Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold416
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: 1156864
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 3 of 8
Found at i:302251 original size:23 final size:23
Alignment explanation
Indices: 302221--302267 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
302211 ATCTCCCCCT
*
302221 TAATCAAGTGATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
302244 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
302267 T
1 T
302268 TTATTTGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:304069 original size:13 final size:13
Alignment explanation
Indices: 304051--304089 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
304041 ATAATCACCC
*
304051 TGTATCGATACAG
1 TGTATCGATACAA
304064 TGTATCGATACAA
1 TGTATCGATACAA
304077 TGTATCGATACAA
1 TGTATCGATACAA
304090 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:304100 original size:20 final size:20
Alignment explanation
Indices: 304075--304153 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
304065 GTATCGATAC
304075 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
304095 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
304120 TATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
304140 CATGTATCGATACA
1 AATGTATCGATACA
304154 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:304306 original size:8 final size:8
Alignment explanation
Indices: 304293--304324 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
304283 CATCATTCAA
304293 CACAAAAT
1 CACAAAAT
304301 CACAAAAT
1 CACAAAAT
304309 CACAAAAT
1 CACAAAAT
304317 CACAAAAT
1 CACAAAAT
304325 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:306198 original size:15 final size:15
Alignment explanation
Indices: 306178--306208 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
306168 ATTTCGTTTG
*
306178 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
306193 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
306208 G
1 G
306209 GACATTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:310289 original size:13 final size:13
Alignment explanation
Indices: 310271--310296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
310261 CAATTTTTTG
310271 TGTATCGATACAT
1 TGTATCGATACAT
310284 TGTATCGATACAT
1 TGTATCGATACAT
310297 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:310381 original size:20 final size:20
Alignment explanation
Indices: 310356--310428 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
310346 CAACTTTTTT
310356 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
310376 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
310397 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
310417 ATGTATCGATAC
1 ATGTATCGATAC
310429 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:310394 original size:41 final size:41
Alignment explanation
Indices: 310335--310428 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
310325 CTACCAAGAA
*
310335 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
310376 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
310417 ATGTATCGATAC
1 ATGTATCGATAC
310429 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:310410 original size:21 final size:21
Alignment explanation
Indices: 310335--310410 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
310325 CTACCAAGAA
* *
310335 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
310356 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
310376 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
310397 ATGTATCGATACAT
1 ATGTATCGATACAT
310411 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:311463 original size:19 final size:19
Alignment explanation
Indices: 311378--311457 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
311368 TTGTATTTGG
* *
311378 ATTAATACAATTATTTAT-
1 ATTAATATAATTGTTTATA
*
311396 -TTAATATAATTGTTGAT-
1 ATTAATATAATTGTTTATA
*
311413 ATTATGAAATAATTGTTTATA
1 ATTA--ATATAATTGTTTATA
*
311434 ATTAATATAATTGTGTTTTA
1 ATTAATATAATTGT-TTATA
311454 ATTA
1 ATTA
311458 TTTAATATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
17 14 0.28
18 3 0.06
19 9 0.18
20 20 0.40
21 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTAATATAATTGTTTATA
Found at i:311469 original size:29 final size:28
Alignment explanation
Indices: 311432--311490 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
311422 TAATTGTTTA
* *
311432 TAATTAATATAATTGTGTTTTAATTATT
1 TAATTAATATAATTGTATTATAATTATT
*
311460 TAATATAATATAATTGTATTATAATTGTT
1 TAAT-TAATATAATTGTATTATAATTATT
311489 TA
1 TA
311491 TAAATTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (28 bp):
TAATTAATATAATTGTATTATAATTATT
Found at i:311910 original size:19 final size:21
Alignment explanation
Indices: 311883--311921 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
311873 ATTTTTGTTA
311883 AAAATATATATTTT-GAAAAG
1 AAAATATATATTTTCGAAAAG
*
311903 AAAA-ATATTTTTTCGAAAA
1 AAAATATATATTTTCGAAAA
311922 AAATTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATATATATTTTCGAAAAG
Found at i:311998 original size:23 final size:23
Alignment explanation
Indices: 311968--312013 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
311958 CAATCATTTC
*
311968 CGTGATTCTCAAGCTTAAATATT
1 CGTGATTCTCAACCTTAAATATT
311991 CGTGATTCTCAACCTTAAATATT
1 CGTGATTCTCAACCTTAAATATT
312014 ACCGTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (23 bp):
CGTGATTCTCAACCTTAAATATT
Found at i:315098 original size:39 final size:38
Alignment explanation
Indices: 315050--315133 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
315040 AATTATTCAA
315050 TTCAATTAAA-ATAATTATTTAAAAAT-TAAAAAAAATATT
1 TTCAATTAAATATAATTA--TAAAAATAT-AAAAAAATATT
* * *
315089 TTCATTTAAATTTAATTATAAAAATATAAAAATATATT
1 TTCAATTAAATATAATTATAAAAATATAAAAAAATATT
*
315127 TTTAATT
1 TTCAATT
315134 TTTTTATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
38 22 0.58
39 10 0.26
40 6 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (38 bp):
TTCAATTAAATATAATTATAAAAATATAAAAAAATATT
Found at i:316899 original size:20 final size:20
Alignment explanation
Indices: 316874--316911 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
316864 TCGATACAAC
*
316874 AAGTGAATATATTGATATAT
1 AAGTGAATATATCGATATAT
*
316894 AAGTGAATGTATCGATAT
1 AAGTGAATATATCGATAT
316912 TGGACATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (20 bp):
AAGTGAATATATCGATATAT
Found at i:317060 original size:52 final size:52
Alignment explanation
Indices: 316949--317061 Score: 120
Period size: 52 Copynumber: 2.2 Consensus size: 52
316939 TTTGGAAAGG
** *
316949 AAATATATCAATACATTATTTATTATATCGATACATTCTGAATTTTTTATCT
1 AAATATATCAATACATTATTTATTATATCGATACATTCTGAATTTTGGATCC
* * * * * **
317001 AAGTATATGAATATATT-TTTCATTGTATCGATATATTCTGGGTTTTGGATCC
1 AAATATATCAATACATTATTT-ATTATATCGATACATTCTGAATTTTGGATCC
317053 AAATATATC
1 AAATATATC
317062 GATAAATTCT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
51 3 0.06
52 45 0.94
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (52 bp):
AAATATATCAATACATTATTTATTATATCGATACATTCTGAATTTTGGATCC
Found at i:319546 original size:56 final size:57
Alignment explanation
Indices: 319459--319571 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 57
319449 TTCTTCCGAG
319459 GGGATACTCCAACCCCATTTTTAAACTTATTAAGATTTAAATCTTATTTTTGCTTAA
1 GGGATACTCCAACCCCATTTTTAAACTTATTAAGATTTAAATCTTATTTTTGCTTAA
*
319516 GGGATACTCCAA-CCCGTTTTTAAACTTATTAAGATTTAAATCTTATTTTTGCTTAA
1 GGGATACTCCAACCCCATTTTTAAACTTATTAAGATTTAAATCTTATTTTTGCTTAA
319572 ATTGTCATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 43 0.78
57 12 0.22
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (57 bp):
GGGATACTCCAACCCCATTTTTAAACTTATTAAGATTTAAATCTTATTTTTGCTTAA
Found at i:321245 original size:20 final size:20
Alignment explanation
Indices: 321201--321245 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
321191 TTTAATTACT
321201 TTATTTTTTTATTATTTCAA
1 TTATTTTTTTATTATTTCAA
*
321221 -AATTTTATTTATTATTT-AA
1 TTATTTT-TTTATTATTTCAA
321240 TTATTT
1 TTATTT
321246 ATGAGCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTTTTTATTATTTCAA
Found at i:321247 original size:35 final size:35
Alignment explanation
Indices: 321176--321247 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
321166 CATAAAAATA
* *
321176 ATTATTTCAAAAATTTTTAATTACTTTATTTTTTT
1 ATTATTTCAAAAATTTTTAATTACTTTAATTATTT
* *
321211 ATTATTTCAAAATTTTATTTATTA-TTTAATTATTT
1 ATTATTTCAAAAATTT-TTAATTACTTTAATTATTT
321246 AT
1 AT
321248 GAGCATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 26 0.81
36 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (35 bp):
ATTATTTCAAAAATTTTTAATTACTTTAATTATTT
Found at i:321703 original size:11 final size:11
Alignment explanation
Indices: 321687--321715 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
321677 CCAAAATAAT
321687 ATTATTTTAAA
1 ATTATTTTAAA
321698 ATTATTTTAAA
1 ATTATTTTAAA
321709 ATTATTT
1 ATTATTT
321716 ATCAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATTTTAAA
Found at i:321957 original size:16 final size:17
Alignment explanation
Indices: 321931--321970 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
321921 AATTATTTAA
321931 TAAATATTTAAAAATA-T
1 TAAA-ATTTAAAAATATT
*
321948 TAAAATTTAAAATTATT
1 TAAAATTTAAAAATATT
321965 TAAAAT
1 TAAAAT
321971 AAAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTTAAAAATATT
Found at i:321970 original size:10 final size:10
Alignment explanation
Indices: 321918--321970 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
321908 TTAAGAAATA
321918 TAAAATTATT
1 TAAAATTATT
*
321928 TAATAAATATT
1 TAA-AATTATT
*
321939 TAAAAATA-T
1 TAAAATTATT
321948 T-AAA--ATT
1 TAAAATTATT
321955 TAAAATTATT
1 TAAAATTATT
321965 TAAAAT
1 TAAAAT
321971 AAAATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
6 1 0.03
7 2 0.05
8 6 0.16
9 2 0.05
10 17 0.46
11 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAATTATT
Found at i:322593 original size:171 final size:167
Alignment explanation
Indices: 322244--322771 Score: 498
Period size: 171 Copynumber: 3.1 Consensus size: 167
322234 TTTATTATCA
* * * * *
322244 AATAAAATATATTTTTTAGATTAAAAATTAAT-AAATATTAAGTCTAAAAGAAAAACATTAATTG
1 AATAAAATATATTTATTAGATTAAAAATT-ATGAAATAATAAATCT-TAA-AAAAA-ATAAATT-
* * * * * *
322308 AA-ACTTTCGTAATAAAATACAACAGTTTTTCAAGTTAAAAAAATTAATTTTACATAATTTTATA
61 AATACTTTCATATTAAAATATAACAGTTTTT-AAGAT-AAAAAATTTATTTTATATAATTTTA-A
* *
322372 TTTTAAAAATTTTTAAATATCTA-ACATATAATTTCAAATATTTTAAT
123 TTTTAAAAA-TTTTAAATATTTATA-A-ATAATTTTAAATATTTTAAT
*
322419 AATAAAATATATTTATTAGGTTAAAAATTATGAAATAATAAATCTTAAAAAAAAGTAAATTAATA
1 AATAAAATATATTTATTAGATTAAAAATTATGAAATAATAAATCTTAAAAAAAA-TAAATTAATA
*
322484 CTTTCATATTAAAATATAACAGTTTTTAAGCGTAAAAAATTTATTTTATATAATTTTAGATTTTA
65 CTTTCATATTAAAATATAACAGTTTTTAAG-ATAAAAAATTTATTTTATATAATTTTA-ATTTTA
*
322549 AAAATTTTAAATATTTATAAGATAATTTTAGATATTTTAAT
128 AAAATTTTAAATATTTATAA-ATAATTTTAAATATTTTAAT
* ** * * * * * * **
322590 AATAAAATAAATTTACCAAATTAAAATTTTTTGAAATAATAACTCTT-AAAAATATATATTGGTA
1 AATAAAATATATTTATTAGATTAAAA-ATTATGAAATAATAAATCTTAAAAAAAATAAATTAATA
* * * *
322654 TTTTCATATTAAAATATGATA-ATTTTTTAA-ATATAAAAACTT-TTTT-TATAATTATAATTTT
65 CTTTCATATTAAAATAT-A-ACAGTTTTTAAGATA-AAAAATTTATTTTATATAATTTTAA-TTT
* * *
322715 TAATATTTTTAAATATTTATTAAA-AATTTTAAATATTTTATT
126 TAAAAATTTTAAATATTTA-TAAATAATTTTAAATATTTTAAT
322757 AATAAAATATATTTA
1 AATAAAATATATTTA
322772 CTAAAAAAAT
Statistics
Matches: 303, Mismatches: 39, Indels: 30
0.81 0.10 0.08
Matches are distributed among these distances:
167 31 0.10
168 30 0.10
169 9 0.03
170 30 0.10
171 67 0.22
172 58 0.19
173 36 0.12
174 4 0.01
175 38 0.13
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (167 bp):
AATAAAATATATTTATTAGATTAAAAATTATGAAATAATAAATCTTAAAAAAAATAAATTAATAC
TTTCATATTAAAATATAACAGTTTTTAAGATAAAAAATTTATTTTATATAATTTTAATTTTAAAA
ATTTTAAATATTTATAAATAATTTTAAATATTTTAAT
Found at i:322724 original size:9 final size:10
Alignment explanation
Indices: 322710--322753 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
322700 TATAATTATA
322710 ATTTTT-AAT
1 ATTTTTAAAT
322719 ATTTTTAAAT
1 ATTTTTAAAT
322729 ATTTATTAAA-
1 ATTT-TTAAAT
*
322739 AATTTTAAAT
1 ATTTTTAAAT
322749 ATTTT
1 ATTTT
322754 ATTAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 11 0.37
10 14 0.47
11 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:322778 original size:15 final size:14
Alignment explanation
Indices: 322760--322822 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
322750 TTTTATTAAT
322760 AAAATATATTTACTA
1 AAAATATATTTA-TA
*
322775 AAAAAATATTTATAA
1 AAAATATATTTAT-A
* *
322790 AATAATAAATTAATA
1 AA-AATATATTTATA
*
322805 AAAATATATCT-TA
1 AAAATATATTTATA
322818 AAAAT
1 AAAAT
322823 TTACGATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
13 7 0.18
14 7 0.18
15 17 0.44
16 8 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATATATTTATA
Found at i:322780 original size:17 final size:16
Alignment explanation
Indices: 322745--322785 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
322735 TAAAAATTTT
* *
322745 AAATATTTTATTAATA
1 AAATATTTTACTAAAA
322761 AAATATATTTACTAAAA
1 AAATAT-TTTACTAAAA
322778 AAATATTT
1 AAATATTT
322786 ATAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATTTTACTAAAA
Found at i:322790 original size:14 final size:15
Alignment explanation
Indices: 322745--322796 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
322735 TAAAAATTTT
*
322745 AAATATTTTATTAATAA
1 AAATA-TTTACTAA-AA
322762 AATATATTTACTAAAA
1 AA-ATATTTACTAAAA
322778 AAATATTTA-TAAAA
1 AAATATTTACTAAAA
*
322792 TAATA
1 AAATA
322797 AATTAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 9 0.28
15 7 0.22
16 4 0.12
17 9 0.28
18 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATTTACTAAAA
Found at i:322968 original size:30 final size:30
Alignment explanation
Indices: 322907--322992 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 30
322897 TCACACGAAT
* * *
322907 AAAATGATATTATTTTAATAA-ATAATTTA
1 AAAATAATATTATTTTAATAATCTATTTTA
322936 AAAATAATATTATTTTAATAATCTATTTTA
1 AAAATAATATTATTTTAATAATCTATTTTA
* * *
322966 AAATTAAAAATATTTTAAATAATCTAT
1 AAAATAATATTATTTT-AATAATCTAT
322993 AATAAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.41
30 19 0.39
31 10 0.20
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (30 bp):
AAAATAATATTATTTTAATAATCTATTTTA
Found at i:322990 original size:31 final size:30
Alignment explanation
Indices: 322917--323001 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
322907 AAAATGATAT
* * * * *
322917 TATTTTAATAA-ATAATTTAAAAATAATAT
1 TATTTTAATAATCTATTTTAAAATTAAAAA
322946 TATTTTAATAATCTATTTTAAAATTAAAAA
1 TATTTTAATAATCTATTTTAAAATTAAAAA
**
322976 TATTTTAAATAATCTATAATAAAATT
1 TATTTT-AATAATCTATTTTAAAATT
323002 TTTCTCAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 11 0.23
30 19 0.40
31 17 0.36
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
TATTTTAATAATCTATTTTAAAATTAAAAA
Found at i:325764 original size:24 final size:25
Alignment explanation
Indices: 325736--325788 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
325726 AGATTGACTT
325736 AATAAGTCAGTA-GAGTCAGCGGTA
1 AATAAGTCAGTAGGAGTCAGCGGTA
325760 AATAAGTCAGTAGTGAGTCAGCGGTA
1 AATAAGTCAGTAG-GAGTCAGCGGTA
325786 AAT
1 AAT
325789 TTGATAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 12 0.44
26 15 0.56
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (25 bp):
AATAAGTCAGTAGGAGTCAGCGGTA
Found at i:325957 original size:29 final size:32
Alignment explanation
Indices: 325907--325994 Score: 92
Period size: 34 Copynumber: 2.7 Consensus size: 32
325897 TATAAGATAT
* *
325907 ATATAAAATCAATTTATTTATATTTAT-A-TAAA
1 ATAT-AAATTAATTT-TATATATTTATAATTAAA
325939 AT-TAAATTAATTTTATATATTTTTATAATTAAA
1 ATATAAATTAATTTTATATA--TTTATAATTAAA
*
325972 ATATAAATTAATTTTAAATATTT
1 ATATAAATTAATTTTATATATTT
325995 TTTATATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
29 5 0.10
30 9 0.19
31 6 0.12
32 6 0.12
33 6 0.12
34 16 0.33
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
ATATAAATTAATTTTATATATTTATAATTAAA
Found at i:325984 original size:34 final size:31
Alignment explanation
Indices: 325919--326001 Score: 103
Period size: 34 Copynumber: 2.5 Consensus size: 31
325909 ATAAAATCAA
* *
325919 TTTATTTATATTTATATAAAATTAAATTAAT
1 TTTATATATTTTTATATAAAATTAAATTAAT
325950 TTTATATATTTTTATAATTAAAATATAAATTAAT
1 TTTATATATTTTTAT-A-TAAAAT-TAAATTAAT
*
325984 TTTAAATATTTTTTATAT
1 TTTATATA-TTTTTATAT
326002 GAATTATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 13 0.29
32 1 0.02
33 7 0.16
34 17 0.38
35 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTATATATTTTTATATAAAATTAAATTAAT
Found at i:329399 original size:17 final size:17
Alignment explanation
Indices: 329379--329412 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
329369 TATTTATAGC
* *
329379 TTAAGAGTTATTATGAT
1 TTAAGAGGTATAATGAT
329396 TTAAGAGGTATAATGAT
1 TTAAGAGGTATAATGAT
329413 GGTTAATAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (17 bp):
TTAAGAGGTATAATGAT
Found at i:329849 original size:16 final size:16
Alignment explanation
Indices: 329830--329882 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
329820 AGCCATTCTA
* *
329830 AATAATAGTTGTTTTT
1 AATATTAGTTGTTTTG
*
329846 AATATTAGCTGTTTTG
1 AATATTAGTTGTTTTG
329862 AATATTAGTTGTTCTTG
1 AATATTAGTTGTT-TTG
329879 AATA
1 AATA
329883 AGGTGTTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 25 0.78
17 7 0.22
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (16 bp):
AATATTAGTTGTTTTG
Found at i:331579 original size:178 final size:178
Alignment explanation
Indices: 331280--331640 Score: 686
Period size: 178 Copynumber: 2.0 Consensus size: 178
331270 AATGCCTTGA
* *
331280 AAAAAGAATTCAGGATAATTCATTAGTTTTGAGCAATATCGGCAACAAGGAATAGCATTGCGCTA
1 AAAAAGAATTCAGGATAATTCATTAGTTTTGAGCAATATCGACAACAAGGAATAGCATTGCACTA
*
331345 TCCACTTTTCAAAATTTATTTCAAACTTATCTTGAGGTCTTAGGTAGCAGGTGAGGTGCCATTGG
66 TCCACTTTTCAAAATTTATTTCAAACTTATCTTGAGGTCTTAGGTAGCAGGTGAGGTACCATTGG
331410 AAAGGTAACTCAATGGGGATTAATATAAAAATATAAAAAAAATCTCAC
131 AAAGGTAACTCAATGGGGATTAATATAAAAATATAAAAAAAATCTCAC
331458 AAAAAGAATTCAGGATAATTCATTAGTTTTGAGCAATATCGACAACAAGGAATAGCATTGCACTA
1 AAAAAGAATTCAGGATAATTCATTAGTTTTGAGCAATATCGACAACAAGGAATAGCATTGCACTA
331523 TCCACTTTTCAAAATTTATTTCAAACTTATCTTGAGGTCTTAGGTAGCAGGTGAGGTACCATTGG
66 TCCACTTTTCAAAATTTATTTCAAACTTATCTTGAGGTCTTAGGTAGCAGGTGAGGTACCATTGG
*
331588 AAAGGTAGCTCAATGGGGATTAATATAAAAATATAAAAAAAATCTCAC
131 AAAGGTAACTCAATGGGGATTAATATAAAAATATAAAAAAAATCTCAC
331636 AAAAA
1 AAAAA
331641 TTTCTTCTAG
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (178 bp):
AAAAAGAATTCAGGATAATTCATTAGTTTTGAGCAATATCGACAACAAGGAATAGCATTGCACTA
TCCACTTTTCAAAATTTATTTCAAACTTATCTTGAGGTCTTAGGTAGCAGGTGAGGTACCATTGG
