Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold78
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: 2238306
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 23262 characters in sequence are not A, C, G, or T
File 2 of 15
Found at i:204337 original size:13 final size:13
Alignment explanation
Indices: 204319--204344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
204309 CAATTTCAAC
204319 CTTGTTTTGAACT
1 CTTGTTTTGAACT
204332 CTTGTTTTGAACT
1 CTTGTTTTGAACT
204345 ATTAGGTCAT
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:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
CTTGTTTTGAACT
Found at i:205927 original size:18 final size:17
Alignment explanation
Indices: 205889--205955 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 17
205879 GTATTATAAA
205889 TATATTTA-A-AATATTT
1 TATATTTATATAA-ATTT
205905 TATATTTATATAAATTT
1 TATATTTATATAAATTT
205922 TGATATATTA-AT-AA-TT
1 T-ATAT-TTATATAAATTT
*
205938 AATA-TTATATAAATTT
1 TATATTTATATAAATTT
205954 TA
1 TA
205956 AAATATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
13 3 0.07
14 2 0.05
15 5 0.12
16 13 0.31
17 8 0.19
18 8 0.19
19 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (17 bp):
TATATTTATATAAATTT
Found at i:205956 original size:17 final size:17
Alignment explanation
Indices: 205901--205956 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
205891 TATTTAAAAT
205901 ATTTT-ATATTTATATAA
1 ATTTTAATA-TTATATAA
205918 ATTTTGATATATTA-AT-A
1 ATTTT-A-ATATTATATAA
205935 A--TTAATATTATATAA
1 ATTTTAATATTATATAA
205950 ATTTTAA
1 ATTTTAA
205957 AATATATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 6 0.19
14 3 0.09
15 4 0.12
17 11 0.34
18 2 0.06
19 3 0.09
20 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTAATATTATATAA
Found at i:213458 original size:44 final size:44
Alignment explanation
Indices: 213410--213533 Score: 203
Period size: 44 Copynumber: 2.8 Consensus size: 44
213400 GGTGTTTTTA
* *
213410 TTATTTATTTTTTCGTGGATTGGCATAGTCACCTAATTGCATAT
1 TTATTTATTTTTTCGTGGATTGGCATAGCCACCCAATTGCATAT
213454 TTATTTATTTTTTCGTGGATTGGCATAGCCACCCAATTGCATAT
1 TTATTTATTTTTTCGTGGATTGGCATAGCCACCCAATTGCATAT
* * *
213498 TTATTTATTTTTCCGTGGATTGACATAACCACCCAA
1 TTATTTATTTTTTCGTGGATTGGCATAGCCACCCAA
213534 ATTCTAACAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (44 bp):
TTATTTATTTTTTCGTGGATTGGCATAGCCACCCAATTGCATAT
Found at i:214864 original size:20 final size:20
Alignment explanation
Indices: 214826--214864 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
214816 AATATTTTTT
* *
214826 AATATTTTAAATTTTTAAAC
1 AATATTTTAAACTTATAAAC
214846 AATATTTTAAACTTATAAA
1 AATATTTTAAACTTATAAA
214865 TCAGACTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATTTTAAACTTATAAAC
Found at i:215064 original size:21 final size:21
Alignment explanation
Indices: 215034--215081 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
215024 TATTTTTATT
215034 TAAAT-TTAATTAT-AAAAATA
1 TAAATATTAA-TATGAAAAATA
*
215054 TAAATATTAATATGAAATATA
1 TAAATATTAATATGAAAAATA
*
215075 TATATAT
1 TAAATAT
215082 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAATATTAATATGAAAAATA
Found at i:215077 original size:2 final size:2
Alignment explanation
Indices: 215070--215107 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
215060 TTAATATGAA
*
215070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
215108 GTTAACTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:216910 original size:3 final size:3
Alignment explanation
Indices: 216902--216933 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
216892 ACTTAAACCA
216902 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
216934 AGATTTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:217042 original size:19 final size:20
Alignment explanation
Indices: 217004--217042 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
216994 ATTAATTACA
*
217004 ATAAAATAAGATATATAAAT
1 ATAAAATAAGATATACAAAT
*
217024 ATAATATAA-ATATACAAAT
1 ATAAAATAAGATATACAAAT
217043 TATTAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAAAATAAGATATACAAAT
Found at i:217074 original size:25 final size:25
Alignment explanation
Indices: 217027--217080 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
217017 TATAAATATA
*
217027 ATATAAATATACAAATTATTAGAAT
1 ATATAAATATACAAATTATTAGAAG
* *
217052 ATATAAATGTGCAAGATTA-TAGAAG
1 ATATAAATATACAA-ATTATTAGAAG
217077 ATAT
1 ATAT
217081 GAACCCAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (25 bp):
ATATAAATATACAAATTATTAGAAG
Found at i:217224 original size:2 final size:2
Alignment explanation
Indices: 217217--217267 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
217207 TATCTGTAAC
217217 AT AT AT AT 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 AT AT AT AT
217259 AT AT AT AT A
1 AT AT AT AT A
217268 ACCGACGATT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:218571 original size:15 final size:12
Alignment explanation
Indices: 218540--218585 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
218530 ACCTTCACTG
218540 TTTCAAATTTAA
1 TTTCAAATTTAA
218552 TTTCAACATTTACTA
1 TTTCAA-ATTTA--A
*
218567 TTTCAAATTGAA
1 TTTCAAATTTAA
218579 TTTCAAA
1 TTTCAAA
218586 ATTGGCGGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 14 0.47
13 5 0.17
14 4 0.13
15 7 0.23
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (12 bp):
TTTCAAATTTAA
Found at i:224648 original size:13 final size:13
Alignment explanation
Indices: 224632--224680 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
224622 AGAGATATAA
224632 GAGAGGGATGCTT
1 GAGAGGGATGCTT
*
224645 GAGAGAGATGCTT
1 GAGAGGGATGCTT
* *
224658 AAGAGGGATACTT
1 GAGAGGGATGCTT
224671 GAGAGGGATG
1 GAGAGGGATG
224681 AGGGAGTCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.43, T:0.20
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:224651 original size:26 final size:26
Alignment explanation
Indices: 224620--224681 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
224610 AAATAATTGA
*
224620 AGAGAGAT-ATAAGAGAGGGATGCTTG
1 AGAGAGATGATAA-AGAGGGATACTTG
* *
224646 AGAGAGATGCTTAAGAGGGATACTTG
1 AGAGAGATGATAAAGAGGGATACTTG
*
224672 AGAGGGATGA
1 AGAGAGATGA
224682 GGGAGTCTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.37, C:0.05, G:0.39, T:0.19
Consensus pattern (26 bp):
AGAGAGATGATAAAGAGGGATACTTG
Found at i:224824 original size:27 final size:27
Alignment explanation
Indices: 224770--224824 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
224760 ATAATTTTTG
*
224770 ACAAATAAAAAAGAACCATCATTTTTT
1 ACAAATAAAAAAGAACCATCATTGTTT
* *
224797 ACAAAT-ACAAAGTAACTATCATTGTTT
1 ACAAATAAAAAAG-AACCATCATTGTTT
224824 A
1 A
224825 TAAACATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (27 bp):
ACAAATAAAAAAGAACCATCATTGTTT
Found at i:225734 original size:16 final size:16
Alignment explanation
Indices: 225715--225749 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
225705 AAATTTAAAT
*
225715 ATATTTAAATAAAAAA
1 ATATATAAATAAAAAA
*
225731 ATATATAGATAAAAAA
1 ATATATAAATAAAAAA
225747 ATA
1 ATA
225750 ATCATATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATATAAATAAAAAA
Found at i:227802 original size:21 final size:20
Alignment explanation
Indices: 227756--227802 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
227746 AAGTTTAATT
* *
227756 TAATTTATAAATTTAAATTA
1 TAATTTAAAAATTTAAAATA
*
227776 TTATTTAAAAATATTAAAATA
1 TAATTTAAAAAT-TTAAAATA
227797 TAATTT
1 TAATTT
227803 TTATATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTAAAAATTTAAAATA
Found at i:231248 original size:20 final size:20
Alignment explanation
Indices: 231210--231249 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
231200 AATTATTTTT
*
231210 TAAATATTTAATTATAATAA
1 TAAATATTTAATTAGAATAA
231230 TAAATATATTAA-TAGAATAA
1 TAAATAT-TTAATTAGAATAA
231250 CATAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
TAAATATTTAATTAGAATAA
Found at i:235484 original size:18 final size:17
Alignment explanation
Indices: 235454--235489 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
235444 ACATAAACAC
*
235454 AATATAAATTAAATATA
1 AATATAAATTAAAAATA
235471 AATATAATATTAAAAATA
1 AATATAA-ATTAAAAATA
235489 A
1 A
235490 GATGTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATAAATTAAAAATA
Found at i:240116 original size:22 final size:21
Alignment explanation
Indices: 240085--240145 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
240075 TATATTTTAT
240085 TTAAAT-TTAATTTAAAAATA
1 TTAAATATTAATTTAAAAATA
*
240105 TATAAATATTAATATAAAAATA
1 T-TAAATATTAATTTAAAAATA
240127 TT-AATATTATATTATAAAA
1 TTAAATATTA-ATT-TAAAA
240146 TAGATAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.23
21 8 0.23
22 19 0.54
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAATATTAATTTAAAAATA
Found at i:240120 original size:14 final size:14
Alignment explanation
Indices: 240101--240133 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
240091 TTAATTTAAA
*
240101 AATATATAAATATT
1 AATATAAAAATATT
240115 AATATAAAAATATT
1 AATATAAAAATATT
240129 AATAT
1 AATAT
240134 TATATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:240217 original size:16 final size:17
Alignment explanation
Indices: 240193--240225 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
240183 TAAATTTAAT
*
240193 AATTTAAAATT-ATTTA
1 AATTAAAAATTAATTTA
240209 AATTAAAAATTAATTTA
1 AATTAAAAATTAATTTA
240226 TGAATATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAAAAATTAATTTA
Found at i:240309 original size:17 final size:16
Alignment explanation
Indices: 240282--240338 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
240272 TATAAAAAAC
240282 ATTTTATATTATATTTT
1 ATTTTA-ATTATATTTT
240299 ATTTTGAATTATTATTTT
1 ATTTT-AATTA-TATTTT
* *
240317 -TTTATATTTACATTTT
1 ATTT-TAATTATATTTT
240333 ATTTTA
1 ATTTTA
240339 TTTAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 7 0.21
17 19 0.56
18 8 0.24
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTTAATTATATTTT
Found at i:240907 original size:16 final size:16
Alignment explanation
Indices: 240869--240910 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
240859 CGATTAACAA
240869 TTTTTTTCACTTCCTC
1 TTTTTTTCACTTCCTC
240885 TTCTTTTT-ACTTTCTCTC
1 TT-TTTTTCAC-TTC-CTC
240903 TTTTTTTC
1 TTTTTTTC
240911 TCTCTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTTCACTTCCTC
Found at i:241350 original size:2 final size:2
Alignment explanation
Indices: 241303--241334 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
241293 GTCCTTCTTT
241303 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
241335 ATGATTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:241466 original size:16 final size:17
Alignment explanation
Indices: 241437--241468 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
241427 ATAAAATATA
241437 TTTTATTTTAATAATTT
1 TTTTATTTTAATAATTT
241454 TTTTATTTT-ATAATT
1 TTTTATTTTAATAATT
241469 CGGTATAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTTTAATAATTT
Found at i:243586 original size:25 final size:26
Alignment explanation
