: 17954675--17954746 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
17954665 TTGAATGACT
* *
17954675 TAAAAAAACACGT-TCAGTGACTAAATTGAACAAA
1 TAAAAAAACACATCTAAG-GACTAAATTGAA-AAA
**
17954709 TAAAAAAATGCATCTAAGGACTAAATTGAAAAA
1 TAAAAAAACACATCTAAGGACTAAATTGAAAAA
17954742 TAAAA
1 TAAAA
17954747 GTAGGAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 8 0.24
34 22 0.67
35 3 0.09
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (33 bp):
TAAAAAAACACATCTAAGGACTAAATTGAAAAA
Found at i:17955378 original size:15 final size:15
Alignment explanation
Indices: 17955358--17955391 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
17955348 TGGCTTGAGT
*
17955358 TTTTCTGTCTTTTTG
1 TTTTCTGTCTTATTG
17955373 TTTTCTGTCTTATTG
1 TTTTCTGTCTTATTG
17955388 TTTT
1 TTTT
17955392 GTTCTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.03, C:0.12, G:0.12, T:0.74
Consensus pattern (15 bp):
TTTTCTGTCTTATTG
Found at i:17956052 original size:163 final size:163
Alignment explanation
Indices: 17955782--17956108 Score: 654
Period size: 163 Copynumber: 2.0 Consensus size: 163
17955772 TTGATGGAAT
17955782 TATGAGATCTGAGTTTAAAGGTTACTTTTGTCATTTGCAGGTTTAGGTTGATGTTAGTAAACCAT
1 TATGAGATCTGAGTTTAAAGGTTACTTTTGTCATTTGCAGGTTTAGGTTGATGTTAGTAAACCAT
17955847 TGCAGAGAGGTATCTTTGTTTTGGTTGATTCTAAGATGAAGACTTGGGTACCTTTTAAGTATGAG
66 TGCAGAGAGGTATCTTTGTTTTGGTTGATTCTAAGATGAAGACTTGGGTACCTTTTAAGTATGAG
17955912 AATTTCTGATTTTTTGTTTTAATTGTGGGCGCA
131 AATTTCTGATTTTTTGTTTTAATTGTGGGCGCA
17955945 TATGAGATCTGAGTTTAAAGGTTACTTTTGTCATTTGCAGGTTTAGGTTGATGTTAGTAAACCAT
1 TATGAGATCTGAGTTTAAAGGTTACTTTTGTCATTTGCAGGTTTAGGTTGATGTTAGTAAACCAT
17956010 TGCAGAGAGGTATCTTTGTTTTGGTTGATTCTAAGATGAAGACTTGGGTACCTTTTAAGTATGAG
66 TGCAGAGAGGTATCTTTGTTTTGGTTGATTCTAAGATGAAGACTTGGGTACCTTTTAAGTATGAG
17956075 AATTTCTGATTTTTTGTTTTAATTGTGGGCGCA
131 AATTTCTGATTTTTTGTTTTAATTGTGGGCGCA
17956108 T
1 T
17956109 GGGTCATGGG
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 164 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (163 bp):
TATGAGATCTGAGTTTAAAGGTTACTTTTGTCATTTGCAGGTTTAGGTTGATGTTAGTAAACCAT
TGCAGAGAGGTATCTTTGTTTTGGTTGATTCTAAGATGAAGACTTGGGTACCTTTTAAGTATGAG
AATTTCTGATTTTTTGTTTTAATTGTGGGCGCA
Found at i:17956341 original size:35 final size:35
Alignment explanation
Indices: 17956295--17956392 Score: 169
Period size: 35 Copynumber: 2.8 Consensus size: 35
17956285 AGGATAGGGG
17956295 TGGTTCTGATGGGAATGGAATTAGGGACGACGGGA
1 TGGTTCTGATGGGAATGGAATTAGGGACGACGGGA
* * *
17956330 TGGTTCTGATGGGAATGGAATTAGGGATGGCGGGG
1 TGGTTCTGATGGGAATGGAATTAGGGACGACGGGA
17956365 TGGTTCTGATGGGAATGGAATTAGGGAC
1 TGGTTCTGATGGGAATGGAATTAGGGAC
17956393 AGTAGGGTGG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.23, C:0.07, G:0.44, T:0.26
Consensus pattern (35 bp):
TGGTTCTGATGGGAATGGAATTAGGGACGACGGGA
Found at i:17956401 original size:35 final size:33
Alignment explanation
Indices: 17956292--17956405 Score: 158
Period size: 35 Copynumber: 3.3 Consensus size: 33
17956282 TGGAGGATAG
17956292 GGGTGGTTCTGATGGGAATGGAATTAGGGACGA
1 GGGTGGTTCTGATGGGAATGGAATTAGGGACGA
17956325 CGGGATGGTTCTGATGGGAATGGAATTAGGGATGGCG-
1 -GGG-TGGTTCTGATGGGAATGGAATTAGGGA---CGA
17956362 GGGTGGTTCTGATGGGAATGGAATTAGGGACAGTA
1 GGGTGGTTCTGATGGGAATGGAATTAGGGAC-G-A
17956397 GGGTGGTTC
1 GGGTGGTTC
17956406 AAGTTATTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 13
0.85 0.00 0.15
Matches are distributed among these distances:
32 1 0.01
33 1 0.01
34 3 0.04
35 63 0.86
36 3 0.04
38 2 0.03
ACGTcount: A:0.22, C:0.07, G:0.46, T:0.25
Consensus pattern (33 bp):
GGGTGGTTCTGATGGGAATGGAATTAGGGACGA
Found at i:17972025 original size:195 final size:194
Alignment explanation
Indices: 17971623--17972070 Score: 564
Period size: 195 Copynumber: 2.3 Consensus size: 194
17971613 TACCAATACT
* * ** * *
17971623 CGATGCTGCTCACACGAGCTATCGAGGACTCGCAATGTGTATGGTACCCCAGCCATCGGTACGGT
1 CGATGCTGCTCACACGAGCTATCGAGGACTCGCAACGTATGCGGTACCTCAGCCATCGATACGGT
* *
17971688 GCCTATCTGTACTATAAACTGTTCCCTAACGATGCTGCTCACACGAACTGTCGAGAGTATGCATA
66 G-CTATCCGTACTATAAACTGTTCCCTAACGATGCTGCTCACACGAACTGTCGAGAATATGCATA
* * *
17971753 AAGCATAGTCTCAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATATCTCTTTCTCGAGTCA
130 AAGCATAATCTCAGCCATCATAGGGCCTATAATCCATTTAGGATCCATATCTCTTTCTCGACTCA
* * * *
17971818 CAATACTGCTCACACGAGCTATCGAGGACTCGTAACATATGCGGTACCTCAGCCATCGATAC-G-
1 CGATGCTGCTCACACGAGCTATCGAGGACTCGCAACGTATGCGGTACCTCAGCCATCGATACGGT
*
17971881 G-TATCCGTGC-ATATAACTGTTCCCTAACGATGCTGCTCACAC-AAGCTGTCGAGAATATGCAT
66 GCTATCCGTACTATA-AACTGTTCCCTAACGATGCTGCTCACACGAA-CTGTCGAGAATATGCA-
* * * * * * * *
17971943 TTATGCATAAATCTCAGCCATCATAGGGCCTGTAATCCATTCTTGGATTCTTTTCTCATTTCTTG
128 TAAAGCAT-AATCTCAGCCATCATAGGGCCTATAATCCATT-TAGGATCCATATCTC-TTTCTCG
17972008 ACTCA
190 ACTCA
* *
17972013 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACGTATGCGGTACCTCAACCATCG
1 CGATGCTGCTCACACGAGCTATCGAGGACTCGCAACGTATGCGGTACCTCAGCCATCG
17972071 CGTCGGTTTC
Statistics
Matches: 217, Mismatches: 30, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
190 5 0.02
191 50 0.23
192 6 0.03
193 30 0.14
194 12 0.06
195 114 0.53
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (194 bp):
CGATGCTGCTCACACGAGCTATCGAGGACTCGCAACGTATGCGGTACCTCAGCCATCGATACGGT
GCTATCCGTACTATAAACTGTTCCCTAACGATGCTGCTCACACGAACTGTCGAGAATATGCATAA
AGCATAATCTCAGCCATCATAGGGCCTATAATCCATTTAGGATCCATATCTCTTTCTCGACTCA
Found at i:17972568 original size:16 final size:16
Alignment explanation
Indices: 17972544--17972575 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17972534 TCCTTACAAA
*
17972544 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
17972560 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
17972576 AAAAATTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:17974946 original size:32 final size:32
Alignment explanation
Indices: 17974910--17974981 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
17974900 TTTCAATTTT
17974910 TTATTTTATT-T-TTATAATTTAATTATTTTATA
1 TTATTTTATTATATT-TAA-TTAATTATTTTATA
*
17974942 TTATTTT-TTATAATTTAATTAATTTTTTTATA
1 TTATTTTATTAT-ATTTAATTAATTATTTTATA
17974974 TT-TTTTAT
1 TTATTTTAT
17974982 GTGAATAGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
31 6 0.17
32 24 0.69
33 3 0.09
34 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (32 bp):
TTATTTTATTATATTTAATTAATTATTTTATA
Found at i:17974950 original size:28 final size:28
Alignment explanation
Indices: 17974897--17974981 Score: 113
Period size: 28 Copynumber: 3.0 Consensus size: 28
17974887 TGGTAAGAGT
17974897 TAATTTCAATT-TTTTATTTTA-TTTTTA
1 TAATTT-AATTATTTTATTTTATTTTTTA
*
17974924 TAATTTAATTATTTTATATTATTTTTTA
1 TAATTTAATTATTTTATTTTATTTTTTA
17974952 TAATTTAATTAATTTT-TTTATATTTTTTA
1 TAATTTAATT-ATTTTATTT-TATTTTTTA
17974981 T
1 T
17974982 GTGAATAGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.08
27 15 0.29
28 18 0.35
29 15 0.29
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (28 bp):
TAATTTAATTATTTTATTTTATTTTTTA
Found at i:17979282 original size:22 final size:26
Alignment explanation
Indices: 17979235--17979298 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
17979225 AAGATTGCAA
17979235 CTTTTTTCTTTCTATTTGTAAGTTTT
1 CTTTTTTCTTTCTATTTGTAAGTTTT
17979261 CTTTTTTCTTT-T-TTTGT-A-TTTT
1 CTTTTTTCTTTCTATTTGTAAGTTTT
*
17979283 CTCTGTTTCTTTCTAT
1 CT-TTTTTCTTTCTAT
17979299 CCAAAATAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 6 0.18
23 9 0.26
24 6 0.18
25 2 0.06
26 11 0.32
ACGTcount: A:0.08, C:0.14, G:0.06, T:0.72
Consensus pattern (26 bp):
CTTTTTTCTTTCTATTTGTAAGTTTT
Found at i:17981276 original size:21 final size:21
Alignment explanation
Indices: 17981252--17981300 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
17981242 ATATATAAAA
*
17981252 TAAATATCAAAACCCTAATTT
1 TAAAAATCAAAACCCTAATTT
* *
17981273 TAAAAATCTAAATCCTAA-TT
1 TAAAAATCAAAACCCTAATTT
17981293 TAAAAATC
1 TAAAAATC
17981301 CTAAATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAATCAAAACCCTAATTT
Found at i:17981296 original size:20 final size:21
Alignment explanation
Indices: 17981265--17981316 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
17981255 ATATCAAAAC
17981265 CCTAATTTTAAAAAT-CTAAAT
1 CCTAA-TTTAAAAATCCTAAAT
17981286 CCTAATTTAAAAATCCTAAAT
1 CCTAATTTAAAAATCCTAAAT
17981307 -CTAA-TTAAAA
1 CCTAATTTAAAA
17981317 CAAAAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.20
20 13 0.43
21 11 0.37
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (21 bp):
CCTAATTTAAAAATCCTAAAT
Found at i:17982847 original size:18 final size:18
Alignment explanation
Indices: 17982826--17982864 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17982816 GATTGATACG
*
17982826 ATCAGTTTAATTGGTTCA
1 ATCAGTTTAATCGGTTCA
*
17982844 ATCAGTTTAATCGGTTTA
1 ATCAGTTTAATCGGTTCA
17982862 ATC
1 ATC
17982865 GACTTGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (18 bp):
ATCAGTTTAATCGGTTCA
Found at i:17993323 original size:24 final size:25
Alignment explanation
Indices: 17993285--17993335 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
17993275 TTTTAGTGAC
17993285 CCTTTCTTTATCTCTCCTTCTCTCA
1 CCTTTCTTTATCTCTCCTTCTCTCA
17993310 CCTTTC-TTATCTCTCCTTCTCTCA
1 CCTTTCTTTATCTCTCCTTCTCTCA
17993334 CC
1 CC
17993336 ATCCTTCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.08, C:0.43, G:0.00, T:0.49
Consensus pattern (25 bp):
CCTTTCTTTATCTCTCCTTCTCTCA
Found at i:17994518 original size:20 final size:20
Alignment explanation
Indices: 17994489--17994531 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17994479 ATCAATATTG
*
17994489 TTTGTGAAAGGTACCGATAC
1 TTTGTGAAAGATACCGATAC
* *
17994509 TTTGTTAAAGATATCGATAC
1 TTTGTGAAAGATACCGATAC
17994529 TTT
1 TTT
17994532 CAAGCTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTGTGAAAGATACCGATAC
