Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold271
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: 492225
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
File 3 of 4
Found at i:287388 original size:17 final size:18
Alignment explanation
Indices: 287333--287388 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 18
287323 AAAAAAATTA
*
287333 AATATTAAATATATAATTTT
1 AATAATAAATATAT--TTTT
* *
287353 AATAATAAATAAATATTT
1 AATAATAAATATATTTTT
*
287371 AATGA-AAATATATTTTT
1 AATAATAAATATATTTTT
287388 A
1 A
287389 TTTAAATTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 11 0.37
18 7 0.23
20 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAATAAATATATTTTT
Found at i:287616 original size:15 final size:15
Alignment explanation
Indices: 287598--287628 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
287588 TTAATTTTTA
*
287598 ATTTTTTAAAATTTG
1 ATTTTTGAAAATTTG
287613 ATTTTTGAAAATTTG
1 ATTTTTGAAAATTTG
287628 A
1 A
287629 AGGGCTTTGA
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:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTTTGAAAATTTG
Found at i:290558 original size:22 final size:23
Alignment explanation
Indices: 290515--290561 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
290505 TCAATTCAAC
290515 TATATATATTAATTTTGATATTAA
1 TATATATATTAATTTT-ATATTAA
*
290539 TATATTATATTATTTTTAT-TTAA
1 TATA-TATATTAATTTTATATTAA
290562 AATAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 6 0.29
25 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATATTAATTTTATATTAA
Found at i:290952 original size:11 final size:11
Alignment explanation
Indices: 290916--290953 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
290906 TAATAACAAT
*
290916 TTAATTTAACA
1 TTAATTTAAGA
*
290927 ATAATTTAAGA
1 TTAATTTAAGA
290938 -TAATTTAAGA
1 TTAATTTAAGA
290948 TTAATT
1 TTAATT
290954 AAATTCTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (11 bp):
TTAATTTAAGA
Found at i:291243 original size:25 final size:25
Alignment explanation
Indices: 291215--291272 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
291205 CCATAAATTA
*
291215 GAAATTACATCTACCTCTTTAGTTT
1 GAAAATACATCTACCTCTTTAGTTT
* * *
291240 GAAAAATACATTTACTTTTTTAGTTT
1 G-AAAATACATCTACCTCTTTAGTTT
291266 GAAAATA
1 GAAAATA
291273 TACTAAACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (25 bp):
GAAAATACATCTACCTCTTTAGTTT
Found at i:291360 original size:19 final size:21
Alignment explanation
Indices: 291323--291368 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
291313 AAATAAAAAG
291323 ATTAATATATTTTTATTAATT
1 ATTAATATATTTTTATTAATT
291344 ATTAATA-ATTTTT-TTAATT
1 ATTAATATATTTTTATTAATT
*
291363 TTTAAT
1 ATTAAT
291369 TAAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTAATATATTTTTATTAATT
Found at i:292123 original size:16 final size:16
Alignment explanation
Indices: 292089--292137 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
292079 ATTTAACACA
* *
292089 TAATTGAATT-ATATA
1 TAATTTAATTAATATT
292104 TAATTTAATTAATATT
1 TAATTTAATTAATATT
*
292120 TAATTTAA-TAATAAT
1 TAATTTAATTAATATT
292135 TAA
1 TAA
292138 AGATAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATTTAATTAATATT
Found at i:292144 original size:37 final size:34
Alignment explanation
Indices: 292055--292149 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 34
292045 TATATAATTG
292055 AATAATTAAAGATAAGTTTAAAATATTTAACACAT
1 AATAATTAAAGATAA-TTTAAAATATTTAACACAT
* * *
292090 AATTGAATTATATATAATTTAATTAATATTTAATTTA-AT
1 AA-T-AATTAAAGATAATTTAA--AATATTTAA--CACAT
292129 AATAATTAAAGATAATTTAAA
1 AATAATTAAAGATAATTTAAA
292150 TACTAACTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
35 3 0.06
36 6 0.12
37 25 0.51
38 10 0.20
39 4 0.08
40 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (34 bp):
AATAATTAAAGATAATTTAAAATATTTAACACAT
Found at i:292151 original size:22 final size:21
Alignment explanation
Indices: 292120--292160 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
292110 AATTAATATT
*
292120 TAATTTAATAATAATTAAAGA
1 TAATTTAATAATAACTAAAGA
*
292141 TAATTTAAATACTAACTAAA
1 TAATTT-AATAATAACTAAA
292161 TTTTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTTAATAATAACTAAAGA
Found at i:292504 original size:31 final size:32
Alignment explanation
Indices: 292469--292548 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 32
292459 ATCTCAACAC
*
292469 AATTTGATTTAATTAAAAAATT-AATAATTTT
1 AATTTGATTTAATTAAAAAATTAAATAATTTA
* * *
292500 AATTT-ATTCAATT-TAAATTTGAAATAATTTA
1 AATTTGATTTAATTAAAAAATT-AAATAATTTA
*
292531 AATTTGAATTAACTTAAA
1 AATTTGATTTAA-TTAAA
292549 TTTAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
29 5 0.14
30 7 0.19
31 18 0.49
32 4 0.11
33 2 0.05
34 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (32 bp):
AATTTGATTTAATTAAAAAATTAAATAATTTA
Found at i:292530 original size:16 final size:16
Alignment explanation
Indices: 292509--292572 Score: 76
Period size: 16 Copynumber: 4.0 Consensus size: 16
292499 TAATTTATTC
292509 AATTTAAATTTGAAAT
1 AATTTAAATTTGAAAT
*
292525 AATTTAAATTTGAATT
1 AATTTAAATTTGAAAT
* *
292541 AACTTAAATTT-AAAA
1 AATTTAAATTTGAAAT
*
292556 AATTTTAAATTTTAAAT
1 AA-TTTAAATTTGAAAT
292573 GAGTCAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
15 4 0.10
16 33 0.82
17 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTTAAATTTGAAAT
Found at i:294912 original size:17 final size:18
Alignment explanation
Indices: 294878--294912 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
294868 AAATTTTAAT
294878 ATTACATTTAAATAAAAA
1 ATTACATTTAAATAAAAA
294896 ATTA-ATTTATAATAAAA
1 ATTACATTTA-AATAAAA
294913 TACGTGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTACATTTAAATAAAAA
Found at i:295334 original size:22 final size:22
Alignment explanation
Indices: 295299--295343 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
295289 TGTTATTTTT
295299 ATTTTAAAAAATTAATT-TTTAA
1 ATTTTAAAAAATT-ATTGTTTAA
* *
295321 ATTTTAATATATTATTGTTTAA
1 ATTTTAAAAAATTATTGTTTAA
295343 A
1 A
295344 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTTAAAAAATTATTGTTTAA
Found at i:302481 original size:22 final size:23
Alignment explanation
Indices: 302453--302497 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
302443 AAAATATATA
302453 TTTATATCATAATT-TTATAATT
1 TTTATATCATAATTATTATAATT
* *
302475 TTTATATTATAATTATTTTAATT
1 TTTATATCATAATTATTATAATT
302498 ATTTTATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTATATCATAATTATTATAATT
Found at i:302549 original size:32 final size:33
Alignment explanation
Indices: 302512--302578 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 33
302502 TATAAGTAAG
302512 TAAAATTTTAA-ATATTA-ATAATTTATATTATA
1 TAAAA-TTTAATATATTATATAATTTATATTATA
302544 TAAAATTTAATATATTATTATAATTTATATTATA
1 TAAAATTTAATATATTA-TATAATTTATATTATA
302578 T
1 T
302579 TTAAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 5 0.16
32 11 0.34
34 16 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TAAAATTTAATATATTATATAATTTATATTATA
Found at i:302601 original size:16 final size:17
Alignment explanation
Indices: 302523--302614 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 17
302513 AAAATTTTAA
*
302523 ATATTAATAATTTATATT
1 ATATTTATAA-TTATATT
* *
302541 ATA--TAAAATT-TAAT
1 ATATTTATAATTATATT
302555 ATATTATTATAATTTATATT
1 ATA-T-TTATAA-TTATATT
302575 ATATTTA-AATTAT-TT
1 ATATTTATAATTATATT
*
302590 TTATTTATAATTATATT
1 ATATTTATAATTATATT
302607 ATAATTTA
1 AT-ATTTA
302615 AGTGGAGGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
14 6 0.10
15 10 0.17
16 13 0.22
17 5 0.09
18 15 0.26
19 3 0.05
20 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATAATTATATT
Found at i:302607 original size:21 final size:22
Alignment explanation
Indices: 302567--302608 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
302557 ATTATTATAA
*
302567 TTTATATTATATTTAAATTATT
1 TTTATATTATAATTAAATTATT
*
302589 TTTAT-TTATAATTATATTAT
1 TTTATATTATAATTAAATTAT
302609 AATTTAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATATTATAATTAAATTATT
Found at i:305132 original size:16 final size:16
Alignment explanation
Indices: 305084--305133 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
305074 CCAATCTTAA
*
305084 AATTTCAAATAAT-TT
1 AATTTTAAATAATATT
*
305099 ACTATTTAAATTAA-ATT
1 AAT-TTTAAA-TAATATT
305116 AATTTTAAATAATATT
1 AATTTTAAATAATATT
305132 AA
1 AA
305134 AAAAATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 5 0.18
16 16 0.57
17 7 0.25
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTTTAAATAATATT
Found at i:305717 original size:18 final size:18
Alignment explanation
Indices: 305682--305718 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
305672 ATATTGACAT
* *
305682 ATATAATATTTTTGTATA
1 ATATAATATTTATCTATA
305700 ATATAATATTTATCTATA
1 ATATAATATTTATCTATA
305718 A
1 A
305719 ATTATAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATATAATATTTATCTATA
Found at i:306538 original size:16 final size:16
Alignment explanation
Indices: 306517--306548 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