AAAGGTAACTCAATGGGGATTAATATAAAAATATAAAAAAAATCTCAC
Found at i:332616 original size:19 final size:19
Alignment explanation
Indices: 332588--332644 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
332578 ATGCTTTGAT
* * *
332588 ACATTTTATCAATACATGT
1 ACATTGTATCGATACATGG
*
332607 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
332626 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
332645 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:332717 original size:33 final size:33
Alignment explanation
Indices: 332674--332736 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
332664 TACCACTATT
*
332674 TGTATCGATACATGGT-ACATTGTATCGATATAA
1 TGTATCGATACATGATGA-ATTGTATCGATATAA
*
332707 TGTATTGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGATGAATTGTATCGATA
332737 CATTACTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATATAA
Found at i:335674 original size:79 final size:79
Alignment explanation
Indices: 335543--335712 Score: 232
Period size: 79 Copynumber: 2.2 Consensus size: 79
335533 ACGACGGGGC
* * * * * *
335543 TGGAGTACCCCTGATTATGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCTAATTATAGAAAATCGATGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTA
** *
335608 GGAAATAATAGGGT
66 AAAAATAACAGGGT
* *
335622 TGGAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTA
1 TGGAGTATCCCTAATTATAGAAAATCGATGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTA
*
335687 AAAAATAACGGGGT
66 AAAAATAACAGGGT
335701 TGGAGTATCCCT
1 TGGAGTATCCCT
335713 GCGAAAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATCGATGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTA
AAAAATAACAGGGT
Found at i:335703 original size:28 final size:29
Alignment explanation
Indices: 335667--335740 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
335657 AAAATAAAAT
335667 CAGGGTTGGAGTATCCCCT-AAAAAATAA
1 CAGGGTTGGAGTATCCCCTGAAAAAATAA
* **
335695 CGGGGTTGGAGTAT-CCCTGCGAAAATAA
1 CAGGGTTGGAGTATCCCCTGAAAAAATAA
335723 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
335741 GATTGTGAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.10
28 33 0.82
29 3 0.08
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (29 bp):
CAGGGTTGGAGTATCCCCTGAAAAAATAA
Found at i:335778 original size:79 final size:78
Alignment explanation
Indices: 335695--335867 Score: 283
Period size: 79 Copynumber: 2.2 Consensus size: 78
335685 TAAAAAATAA
335695 CGGGGTTGGAGTATCCCTGCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCT-CGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
335760 TTTAGGAATAAAAC
65 TTTAGGAATAAAAC
* *
335774 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTAT-CCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
335839 TTTAGGAATAAAAT
65 TTTAGGAATAAAAC
* *
335853 CGGAGTTAGAGTATC
1 CGGGGTTGGAGTATC
335868 TCCGATTATA
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
78 1 0.01
79 83 0.94
80 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
TTAGGAATAAAAC
Found at i:335900 original size:51 final size:51
Alignment explanation
Indices: 335845--336038 Score: 248
Period size: 51 Copynumber: 3.8 Consensus size: 51
335835 ATATTTTAGG
* *
335845 AATAAAATCGGAGTTAGAGTATCTCCGATTAT-ATAAAATTGGTGTTTTGAA
1 AATAAAATCGGAGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGAA
* * * *
335896 AATAAAATCGGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTCGAA
1 AATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAA
* * *
335947 AATAAAATTGGAGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAA
1 AATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAA
* * *
335999 AA-AAAACCGGGGTTGGAGTACCCCCGATTATGAAAAATTG
1 AATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATTG
336039 AGAAACTTAA
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
51 118 0.95
52 6 0.05
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (51 bp):
AATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAA
Found at i:335951 original size:102 final size:102
Alignment explanation
Indices: 335845--336038 Score: 275
Period size: 102 Copynumber: 1.9 Consensus size: 102
335835 ATATTTTAGG
* * *
335845 AATAAAATCGGAGTTAGAGTATCTCCGATTAT-ATAAAATTGGTGTTTT-GAAAATAAAATCGGG
1 AATAAAATCGGAGTTAGAGTATCCCCGATTATGA-AAAATTAGTGTTTTAGAAAA-AAAACCGGG
* * *
335908 GTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTCGAA
64 GTTGGAGTACCCCCGATTATGAAAAATTGGTGTTTCGAA
* * *
335947 AATAAAATTGGAGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAAAAAAACCGGGGT
1 AATAAAATCGGAGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAAAAAAACCGGGGT
336012 TGGAGTACCCCCGATTATGAAAAATTG
66 TGGAGTACCCCCGATTATGAAAAATTG
336039 AGAAACTTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 75 0.93
103 6 0.07
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (102 bp):
AATAAAATCGGAGTTAGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAAAAAAACCGGGGT
TGGAGTACCCCCGATTATGAAAAATTGGTGTTTCGAA
Found at i:338359 original size:20 final size:20
Alignment explanation
Indices: 338334--338388 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
338324 AAAATGCCTC
338334 AATGTATCGATACATTGTA-A
1 AATGTATCGATACATTG-AGA
* * *
338354 AATGTATTGATACAATGAGC
1 AATGTATCGATACATTGAGA
338374 AATGTATCGATACAT
1 AATGTATCGATACAT
338389 CTGGGTAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAGA
Found at i:338430 original size:20 final size:20
Alignment explanation
Indices: 338405--338459 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
338395 AAACCTCCTA
338405 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
338425 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
338445 GATGTATCGATACAA
1 GATGTATCGATACAA
338460 TGTATCGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
GATGTATCGATACAAAGATC
Found at i:338464 original size:13 final size:13
Alignment explanation
Indices: 338446--338471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
338436 ACAAAGATCG
338446 ATGTATCGATACA
1 ATGTATCGATACA
338459 ATGTATCGATACA
1 ATGTATCGATACA
338472 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:339400 original size:42 final size:42
Alignment explanation
Indices: 339344--339443 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
339334 TCCATTTTTC
* * * *
339344 GAGGATAAAGGAAAAAGGGAAACGAAA-TACGTCCTGCTCTCT
1 GAGGACAAAAGAAAAA-GGAAAAGAAAGTACGTCCTACTCTCT
* * * *
339386 GAGGACACAAGAAAAAGGAAAATAAAGTGCGTCCTACTCTTT
1 GAGGACAAAAGAAAAAGGAAAAGAAAGTACGTCCTACTCTCT
339428 GAGGACAAAAGAAAAA
1 GAGGACAAAAGAAAAA
339444 AGAAGGGAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 8 0.17
42 40 0.83
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (42 bp):
GAGGACAAAAGAAAAAGGAAAAGAAAGTACGTCCTACTCTCT
Found at i:339686 original size:122 final size:122
Alignment explanation
Indices: 339469--339691 Score: 351
Period size: 122 Copynumber: 1.8 Consensus size: 122
339459 GTGTCCTACT
* *
339469 CTTTGAGGACTGAAAATTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTT
1 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTT
*
339534 GAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATTCTGCC
66 GAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATTCTGCC
* * *
339591 CTTTGAGGACTGAAAAGTGCTACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTACTCTT
1 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCGTCCTACTCTT
*
339655 TGAGGACT-GAAAAGTGCCACCAGCTTGTGTGGGCTTT
65 TGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT
339692 AAAAGGCATC
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
121 5 0.05
122 87 0.95
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (122 bp):
CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTT
GAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATTCTGCC
Found at i:339697 original size:61 final size:61
Alignment explanation
Indices: 339461--339696 Score: 309
Period size: 61 Copynumber: 3.9 Consensus size: 61
339451 AAGGAAGTGT
* * *
339461 GTCCTACTCTTTGAGGACTGAAAATTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
* * *
339522 GTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGC
1 GTCCTACTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGC
* * * * *
339583 ATTCTGCCCTTTGAGGACTGAAAAGTGCTACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGC
*
339644 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTT-AAAAG
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
339697 GCATCCTGCT
Statistics
Matches: 152, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
59 4 0.03
60 2 0.01
61 141 0.93
62 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
Found at i:339788 original size:154 final size:155
Alignment explanation
Indices: 339586--340004 Score: 646
Period size: 154 Copynumber: 2.7 Consensus size: 155
339576 AGAAAGCATT
* *
339586 CTGCCCTTTGAGGACT-GAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTA
1 CTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTA
*
339650 CTCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGG
65 CTCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGG
*
339715 ACC-AAAGGCAAAAGGAGAGAATGTC
130 ACCAAAAGGCAAAAGGAGAGAACGTC
* **
339740 CTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTTCTGT
1 CTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTAC
* * *
339805 TCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGTTTTGAAAGGCATCTTGCTCTTTGAGGA