Found at i:17995477 original size:69 final size:69
Alignment explanation
Indices: 17995404--17995586 Score: 240
Period size: 69 Copynumber: 2.7 Consensus size: 69
17995394 GAGCTCAGGC
* * * * * * * *
17995404 TAACTGTGTCGGAGGTTGCAGTTCTTCACCTGCTAGTCTTAATATGACAACTGGGAGCTTTGCTC
1 TAACTGTGTTGGAGGCTGCGGCTCTTCACCTACGAGCCTTAATATAACAACTGGGAGCTTTGCTC
17995469 TCAA
66 TCAA
** *
17995473 TAACTGTGTTGGAGGCTGCGGCTCTTCACCTACGAGCCTTAATATAACAGTTGGGAGTTTTGCTC
1 TAACTGTGTTGGAGGCTGCGGCTCTTCACCTACGAGCCTTAATATAACAACTGGGAGCTTTGCTC
**
17995538 TCGC
66 TCAA
*
17995542 TAACTGTGTTGGAGGCTGCGGCTCTTCACCTATGAGCCTTAATAT
1 TAACTGTGTTGGAGGCTGCGGCTCTTCACCTACGAGCCTTAATAT
17995587 TACAGCTGAG
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 100 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (69 bp):
TAACTGTGTTGGAGGCTGCGGCTCTTCACCTACGAGCCTTAATATAACAACTGGGAGCTTTGCTC
TCAA
Found at i:17996058 original size:216 final size:213
Alignment explanation
Indices: 17995599--17996303 Score: 775
Period size: 215 Copynumber: 3.3 Consensus size: 213
17995589 CAGCTGAGAG
* *
17995599 AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGACAGAAACAAT-TC
1 AAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATAT-
* * * *
17995663 TCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAATTAACAAACTT-TTTAGAC
65 TCACGTAAATAAGTTTTTAATTCAAAGA-CAAAAATTGTTTACAAAATGACAAA-TTATTTAGAC
** *
17995727 CAAATGAT-TCGATTTCTTGAG-ATGGAATGTTCAGAAAATTGGTCGAAGGAATGGATCGTCTTA
128 CAAATGATGT-GATTTCACGAGCATGGAATGTTCAGAAAA-TAGTCGAAGGAATGGATCGTCTTA
** * * *
17995790 AATACCCTCATGAACCAAAGTTAT
191 AATACTTTAAGGAATCAAA-TTAT
** * *
17995814 AAAAGAACTCTTAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCCAGAGAGAAACAATATT
1 AAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATATT
* * *
17995879 CACGTAAATAAGTTTTTAATTCAAAAATCAAAAATTGTTTGCAAAATGATAAATTATTTAGACCA
66 CACGTAAATAAGTTTTTAATTCAAAGA-CAAAAATTGTTTACAAAATGACAAATTATTTAGACCA
* *
17995944 AATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATCAGTCGAAGGAAGGGATCGTCTTAAAT
130 AATGATGTGATTTCACGAGCATGGAATGTTCAGAAAAT-AGTCGAAGGAATGGATCGTCTTAAAT
17996009 ACTTTAAGGAATCAAATTTAT
194 ACTTTAAGGAATCAAA-TTAT
* * * *
17996030 AAAAGAACTAGTAAGTGTTTGACAAGTTCGAAAGTTCATCCATGAA-CAAGTGAGAAAC-A-A--
1 AAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATATT
* * * * *
17996090 CACGTTATTAAGTTTTCAATTCAAAGAGAAAAAGTTGTTTACAAAATGACAAACTATTTAGACCA
66 CACGTAAATAAGTTTTTAATTCAAAGACAAAAA-TTGTTTACAAAATGACAAATTATTTAGACCA
* ** * * * ** * *
17996155 AATTATGCAATTTCACGAGCATGGAATGATC-GGAAATTGCTAAAATGAATGGATCATCTTTAAA
130 AATGATGTGATTTCACGAGCATGGAATGTTCAGAAAATAG-TCGAAGGAATGGATCGTC-TTAAA
17996219 TACTTTAAGGAATCGAAATTAT
193 TACTTTAAGGAATC-AAATTAT
* * * * *
17996241 AAAAGAACTCA-TAAAAGTTTGACTAGTTCGTAACTTCGTCCAAGAACCAAGAGGGGAAACAAT
1 AAAAGAACT-AGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGA-GAGAAACAAT
17996304 TCTGATATGA
Statistics
Matches: 417, Mismatches: 59, Indels: 28
0.83 0.12 0.06
Matches are distributed among these distances:
209 1 0.00
210 23 0.06
211 137 0.33
212 8 0.02
213 7 0.02
214 4 0.01
215 139 0.33
216 98 0.24
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (213 bp):
AAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATATT
CACGTAAATAAGTTTTTAATTCAAAGACAAAAATTGTTTACAAAATGACAAATTATTTAGACCAA
ATGATGTGATTTCACGAGCATGGAATGTTCAGAAAATAGTCGAAGGAATGGATCGTCTTAAATAC
TTTAAGGAATCAAATTAT
Found at i:17996220 original size:211 final size:211
Alignment explanation
Indices: 17995599--17996303 Score: 790
Period size: 211 Copynumber: 3.3 Consensus size: 211
17995589 CAGCTGAGAG
*
17995599 AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGACAGAAACAATTCT
1 AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAA---T
* * * * *
17995664 CATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAATTAACAAACTTTTTAGACCA
63 CACGTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAAACTATTTAGACCA
* ** * *
17995729 AATGATTCGATTTCTTGAG-ATGGAATGTTCAGAAAATTGGTCGAAGGAATGGATCGTCTTAAAT
128 AATGATGCGATTTCACGAGCATGGAATGTTC-GGAAATTGCTCGAAGGAATGGATCGTCTTAAAT
** * * *
17995793 ACCCTCATGAACCAAAGTTAT
192 ACTTTAAGGAATCAAA-TTAT
* * *
17995814 AAAAGAACTCTTAAATGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCCAGAGAGAAACAATATT
1 AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAC-A-A-T
* * * *
17995879 CACGTAAATAAGTTTTTAATTCAAAAATCAAAAA-TTGTTTGCAAAATGATAAATTATTTAGACC
63 CACGTAAATAAGTTTTTAATTCAAAGA-CAAAAAGTTGTTTACAAAATGACAAACTATTTAGACC
* * * * *
17995943 AAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAAT-CAGTCGAAGGAAGGGATCGTCTTAA
127 AAATGATGCGATTTCACGAGCATGGAATGTTCGGAAATTGC--TCGAAGGAATGGATCGTCTTAA
17996007 ATACTTTAAGGAATCAAATTTAT
190 ATACTTTAAGGAATCAAA-TTAT
* * * * *
17996030 AAAAGAACTAGTAAGTGTTTGACAAGTTCGAAAGTTCATCCATGAA-CAAGTGAGAAACAA-CAC
1 AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATCAC
* * * *
17996093 GTTATTAAGTTTTCAATTCAAAGAGAAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
66 GTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
* * * ** * *
17996158 TATGCAATTTCACGAGCATGGAATGATCGGAAATTGCTAAAATGAATGGATCATCTTTAAATACT
131 GATGCGATTTCACGAGCATGGAATGTTCGGAAATTGCTCGAAGGAATGGATCGTC-TTAAATACT
17996223 TTAAGGAATCGAAATTAT
195 TTAAGGAATC-AAATTAT
* * * * * *
17996241 AAAAGAACTCATAAAAGTTTGACTAGTTCGTAACTTCGTCCAAGAACCAAGAGGGGAAACAAT
1 AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGA-GAGAAACAAT
17996304 TCTGATATGA
Statistics
Matches: 409, Mismatches: 68, Indels: 27
0.81 0.13 0.05
Matches are distributed among these distances:
210 18 0.04
211 142 0.35
212 8 0.02
213 9 0.02
214 1 0.00
215 135 0.33
216 95 0.23
217 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (211 bp):
AAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATCAC
GTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
GATGCGATTTCACGAGCATGGAATGTTCGGAAATTGCTCGAAGGAATGGATCGTCTTAAATACTT
TAAGGAATCAAATTAT
Found at i:17996893 original size:80 final size:79
Alignment explanation
Indices: 17996761--17996924 Score: 251
Period size: 80 Copynumber: 2.1 Consensus size: 79
17996751 TACAAGCACT
* * * *
17996761 AATTTCATTTTAACTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTCATTAGGATCTGATGTAG-
1 AATTTCATTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTGGC
*
17996825 TCAAAAAGGCATGGC
66 T-AAAAAGACATGGC
17996840 AATTTCATTTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTGG
1 AATTTCA-TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTGG
17996905 CTAAAAAGACATGGC
65 CTAAAAAGACATGGC
17996920 -ATTTC
1 AATTTC
17996925 TCCTTAAAGA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
79 12 0.15
80 65 0.83
81 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (79 bp):
AATTTCATTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTGGC
TAAAAAGACATGGC
Found at i:17997464 original size:48 final size:49
Alignment explanation
Indices: 17997327--17997464 Score: 219
Period size: 48 Copynumber: 2.9 Consensus size: 49
17997317 CAAGGCATTT
* *
17997327 AACAAAGATGCATTTAACAAACAAAACAGTTAAT-AATGCAGATTACTA
1 AACAAAGATGCATTTAACAAACAAAACACTTAATGAATGCATATTACTA
*
17997375 AACAAAGATGCATTTAACAAACAAAACACTTAATG-ATGCATATTATTA
1 AACAAAGATGCATTTAACAAACAAAACACTTAATGAATGCATATTACTA
*
17997423 AACAAAGATGCATTTAACAAA-AAAACACTTAATGAAAGCATA
1 AACAAAGATGCATTTAACAAACAAAACACTTAATGAATGCATA
17997465 AATAAACAAC
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
47 13 0.15
48 71 0.85
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (49 bp):
AACAAAGATGCATTTAACAAACAAAACACTTAATGAATGCATATTACTA
Found at i:17998372 original size:216 final size:216
Alignment explanation
Indices: 17997760--18000196 Score: 2602
Period size: 216 Copynumber: 11.3 Consensus size: 216
17997750 GCTCACATCA
* * * *
17997760 AATTCTCATGTAAATAAGTTTTTTTATTCAAAGGCCAAAAGTTGTTTA-AAATATGACAACCTAT
1 AATTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTACAAA-ATGACAAACTAT
* * * * *
17997824 TTAGACCAAATGATGCGATTTCCCGAGCATGCAATGATC-AGAAAATTGCTCAAAGGAATGAATC
64 TTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGA-AAAATTGGTCAAAGGAATGGATC
* * * * * *
17997888 ATCCTTGAATACTTTAAGGAATCAAAGTTATAAAAGAACTCATAAAAGTTTGAC-ATGTTCGAAA
128 GT-CTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAT-TTCGAAA
* * * *
17997952 GTTAGTCTAAGAACCCAGAGAAAAAC
191 GTTCGTCCAAGAACCAAGAGAGAAAC
* * *
17997978 AATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAACAAA-TAATC
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT-ATT
* * * *
17998042 T-GACCAAATGATGCAATTTC-CTGAGCATGGAATGTTCAAAAAATTGGTCGAAGGAATGGATTG
65 TAGACCAAATGATGCGATTTCTC-GAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCG
* * * * * * * *
17998105 CCTGGAATGCTTTAAGAAACCGAAGTTATAAAAGAACTTGTAAAAGTTTGACTATTTCGAAAGTT
129 TCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAATTTCGAAAGTT
* *
17998170 CGTCCAAGAAGCAAGAGAGAATC
194 CGTCCAAGAACCAAGAGAGAAAC
* *
17998193 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAAACTTTTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * *
17998258 AGACCAAACGATGTGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATAGATCGCC
66 AGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCGTC
* * * *
17998323 ATGAATTCTCTCAGGAACCGAAGTTATAAAAGAACTGGTAAATGTTTGACAAGTTT-GAAAGTTC
131 TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAA-TTTCGAAAGTTC
*
17998387 GTCCAAGAACCAAGAAAGAAAC
195 GTCCAAGAACCAAGAGAGAAAC
* * * * *
17998409 AATTCTCACATAATTAAGTTTTTAATTCAAATACAAAAAAGTTGTTTACAAAATGGCAAACTATT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGAC-CAAAAGTTGTTTACAAAATGACAAACTATT
* * * * *** *
17998474 TAGACCTAATGATACGATTTCTCGAGCATGGAATATTCAAAAAAATTACACAAAGGAATAGATCG
65 TAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTC-GAAAAATTGGTCAAAGGAATGGATCG