306507 TAATATAATT
*
306517 ATTATATTTTTTAAAA
1 ATTATATTTTATAAAA
306533 ATTATATTTTATAAAA
1 ATTATATTTTATAAAA
306549 TGTTAAAACA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATATTTTATAAAA
Found at i:306710 original size:16 final size:16
Alignment explanation
Indices: 306676--306710 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
306666 ACAATAAAAC
*
306676 AAACATAAAAAATTAA
1 AAACAAAAAAAATTAA
306692 AAACAAAAATAAATTAA
1 AAACAAAAA-AAATTAA
306709 AA
1 AA
306711 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACAAAAAAAATTAA
Found at i:306962 original size:6 final size:6
Alignment explanation
Indices: 306951--306977 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
306941 GTCAAAGTTG
306951 CCCTGA CCCTGA CCCTGA CCCTGA CCC
1 CCCTGA CCCTGA CCCTGA CCCTGA CCC
306978 AGGCCCAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.56, G:0.15, T:0.15
Consensus pattern (6 bp):
CCCTGA
Found at i:311428 original size:20 final size:20
Alignment explanation
Indices: 311391--311442 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
311381 ATAATATTAT
*
311391 ATTTATTATATTATTTTT-AC
1 ATTTATTA-AATATTTTTCAC
*
311411 ATTTATTAAATATGTTTTCAT
1 ATTTATTAAATAT-TTTTCAC
311432 ATTATATTAAA
1 ATT-TATTAAA
311443 ATTGCAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 12 0.44
21 4 0.15
22 7 0.26
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTATTAAATATTTTTCAC
Found at i:313674 original size:2 final size:2
Alignment explanation
Indices: 313667--313704 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
313657 ATAGTGTATT
313667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
313705 AAGATGATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:315239 original size:20 final size:22
Alignment explanation
Indices: 315192--315240 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
315182 TTTAAAAAAA
315192 TTAAAAATAATTAATAATTATCT
1 TTAAAAATAA-TAATAATTATCT
* *
315215 CTAAAAATAA-AA-AATTATTT
1 TTAAAAATAATAATAATTATCT
315235 TTAAAA
1 TTAAAA
315241 CCTTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
23 9 0.39
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAAATAATAATAATTATCT
Found at i:316079 original size:20 final size:20
Alignment explanation
Indices: 316038--316083 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
316028 TCGGAACTGA
* *
316038 AAAAAATTATTATAATATAC
1 AAAAAATTAATATAATAAAC
316058 AACAAAATTAAT-TAATAAAC
1 AA-AAAATTAATATAATAAAC
316078 AAAAAA
1 AAAAAA
316084 GTTATATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 11 0.48
21 8 0.35
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATTAATATAATAAAC
Found at i:316225 original size:6 final size:6
Alignment explanation
Indices: 316216--316243 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
316206 AAGGAAAACC
316216 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
316244 CCTAGTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:316230 original size:18 final size:18
Alignment explanation
Indices: 316209--316243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
316199 GAAAGCCAAG
*
316209 GAAAACCAAAAAGAAAAA
1 GAAAAACAAAAAGAAAAA
*
316227 GAAAAAGAAAAAGAAAA
1 GAAAAACAAAAAGAAAA
316244 CCTAGTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (18 bp):
GAAAAACAAAAAGAAAAA
Found at i:316930 original size:14 final size:16
Alignment explanation
Indices: 316911--316951 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
316901 AAATTATTTA
316911 ATTATTATAATAATATT
1 ATTATTA-AATAATATT
316928 ATTATTAAATAATA-T
1 ATTATTAAATAATATT
316943 ATTAATTAA
1 ATT-ATTAA
316952 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 12 0.52
17 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATTAAATAATATT
Found at i:321175 original size:2 final size:2
Alignment explanation
Indices: 321168--321215 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
321158 TAAATTTGAT
321168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
321210 TA TA TA
1 TA TA TA
321216 AAGAAAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:326906 original size:2 final size:2
Alignment explanation
Indices: 326899--326932 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
326889 AACTTCAAAG
326899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
326933 CAAAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:327206 original size:13 final size:13
Alignment explanation
Indices: 327188--327214 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
327178 TTAAAGCTAC
327188 ATTTAACTCTTGT
1 ATTTAACTCTTGT
327201 ATTTAACTCTTGT
1 ATTTAACTCTTGT
327214 A
1 A
327215 GTATAAGTCA
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:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTAACTCTTGT
Found at i:330073 original size:2 final size:2
Alignment explanation
Indices: 330066--330116 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
330056 TAGCTCTTAT
330066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
330108 TA TA TA TA T
1 TA TA TA TA T
330117 GGCTTTTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:341364 original size:40 final size:40
Alignment explanation
Indices: 341290--341365 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
341280 GAACCTAAAC
* *
341290 CTACCAAATTCTATCTCTTAAACATGACCGCATAAAAAAA
1 CTACAAAATTCTATCTCTTAAACATGACCACATAAAAAAA
* *
341330 CTACAAAATTCTCTCTCTTAAACATGACTACATAAA
1 CTACAAAATTCTATCTCTTAAACATGACCACATAAA
341366 TCAACTCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.28
Consensus pattern (40 bp):
CTACAAAATTCTATCTCTTAAACATGACCACATAAAAAAA
Found at i:342746 original size:30 final size:30
Alignment explanation
Indices: 342710--342772 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
342700 ATATTCAAAA
342710 CAAGTAATCTAAGACATCTGGATGCAAGTT
1 CAAGTAATCTAAGACATCTGGATGCAAGTT
342740 CAAGTAATCTAAGACATCTGGATGCAAGTT
1 CAAGTAATCTAAGACATCTGGATGCAAGTT
342770 CAA
1 CAA
342773 TTACCACCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (30 bp):
CAAGTAATCTAAGACATCTGGATGCAAGTT
Found at i:343926 original size:6 final size:6
Alignment explanation
Indices: 343915--343939 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
343905 AAGTCTAAAA
343915 TAATAG TAATAG TAATAG TAATAG T
1 TAATAG TAATAG TAATAG TAATAG T
343940 CTTACGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
TAATAG
Found at i:344135 original size:128 final size:128
Alignment explanation
Indices: 343962--344209 Score: 442
Period size: 128 Copynumber: 1.9 Consensus size: 128
343952 AACTTTAACT
* *
343962 AAAATATCATTGCTAGCATCAAAATCTTATAGCTGTGTCTAAATCATAATCAATTTTTAACTTTC
1 AAAATATCATTGCTAACAACAAAATCTTATAGCTGTGTCTAAATCATAATCAATTTTTAACTTTC
344027 TACTCAAATTTCATTTTTCAAGGTTTAGCAAGATGCTAGAACAAATCATTTATTGCTAACATC
66 TACTCAAATTTCATTTTTCAAGGTTTAGCAAGATGCTAGAACAAATCATTTATTGCTAACATC
344090 AAAATATCATTGCTAACAACAAAATCTTATAGCTGTGTCTAAATCATAATCAATTTTTAACTTTC
1 AAAATATCATTGCTAACAACAAAATCTTATAGCTGTGTCTAAATCATAATCAATTTTTAACTTTC
* * * *
344155 TCCTTAAATTTCATTTTTCAAGGTTTAGCAAGATGCTCGCACAAATCATTTATTG
66 TACTCAAATTTCATTTTTCAAGGTTTAGCAAGATGCTAGAACAAATCATTTATTG
344210 AGCTCTGCAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 114 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (128 bp):
AAAATATCATTGCTAACAACAAAATCTTATAGCTGTGTCTAAATCATAATCAATTTTTAACTTTC
TACTCAAATTTCATTTTTCAAGGTTTAGCAAGATGCTAGAACAAATCATTTATTGCTAACATC
Found at i:345679 original size:11 final size:12
Alignment explanation
Indices: 345638--345690 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
345628 TATTATTTAA
*
345638 TTTAATCTAAAT
1 TTTAATATAAAT
345650 TTTAATAT-AA-
1 TTTAATATAAAT
345660 --TAATAATAAAT
1 TTTAAT-ATAAAT
345671 TTT-ATATAAAT
1 TTTAATATAAAT
345682 TTTAATATA
1 TTTAATATA
345691 TTTATATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
8 4 0.12
9 2 0.06
10 2 0.06
11 11 0.32
12 14 0.41
13 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTAATATAAAT
Found at i:345960 original size:21 final size:21
Alignment explanation
Indices: 345911--345949 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
345901 CATATTCAAT
345911 ATAAT-ATAAATTTTGATATG
1 ATAATAATAAATTTTGATATG
345931 ATAATAATAAATTTT-ATAT
1 ATAATAATAAATTTTGATAT
345950 AGATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
ATAATAATAAATTTTGATATG
Found at i:346799 original size:19 final size:19
Alignment explanation
Indices: 346775--346828 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
346765 AATTTGAACC
346775 TTCAAATTTTTTTTTAAAT
1 TTCAAATTTTTTTTTAAAT
* **
346794 TTCAAAATTTTTGAT-AAT
1 TTCAAATTTTTTTTTAAAT
*
346812 TTAAAATTTTTATTTTA
1 TTCAAATTTTT-TTTTA
346829 TTAGATAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
TTCAAATTTTTTTTTAAAT
Found at i:346942 original size:22 final size:22
Alignment explanation
Indices: 346916--346965 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
346906 AAACTCTTTT
* *
346916 AAATTTCTCATTTTAATTATTA
1 AAATTTCTCAATATAATTATTA
*
346938 AAATTTGTCAATATAATTATTA
1 AAATTTCTCAATATAATTATTA
346960 ATAATT
1 A-AATT