66 TCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGA
* *
339869 CCAAAAGGCGAAAGGAGAGAGCGTC
131 CCAAAAGGCAAAAGGAGAGAACGTC
* * *
339894 CTGCTCTTTGAGAACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTAC
1 CTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTAC
* * *
339959 TCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
66 TCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTTGAAAG
340005 AAAAGGCATC
Statistics
Matches: 239, Mismatches: 23, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
153 49 0.21
154 161 0.67
155 29 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (155 bp):
CTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTAC
TCTTTGAGGACTGAAAAGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGA
CCAAAAGGCAAAAGGAGAGAACGTC
Found at i:340155 original size:55 final size:55
Alignment explanation
Indices: 339892--340603 Score: 906
Period size: 55 Copynumber: 12.4 Consensus size: 55
339882 GGAGAGAGCG
* * *
339892 TCCTGCTCTTTGAGAACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCA
* * *
339953 TCCTACTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCA
* * * *
340013 TCTTGCTCCTCGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCA
* *
340074 TCTTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* *
340129 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* *
340184 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAATGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
340239 TCCTACTCTTTGAGGACTGGAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
340294 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
340349 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCA
340410 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
340465 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
340520 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGTTTTAAAAGTAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-A-AAGGCA
340581 TCCTGCTCTTTGAGGACT-GAAAA
1 TCCTGCTCTTTGAGGACTGGAAAA
340604 GTGAAAGGAG
Statistics
Matches: 589, Mismatches: 43, Indels: 39
0.88 0.06 0.06
Matches are distributed among these distances:
55 353 0.60
56 10 0.02
60 65 0.11
61 161 0.27
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:340367 original size:336 final size:340
Alignment explanation
Indices: 339892--340562 Score: 1082
Period size: 336 Copynumber: 2.0 Consensus size: 340
339882 GGAGAGAGCG
* * *
339892 TCCTGCTCTTTGAGAACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCT
1 TCCTACTCTTTGAGAACTAGGAAATGCCACAAACTTGTGTGGGCTTT---A-GAGAAGGCGTCCT
* *
339957 ACTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCATCTTGCTCC
62 ACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT---AGAAAAGGCATCCTGCTCC
*
340022 TCGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCTTGCTCTTTGA
124 TCGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGA
* *
340087 GGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAA
189 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAGAAA
340152 ATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAA
254 ATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAA
340217 CTTGTGTGGGCTTTGAAATGCA
319 CTTGTGTGGGCTTTGAAATGCA
* *
340239 TCCTACTCTTTGAGGACT-GGAAAATGCCACAAACTTGTGTGGGCTTT-GA-AAGGCGTCCTGCT
1 TCCTACTCTTTGAGAACTAGG-AAATGCCACAAACTTGTGTGGGCTTTAGAGAAGGCGTCCTACT
* * *
340301 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-G-AAAGGCATCCTGCTCTTTGAGG
65 CTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCCTCGAGG
* *
340364 ACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
130 ACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
340429 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCA
195 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCA
* *
340494 CCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTG
260 CCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTG
340559 TGGG
325 TGGG
340563 TTTTAAAAGT
Statistics
Matches: 306, Mismatches: 17, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
336 211 0.69
337 1 0.00
341 50 0.16
342 2 0.01
346 2 0.01
347 40 0.13
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (340 bp):
TCCTACTCTTTGAGAACTAGGAAATGCCACAAACTTGTGTGGGCTTTAGAGAAGGCGTCCTACTC
TTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCCTCGAGGA
CTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGG
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCAC
CAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGT
GGGCTTTGAAATGCA
Found at i:340460 original size:28 final size:28
Alignment explanation
Indices: 340429--340515 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 28
340419 TTGAGGACTG
340429 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** * * * *
340457 G-AAA-GGCATCCTGCTCTTTGAGGAC-TA
1 GAAAATGCCA-CCAACT-TGTGTGGGCTTT
340484 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
340512 -AAAA
1 GAAAA
340516 GGCGTCCTGC
Statistics
Matches: 40, Mismatches: 14, Indels: 11
0.62 0.22 0.17
Matches are distributed among these distances:
26 3 0.08
27 19 0.47
28 15 0.38
29 3 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:341568 original size:1 final size:1
Alignment explanation
Indices: 341562--341632 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
341552 GCAGATTCTC
* * * * * * * * *
341562 TTTTTTTCTCTTTTTTCTTTATTTTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTGTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
341627 TTTTTT
1 TTTTTT
341633 GAAAAAAAAA
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.01, C:0.04, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:341586 original size:11 final size:11
Alignment explanation
Indices: 341562--341632 Score: 81
Period size: 11 Copynumber: 6.5 Consensus size: 11
341552 GCAGATTCTC
* *
341562 TTTTTTTCTCT
1 TTTTTTTTTGT
* *
341573 TTTTTCTTTAT
1 TTTTTTTTTGT
341584 TTTTTTTTTGT
1 TTTTTTTTTGT
341595 TTTTTTTTTGT
1 TTTTTTTTTGT
*
341606 TTTTTTGTT-T
1 TTTTTTTTTGT
*
341616 TTTTTTGTTGT
1 TTTTTTTTTGT
341627 TTTTTT
1 TTTTTT
341633 GAAAAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
10 10 0.19
11 43 0.81
ACGTcount: A:0.01, C:0.04, G:0.07, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:341597 original size:21 final size:19
Alignment explanation
Indices: 341586--341633 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 19
341576 TTCTTTATTT
341586 TTTTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
341605 TTTTTTTGTTTTTTTTTGTTG
1 TTTTTTTG-TTTTTTTT-TTG
341626 TTTTTTTG
1 TTTTTTTG
341634 AAAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTTTG
Found at i:348312 original size:1 final size:1
Alignment explanation
Indices: 348306--348350 Score: 63
Period size: 1 Copynumber: 45.0 Consensus size: 1
348296 AAGTGTTTGG
***
348306 AAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
348351 TTTAAATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.93, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:348379 original size:21 final size:21
Alignment explanation
Indices: 348355--348411 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
348345 AAAAAATTTA
348355 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
348376 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
348397 AATGTATCGATACAT
1 AATGTATCGATACAT
348412 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:348491 original size:19 final size:19
Alignment explanation
Indices: 348467--348534 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
348457 AATTCAACAA
348467 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
348486 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
348501 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
348518 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
348535 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:348506 original size:13 final size:13
Alignment explanation
Indices: 348488--348512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
348478 ACATAAGTTT
348488 TGTATCGATACAA
1 TGTATCGATACAA
348501 TGTATCGATACA
1 TGTATCGATACA
348513 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:348510 original size:32 final size:32
Alignment explanation
Indices: 348469--348531 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
348459 TTCAACAATT
*
348469 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
348501 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
348532 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:348592 original size:13 final size:13
Alignment explanation
Indices: 348574--348599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
348564 CATTTTTCTG
348574 TGTATCGATACAT
1 TGTATCGATACAT
348587 TGTATCGATACAT
1 TGTATCGATACAT
348600 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:348596 original size:33 final size:33
Alignment explanation
Indices: 348554--348620 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
348544 GCCAAGGAAA
***
348554 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
348587 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
348620 T
1 T
348621 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:351150 original size:28 final size:27
Alignment explanation
Indices: 351083--351155 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
351073 CTTCACAATC
* *