* * * * * * *
17998539 TCTTTGAATAGT-TAAAGAAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACTAGTTCGTAAG
129 TC-TTGAATACTCT-AAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAATTTCGAAAG
* *
17998603 TTCGTCCAAGAACCAAGAAAAAAAC
192 TTCGTCCAAGAACCAAGAGAGAAAC
** * * *
17998628 AATTCTCACAAAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAGTGACAAACAATTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * * * * * *
17998693 -GACCAAATGATGCAATTTCCCAAGCACGAAATGTTCGGAATATTGGTCGAAGGAATGGATCGTC
66 AGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCGTC
* * * * * * *
17998757 TTGAATACTCTAAAGAATCAAAGTTCTTAAAGAACTCATAAATGTTTGACAAGTTC-AGAAGTTC
131 TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAATTTCGA-AAGTTC
* **
17998821 ATCTTAGAACCAAGAGAGAAAC
195 GTCCAAGAACCAAGAGAGAAAC
* * * * * * *
17998843 AATTCTAACGTAAA-AAGGTTTTTTATTCAAAGACCCAAAGTTTTTTAAAAAATAACAACCTATT
1 AATTCTCACGTAAATAA-GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATT
* * * * * *
17998907 TAGACAAAATGATGCGATTTCTCGAGCATGGAATGTTTGGAAAATTTGTCGAAGGAATGGATCAT
65 TAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCGT
* * * *
17998972 CTTGAATACTTTAA-GAAGCCGAAGTTATAAAAGAACTCATTAAA-ATTTGACAAGTTT-GGAAG
130 CTTGAATACTCTAAGGAA-CCGAAGTTATAAAAGAACTC-GTAAATGTTTGACAA-TTTCGAAAG
*
17999034 TTCGTCCAAGAACTAAGAGAGAAAC
192 TTCGTCCAAGAACCAAGAGAGAAAC
* * * ** *
17999059 AATTCTCACATAAATAAGTTTTTAATTCATAA-AGCAATAGCAGTTTACAAAATGACAAACAATT
1 AATTCTCACGTAAATAAGTTTTTAATTCA-AAGACCAAAAGTTGTTTACAAAATGACAAACTATT
* * * *
17999123 T-GACCAAATGATGCGATTTCCCGAGCATGAAATTTTC-AGAAAATTGATCAAAGGAATGGATCG
65 TAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGA-AAAATTGGTCAAAGGAATGGATCG
* * * * * *
17999186 CCCTAAATACTCTCAGGAACTGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTT
129 TCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAATTTCGAAAGTT
* *
17999251 CATACAAGAACCAAGAGAGAAAC
194 CGTCCAAGAACCAAGAGAGAAAC
* * * ** * *
17999274 AATTC-CTGCTTAAATTAGTTCTTTAATTCAAAGACCATCAGTTGTTTACAAAATAACAAACTTT
1 AATTCTC-ACGTAAATAAGTT-TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTAT
* * * * *
17999338 TTAGACCAAATGATTCAATTTCTCGGGCATGCAATGTTCTAAAAATTGGTCAAAGGAATGGATCG
64 TTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCG
* * * ** * * *
17999403 TCTTGAATACCCTCATGAATTGAAGTTGTAAAAGAACTTGTAAATGTTTGACAAATTC-AGAAGT
129 TCTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAATTTCGA-AAGT
* * *
17999467 TCATCTAAGAATCAAGAGAGAAAC
193 TCGTCCAAGAACCAAGAGAGAAAC
* * *
17999491 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTGACAAAATGACTAACTTTTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * * * **
17999556 AGACCAAATGATGTGATTTCTCAAGCATTGAATGTTCAAAAAATTTGTTGAAGGAATGGATCGTC
66 AGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCGTC
* * * * * * * *
17999621 TTAAATACTTTAAGAAATCGAATTTATAAAAGAACTCATTAAA-GTTTGACAAGTTCAAAAGTTC
131 TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTC-GTAAATGTTTGACAATTTCGAAAGTTC
*
17999685 ATCCAAGAACCAAGAGAGAAAC
195 GTCCAAGAACCAAGAGAGAAAC
* ** * * * * *
17999707 AATTCTCACATAAATAAGTTTTTAATTCCTAGACCAATAGCTATTTACAAAATAACAAACAATTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * * * *
17999772 -GACCAAATGATGTGATTTCCCCAGCATGGAATTTTTGGAAAATTGGTCAAAGGAATGGATCGTC
66 AGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCGTC
* * *
17999836 TTGAGTACTCTAAGGAGCCGAAGTTATAAAAGAACTCGTAAATGTTTGAAAAGTTT-GAAAGTTC
131 TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAA-TTTCGAAAGTTC
17999900 GTCCAAGAACCAAGAGAGAAAC
195 GTCCAAGAACCAAGAGAGAAAC
* *
17999922 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAATTTTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* * * * * * *
17999987 AAACCAATTGATGCGATTTCTCGAGCACGGAATGTT-TAGAATATTGGTCGAAGGAATGGATCAT
66 AGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGA-AAAATTGGTCAAAGGAATGGATCGT
* * * * *
18000051 CTTGAATACTATCAGGAATCGAAGTTATAAAAGAACTCTTAAATGTTTGACAAGTTT-GGAAGTT
130 CTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAA-TTTCGAAAGTT
*
18000115 CGTCCAAGAACCTAGA-ATGAAAC
194 CGTCCAAGAACCAAGAGA-GAAAC
** * *
18000138 AATTCTCATTTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTACAAAAAGACAAA
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
18000197 ACATTTCGTG
Statistics
Matches: 1859, Mismatches: 318, Indels: 86
0.82 0.14 0.04
Matches are distributed among these distances:
214 13 0.01
215 559 0.30
216 825 0.44
217 287 0.15
218 75 0.04
219 100 0.05
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (216 bp):
AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
AGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGGTCAAAGGAATGGATCGTC
TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAATTTCGAAAGTTCG
TCCAAGAACCAAGAGAGAAAC
Found at i:17999108 original size:431 final size:431
Alignment explanation
Indices: 17997760--18000189 Score: 2694
Period size: 431 Copynumber: 5.6 Consensus size: 431
17997750 GCTCACATCA
* * * * *
17997760 AATTCTCATGTAAATAAGTTTTTTTATTCAAAGGCCAAAAGTTGTTTA-AAATATGACAACCTAT
1 AATTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTACAAA-ATGACAAACAAT
* * * * *
17997824 TTAGACCAAATGATGCGATTTCCCGAGCATGCAATGATCAGAAAATTGCTCAAAGGAATGAATCA
64 TTAGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCAGAAAATTGGTCAAAGGAATGGATCG
* * * * *
17997889 TCCTTGAATACTTTAAGGAATCAAAGTTATAAAAGAACTCATAAAAGTTTGACATGTTCGAAAGT
129 T-CTTGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGAAAGT
* * * **
17997954 T-AGTCTAAGAACCCAGAGAAAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAG
193 TCA-TCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAG
* * *
17998018 TTGTTTACAAAATAACAAA-TAATCT-GACCAAATGATGCAATTTC-CTGAGCATGGAATGTTCA
257 TTGTTTACAAAATAACAAACT-ATTTAGACCAAATGATGCGATTTCTC-GAGCATGGAATGTTTA
* * * * *
17998080 AAAAATTGGTCGAAGGAATGGATTGCCTGGAATGCTTTAAGAAACCGAAGTTATAAAAGAACT-T
320 AAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAACTCT
* * *
17998144 GTAAAAGTTTGACTA-TTTCGAAAGTTCGTCCAAGAAGCAAGAGAGAATC
385 -TAAAA-TTTGACAAGTTT-GAAAGTTCGTCCAAGAACCAAGAGAGAAAC
* **
17998193 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAAACTTTTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTT
* * * * * *
17998258 AGACCAAACGATGTGATTTCTCGAGCATGGAATGTTC-GAAAAATTGGTCAAAGGAATAGATCGC
66 AGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCAG-AAAATTGGTCAAAGGAATGGATCGT
* * * ** *
17998322 CATGAATTCTCTCAGGAACCGAAGTTATAAAAGAACTGGTAAATGTTTGACAAGTTTGAAAGTTC
130 CTTGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGAAAGTTC
* * * * *
17998387 GTCCAAGAACCAAGAAAGAAACAATTCTCACATAATTAAGTTTTTAATTCAAATACAAAAAAGTT
195 ATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGAC-CAAAAGTT
** * * * *
17998452 GTTTACAAAATGGCAAACTATTTAGACCTAATGATACGATTTCTCGAGCATGGAATATTCAAAAA
259 GTTTACAAAATAACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTT-TAAAA
*** * * * *
17998517 AATTACACAAAGGAATAGATCGTCTTTGAATAGTTAAAGAAACCGAAGTTATAAAAGAACTCATA
323 AATTGGTCAAAGGAATGGATCGTC-TTGAATACTTTAAGAAACCGAAGTTATAAAAGAACTCTTA
* * * * *
17998582 AAAGTTTGACTAGTTCGTAAGTTCGTCCAAGAACCAAGAAAAAAAC
387 AAA-TTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAAC
** * *
17998628 AATTCTCACAAAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAGTGACAAACAATTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTT
* * * * * *
17998693 -GACCAAATGATGCAATTTCCCAAGCACGAAATGTTCGGAATATTGGTCGAAGGAATGGATCGTC
66 AGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTC
* * * * *
17998757 TTGAATACTCTAAAGAATCAAAGTTCTTAAAGAACTCATAAATGTTTGACAAGTTC-AGAAGTTC
131 TTGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGA-AAGTTC
** * * * *
17998821 ATCTTAGAACCAAGAGAGAAACAATTCTAACGTAAA-AAGGTTTTTTATTCAAAGACCCAAAGTT
195 ATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAA-GTTTTTAATTCAAAGACCAAAAGTT
* * * * **
17998885 TTTTAAAAAATAACAACCTATTTAGACAAAATGATGCGATTTCTCGAGCATGGAATGTTTGGAAA
259 GTTTACAAAATAACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAAAAA
* * * *
17998950 ATTTGTCGAAGGAATGGATCATCTTGAATACTTTAAGAAGCCGAAGTTATAAAAGAACTCATTAA
324 ATTGGTCAAAGGAATGGATCGTCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAACTC-TTAA
* *
17999015 AATTTGACAAGTTTGGAAGTTCGTCCAAGAACTAAGAGAGAAAC
388 AATTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * * **
17999059 AATTCTCACATAAATAAGTTTTTAATTCATAA-AGCAATAGCAGTTTACAAAATGACAAACAATT
1 AATTCTCACGTAAATAAGTTTTTAATTCA-AAGACCAAAAGTTGTTTACAAAATGACAAACAATT
* * *
17999123 T-GACCAAATGATGCGATTTCCCGAGCATGAAATTTTCAGAAAATTGATCAAAGGAATGGATCGC
65 TAGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCAGAAAATTGGTCAAAGGAATGGATCGT
* * *
17999187 CCTAAATACTCTCAGGAA-CTGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTT
130 CTTGAATACTCTCAGGAATC-GAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGAAAGTT
* * * * **
17999251 CATACAAGAACCAAGAGAGAAACAATTC-CTGCTTAAATTAGTTCTTTAATTCAAAGACCATCAG
194 CATCCAAGAACCAAGAGAGAAACAATTCTC-ACATAAATAAGTT-TTTAATTCAAAGACCAAAAG
* * * * *
17999315 TTGTTTACAAAATAACAAACTTTTTAGACCAAATGATTCAATTTCTCGGGCATGCAATGTTCT-A
257 TTGTTTACAAAATAACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTT-TAA
* * * ** *
17999379 AAAATTGGTCAAAGGAATGGATCGTCTTGAATACCCTCATG-AATTGAAGTTGTAAAAGAACT-T
321 AAAATTGGTCAAAGGAATGGATCGTCTTGAATA-CTTTAAGAAACCGAAGTTATAAAAGAACTCT
* * * * * *
17999442 GTAAATGTTTGACAA-ATTCAGAAGTTCATCTAAGAATCAAGAGAGAAAC
385 -TAAA-ATTTGACAAGTTTGA-AAGTTCGTCCAAGAACCAAGAGAGAAAC
* * **
17999491 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTGACAAAATGACTAACTTTTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTT
* * * * * **
17999556 AGACCAAATGATGTGATTTCTCAAGCATTG-AATGTTCAAAAAATTTGTTGAAGGAATGGATCGT
66 AGACCAAATGATGCGATTTCCCGAGCA-TGAAATGTTCAGAAAATTGGTCAAAGGAATGGATCGT