346966 GTATTTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (22 bp):
AAATTTCTCAATATAATTATTA
Found at i:348370 original size:21 final size:20
Alignment explanation
Indices: 348336--348376 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
348326 AATTTTTATT
* *
348336 TAAATTTAATTATAAAATATA
1 TAAATATAAATAT-AAATATA
348357 TAAATATAAATATAAATATA
1 TAAATATAAATATAAATATA
348377 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATATAAATATAAATATA
Found at i:349190 original size:3 final size:3
Alignment explanation
Indices: 349156--349223 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
349146 CTTACTGAAG
*
349156 ATT A-T ATT ATT -TT -TT ATT CTT AATT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
349198 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
349224 CTAAAAATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 8 0.14
3 49 0.83
4 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:352818 original size:2 final size:2
Alignment explanation
Indices: 352811--352839 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
352801 ATGAACGCAC
352811 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 A
352840 CTTGATGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:353222 original size:13 final size:13
Alignment explanation
Indices: 353204--353228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
353194 TAGTATAATT
353204 AAATAAAATTTTC
1 AAATAAAATTTTC
353217 AAATAAAATTTT
1 AAATAAAATTTT
353229 TTTGATAGTT
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATAAAATTTTC
Found at i:353634 original size:18 final size:19
Alignment explanation
Indices: 353611--353655 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
353601 AATATTAAAT
*
353611 TTAATTAAA-AATATTTTA
1 TTAATTAAATAATAATTTA
353629 TTAATTAAATAATAATTTA
1 TTAATTAAATAATAATTTA
353648 --AATTAAAT
1 TTAATTAAAT
353656 CAATCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 9 0.36
19 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATTAAATAATAATTTA
Found at i:356388 original size:37 final size:37
Alignment explanation
Indices: 356297--356389 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 37
356287 TTTTATTACT
*
356297 ACTTATAATATAATATAAAATATTTACATTATAAAAAA
1 ACTTAT-ATATTATATAAAATATTTACATTATAAAAAA
* * * *
356335 ACTTATTTTATT-TATAAAATTTTTATATT-TAACATAA
1 ACTTA-TATATTATATAAAATATTTACATTATAA-AAAA
*
356372 AGTTATATATTATATAAA
1 ACTTATATATTATATAAA
356390 TAATTAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
36 8 0.18
37 28 0.62
38 8 0.18
39 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ACTTATATATTATATAAAATATTTACATTATAAAAAA
Found at i:363946 original size:35 final size:36
Alignment explanation
Indices: 363883--363961 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
363873 TTAAACAAAC
* *
363883 ATATTAATAAATTATTTTTAATTTAATAAAAATAAT
1 ATATTAATAAATTATTTTTAAATAAATAAAAATAAT
* *
363919 ATATTAAATAAA-T-TTTTTAAATAAATAAATATGAT
1 ATATT-AATAAATTATTTTTAAATAAATAAAAATAAT
363954 ATA-TAATA
1 ATATTAATA
363962 TTTTTTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 4 0.11
34 1 0.03
35 21 0.55
36 6 0.16
37 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (36 bp):
ATATTAATAAATTATTTTTAAATAAATAAAAATAAT
Found at i:364225 original size:23 final size:26
Alignment explanation
Indices: 364185--364231 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
364175 AAAAATATAT
364185 ATTTAAAAAATATATTAAA-ATTTTG
1 ATTTAAAAAATATATTAAATATTTTG
364210 ATTTAAAAAAT-T-TTAAATATTT
1 ATTTAAAAAATATATTAAATATTT
364232 GATATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTTAAAAAATATATTAAATATTTTG
Found at i:364232 original size:23 final size:25
Alignment explanation
Indices: 364177--364234 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
364167 TAGATTAAAA
*
364177 AAATATAT-ATTTAAAAAATATATT
1 AAATATTTGATTTAAAAAATATATT
364201 AAA-ATTTTGATTTAAAAAAT-T-TT
1 AAATA-TTTGATTTAAAAAATATATT
364224 AAATATTTGAT
1 AAATATTTGAT
364235 ATTATTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 12 0.40
24 7 0.23
25 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
AAATATTTGATTTAAAAAATATATT
Found at i:364278 original size:25 final size:25
Alignment explanation
Indices: 364247--364300 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
364237 TATTTGTGAA
364247 AAAATAT-TATGAGAATTTAAAAT-AT
1 AAAATATATAT-A-AATTTAAAATAAT
*
364272 AAAATATATATATATTTAAAATAAT
1 AAAATATATATAAATTTAAAATAAT
364297 AAAA
1 AAAA
364301 ATTTAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 9 0.35
25 14 0.54
26 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAATATATATAAATTTAAAATAAT
Found at i:364797 original size:3 final size:3
Alignment explanation
Indices: 364791--364816 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
364781 AATTGGCATC
364791 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
364817 GCCCCATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:364933 original size:23 final size:22
Alignment explanation
Indices: 364906--364969 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
364896 TTGTTCAAAA
364906 TTTATGTTATTATTTAAAATATT
1 TTTAT-TTATTATTTAAAATATT
*
364929 TTTA-TTATTTTTATAAAAATATT
1 TTTATTTATTATT-T-AAAATATT
364952 TTTATAATTA-TATTTAAA
1 TTTAT--TTATTATTTAAA
364970 TATAATCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
21 7 0.21
22 1 0.03
23 19 0.56
24 1 0.03
25 3 0.09
26 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTATTTATTATTTAAAATATT
Found at i:364970 original size:22 final size:23
Alignment explanation
Indices: 364916--364972 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
364906 TTTATGTTAT
* *
364916 TATTTAAAATATTTTTATTATTTT
1 TATTT-AAATATTTTTATTAATTA
**
364940 TATAAAAATATTTTTA-TAATTA
1 TATTTAAATATTTTTATTAATTA
364962 TATTTAAATAT
1 TATTTAAATAT
364973 AATCTAAACT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 13 0.48
23 11 0.41
24 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTAAATATTTTTATTAATTA
Found at i:365317 original size:5 final size:5
Alignment explanation
Indices: 365301--365343 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
365291 AAAATTTTAA
365301 AATTT AATTTT AATTT AATTT AATTT AATTT -ATTT AAATTT AA
1 AATTT AA-TTT AATTT AATTT AATTT AATTT AATTT -AATTT AA
365344 ATTATTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.11
5 22 0.63
6 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:365348 original size:15 final size:15
Alignment explanation
Indices: 365302--365349 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
365292 AAATTTTAAA
*
365302 ATTTAATTTTAATTT
1 ATTTAAATTTAATTT
365317 AATTT-AATTTAATTT
1 -ATTTAAATTTAATTT
*
365332 ATTTAAATTTAAATT
1 ATTTAAATTTAATTT
365347 ATT
1 ATT
365350 ATTTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTAAATTTAATTT
Found at i:365373 original size:36 final size:35
Alignment explanation
Indices: 365275--365374 Score: 91
Period size: 36 Copynumber: 2.8 Consensus size: 35
365265 ATAAATCAGA
*
365275 TTTAATTATAATTT-A-TAAAATTTTAAAATTTAAT
1 TTTAATT-TAATTTAATTAAAATTTTTAAATTTAAT
* *
365309 TTTAATTTAATTTAATTTAATTTATTTAAATTTAAAT
1 TTTAATTTAATTTAATTAAAATT-TTTAAATTT-AAT
*
365346 TATT-ATTT-ATTTTATTAAAAATTTTTAAA
1 T-TTAATTTAATTTAATT-AAAATTTTTAAA
365375 AAATTATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
33 6 0.11
34 8 0.15
35 5 0.09
36 21 0.39
37 12 0.22
38 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
TTTAATTTAATTTAATTAAAATTTTTAAATTTAAT
Found at i:365420 original size:23 final size:22
Alignment explanation
Indices: 365368--365455 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 22
365358 TATTAAAAAT
365368 TTTTAAA-AAATTATATATTAA
1 TTTTAAATAAATTATATATTAA
*
365389 TATTT--ATAAATTTTATAATTAA
1 T-TTTAAATAAATTATAT-ATTAA
*
365411 TTTTAAATAAA-AATATATT-A
1 TTTTAAATAAATTATATATTAA
365431 TTTT-AATAAA--A-ATATT-A
1 TTTTAAATAAATTATATATTAA
365448 TTTTAAAT
1 TTTTAAAT
365456 CAAAGTAATC
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
17 10 0.17
18 4 0.07
19 6 0.10
20 6 0.10
21 15 0.26
22 12 0.21
23 5 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAATAAATTATATATTAA
Found at i:365435 original size:20 final size:18
Alignment explanation
Indices: 365410--365455 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 18
365400 TTTATAATTA
365410 ATTTTAAATAAAAATATATT
1 ATTTTAAAT-AAAA-ATATT
365430 ATTTT-AATAAAAATATT
1 ATTTTAAATAAAAATATT
365447 ATTTTAAAT
1 ATTTTAAAT
365456 CAAAGTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 3 0.12
20 5 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTTAAATAAAAATATT
Found at i:365550 original size:4 final size:4
Alignment explanation
Indices: 365541--365569 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
365531 TGCCAATTAC
365541 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
365570 TACACACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:365912 original size:15 final size:15
Alignment explanation
Indices: 365894--365992 Score: 59
Period size: 15 Copynumber: 6.9 Consensus size: 15
365884 TATTTAAAAT