351083 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
351110 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
351138 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
351156 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:351200 original size:51 final size:51
Alignment explanation
Indices: 351138--351308 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
351128 TTATTTCTGA
* * *
351138 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
351189 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
351242 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
351294 GAGGATACTCCAACC
1 GGGGATACTCCAACC
351309 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:351327 original size:28 final size:28
Alignment explanation
Indices: 351291--351372 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
351281 ATTTTTCACA
*
351291 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
351319 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
351347 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
351373 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:363779 original size:1 final size:1
Alignment explanation
Indices: 363773--363847 Score: 96
Period size: 1 Copynumber: 75.0 Consensus size: 1
363763 CCTTCTCTTC
* * * * *
363773 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAACAAAAAACAAAAAAAAAAGAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
363838 AAAGAAAAAA
1 AAAAAAAAAA
363848 CCTACTTAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.92, C:0.04, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:364898 original size:55 final size:55
Alignment explanation
Indices: 364813--365984 Score: 1743
Period size: 55 Copynumber: 21.3 Consensus size: 55
364803 TCCGCTTTTT
*
364813 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
364868 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
364923 AGTCCTCAACGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
364978 AGTCCCCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTTC
* *
365034 AGTCCCCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
365090 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCGCC-TTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
365144 TAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
365200 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
365254 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
365309 AGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
365364 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
365419 AGTCCCCAAAGAGCAGGACACCTCTC-AAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
365474 AGTCC-CAAAGAGCAGGACACC--TCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
365527 AGTCCTCAAAGAGCAGGACACCTCTTTAAAGCCCACACAAG-TGGTGGCGCCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
365582 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
365637 AATCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
365692 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
365747 AGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
365802 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
365857 ATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
365912 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
365967 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
365985 TACAATTTAT
Statistics
Matches: 1047, Mismatches: 43, Indels: 54
0.92 0.04 0.05
Matches are distributed among these distances:
52 2 0.00
53 34 0.03
54 144 0.14
55 718 0.69
56 133 0.13
57 16 0.02
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:365056 original size:27 final size:26
Alignment explanation
Indices: 364970--365056 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
364960 AAGTTGGTGG
364970 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * **
364996 CACCTCTCAAAG-CCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCC-CA-AAG-AGCAGGA
365025 CACCTTTTCAGTCCCCAAAGAGCAGGA
1 CACC-TTTCAGTCCCCAAAGAGCAGGA
365052 CACCT
1 CACCT
365057 CTCAAAGCCC
Statistics
Matches: 45, Mismatches: 8, Indels: 16
0.65 0.12 0.23
Matches are distributed among these distances:
26 11 0.24
27 10 0.22
28 8 0.18
29 10 0.22
30 6 0.13
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:365222 original size:26 final size:26
Alignment explanation
Indices: 365192--365280 Score: 65
Period size: 26 Copynumber: 3.3 Consensus size: 26
365182 AAGTTGGTGG
365192 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
* * * * **
365218 CACCTCTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCTCA-AAG-AGCAGGA
*
365247 CA-TTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
365272 CACCTTTCA
1 CACCTTTCA
365281 AAGCCCACAC
Statistics
Matches: 43, Mismatches: 14, Indels: 12
0.62 0.20 0.17
Matches are distributed among these distances:
24 3 0.07
25 5 0.12
26 18 0.42
28 9 0.21
29 5 0.12
30 3 0.07
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (26 bp):
CACCTTTCAGTCCTCAAAGAGCAGGA
Found at i:365495 original size:26 final size:26
Alignment explanation
Indices: 365411--365495 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
365401 AAGTTGGTGG
365411 CACCTTT-CAGTCCCCAAAGAGCAGGA
1 CACCTTTCCAGT-CCCAAAGAGCAGGA
* * * * **
365437 CACCTCTCAAGCCCACACAAGTTGGTGG-
1 CACCTTTCCAGTCC-CA-AAG-AGCAGGA
365465 CACCTTTCCAGTCCCAAAGAGCAGGA
1 CACCTTTCCAGTCCCAAAGAGCAGGA
365491 CACCT
1 CACCT
365496 CAAAGCCCAC
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
25 3 0.07
26 16 0.38
27 6 0.14
28 14 0.33
29 3 0.07
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.16
Consensus pattern (26 bp):
CACCTTTCCAGTCCCAAAGAGCAGGA
Found at i:365912 original size:29 final size:29
Alignment explanation
Indices: 365765--365912 Score: 71
Period size: 29 Copynumber: 5.3 Consensus size: 29
365755 AAGAACAGGA
*
365765 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
* * * * * * *
365794 CA-TTTTC-CAGTCCTCA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
365820 CACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACCT-TTCAAAGCCCACACAAGTGGGTGG
** * * *
365849 CACCTTTC-ATTCCC-CA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
365875 CACTTTTCAAAGCCCACACAAGTGGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
365904 CACCTTTCA
1 CACCTTTCA
365913 GTCCTCAAAG
Statistics
Matches: 78, Mismatches: 29, Indels: 24
0.60 0.22 0.18
Matches are distributed among these distances:
26 17 0.22
27 15 0.19
28 22 0.28
29 24 0.31
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTGGGTGG
Found at i:366587 original size:1 final size:1
Alignment explanation
Indices: 366581--366624 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
366571 AAAGTGTTTG
***
366581 AAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
366625 TTTAAATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.93, C:0.00, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:366601 original size:18 final size:18
Alignment explanation
Indices: 366578--366624 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
366568 GATAAAGTGT
366578 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
366596 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
366614 ---AAAAAAAAAAA
1 TTGAAAAAAAAAAA
366625 TTTAAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.38
18 18 0.62
ACGTcount: A:0.87, C:0.00, G:0.04, T:0.09
Consensus pattern (18 bp):
TTGAAAAAAAAAAAAAAA
Found at i:366653 original size:21 final size:21
Alignment explanation
Indices: 366629--366685 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
366619 AAAAAATTTA
366629 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
366650 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
366671 AATGTATCGATACAT
1 AATGTATCGATACAT
366686 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:366765 original size:19 final size:19
Alignment explanation
Indices: 366741--366808 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
366731 AATTCAACAA
366741 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
366760 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
366775 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
366792 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
366809 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:366780 original size:13 final size:13
Alignment explanation
Indices: 366762--366786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
366752 ACATAAGTTT
366762 TGTATCGATACAA
1 TGTATCGATACAA
366775 TGTATCGATACA
1 TGTATCGATACA
366787 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:366784 original size:32 final size:32
Alignment explanation
Indices: 366743--366805 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
366733 TTCAACAATT
*
366743 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
366775 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
366806 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:366866 original size:13 final size:13
Alignment explanation
Indices: 366848--366873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
366838 CATTTTTCTG
366848 TGTATCGATACAT
1 TGTATCGATACAT
366861 TGTATCGATACAT
1 TGTATCGATACAT
366874 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:366870 original size:33 final size:33
Alignment explanation
Indices: 366828--366894 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