* * * * * *
17999620 CTTAAATACTTTAAGAAATCGAATTTATAAAAGAACTCATTAAA-GTTTGACAAGTTCAAAAGTT
130 CTTGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCA-TAAATGTTTGACAAGTTCGAAAGTT
** * *
17999684 CATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCCTAGACCAATAGCT
194 CATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * * * * **
17999749 ATTTACAAAATAACAAACAATTT-GACCAAATGATGTGATTTCCCCAGCATGGAATTTTTGGAAA
259 GTTTACAAAATAACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAAAAA
* * * * *
17999813 ATTGGTCAAAGGAATGGATCGTCTTGAGTACTCTAAGGAGCCGAAGTTATAAAAGAACTCGTAAA
324 ATTGGTCAAAGGAATGGATCGTCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAACTCTTAAA
* *
17999878 TGTTTGAAAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAAC
389 -ATTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAAC
*
17999922 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA-ATTTT
1 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACA-ATT
* * * * * * * * *
17999986 TAAACCAATTGATGCGATTTCTCGAGCACGGAATGTTTAGAATATTGGTCGAAGGAATGGATCAT
65 TAGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCAGAAAATTGGTCAAAGGAATGGATCGT
* * * *
18000051 CTTGAATACTATCAGGAATCGAAGTTATAAAAGAACTCTTAAATGTTTGACAAGTTTGGAAGTTC
130 CTTGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGAAAGTTC
* * **
18000116 GTCCAAGAACCTAGA-ATGAAACAATTCTCATTTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
195 ATCCAAGAACCAAGAGA-GAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTT
*
18000180 TTTTACAAAA
259 GTTTACAAAA
18000190 AGACAAAACA
Statistics
Matches: 1668, Mismatches: 289, Indels: 82
0.82 0.14 0.04
Matches are distributed among these distances:
430 12 0.01
431 713 0.43
432 384 0.23
433 251 0.15
434 176 0.11
435 130 0.08
436 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (431 bp):
AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTT
AGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTC
TTGAATACTCTCAGGAATCGAAGTTATAAAAGAACTCATAAATGTTTGACAAGTTCGAAAGTTCA
TCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
TTACAAAATAACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAAAAAAT
TGGTCAAAGGAATGGATCGTCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAACTCTTAAAAT
TTGACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAAC
Found at i:18000599 original size:216 final size:216
Alignment explanation
Indices: 18000196--18001330 Score: 1516
Period size: 216 Copynumber: 5.2 Consensus size: 216
18000186 AAAAAGACAA
* * * *
18000196 AACATTTCGTGCTCGAGAAATAGCATCATTTGGTCTAAAAAGTTTGTCTTTTTGTAAAAAAAACT
1 AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGT--AAACAACT
* * *
18000261 TTTGGTTTTTGAATTAAAAACTTATTTACATGAGAATTGTTTTCTCTCTTGGTTCTTGGACGAAC
64 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTCTCTCTTGGTTCTTGGATGAAC
* * * *
18000326 -TTCCGAACATGTCAAACATTTAAGAGTTCTTTTATAGCTTCGATTCTTGAGAGTATTCAAGACG
128 TTTCC-AACTTGTCAAACATTTAAGAGTTCTTTTATAACTTCGGTTCCTGAGAGTATTCAAGACG
* * *
18000390 AGCCATTCGTTCGACCAATATTCTG
192 ATCCATTCCTTCGACCAATATTCCG
* *
18000415 AACATTCCGTGCTCGAGAAATCGCATCAATTGGTCTAAAAATTTTGTCATTTTGTAAACAACTTT
1 AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTT
* *
18000480 TGGCCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTT
66 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTT
* * * * * *
18000545 CCAACTTGTCAAATATTTATGTGTTCTTTTATAACTTCGGTTCTTAACAGTATTCAAGACGATCC
131 CCAACTTGTCAAACATTTAAGAGTTCTTTTATAACTTCGGTTCCTGAGAGTATTCAAGACGATCC
18000610 ATTCCTTCGACCAATATTCCG
196 ATTCCTTCGACCAATATTCCG
* *
18000631 AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCTTTTTGTAAAAAACTTT
1 AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTT
*
18000696 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TT-TCTCTTGGTTCTTGGATGAAGTTT
66 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTT
* * * *
18000759 CGAACTTGTCAAACATTTACAG-GTTCTTTTATAACTTTGGTTCCTGAGAGTATTCAGGATGATC
131 CCAACTTGTCAAACATTTA-AGAGTTCTTTTATAACTTCGGTTCCTGAGAGTATTCAAGACGATC
* **
18000823 CATTCCTTCGATCAAT-TTTTG
195 CATTCCTTCGACCAATATTCCG
* * * ** * *
18000844 AACATTCCATGCTCGGGAAATCGCATCATTTTGTC-AAATTGTTTATCATTTTGTAAACTACTTT
1 AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTT
* *
18000908 TGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTTCTTGGATGAA-TTT
66 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTT
* * * * * *
18000972 TCAATCTTGTCAAACATTTAAGTAAGAGTTCTTTTATAAATTTGGTGCCTCAGAGTATTCGAG-C
131 CCAA-CTTGTCAAACA-TT---TAAGAGTTCTTTTATAACTTCGGTTCCTGAGAGTATTCAAGAC
18001036 GATCCATTCCTTCGACCAATATTCCG
191 GATCCATTCCTTCGACCAATATTCCG
* * * * * *
18001062 AACATTCCATACTCTAGAAATCTCATCATTTGGTCTAAAAAGTTTGTCGTTCTGTAAACAACTTT
1 AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTT
* * *
18001127 TGGTCTTTGAATTAAAAACATATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTT
66 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTT
* * * * *
18001192 CAAACTTGTCAAATATTTACA-AGTTCTTTTATAACTTCGGTTCCTGACAGTATTCAAGATGACC
131 CCAACTTGTCAAACATTTA-AGAGTTCTTTTATAACTTCGGTTCCTGAGAGTATTCAAGACGATC
18001256 CATTCCTTCGACCAATATTCCG
195 CATTCCTTCGACCAATATTCCG
* *
18001278 AACATTTCGTGCTTGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTC-TTTTG
1 AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTG
18001331 ATATGAGCTA
Statistics
Matches: 804, Mismatches: 97, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
212 59 0.07
213 42 0.05
214 121 0.15
215 42 0.05
216 261 0.32
217 67 0.08
218 68 0.08
219 139 0.17
220 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (216 bp):
AACATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAACTTT
TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTT
CCAACTTGTCAAACATTTAAGAGTTCTTTTATAACTTCGGTTCCTGAGAGTATTCAAGACGATCC
ATTCCTTCGACCAATATTCCG
Found at i:18001881 original size:80 final size:80
Alignment explanation
Indices: 18001790--18001940 Score: 239
Period size: 80 Copynumber: 1.9 Consensus size: 80
18001780 ACAAATTTCA
* * * * *
18001790 TTTTAACTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTCATTAGGATCTAATGTAGTTAAAAAG
1 TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCATCATTAGGATCTAATGTAGCTAAAAAG
18001855 GCATGGCAATTTCGC
66 GCATGGCAATTTCGC
* *
18001870 TTTTAACTCTTGTACGAAAGCCAGTGAGTCATGTCTCATCATTAGGATCTGATGTAGCTAAAAAG
1 TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCATCATTAGGATCTAATGTAGCTAAAAAG
18001935 GCATGG
66 GCATGG
18001941 TATTTCTCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (80 bp):
TTTTAACTCTTGTACGAAAGCCAATGAGTCATGTCTCATCATTAGGATCTAATGTAGCTAAAAAG
GCATGGCAATTTCGC
Found at i:18003901 original size:48 final size:48
Alignment explanation
Indices: 18003842--18003955 Score: 183
Period size: 48 Copynumber: 2.4 Consensus size: 48
18003832 AAGATGCTGC
18003842 TGCATTTAACAAACAAAACAATTAATAATGCAGATTACTAAACAAAGA
1 TGCATTTAACAAACAAAACAATTAATAATGCAGATTACTAAACAAAGA
* * * *
18003890 TGCATTGAACAAACAAAACACTTAATGATGCAGATTATTAAACAAAGA
1 TGCATTTAACAAACAAAACAATTAATAATGCAGATTACTAAACAAAGA
*
18003938 TGCATTTAACAAAAAAAA
1 TGCATTTAACAAACAAAA
18003956 AGCACTTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.23
Consensus pattern (48 bp):
TGCATTTAACAAACAAAACAATTAATAATGCAGATTACTAAACAAAGA
Found at i:18003980 original size:48 final size:47
Alignment explanation
Indices: 18003842--18003982 Score: 133
Period size: 48 Copynumber: 2.9 Consensus size: 47
18003832 AAGATGCTGC
* * * * *
18003842 TGCATTTAACAAACAAAACAATTAAT-AATGCAGATTACTAAACAAAGA
1 TGCATTGAACAAAAAAAACACTTAATGAA-GCA-ATAAATAAACAAAGA
* * * *
18003890 TGCATTGAACAAACAAAACACTTAATGATGCAGATTATTAAACAAAGA
1 TGCATTGAACAAAAAAAACACTTAATGAAGCA-ATAAATAAACAAAGA
*
18003938 TGCATTTAACAAAAAAAAAGCACTTAATGAAGC-ATAAATAAACAA
1 TGCATTGAAC-AAAAAAAA-CACTTAATGAAGCAATAAATAAACAA
18003983 CTTTATTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
48 61 0.75
49 8 0.10
50 12 0.15
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (47 bp):
TGCATTGAACAAAAAAAACACTTAATGAAGCAATAAATAAACAAAGA
Found at i:18004630 original size:216 final size:215
Alignment explanation
Indices: 18004247--18006805 Score: 2662
Period size: 215 Copynumber: 11.9 Consensus size: 215
18004237 TTGGAACTAA
*
18004247 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTTGACGAACTTTC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * * * * *
18004312 GATCTTGTCAACCATTTAAGAGTT-TCTTTATAGA-TTCGGTGCC-TAAGAGTATTCGAGACGAT
66 GAACTTGTCAAACTTTTATGAGTTCT-TTTATA-ACTTCGGTTCCTTAA-AGTATTCAAGACGAT
* * * * *
18004374 CCATTCCTCTT-ACCAATATTT-CGAACATTTCGTACTCGAGAAACCGCATCATTTGGTCTAAAA
128 CCATTCCT-TTGA-CAAT-TTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAT
18004437 AGTTTGTCATTTTGTAAACAACTTTT
190 AGTTTGTCATTTTGTAAACAACTTTT
* *
18004463 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCATGGACAAACTTTC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * * * * *
18004528 GAACTTGTCAAACATTTACGAGTTCTTTTACAACTTCGGTTCCTGATAGTATTCAAGATGATCCA
66 GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
* * * * * * **
18004593 TTCCTTCGACTAATATTCCGAACATT-TAGTGCTCGAGAAATTGTAACATTTGGTCTAAA-A-AC
131 TTCCTTTGAC-AATTTTCCGAACATTCCA-TGCTCGAGAAATCGCATCATTTGGTCTAAATAGTT
* * *
18004655 TATCTTTTTGTAAATAACTTTT
194 TGTCATTTTGTAAACAACTTTT
* * *
18004677 TGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGTACGAACTTTC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * * * * *
18004742 GAACTAGTTAAACATTTACGAGTTCTTTTATAACTTCGGTT-CTTGAGAGTATTCATGACGATCC
66 GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTT-AAAGTATTCAAGACGATCC
* ** * *
18004806 GTTCCTTCAACCAATTTTTC-AAGCATTCCGTGCTCGAGAAATCGCATCATTTGGTCTAAA-ATG
130 ATTCCTTTGA-CAATTTTCCGAA-CATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATA-G
*
18004869 TTTGTCATTTTTTAAACAACTTTT