Indices: 243545--243613 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 26
243535 TATTTTTAAT
*
243545 TATATAATATATAATAATT-TTATATTTA
1 TATATAATA-AT-ATAATTCTTATA-GTA
243573 TATATAA-AATATAATTCTTATAGTA
1 TATATAATAATATAATTCTTATAGTA
*
243598 TATATAATATTATAAT
1 TATATAATAATATAAT
243614 ATAAATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 15 0.41
26 14 0.38
27 1 0.03
28 7 0.19
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TATATAATAATATAATTCTTATAGTA
Found at i:243622 original size:14 final size:15
Alignment explanation
Indices: 243597--243629 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
243587 TTCTTATAGT
*
243597 ATATATAATATTATA
1 ATATATAATATTAAA
243612 ATATA-AATATTAAA
1 ATATATAATATTAAA
243626 ATAT
1 ATAT
243630 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATATAATATTAAA
Found at i:243746 original size:10 final size:10
Alignment explanation
Indices: 243731--243755 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
243721 AAATATAATA
243731 TAGATAAGTT
1 TAGATAAGTT
243741 TAGATAAGTT
1 TAGATAAGTT
243751 TAGAT
1 TAGAT
243756 TACTTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
TAGATAAGTT
Found at i:244199 original size:14 final size:14
Alignment explanation
Indices: 244180--244239 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
244170 ATTTCATAAT
244180 TATATAAAATTTTA
1 TATATAAAATTTTA
244194 TATATAATAA-TTTA
1 TATATAA-AATTTTA
*
244208 TTTTATATAAATTTT-
1 -TATATA-AAATTTTA
* *
244223 TAAATATAATTTTA
1 TATATAAAATTTTA
244237 TAT
1 TAT
244240 CATATCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
13 6 0.17
14 17 0.47
15 9 0.25
16 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATAAAATTTTA
Found at i:251891 original size:2 final size:2
Alignment explanation
Indices: 251886--251911 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
251876 AAGTAAAATG
251886 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
251912 ATTAGTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:253713 original size:20 final size:19
Alignment explanation
Indices: 253668--253706 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
253658 TTTTAATAAT
253668 TAAAAATATAAAATTTTTA
1 TAAAAATATAAAATTTTTA
*
253687 TATAAAATCTAAAACTTTTT
1 TA-AAAATATAAAA-TTTTT
253707 TCAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 10 0.59
21 5 0.29
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAATATAAAATTTTTA
Found at i:253894 original size:2 final size:2
Alignment explanation
Indices: 253887--253913 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
253877 CATACCTTTT
253887 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
253914 GAACAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:256383 original size:22 final size:23
Alignment explanation
Indices: 256355--256410 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
256345 TGGACATGTT
256355 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
256377 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
256400 AAAAATGCATG
1 AAAAATGCATG
256411 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:257300 original size:20 final size:19
Alignment explanation
Indices: 257275--257360 Score: 75
Period size: 20 Copynumber: 4.4 Consensus size: 19
257265 TAACTAGATA
*
257275 TATCGATACATTATTCAATG
1 TATCGATACATTATAC-ATG
* * *
257295 TATCGATATAGTA-ATATG
1 TATCGATACATTATACATG
* * *
257313 TATCGATACATTGTAGAATA
1 TATCGATACATTATA-CATG
257333 TATCGATACATTCATACATG
1 TATCGATACATT-ATACATG
257353 TATCGATA
1 TATCGATA
257361 TATTGAAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 13 0.25
19 1 0.02
20 35 0.69
21 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
TATCGATACATTATACATG
Found at i:257337 original size:38 final size:40
Alignment explanation
Indices: 257275--257382 Score: 103
Period size: 40 Copynumber: 2.8 Consensus size: 40
257265 TAACTAGATA
* ** * * *
257275 TATCGATACATTATTCAATGTATCGATATAGT-A-ATATG
1 TATCGATACATTGTAAAATATATCGATACAGTCATACATG
* *
257313 TATCGATACATTGTAGAATATATCGATACATTCATACATG
1 TATCGATACATTGTAAAATATATCGATACAGTCATACATG
* * *
257353 TATCGATATATTGAAAAATATATCAATACA
1 TATCGATACATTGTAAAATATATCGATACA
257383 TCAAGGTAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 26 0.46
39 1 0.02
40 30 0.53
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (40 bp):
TATCGATACATTGTAAAATATATCGATACAGTCATACATG
Found at i:257376 original size:20 final size:20
Alignment explanation
Indices: 257313--257383 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
257303 TAGTAATATG
* *
257313 TATCGATACATTGTAGAATA
1 TATCGATACATTGAAAAATA
* * * *
257333 TATCGATACATTCATACATG
1 TATCGATACATTGAAAAATA
*
257353 TATCGATATATTGAAAAATA
1 TATCGATACATTGAAAAATA
*
257373 TATCAATACAT
1 TATCGATACAT
257384 CAAGGTAAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCGATACATTGAAAAATA
Found at i:258404 original size:29 final size:28
Alignment explanation
Indices: 257938--259303 Score: 1405
Period size: 28 Copynumber: 47.0 Consensus size: 28
257928 TTTTTTAAAA
*
257938 AAAATGTGCCACT-AGCTTGTGTAGGCTTTG
1 AAAAGGTGCCACTGA-CTTGTG--GGCTTTG
* *
257968 AAAAAAGTTGCCACTGACACATGTGGGCTTTG
1 --AAAAGGTGCCACTG--ACTTGTGGGCTTTG
**
258000 AAAAGAGTGTTACTGACTTGCGTGGGCTTT-
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
258030 AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
* *
258061 AAAAGATGCCACTGACTCGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
258089 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
258117 -AAAGGTGCCATTGACTCGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
258144 AAAAGGTACCACTGACTCGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
258171 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** *
258199 -AAAGAGTATCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
258227 AAAAGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
258257 AAAGGAGTGCCACTGACTTGTGTGGGCTTT-
1 AAAAG-GTGCCACTGAC-T-TGTGGGCTTTG
* *
258287 AAAAGGGTGCCACTAACTCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* *
258316 AAAAGATGCCATTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
258344 -AAAGAGTGCCACTAACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
258372 AAAAGGTACCACTGACTTGCGTGAGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
* *
258401 AAAAGGAGTGTCACGGACTTGTGTGGGCTTT-
1 AAAA-G-GTGCCACTGAC-T-TGTGGGCTTTG
*
258432 AAAAGGGTGCTACTGACTTGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* *
258461 -AAAGAGTGCCACTGAATTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
258489 CAATGGTGCCACTGACTTGTGGG-TTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTT-G
*
258517 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
258545 AAAAGAGTGCCACTGATTTGTGAGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
258574 AAAAGAGTGCCACTGACTTGTGAGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
258603 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
258632 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
258660 AAAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
258689 AAAAGAGTGCCACTGACTTGTGAGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
258718 AAAGGAGTGCCACTGACTTGTGGGCTTT-
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
258746 AAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
258775 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
258803 AAAAGAGTGCCACCGATTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
258832 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
258861 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
258890 AAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
258918 AAAAGAGTGCCATTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
258947 AAAGGAGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAG-GTGCCACTGAC-T-TGTGGGCTTTG
* * *
258978 AAATGGTGCCACTGACTTGTGAGCTTTA
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
259006 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAA-GG-TGCCACTGAC-T-TGTGGGCTTTG
* *
259038 AAAAGGGTTGCCACCGACTTGTGTGAGATTTG
1 AAAA-GG-TGCCACTGACTTGTG-G-GCTTTG
* *
259070 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-AGG-TGCCACTGAC-T-TGTGGGCTTTG
*
259102 AAATA-GTGCCACCGACTTGTGTGGGCTTTG
1 AAA-AGGTGCCACTGAC-T-TGTGGGCTTTG
*
259132 AAATGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
259160 AAAAGGGTTGCCACCGACTTGTGGGCTTTG
1 AAAA-GG-TGCCACTGACTTGTGGGCTTTG
* **
259190 -AAAGAATGCCACCAACTTGTGTGGACTTTG
1 AAAAG-GTGCCACTGACTTGTG-GG-CTTTG
*
259220 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
259248 AAAAGATGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
259276 AAAAAGGTGCCACTAACTTATGGGCTTT
1 -AAAAGGTGCCACTGACTTGTGGGCTTT
259304 AGAAGGGAAT
Statistics
Matches: 1168, Mismatches: 106, Indels: 123
0.84 0.08 0.09
Matches are distributed among these distances:
27 61 0.05
28 400 0.34
29 341 0.29
30 189 0.16
31 86 0.07
32 77 0.07
33 4 0.00
34 9 0.01
35 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:258635 original size:115 final size:115
Alignment explanation
Indices: 257943--259346 Score: 1594
Period size: 115 Copynumber: 12.1 Consensus size: 115
257933 TAAAAAAAAT
* *
257943 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAAGTTGCCACTGACACATGTGGGCTTTGAAAAGAG
1 GTGCCACTGA-CTTGTG--GGCTTTGAAAAGAG-TGCCACTG--ACTTGTGGGCTTTGAAAAGAG
** * *
258007 TGTTACTGACTTGCGTGGGCTTTAAAAGG-GTGCCACTGACTTGCGTGGGCTTTGAAAAG
60 TGCCACTGACTT--GTGGGCTTTGAAAGGAGTGCCACTGACTT--GTGGGCTTTGAAAGG
* * *
258066 ATGCCACTGACTCGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GTGCCAT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* * * *
258128 TGACTCGTGGGCTTTGAAAAG-GTACCACTGACTCGTGGGC-TTGAAAGG
66 TGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
** *
258176 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTATCACTGACTCGTGGGCTTTGAAAAG-GTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
258239 TGACTTGCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTAAAAGG
66 TGACTT--GTGGGCTTTGAAAGGAGTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * *
258293 GTGCCACTAACTCGTGGGCTTTGAAAAGA-TGCCATTGACTTGTGGGCTTTG-AAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* * * * * *
258356 TAACTCGTGGGCTTTGAAAAG-GTACCACTGACTTGCGTGAGCTTTAAAAGG
66 TGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTT--GTGGGCTTTGAAAGG
* * * *
258407 AGTGTCACGGACTTGTGTGGGCTTT-AAAAGGGTGCTACTGACTTGTGGGCTTTG-AAAGAGTGC
1 -GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGC
* * * *
258470 CACTGAATTGTGGGCTTCGCAATG-GTGCCACTGACTTGTGGG-TTTCGAAAGG
63 CACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTT-GAAAGG
* *
258522 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGAGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
258587 TGACTTGTGAGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
66 TGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
*
258637 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
258702 TGACTTGTGAGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTAAAAGG
66 TGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
*
258752 GTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
258816 CGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
66 TGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
258866 AGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCA
1 -GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
* * *
258930 TTGACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAATG
65 CTGACTTGTGGGCTTTGAAAGGAGTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * * * *
258983 GTGCCACTGACTTGTGAGCTTTAAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TG
* * * **
259048 CCACCGACTTGTGTGAGATTTGAAATGG-GTTGCCACCGACTTGTGTGGGCTTTGAAATA
62 CCACTGACTTGTG-G-GCTTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * *
259107 GTGCCACCGACTTGTGTGGGCTTTGAAATG-GTGCCACTGACTTGTGGGCTTTGAAAAGGGTTGC
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGC
* * ** *
259171 CACCGACTTGTGGGCTTTGAAA-GAATGCCACCAACTTGTGTGGACTTTGAAAAG
63 CACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTG-GG-CTTTGAAAGG
* *
259225 ATGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAA-AGGTGCCA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA-GTGCCA
* * * * * * * **
259288 CTAACTTATGGGCTTTAGAAGGGAATGCCACCGCCTTGTGGACTTAAAAAGG
65 CTGACTTGTGGGCTTT-GAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
259340 GTGCCAC
1 GTGCCAC
259347 GAAGTTGTGA
Statistics
Matches: 1123, Mismatches: 115, Indels: 94
0.84 0.09 0.07
Matches are distributed among these distances:
110 53 0.05
111 21 0.02
112 11 0.01
113 65 0.06
114 157 0.14
115 323 0.29
116 94 0.08
117 179 0.16
118 40 0.04
119 9 0.01
120 30 0.03
121 21 0.02
122 35 0.03
123 22 0.02
124 48 0.04
125 2 0.00
126 13 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (115 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
TGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:259383 original size:56 final size:54
Alignment explanation
Indices: 259323--259973 Score: 937
Period size: 55 Copynumber: 11.8 Consensus size: 54
259313 TGCCACCGCC
* *
259323 TTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGAACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
* * * *
259379 TTGTGGATTTCAAAGGGATGCTACGGAGTTGTGGACTCAAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAG
259435 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
* * *
259491 TTGTGGACTCAAAAAGGGTGCCACGGAG-T-TGGACTTTAAAAGGGTGCTACGAAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
259545 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTCAAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAG
*
259601 TTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
*
259657 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
* *
259713 TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
259767 TTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
** *
259822 TTGTGGTTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAA
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
259877 TTGTGGACTTAAAAGGGTTCCACGGAGTTGTGGACTTAAAAGGGATGCCACGAAA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
*
259932 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
259974 AGGTCACAGT
Statistics
Matches: 545, Mismatches: 35, Indels: 31
0.89 0.06 0.05
Matches are distributed among these distances:
53 7 0.01
54 84 0.15
55 218 0.40
56 212 0.39
57 24 0.04
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (54 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:259449 original size:29 final size:28
Alignment explanation
Indices: 258397--259972 Score: 1076
Period size: 28 Copynumber: 55.2 Consensus size: 28
258387 CTTGCGTGAG
* * *
258397 CTTTAAAAGGAGTGTCACGGACTTGTGTGGG
1 CTTTAAAAGG-GTGCCACGGA-GT-TGTGGA
* * * *
258428 CTTTAAAAGGGTGCTACTGACTTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * * * *
258456 CTTTGAAAGAGTGCCACTGAATTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
*** * * *
258484 CTTCGCAATGGTGCCACTGACTTGTGG-
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * * * *
258511 GTTTCGAAAGGGTGCCACTGACTTGTGGG
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* * *
258540 CTTTGAAAAGAGTGCCACTGATTTGT-GA
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* * *
258568 GCTTTGAAAAGAGTGCCACTGACTTGT-GA
1 -CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* * * *
258597 GCTTTGAAAGGAGTGCCACTGACTTGTGGG
1 -CTTTAAAAGG-GTGCCACGGAGTTGTGGA
* * * *
258627 CTTTGAAAGGGTGCCACTGACTTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * * *
258655 CTTTGAAAAGAGTGCCACTGATTTGTGGG
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* * *
258684 CTTTGAAAAGAGTGCCACTGACTTGT-GA
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* * * *
258712 GCTTTGAAAGGAGTGCCACTGACTTGTGGG
1 -CTTTAAAAGG-GTGCCACGGAGTTGTGGA
* * *
258742 CTTTAAAAGGGTGCCACTGACTTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * * * *
258770 CTTTGAAAGGATGCCACTGACTTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * * *
258798 CTTTGAAAAGAGTGCCACCGATTTGTGGG
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* * * *
258827 CTTTGAAAGGAGTGCCACTGACTTGTGGG
1 CTTTAAAAGG-GTGCCACGGAGTTGTGGA
* * * *
258856 CTTTGAAAGGAGTGCCACTGACTTGTGGG
1 CTTTAAAAGG-GTGCCACGGAGTTGTGGA
* * * *
258885 CTTTGAAAGGGTGCCACTGATTTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* ** * *
258913 CTTTGAAAAGAGTGCCATTGACTTGTGGG
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* ** * *
258942 CTTTGAAAGGAGTGCCACTAACTTGTGTGGG
1 CTTTAAAAGG-GTGCCACGGA-GT-TGTGGA
* * * *
258973 CTTTGAAATGGTGCCACTGACTTGT-GA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * *
259000 GCTTTAAAAAGGGTTGCCACCGACTTGTGTGGG
1 -CTTT-AAAAGGG-TGCCACGGA-GT-TGTGGA
* *
259033 CTTTGAAAAGGGTTGCCACCGACTTGTGTGA
1 CTTT-AAAAGGG-TGCCACGGAGTTGTG-GA
* * * * *
259064 GATTTGAAATGGGTTGCCACCGACTTGTGTGGG
1 -CTTT-AAAAGGG-TGCCACGGA-GT-TGTGGA
* ** * * *
259097 CTTTGAAATAGTGCCACCGACTTGTGTGGG
1 CTTTAAAAGGGTGCCACGGA-GT-TGTGGA
* * * * *
259127 CTTTGAAATGGTGCCACTGACTTGTGGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* * *
259155 CTTTGAAAAGGGTTGCCACCGACTTGTGGG
1 CTTT-AAAAGGG-TGCCACGGAGTTGTGGA
* ** ** *
259185 CTTTGAAAGAATGCCACCAACTTGTGTGGA
1 CTTTAAAAGGGTGCCACGGA-GT-TGTGGA
* * * *
259215 CTTTGAAAA-GATGCCACTGACTTGTGGG
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* ** * *
259243 CTTTGAAAA-GATGCCACTAACTTGTGGG
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* ** * * *
259271 CTTTGAAAAAGGTGCCACTAACTTATGGG
1 CTTT-AAAAGGGTGCCACGGAGTTGTGGA
* * **
259300 CTTTAGAAGGGAATGCCACCGCCTTGTGGA
1 CTTTAAAAGGG--TGCCACGGAGTTGTGGA
* * *
259330 CTTAAAAAGGGTGCCACGAAGTTGTGAA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
259358 C-TTAAAAGGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
* *
259386 -TTTCAAAGGGATGCTACGGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
**
259414 CTCAAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
259442 CTTTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
259470 C-TTAAAAGGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
**
259498 CTCAAAAAGGGTGCCACGGAG-T-TGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* *
259524 CTTTAAAAGGGTGCTACGAAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
259552 C-TTAAAAGGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
**
259580 CTCAAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
*
259608 CTTTAAAAGGGTGCCACGGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
259636 C-TTAAAAGGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
**
259664 CTCAAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
259692 C-TTAAAAGGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
*
259720 C-TTAAAAGGGTGCCACAGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
*
259747 C-TTAAAAGGGTGCCACAGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
*
259774 C-TTAAAAGGGATGCCACAGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
259802 C-TTAAAAGGGTGCCACGGAGTTGTGG-
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
*
259828 TTTTAAAAGGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
*
259857 C-TTAAAAGGGTGCCACGGAATTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
*
259884 C-TTAAAAGGGTTCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
* *
259911 C-TTAAAAGGGATGCCACGAAATTGTGGA
1 CTTTAAAAGGG-TGCCACGGAGTTGTGGA
259939 C-TTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGA
259966 CTTTAAA
1 CTTTAAA
259973 GAGGTCACAG
Statistics
Matches: 1340, Mismatches: 154, Indels: 105
0.84 0.10 0.07
Matches are distributed among these distances:
26 21 0.02
27 191 0.14
28 584 0.44
29 330 0.25
30 126 0.09
31 34 0.03
32 47 0.04
33 3 0.00
34 4 0.00
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (28 bp):
CTTTAAAAGGGTGCCACGGAGTTGTGGA
Found at i:259567 original size:82 final size:83
Alignment explanation
Indices: 259323--259973 Score: 976
Period size: 82 Copynumber: 7.8 Consensus size: 83
259313 TGCCACCGCC
* * * *
259323 TTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGTGGATT
1 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT
* *
259388 TCAAAGGGATGCTACGGAG
65 TAAAAGGGATGCCACGGAG
259407 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACT
1 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT
259472 TAAAAGGGATGCCACGGAG
65 TAAAAGGGATGCCACGGAG
* *
259491 TTGTGGACTCAAAAAGGGTGCCACGGAG-T-TGGACTTTAAAAGGGTGCTACGAAGTTGTGGACT
1 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT
259554 TAAAAGGGATGCCACGGAG
65 TAAAAGGGATGCCACGGAG
*
259573 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACT
1 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT
259638 TAAAAGGGATGCCACGGAG
65 TAAAAGGGATGCCACGGAG
259657 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACT
1 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT
*
259722 TAAAAGGG-TGCCACAGAG
65 TAAAAGGGATGCCACGGAG
* * *
259740 TTGTGGACT-TAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACT
1 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT
259804 TAAAAGGG-TGCCACGGAG
65 TAAAAGGGATGCCACGGAG
* ** *
259822 TTGTGG-TTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACT
1 TTGTGGACTCAAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
*
259886 TAAAAGGG-TTCCACGGAG
65 TAAAAGGGATGCCACGGAG
* * *
259904 TTGTGGACT-TAAAAGGGATGCCACGAAATTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
1 TTGTGGACTCAAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
*
259968 TTAAAG
65 TAAAAG
259974 AGGTCACAGT
Statistics
Matches: 533, Mismatches: 27, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
81 1 0.00
82 259 0.49
83 56 0.11
84 208 0.39
85 9 0.02
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (83 bp):
TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
AAAAGGGATGCCACGGAG
Found at i:261292 original size:23 final size:25
Alignment explanation
Indices: 261257--261323 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 25
261247 CATGTCCTCG
261257 TTTTTTTATTTTTGTTGTT-C-CTTT
1 TTTTTTTA-TTTTGTTGTTGCACTTT