366818 GCCAAGGAAA
***
366828 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
366861 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
366894 T
1 T
366895 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:369414 original size:28 final size:27
Alignment explanation
Indices: 369347--369419 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
369337 CTTCACAATC
* *
369347 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
369374 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
369402 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
369420 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:369464 original size:51 final size:51
Alignment explanation
Indices: 369402--369572 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
369392 TTATTTCTGA
* * *
369402 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
369453 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
369506 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
369558 GAGGATACTCCAACC
1 GGGGATACTCCAACC
369573 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:369591 original size:28 final size:28
Alignment explanation
Indices: 369555--369636 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
369545 ATTTTTCACA
*
369555 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
369583 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
369611 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
369637 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:374418 original size:4 final size:4
Alignment explanation
Indices: 374402--374438 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
374392 AAAACAAAAC
*
374402 AAAT AAAT CAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
374439 CCTCAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:376640 original size:79 final size:79
Alignment explanation
Indices: 376508--376677 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 79
376498 ACGACGGGGC
* * * *
376508 TGGAGTACCCCTGATTATGGAAAATCGGTGTTCTGAAAATAAAATCGGAGTTGGAGTATCCCCTT
1 TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATCGGAGTTGGAGTATCCCCTA
**
376573 GGAAATAACAAGGT
66 AAAAATAACAAGGT
* *
376587 TGGAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGG-GTTGGAGTATCCCCT
1 TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATC-GGAGTTGGAGTATCCCCT
**
376651 AAAAAATAATGAGGT
65 AAAAAATAACAAGGT
376666 TGGAGTATCCCT
1 TGGAGTATCCCT
376678 GCGAAAATAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 78 0.98
80 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAATAAAATCGGAGTTGGAGTATCCCCTA
AAAAATAACAAGGT
Found at i:376669 original size:28 final size:29
Alignment explanation
Indices: 376635--376705 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
376625 ATAAAATCAG
*
376635 GGTTGGAGTATCCCCT-AAAAAATAATGA
1 GGTTGGAGTATCCCCTGAAAAAATAACGA
** *
376663 GGTTGGAGTAT-CCCTGCGAAAATAACGG
1 GGTTGGAGTATCCCCTGAAAAAATAACGA
376691 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
376706 GATTGTGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.11
28 30 0.81
29 3 0.08
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (29 bp):
GGTTGGAGTATCCCCTGAAAAAATAACGA
Found at i:376746 original size:79 final size:78
Alignment explanation
Indices: 376663--376834 Score: 290
Period size: 79 Copynumber: 2.2 Consensus size: 78
376653 AAAATAATGA
376663 GGTTGGAGTATCCCTGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
1 GGTTGGAGTATCCCT-CGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
376728 AGGAATAAAACCGG
65 AGGAATAAAACCGG
*
376742 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
1 GGTTGGAGTAT-CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
*
376807 AGGAATAAAATCGG
65 AGGAATAAAACCGG
* *
376821 AGTTAGAGTATCCC
1 GGTTGGAGTATCCC
376835 CGATTATAGA
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
78 3 0.03
79 81 0.92
80 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (78 bp):
GGTTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
GGAATAAAACCGG
Found at i:376916 original size:102 final size:102
Alignment explanation
Indices: 376810--377003 Score: 291
Period size: 102 Copynumber: 1.9 Consensus size: 102
376800 ATATTTTAGG
* * *
376810 AATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAATCGGGG
1 AATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTAG-AAATAAAACCGAGG
* * *
376874 TTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTCGAA
65 TTGGACTACCCTCGATTATGAAAAATTGGTGTTTCGAA
* * *
376912 AATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGAGGT
1 AATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTAGAAATAAAACCGAGGT
376977 TGGACTACCCTCGATTATGAAAAATTG
66 TGGACTACCCTCGATTATGAAAAATTG
377004 AGAAACTTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 81 0.99
103 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (102 bp):
AATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTAGAAATAAAACCGAGGT
TGGACTACCCTCGATTATGAAAAATTGGTGTTTCGAA
Found at i:376966 original size:51 final size:52
Alignment explanation
Indices: 376771--376969 Score: 237
Period size: 51 Copynumber: 3.9 Consensus size: 52
376761 AAATAACGGG
* * * *
376771 GTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAG-GAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTTAGAAAATAAAATCGGA
* * * * *
376822 GTTAGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCGGA
* * * *
376873 GTTGGAGTATCCTCGATTGTGAAAAATTGGTG-TTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCGGA
376924 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG-AAATAAAA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAA
376970 CCGAGGTTGG
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
50 4 0.03
51 116 0.92
52 6 0.05
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCGGA
Found at i:376979 original size:51 final size:51
Alignment explanation
Indices: 376769--377002 Score: 228
Period size: 51 Copynumber: 4.6 Consensus size: 51
376759 GGAAATAACG
* * * *
376769 GGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAG-GAATAAAATC
1 GGGTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTTAGAAAATAAAATC
* * * *
376819 GGAGTTAGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAATC
1 GG-GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATC
* * * *
376870 GGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTG-TTTCGAAAATAAAATC
1 -GGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATC
*
376921 GGAGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG-AAATAAAACC
1 GG-GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATC
* * *
376972 GAGGTTGGACTA-CCCTCGATTATGAAAAATT
1 G-GGTTGGAGTATCCC-CGATTGTGGAAAATT
377003 GAGAAACTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
50 11 0.07
51 135 0.87
52 9 0.06
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATC
Found at i:380512 original size:121 final size:121
Alignment explanation
Indices: 380364--380584 Score: 347
Period size: 121 Copynumber: 1.8 Consensus size: 121
380354 GTGTCCTACT
*
380364 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGACGTCTTGCCCTT
1 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGACGTCCTGCCCTT
380428 TGAGGACTGGAAGGTGCCACCAACTTGTGT-GGCTTTGCAAAAAGAAAGCATCCTGCC
65 TGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCC
* * * *
380485 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTT
1 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCCCTTT
**
380550 GAGGACTGAAGGTGCCACCGGCTTGTGTGGGCTTT
66 GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT
380585 AAAAGGAATC
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
120 23 0.25
121 68 0.75
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (121 bp):
CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCCCTTT
GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCC
Found at i:380591 original size:60 final size:61
Alignment explanation
Indices: 380364--380589 Score: 291
Period size: 60 Copynumber: 3.8 Consensus size: 61
380354 GTGTCCTACT
* * * *
380364 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGACGTCTTGCC
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCTGCC
* * * *
380425 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGT-GGCTTTGCAAAA-AGAAAGCATCCTGCC
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGCGTCCTGCC
*
380485 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTGCT
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGCGTCCTGCC
* **
380546 CTTTGAGGACTG-AAGGTGCCACCGGCTTGTGTGGGCTTT-AAAAG
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
380590 GAATCATGCT
Statistics
Matches: 145, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
59 5 0.03
60 76 0.52
61 64 0.44
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (61 bp):
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCTGCC
Found at i:380696 original size:61 final size:60
Alignment explanation
Indices: 380619--380744 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
380609 CAAAAAGGTG
*
380619 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACT--GAATGCGCCACCAACTTGTGTGGGCTTTA
* * *
380680 AAAGGAGA-AGGCGTCCTTCTCTTTGAGGACTGAATGCGCCACCAGCTTGTGTGGGCTTTG
1 AAAGGAGAGA-GCGTCCTGCTCTTTGAGGACTGAATGCGCCACCAACTTGTGTGGGCTTTA
380740 AAAGG
1 AAAGG
380745 CATCCTGCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
59 3 0.05
60 28 0.47