192 TTTGTCATTTTGTAAACAACTTTT
* *
18004893 GGTCTTTGAATTAGAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGCTCTTGGACGAACTTTC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * *
18004958 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT-CTTGAGAGTATTCAGGACGATCC
66 GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTT-AAAGTATTCAAGACGATCC
** * * * * * *
18005022 ATTCCTTTGACCAATTTTCTAAAAATTCCATGCTGGGGAAATCCCATCATTTGGTC-AGATTGTT
130 ATTCCTTTGA-CAATTTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTT
**
18005086 TGTTTTTTTGTAAACAACTTTT
194 TGTCATTTTGTAAACAACTTTT
* * * * * * *
18005108 GGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTTTTTGTGGGATCTTGGACGAAC-TTC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * * *
18005172 TGAACATGTCAAACTTTTATGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAAGGATGATC
66 -GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA-GACGATC
* * * ** *
18005237 CATTCCTTTGAGCAATTTTCCGATCATTGCATGCTCGGGAAATTACATCTTTTGGTCTAAATA-T
129 CATTCCTTTGA-CAATTTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
*
18005301 GTTGTCATTTTTTAAACAACTTTT
193 -TTGTCATTTTGTAAACAACTTTT
* * * * * * * *
18005325 GATCTTTGAATAAAAAACTTATTTATGTGAGAATTATTTCCCTCTTTGTTCTTGGACGAAGTTAC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * *
18005390 GAACTAGTCAAACTTTTATGAGTTCTTTTATAAC-TCTGGTTCCTTAAAGTATTTAAAAACGATC
66 GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTC-GGTTCCTTAAAGTA-TTCAAGACGATC
* * * * *
18005454 CATTCGTTTTAGCAA-TTT--GATA-ATTCCATGCACGTGAAATCGCATCATTTGGTGTAAATAG
129 CATTCCTTTGA-CAATTTTCCGA-ACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAG
18005515 TTTGTCATTTTGTAAAACAACTTTT
192 TTTGTCATTTTGT-AAACAACTTTT
** * *
18005540 TCTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCT-TTGGGTTCTTGGATGAAC-TT
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT-GGTTCTTGGACGAACTTT
* * * *
18005603 CTGAACTTGTCAAACATTTACT-AGTTCTTTTATAAATTCGATTCCTTAAAGTGTTCAAGACGAT
65 C-GAACTTGTCAAACTTTTA-TGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
* * * * *
18005667 CCATTCCTTCGACGAATTTTCCTAACATTCCATGCTCG-GAAAATTGCATCATTTGGCCTAAAAA
128 CCATTCCTTTGAC-AATTTTCCGAACATTCCATGCTCGAG-AAATCGCATCATTTGGTCTAAATA
* *
18005731 GTTTGTCA-TTTGAAAATAACTTTT
191 GTTTGTCATTTTGTAAACAACTTTT
* * * *
18005755 GGCCTTTGAATTAAAAACTTAGTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTAC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
** * *
18005820 GAACCAGTCAAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTTAAGTATTCAAAGACGATCC
66 GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC-AAGACGATCC
* * * * **
18005885 ATTCCTTTGAGTAAATTTT-TGAATATTCCATGCTCGGGAAATCGCATCATTAAGTCTAAATAGT
130 ATTCCTTTGA--CAATTTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
*
18005949 TTGTCATTTCT-TAAAAAACTTTTTT
193 TTGTCATTT-TGTAAACAAC--TTTT
* *
18005974 GGT-TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCCTGGACGAAGTTTC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * * * * * * *
18006038 GAACTTGTCAAGCATTTA-CAGAATCTTTTATAACTTCAGTTCCTGAGAGTATTCAGGACGATCC
66 GAACTTGTCAAACTTTTATGAG-TTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
* * * *
18006102 ATTCCTTTGACAAATTTTTCGATCATTCCATGCTCGAGAAATCGCATCAATTT-GT-AAAATTGT
130 ATTCCTTTGAC-AATTTTCCGAACATTCCATGCTCGAGAAATCGCATC-ATTTGGTCTAAATAGT
*
18006165 TTTTCATTTTGTAAACAACTTTT
193 TTGTCATTTTGTAAACAACTTTT
* * * * * * *
18006188 GGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTTTTTGTGGGATCTTGGACGAAC-TTC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
* * * *
18006252 TGAACATGTCAAACTTTTATGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAAGGATGATC
66 -GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA-GACGATC
* * * **
18006317 CATTCCTTTGAGCAATTTTCCGATCATTTCATGCTCGGGAAATTACATCATTTGGTCTAAATA-T
129 CATTCCTTTGA-CAATTTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
*
18006381 GTTGTCATTTTTTAAACAACTTTT
193 -TTGTCATTTTGTAAACAACTTTT
* * * * * *
18006405 GATCTTTGAATAAAAAACTTATTTATGTGAGAATTGTTTCCCTCTTGGTTCTTGGACGAAGTTAC
1 GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
** * *
18006470 GAACTACTCAAACTTTTATGAGTTCTTTTATAAC-TCTGGTTCCTTAAAGTATTTAAAAACGATC
66 GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTC-GGTTCCTTAAAGTA-TTCAAGACGATC
* * * * *
18006534 CATTCGTTTTAGCAA-TTT--GATA-ATTCCATGCACGTGAAATTGCATCATTTGGTCTAAATAG
129 CATTCCTTTGA-CAATTTTCCGA-ACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAG
* *
18006595 GTTGTCATTTTTTAAACAACTTTT
192 TTTGTCATTTTGTAAACAACTTTT
* * * *
18006619 GATCTTTGAATAAAAAAGCTTATTTACGTGAGAATTGTTT-TCCTCTTGGTTCTTGGATGAAGTT
1 GGTCTTTGAATTAAAAA-CTTATTTACGTGAGAATTGTTTCT-CTCTTGGTTCTTGGACGAACTT
* * * * * *
18006683 ACGAACTAGTTAAACTTTTATGAGTTCTTTTAT-AGTTCTGATTCCTTAAAGTATTTAAAGACGA
64 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTC-GGTTCCTTAAAGTA-TTCAAGACGA
* * * * * * *
18006747 TCCATTCGTTTTAGCAATTTT-CGATCATTCCATACACGTGAAATTGCATCATTTGGTCT
127 TCCATTCCTTTGA-CAATTTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCT
18006806 CCCTTAAAAA
Statistics
Matches: 1986, Mismatches: 286, Indels: 141
0.82 0.12 0.06
Matches are distributed among these distances:
213 5 0.00
214 338 0.17
215 556 0.28
216 556 0.28
217 413 0.21
218 112 0.06
219 6 0.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (215 bp):
GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTC
GAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
TTCCTTTGACAATTTTCCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTG
TCATTTTGTAAACAACTTTT
Found at i:18006948 original size:170 final size:171
Alignment explanation
Indices: 18006644--18006975 Score: 379
Period size: 170 Copynumber: 1.9 Consensus size: 171
18006634 AAGCTTATTT
* * * * *
18006644 ACGTGAGAATTGTTTTCCTCTTGGTTCTTGGATGAAGTTACGAACTAGTTAAACTTTTATGAGTT
1 ACGTGAGAATTGTTTTCCTCTTGGTTCATGGACGAACTTACGAACTAGTCAAACATTTATGAGTT
* * * ** * * *
18006709 CTTTTATAGTTCTGATTCCTTAAAGTATTTAAAGACGATCCATTCGTTTTAGCAATTTTCGATCA
66 CTTTTATAATTCTGATTCCTTAAAGTAGTTAAAGACGATCCATTCCTTCGACCAATTTTCAAACA
*
18006774 TTCCATACAC-GTGAAATTGCATCATTTGGTCTCCCTTAAAA
131 TTCCATACACAG-GAAATCGCATCATTTGGTCTCCCTTAAAA
* * *
18006815 ACGTGAGAATTGTTTCTCC-CTT-TTTCATGGACGAACTTTCGAACTTGTCAAACATTTACT-AG
1 ACGTGAGAATTGTTT-TCCTCTTGGTTCATGGACGAACTTACGAACTAGTCAAACATTTA-TGAG
* * *
18006877 TTCTTTTATAAATT-TGGTTCCTTAAAGT-GTTCAAGACGATCCATTCCTTCGACCGATTTTCTA
64 TTCTTTTAT-AATTCTGATTCCTTAAAGTAGTTAAAGACGATCCATTCCTTCGACCAATTTTC-A
* *
18006940 AACATTCCATGCTCAGGAAATCGCATCATTTGGTCT
127 AACATTCCATACACAGGAAATCGCATCATTTGGTCT
18006976 AAAAAGGTTG
Statistics
Matches: 134, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
169 26 0.19
170 82 0.61
171 23 0.17
172 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (171 bp):
ACGTGAGAATTGTTTTCCTCTTGGTTCATGGACGAACTTACGAACTAGTCAAACATTTATGAGTT
CTTTTATAATTCTGATTCCTTAAAGTAGTTAAAGACGATCCATTCCTTCGACCAATTTTCAAACA
TTCCATACACAGGAAATCGCATCATTTGGTCTCCCTTAAAA
Found at i:18007153 original size:386 final size:386
Alignment explanation
Indices: 18006431--18007154 Score: 878
Period size: 387 Copynumber: 1.9 Consensus size: 386
18006421 ACTTATTTAT
* * *
18006431 GTGAGAATTGTTTCCCTCTTGGTTCTTGGACGAAGTTACGAACTACTCAAACTTTTATGAGTTCT
1 GTGAGAATTGTTTCCCTCTTGGTTCATGGACGAACTTACGAACTACTCAAACATTTATGAGTTCT
* * * ** * *
18006496 TTTATAACTCTGGTTCCTTAAAGTATTTAAAAACGATCCATTCGTTTTAGCAATTTGATAATTCC
66 TTTATAAATCTGGTTCCTTAAAGTAGTTAAAAACGATCCATTCCTTCGACCAATTTGAAAATTCC
* * * *
18006561 ATGCACGTGAAATTGCATCATTTGGTCTAAATAGGTTGTCATTTTTTAAACAACTTTTGATCTTT
131 ATGCACGTGAAATCGCATCATTTGGTCTAAAAAGGTTGTCATTTTGTAAACAACTTTTGATCATT
*
18006626 GAATAAAAAAGCTTATTTACGTGAGAATTGTTTTCCTCTTGGTTCTTGGATGAAGTTACGAACTA
196 GAATAAAAAAGCTTATTTACGTGAGAATTGTTTTCCTCTTGGTTCTTGGATGAACTTACGAACTA
* * * * * *
18006691 GTTAAACTTTTATGAGTTCTTTTATAGTTCTGATTCCTTAAAGTATTTAAAGACGATCCATTCGT
261 GTAAAACTTTTACGAGTTCTTTTATACTTCTGATTCATGAAAGTATTTAAAGACGATCCATTCCT
** *
18006756 TTTAGCAATTTTCGATCATTCCATACACGTGAAATTGCATCATTTGGTCTCCCTTAAAAAC
326 TCGACCAATTTTCGATCATTCCATACACGTGAAATTGCATCATTTGGTCTCCCTTAAAAAC
* * **
18006817 GTGAGAATTGTTTCTCC-CTT-TTTCATGGACGAACTTTCGAACTTGTCAAACATTTACT-AGTT
1 GTGAGAATTGTTTC-CCTCTTGGTTCATGGACGAACTTACGAACTACTCAAACATTTA-TGAGTT
* * * * *
18006879 CTTTTATAAATTTGGTTCCTTAAAGT-GTTCAAGACGATCCATTCCTTCGACCGATTTTCTAAAC
64 CTTTTATAAATCTGGTTCCTTAAAGTAGTTAAAAACGATCCATTCCTTCGACC-AATTT-GAAA-
* *
18006943 ATTCCATGCTCAG-GAAATCGCATCATTTGGTCTAAAAAGGTTGTCATTTTGTAAACTACTTTTG
126 ATTCCATGCAC-GTGAAATCGCATCATTTGGTCTAAAAAGGTTGTCATTTTGTAAACAACTTTTG
* * *
18007007 GTCATTGAATTAAAAA-CTTATTTATGTGAGAATTG-TTT-CTCTTTGGGTTCTTGGATGAACTT
190 ATCATTGAATAAAAAAGCTTATTTACGTGAGAATTGTTTTCCTC-TT-GGTTCTTGGATGAACTT
* ** *
18007069 -CTGAACTTGTCAAAACATTTT-CGAGTTCTTTTATAACTTC-GATTCATGAGGGTA-TTCAAGA
253 AC-GAACTAGT-AAAAC-TTTTACGAGTTCTTTTAT-ACTTCTGATTCATGAAAGTATTTAAAGA
18007130 CGATCCATTCCTTCGACCAATTTTC
314 CGATCCATTCCTTCGACCAATTTTC
18007155 TGAACATTGC
Statistics
Matches: 284, Mismatches: 42, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
384 22 0.08
385 67 0.24
386 88 0.31
387 98 0.35
388 9 0.03
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (386 bp):
GTGAGAATTGTTTCCCTCTTGGTTCATGGACGAACTTACGAACTACTCAAACATTTATGAGTTCT
TTTATAAATCTGGTTCCTTAAAGTAGTTAAAAACGATCCATTCCTTCGACCAATTTGAAAATTCC
ATGCACGTGAAATCGCATCATTTGGTCTAAAAAGGTTGTCATTTTGTAAACAACTTTTGATCATT
GAATAAAAAAGCTTATTTACGTGAGAATTGTTTTCCTCTTGGTTCTTGGATGAACTTACGAACTA
GTAAAACTTTTACGAGTTCTTTTATACTTCTGATTCATGAAAGTATTTAAAGACGATCCATTCCT
TCGACCAATTTTCGATCATTCCATACACGTGAAATTGCATCATTTGGTCTCCCTTAAAAAC
Found at i:18007258 original size:217 final size:216
Alignment explanation
Indices: 18006817--18008095 Score: 1388
Period size: 215 Copynumber: 6.0 Consensus size: 216