365894 TTATATATTATTTAA
1 TTATATATTATTTAA
*
365909 TTATA-ATATAATTAA
1 TTATATAT-TATTTAA
*
365924 -TA-ATATTA-TTAT
1 TTATATATTATTTAA
*
365936 TTATATTATTATTTAT
1 TTATA-TATTATTTAA
* * *
365952 TTATTTATAATATAA
1 TTATATATTATTTAA
*
365967 TTA-ATAATATTTATA
1 TTATATATTATTTA-A
365982 TT-T-TATTATTT
1 TTATATATTATTT
365993 TATATATGTG
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
12 3 0.05
13 5 0.08
14 20 0.31
15 29 0.45
16 8 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATATTATTTAA
Found at i:365928 original size:12 final size:12
Alignment explanation
Indices: 365906--365976 Score: 56
Period size: 12 Copynumber: 6.1 Consensus size: 12
365896 ATATATTATT
365906 TAATT-ATAATA
1 TAATTAATAATA
365917 TAATTAATAATA
1 TAATTAATAATA
* * *
365929 TTATTATTTATA
1 TAATTAATAATA
* * *
365941 TTATTATTTAT-
1 TAATTAATAATA
* *
365952 TTATTTATAATA
1 TAATTAATAATA
365964 TAATTAATAATA
1 TAATTAATAATA
365976 T
1 T
365977 TTATATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
11 13 0.26
12 37 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATTAATAATA
Found at i:365961 original size:47 final size:46
Alignment explanation
Indices: 365901--365991 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 46
365891 AATTTATATA
365901 TTATTTAATTATAATATAATTAATAATA-TTATTATTTATATTATTAT
1 TTATTTAATTATAATATAATTAATAATATTTA-TATTT-TATTATTAT
*
365948 TTATTTATTTATAATATAATTAATAATATTTATATTTTATTATT
1 TTATTTAATTATAATATAATTAATAATATTTATATTTTATTATT
365992 TTATATATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
46 7 0.17
47 32 0.76
48 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (46 bp):
TTATTTAATTATAATATAATTAATAATATTTATATTTTATTATTAT
Found at i:366100 original size:12 final size:12
Alignment explanation
Indices: 366083--366122 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
366073 TAATTTTAAT
366083 TATTTATAAATA
1 TATTTATAAATA
366095 TATTTA-ATAATA
1 TATTTATA-AATA
*
366107 TATTTATTAATA
1 TATTTATAAATA
366119 TATT
1 TATT
366123 CATTTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 24 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TATTTATAAATA
Found at i:366189 original size:30 final size:29
Alignment explanation
Indices: 366148--366206 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
366138 AACAAGTATT
366148 TTTAATTTAAATAAATAAATATAAATATA
1 TTTAATTTAAATAAATAAATATAAATATA
*
366177 TTTAATTTTAAATGAATAAATATAAATATA
1 TTTAA-TTTAAATAAATAAATATAAATATA
366207 AATTTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTAATTTAAATAAATAAATATAAATATA
Found at i:366225 original size:30 final size:30
Alignment explanation
Indices: 366155--366272 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 30
366145 ATTTTTAATT
* * **
366155 TAAATAAATAAATATAAAT-ATATTTAATTT
1 TAAATAAATAAAAATAAATAAAATTTAA-AA
* *
366185 TAAATGAATAAATATAAATATAAATTTAAAA
1 TAAATAAATAAAAATAAATA-AAATTTAAAA
** * *
366216 T-TTTTAATAAAAATAAATAAATTTTAAAA
1 TAAATAAATAAAAATAAATAAAATTTAAAA
*
366245 TAAATAAATAAACATAAATAAAAATTTA
1 TAAATAAATAAAAATAAAT-AAAATTTA
366273 TTCATTTAAG
Statistics
Matches: 70, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.14
30 45 0.64
31 8 0.11
32 7 0.10
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (30 bp):
TAAATAAATAAAAATAAATAAAATTTAAAA
Found at i:366240 original size:20 final size:20
Alignment explanation
Indices: 366217--366256 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
366207 AATTTAAAAT
366217 TTTTAATAA-AAATAAATAAA
1 TTTTAA-AATAAATAAATAAA
366237 TTTTAAAATAAATAAATAAA
1 TTTTAAAATAAATAAATAAA
366257 CATAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTTAAAATAAATAAATAAA
Found at i:366269 original size:20 final size:21
Alignment explanation
Indices: 366221--366269 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
366211 TAAAATTTTT
**
366221 AATAAAAATAAATAAATTTTA
1 AATAAAAATAAATAAATCATA
*
366242 AA-ATAAATAAATAAA-CATA
1 AATAAAAATAAATAAATCATA
366261 AATAAAAAT
1 AATAAAAAT
366270 TTATTCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 17 0.74
21 2 0.09
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAAAATAAATAAATCATA
Found at i:367562 original size:28 final size:28
Alignment explanation
Indices: 367530--367592 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
367520 TAATTTTAAT
*
367530 TTTTTAAAATTTT-CTT-ATTTTTTATTGA
1 TTTTTAAAATTTTGCTTAATTATTT-TT-A
*
367558 TTTTT-CAATTTTGCTTAATTATTTTTA
1 TTTTTAAAATTTTGCTTAATTATTTTTA
367585 TTTTTAAA
1 TTTTTAAA
367593 TTCTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
27 12 0.41
28 11 0.38
29 6 0.21
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTTAAAATTTTGCTTAATTATTTTTA
Found at i:367751 original size:13 final size:13
Alignment explanation
Indices: 367735--367759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
367725 TTTAATTTTT
367735 AATTAATTAATTA
1 AATTAATTAATTA
367748 AATTAATTAATT
1 AATTAATTAATT
367760 TAATATTATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:369633 original size:16 final size:16
Alignment explanation
Indices: 369612--369644 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
369602 GTCAGGAAAA
369612 GCTATTG-CAAAGAAGT
1 GCTATTGTCAAA-AAGT
369628 GCTATTGTCAAAAAGT
1 GCTATTGTCAAAAAGT
369644 G
1 G
369645 TTTTGCCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (16 bp):
GCTATTGTCAAAAAGT
Found at i:370318 original size:13 final size:14
Alignment explanation
Indices: 370275--370320 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
370265 TTGCCAAAAA
370275 TATCTCTATCAAAG
1 TATCTCTATCAAAG
* * *
370289 TATTTCTACCGAAG
1 TATCTCTATCAAAG
370303 TATCTCTATC-AAG
1 TATCTCTATCAAAG
370316 TATCT
1 TATCT
370321 GTACCAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (14 bp):
TATCTCTATCAAAG
Found at i:370331 original size:28 final size:29
Alignment explanation
Indices: 370268--370333 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
370258 AATACTTTTG
* *
370268 CCAAAAATATCTCTATCAAAGTATTTCTA
1 CCAAAAGTATCTCTATCAAAGTATCTCTA
* *
370297 CC-GAAGTATCTCTATC-AAGTATCTGTA
1 CCAAAAGTATCTCTATCAAAGTATCTCTA
370324 CCAAAAGTAT
1 CCAAAAGTAT
370334 TTTTACCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 11 0.35
28 18 0.58
29 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (29 bp):
CCAAAAGTATCTCTATCAAAGTATCTCTA
Found at i:377274 original size:16 final size:18
Alignment explanation
Indices: 377255--377287 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
377245 TAATAAGGAG
377255 TAATAAT-AT-AATTTAC
1 TAATAATGATAAATTTAC
377271 TAATAATGATAAATTTA
1 TAATAATGATAAATTTA
377288 TAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TAATAATGATAAATTTAC
Found at i:377825 original size:2 final size:2
Alignment explanation
Indices: 377812--377853 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
377802 TGTATTCAAT
*
377812 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
377854 AAACAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:378280 original size:5 final size:5
Alignment explanation
Indices: 378274--378310 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
378264 GATGATGCAA
* *
378274 GGCAA GGCAA GGCAG GGCAG GGCAG GGCAG GGCAG GG
1 GGCAG GGCAG GGCAG GGCAG GGCAG GGCAG GGCAG GG
378311 TTTAAGCAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.57, T:0.00
Consensus pattern (5 bp):
GGCAG
Found at i:381814 original size:19 final size:18
Alignment explanation
Indices: 381780--381817 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
381770 ATCGAGTTAG
381780 TATTATTAATTAAATAAA
1 TATTATTAATTAAATAAA
381798 TATTAATTAAGTT-AATAAA
1 TATT-ATTAA-TTAAATAAA
381817 T
1 T
381818 TATTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 12 0.67
20 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TATTATTAATTAAATAAA
Found at i:383842 original size:16 final size:16
Alignment explanation
Indices: 383821--383851 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
383811 AAAATGACAC
383821 TCAAAATAATTTGAAT
1 TCAAAATAATTTGAAT
383837 TCAAAATAATTTGAA
1 TCAAAATAATTTGAA
383852 ATTGAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (16 bp):
TCAAAATAATTTGAAT
Found at i:384171 original size:190 final size:190
Alignment explanation
Indices: 383890--384243 Score: 487
Period size: 190 Copynumber: 1.9 Consensus size: 190
383880 TTGATAGTCT
* *
383890 AAACTTAATATTAAAGTTAAAATTAATGACATTTTAAATAAAAAATTGACTTTTAATTTTATTTT
1 AAACTTAATATTAAAGTTAAAATTAATGACATTTTAAATAAAAAATTGACTTCTAATTTTATTCT
*
383955 AACCTAAACATGATCCAATCAATTCAAACTTAAAATAACCCTTAAACAATTCATATTTAAAACAA
66 AACCTAAACATGATCCAATCAATTCAAACATAAAATAACCCTTAAACAATTCATATTTAAAACAA
* *
384020 TTTGATTTTAATGCTATTCAAACTCGAAATAATTGATTTGATCCAAACTCATAACAATCC
131 TTTAACTTTAATGCTATTCAAACTCGAAATAATTGATTTGATCCAAACTCATAACAATCC
* * **
384080 AAACTTAATATTATAGTTAAAATTAATGGCATTTTAAATAAAAGTTTGACTTCTAATTTTATTCT
1 AAACTTAATATTAAAGTTAAAATTAATGACATTTTAAATAAAAAATTGACTTCTAATTTTATTCT
* * * * * ** *
384145 AATCTAAATC-TTA-CTCGATTAATTCAAACATAAGATAACCCTTAAATTATTTATATTTAAAAC
66 AACCTAAA-CATGATC-CAATCAATTCAAACATAAAATAACCCTTAAACAATTCATATTTAAAAC
* ** *
384208 AATTTAACTTTAATGTTATTCTGATTCGAAATAATT