61 28 0.47
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (60 bp):
AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAATGCGCCACCAACTTGTGTGGGCTTTA
Found at i:380758 original size:154 final size:154
Alignment explanation
Indices: 380478--381564 Score: 805
Period size: 165 Copynumber: 6.7 Consensus size: 154
380468 AAAGAAAGCA
* *
380478 TCCTGCCCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
** ** * * *
380543 GCTCTTTGAGGACT-GAAGGTGCCACCGGCTTGTGTGGGCTTTAAAAGGAATCATGCTCTTTGAG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
**
380607 GACAAAAAGGTGAAAGGAGAGAGCG
130 GACAAAAAGGCAAAAGGAGAGAGCG
380632 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
* *** *
380697 TCTCTTTGAGGACT-GAATGCGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
*
380761 GATAAAAAGGCAAAAGGAGAGAGCG
130 GACAAAAAGGCAAAAGGAGAGAGCG
*
380786 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
*
380851 GCTCTTTGAAGG-CTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
65 GCTCTTTG-AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
* * * *
380915 GGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
129 GGAC--AAAAA-GGCA--AA----AG-GAG-----AGA-GCG
* * *
380957 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-----GA-AAGGCATCCT
1 TCCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
381016 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
* * * * *
381081 GACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
130 GAC--AAAAA-GGCA--AA-------AGG---AGAGA-GCG
* * * * *
381122 TCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCATCC
1 TCCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCC
* * * * *
381186 TACTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCATCATACTCTTTAA
64 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
* * * * *
381251 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
129 GGAC---AAAAAGGCA--AA----AG-GAG-----AGA-GCG
* *
381293 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTT-----GA-AAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
* * * * * *
381352 ACTTTTTGAGGACTAGAAAATGCCACCAAATTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGGG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
* * * * * *
381417 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
130 GAC---AAAAAGGCA--AA-------AGG---AGAGA-GCG
*
381458 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAA--AG-A--CGTCCT
1 TCCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
*
381517 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
381565 TAGAAGGCGT
Statistics
Matches: 807, Mismatches: 76, Indels: 89
0.83 0.08 0.09
Matches are distributed among these distances:
154 213 0.26
155 51 0.06
157 5 0.01
158 3 0.00
160 2 0.00
164 4 0.00
165 324 0.40
166 5 0.01
167 4 0.00
168 6 0.01
169 1 0.00
170 8 0.01
171 176 0.22
172 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (154 bp):
TCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGG
ACAAAAAGGCAAAAGGAGAGAGCG
Found at i:380926 original size:55 final size:55
Alignment explanation
Indices: 380783--381596 Score: 1175
Period size: 55 Copynumber: 14.5 Consensus size: 55
380773 AAAGGAGAGA
*
380783 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAG
380844 GCGTCCTGCTCTTTGAAGG-CTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTG-AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* *
380899 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
*
380954 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
*
381009 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* *
381064 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* *
381119 GCATCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG
* * *
381175 AAAAAGCATCCTACTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAG
1 -----GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * *
381235 GCATCATACTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
*
381290 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * *
381345 GCGTCCTACTTTTTGAGGACTAGAAAATGCCACCAAATTGTGTGGGCTTTGAAAA
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* *
381400 GCATCCTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* *
381455 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
*
381510 ACGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGTAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-A-AAG
381571 GCGTCCTGCTCTTTGAGGACT-GAAAA
1 GCGTCCTGCTCTTTGAGGACTGGAAAA
381597 GTGAAAGGAG
Statistics
Matches: 695, Mismatches: 43, Indels: 31
0.90 0.06 0.04
Matches are distributed among these distances:
54 3 0.00
55 558 0.80
56 6 0.01
60 12 0.02
61 113 0.16
62 3 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:381231 original size:336 final size:335
Alignment explanation
Indices: 380786--381596 Score: 1285
Period size: 336 Copynumber: 2.4 Consensus size: 335
380776 GGAGAGAGCG
* * *
380786 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAGCGTCC
380850 TGCTCTTTGAAGG-CTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
64 TGCTCTTTG-AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
380914 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAA
128 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAA
* * * *
380979 AATGCCACTAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCA
193 AATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAGAAAATGCCACCA
* *
381044 ACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGG
258 AATTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGG
381109 GCTTTGAAAGGCA
323 GCTTTGAAAGGCA
* *
381122 TCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAGCGTCCT
* * * * * *
381187 ACTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCATCATACTCTTTAAG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
*
381252 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
130 GACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
* *
381317 TGCCACCAACTTATGTGGGCTTTGAAAGGCGTCCTACTTTTTGAGGACTAGAAAATGCCACCAAA
195 TGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAGAAAATGCCACCAAA
* *
381382 TTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGC
260 TTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGC
381447 TTTGAAAGGCA
325 TTTGAAAGGCA
381458 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG---A-CGTCCTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCCTG
381518 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGTAGAAGGCGTCCTGCTCT
66 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-A-AAGGCGTCCTGCTCT
381583 TTGAGGACTGAAAA
125 TTGAGGACTGAAAA
381597 GTGAAAGGAG
Statistics
Matches: 435, Mismatches: 31, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
330 46 0.11
331 1 0.00
334 1 0.00
335 11 0.03
336 375 0.86
337 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (335 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCCTG
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
ACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
GCCACCAACTTATGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAGAAAATGCCACCAAAT
TGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCT
TTGAAAGGCA
Found at i:382565 original size:10 final size:10
Alignment explanation
Indices: 382550--382590 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
382540 CTTAAGCAGA
382550 TTCTCTTTTT
1 TTCTCTTTTT
382560 TTCTC-TTTT
1 TTCTCTTTTT
382569 TTCT-TTGTTT
1 TTCTCTT-TTT
*
382579 TTTTCTTTTT
1 TTCTCTTTTT
382589 TT
1 TT
382591 GTTTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 9 0.33
10 16 0.59
11 2 0.07
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (10 bp):
TTCTCTTTTT
Found at i:382593 original size:16 final size:16
Alignment explanation
Indices: 382567--382610 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
382557 TTTTTCTCTT
382567 TTTTCTTTGTTTTTTTC
1 TTTT-TTTGTTTTTTTC
382584 TTTTTTTG-TTTTTTC
1 TTTTTTTGTTTTTTTC
* *
382599 TTGTTGTGTTTT
1 TTTTTTTGTTTT
382611 GTTTTCTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 7 0.29
17 4 0.17
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTC
Found at i:387479 original size:13 final size:13
Alignment explanation
Indices: 387461--387487 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
387451 ACAATATTCC
387461 TTGTATCGATACA
1 TTGTATCGATACA
387474 TTGTATCGATACA
1 TTGTATCGATACA
387487 T
1 T
387488 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:390075 original size:13 final size:13
Alignment explanation
Indices: 390057--390081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
390047 CATTATGCTT
390057 TGTATCGATACAA
1 TGTATCGATACAA
390070 TGTATCGATACA
1 TGTATCGATACA
390082 TGTTCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:398623 original size:74 final size:74
Alignment explanation
Indices: 398502--398657 Score: 269
Period size: 74 Copynumber: 2.1 Consensus size: 74
398492 TCAAAACATC
* *
398502 TTAATAGTAAAATAACTCAAGAACTTTATCATATTCTAAGATTATTTTCACTTCTTCTTTTTCAA
1 TTAATAGTAAAATAACCCAAGAACTTTACCATATTCTAAGATTATTTTCACTTCTTCTTTTTCAA
398567 TGAAATAGT
66 TGAAATAGT
*
398576 TTAATAGTAAAATAACCCAAGAACTTTACCATATTTTAAGATTATTTTCACTTCTTCTTTTTCAA
1 TTAATAGTAAAATAACCCAAGAACTTTACCATATTCTAAGATTATTTTCACTTCTTCTTTTTCAA
398641 TGAAATAGT
66 TGAAATAGT
*
398650 ATAA-AGTA
1 TTAATAGTA
398658 GAAAATCTTC
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