18006807 CCTTAAAAAC
* * * * *
18006817 GTGAGAATTGTTTCTCCCTT-TTTCATGGACGAACTTTCGAACTTGTCAAACATTTACTAGTTCT
1 GTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACATTTACGAGTTCT
* * * * * * *
18006881 TTTATAAATTTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGACCGATTTTCTAAACATT
66 TTTATAACTTCGATTCCTTAGAGTATTCAAGACGATCCATTCCTTCGACCAATTTTCTGAACATT
* * * *
18006946 CCATGCTC-AGGAAATCGCATCATTTGGTCTAAAAAGGTTGTCATTTTGTAAACTACTTTTGGTC
131 CCATGCTCGA-GAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
*
18007010 ATTGAATTAAAAACTTATTTAT
195 TTTGAATTAAAAACTTATTTAT
*
18007032 GTGAGAATTGTTTCTCT-TTGGGTTCTTGGATGAAC-TTCTGAACTTGTCAAAACATTTTCGAGT
1 GTGAGAATTGTTTCTCTCTT-GGTTCTTGGATGAACTTTC-GAACTTGTC-AAACATTTACGAGT
* * *
18007095 TCTTTTATAACTTCGATTCATGAGGGTATTCAAGACGATCCATTCCTTCGACCAATTTTCTGAAC
63 TCTTTTATAACTTCGATTCCTTAGAGTATTCAAGACGATCCATTCCTTCGACCAATTTTCTGAAC
* * * * * *
18007160 ATTGCATGCTCAAGAAATCGAACCATTTGGTCTAAAAAGTTTATTATTTTGTAAACAACTTTTGG
128 ATTCCATGCTCGAGAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * *
18007225 TCTTTGAATTTAAAACATATTTAC
193 TCTTTGAATTAAAAACTTATTTAT
* * * *
18007249 GTTAGAATTGTTTCTCTCTTAGTTGTTGGATGAAATTTCGAACTTGTCAAACATTTACGAGTTCT
1 GTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACATTTACGAGTTCT
* * * * *
18007314 TTTATAACTTTGATT-CTTGAGAGTATTCAGGACTATCCATTCCTTTGACCAATTTT-TCGAAAA
66 TTTATAACTTCGATTCCTT-AGAGTATTCAAGACGATCCATTCCTTCGACCAATTTTCT-GAACA
* * * * * *
18007377 TTGCATGCTCGGGAAATC-ACATCATTTGATC-AAATTGTTTGTCATTTTGTAAACAACTGTTAG
129 TTCCATGCTCGAGAAATCGA-ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
**
18007440 TCGATGAATTAAAAACTTATTTAT
193 TCTTTGAATTAAAAACTTATTTAT
* * * *
18007464 ATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGCCAAAC-TTTAATGAGTTC
1 GTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACATTT-ACGAGTTC
* * * * ** *
18007528 TTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTGCTTCGATGAATTTTCCT-ACCA
65 TTTTATAACTTCGATTCCTTAGAGTATTCAAGACGATCCATTCCTTCGACCAATTTT-CTGAACA
* * * * ** * * *
18007592 TTCTATGCTCGAGAAATCGCATCATTTGGT-GAAATTGTTTGTCATTTTAAAAATAAGTTTTGGC
129 TTCCATGCTCGAGAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
18007656 CTTTGAATTAAAAAACTTATTTAT
194 CTTTGAATT-AAAAACTTATTTAT
* *
18007680 GTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAAC--T---A---GTCAAACTTTTATGAGTTCT
1 GTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACATTTACGAGTTCT
* * * ** * *
18007737 TTTATAACTACGATTCCTTTA-AGTATTCAAAGACGATGCATTCCTTTGAGTAATTTTCCGAATA
66 TTTATAACTTCGATTCC-TTAGAGTATTC-AAGACGATCCATTCCTTCGACCAATTTTCTGAACA
* * * *
18007801 TTCCATACTCGAGAAAAT-GCATCATTAGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTTTT
129 TTCCATGCTCGAG-AAATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAC--TTTT
18007865 GGT-TTTGAATTAAAAACTTATTTAT
191 GGTCTTTGAATTAAAAACTTATTTAT
*
18007890 GTGAGAATTGTTTCTCTCTCTTGGTTCTTGGATGAAGTTTCGAACTTGTCAAACATTTAC-AGGT
1 GTGAGAATTG-TT-TCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACATTTACGA-GT
* * * * *
18007954 TCTTTTATAACTTCGGTTCCTAAGAGTATTCAGGACGATCCACTCCTTCGACCAATTTT-TCAAA
63 TCTTTTATAACTTCGATTCCTTAGAGTATTCAAGACGATCCATTCCTTCGACCAATTTTCT-GAA
* * *
18008018 CATTCCATGCTCGAGAAATC-ACATCATTTGGTC-AAATTGTTTTTCATTTTGTAAACTAC-TTT
127 CATTCCATGCTCGAGAAATCGA-ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTT
18008080 GGTCTTTGAATTAAAA
191 GGTCTTTGAATTAAAA
18008096 TGATACGAAA
Statistics
Matches: 890, Mismatches: 133, Indels: 81
0.81 0.12 0.07
Matches are distributed among these distances:
208 37 0.04
209 53 0.06
210 49 0.06
211 11 0.01
212 28 0.03
214 7 0.01
215 229 0.26
216 174 0.20
217 182 0.20
218 32 0.04
219 50 0.06
220 38 0.04
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (216 bp):
GTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACATTTACGAGTTCT
TTTATAACTTCGATTCCTTAGAGTATTCAAGACGATCCATTCCTTCGACCAATTTTCTGAACATT
CCATGCTCGAGAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
TTGAATTAAAAACTTATTTAT
Found at i:18007616 original size:818 final size:818
Alignment explanation
Indices: 18005997--18007621 Score: 1915
Period size: 818 Copynumber: 2.0 Consensus size: 818
18005987 AAACTTATTT
* * * *
18005997 ACGTGAGAATTGTTTCTCTCTTGGTTCCTGGACGAAGTTTCGAACTTGTCAAGCATTTACAGAAT
1 ACGTGAGAATTGTTTCTCCCTTGGTTCATGGACGAACTTTCGAACTTGTCAAACATTTACAGAAT
* * * * * *
18006062 CTTTTATAACTTCAGTTCCTGAGAGTATTCAGGACGATCCATTCCTTTGACAAATTTTTCGATCA
66 CTTTTATAAATTCAGTTCCTGAAAGTATTCAAGACGATCCATTCCTTCGACAAATTTTTCAAACA
* * *
18006127 TTCCATGCTCGAGAAATCGCATCAATTTGTAAAATTGTTTTTCATTTTGTAAACAACTTTTGGTC
131 TTCCATGCTCGAGAAATCGCATCAATTTGTAAAATAGGTTGTCATTTTGTAAACAACTTTTGGTC
* *
18006192 TTTGAATTAAAAACTTATTTACATGAGAATTATTTTTTTGTGGGATCTTGGACGAACTTCTGAAC
196 ATTGAATTAAAAACTTATTTACATGAGAATTATTTTCTTGTGGGATCTTGGACGAACTTCTGAAC
* * * * *
18006257 ATGTCAAACTTTTATGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAAGGATGATCCATTC
261 ATGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCATGAAAGTATTCAAGGACGATCCATTC
* * * * ** * * * *
18006322 CTTTGAGCAATTTTCCGATCATTTCATGCTCGGGAAATTACATCATTTGGTCTAAATATGTTGTC
326 CTTCGACCAATTTTCCGAACATTGCATGCTCAAGAAATGACACCATTTGGTCTAAAAATGTTATC
* * * *
18006387 ATTTTTTAAACAACTTTTGATCTTTGAATAAAAAACTTATTTATGTGAGAATTGTTTCCCTCTTG
391 ATTTTGTAAACAACTTTTGATCTTTGAATAAAAAACATATTTACGTGAGAATTGTTTCCCTCTTA
* * * *
18006452 GTTCTTGGACGAAGTTACGAACTACTCAAACTTTTATGAGTTCTTTTATAACTCTGGTTCCTTAA
456 GTTCTTGGACGAAATTACGAACTACTCAAACATTTACGAGTTCTTTTATAACTCTGATTCCTTAA
* * * * * **
18006517 AGTATTTAAAAACGATCCATTCGTTTTAGCAATTTGATAATTCCATGCACGTGAAATTGCATCAT
521 AGTATTTAAAAACGATCCATTCCTTTGACCAATTTGAAAATTCCATGCACGGGAAATCACATCAT
* * * ** *
18006582 TTGGTCTAAATAGGTTGTCATTTTTTAAACAACTTTTGATCTTTGAATAAAAAAGCTTATTTACG
586 TTGATCTAAATAGGTTGTCATTTTGTAAACAACTTTAGATCGATGAATAAAAAAGCTTATTTACA
* * ** *
18006647 TGAGAATTGTTTTCCTCTTGGTTCTTGGATGAAGTTACGAACTAGTTAAACTTTTATGAGTTCTT
651 TGAGAATTGTTTTCCTCTTGGTTCTTGGACGAACTTACGAACTAGCCAAACTTTAATGAGTTCTT
* ** *
18006712 TTATAGTTCTGATTCCTTAAAGTATTTAAAGACGATCCATTCGTTTTAGCAATTTTCGATCATTC
716 TTATACTTCTGATTCCTTAAAGTATTTAAAGACGATCCATTCGTTCGAGCAATTTTCGACCATTC
* *
18006777 CATACACGTGAAATTGCATCATTTGGTCTCCCTTAAAA
781 CATACACGAGAAATCGCATCATTTGGTCTCCCTTAAAA
* *
18006815 ACGTGAGAATTGTTTCTCCCTT-TTTCATGGACGAACTTTCGAACTTGTCAAACATTTACTAG-T
1 ACGTGAGAATTGTTTCTCCCTTGGTTCATGGACGAACTTTCGAACTTGTCAAACATTTAC-AGAA
** * * **
18006878 TCTTTTATAAATTTGGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCGACCGA-TTTTCTAAA
65 TCTTTTATAAATTCAGTTCCTGAAAGTATTCAAGACGATCCATTCCTTCGACAAATTTTTC-AAA
*
18006942 CATTCCATGCTC-AGGAAATCGCATC-ATTTGGTCTAAAA-AGGTTGTCATTTTGTAAACTACTT
129 CATTCCATGCTCGA-GAAATCGCATCAATTT-G--TAAAATAGGTTGTCATTTTGTAAACAACTT
** * * *
18007004 TTGGTCATTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTT-TGGGTTCTTGGATGAACT
190 TTGGTCATTGAATTAAAAACTTATTTACATGAGAATTATTT-TCTTGTGGGATCTTGGACGAACT
* **
18007068 TCTGAACTTGTCAAAACATTTT-CGAGTTCTTTTATAACTTCGATTCATGAGGGTATTCAA-GAC
254 TCTGAACATGTC-AAAC-TTTTACGAGTTCTTTTATAACTTCGATTCATGAAAGTATTCAAGGAC
*
18007131 GATCCATTCCTTCGACCAATTTTCTGAACATTGCATGCTCAAGAAATCGA-ACCATTTGGTCTAA
317 GATCCATTCCTTCGACCAATTTTCCGAACATTGCATGCTCAAGAAAT-GACACCATTTGGTCTAA
* * ** *
18007195 AAA-GTTTATTATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACATATTTACGTTAGAATTG
381 AAATG-TTATCATTTTGTAAACAACTTTTGATCTTTGAATAAAAAACATATTTACGTGAGAATTG
* * * * ** *
18007259 TTTCTCTCTTAGTTGTTGGATGAAATTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTT
445 TTTCCCTCTTAGTTCTTGGACGAAATTACGAACTACTCAAACATTTACGAGTTCTTTTATAACTC
* * ** * * *
18007324 TGATT-CTTGAGAGTA-TTCAGGACTATCCATTCCTTTGACCAATTTTTCGAAAATTGCATGCTC
510 TGATTCCTT-AAAGTATTTAAAAACGATCCATTCCTTTGACCAA--TTT-GAAAATTCCATGCAC
* * *
18007387 GGGAAATCACATCATTTGATC-AAATTGTTTGTCATTTTGTAAACAACTGTTAG-TCGATGAATT
571 GGGAAATCACATCATTTGATCTAAATAGGTTGTCATTTTGTAAACAACT-TTAGATCGATGAATA
* * *
18007450 AAAAA-CTTATTTATATGAGAATTG-TTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGCCA
635 AAAAAGCTTATTTACATGAGAATTGTTTTC-CTCTTGGTTCTTGGACGAACTTACGAACTAGCCA
* *
18007513 AACTTTAATGAGTTCTTTTATAACTT-TGGTTCCTTAAAGTA-TTCAAGACGATCCATT-GCTTC
699 AACTTTAATGAGTTCTTTTAT-ACTTCTGATTCCTTAAAGTATTTAAAGACGATCCATTCG-TTC
* * * *
18007575 GATG-AATTTTCCTACCATTCTATGCTCGAGAAATCGCATCATTTGGT
762 GA-GCAATTTT-CGACCATTCCATACACGAGAAATCGCATCATTTGGT
18007622 GAAATTGTTT
Statistics
Matches: 675, Mismatches: 111, Indels: 42
0.82 0.13 0.05
Matches are distributed among these distances:
816 11 0.02
817 155 0.23
818 386 0.57
819 87 0.13
820 36 0.05
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (818 bp):
ACGTGAGAATTGTTTCTCCCTTGGTTCATGGACGAACTTTCGAACTTGTCAAACATTTACAGAAT
CTTTTATAAATTCAGTTCCTGAAAGTATTCAAGACGATCCATTCCTTCGACAAATTTTTCAAACA
TTCCATGCTCGAGAAATCGCATCAATTTGTAAAATAGGTTGTCATTTTGTAAACAACTTTTGGTC
ATTGAATTAAAAACTTATTTACATGAGAATTATTTTCTTGTGGGATCTTGGACGAACTTCTGAAC
ATGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCATGAAAGTATTCAAGGACGATCCATTC
CTTCGACCAATTTTCCGAACATTGCATGCTCAAGAAATGACACCATTTGGTCTAAAAATGTTATC
ATTTTGTAAACAACTTTTGATCTTTGAATAAAAAACATATTTACGTGAGAATTGTTTCCCTCTTA
GTTCTTGGACGAAATTACGAACTACTCAAACATTTACGAGTTCTTTTATAACTCTGATTCCTTAA
AGTATTTAAAAACGATCCATTCCTTTGACCAATTTGAAAATTCCATGCACGGGAAATCACATCAT
TTGATCTAAATAGGTTGTCATTTTGTAAACAACTTTAGATCGATGAATAAAAAAGCTTATTTACA
TGAGAATTGTTTTCCTCTTGGTTCTTGGACGAACTTACGAACTAGCCAAACTTTAATGAGTTCTT
TTATACTTCTGATTCCTTAAAGTATTTAAAGACGATCCATTCGTTCGAGCAATTTTCGACCATTC
CATACACGAGAAATCGCATCATTTGGTCTCCCTTAAAA
Found at i:18008665 original size:13 final size:13
Alignment explanation
Indices: 18008647--18008675 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18008637 GAATCCACAA
18008647 CTCCTTTCAATGG
1 CTCCTTTCAATGG
18008660 CTCCTTTCAATGG
1 CTCCTTTCAATGG