261281 TTTTTTTATTTTGCTT-TTGCACTTT
1 TTTTTTTATTTTG-TTGTTGCACTTT
261306 TTTCTTTTCATTTT-TTGT
1 TTT-TTTT-ATTTTGTTGT
261324 GCTTTTGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
23 7 0.19
24 11 0.30
25 9 0.24
26 5 0.14
27 5 0.14
ACGTcount: A:0.06, C:0.10, G:0.07, T:0.76
Consensus pattern (25 bp):
TTTTTTTATTTTGTTGTTGCACTTT
Found at i:261320 original size:37 final size:36
Alignment explanation
Indices: 261279--261355 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
261269 TGTTGTTCCT
* *
261279 TTTTTTTTTATTTTGCTTTTGCACTTTTTTCTTT-TCA
1 TTTTTTGTGATTTTGCTTTTG-ACTTTTTT-TTTGTCA
*
261316 TTTTTTGTGCTTTTGCTTTTGACTTTTTTTTTGTCA
1 TTTTTTGTGATTTTGCTTTTGACTTTTTTTTTGTCA
261352 TTTT
1 TTTT
261356 GAAGGGAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 3 0.08
36 15 0.42
37 18 0.50
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (36 bp):
TTTTTTGTGATTTTGCTTTTGACTTTTTTTTTGTCA
Found at i:267420 original size:22 final size:23
Alignment explanation
Indices: 267392--267447 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
267382 TGGACATGTT
267392 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
267414 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
267437 AAAAATGCATG
1 AAAAATGCATG
267448 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:268387 original size:20 final size:19
Alignment explanation
Indices: 268341--268414 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
268331 GTATCGATAT
*
268341 ATGTATCGATACATTGTAGA
1 ATGTATCGATACATTATA-A
* *
268361 ATATATCGATACATTCATAC
1 ATGTATCGATACATT-ATAA
* *
268381 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATT-ATAA
*
268401 ATGTATCAATACAT
1 ATGTATCGATACAT
268415 CAAGGTAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATTATAA
Found at i:268630 original size:9 final size:9
Alignment explanation
Indices: 268616--268640 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
268606 TGTCTATAGA
268616 CAATAATTT
1 CAATAATTT
268625 CAATAATTT
1 CAATAATTT
268634 CAATAAT
1 CAATAAT
268641 AAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (9 bp):
CAATAATTT
Found at i:268777 original size:22 final size:20
Alignment explanation
Indices: 268747--268789 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
268737 CTTAAATAAC
268747 TATTATAAATTATGAATTTAAT
1 TATTATAAATT-T-AATTTAAT
*
268769 TATTTTAAATTTAATTTAAT
1 TATTATAAATTTAATTTAAT
268789 T
1 T
268790 TAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTATAAATTTAATTTAAT
Found at i:268781 original size:15 final size:16
Alignment explanation
Indices: 268761--268796 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
268751 ATAAATTATG
*
268761 AATTTAA-TTATTTTA
1 AATTTAATTTAATTTA
268776 AATTTAATTTAATTTA
1 AATTTAATTTAATTTA
268792 AATTT
1 AATTT
268797 TAAAATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTAATTTAATTTA
Found at i:269212 original size:17 final size:16
Alignment explanation
Indices: 269180--269213 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
269170 ATAAATCTTT
*
269180 AATAAAATTTATTTTA
1 AATAAAATTTAATTTA
269196 AATAAAATTTTAATTTA
1 AATAAAA-TTTAATTTA
269213 A
1 A
269214 TTTGTTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAAAATTTAATTTA
Found at i:269223 original size:68 final size:68
Alignment explanation
Indices: 269114--269255 Score: 284
Period size: 68 Copynumber: 2.1 Consensus size: 68
269104 GAAAACATAG
269114 TAAAATTTATTTTAAATAAAATTTTAATTTAATTTGTTATCATATGGATTAGGTCAATAAATCTT
1 TAAAATTTATTTTAAATAAAATTTTAATTTAATTTGTTATCATATGGATTAGGTCAATAAATCTT
269179 TAA
66 TAA
269182 TAAAATTTATTTTAAATAAAATTTTAATTTAATTTGTTATCATATGGATTAGGTCAATAAATCTT
1 TAAAATTTATTTTAAATAAAATTTTAATTTAATTTGTTATCATATGGATTAGGTCAATAAATCTT
269247 TAA
66 TAA
269250 TAAAAT
1 TAAAAT
269256 CTTTTTCTAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (68 bp):
TAAAATTTATTTTAAATAAAATTTTAATTTAATTTGTTATCATATGGATTAGGTCAATAAATCTT
TAA
Found at i:270095 original size:15 final size:15
Alignment explanation
Indices: 270075--270104 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
270065 GGTAAGAATC
270075 CCTATTATTAACTTA
1 CCTATTATTAACTTA
270090 CCTATTATTAACTTA
1 CCTATTATTAACTTA
270105 ATAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
CCTATTATTAACTTA
Found at i:270202 original size:22 final size:21
Alignment explanation
Indices: 270172--270215 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
270162 ATCAATAATT
* *
270172 TTCATTATTTATTATTTCAATA
1 TTCAATATTTATT-TTCCAATA
270194 TTCAATATTTATTTTCCAATA
1 TTCAATATTTATTTTCCAATA
270215 T
1 T
270216 CTATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (21 bp):
TTCAATATTTATTTTCCAATA
Found at i:271110 original size:18 final size:18
Alignment explanation
Indices: 271089--271123 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
271079 TTGTTTTTCA
*
271089 TTTTTTGAAATTATATAT
1 TTTTTTCAAATTATATAT
*
271107 TTTTTTCATATTATATA
1 TTTTTTCAAATTATATA
271124 AAGTACATCA
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:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTCAAATTATATAT
Found at i:271347 original size:20 final size:18
Alignment explanation
Indices: 271314--271351 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
271304 ATTAAAAAAA
271314 TTAAAACATTATAAAATT
1 TTAAAACATTATAAAATT
271332 TTAAAACCACTTATAAAATT
1 TTAAAA-CA-TTATAAAATT
271352 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAACATTATAAAATT
Found at i:271353 original size:18 final size:16
Alignment explanation
Indices: 271310--271354 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
271300 ATTAATTAAA
271310 AAAATTAAAACATTAT
1 AAAATTAAAACATTAT
271326 AAAATTTTAAAACCACTTAT
1 AAAA--TTAAAA-CA-TTAT
271346 AAAATTAAA
1 AAAATTAAA
271355 TAAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.16
18 11 0.44
19 2 0.08
20 8 0.32
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTAAAACATTAT
Found at i:271784 original size:19 final size:19
Alignment explanation
Indices: 271747--271785 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
271737 TATAAAAAAT
* **
271747 ATTTAATATATTATTTTTA
1 ATTTAATATAATAAATTTA
271766 ATTTAATATAATAAATTTA
1 ATTTAATATAATAAATTTA
271785 A
1 A
271786 AATTCTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATATAATAAATTTA
Found at i:272029 original size:34 final size:33
Alignment explanation
Indices: 271983--272054 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
271973 GGTCGGCTGC
*
271983 TTATTAACATATTTTAAAATTTAT-TTAATATAAA
1 TTATTAACATA--TTAAAATTTATATAAATATAAA
*
272017 TTATTAATATATTAAAATTTATATAAATATAAA
1 TTATTAACATATTAAAATTTATATAAATATAAA
*
272050 ATATT
1 TTATT
272055 TTAAACTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.32
33 13 0.38
34 10 0.29
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (33 bp):
TTATTAACATATTAAAATTTATATAAATATAAA
Found at i:272037 original size:32 final size:33
Alignment explanation
Indices: 271991--272054 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
271981 GCTTATTAAC
* * *
271991 ATATTTTAAAATTTAT-TTAATATAAATTATTA
1 ATATATTAAAATTTATATAAATATAAAATATTA
272023 ATATATTAAAATTTATATAAATATAAAATATT
1 ATATATTAAAATTTATATAAATATAAAATATT
272055 TTAAACTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
ATATATTAAAATTTATATAAATATAAAATATTA
Found at i:272049 original size:17 final size:16
Alignment explanation
Indices: 271997--272051 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
271987 TAACATATTT
*
271997 TAAAATTTATTTAATA
1 TAAAATTTATTAAATA
272013 T-AAA-TTATTAATATA
1 TAAAATTTATTAA-ATA
272028 TTAAAATTTATATAAATA
1 -TAAAATTTAT-TAAATA
272046 TAAAAT
1 TAAAAT
272052 ATTTTAAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 2 0.06
17 9 0.27
18 7 0.21
19 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATTTATTAAATA
Found at i:272052 original size:27 final size:27
Alignment explanation
Indices: 272005--272084 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
271995 TTTAAAATTT
*
272005 ATTTAATATAAAT-TATTAATATATTAAA
1 ATTT-ATATAAATATA-AAATATATTAAA
*
272033 ATTTATATAAATATAAAATATTTTAAA
1 ATTTATATAAATATAAAATATATTAAA
*
272060 CTTT-TGAT--ATCATAAAATATATTAA
1 ATTTAT-ATAAAT-ATAAAATATATTAA
272085 CTTAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 2 0.04
26 14 0.31
27 23 0.51
28 6 0.13
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (27 bp):
ATTTATATAAATATAAAATATATTAAA
Found at i:272204 original size:34 final size:33
Alignment explanation
Indices: 272145--272209 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
272135 ATGTAATGAA
*
272145 TTTAAAATTTAATTAATTAATTTTTAAATTTAT
1 TTTAAAAATTAATTAATTAATTTTTAAATTTAT
*
272178 TTTAAAAATT-ATTATTTAATAATTTTAAATTT
1 TTTAAAAATTAATTAATTAAT--TTTTAAATTT
272210 TAAATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 9 0.32
33 9 0.32
34 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTAAAAATTAATTAATTAATTTTTAAATTTAT
Found at i:272988 original size:12 final size:11
Alignment explanation
Indices: 272973--272998 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
272963 ATTAAAATGC
272973 AAAAAAAAAAG
1 AAAAAAAAAAG
272984 AAAAAAAAAAG
1 AAAAAAAAAAG
272995 AAAA
1 AAAA
272999 GCAAGATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:274867 original size:2 final size:2
Alignment explanation
Indices: 274825--274856 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
274815 GGGGTGGGTG
*
274825 TA TA AA 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
274857 CACACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:277324 original size:12 final size:12
Alignment explanation
Indices: 277307--277356 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
277297 CGATAAAAAA
277307 ATAAAATATAAT
1 ATAAAATATAAT
*
277319 ATAAAATATGAT
1 ATAAAATATAAT
277331 ATAAAA-ATAAT
1 ATAAAATATAAT
*
277342 ATATAAATTTAAT
1 ATA-AAATATAAT
277355 AT
1 AT
277357 GAATAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 7 0.21
12 20 0.61
13 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATAAAATATAAT
Found at i:277418 original size:12 final size:11
Alignment explanation
Indices: 277402--277457 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 11
277392 TATTAAATTT
277402 ATATAAATATA
1 ATATAAATATA
*
277413 TATATAATAATTTAA
1 -ATAT-A-AATAT-A
277428 ATATAAATATA
1 ATATAAATATA
*
277439 ATA-AAAAATA
1 ATATAAATATA
277449 ATATAAATA
1 ATATAAATA
277458 CATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
10 9 0.25
11 8 0.22
12 8 0.22
13 2 0.06
14 8 0.22
15 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAATATA
Found at i:277430 original size:20 final size:20
Alignment explanation
Indices: 277405--277442 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
277395 TAAATTTATA
*
277405 TAAATATATATATAATAATT
1 TAAATATAAATATAATAATT
277425 TAAATATAAATATAATAA
1 TAAATATAAATATAATAA
277443 AAAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATATAAATATAATAATT
Found at i:277862 original size:23 final size:24
Alignment explanation
Indices: 277830--277887 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
277820 CAGTCTAGCT
*
277830 TAAATAAATTTATA-ATTATATAA