73 4 0.05
74 74 0.95
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (74 bp):
TTAATAGTAAAATAACCCAAGAACTTTACCATATTCTAAGATTATTTTCACTTCTTCTTTTTCAA
TGAAATAGT
Found at i:398859 original size:32 final size:32
Alignment explanation
Indices: 398804--398885 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 32
398794 TCTAAATAGT
* * * * *
398804 AATTGTTCTAAACATCAATTATTCTGAACAAA
1 AATTATTCTAAATAACAACTATTCTAAACAAA
*
398836 AATTATTCTAAATAACAACTATTCTAAATAAA
1 AATTATTCTAAATAACAACTATTCTAAACAAA
*
398868 AGTTATTC-AGAATAACAA
1 AATTATTCTA-AATAACAA
398886 TTGTTTTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 1 0.02
32 41 0.98
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (32 bp):
AATTATTCTAAATAACAACTATTCTAAACAAA
Found at i:398874 original size:16 final size:15
Alignment explanation
Indices: 398820--398875 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
398810 TCTAAACATC
398820 AATTATTCTGAACA-AA
1 AATTATTCT-AA-ATAA
398836 AATTATTCTAAATAA
1 AATTATTCTAAATAA
*
398851 CAACTATTCTAAATAA
1 -AATTATTCTAAATAA
398867 AAGTTATTC
1 AA-TTATTC
398876 AGAATAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 1 0.03
15 6 0.17
16 28 0.80
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (15 bp):
AATTATTCTAAATAA
Found at i:400155 original size:2 final size:2
Alignment explanation
Indices: 400148--400190 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
400138 ATAGAAAGCA
* *
400148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
400190 A
1 A
400191 ACAATTATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:408506 original size:40 final size:40
Alignment explanation
Indices: 408449--408536 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
408439 AAAAAAACAG
*
408449 AATGTATCGATAAATTGAAGAATGTATCGATATATTCATA
1 AATGTATCGATAAATTGAAAAATGTATCGATATATTCATA
*
408489 AATGTATCGATACATTGAAAAATGTATCGATATATTCATA
1 AATGTATCGATAAATTGAAAAATGTATCGATATATTCATA
408529 AATGTATC
1 AATGTATC
408537 TAAGTAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (40 bp):
AATGTATCGATAAATTGAAAAATGTATCGATATATTCATA
Found at i:408531 original size:20 final size:20
Alignment explanation
Indices: 408449--408536 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
408439 AAAAAAACAG
* *
408449 AATGTATCGATAAATTGA-A
1 AATGTATCGATATATTCATA
408468 GAATGTATCGATATATTCATA
1 -AATGTATCGATATATTCATA
* * *
408489 AATGTATCGATACATTGAAA
1 AATGTATCGATATATTCATA
408509 AATGTATCGATATATTCATA
1 AATGTATCGATATATTCATA
408529 AATGTATC
1 AATGTATC
408537 TAAGTAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
20 58 0.98
21 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (20 bp):
AATGTATCGATATATTCATA
Found at i:410289 original size:16 final size:16
Alignment explanation
Indices: 410257--410305 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
410247 TGTTTGGATC
*
410257 GAATTATTTT-ATATTT
1 GAATTATTTTGA-GTTT
410273 GAATTATTTTGAGTTT
1 GAATTATTTTGAGTTT
*
410289 GAATTTTTTTGAGTTT
1 GAATTATTTTGAGTTT
410305 G
1 G
410306 GGCTTATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.59
Consensus pattern (16 bp):
GAATTATTTTGAGTTT
Found at i:412712 original size:14 final size:14
Alignment explanation
Indices: 412676--412713 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
412666 TGCATAATTT
*
412676 TTTTATTTAAAAAA
1 TTTTATTTTAAAAA
412690 TTTTA--TTAAAAA
1 TTTTATTTTAAAAA
412702 TTTTATTTTAAA
1 TTTTATTTTAAA
412714 TAAAAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.52
14 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTATTTTAAAAA
Found at i:412963 original size:17 final size:17
Alignment explanation
Indices: 412935--412978 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
412925 GTAAGCATGG
412935 TTTTACCTTTTAT-TTTT
1 TTTTA-CTTTTATATTTT
412952 TATTTACTTTTATATTTT
1 T-TTTACTTTTATATTTT
412970 TTTTA-TTTT
1 TTTTACTTTT
412979 GGAGAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 9 0.36
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTACTTTTATATTTT
Found at i:413659 original size:16 final size:17
Alignment explanation
Indices: 413640--413687 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
413630 TAGTGTCATG
*
413640 TTTTTCTCATGTTTT-A
1 TTTTTCTCATATTTTAA
*
413656 TTTTTGTCATATTTTAA
1 TTTTTCTCATATTTTAA
*
413673 TTTATCTCATATTTT
1 TTTTTCTCATATTTT
413688 GTATAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.19, C:0.10, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTTCTCATATTTTAA
Found at i:413803 original size:11 final size:11
Alignment explanation
Indices: 413787--413819 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
413777 TTAACATTCG
413787 TATATTTATAT
1 TATATTTATAT
413798 TATATTTATAT
1 TATATTTATAT
*
413809 TATTTTTATAT
1 TATATTTATAT
413820 CACGTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATATTTATAT
Found at i:414525 original size:2 final size:2
Alignment explanation
Indices: 414518--414550 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
414508 CCATTAAGTG
414518 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
414551 GAAAGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:419388 original size:49 final size:50
Alignment explanation
Indices: 419316--419431 Score: 114
Period size: 51 Copynumber: 2.3 Consensus size: 50
419306 CTAAACTCTA
* * *
419316 AAAATATTTTA-AATAAAATTTTAT-TTTATTATTTAAATATGTAAA-ATAT
1 AAAATATTTTATATTAAAATTTTATATATATTATTTAAA-AT-TAAATAAAT
* * *
419365 AAAATATTTTATATTAATA-TTTATATATATTTTTTATAATTAAATTTAAAT
1 AAAATATTTTATATTAAAATTTTATATATATTATTTAAAATTAAA--TAAAT
419416 AAAATATTTTATATTA
1 AAAATATTTTATATTA
419432 GGTAAATAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
48 4 0.07
49 18 0.32
50 15 0.27
51 19 0.34
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (50 bp):
AAAATATTTTATATTAAAATTTTATATATATTATTTAAAATTAAATAAAT
Found at i:419399 original size:25 final size:25
Alignment explanation
Indices: 419363--419431 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 25
419353 TATGTAAAAT
*
419363 ATAAAATATTTTATATTAATATTTAT
1 ATAAAATATTTTATATTAA-ATTTAA
* *
419389 AT-ATATTTTTTATAATTAAATTTAA
1 ATAAAATATTTTAT-ATTAAATTTAA
419414 ATAAAATATTTTATATTA
1 ATAAAATATTTTATATTA
419432 GGTAAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 20 0.56
26 16 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATAAAATATTTTATATTAAATTTAA
Found at i:419425 original size:26 final size:27
Alignment explanation
Indices: 419363--419428 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 27
419353 TATGTAAAAT
*
419363 ATAAAATATTTTAT-ATTAATATTTAT
1 ATAAAATATTTTATAATTAATATTTAA
* *
419389 AT-ATATTTTTTATAATTAA-ATTTAA
1 ATAAAATATTTTATAATTAATATTTAA
419414 ATAAAATATTTTATA
1 ATAAAATATTTTATA
419429 TTAGGTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 16 0.48
26 17 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATAAAATATTTTATAATTAATATTTAA
Found at i:419667 original size:24 final size:26
Alignment explanation
Indices: 419639--419694 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
419629 TAACATTTTG
419639 AATTAAGTTAAAG-TAAATTAAAA-A
1 AATTAAGTTAAAGCTAAATTAAAACA
* *
419663 AATT-ATTTAAAGCTCAATTAAAATCA
1 AATTAAGTTAAAGCTAAATTAAAA-CA
419689 AATTAA
1 AATTAA
419695 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.27
24 13 0.50
26 5 0.19
27 1 0.04
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (26 bp):
AATTAAGTTAAAGCTAAATTAAAACA
Found at i:419717 original size:20 final size:20
Alignment explanation
Indices: 419692--419732 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
419682 AAAATCAAAT
*
419692 TAAATTTAAAATTTAATAAA
1 TAAATTGAAAATTTAATAAA
**
419712 TAAATTGATCATTTAATAAA
1 TAAATTGAAAATTTAATAAA
419732 T
1 T
419733 TTATTACCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAATTGAAAATTTAATAAA
Found at i:420869 original size:12 final size:12
Alignment explanation
Indices: 420827--420891 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
420817 CTTTTCAAGG
420827 TAAT-TTAATTT
1 TAATATTAATTT
*
420838 TAAATCATTAAATT
1 T-AAT-ATTAATTT
420852 TAATATTAATTT
1 TAATATTAATTT
*
420864 TTATA-TAATTT
1 TAATATTAATTT
420875 ATAAATATTTAATTT
1 -T-AATA-TTAATTT
420890 TA
1 TA
420892 TCAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
11 7 0.16
12 15 0.35
13 7 0.16
14 8 0.19
15 6 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATATTAATTT
Found at i:422080 original size:3 final size:3
Alignment explanation
Indices: 422072--422104 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
422062 CTTACTTAAA
422072 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
422105 TTATTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:425639 original size:14 final size:14
Alignment explanation
Indices: 425614--425652 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
425604 GATTTTGCAC
425614 TCAAAAAT-AAAAA
1 TCAAAAATAAAAAA
*
425627 TTAAAAATAAAAAA
1 TCAAAAATAAAAAA
*
425641 TCAAAGATAAAA
1 TCAAAAATAAAA
425653 GGAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (14 bp):
TCAAAAATAAAAAA
Found at i:425652 original size:13 final size:13
Alignment explanation
Indices: 425614--425652 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
425604 GATTTTGCAC
425614 TCAAAAATAAAAA
1 TCAAAAATAAAAA
*
425627 TTAAAAATAAAAAA
1 TCAAAAAT-AAAAA
*
425641 TCAAAGATAAAA
1 TCAAAAATAAAA
425653 GGAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (13 bp):
TCAAAAATAAAAA
Done.