18008673 CTC
1 CTC
18008676 TTGAAGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.34, G:0.14, T:0.38
Consensus pattern (13 bp):
CTCCTTTCAATGG
Found at i:18011622 original size:215 final size:217
Alignment explanation
Indices: 18010992--18013217 Score: 2443
Period size: 216 Copynumber: 10.3 Consensus size: 217
18010982 TGATTATTTT
* * *
18010992 GAGTTCTTTTATAACTTCGGTTCCTGAGAGTATTCAGGACGATCCATTCCTTT-GACCAA-TTTT
1 GAGTTCTTTTATAACTTCGATTCCTTAGAGTATTCAGGACTATCCATTCCTTTCGACCAATTTTT
* * * * * * * *
18011055 CTGAAAATTCCATGCTGGGGAAATCACATCATTTGGT-TAGATTGTTTGTTATTTTGTAAATAAC
66 C-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAC
* * * * *
18011119 TTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTTTTTGTGGGTTCTTGGACGAAC
130 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
* * * *
18011184 -TTCCAAATATGTCAAACTTTTAT
195 TTTCGAACT-TGTCAAACATTTAC
* * * * *
18011207 GAGTTCTTTTATAACTTTGATTCCTTAAAGTATTTAAGGA-TGATCCACTCCTTT-GAGCAATTT
1 GAGTTCTTTTATAACTTCGATTCCTTAGAGTA-TTCAGGACT-ATCCATTCCTTTCGACCAATTT
* * * * * * *
18011270 TCCGATCATTGCATGCTCGAGAAATTGCATAATTTGGTCTAAATAGGTTGTCATTTTTTAAACAA
64 TTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
* * * * * *
18011335 CTTTTGGCCTTTGAATTTAAAACGTATTTACGTTAGAATTGTTTCTCTCTTAGTTGTTGGACGAA
129 CTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA
*
18011400 ATTTCGAACTTGTCAAACATTTAC
194 CTTTCGAACTTGTCAAACATTTAC
18011424 GAGTTCTTTTATAACTTCGATTCCTTAGAGTATTCAGGACTATCCATTCCTTTC-ACCAATTTTT
1 GAGTTCTTTTATAACTTCGATTCCTTAGAGTATTCAGGACTATCCATTCCTTTCGACCAATTTTT
* * * * * * * *
18011488 CAAAAATTGCATGCTCGGGAAATCACATCATTTGATC-AAATTGTTTATCATTTTGTAAACAACT
66 CGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
* * * *
18011552 ATTGGTCTATGAATTAAAAACTTATTTATGTGAGAACTGTTTCTCTCTTGGTTCTTGGACGAACT
131 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
*
18011617 TTCGAACTTGTCAAAC-TTTAAT
196 TTCGAACTTGTCAAACATTT-AC
* * * *
18011639 GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGA-TGATCCATTCCTTT-GACGAA-TTT
1 GAGTTCTTTTATAACTTCGATTCCTTAGAGTATTCAGGACT-ATCCATTCCTTTCGACCAATTTT
* * * ** *
18011701 TCCAACCATTCCATGCTCGAGAAATCGCATCATTTGGT-GAAATTGTTTGTCATTTTAAAAATAA
65 TCGAA-CATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
* * *
18011765 GTTTTGGCCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTGTT-G--G-
129 CTTTTGGTCTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
* * *
18011826 A---T-GAACTAGTCAAACTTTTAT
193 ACTTTCGAACTTGTCAAACATTTAC
* * * * **
18011847 GAGTTCTTTTATAACTACGATTCCTTTA-AGTATTCAAAGACGATGCATTCCTTT-GAGTAA-TT
1 GAGTTCTTTTATAACTTCGATTCC-TTAGAGTATTC-AGGACTATCCATTCCTTTCGACCAATTT
* * *
18011909 TTCTGAATATTCCATGCTCGAAAAAAT-GCATCATTAGGTCTAAATAGTTTGTCATTTTGTAGAA
64 TTC-GAACATTCCATGCTCG-AGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AA
18011973 -AACTTTTTTGGT-TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
126 CAAC--TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * *
18012036 ATGAAGTTTCGAACTTGTCAAACCTTTAC
189 ACGAACTTTCGAACTTGTCAAACATTTAC
* * *
18012065 AAGTTCTTTTATAACTTCGATTCCTGAGAGTATTCAGGA-TGATCCACTCC-TTCGACCAATTTT
1 GAGTTCTTTTATAACTTCGATTCCTTAGAGTATTCAGGACT-ATCCATTCCTTTCGACCAATTTT
* * * *
18012128 TCAAACATTCCATGCTCGAGAAATAGCATCATTTGGTC-AAATTGTTTGTCATTTTGTAAACTAC
65 TCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAC
* *
18012192 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGATTCTCTCTTAGTTCTTGGACGAAC
130 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
* * *
18012257 TGTCGATCTTGTCAAACATTTAA
195 TTTCGAACTTGTCAAACATTTAC
* * * * * * * * * *
18012280 GGGTTCTTTTATAAATCCGGTGCCTGAGAGTATTC-GAGACAATCCATTCC-CTCTACCAATATT
1 GAGTTCTTTTATAACTTCGATTCCTTAGAGTATTCAG-GACTATCCATTCCTTTCGACCAATTTT
* * * *
18012343 CCGAACATTCCGTACTCGAGAAATCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAC
65 TCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAC
*
18012408 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAAC
130 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
18012473 TTTCGAACTTGTCAAACATTTAC
195 TTTCGAACTTGTCAAACATTTAC
* * * * *
18012496 GAGTTCTTTTATAACTTTGGTT-CTTGACAGTATTCAAGA-TGATCCATTCC-TTCGACCAATAT
1 GAGTTCTTTTATAACTTCGATTCCTT-AGAGTATTCAGGACT-ATCCATTCCTTTCGACCAATTT
* * * * * * *
18012558 TCCGAACATTCCGTGCTCAAGAAATCGCATCATTTGGTCTAAAAAGTTTGCCTTTTTGTAAAAAA
64 TTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AAACA
*
18012623 ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGA
128 ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA
* * *
18012688 ACTTCCGATCTTGTCAAACATTTAA
193 ACTTTCGAACTTGTCAAACATTTAC
* * * * * * *
18012713 GAGTTCCTTTATAAATTTG-GTGCTTGAGAGTATTC-GAGACGATCCATTCC-TTCGACCAATAT
1 GAGTTCTTTTATAACTTCGATTCCTT-AGAGTATTCAG-GACTATCCATTCCTTTCGACCAATTT
* ** * *
18012775 TTCAAACATTCCATAATCGAGAAATTGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAA
64 TTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
* *
18012840 CTTCTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAA
129 CTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA
*
18012905 CTTTTGAACTTGTCAAACATTTAC
194 CTTTCGAACTTGTCAAACATTTAC
* * * * * * *
18012929 GAGTTCTTTTATAACTTC-AGTTCCTAACAATATTAAAGACAATCCATT--TTTCGACCAATATT
1 GAGTTCTTTTATAACTTCGA-TTCCTTAGAGTATTCAGGACTATCCATTCCTTTCGACCAATTTT
* * * * * * * *
18012991 CCGAAAATTTCGTGCTCGAGAAATCGCATCATTTGGTCTAAAAAATTTGTCTTTTTGTAAAAAAA
65 TCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AAACAA
* * * **
18013056 CTGTTGGTCTTTGAATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTAGATAAA
129 CTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA
* * *
18013121 GTTTCGAACTTGTAAAACTTTTAC
194 CTTTCGAACTTGTCAAACATTTAC
* *
18013145 -AGGTTCTTTTATAACTTC-AGTTCCTGAGAGTATTCAGGACGATCCATTCC-TTCGACCAATTT
1 GA-GTTCTTTTATAACTTCGA-TTCCTTAGAGTATTCAGGACTATCCATTCCTTTCGACCAATTT
18013207 TTCGAACATTC
64 TTCGAACATTC
18013218 TTTTATAACA
Statistics
Matches: 1713, Mismatches: 242, Indels: 110
0.83 0.12 0.05
Matches are distributed among these distances:
208 43 0.03
209 54 0.03
210 66 0.04
211 11 0.01
212 7 0.00
213 2 0.00
214 20 0.01
215 456 0.27
216 621 0.36
217 377 0.22
218 56 0.03
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (217 bp):
GAGTTCTTTTATAACTTCGATTCCTTAGAGTATTCAGGACTATCCATTCCTTTCGACCAATTTTT
CGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
TTCGAACTTGTCAAACATTTAC
Found at i:18014047 original size:433 final size:427
Alignment explanation
Indices: 18013232--18014501 Score: 1466
Period size: 433 Copynumber: 2.9 Consensus size: 427
18013222 ATAACAAACT
* * * **
18013232 TAAATGTTTGACAAGTTCAGAAGTTCATCCAATAATCAAGAGAGAAACAATTCTCACAAAAATAA
1 TAAAAGTTTGACAAGTTCAAAAGTTCATCCAAGAA-CAAGAGAGAAACAATTCTCACGTAAATAA
* * * * *
18013297 GTTTTTAATTCAAATACAAAAAG-TAGTTTACAAAATGACAAATAATTTGACCAAATAATGCGAT
65 GTTTTTAATTCAAAGACCAAAAGTTA-TTTACAAAATGACAAACAATTTGACCAAATGATGTGAT
* * * * *
18013361 TTCCCGAGCATGGAATGTTATAAAAATTGGTCAAAGGAATGGATCATCCTGAATGCTCTCAGGAA
129 TT-CCGAGCATGGAATGTT-TAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACTTTCAGGAA
* * * *
18013426 CCGAAGTTATAAAAAAAC-CTATAAATGTTTGACAGGTTCGAAA-CTTGATCCATGAACCAAGAG
192 CCGAAGTTATAAAAGAACTCT-TAAATGTTTGACAAGTTCGAAAGTTTG-TCCAAGAACCAAGAG
* *
18013489 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAACCAAAGAAGTTTTTTACAAAATGACAA
255 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAGACC--A-AAGTTGTTTACAAAATGACAA
* * * * * * *
18013554 ACTATTTACACCTAATGATGTGAGTTCCCTAGTATGGAATATTT-G-AAAATTTACTCAAAGGAA
317 ACTATTTAGACCAAATGATGCGATTTCTCGAGTATGGAAT-TTTCGAAAAATTT-GTCAAAGGAA
* * * *
18013617 TGGATCGTCTTTGAATAGT-TAAAGGAATCGAAGTTATAAAAGAACTCA
380 TGGATCGTCTCTGAATACTCT-AAGGAACCAAAGTTATAAAAGAACTCA
* * ** * *
18013665 TAAAAGTTTGACTATTTCGTAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAA
1 TAAAAGTTTGACAAGTTCAAAAGTTCATCCAAGAAC-AAGAGAGAAACAATTCTCACGTAAATAA
* * *
18013730 GTTTTTAATTCAAAGGCCAAAAGTTATTTTCAAAATGACAAACAATTTCACCAAATGATGTGATT
65 GTTTTTAATTCAAAGACCAAAAGTTATTTACAAAATGACAAACAATTTGACCAAATGATGTGATT
* * * * *
18013795 TCCAAAGCATGGAATGTTTGGAAAATTCGTCGAAGGAATGGATTGTCTTGAATACTTTTTAAGGA
130 TCC-GAGCATGGAATGTTT-AAAAATTGGTCGAAGGAATGGATCGTCTTGAATAC--TTTCAGGA
* *
18013860 ACCGAAGTTATAAAAGAACTCATTAAAT-TTTGACAATTTAGAAAGTTTGTCCAAGAACCAAGAG
191 ACCGAAGTTATAAAAGAACTC-TTAAATGTTTGACAAGTTCGAAAGTTTGTCCAAGAACCAAGAG
* *
18013924 AGAAACAATTCTTACATAAATAAGTTTTTAATTCATAGACCAATAGTTGTTTACAAAATGACAAA
255 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCA-AGACCAA-AGTTGTTTACAAAATGACAAA
* *
18013989 CAATTT-GACCAAATGATGCGATTTCTCGAGCATGGAATTTTCGAAAAATTTGTCAAAGGAATGG
318 CTATTTAGACCAAATGATGCGATTTCTCGAGTATGGAATTTTCGAAAAATTTGTCAAAGGAATGG
* * *
18014053 TTCGTC-CTGAATACTCTCAGGAACCAAAGTTATAAAAGAACTCG
383 ATCGTCTCTGAATACTCTAAGGAACCAAAGTTATAAAAGAACTCA
* * *
18014097 TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACTAAGAGAGAAATAATTCTCACGTAAATAT
1 TAAAAGTTTGACAAGTTCAAAAGTTCATCCAAGAAC-AAGAGAGAAACAATTCTCACGTAAATAA
* * * ** *
18014162 CTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAACAAACTGTTTAGACCAAATGAT-TCAA
65 GTTTTTAATTCAAAGACCAAAAGTTATTTACAAAATGACAAACAATTT-GACCAAATGATGT-GA
* * * * *
18014226 TTTCTCGTGCATGCAATGTTCAAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACCTTCATGA
128 TTTC-CGAGCATGGAATGTT-TAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACTTTCAGGA
* * * ** *
18014291 ACTGAAGTTATAAAAGAAATCGTAAATGTTTGACAAGTTCGAAAGTTCATCCAACAACCAAGAGA
191 ACCGAAGTTATAAAAGAACTCTTAAATGTTTGACAAGTTCGAAAGTTTGTCCAAGAACCAAGAGA
*
18014356 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAATGTTGTTTACAAAATGACAAAC
256 GAAACAATTCTCACGTAAATAAGTTTTTAATTC-AAGACCAAA-GTTGTTTACAAAATGACAAAC
* * * * *
18014421 TTTTTAGACCAAATGATGCGATTTCTCGAGTATGGAATGTTC-AGAATATTGGTCGAAGGAATGG