1 TAAATTAATTTATATATTATATAA
* *
277853 TAAATTAATTTTATATTTTATATAT
1 TAAATTAA-TTTATATATTATATAA
277878 TAAA-TAATTT
1 TAAATTAATTT
277888 TTATCATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.33
24 9 0.30
25 11 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAATTAATTTATATATTATATAA
Found at i:277885 original size:24 final size:23
Alignment explanation
Indices: 277829--277888 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
277819 GCAGTCTAGC
*
277829 TTAAATAAATTTATAATTATATA
1 TTAAATAATTTTATAATTATATA
* *
277852 ATAAATTAATTTTATATTTTATATA
1 TTAAA-TAATTTTATA-ATTATATA
277877 TTAAATAATTTT
1 TTAAATAATTTT
277889 TATCATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 4 0.13
24 16 0.52
25 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAAATAATTTTATAATTATATA
Found at i:277987 original size:15 final size:14
Alignment explanation
Indices: 277962--278017 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
277952 AACTTAATAA
277962 AAAATATTAAATTGTT
1 AAAA-ATTAAATT-TT
277978 AAAAATTAAAATTTT
1 AAAAATT-AAATTTT
*
277993 -AAAATTATA-TTT
1 AAAAATTAAATTTT
278005 AAGAAATTAAATT
1 AA-AAATTAAATT
278018 AAAAAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 3 0.09
13 3 0.09
14 13 0.38
15 6 0.18
16 9 0.26
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (14 bp):
AAAAATTAAATTTT
Found at i:279047 original size:42 final size:41
Alignment explanation
Indices: 278945--279065 Score: 99
Period size: 42 Copynumber: 2.9 Consensus size: 41
278935 CATAAATTTG
* *
278945 ATAATT-TATATATTAATATTATATTTATTTATTTATTTTTATC
1 ATAATTATATAT-TTAATATTATA--TATTTATTAATTTTAATC
*
278988 ATAATTAT-T-TTAAAATATTATATATTTATATAAATTTTAAT-
1 ATAATTATATATT-TAATATTATATATTTAT-T-AATTTTAATC
* *
279029 ATAATTATATATTTAATATCATAT-TTATATTATTTTT
1 ATAATTATATATTTAATATTATATATT-TATTAATTTT
279066 TATATTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
40 12 0.18
41 13 0.20
42 30 0.46
43 9 0.14
44 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (41 bp):
ATAATTATATATTTAATATTATATATTTATTAATTTTAATC
Found at i:279070 original size:18 final size:19
Alignment explanation
Indices: 279049--279107 Score: 72
Period size: 18 Copynumber: 3.2 Consensus size: 19
279039 ATTTAATATC
279049 ATATTTATATT-ATTTTTT
1 ATATTTATATTAATTTTTT
279067 ATA-TTATATCTAATTTTTT
1 ATATTTATAT-TAATTTTTT
279086 AT-TATTAT-TTAATTTTTT
1 ATAT-TTATATTAATTTTTT
279104 ATAT
1 ATAT
279108 CATAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.17
18 15 0.42
19 11 0.31
20 4 0.11
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATTTATATTAATTTTTT
Found at i:279075 original size:17 final size:18
Alignment explanation
Indices: 279053--279118 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 18
279043 AATATCATAT
279053 TTATATT-ATTTTTTATA
1 TTATATTAATTTTTTATA
279070 TTATATCTAATTTTTTATTA
1 TTATAT-TAATTTTTTA-TA
279090 TTAT-TTAATTTTTTATA
1 TTATATTAATTTTTTATA
*
279107 TCATAATTAATT
1 TTAT-ATTAATT
279119 ATATAATCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
17 11 0.26
18 11 0.26
19 15 0.35
20 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATTAATTTTTTATA
Found at i:281747 original size:19 final size:19
Alignment explanation
Indices: 281723--281761 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
281713 ATTTCAATGC
* *
281723 ACTTAATTAGGTTGAATTA
1 ACTTAATTAAGTTAAATTA
281742 ACTTAATTAAGTTAAATTA
1 ACTTAATTAAGTTAAATTA
281761 A
1 A
281762 AATTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (19 bp):
ACTTAATTAAGTTAAATTA
Found at i:281883 original size:21 final size:21
Alignment explanation
Indices: 281851--281890 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
281841 AAAAATTTTA
*
281851 AAATGTAAATTTATTTAATTT
1 AAATGTAAATTTAATTAATTT
281872 AAAT-TAATATTTAATTAAT
1 AAATGTAA-ATTTAATTAAT
281891 AAAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
AAATGTAAATTTAATTAATTT
Found at i:287927 original size:16 final size:18
Alignment explanation
Indices: 287895--287928 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
287885 ATTATATTAA
287895 AAATGTTATTATTTATAT
1 AAATGTTATTATTTATAT
287913 AAAT-TTATT-TTTATAT
1 AAATGTTATTATTTATAT
287929 TTTTTTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
AAATGTTATTATTTATAT
Found at i:287987 original size:47 final size:47
Alignment explanation
Indices: 287872--287987 Score: 112
Period size: 47 Copynumber: 2.4 Consensus size: 47
287862 TTTATATTAT
* * *
287872 TTTTTATATCATAATTATATTAAAAATGTTATTATTTATATAAATTTA
1 TTTTTATATTA-AATTATGTTAAAAATATTATTATTTATATAAATTTA
*** *
287920 TTTTTATATTTTTTTGTGTTAAAAATATTA-TATTTATATAAATTTTAA
1 TTTTTATATTAAATTATGTTAAAAATATTATTATTTATATAAA-TTT-A
287968 TTTATTA-A-TAAATTATGTTA
1 TTT-TTATATTAAATTATGTTA
287988 TATAAATCTT
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
46 12 0.22
47 25 0.46
48 14 0.26
49 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (47 bp):
TTTTTATATTAAATTATGTTAAAAATATTATTATTTATATAAATTTA
Found at i:290226 original size:66 final size:66
Alignment explanation
Indices: 290143--290274 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
290133 TTGTTCCCAT
* * *
290143 TAAGTTTCCTTTGGAAAATTATAGTATAGTTTCTC-TTCATCTTCTTTCTCATGCAGTTCAAGAA
1 TAAGTTTCCTTTCGAAAATT-TAGTATAATTTCTCTTTCATCTTCCTTCTCATGCAGTTCAAGAA
290207 CA
65 CA
290209 TAAGTTTCCTTTCGAAAATTTAGTATAATTTCTCTTTCATCTTCCTTCTCATGCAGTTCAAGAAC
1 TAAGTTTCCTTTCGAAAATTTAGTATAATTTCTCTTTCATCTTCCTTCTCATGCAGTTCAAGAAC
290274 A
66 A
290275 CAATATTGAC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 13 0.21
66 49 0.79
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (66 bp):
TAAGTTTCCTTTCGAAAATTTAGTATAATTTCTCTTTCATCTTCCTTCTCATGCAGTTCAAGAAC
A
Found at i:291710 original size:49 final size:49
Alignment explanation
Indices: 291655--291753 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
291645 TTTAAAAAAT
291655 TAAATATATCTAGATAGACATATATCCGTATCTAACATTCATAGTTAAA
1 TAAATATATCTAGATAGACATATATCCGTATCTAACATTCATAGTTAAA
291704 TAAATATATCTAGATAGACATATATCCGTATCTAACATTCATAGTTAAA
1 TAAATATATCTAGATAGACATATATCCGTATCTAACATTCATAGTTAAA
291753 T
1 T
291754 TTATGTAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (49 bp):
TAAATATATCTAGATAGACATATATCCGTATCTAACATTCATAGTTAAA
Found at i:294607 original size:12 final size:13
Alignment explanation
Indices: 294575--294612 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
294565 GAACCTCTTG
*
294575 AAGAAATAACAAA
1 AAGAAAGAACAAA
294588 AAGAAAAGAA-AAA
1 AAG-AAAGAACAAA
294601 AAGAAAGAACAA
1 AAGAAAGAACAA
294613 GTTAATGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 6 0.27
13 11 0.50
14 5 0.23
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (13 bp):
AAGAAAGAACAAA
Found at i:299361 original size:23 final size:23
Alignment explanation
Indices: 299313--299361 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
299303 GCACTGCATT
* * *
299313 AAAAAAAGATGAAGAAAATTAGA
1 AAAAAAAAAGGAAGAAAATTAAA
299336 AAAAAAAAAGGAA-AAAATCTAAA
1 AAAAAAAAAGGAAGAAAAT-TAAA
299359 AAA
1 AAA
299362 TTGAAATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (23 bp):
AAAAAAAAAGGAAGAAAATTAAA
Found at i:300126 original size:14 final size:13
Alignment explanation
Indices: 300107--300161 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
300097 GAAATATAAA
300107 ATAATAATATTTTG
1 ATAAT-ATATTTTG
*
300121 ATAATATATTTTAAA
1 ATAATATATTTT--G
*
300136 ATAATTGTATTTTG
1 ATAA-TATATTTTG
300150 ATAATATATTTT
1 ATAATATATTTT
300162 AAAATAATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 14 0.41
14 9 0.26
15 4 0.12
16 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (13 bp):
ATAATATATTTTG
Found at i:300135 original size:29 final size:29
Alignment explanation
Indices: 300103--300195 Score: 141
Period size: 29 Copynumber: 3.2 Consensus size: 29
300093 GTAAGAAATA
**
300103 TAAAATAATAATATTTTGATAATATATTT
1 TAAAATAATTGTATTTTGATAATATATTT
300132 TAAAATAATTGTATTTTGATAATATATTT
1 TAAAATAATTGTATTTTGATAATATATTT
* *
300161 TAAAATAATTGTACTTTGATAATAAATTT
1 TAAAATAATTGTATTTTGATAATATATTT
*
300190 AAAAAT
1 TAAAAT
300196 TAACAATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (29 bp):
TAAAATAATTGTATTTTGATAATATATTT
Found at i:307758 original size:13 final size:13
Alignment explanation
Indices: 307715--307764 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
307705 ATTTCAAAAG
*
307715 AAATTTATGTTTGA
1 AAATTTATATTT-A
*
307729 ATATTT-T-TTTA
1 AAATTTATATTTA
*
307740 ATATTTATATTTA
1 AAATTTATATTTA
307753 AAATTTATATTT
1 AAATTTATATTT
307765 TATATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 7 0.22
12 4 0.12
13 16 0.50
14 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (13 bp):
AAATTTATATTTA
Found at i:309928 original size:20 final size:20
Alignment explanation
Indices: 309891--309946 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
309881 ATTATATTCG
* *
309891 TATATTTTATAT-TATTTATT
1 TATATTTAATATAT-TTTATA
309911 TATATTTAATATATTTTATA
1 TATATTTAATATATTTTATA
*
309931 TAAATTTTAATATATT
1 TATA-TTTAATATATT
309947 AATAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTTAATATATTTTATA
Found at i:311126 original size:311 final size:310
Alignment explanation
Indices: 309956--314620 Score: 5745
Period size: 311 Copynumber: 15.1 Consensus size: 310
309946 TAATAATATA
* *
309956 TTATATATCTTTGTCTAAATAAAAGATACATAATAATATATTATATAAAGT-TCTAAAAAGAAAA
1 TTAT-TATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATAT-TAAAAAGAAAA
*
310020 ACAAAATTCCTA----TTAACGTAGAAAAAAA-TTTAAGTTGTCGTTTCTTAAGTTCAATTATTT
64 ACAAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTT
* * * *
310080 ATAATAAGAATTTGTATTTAGAAATTAATAAAATATT-ACTAAAAAACATATAAACACTTTAATT
129 ATAATAAGAATTTGTATTTAGAAATCAATAAAATATTGA-TAAAAAATATATAAACACTCTAATA
** * * * *
310144 CGAAAGGTTTATTGAATAATGACATAGACATAATGAAATTTCTCCATTAACATGGAAAATTTGGT
193 CGAAA-GACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACAT-GAAAAGTTGGT
* * * *
310209 TGGGGTTACGTTATTAGTGATATTTATATAAATAATTTATTGTCTTATACTCTTG
256 TGGGGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
310264 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTGAAAAGAAAAGC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * *
310329 AAAATTCCTACCTTTTAACCTAGAAAAGAAGTTTAAGTTGTCGTTTCTCAAATTCAATTATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* * * * * *
310394 AGTAAGAATTTATATTTAGAAATTAACAAAATATTGA-AAAAAATTTATAAATACTCTAATACGA
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACGA
* * *
310458 AAGACTACTGAATAATAAAATAAACATAATGAGATTTATCCATTAACATAGAAAAGTTGGTTGGG
196 AAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACAT-GAAAAGTTGGTTGGG
* * *
310523 GTTACATCATTAGTGATATTTATACAAGTAATTTATTATCTTATACTCTTG
260 GTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* * *
310574 TTGTTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAACATT-AAAA-TAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
** * * * *
310637 AAAATTTTTACCTTTCAACGTAG-AAAAAAG-TT--G--CT-GTTTCTCAAGTTTAATAATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* * * * * *
310695 AACAAGAATTTGTAATTAGAAATCAACAAAATATCGATAAAAAATATATAAATACTTTAATACGA