129 AATTTAACTTTAATGCTATTCAAACTCGAAATAATT
384244 CAAGTCAAAT
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
189 1 0.01
190 139 0.99
191 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.39
Consensus pattern (190 bp):
AAACTTAATATTAAAGTTAAAATTAATGACATTTTAAATAAAAAATTGACTTCTAATTTTATTCT
AACCTAAACATGATCCAATCAATTCAAACATAAAATAACCCTTAAACAATTCATATTTAAAACAA
TTTAACTTTAATGCTATTCAAACTCGAAATAATTGATTTGATCCAAACTCATAACAATCC
Found at i:385357 original size:17 final size:18
Alignment explanation
Indices: 385335--385378 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
385325 AATTAAGTAG
385335 TATTT-AATATTTAAATT
1 TATTTAAATATTTAAATT
*
385352 TATTTAAATATTTTAA-T
1 TATTTAAATATTTAAATT
*
385369 TAATTAAATA
1 TATTTAAATA
385379 GTATTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAAATATTTAAATT
Found at i:392309 original size:18 final size:16
Alignment explanation
Indices: 392288--392321 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
392278 ATTTGCTTGC
392288 TATTAAACATTTATTTAA
1 TATTAAA-ATTT-TTTAA
392306 TATTAAAATTTTTTAA
1 TATTAAAATTTTTTAA
392322 GTAAGTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAAAATTTTTTAA
Found at i:392949 original size:12 final size:11
Alignment explanation
Indices: 392932--392969 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
392922 AGTCACTTTG
392932 GTTTTTTTTTCT
1 GTTTTTTTTT-T
392944 G-TTTTTTTTT
1 GTTTTTTTTTT
392954 -TTTTTTTTTT
1 GTTTTTTTTTT
392964 GTTTTT
1 GTTTTT
392970 GTGTATGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.42
11 13 0.54
12 1 0.04
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:392950 original size:11 final size:10
Alignment explanation
Indices: 392934--392969 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
392924 TCACTTTGGT
392934 TTTTTTTTCTG
1 TTTTTTTT-TG
*
392945 TTTTTTTTTT
1 TTTTTTTTTG
392955 TTTTTTTTTG
1 TTTTTTTTTG
392965 TTTTT
1 TTTTT
392970 GTGTATGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:393064 original size:21 final size:21
Alignment explanation
Indices: 393038--393081 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
393028 GAGTCTTGAG
* *
393038 AATATCCTCATTCATGGATTT
1 AATATCCACATTCATGAATTT
*
393059 AATATCCACATTTATGAATTT
1 AATATCCACATTCATGAATTT
393080 AA
1 AA
393082 AGTTCCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (21 bp):
AATATCCACATTCATGAATTT
Found at i:395987 original size:22 final size:20
Alignment explanation
Indices: 395959--396003 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
395949 AATTATATTT
395959 AATTTAATTTAATTTGATTTAA
1 AATTTAATTTAA-TT-ATTTAA
*
395981 AATTTAATTTTATTATTTAA
1 AATTTAATTTAATTATTTAA
396001 AAT
1 AAT
396004 ATATTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 2 0.09
22 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
AATTTAATTTAATTATTTAA
Found at i:396628 original size:17 final size:18
Alignment explanation
Indices: 396608--396651 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
396598 AATTTAGTAA
396608 TATTT-AATATTTAAATT
1 TATTTAAATATTTAAATT
*
396625 TATTTAAATATTTTAA-T
1 TATTTAAATATTTAAATT
*
396642 TAATTAAATA
1 TATTTAAATA
396652 GTTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAAATATTTAAATT
Found at i:396665 original size:19 final size:17
Alignment explanation
Indices: 396613--396656 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
396603 AGTAATATTT
* *
396613 AATATTTAAATTTATTTA
1 AATATTTTAA-TTAATTA
396631 AATATTTTAATTAATTA
1 AATATTTTAATTAATTA
396648 AATAGTTTT
1 AATA-TTTT
396657 TATATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AATATTTTAATTAATTA
Found at i:398792 original size:27 final size:27
Alignment explanation
Indices: 398762--398813 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
398752 CTAGATCTGA
*
398762 CTTAATCAATTTAAACTTAAAATAACT
1 CTTAAACAATTTAAACTTAAAATAACT
* * *
398789 CTTAAACTATTTATATTTAAAATAA
1 CTTAAACAATTTAAACTTAAAATAA
398814 TTTGATTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (27 bp):
CTTAAACAATTTAAACTTAAAATAACT
Found at i:398817 original size:188 final size:190
Alignment explanation
Indices: 398468--398844 Score: 503
Period size: 188 Copynumber: 2.0 Consensus size: 190
398458 AAATTTGAAA
* ** * *
398468 TTGATTTAATCTAAACTCATAAGGGTCTAAACTTAATATTAAAGTTAAAATTAATGACATTTTAA
1 TTGATTTAATCCAAACTCATAAGAATCCAAACTTAATATTAAAGTTAAAATTAATGACACTTTAA
* * * * * *
398533 ACAAAAATTTGGCTTTTAATTTTATTTTAACTTAAATGTGATTCAATTAATTTAAATTTAAAATA
66 ACAAAAATTTGACTTCTAATTTGATTTTAACTTAAATCTGATTCAATCAATTTAAACTTAAAATA
*
398598 ACCTATAAACAATTCATATTTAAAATAATTTGATT-TAATGCTATTCAAATCCGAAATAG
131 ACCTATAAACAATTCATATTTAAAATAATTTGATTCTAACGCTATTCAAATCCGAAATAG
* *
398657 TTGATTTGATCCAAACTCATAAGAATCCAAACTTAATATTATAGTTAAAATT-ATGACACTTTAA
1 TTGATTTAATCCAAACTCATAAGAATCCAAACTTAATATTAAAGTTAAAATTAATGACACTTTAA
* * * *
398721 ATACAAATTTGACTTCTAATTTGATCTTTATC-TAGATCTGACTT-AATCAATTTAAACTTAAAA
66 ACAAAAATTTGACTTCTAATTTGAT-TTTAACTTAAATCTGA-TTCAATCAATTTAAACTTAAAA
* * *
398784 TAACTCT-TAAACTATTTATATTTAAAATAATTTGATTCTAACGCTATTCAAATTCGAAATA
129 TAAC-CTATAAACAATTCATATTTAAAATAATTTGATTCTAACGCTATTCAAATCCGAAATA
398845 ATTCAAGTTA
Statistics
Matches: 163, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
188 87 0.53
189 76 0.47
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (190 bp):
TTGATTTAATCCAAACTCATAAGAATCCAAACTTAATATTAAAGTTAAAATTAATGACACTTTAA
ACAAAAATTTGACTTCTAATTTGATTTTAACTTAAATCTGATTCAATCAATTTAAACTTAAAATA
ACCTATAAACAATTCATATTTAAAATAATTTGATTCTAACGCTATTCAAATCCGAAATAG
Found at i:399890 original size:27 final size:26
Alignment explanation
Indices: 399855--399908 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
399845 AAATATAATT
399855 TAATAAATTTTAAT-TAT-TATTTATTA
1 TAATAAA-TTTAATATATAT-TTTATTA
399881 TAATATAATTTAATATATATTTTATTA
1 TAATA-AATTTAATATATATTTTATTA
399908 T
1 T
399909 TTTATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 11 0.44
27 13 0.52
28 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TAATAAATTTAATATATATTTTATTA
Found at i:400066 original size:22 final size:23
Alignment explanation
Indices: 400032--400089 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
400022 AATATATATT
* *
400032 TTACTATTAATTTTAATTTTATTG
1 TTACTAAT-ATTTTAATTTCATTG
400056 TTA-TAATA-TTTAATTTCATTG
1 TTACTAATATTTTAATTTCATTG
*
400077 TTACTATTATTTT
1 TTACTAATATTTT
400090 TAATCTCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 15 0.52
22 5 0.17
23 6 0.21
24 3 0.10
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.62
Consensus pattern (23 bp):
TTACTAATATTTTAATTTCATTG
Found at i:400069 original size:21 final size:22
Alignment explanation
Indices: 400039--400088 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
400029 ATTTTACTAT
*
400039 TAAT-TTTAATTTTATTGTTA-
1 TAATATTTAATTTCATTGTTAC
400059 TAATATTTAATTTCATTGTTAC
1 TAATATTTAATTTCATTGTTAC
*
400081 TATTATTT
1 TAATATTT
400089 TTAATCTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 4 0.15
21 15 0.58
22 7 0.27
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (22 bp):
TAATATTTAATTTCATTGTTAC
Found at i:400496 original size:19 final size:18
Alignment explanation
Indices: 400470--400508 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
400460 GATAATTTAC
* *
400470 AAAAAAAATTATAAATAA
1 AAAAAAAATAAAAAATAA
400488 AAAATAAAATAAAAAATAA
1 AAAA-AAAATAAAAAATAA
400507 AA
1 AA
400509 GGCACATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAAAAATAAAAAATAA
Found at i:400497 original size:12 final size:12
Alignment explanation
Indices: 400472--400508 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
400462 TAATTTACAA
400472 AAAAAATTATAAAT
1 AAAAAA-TA-AAAT
400486 AAAAAATAAAAT
1 AAAAAATAAAAT
400498 AAAAAATAAAA
1 AAAAAATAAAA
400509 GGCACATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 15 0.65
13 2 0.09
14 6 0.26
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:402750 original size:32 final size:31
Alignment explanation
Indices: 402690--402754 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 31
402680 TTTATTGCAT
* * *
402690 TAATTTATTTTTAAACTTAAAGATAATTTTAA
1 TAATTTATTATTAAACATAAAGACAA-TTTAA
* *
402722 TAATTTATTATTCAACATAAATACAATTTAA
1 TAATTTATTATTAAACATAAAGACAATTTAA
402753 TA
1 TA
402755 TAAATTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (31 bp):
TAATTTATTATTAAACATAAAGACAATTTAA
Found at i:402788 original size:16 final size:16
Alignment explanation
Indices: 402738--402790 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
402728 ATTATTCAAC
*
402738 ATAAATACAATTTAAT
1 ATAAATATAATTTAAT
**
402754 ATAAATTTTATTGTTTAAT
1 ATAAA---TATAATTTAAT
402773 ATAAATATAATTTAAT
1 ATAAATATAATTTAAT
402789 AT
1 AT
402791 TTTTAATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 16 0.55
19 13 0.45
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
ATAAATATAATTTAAT
Found at i:403339 original size:7 final size:7
Alignment explanation
Indices: 403328--403372 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
403318 CAAAATAAAA
403328 AATATTT
1 AATATTT
*
403335 TATATTT
1 AATATTT