319 TATTTAGACCAAATGATGCGATTTCTCGAGTATGGAATTTTCGA-AAAATTTGTCAAAGGAATGG
*
18014485 ATCGTCTC-CAATACTCT
383 ATCGTCTCTGAATACTCT
18014502 CAGGCAACGA
Statistics
Matches: 710, Mismatches: 103, Indels: 49
0.82 0.12 0.06
Matches are distributed among these distances:
430 6 0.01
431 118 0.17
432 199 0.28
433 253 0.36
434 36 0.05
435 84 0.12
436 13 0.02
437 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (427 bp):
TAAAAGTTTGACAAGTTCAAAAGTTCATCCAAGAACAAGAGAGAAACAATTCTCACGTAAATAAG
TTTTTAATTCAAAGACCAAAAGTTATTTACAAAATGACAAACAATTTGACCAAATGATGTGATTT
CCGAGCATGGAATGTTTAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACTTTCAGGAACCGA
AGTTATAAAAGAACTCTTAAATGTTTGACAAGTTCGAAAGTTTGTCCAAGAACCAAGAGAGAAAC
AATTCTCACGTAAATAAGTTTTTAATTCAAGACCAAAGTTGTTTACAAAATGACAAACTATTTAG
ACCAAATGATGCGATTTCTCGAGTATGGAATTTTCGAAAAATTTGTCAAAGGAATGGATCGTCTC
TGAATACTCTAAGGAACCAAAGTTATAAAAGAACTCA
Found at i:18014316 original size:216 final size:214
Alignment explanation
Indices: 18013232--18014505 Score: 1428
Period size: 216 Copynumber: 5.9 Consensus size: 214
18013222 ATAACAAACT
* * * **
18013232 TAAATGTTTGACAAGTTCAGAAGTTCATCCAATAATCAAGAGAGAAACAATTCTCACAAAAATAA
1 TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* * * *
18013297 GTTTTTAATTCAAATACAAAAAGTAGTTTACAAAATGACAAA-TAATTTGACCAAATAATGCGAT
66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT-ATTTGACCAAATGATGCGAT
* * * *
18013361 TTCCCGAGCATGGAATGTT-ATAAAAATTGGTCAAAGGAATGGATCATCCTGAATGCTCTCAGGA
130 TTCTCGAGCATGGAATGTTCA-AAAAATTGGTCAAAGGAATGGATCGTCTTGAATACT-TCAGGA
*
18013425 ACCGAAGTTATAAAAAAAC-CTA
193 ACCGAAGTTATAAAAGAACTC-A
* * * * *
18013447 TAAATGTTTGACAGGTTCGAAACTTGATCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAA
1 TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* * * *
18013512 GTTTTTAATTCAAA-ACCAAAGAAGTTTTTTACAAAATGACAAACTATTTACACCTAATGATGTG
66 GTTTTTAATTCAAAGACC-AA-AAGTTGTTTACAAAATGACAAACTATTT-GACCAAATGATGCG
* * * * * ** * ** * *
18013576 AGTTCCCTAGTATGGAATATTTGAAAATTTACTCAAAGGAATGGATCGTCTTTGAATAGTTAAAG
128 ATTTCTCGAGCATGGAATGTTCAAAAAATTGGTCAAAGGAATGGATCGTC-TTGAATACTT-CAG
*
18013641 GAATCGAAGTTATAAAAGAACTCA
191 GAACCGAAGTTATAAAAGAACTCA
* * * ** * * *
18013665 TAAAAGTTTGACTATTTCGTAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAA
1 TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* * * * * *
18013730 GTTTTTAATTCAAAGGCCAAAAGTTATTTTCAAAATGACAAACAATTTCACCAAATGATGTGATT
66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGACCAAATGATGCGATT
* *** * * * *
18013795 TC-CAAAGCATGGAATGTTTGGAAAATTCGTCGAAGGAATGGATTGTCTTGAATACTTTTTAAGG
131 TCTC-GAGCATGGAATGTTCAAAAAATTGGTCAAAGGAATGGATCGTCTTGAATAC---TTCAGG
18013859 AACCGAAGTTATAAAAGAACTCA
192 AACCGAAGTTATAAAAGAACTCA
* ** * *
18013882 TTAAAT-TTTGACAA-TTTAGAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAAT
1 -TAAATGTTTGACAAGTTCA-AAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
* * *
18013945 AAGTTTTTAATTCATAGACCAATAGTTGTTTACAAAATGACAAACAATTTGACCAAATGATGCGA
64 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGACCAAATGATGCGA
* * * * *
18014010 TTTCTCGAGCATGGAATTTTCGAAAAATTTGTCAAAGGAATGGTTCGTCCTGAATACTCTCAGGA
129 TTTCTCGAGCATGGAATGTTCAAAAAATTGGTCAAAGGAATGGATCGTCTTGAATACT-TCAGGA
* *
18014075 ACCAAAGTTATAAAAGAACTCG
193 ACCGAAGTTATAAAAGAACTCA
* * *
18014097 TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACTAAGAGAGAAATAATTCTCACGTAAATAT
1 TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* * * * *
18014162 CTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAACAAACTGTTTAGACCAAATGATTCAAT
66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT-GACCAAATGATGCGAT
* * * *
18014227 TTCTCGTGCATGCAATGTTCAAAAAATTGGTCGAAGGAATGGATCGTCTTGAATACCTTCATGAA
130 TTCTCGAGCATGGAATGTTCAAAAAATTGGTCAAAGGAATGGATCGTCTTGAATA-CTTCAGGAA
* * *
18014292 CTGAAGTTATAAAAGAAATCG
194 CCGAAGTTATAAAAGAACTCA
* *
18014313 TAAATGTTTGACAAGTTCGAAAGTTCATCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAA
1 TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* * *
18014378 GTTTTTAATTCAAAGACTAAATGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGAT
66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT-GACCAAATGATGCGAT
* * * * **
18014443 TTCTCGAGTATGGAATGTTCAGAATATTGGTCGAAGGAATGGATCGTCTCCAATACTCTCAGG
130 TTCTCGAGCATGGAATGTTCAAAAAATTGGTCAAAGGAATGGATCGTCTTGAATACT-TCAGG
18014506 CAACGAATTT
Statistics
Matches: 900, Mismatches: 137, Indels: 43
0.83 0.13 0.04
Matches are distributed among these distances:
214 8 0.01
215 195 0.22
216 335 0.37
217 254 0.28
218 105 0.12
219 3 0.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (214 bp):
TAAATGTTTGACAAGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGACCAAATGATGCGATT
TCTCGAGCATGGAATGTTCAAAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTTCAGGAACC
GAAGTTATAAAAGAACTCA
Found at i:18014622 original size:30 final size:30
Alignment explanation
Indices: 18014588--18014664 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
18014578 AAGATGTGAG
*
18014588 CACTGGTGTTGCGAGCACTCATGTTATGAA
1 CACTGGTGTTGCGAGCACTCATGTTACGAA
* * * * * *
18014618 CACTGGAGCTGCAAACACTCATGTTGCGAG
1 CACTGGTGTTGCGAGCACTCATGTTACGAA
*
18014648 CACTGATGTTGCGAGCA
1 CACTGGTGTTGCGAGCA
18014665 TGGATGAAAG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (30 bp):
CACTGGTGTTGCGAGCACTCATGTTACGAA
Found at i:18014670 original size:15 final size:15
Alignment explanation
Indices: 18014585--18014664 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
18014575 TGGAAGATGT
*
18014585 GAGCACTGGTGTTGC
1 GAGCACTGATGTTGC
* **
18014600 GAGCACTCATGTTAT
1 GAGCACTGATGTTGC
* *
18014615 GAACACTGGA-GCTGC
1 GAGCACT-GATGTTGC
* * *
18014630 AAACACTCATGTTGC
1 GAGCACTGATGTTGC
18014645 GAGCACTGATGTTGC
1 GAGCACTGATGTTGC
18014660 GAGCA
1 GAGCA
18014665 TGGATGAAAG
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
14 1 0.02
15 46 0.96
16 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (15 bp):
GAGCACTGATGTTGC
Found at i:18018124 original size:438 final size:438
Alignment explanation
Indices: 18017281--18018128 Score: 1430
Period size: 438 Copynumber: 1.9 Consensus size: 438
18017271 GAAGAGGATC
* ** * *
18017281 GTAAATTTGTCAAGTCGTGGATCTACCCTAAAGCTCTAGACAAATGTAATCTGAAACGAAAATAA
1 GTAAAGTTGTCAAGTCACGGATCTACCCTAAAGCTCTAGACAAATGTAATCTAAAACGAAAACAA
18017346 AGAAAGACAGATTAATTGACAAGAAGAATAATCAAACGAAATTAAAACGAAAGAAAGATGAATGG
66 AGAAAGACAGATTAATTGACAAGAAGAATAATCAAACGAAATTAAAACGAAAGAAAGATGAATGG
* **
18017411 CTGGAAATGGATCCAATAGAGAACGAAATTAGGGTTTCTTGGATGAAAGAAACTGTCCTTGGACC
131 CTGGAAACGGATCCAATAGAGAACGAAATTAGGGTTTCTTGGATGAAAGAAACCATCCTTGGACC
* * * * *
18017476 TTAAGAAAACATCTCAACCAGATTTGGAAAATAAAAACACAAACAAATTTGTTAAAAGTGATTTA
196 TCAAGAAAACATCCCAACCAGATCTAGAAAATAAAAACACAAACAAATTCGTTAAAAGTGATTTA
* *
18017541 AAAGATAAAAAGCAAAATGTTTAGGCAAGAATAATTGAAATAGCAAGAAAAGATTGGATCTCCTA
261 AAAGATAAAAAGCAAAATATTTAGGCAAGAATAATTGAAACAGCAAGAAAAGATTGGATCTCCTA
* *
18017606 ATTTTTGATGTGTTTCTTGATGGATCAAGGTAGGAGAACATCCCTCTTGAAGCAATTTCAATCTA
326 ATTTTTGATGTGTTTCTTGATGGATCAAGGTAGGAGAACATCCCTCTTGAAGCAATTTCAACCAA
18017671 GAACGAAAACAACTAAATCAACAACCCAAATCAGTGCTTTAGACAAAT
391 GAACGAAAACAACTAAATCAACAACCCAAATCAGTGCTTTAGACAAAT
18017719 GTAAAGTTGTCAAGTCACGGATCTACCCTAAAGCTCTAGACAAATGTAATCTAAAACGAAAACAA
1 GTAAAGTTGTCAAGTCACGGATCTACCCTAAAGCTCTAGACAAATGTAATCTAAAACGAAAACAA
*
18017784 TA-AAAGATAGATTAATTGACAAGAAGAATAATCAAACGAAATTAAAACGAAAGAAAGATGAATG
66 -AGAAAGACAGATTAATTGACAAGAAGAATAATCAAACGAAATTAAAACGAAAGAAAGATGAATG
* *
18017848 GCTGGTAACGGATCCAATAGAGAATGAAATTAGGGTTTCTTGGATGAAAGAAACCATCCTTGGAC
130 GCTGGAAACGGATCCAATAGAGAACGAAATTAGGGTTTCTTGGATGAAAGAAACCATCCTTGGAC
* * *
18017913 CTCAAGAAAACGTCCCAACCAGATCTAGAAAATAAAAACACAAACAGATTCGTTAGAAGTGATTT
195 CTCAAGAAAACATCCCAACCAGATCTAGAAAATAAAAACACAAACAAATTCGTTAAAAGTGATTT
* *
18017978 AAAAGAT-AAAAGCAAACTATTTAGGCAAGAATGATTGAAACAGCAAGAAAAGATTGGATCTCCT
260 AAAAGATAAAAAGCAAAATATTTAGGCAAGAATAATTGAAACAGCAAGAAAAGATTGGATCTCCT
*
18018042 AATTTTTGATGTGTTTCTTGATGGATCAAGGTAGGAGAACGTCCCTCTTGAAGCAATTTCAACCA
325 AATTTTTGATGTGTTTCTTGATGGATCAAGGTAGGAGAACATCCCTCTTGAAGCAATTTCAACCA
18018107 AGAACGAAAATCAACTAAATCA
390 AGAACGAAAA-CAACTAAATCA
18018129 GTAACCCTAA
Statistics
Matches: 382, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
437 125 0.33
438 256 0.67
439 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (438 bp):
GTAAAGTTGTCAAGTCACGGATCTACCCTAAAGCTCTAGACAAATGTAATCTAAAACGAAAACAA
AGAAAGACAGATTAATTGACAAGAAGAATAATCAAACGAAATTAAAACGAAAGAAAGATGAATGG
CTGGAAACGGATCCAATAGAGAACGAAATTAGGGTTTCTTGGATGAAAGAAACCATCCTTGGACC
TCAAGAAAACATCCCAACCAGATCTAGAAAATAAAAACACAAACAAATTCGTTAAAAGTGATTTA
AAAGATAAAAAGCAAAATATTTAGGCAAGAATAATTGAAACAGCAAGAAAAGATTGGATCTCCTA
ATTTTTGATGTGTTTCTTGATGGATCAAGGTAGGAGAACATCCCTCTTGAAGCAATTTCAACCAA
GAACGAAAACAACTAAATCAACAACCCAAATCAGTGCTTTAGACAAAT
Found at i:18022924 original size:27 final size:23
Alignment explanation
Indices: 18022903--18022947 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
18022893 ATTTTTTTCA
18022903 TTTC-TTTCTTTTTGTTTCTTTT
1 TTTCTTTTCTTTTTGTTTCTTTT
18022925 TTTCTTTTCTTTTTGTTTCTTTT
1 TTTCTTTTCTTTTTGTTTCTTTT
18022948 CTTTTCTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTCTTTTCTTTTTGTTTCTTTT
Found at i:18022937 original size:5 final size:5
Alignment explanation
Indices: 18022897--18022955 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
18022887 TATGATATTT
*
18022897 TTTTC ATTTC -TTTC TTTT- TGTTTC -TTT- TTTTC TTTTC TTTT- TGTTTC
1 TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC TTTTC T-TTTC
18022944 TTTTC TTTTC TT
1 TTTTC TTTTC TT
18022956 CCAAACAGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
4 12 0.26
5 33 0.72
6 1 0.02
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTC
Done.