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACGA
* *
310760 AAGACTACTGAATAATGACATAAACATAATGAGATTTATCCTTTAACATAGAAAAGTTGGTTGGG
196 AAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACAT-GAAAAGTTGGTTGGG
* * *
310825 GTTACATCATTTGTCATATTTATATAAGTAATTTATTGTCTTGTACTCTTA
260 GTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
310876 TTATTATCTTTGTCTAAATAAAAGGTATATAATAATATATTATATAAAATATTAAAATGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * *
310941 AAAATTCTTACCTTTCAACGTAGAAAAAAAGTTTAAGTTGTTGTTTTTCAAGTTCAATTATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* * * **
311006 AATAAGAATTTGTATTTAAAAATCAACAAAATATCGATAAAAAATATATAAATTCTCTAATACGA
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACGA
* * ** * **
311071 AAGACTACTAAATAATGACATAGACATAGTGAGATTTATCGTTTAACATAGAAAAGTTGGTAGAT
196 AAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACAT-GAAAAGTTGGTTGGG
*
311136 GTTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTG
260 GTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* * *
311187 TTATTATCTTTGTCTAAATAAAATATATATAATAGTATATTATATAAAATATTAAAATGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* *
311252 AAAATTCCTACCTTTTAACATAGAAAAAAAGTTTTAGTTG-CTGTTTCTCAAGTTCAATTATTTA
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTC-GTTTCTCAAGTTCAATTATTTA
* *** * *
311316 TAGTAAGAATTCACATTTAGAAATCAATAAAATATTAATAAAAAATATATAAGCACTCTAATACG
130 TAATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACG
* * * * * * *
311381 AAATACTTCTAAATAAT-AGCATAAACATAATGTGATTTATCCATTAACATGGAAAAGCTAGTTG
195 AAAGACTACTGAATAATGA-CATAGACATAATGAGATTTATCCATTAACAT-GAAAAGTTGGTTG
* * *
311445 GGATTACATCATTAGTGATATTTATACAAGTAATTTATTGTCTTGTACTTTTG
258 GGGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
311498 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAGTATTAAAAAGAAAAGC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * ** * *
311563 AAAATTCCTACCTTTTAACATAAAAAAAAAAATTTAAGTTACCGTTTTTTAAGTTCAATTATTTA
66 AAAATTCCTACCTTTTAACGT-AGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTA
* * *
311628 TAATAGGAATTTGTATTTAGAAATCAATAAAATATT-ACTAAAAAATATATAAACACCCTAATAA
130 TAATAAGAATTTGTATTTAGAAATCAATAAAATATTGA-TAAAAAATATATAAACACTCTAATAC
* * * * * * *
311692 AAAAGATTATTGAATAACGACATAGACATAAGGAGATTTCA-CCATTAACATGGAAAATTTTGTT
194 GAAAGACTACTGAATAATGACATAGACATAATGAGATTT-ATCCATTAACAT-GAAAAGTTGGTT
* * * *
311756 GGGGTTACATCATAAGTGATATTTTTTTAAGTAATTTATTATCTTGTACTCTTG
257 GGGGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
*
311810 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAATGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * * * * * *
311875 AAAATTCTTACCTCTCAACGTAGATAAAAAGTTTTAGTTG-CTATTTCTAAAGTTTAATTATTTA
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTC-GTTTCTCAAGTTCAATTATTTA
* * * ** * *
311939 TAATAAGAATTCGTATTTAAAAATCAATAAAATATTAATAAAAAATATATAAGTACTTTAACACG
130 TAATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACG
* * * *
312004 AAATACTACTGAATACTAATGACATAGACAAAATGAGATTTATCCATTAACATGGAAAAATTAGT
195 AAAGACTACTG-A-A-TAATGACATAGACATAATGAGATTTATCCATTAACAT-GAAAAGTTGGT
* * *
312069 TGGGGTTACATCATTTGTGATATTTATAAAAATAATTTATTGTCTTGTACTCTTG
256 TGGGGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
312124 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
** * *
312189 AAAATTCCTACCTTTTAAAATAGAAAAAAA--TT-A-TTTTCCCTTTCTCAAGTTCAATTATTTA
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGT-CGTTTCTCAAGTTCAATTATTTA
* * * *
312250 TAATAAGAATTTGTATTTAGAAATCAAAAAAATATTGATAAAAACTATATAAACACTTTAATATG
130 TAATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACG
* * * **
312315 AAAGACAACTGAATAATGAAATAGGCATAATGAGATTTATCCATTAACATGAAAAAGTTGGTTAC
195 AAAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACATG-AAAAGTTGGTTGG
* *
312380 GGTTACATCAATAGTGATATTTATACAAGTAATTTATTGTCTTGTACTCTTG
259 GGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
312432 TTATTATGTTTGTC-AAATAAAAGATATATAATAATATATTATATAAAATATTAAAAGGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * *
312496 AAAATTCCTACCTTTTAACATAGAAAAAAAGTTTAAGTTGTTGTTTCTCCAGTTCAATTATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* ** * * *
312561 TATAAGAATTCATATTTAGAAATGAAT-AAATAATGATAAAAAATATAT-AA-A---TACT-CGA
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACGA
* * * * ** * * **
312619 AATACCATTAAATAATGGTATAGACATAATGAGATTTATTCATTAACGTGAGAAA-TTTTTTGGG
196 AAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACATGA-AAAGTTGGTTGGG
** *
312683 GTTACATCATTAGCAATATTTATATAAGTAATTTATTGTCTTGTGCTCTTG
260 GTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
*
312734 TTATTATTTTTGTCTAAATAAAA-A-ATAT-ATAATATATTATATAAAATATTAAAAAGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * *
312796 AAAATTCATACCTTTTAACGTAAAAAAAAAGTTTAAGTTGTCGTTTCTTAAGTTCGATTATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
*
312861 AATAAGAATTTGTATTTAGAAATTAATAAAATATT-ACTAAAAAATATATAAAACACTCTAATAC
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGA-TAAAAAATATAT-AAACACTCTAATAC
* * * * * * *
312925 GAAAGATTATTGAATAATGACATAGACATAATGGGATTTCTCTATTAAGATGGAAAATTTGGTTG
194 GAAAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACAT-GAAAAGTTGGTTG
* *
312990 GGGTTACATTATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTG
258 GGGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
313043 TTATTGTCTTTGTCTAAATAAAACATATATAATAATATATTATATAAAATATTAAAATA-AAAAA
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAA-AGAAAAA
* * *
313107 CAAAATTCCTACCTTTCAACGTAG-AAAAAAGTTTAAGTTATTGTTTCTCAAGTTCAATTATTTA
65 CAAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTA
** * * *
313171 TAATAAGAATTCATATTTAGAAATCAATCAAATATTAATAAAAAATATATAAGCACTCTAATACG
130 TAATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACG
* ** * * * *
313236 AAATACTTTTGAATAATAACATAGACATAATAAGATTTATCCATTAACATGAAAAAGCTAGTTGG
195 AAAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACATG-AAAAGTTGGTTGG
* * *
313301 GGTTACATTATTAGTGATATTTATACAAGTAATTTATTGTCTTGTACTATTG
259 GGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
*
313353 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAAAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * * * * * *
313418 AAAATCCCTAGCTTTCAACCTAAAAAAAAAGTTTAAGTTGTCATTTCTCAAATTTAATTATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* * *
313483 AATAAAAATTTGTATTTAGAAATTAATAAAATATTGATAAAATATATATATATATATAAATACTC
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGAT---A-A-A-A-A-ATATATAAACACTC
* *
313548 TAATAC-AATAGATTACTGAATAATGACATAGATATAATGAGATTTATCCATTAACATGGAAAAG
188 TAATACGAA-AGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACAT-GAAAAG
* * * *
313612 TTTGTTGAGGTTACATTATTAGTGATATTTATATATGTAATTTATTGTCTTGTACTCTTG
251 TTGGTTGGGGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
*
313672 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAGTATTAAAAAGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * * * *
313737 AAAATTCTTACCTTTTAACGTTG-AAAAAAGTTTAAATTGTCATTTCTTAAGTTCAATTTTTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* * *
313801 AATAGGAATTTGTATTT--AAATTAATAAAATATT-ACTAAAAAATATATAAACACTCTAACACG
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGA-TAAAAAATATATAAACACTCTAATACG
* * * * *
313863 AAAGACTATTGAATAATGACATAAACATAATGAGATTTCTCCATTAACATGAAAAATTTGATTGG
195 AAAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACATG-AAAAGTTGGTTGG
* * *
313928 GATTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTA
259 GGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
313980 TTATTATCTTTGTCTAAATAAAAGAGATATAATAATATATTTTATAAAATATT----A-AAAAA-
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * *
314039 AAAATTCCTACCTTTTAACCTAGAAAAAAAGTTTAAGTTATCGTTTCTTAAGTTTAATTATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* * * * * * * *
314104 AATAAGAATTAGTATTTAGAAATTAACAAAATTTTGATAAAAAATTTGTAAATACTCTAATATGA
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACGA
* * *
314169 AAGACTACTGAATAATAACATAAACATAATGAGATTTATCCATTAACAT----A------TGGAG
196 AAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACATGAAAAGTTGGTTGGGG
* * *
314224 TTACATCATTAGTGATATTTATACAAGTAATTTATTGTTTTATACTCTTG
261 TTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
314274 TTGTTATCTTTGTCTAAATAAAAGATATATAATAATTTATTATATAAAATATT--AAA-AAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * * * **
314336 AAAATCCCTACCTTTCAACCTAAAAAAAAAGTTTAAATTACCGTTTCTCAAGTTCAATTATTTAT
66 AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
* * * * *
314401 AATAAAAATTTATATTTAAAAATTAATAAAATATTAATAAAAAATATATATATAAACACTCTAAT
131 AATAAGAATTTGTATTTAGAAATCAATAAAATATTGAT--AAAA-A-ATATATAAACACTCTAAT
* * * * * * * *
314466 A-TAGTAGATTACTAAATAGTGACATAGATATAATGAGATTTATTCATTAACATGAAAAAGTTTG
192 ACGA-AAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACATG-AAAAGTTGG
* * * * * * *
314530 TTGAGGTTACATTATTAGTGATATTAATACATGTAATTTATTATCTTGTACTCTTA
255 TTGGGGTTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
* *
314586 TTATTATCTTTGCCTAAATAAAAAATATATAATAA
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAA
314621 CACAATCGGT
Statistics
Matches: 3793, Mismatches: 470, Indels: 184
0.85 0.11 0.04
Matches are distributed among these distances:
294 97 0.03
296 6 0.00
297 89 0.02
299 4 0.00
300 118 0.03
301 130 0.03
302 269 0.07
303 115 0.03
304 33 0.01
305 90 0.02
306 6 0.00
307 155 0.04
308 345 0.09
309 107 0.03
310 396 0.10
311 910 0.24
312 463 0.12
313 8 0.00
314 179 0.05
315 2 0.00
316 18 0.00
317 1 0.00
318 54 0.01
319 197 0.05
320 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (310 bp):
TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
AAAATTCCTACCTTTTAACGTAGAAAAAAAGTTTAAGTTGTCGTTTCTCAAGTTCAATTATTTAT
AATAAGAATTTGTATTTAGAAATCAATAAAATATTGATAAAAAATATATAAACACTCTAATACGA
AAGACTACTGAATAATGACATAGACATAATGAGATTTATCCATTAACATGAAAAGTTGGTTGGGG
TTACATCATTAGTGATATTTATATAAGTAATTTATTGTCTTGTACTCTTG
Found at i:311906 original size:934 final size:927
Alignment explanation
Indices: 309956--314620 Score: 6069
Period size: 934 Copynumber: 5.0 Consensus size: 927
309946 TAATAATATA
* *
309956 TTATATATCTTTGTCTAAATAAAAGATACATAATAATATATTATATAAAGT-TCTAAAAAGAAAA
1 TTAT-TATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATAT-TAAAAAGAAAA
* *
310020 ACAAAATTCCTA---TT-AACGTAGAAAAAAATTTAAGTTGTCGTTTCTTAAGTTCAATTATTTA
64 ACAAAATTCTTACCTTTCAACGTAGAAAAAAGTTTAAGTTGTCGTTTCTTAAGTTCAATTATTTA
* * * *
310081 TAATAAGAATTTGTATTTAGAAATTAATAAAATATTACTAAAAAACATATAAACACTTTAATTCG
129 TAATAAGAATTTGTATTTAAAAATTAATAAAATATTACTAAAAAATATATAAACACTCTAATACG
** *
310146 AAAGGTTTATTGAATAATGACATAGACATAATGAAATTTCTCCATTAACATGGAAAATTTGGTTG
194 AAA-GACTATTGAATAATGACATAGACATAATGAGATTTCTCCATTAACATGGAAAATTTGGTTG
* * *
310211 GGGTTACGTTATTAGTGATATTTATATAAATAATTTATTGTCTTATACTCTTGTTATTATCTTTG
258 GGGTTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTATCTTTG
*
310276 TCTAAATAAAAGATATATAATAATATATTATATAAAATATTGAAAAGAAAAGCAAAATTCCTACC