403342 AATATTT
1 AATATTT
*
403349 AATAATT
1 AATATTT
403356 AATAATTT
1 AAT-ATTT
*
403364 AATTTTT
1 AATATTT
403371 AA
1 AA
403373 AATATATCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATATTT
Found at i:407412 original size:19 final size:19
Alignment explanation
Indices: 407390--407426 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
407380 AAATTATTTC
407390 AATTAATTAAAATATCATA
1 AATTAATTAAAATATCATA
* *
407409 AATTATTTTAAATATCAT
1 AATTAATTAAAATATCAT
407427 TAAAAATCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATTAAAATATCATA
Found at i:419041 original size:21 final size:21
Alignment explanation
Indices: 419017--419085 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
419007 TTTCAAGCAT
419017 TTTTTTTGAAAGATAAAAATA
1 TTTTTTTGAAAGATAAAAATA
* * * * **
419038 TTTTTATGATATATACAAGCA
1 TTTTTTTGAAAGATAAAAATA
*
419059 TTTTTTTGAGAGATAAAAAATA
1 TTTTTTTGAAAGAT-AAAAATA
419081 TTTTT
1 TTTTT
419086 ATGATGTGTG
Statistics
Matches: 35, Mismatches: 12, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
21 26 0.74
22 9 0.26
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTTTTTGAAAGATAAAAATA
Found at i:419154 original size:22 final size:21
Alignment explanation
Indices: 419113--419155 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
419103 TATATATATA
*
419113 TCATATTTTTTGAAATAAAAT
1 TCATATTATTTGAAATAAAAT
419134 TCATATTAATTTGCAAA-AAAAT
1 TCATATT-ATTTG-AAATAAAAT
419156 GAAGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TCATATTATTTGAAATAAAAT
Found at i:419227 original size:15 final size:15
Alignment explanation
Indices: 419204--419247 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
419194 CTTTTATTAA
419204 TTTGAAAAAATTGAT
1 TTTGAAAAAATTGAT
*
419219 TTTGCAAAAATTGAT
1 TTTGAAAAAATTGAT
419234 TTT-AAAAAATTGAT
1 TTTGAAAAAATTGAT
419248 AATTAAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (15 bp):
TTTGAAAAAATTGAT
Found at i:421244 original size:6 final size:5
Alignment explanation
Indices: 421196--421276 Score: 51
Period size: 6 Copynumber: 15.4 Consensus size: 5
421186 ATCAGAACTC
* *
421196 ATAT- ATATA TATATA TATATA CATATA ATATT AT-TA GTATA ATTATA
1 ATATA ATATA -ATATA -ATATA -ATATA ATATA ATATA ATATA A-TATA
*
421243 ATATAA AAATA ATATAA ATATA ATA-A ATAGTA AT
1 ATAT-A ATATA ATAT-A ATATA ATATA ATA-TA AT
421277 TATTAACAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
4 10 0.16
5 19 0.31
6 33 0.53
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:421693 original size:27 final size:28
Alignment explanation
Indices: 421634--421701 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 28
421624 ATTTAAAAAA
421634 TTTAATAAATAATAATATATTAATTATTAT
1 TTTAATAAA-AATAATATATTAATTA-TAT
421664 TTTAATAAAAATAATAT-TTAATTA-AGT
1 TTTAATAAAAATAATATATTAATTATA-T
421691 TTTAA-AAAAAT
1 TTTAATAAAAAT
421702 TACATTAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.19
27 6 0.16
28 7 0.19
29 8 0.22
30 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTAATAAAAATAATATATTAATTATAT
Found at i:421746 original size:131 final size:128
Alignment explanation
Indices: 421611--422007 Score: 367
Period size: 131 Copynumber: 3.1 Consensus size: 128
421601 ATTATTTTTT
* * **
421611 ATAAATTAATTAAATTTAAAAAATTTAATAAATAATAATATATTAATTATTATTTTAAT-AAAAA
1 ATAAA-TAATTAAATTTAAAAAATTTAATAAATAATTAT-TATTAATT-TTAATAAAATAAAAAA
* *
421675 TAATATTTAATTAAGTTTTAAAAAAATTACATTAACAAATTAGAATATCAATTATTAT-TTTTTA
63 TAATATTTAATTAAGTTTTAAAAAAATTA-ATTAACAAATTAAAATATTAATTATTATGTTTTT-
421739 AAA
126 AAA
*
421742 ATAAAAAATTTTAAA--TAAAAAAGGGTTT--T---T--TTATTATTAATTTTAATAAAATAAAA
1 ATAAATAA--TTAAATTTAAAAAA---TTTAATAAATAATTATTATTAATTTTAATAAAATAAAA
421798 AATAATATTTAATTAA-TTTTAAAAAAATTTAATTAACAAATTAAAATATTAATTATTATGTTTT
61 AATAATATTTAATTAAGTTTTAAAAAAA-TTAATTAACAAATTAAAATATTAATTATTATGTTTT
*
421862 TATA
125 TAAA
* ** * * *
421866 A-AAATAA-AAAATTTTAAAATAAAATAAAAAAGT-TTTTTTATTATAATTTTTAATAAAATAAA
1 ATAAATAATTAAA-TTTAAAA-AATTTAATAAA-TAATTATTA-T-TAA-TTTTAATAAAATAAA
421928 AAATAATATTTAATTAAG-TTTAAAAAAATTATATTAACAAATTAAAATATTAATTATTATGTTT
60 AAATAATATTTAATTAAGTTTTAAAAAAATTA-ATTAACAAATTAAAATATTAATTATTATG-TT
421992 TTTAAA
123 TTTAAA
* *
421998 ACAAAAAATT
1 ATAAATAATT
422008 TTAAATTAAA
Statistics
Matches: 222, Mismatches: 17, Indels: 51
0.77 0.06 0.18
Matches are distributed among these distances:
120 3 0.01
121 1 0.00
123 10 0.05
124 49 0.22
125 35 0.16
126 3 0.01
127 1 0.00
128 6 0.03
129 1 0.00
130 15 0.07
131 77 0.35
132 13 0.06
133 8 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (128 bp):
ATAAATAATTAAATTTAAAAAATTTAATAAATAATTATTATTAATTTTAATAAAATAAAAAATAA
TATTTAATTAAGTTTTAAAAAAATTAATTAACAAATTAAAATATTAATTATTATGTTTTTAAA
Found at i:422043 original size:131 final size:127
Alignment explanation
Indices: 421670--422047 Score: 523
Period size: 131 Copynumber: 2.9 Consensus size: 127
421660 TTATTTTAAT
* * *
421670 AAAAATAATATTTAATTAAGTTTTAAAAAAATTACATTAACAAATTAGAATATCAATTATTAT-T
1 AAAAATAATATTTAATTAAG-TTTAAAAAAATTATATTAACAAATTAAAATATTAATTATTATGT
* ** *
421734 TTTTAAAAATAAAAAATTTTAAA-TAAAAAAGGGTTTTTTTATTATTAA-TTTTAATAAAATA
65 TTTTTAAAATAAAAAATTTTAAATTAAAAAAAAGTTTTTTTATTAATAATTTTTAATAAAATA
*
421795 AAAAATAATATTTAATTAATTTTAAAAAAATT-TAATTAACAAATTAAAATATTAATTATTATGT
1 AAAAATAATATTTAATTAAGTTTAAAAAAATTAT-ATTAACAAATTAAAATATTAATTATTATGT
*
421859 TTTTATAAAAATAAAAAATTTTAAAATAAAATAAAAAAGTTTTTTTATT-ATAATTTTTAATAAA
65 TTTT-T-AAAATAAAAAATTTT-AAAT-TAA-AAAAAAGTTTTTTTATTAATAATTTTTAATAAA
421923 ATA
125 ATA
421926 AAAAATAATATTTAATTAAGTTTAAAAAAATTATATTAACAAATTAAAATATTAATTATTATGTT
1 AAAAATAATATTTAATTAAGTTTAAAAAAATTATATTAACAAATTAAAATATTAATTATTATGTT
* *
421991 TTTTAAAACAAAAAATTTTAAATTAAAGAAAATGTTTTTATTATAATAATAATTTTT
66 TTTTAAAATAAAAAATTTTAAATTAAA-AAAAAGTTTTT-TTAT--TAATAATTTTT
422048 TTAATTCCTT
Statistics
Matches: 225, Mismatches: 13, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
124 38 0.17
125 24 0.11
126 1 0.00
127 27 0.12
128 11 0.05
129 14 0.06
130 7 0.03
131 102 0.45
132 1 0.00
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (127 bp):
AAAAATAATATTTAATTAAGTTTAAAAAAATTATATTAACAAATTAAAATATTAATTATTATGTT
TTTTAAAATAAAAAATTTTAAATTAAAAAAAAGTTTTTTTATTAATAATTTTTAATAAAATA
Found at i:422669 original size:96 final size:94
Alignment explanation
Indices: 422421--422865 Score: 467
Period size: 92 Copynumber: 4.7 Consensus size: 94
422411 GTATGGATTA
* * *
422421 TAAATGTCAGATTACAAAGATTA-ATTAATGCATAAATTATATTTGAGAATCAGATTCTTTTTTA
1 TAAATGTCAGACTGCAAGGATTAGATTAATGCATAAATTATATTTGAGAATCAGATTCTTTTTTA
*
422485 TAGAAAAAAAAAAGAAAAGTTGGTTGATTGATTGATTG
66 TA-AAAAATAAAAGAAAA----GTTGATTGA--G--TG
* * * * *
422523 TAGATGTCAGATTGTAAGGATTAGACTAATGCATAAATTATATTTGAGAATCGGATTCTTTTTTT
1 TAAATGTCAGACTGCAAGGATTAGATTAATGCATAAATTATATTTGAGAATCAGATTC-TTTTTT
422588 ATAAAAAAGTAAAAGAAAAGTTGATTGAGTG
65 ATAAAAAA-TAAAAGAAAAGTTGATTGAGTG
* * * *
422619 TAAATGTTAAACTGCAAGGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTCTTTATTA
1 TAAATGTCAGACTGCAAGGATTAGATTAATGCATAAATTATATTTGAGAATCAGATTCTTTTTTA
* *
422684 T-AGAAA-AAAAGAAAAGTCGATTGAGTG
66 TAAAAAATAAAAGAAAAGTTGATTGAGTG
* * *
422711 TAAATGTCAGA-TAGCAAGAATCAGACTT-ATGCATGAATTATATTTGAGAATCAGATTCTTTTT
1 TAAATGTCAGACT-GCAAGGATTAGA-TTAATGCATAAATTATATTTGAGAATCAGATTCTTTTT
* * *
422774 TAT-AAAAAT-AAAGAAAAGTTAATTTATTG
64 TATAAAAAATAAAAGAAAAGTTGATTGAGTG
* * * * *
422803 TAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATA-CTGATAATC-GAATTCTTTTTT
1 TAAATGTCAGACTGCAAGGATTAGATTAATGCATAAATTATATTTGAGAATCAG-ATTCTTTTTT
422866 TATAGAATGC
Statistics
Matches: 298, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
90 1 0.00
91 19 0.06
92 128 0.43
93 3 0.01
94 4 0.01
95 7 0.02
96 52 0.17
98 1 0.00
100 9 0.03
102 19 0.06
103 37 0.12
104 18 0.06
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (94 bp):
TAAATGTCAGACTGCAAGGATTAGATTAATGCATAAATTATATTTGAGAATCAGATTCTTTTTTA
TAAAAAATAAAAGAAAAGTTGATTGAGTG
Found at i:422760 original size:188 final size:187
Alignment explanation
Indices: 422421--422872 Score: 529
Period size: 184 Copynumber: 2.4 Consensus size: 187
422411 GTATGGATTA
* * * *
422421 TAAATGTCAGATTACAAAGATTA-ATTAATGCATAAATTATATTTGAGAATCAGATTCTTTTTTA
1 TAAATGTCAAACTGCAAAGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTCTTTTTTA
* * * * * *
422485 TAGAAAAAAAAAAGAAAAGTTGGTTGATTGATTGATTGTAGATGTCAGATTGTAAGGATTAGACT
66 TAG---AAAAAAAGAAAA---GGTCGATTGA-TGA-TGTAAATGTCAGATAGCAAGAATCAGACT
* *
422550 AATGCATAAATTATATTTGAGAATCGGATTCTTTTTTTATAAAAAAGTAAAAGAAAAGTTGATTG
123 AATGCATAAATTATATTTGAGAATCAGATTC-TTTTTTAT-AAAAA-T-AAAGAAAAGTTAATTG
422615 AGTG
184 AGTG
* * *
422619 TAAATGTTAAACTGCAAGGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTCTTTATTA
1 TAAATGTCAAACTGCAAAGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTCTTTTTTA
* *
422684 TAGAAAAAAAGAAAA-GTCGATTGA-G-TGTAAATGTCAGATAGCAAGAATCAGACTTATGCATG
66 TAGAAAAAAAGAAAAGGTCGATTGATGATGTAAATGTCAGATAGCAAGAATCAGACTAATGCATA
* *
422746 AATTATATTTGAGAATCAGATTCTTTTTTATAAAAATAAAGAAAAGTTAATTTATTG
131 AATTATATTTGAGAATCAGATTCTTTTTTATAAAAATAAAGAAAAGTTAATTGAGTG
* * * *
422803 TAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATA-CTGATAATC-GAATTCTTTTTT
1 TAAATGTCAAACTGCAAAGATTAGATTAATGCATAAATTATATCTGAGAATCAG-ATTC-TTTTT
422866 TATAGAA
64 TATAGAA
422873 TGCAAGGATT
Statistics
Matches: 225, Mismatches: 26, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
182 1 0.00
183 12 0.05
184 65 0.29
185 1 0.00
186 5 0.02
187 8 0.04
188 52 0.23
190 1 0.00
192 8 0.04
196 12 0.05
198 18 0.08
199 42 0.19
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (187 bp):
TAAATGTCAAACTGCAAAGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTCTTTTTTA
TAGAAAAAAAGAAAAGGTCGATTGATGATGTAAATGTCAGATAGCAAGAATCAGACTAATGCATA
AATTATATTTGAGAATCAGATTCTTTTTTATAAAAATAAAGAAAAGTTAATTGAGTG
Found at i:422923 original size:58 final size:58
Alignment explanation
Indices: 422815--422930 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
422805 AATGTCAGAC
* * * *
422815 TGCAAAGATTAGACTAATGCATGAATTATACTGATAATCGAATTCTTTTTTTATAGAA
1 TGCAAAGATTAGACTAATGCATAAATTATAATGAGAAGCGAATTCTTTTTTTATAGAA
* *
422873 TGCAAGGATTAGACTAATGCATAAATTATATATGAGAAGCGGATTC-TTTTTTATAGAA
1 TGCAAAGATTAGACTAATGCATAAATTATA-ATGAGAAGCGAATTCTTTTTTTATAGAA
422931 AAAAAAGTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 40 0.78
59 11 0.22
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (58 bp):
TGCAAAGATTAGACTAATGCATAAATTATAATGAGAAGCGAATTCTTTTTTTATAGAA
Found at i:423010 original size:146 final size:149
Alignment explanation
Indices: 422724--423011 Score: 368
Period size: 146 Copynumber: 1.9 Consensus size: 149
422714 ATGTCAGATA
* * * *
422724 GCAAGAATCAGACTTATGCATGAATTATATTTGAGAATCAGATTCTTTTTTATAAAAATAAAGAA
1 GCAAGAATCAGACTAATGCATAAATTATATATGAGAAGCAGATTCTTTTTTAT-AAAATAAAGAA
* * * *
422789 AAGTTAATTTATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATACTGATAATC
65 AAGTTAATTGAGTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATAATGAGAATC
422854 GAATTCTTTTTTTATAGAAT
130 GAATTCTTTTTTTATAGAAT
* * * *
422874 GCAAGGATTAGACTAATGCATAAATTATATATGAGAAGCGGATTCTTTTTTAT-AGA-AAA-AAA
1 GCAAGAATCAGACTAATGCATAAATTATATATGAGAAGCAGATTCTTTTTTATAAAATAAAGAAA
* * * * *
422936 AGTTGATTGGGTGTAAATGTCATACTGCAAGGATTAGATTAATGCATGAATTATATATGAGAATC
66 AGTTAATTGAGTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATA-ATGAGAATC
*
423001 GGATT-TTTTTT
130 GAATTCTTTTTT
423012 ATAAAAAGAA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
146 57 0.48
147 14 0.12
148 2 0.02
150 46 0.39
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (149 bp):
GCAAGAATCAGACTAATGCATAAATTATATATGAGAAGCAGATTCTTTTTTATAAAATAAAGAAA
AGTTAATTGAGTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATAATGAGAATCG
AATTCTTTTTTTATAGAAT
Found at i:423070 original size:92 final size:91
Alignment explanation
Indices: 422873--423120 Score: 265
Period size: 92 Copynumber: 2.7 Consensus size: 91
422863 TTTTATAGAA
* *
422873 TGCAAGGATTAGACTAATGCATAAATTATATATGAGAAGCGGATTCTTTTTTAT----AGAA-AA
1 TGCAAGGATTAGATTAATGCAT-AATTATATATGAGAATCGGATT-TTTTTTATAAAAAGAAGAA
* * * * *
422933 AAAAGTTGATTGGGTGTAAATGTCATAC
64 AAAAATTGATTGAGTATAAATATCAAAC
422961 TGCAAGGATTAGATTAATGCATGAATTATATATGAGAATCGGATTTTTTTTATAAAAAGAAGAAA
1 TGCAAGGATTAGATTAATGCAT-AATTATATATGAGAATCGGATTTTTTTTATAAAAAGAAGAAA
*
423026 AAAATTGATTGATTATAAATATCAAAC
65 AAAATTGATTGAGTATAAATATCAAAC
* * * ** *
423053 TGTTAA-GATTAGATTAATACATAGATTATATTTGAGAATCAAATTTCTTTTTATAGAAAAGCAG
1 TG-CAAGGATTAGATTAATGCATA-ATTATATATGAGAATCGGATTT-TTTTTATA-AAAAGAAG
423117 AAAA
62 AAAA
423121 GTTGATTTAT
Statistics
Matches: 136, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
87 8 0.06
88 42 0.31
91 5 0.04
92 60 0.44
93 10 0.07
94 11 0.08
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (91 bp):
TGCAAGGATTAGATTAATGCATAATTATATATGAGAATCGGATTTTTTTTATAAAAAGAAGAAAA
AAATTGATTGAGTATAAATATCAAAC
Found at i:423106 original size:238 final size:240
Alignment explanation
Indices: 422631--423110 Score: 596
Period size: 238 Copynumber: 2.0 Consensus size: 240
422621 AATGTTAAAC
* * *
422631 TGCAAGGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTCTTTATTATAGAAAAAAAGA
1 TGCAAGGATTAGACTAATGCATAAATTATATATGAGAAGCAGATTCTTTATTATAG--AAAAAGA
*
422696 AAAGTCGATTGAGTGTAAATGTCAGATAGCAAGAATCAGACTTATGCATGAATTATATTTGAGAA
64 AAAGTCGATTGAGTGTAAATGTCAGATAGCAAGAATCAGACTTATGCATGAATTATATATGAGAA
* * * * * * *
422761 TCAGATTCTTTTTTATAAAAATAAAGAAAAGTTAATTTATTGTAAATGTCAGACTGCAAAGATTA
129 TCAGATTCTTTTTTATAAAAAGAAAAAAAAATTAATTGATTATAAATATCAAACTGCAAAGATTA
* * * *
422826 GACTAATGCATGAATTATACTGATAATCGAATTCTTTTTTTATAGAA
194 GACTAATACATGAATTATACTGAGAATCAAATTCTCTTTTTATAGAA
* *
422873 TGCAAGGATTAGACTAATGCATAAATTATATATGAGAAGCGGATTCTTTTTTATAG-AAAA-AAA
1 TGCAAGGATTAGACTAATGCATAAATTATATATGAGAAGCAGATTCTTTATTATAGAAAAAGAAA
* * * * *
422936 AGTTGATTGGGTGTAAATGTCATACT-GCAAGGATTAGA-TTAATGCATGAATTATATATGAGAA
66 AGTCGATTGAGTGTAAATGTCAGA-TAGCAAGAATCAGACTT-ATGCATGAATTATATATGAGAA
* * **
422999 TCGGATT-TTTTTTATAAAAAGAAGAAAAAAATTGATTGATTATAAATATCAAACTGTTAAGATT
129 TCAGATTCTTTTTTATAAAAAGAA-AAAAAAATTAATTGATTATAAATATCAAACTGCAAAGATT
* *
423063 AGATTAATACAT-AGATTATATTTGAGAATCAAATT-TCTTTTTATAGAA
193 AGACTAATACATGA-ATTATA-CTGAGAATCAAATTCTCTTTTTATAGAA
423111 AAGCAGAAAA
Statistics
Matches: 205, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
237 18 0.09
238 120 0.59
239 16 0.08
242 51 0.25
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (240 bp):
TGCAAGGATTAGACTAATGCATAAATTATATATGAGAAGCAGATTCTTTATTATAGAAAAAGAAA
AGTCGATTGAGTGTAAATGTCAGATAGCAAGAATCAGACTTATGCATGAATTATATATGAGAATC
AGATTCTTTTTTATAAAAAGAAAAAAAAATTAATTGATTATAAATATCAAACTGCAAAGATTAGA
CTAATACATGAATTATACTGAGAATCAAATTCTCTTTTTATAGAA
Found at i:425277 original size:44 final size:44
Alignment explanation
Indices: 425224--425380 Score: 253
Period size: 44 Copynumber: 3.5 Consensus size: 44
425214 ATTGGATTTT
*
425224 GGTTTAAGTTTATATAAATTTTTATTTAGATTTTAATTAGTTTG
1 GGTTTAAGTTTATATAGATTTTTATTTAGATTTTAATTAGTTTG
*
425268 GGTTTAAGTTTATATAGATTTTTATTTAGATTTTAATTGGGTTTG
1 GGTTTAAGTTTATATAGATTTTTATTTAGATTTTAATT-AGTTTG
* *
425313 GGTTTAAG-TTATATAGATTTATAGTTAGATTTTAATTAGGTTTG
1 GGTTTAAGTTTATATAGATTTTTATTTAGATTTTAATTA-GTTTG
425357 GGTTTAAGTTTATATAGATTTTTA
1 GGTTTAAGTTTATATAGATTTTTA
425381 GTTTGTTTTA
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
44 77 0.74
45 27 0.26
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (44 bp):
GGTTTAAGTTTATATAGATTTTTATTTAGATTTTAATTAGTTTG
Found at i:425295 original size:22 final size:22
Alignment explanation
Indices: 425226--425295 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
425216 TGGATTTTGG
*
425226 TTTAAGTTTATATAAATTTTTA
1 TTTAAGTTTATATAGATTTTTA
* ***
425248 TTTAGATTTTA-ATTAG-TTTGGG
1 TTTA-AGTTTATA-TAGATTTTTA
425270 TTTAAGTTTATATAGATTTTTA
1 TTTAAGTTTATATAGATTTTTA
425292 TTTA
1 TTTA
425296 GATTTTAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 8 0.23
22 20 0.57
23 7 0.20
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTAAGTTTATATAGATTTTTA
Found at i:425317 original size:89 final size:89
Alignment explanation
Indices: 425212--425380 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
425202 TGTTTTTTTG
* * *
425212 TAATTGGATTTTGGTTTAAGTTTATATAAATTTTTATTTAGATTTTAATTA-GTTTGGGTTTAAG
1 TAATTGGATTTGGGTTTAAG-TTATATAAATTTATAGTTAGATTTTAATTAGGTTTGGGTTTAAG
425276 TTTATATAGATTTTTATTTAGATTT
65 TTTATATAGATTTTTATTTAGATTT
* *
425301 TAATTGGGTTTGGGTTTAAGTTATATAGATTTATAGTTAGATTTTAATTAGGTTTGGGTTTAAGT
1 TAATTGGATTTGGGTTTAAGTTATATAAATTTATAGTTAGATTTTAATTAGGTTTGGGTTTAAGT
425366 TTATATAGATTTTTA
66 TTATATAGATTTTTA
425381 GTTTGTTTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
88 27 0.36
89 47 0.64
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (89 bp):
TAATTGGATTTGGGTTTAAGTTATATAAATTTATAGTTAGATTTTAATTAGGTTTGGGTTTAAGT
TTATATAGATTTTTATTTAGATTT
Found at i:425408 original size:89 final size:88
Alignment explanation
Indices: 425225--425411 Score: 234
Period size: 89 Copynumber: 2.1 Consensus size: 88
425215 TTGGATTTTG
* *
425225 GTTTAAGTTTATATAAATTTTTATTTAGATTTTAATTAGTTTGGGTTTAAGTTTATATAGATTTT
1 GTTTAAG-TTATATAAATTTATAGTTAGATTTTAATTAGTTTGGGTTTAAGTTTATATAGATTTT
** * ***
425290 TATTTAGATTTTAATTGGGTTTGG
65 TATTTAGATTTTAACAGGCTTAAC
*
425314 GTTTAAGTTATATAGATTTATAGTTAGATTTTAATTAGGTTTGGGTTTAAGTTTATATAGATTTT
1 GTTTAAGTTATATAAATTTATAGTTAGATTTTAATTA-GTTTGGGTTTAAGTTTATATAGATTTT
425379 TAGTTT-G-TTTTAAACAGGCTTAAC
65 TA-TTTAGATTTT-AACAGGCTTAAC
*
425403 TTTTAAGTT
1 GTTTAAGTT
425412 TAATTTATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
88 31 0.36
89 51 0.60
90 3 0.04
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (88 bp):
GTTTAAGTTATATAAATTTATAGTTAGATTTTAATTAGTTTGGGTTTAAGTTTATATAGATTTTT
ATTTAGATTTTAACAGGCTTAAC
Found at i:426190 original size:24 final size:25
Alignment explanation
Indices: 426163--426212 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
426153 GCTCTAAACA
426163 TTTAAGAAAAAGAAAATTTG-CCTT
1 TTTAAGAAAAAGAAAATTTGTCCTT
426187 TTTAAGAAAAAGAAAATTTGTCCTT
1 TTTAAGAAAAAGAAAATTTGTCCTT
426212 T
1 T