323 TCTAAATAAAAGATATATAATAATATATTATATAAAATATT-AAAAGAAAAACAAAATTCCTACC
* * * * * *
310341 TTTTAACCTAGAAAAGAAGTTTAAGTTGTCGTTTCTCAAATTCAATTATTTATAGTAAGAATTTA
387 TTTTAACATAGAAAAAAAGTTTAAGTTCT-GTTTCTCAAGTTCAATTATTTATAATAAGAATTCA
* * *
310406 TATTTAGAAATTAACAAAATATTGA-AAAAAATTTATAAATACTCTAATACGAAAGACTACTGAA
451 TATTTAGAAATCAACAAAATATTGATAAAAAATATATAAACACTCTAATACGAAAGACTACTGAA
* * *
310470 TAATAAAATAAACATAATGAGATTTATCCATTAACAT-AGAAAAGTTGGTTGGGGTTACATCATT
516 TAATAACATAAACATAATGAGATTTATCCATTAACATGA-AAAAGCTAGTT-GGGTTACATCATT
* * *
310534 AGTGATATTTATACAAGTAATTTATTATCTTATACTCTTGTTGTTATCTTTGTCTAAATAAAAGA
579 AGTGATATTTATACAAGTAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCTAAATAAAAGA
* * ** * *
310599 TATATAATAATATATTATATAAAACATT-AAAATAAAACAAAATTTTTACCTTTCAACGT---AG
644 TATATAATAATATATTATATAAAATATTAAAAAGAAAACAAAATTCCTACCTTTCAACATAAAAA
* * * * *
310660 AAAA----AAGTTGCTGTTTCTCAAGTTTAATAATTTATAACAAGAATTTGTAATTAGAAATCAA
709 AAAAGTTTAAGTTGCCGTTTCTCAAGTTCAATTATTTATAATAAGAATTTGTATTTAGAAATCAA
* * * ** * *
310721 CAAAATATCGATAAAAAATATATAAATACTTTAATACGAAAGACTACTGAATAATGACATAAACA
774 TAAAATAT-TATAAAAAATATATAAATACTCTAATAAAAAAGATTACTGAATAATGACATAGACA
* * * * *
310786 TAATGAGATTTATCCTTTAACATAGAAAAGTTGGTTGGGGTTACATCATTTGTCATATTTATATA
838 TAATGAGATTTATCCATTAACATGGAAAAGTTTGTTGGGGTTACATCATTAGTGATATTTATATA
*
310851 AGTAATTTATTGTCTTGTACTCTTA
903 AGTAATTTATTGTCTTGTACTCTTG
* *
310876 TTATTATCTTTGTCTAAATAAAAGGTATATAATAATATATTATATAAAATATTAAAATGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
*
310941 AAAATTCTTACCTTTCAACGTAGAAAAAAAGTTTAAGTTGTTGTTT-TTCAAGTTCAATTATTTA
66 AAAATTCTTACCTTTCAACGTAG-AAAAAAGTTTAAGTTGTCGTTTCTT-AAGTTCAATTATTTA
* * * **
311005 TAATAAGAATTTGTATTTAAAAATCAACAAAATATCGA-TAAAAAATATATAAATTCTCTAATAC
129 TAATAAGAATTTGTATTTAAAAATTAATAAAATAT-TACTAAAAAATATATAAACACTCTAATAC
* * * * ** * * *
311069 GAAAGACTACTAAATAATGACATAGACATAGTGAGATTTATCGTTTAACATAGAAAAGTTGGTAG
193 GAAAGACTATTGAATAATGACATAGACATAATGAGATTTCTCCATTAACATGGAAAATTTGGTTG
**
311134 ATGTTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTATCTTTG
258 GGGTTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTATCTTTG
* *
311199 TCTAAATAAAATATATATAATAGTATATTATATAAAATATTAAAATGAAAAACAAAATTCCTACC
323 TCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAA-GAAAAACAAAATTCCTACC
* *
311264 TTTTAACATAGAAAAAAAGTTTTAGTTGCTGTTTCTCAAGTTCAATTATTTATAGTAAGAATTCA
387 TTTTAACATAGAAAAAAAGTTTAAGTT-CTGTTTCTCAAGTTCAATTATTTATAATAAGAATTCA
* * * * * * *
311329 CATTTAGAAATCAATAAAATATTAATAAAAAATATATAAGCACTCTAATACGAAATACTTCTAAA
451 TATTTAGAAATCAACAAAATATTGATAAAAAATATATAAACACTCTAATACGAAAGACTACTGAA
* * *
311394 TAATAGCATAAACATAATGTGATTTATCCATTAACATGGAAAAGCTAGTTGGGATTACATCATTA
516 TAATAACATAAACATAATGAGATTTATCCATTAACATGAAAAAGCTAGTTGGG-TTACATCATTA
*
311459 GTGATATTTATACAAGTAATTTATTGTCTTGTACTTTTGTTATTATCTTTGTCTAAATAAAAGAT
580 GTGATATTTATACAAGTAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCTAAATAAAAGAT
* *
311524 ATATAATAATATATTATATAAAGTATTAAAAAGAAAAGCAAAATTCCTACCTTTTAACATAAAAA
645 ATATAATAATATATTATATAAAATATTAAAAAGAAAA-CAAAATTCCTACCTTTCAACAT-AAAA
* * * * *
311589 AAAAAATTTAAGTTACCGTTTTTTAAGTTCAATTATTTATAATAGGAATTTGTATTTAGAAATCA
708 AAAAAGTTTAAGTTGCCGTTTCTCAAGTTCAATTATTTATAATAAGAATTTGTATTTAGAAATCA
* * * *
311654 ATAAAATATTACTAAAAAATATATAAACACCCTAATAAAAAAGATTATTGAATAACGACATAGAC
773 ATAAAATATTA-TAAAAAATATATAAATACTCTAATAAAAAAGATTACTGAATAATGACATAGAC
* * * * *
311719 ATAAGGAGATTTCA-CCATTAACATGGAAAATTTTGTTGGGGTTACATCATAAGTGATATTTTTT
837 ATAATGAGATTT-ATCCATTAACATGGAAAAGTTTGTTGGGGTTACATCATTAGTGATATTTATA
*
311783 TAAGTAATTTATTATCTTGTACTCTTG
901 TAAGTAATTTATTGTCTTGTACTCTTG
*
311810 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAATGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * * *
311875 AAAATTCTTACCTCTCAACGTAGATAAAAAGTTTTAGTTG-CTATTTCTAAAGTTTAATTATTTA
66 AAAATTCTTACCTTTCAACGTAGA-AAAAAGTTTAAGTTGTC-GTTTCTTAAGTTCAATTATTTA
* * * ** * *
311939 TAATAAGAATTCGTATTTAAAAATCAATAAAATATTAATAAAAAATATATAAGTACTTTAACACG
129 TAATAAGAATTTGTATTTAAAAATTAATAAAATATTACTAAAAAATATATAAACACTCTAATACG
* * * * * *
312004 AAATACTACTGAATACTAATGACATAGACAAAATGAGATTTATCCATTAACATGGAAAAATTAGT
194 AAAGACTATTG-A-A-TAATGACATAGACATAATGAGATTTCTCCATTAACATGGAAAATTTGGT
* *
312069 TGGGGTTACATCATTTGTGATATTTATAAAAATAATTTATTGTCTTGTACTCTTGTTATTATCTT
256 TGGGGTTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTATCTT
312134 TGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAACAAAATTCCTA
321 TGTCTAAATAAAAGATATATAATAATATATTATATAAAATATT-AAAAGAAAAACAAAATTCCTA
* ** ** *
312199 CCTTTTAAAATAGAAAAAAA--TTATTTTCCCTTTCTCAAGTTCAATTATTTATAATAAGAATTT
385 CCTTTTAACATAGAAAAAAAGTTTAAGTTCTGTTTCTCAAGTTCAATTATTTATAATAAGAATTC
* * * * * *
312262 GTATTTAGAAATCAAAAAAATATTGATAAAAACTATATAAACACTTTAATATGAAAGACAACTGA
450 ATATTTAGAAATCAACAAAATATTGATAAAAAATATATAAACACTCTAATACGAAAGACTACTGA
** * * * *
312327 ATAATGAA-ATAGGCATAATGAGATTTATCCATTAACATGAAAAAGTTGGTTACGGTTACATCAA
515 ATAAT-AACATAAACATAATGAGATTTATCCATTAACATGAAAAAGCTAGTT-GGGTTACATCAT
*
312391 TAGTGATATTTATACAAGTAATTTATTGTCTTGTACTCTTGTTATTATGTTTGTC-AAATAAAAG
578 TAGTGATATTTATACAAGTAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCTAAATAAAAG
* * *
312455 ATATATAATAATATATTATATAAAATATTAAAAGGAAAAACAAAATTCCTACCTTTTAACATAGA
643 ATATATAATAATATATTATATAAAATATTAAAAAG-AAAACAAAATTCCTACCTTTCAACATAAA
** * * ** *
312520 AAAAAAGTTTAAGTTGTTGTTTCTCCAGTTCAATTATTTATTATAAGAATTCATATTTAGAAATG
707 AAAAAAGTTTAAGTTGCCGTTTCTCAAGTTCAATTATTTATAATAAGAATTTGTATTTAGAAATC
* * * ** **
312585 AAT-AAATAATGATAAAAAATATATAAATACTC---GAAATACCATTA---AATAATGGTATAGA
772 AATAAAAT-ATTATAAAAAATATATAAATACTCTAATAAAAAAGATTACTGAATAATGACATAGA
* * * **
312643 CATAATGAGATTTATTCATTAACGT-GAGAAA-TTTTTTGGGGTTACATCATTAGCAATATTTAT
836 CATAATGAGATTTATCCATTAACATGGA-AAAGTTTGTTGGGGTTACATCATTAGTGATATTTAT
*
312706 ATAAGTAATTTATTGTCTTGTGCTCTTG
900 ATAAGTAATTTATTGTCTTGTACTCTTG
*
312734 TTATTATTTTTGTCTAAATAAAA-A-ATAT-ATAATATATTATATAAAATATTAAAAAGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * *
312796 AAAATTCATACCTTTTAACGTAAAAAAAAAGTTTAAGTTGTCGTTTCTTAAGTTCGATTATTTAT
66 AAAATTCTTACCTTTCAACGT-AGAAAAAAGTTTAAGTTGTCGTTTCTTAAGTTCAATTATTTAT
*
312861 AATAAGAATTTGTATTTAGAAATTAATAAAATATTACTAAAAAATATATAAAACACTCTAATACG
130 AATAAGAATTTGTATTTAAAAATTAATAAAATATTACTAAAAAATATAT-AAACACTCTAATACG
* * * *
312926 AAAGATTATTGAATAATGACATAGACATAATGGGATTTCTCTATTAAGATGGAAAATTTGGTTGG
194 AAAGACTATTGAATAATGACATAGACATAATGAGATTTCTCCATTAACATGGAAAATTTGGTTGG
* *
312991 GGTTACATTATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTGTCTTTGT
259 GGTTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTATCTTTGT
* *
313056 CTAAATAAAACATATATAATAATATATTATATAAAATATTAAAATAAAAAACAAAATTCCTACCT
324 CTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAA-GAAAAACAAAATTCCTACCT
* * *
313121 TTCAACGTAG-AAAAAAGTTTAAGTTATTGTTTCTCAAGTTCAATTATTTATAATAAGAATTCAT
388 TTTAACATAGAAAAAAAGTTTAAGTT-CTGTTTCTCAAGTTCAATTATTTATAATAAGAATTCAT
* * * **
313185 ATTTAGAAATCAATC-AAATATTAATAAAAAATATATAAGCACTCTAATACGAAATACTTTTGAA
452 ATTTAGAAATCAA-CAAAATATTGATAAAAAATATATAAACACTCTAATACGAAAGACTACTGAA
* * *
313249 TAATAACATAGACATAATAAGATTTATCCATTAACATGAAAAAGCTAGTTGGGGTTACATTATTA
516 TAATAACATAAACATAATGAGATTTATCCATTAACATGAAAAAGCTAGTT-GGGTTACATCATTA
*
313314 GTGATATTTATACAAGTAATTTATTGTCTTGTACTATTGTTATTATCTTTGTCTAAATAAAAGAT
580 GTGATATTTATACAAGTAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCTAAATAAAAGAT
* * * *
313379 ATATAATAATATATTATATAAAATATTAAAAAAAAAAACAAAATCCCTAGCTTTCAACCTAAAAA
645 ATATAATAATATATTATATAAAATATT-AAAAAGAAAACAAAATTCCTACCTTTCAACATAAAAA
* * * * * *
313444 AAAAGTTTAAGTTGTCATTTCTCAAATTTAATTATTTATAATAAAAATTTGTATTTAGAAATTAA
709 AAAAGTTTAAGTTGCCGTTTCTCAAGTTCAATTATTTATAATAAGAATTTGTATTTAGAAATCAA
* *
313509 TAAAATATTGATAAAATATATATATATATATAAATACTCTAATACAATAGATTACTGAATAATGA
774 TAAAATATT-AT---A-A-A-A-A-ATATATAAATACTCTAATAAAAAAGATTACTGAATAATGA
* * *
313574 CATAGATATAATGAGATTTATCCATTAACATGGAAAAGTTTGTTGAGGTTACATTATTAGTGATA
830 CATAGACATAATGAGATTTATCCATTAACATGGAAAAGTTTGTTGGGGTTACATCATTAGTGATA
*
313639 TTTATATATGTAATTTATTGTCTTGTACTCTTG
895 TTTATATAAGTAATTTATTGTCTTGTACTCTTG
*
313672 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAGTATTAAAAAGAAAAAC
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
* * * * *
313737 AAAATTCTTACCTTTTAACGTTGAAAAAAGTTTAAATTGTCATTTCTTAAGTTCAATTTTTTATA
66 AAAATTCTTACCTTTCAACGTAGAAAAAAGTTTAAGTTGTCGTTTCTTAAGTTCAATTATTTATA
* *
313802 ATAGGAATTTGTATTT--AAATTAATAAAATATTACTAAAAAATATATAAACACTCTAACACGAA
131 ATAAGAATTTGTATTTAAAAATTAATAAAATATTACTAAAAAATATATAAACACTCTAATACGAA
* * * *
313865 AGACTATTGAATAATGACATAAACATAATGAGATTTCTCCATTAACATGAAAAATTTGATTGGGA
196 AGACTATTGAATAATGACATAGACATAATGAGATTTCTCCATTAACATGGAAAATTTGGTTGGGG
*
313930 TTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTATTATTATCTTTGTCT
261 TTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCT
* *
313995 AAATAAAAGAGATATAATAATATATTTTATAAAATATT---A-AAAAA-AAAATTCCTACCTTTT
326 AAATAAAAGATATATAATAATATATTATATAAAATATTAAAAGAAAAACAAAATTCCTACCTTTT
* * * *
314055 AACCTAGAAAAAAAGTTTAAGTTATCGTTTCTTAAGTTTAATTATTTATAATAAGAATT-AGTAT
391 AACATAGAAAAAAAGTTTAAGTTCT-GTTTCTCAAGTTCAATTATTTATAATAAGAATTCA-TAT
* * * * * *
314119 TTAGAAATTAACAAAATTTTGATAAAAAATTTGTAAATACTCTAATATGAAAGACTACTGAATAA
454 TTAGAAATCAACAAAATATTGATAAAAAATATATAAACACTCTAATACGAAAGACTACTGAATAA
*
314184 TAACATAAACATAATGAGATTTATCCATTAACAT-----A--T-G--GAGTTACATCATTAGTGA
519 TAACATAAACATAATGAGATTTATCCATTAACATGAAAAAGCTAGTTGGGTTACATCATTAGTGA
* * *
314239 TATTTATACAAGTAATTTATTGTTTTATACTCTTGTTGTTATCTTTGTCTAAATAAAAGATATAT
584 TATTTATACAAGTAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCTAAATAAAAGATATAT
* * *
314304 AATAATTTATTATATAAAATATT-AAAA-AAAACAAAATCCCTACCTTTCAACCTAAAAAAAAAG
649 AATAATATATTATATAAAATATTAAAAAGAAAACAAAATTCCTACCTTTCAACATAAAAAAAAAG
* * * * * *
314367 TTTAAATTACCGTTTCTCAAGTTCAATTATTTATAATAAAAATTTATATTTAAAAATTAATAAAA
714 TTTAAGTTGCCGTTTCTCAAGTTCAATTATTTATAATAAGAATTTGTATTTAGAAATCAATAAAA
* * ** * * *
314432 TATTAATAAAAAATATATATATAAACACTCTAATATAGTAGATTACTAAATAGTGACATAGATAT
779 TATT-AT--AAAA-A-ATATATAAATACTCTAATAAAAAAGATTACTGAATAATGACATAGACAT
* * * * * * *
314497 AATGAGATTTATTCATTAACATGAAAAAGTTTGTTGAGGTTACATTATTAGTGATATTAATACAT
839 AATGAGATTTATCCATTAACATGGAAAAGTTTGTTGGGGTTACATCATTAGTGATATTTATATAA
* *
314562 GTAATTTATTATCTTGTACTCTTA
904 GTAATTTATTGTCTTGTACTCTTG
* *
314586 TTATTATCTTTGCCTAAATAAAAAATATATAATAA
1 TTATTATCTTTGTCTAAATAAAAGATATATAATAA
314621 CACAATCGGT
Statistics
Matches: 3297, Mismatches: 373, Indels: 156
0.86 0.10 0.04
Matches are distributed among these distances:
914 164 0.05
915 1 0.00
916 1 0.00
917 3 0.00
918 108 0.03
919 239 0.07
920 13 0.00
921 420 0.13
922 154 0.05
923 267 0.08
924 344 0.10
925 44 0.01
926 19 0.01
927 2 0.00
928 9 0.00
929 1 0.00
930 6 0.00
931 60 0.02
932 199 0.06
933 67 0.02
934 557 0.17
935 10 0.00
936 1 0.00
937 386 0.12
938 111 0.03
939 1 0.00
940 57 0.02
941 53 0.02
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (927 bp):
TTATTATCTTTGTCTAAATAAAAGATATATAATAATATATTATATAAAATATTAAAAAGAAAAAC