426213 CCCAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (25 bp):
TTTAAGAAAAAGAAAATTTGTCCTT
Found at i:427081 original size:165 final size:165
Alignment explanation
Indices: 426838--427631 Score: 980
Period size: 165 Copynumber: 4.8 Consensus size: 165
426828 TTTTTTTCTT
* * * *
426838 CGTAAA-TTTTTTCGGAGATTTTT-TTTGTTTTTAATTTTTAAAATTCATAAAATATTATTCTTT
1 CGTAAATTTTTTTGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATTT
* *
426901 AATTCATATTAAATCAGTTTTAAAAAACTT-ATTCACTTTT-ATGAGTTTTTGAATTTTTTCTTG
66 ATTTCATATTAAATCAGTTTTCAAAAA-TTCATTCA-TTTTCATGAGTTTTTGAATTTTTTCTTG
** *
426964 AAATTTTCTTATTTTTAAAATATGGAGTTTTCTACT-C
129 AAATTTTCTTATTTCCAAAATACGGAGTTTTCTA-TAC
* * *
427001 CGTAAATTTTTTTGGGGGATTTTTCTTGGTATTTAATTTTTAAAATCCACAAAATATTATTATTT
1 CGTAAATTTTTTTGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATTT
* * * * *
427066 ATTTAATAGTAAATCATTTTTTAAAAATTCATTCATTTTCATAAGTTTTTGAATTTTTTCCTTGA
66 ATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTT-CTTGA
*
427131 AA-TTTCTCTGTTTCCAAAATACGGAGTTTTCTACT-C
130 AATTTTCT-TATTTCCAAAATACGGAGTTTTCTA-TAC
*
427167 CGTAAATTTTGTTAGGGAGATTTTT-TCTGGTTTTTAATTTTTAAAATCCATAAAATATTATTAT
1 CGTAAATTTT-TTTGGGAGATTTTTCT-TGGTTTTTAATTTTTAAAATCCATAAAATATTATTAT
* * *
427231 TTATTTCATATTAAATTATTTTTTAAAAATGT-ATTCATTTTCATGAGTTTTTGAATTTTTTTCT
64 TTATTTCATATTAAATCAGTTTTCAAAAAT-TCATTCATTTTCATGAGTTTTTGAA-TTTTTTCT
* ** *
427295 TGAAATTTTCCTATTTCTGAAATACAGAGTTTTCTATAC
127 TGAAATTTTCTTATTTCCAAAATACGGAGTTTTCTATAC
* *
427334 TGTAAA-TTTTTTAGGAGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATTT
1 CGTAAATTTTTTTGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATTT
* *
427398 ATTTCATATTAAATCTGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAACTTTTTCTTTGA
66 ATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTC-TTGA
* * * * * *
427463 AATTTTCTTGTTTTCGAAATATGAAATTTTCTATAC
130 AATTTTCTTATTTCCAAAATACGGAGTTTTCTATAC
* * ** * *
427499 CGTAAATTTTTTGGGGGGGATTTTTCTTGGCATTTAATTTTT-TAATTCATAAAATATTATTATT
1 CGTAAATTTTTT-TGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATT
* * * *
427563 TATTTCATTTTAAATCAGTTTTCAAAGATTCATTCATTTTTATGAGTTTTTGATTTTTTTCTTTG
65 TATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTC-TTG
427628 AAAT
129 AAAT
427632 CCCTATTTTT
Statistics
Matches: 554, Mismatches: 60, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
163 6 0.01
164 28 0.05
165 220 0.40
166 135 0.24
167 154 0.28
168 11 0.02
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.52
Consensus pattern (165 bp):
CGTAAATTTTTTTGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATTT
ATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAA
ATTTTCTTATTTCCAAAATACGGAGTTTTCTATAC
Found at i:427356 original size:332 final size:329
Alignment explanation
Indices: 426838--427631 Score: 1050
Period size: 332 Copynumber: 2.4 Consensus size: 329
426828 TTTTTTTCTT
* * *
426838 CGTAAATTTTTTCGGAGATTTTTT-TTGTTTTTAATTTTTAAAATTCATAAAATATTATTCTTTA
1 CGTAAATTTTTTGGGAGATTTTTTCTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTA
*
426902 ATTCATATTAAATCAGTTTTAAAAAACTTATTCACTTTTATGAGTTTTTGAA-TTTTTTCTTGAA
66 TTTCATATTAAATCAGTTTTAAAAAA-TTATTCA-TTTTATGAGTTTTTGAATTTTTTTCTTGAA
* * ** * *
426966 ATTTTCTTATTTTTAAAATATGGAGTTTTCTACTCCGTAAATTTTTTTGGGGGATTTTTCTTGGT
129 ATTTTCCTATTTCTAAAATACAGAGTTTTCTACTCCGTAAATTTTTTTAGGAGATTTTTCTTGGT
*
427031 ATTTAATTTTTAAAATCCACAAAATATTATTATTTATTTAATAGTAAATCAT-TTTTTAAAAATT
194 ATTTAATTTTTAAAATCCACAAAATATTATTATTTATTTAATAGTAAATC-TGTTTTCAAAAATT
* * *
427095 CATTCATTTTCATAAGTTTTTGAATTTTTTCCTTGAAA-TTTCTCTGTTTCCAAAATACGGAGTT
258 CATTCATTTTCATAAGTTTTTGAACTTTTTCCTTGAAATTTTCT-TGTTTCCAAAATACGAAATT
427159 TTCTACT-C
322 TTCTA-TAC
*
427167 CGTAAATTTTGTTAGGGAGATTTTTTCTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATT
1 CGTAAATTTT-TT-GGGAGATTTTTTCTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATT
* * *
427232 TATTTCATATTAAATTATTTTTTAAAAATGTATTCATTTTCATGAGTTTTTGAATTTTTTTCTTG
64 TATTTCATATTAAATCAGTTTTAAAAAAT-TATTCATTTT-ATGAGTTTTTGAATTTTTTTCTTG
* *
427297 AAATTTTCCTATTTCTGAAATACAGAGTTTTCTA-TACTGTAAA-TTTTTTAGGAGATTTTTCTT
127 AAATTTTCCTATTTCTAAAATACAGAGTTTTCTACT-CCGTAAATTTTTTTAGGAGATTTTTCTT
* * * *
427360 GGTTTTTAATTTTTAAAATCCATAAAATATTATTATTTATTTCATATTAAATCTGTTTTCAAAAA
191 GGTATTTAATTTTTAAAATCCACAAAATATTATTATTTATTTAATAGTAAATCTGTTTTCAAAAA
* * * * *
427425 TTCATTCATTTTCATGAGTTTTTGAACTTTTTCTTTGAAATTTTCTTGTTTTCGAAATATGAAAT
256 TTCATTCATTTTCATAAGTTTTTGAACTTTTTCCTTGAAATTTTCTTGTTTCCAAAATACGAAAT
427490 TTTCTATAC
321 TTTCTATAC
* ** *
427499 CGTAAATTTTTTGGGGGGGA-TTTTTCTTGGCATTTAATTTTT-TAATTCATAAAATATTATTAT
1 CGTAAATTTTTT--GGGAGATTTTTTC-TGGTTTTTAATTTTTAAAATTCATAAAATATTATTAT
* * *
427562 TTATTTCATTTTAAATCAGTTTTCAAAGATTCATTCATTTTTATGAGTTTTTG-ATTTTTTTCTT
63 TTATTTCATATTAAATCAGTTTTAAAAAATT-ATTCA-TTTTATGAGTTTTTGAATTTTTTTC-T
427626 TGAAAT
125 TGAAAT
427632 CCCTATTTTT
Statistics
Matches: 410, Mismatches: 40, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
329 10 0.02
330 12 0.03
331 93 0.23
332 245 0.60
333 50 0.12
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.52
Consensus pattern (329 bp):
CGTAAATTTTTTGGGAGATTTTTTCTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTA
TTTCATATTAAATCAGTTTTAAAAAATTATTCATTTTATGAGTTTTTGAATTTTTTTCTTGAAAT
TTTCCTATTTCTAAAATACAGAGTTTTCTACTCCGTAAATTTTTTTAGGAGATTTTTCTTGGTAT
TTAATTTTTAAAATCCACAAAATATTATTATTTATTTAATAGTAAATCTGTTTTCAAAAATTCAT
TCATTTTCATAAGTTTTTGAACTTTTTCCTTGAAATTTTCTTGTTTCCAAAATACGAAATTTTCT
ATAC
Found at i:427659 original size:332 final size:331
Alignment explanation
Indices: 426797--427712 Score: 1011
Period size: 332 Copynumber: 2.8 Consensus size: 331
426787 TGATTTTCTT
* ** * * * * * *
426797 TTGAAATTCTTTCTGTTTTTAAATTACGAGATTTTTTTCTTCGTAAATTTT-TT-CGGAGATTTT
1 TTGAAATT-TCTCTGTTTCCAAAATACGAAATTTTCTACTCCGTAAATTTTGTTAGGGAGATTTT
* ** * *
426860 TT-TTGTTTTTAATTTTTAAAATTCATAAAATATTATTCTTTAATTCATATTAAATCAGTTTTAA
65 TTCTGGCATTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTAA
* * *
426924 AAAACTTATTCACTTTTATGAGTTTTTGAATTTTTTCTTGAAATTTTCT-TATTTT-T-AAAATA
130 AAAA-TTATTCATTTTTATGAGTTTTTGATTTTTTTCTTGAAATTTCCTAT-TTTTCTGAAAA-A
* * *
426986 TGGAGTTTTCTACTCCGTAAATTTTTTTGGGGGATTTTTCTTGGTATTTAATTTTTAAAATCCAC
192 TAGAGTTTTCTA-TCCGTAAATTTTTTTAGGAGATTTTTCTTGGTATTTAATTTTTAAAATCCAC
*
427051 AAAATATTATTATTTATTTAATAGTAAATCATTTTTTAAAAATTCATTCATTTTCATAAGTTTTT
256 AAAATATTATTATTTATTTAATAGTAAATCATTTTTCAAAAATTCATTCATTTTCATAAGTTTTT
*
427116 GAATTTTTTCC
321 GAACTTTTTCC
* *
427127 TTGAAATTTCTCTGTTTCCAAAATACGGAGTTTTCTACTCCGTAAATTTTGTTAGGGAGATTTTT
1 TTGAAATTTCTCTGTTTCCAAAATACGAAATTTTCTACTCCGTAAATTTTGTTAGGGAGATTTTT
** * * * *
427192 TCTGGTTTTTAATTTTTAAAATCCATAAAATATTATTATTTATTTCATATTAAATTATTTTTTAA
66 TCTGGCATTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTAAA
* * *
427257 AAATGTATTCATTTTCATGAGTTTTTGAATTTTTTTCTTGAAATTTTCCTA--TTTCTGAAATAC
131 AAAT-TATTCATTTTTATGAGTTTTTG-ATTTTTTTCTTGAAA-TTTCCTATTTTTCTGAAAAAT
* * *
427320 AGAGTTTTCTATACTGTAAA-TTTTTTAGGAGATTTTTCTTGGTTTTTAATTTTTAAAATCCATA
193 AGAGTTTTCTAT-CCGTAAATTTTTTTAGGAGATTTTTCTTGGTATTTAATTTTTAAAATCCACA
* * *
427384 AAATATTATTATTTATTTCATATTAAATC-TGTTTTCAAAAATTCATTCATTTTCATGAGTTTTT
257 AAATATTATTATTTATTTAATAGTAAATCAT-TTTTCAAAAATTCATTCATTTTCATAAGTTTTT
*
427448 GAACTTTTTCT
321 GAACTTTTTCC
* * * * *
427459 TTGAAATTT-TCTTGTTTTCGAAATATGAAATTTTCTA-TACCGTAAATTTT-TTGGGGGGGA-T
1 TTGAAATTTCTC-TGTTTCCAAAATACGAAATTTTCTACT-CCGTAAATTTTGTT-AGGGAGATT
* *
427520 TTTTCTTGGCATTTAATTTTT-TAATTCATAAAATATTATTATTTATTTCATTTTAAATCAGTTT
63 TTTTC-TGGCATTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTT
* * *
427584 TCAAAGATTCATTCATTTTTATGAGTTTTTGATTTTTTTCTTTGAAA-TCCCTATTTTTCTCGAA
127 TAAAAAATT-ATTCATTTTTATGAGTTTTTGATTTTTTTC-TTGAAATTTCCTATTTTTCT-GAA
* * * ** * **
427648 AAATTGAGTTTTCTATTCCATAAATATTTCTCGGGAGA-TTTTCTTTGGTCTAAAATTTTTAAAA
189 AAATAGAGTTTTCTA-TCCGTAAAT-TTTTTTAGGAGATTTTTC-TTGGTATTTAATTTTTAAAA
427712 T
251 T
427713 ATATCTAATA
Statistics
Matches: 497, Mismatches: 65, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
329 37 0.07
330 20 0.04
331 99 0.20
332 268 0.54
333 38 0.08
334 35 0.07
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (331 bp):
TTGAAATTTCTCTGTTTCCAAAATACGAAATTTTCTACTCCGTAAATTTTGTTAGGGAGATTTTT
TCTGGCATTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTAAA
AAATTATTCATTTTTATGAGTTTTTGATTTTTTTCTTGAAATTTCCTATTTTTCTGAAAAATAGA
GTTTTCTATCCGTAAATTTTTTTAGGAGATTTTTCTTGGTATTTAATTTTTAAAATCCACAAAAT
ATTATTATTTATTTAATAGTAAATCATTTTTCAAAAATTCATTCATTTTCATAAGTTTTTGAACT
TTTTCC
Found at i:427929 original size:5 final size:5
Alignment explanation
Indices: 427919--427968 Score: 64
Period size: 5 Copynumber: 9.2 Consensus size: 5
427909 TTAATTCTAA
427919 TTTAT TTTAT TTTAT TTTAAT TTTGAAAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTT-AT TTT---AT TTTAT TTTAT TTTAT TTTAT
427968 T
1 T
427969 CATTTTTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 31 0.74
6 5 0.12
8 6 0.14
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTAT
Done.