AAAATTCTTACCTTTCAACGTAGAAAAAAGTTTAAGTTGTCGTTTCTTAAGTTCAATTATTTATA
ATAAGAATTTGTATTTAAAAATTAATAAAATATTACTAAAAAATATATAAACACTCTAATACGAA
AGACTATTGAATAATGACATAGACATAATGAGATTTCTCCATTAACATGGAAAATTTGGTTGGGG
TTACATCATTAGTGATATTTATATAAATAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCT
AAATAAAAGATATATAATAATATATTATATAAAATATTAAAAGAAAAACAAAATTCCTACCTTTT
AACATAGAAAAAAAGTTTAAGTTCTGTTTCTCAAGTTCAATTATTTATAATAAGAATTCATATTT
AGAAATCAACAAAATATTGATAAAAAATATATAAACACTCTAATACGAAAGACTACTGAATAATA
ACATAAACATAATGAGATTTATCCATTAACATGAAAAAGCTAGTTGGGTTACATCATTAGTGATA
TTTATACAAGTAATTTATTGTCTTGTACTCTTGTTATTATCTTTGTCTAAATAAAAGATATATAA
TAATATATTATATAAAATATTAAAAAGAAAACAAAATTCCTACCTTTCAACATAAAAAAAAAGTT
TAAGTTGCCGTTTCTCAAGTTCAATTATTTATAATAAGAATTTGTATTTAGAAATCAATAAAATA
TTATAAAAAATATATAAATACTCTAATAAAAAAGATTACTGAATAATGACATAGACATAATGAGA
TTTATCCATTAACATGGAAAAGTTTGTTGGGGTTACATCATTAGTGATATTTATATAAGTAATTT
ATTGTCTTGTACTCTTG
Found at i:319012 original size:50 final size:50
Alignment explanation
Indices: 318953--319312 Score: 497
Period size: 50 Copynumber: 7.2 Consensus size: 50
318943 TATACTTAGA
*
318953 GTCAACAATTATGGCCACCT-TGCTTTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCT-CTCTATTGTCAAAGGTTGGTGAAGAATC
** *
319003 GTCAACAATTATGGCCATTTCTCTCTATTGTCAAAGGTTGGTGAAGAATG
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
319053 GTCAACAATAATGGCCACCTCTCTCTATTGTCAAAAGTTAGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
319103 GTCAACAATTACGGACCATCTCTCTCTATTGTCAAAGGTTGGTAAAGAATC
1 GTCAACAATTATGG-CCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
319154 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAATGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * *
319204 GTCAACAATTACGACCACCTCTCTCTATTATCAAATGTTGGTAAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * *
319254 GTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTGGGTGAAGGATA
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
319304 GTCAACAAT
1 GTCAACAAT
319313 GGCAACAACT
Statistics
Matches: 276, Mismatches: 32, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
50 230 0.83
51 46 0.17
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:324016 original size:50 final size:50
Alignment explanation
Indices: 323708--324003 Score: 421
Period size: 50 Copynumber: 5.9 Consensus size: 50
323698 TATACTTAGA
* *
323708 GTCAACAATTATGGCCACCTTTATCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * *
323758 GTCAAAAATTATGGTCACATCTCTCTATTATCAAAAGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
323808 GTCAACAATAATGGCCACCTCTCTCTATTGTCAAAGGTTGGTAAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
323858 GTCAAAAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
323908 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAATGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
** * * *
323958 GTCAACAATTACAGCCACCTTTCTCTACTGTCAAAAGTTGGTGAAG
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAG
324004 GATAATCAAC
Statistics
Matches: 216, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 216 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:326736 original size:13 final size:13
Alignment explanation
Indices: 326718--326742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
326708 ACAAGTTACA
326718 ATTGTATCGATAT
1 ATTGTATCGATAT
326731 ATTGTATCGATA
1 ATTGTATCGATA
326743 CACGTTGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:326742 original size:34 final size:33
Alignment explanation
Indices: 326699--326762 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
326689 CACATGCAGA
326699 TGTATCGATACAAGTTACAATTGTATCGATATAT
1 TGTATCGATACAAGTTACAA-TGTATCGATATAT
* *
326733 TGTATCGATACACGTTGCAATGTATCGATA
1 TGTATCGATACAAGTTACAATGTATCGATA
326763 CACTATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAAGTTACAATGTATCGATATAT
Found at i:327412 original size:34 final size:34
Alignment explanation
Indices: 327330--327418 Score: 83
Period size: 34 Copynumber: 2.6 Consensus size: 34
327320 TGAGTAAAAG
* * *
327330 GTTCTATCTAAACCTTCGAAAAGATAGTGTAGTA
1 GTTCTATTTAAGCCTTCAAAAAGATAGTGTAGTA
* * *
327364 GTTTTACCTT-AGCCTTCAAAAAGATAGTGTTG-A
1 GTTCTA-TTTAAGCCTTCAAAAAGATAGTGTAGTA
*
327397 GATTCTATTTAAGCCTTGAAAA
1 G-TTCTATTTAAGCCTTCAAAA
327419 GGTATAGTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
33 4 0.09
34 38 0.88
35 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (34 bp):
GTTCTATTTAAGCCTTCAAAAAGATAGTGTAGTA
Found at i:335876 original size:8 final size:8
Alignment explanation
Indices: 335863--335927 Score: 66
Period size: 8 Copynumber: 8.2 Consensus size: 8
335853 ATATTTATAT
335863 TATATTTA
1 TATATTTA
335871 TATATTT-
1 TATATTTA
335878 TAT-TTTA
1 TATATTTA
335885 TTATATTT-
1 -TATATTTA
335893 T-TATTTAA
1 TATATTT-A
335901 TATATTTTA
1 TATA-TTTA
335910 TATATTTA
1 TATATTTA
*
335918 TATAGTTA
1 TATATTTA
335926 TA
1 TA
335928 GCTATATTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
6 8 0.16
7 4 0.08
8 24 0.49
9 10 0.20
10 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
TATATTTA
Found at i:335876 original size:13 final size:13
Alignment explanation
Indices: 335858--335920 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
335848 AATGCATATT
335858 TATATTATATTTA
1 TATATTATATTTA
*
335871 TATATTTTATTTTA
1 TATATTATA-TTTA
*
335885 TTATATTTTTATTTA
1 -TATA-TTATATTTA
335900 -ATA-TAT-TTTA
1 TATATTATATTTA
335910 TATATTTATAT
1 TATA-TTATAT
335921 AGTTATAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
13 14 0.34
14 5 0.12
15 8 0.20
16 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATATTATATTTA
Found at i:335885 original size:25 final size:25
Alignment explanation
Indices: 335855--335927 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 25
335845 TCAAATGCAT
335855 ATTTATATTATATTTATATATTT-T-
1 ATTT-TATTATATTTATATATTTATA
335879 ATTTTATTATATTT-T-TATTTAATA
1 ATTTTATTATATTTATATATTT-ATA
*
335903 TATTTTA-TATATTTATATAGTTATA
1 -ATTTTATTATATTTATATATTTATA
335928 GCTATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 5 0.12
22 1 0.02
23 11 0.26
24 11 0.26
25 10 0.24
26 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (25 bp):
ATTTTATTATATTTATATATTTATA
Found at i:335889 original size:15 final size:15
Alignment explanation
Indices: 335857--335910 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
335847 AAATGCATAT
*
335857 TTATATTATA-TTTA
1 TTATATTTTATTTTA
335871 -TATATTTTATTTTA
1 TTATATTTTATTTTA
335885 TTATATTTT-TATTTA
1 TTATATTTTAT-TTTA
*
335900 ATATATTTTAT
1 TTATATTTTAT
335911 ATATTTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.24
14 5 0.15
15 20 0.59
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATTTTATTTTA
Found at i:335919 original size:30 final size:29
Alignment explanation
Indices: 335853--335920 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
335843 TATCAAATGC
335853 ATATTTATA-TTATATTTATATATTTTAT
1 ATATTTATATTTATATTTATATATTTTAT
* *
335881 -TTTATTATATTTTTATTTAATATATTTTAT
1 ATAT-TTATATTTATATTT-ATATATTTTAT
335911 ATATTTATAT
1 ATATTTATAT
335921 AGTTATAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 5 0.15
29 7 0.21
30 17 0.52
31 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
ATATTTATATTTATATTTATATATTTTAT
Found at i:335989 original size:18 final size:18
Alignment explanation
Indices: 335963--336006 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
335953 AAATTTTAAA
335963 ATATATATTTATATCATATT
1 ATAT-TATTTAT-TCATATT
*
335983 -TATTATTTATTTATATT
1 ATATTATTTATTCATATT
336000 ATATTAT
1 ATATTAT
336007 GTTTAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 13 0.59
19 3 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTATTTATTCATATT
Found at i:336004 original size:15 final size:15
Alignment explanation
Indices: 335854--335920 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 15
335844 ATCAAATGCA
335854 TATTTATATTATATT
1 TATTTATATTATATT
* *
335869 TATATATTTTAT-TT
1 TATTTATATTATATT
*
335883 TA-TTATATTTTTATT
1 TATTTATA-TTATATT
* * *
335898 TA-ATATATTTTATA
1 TATTTATATTATATT
335912 TATTTATAT
1 TATTTATAT
335921 AGTTATAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
13 3 0.07
14 15 0.37
15 23 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTATATTATATT
Found at i:336460 original size:5 final size:5
Alignment explanation
Indices: 336420--336476 Score: 54
Period size: 4 Copynumber: 12.4 Consensus size: 5
336410 ATGAAATTTT
*
336420 AAAAG CAAAA- AAAA- AAAA- AAAA- AAAA- AAAAG -GAAG AAAAG AAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
336465 AAAAG AAAAG AA
1 AAAAG AAAAG AA
336477 TCATGGCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
4 23 0.49
5 20 0.43
6 4 0.09
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:336476 original size:15 final size:13
Alignment explanation
Indices: 336420--336473 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
336410 ATGAAATTTT
336420 AAAAGCAAAAAAAA
1 AAAAG-AAAAAAAA
336434 AAAA-AAAAAAAA
1 AAAAGAAAAAAAA
* *
336446 AAAAGGAAGAAAAG
1 AAAA-GAAAAAAAA
336460 AAAAGAAAAGAAAA
1 AAAAGAAAA-AAAA
336474 GAATCATGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 12 0.36
13 4 0.12
14 17 0.52
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:337553 original size:13 final size:13
Alignment explanation
Indices: 337535--337560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
337525 TTTAAAAAAA
337535 TAAATATATATTT
1 TAAATATATATTT
337548 TAAATATATATTT
1 TAAATATATATTT
337561 ATATTCGATT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATATATATTT
Found at i:337987 original size:142 final size:143
Alignment explanation
Indices: 337730--338008 Score: 400
Period size: 142 Copynumber: 2.0 Consensus size: 143
337720 ACTGATGCAG
* * *
337730 CATAAAATAATTAATCTTGCACTTGCCTTTTCAAGTCAACCCACCGTCTGAATTCCAAAGTCTTT
1 CATAAAATAATTAATCCTGCACTTGCCTTTTCAAGCCAACCCAACGTCTGAATTCCAAAGTCTTT
* * * * *
337795 AAAGCTGTTTTCCATTAAATTTAAGTTATCAAGTCTTCTCCGACTAAAATAATTAATTTATTGTA
66 AAAGCTGTTTCCCACTAAATGTAACTCATCAAGTCTTCTCCGACTAAAATAATTAATTTATTGTA
337860 TCAATTGACGGAA
131 TCAATTGACGGAA
* * *
337873 CATAAAATAATTGATCCTGCACTTG-CTTTTCCAAGCCAA-CCAACGTCTTAATTCCGAAGTCTT
1 CATAAAATAATTAATCCTGCACTTGCCTTTT-CAAGCCAACCCAACGTCTGAATTCCAAAGTCTT
* * * *
337936 TAATGCTGTTTCCCACTAAATGTACCTCATCGAGTCTTTTCCGACTAAAATAATTAATTTATTGT
65 TAAAGCTGTTTCCCACTAAATGTAACTCATCAAGTCTTCTCCGACTAAAATAATTAATTTATTGT
338001 ATCAATTG
130 ATCAATTG
338009 TGTATCCCAC
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
142 90 0.75
143 30 0.25
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (143 bp):
CATAAAATAATTAATCCTGCACTTGCCTTTTCAAGCCAACCCAACGTCTGAATTCCAAAGTCTTT
AAAGCTGTTTCCCACTAAATGTAACTCATCAAGTCTTCTCCGACTAAAATAATTAATTTATTGTA
TCAATTGACGGAA
Found at i:338033 original size:67 final size:67
Alignment explanation
Indices: 337946--338080 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 67
337936 TAATGCTGTT
* * *
337946 TCCCACTAAATGTACCTCATCGAGTCTTTTCCGACTAAAATAATTAATTTATTGTATCAATTGTG
1 TCCCACTAAATGCAACTCATCGAGTCTTTTCCGACTAAAATAATTAATTTATTATATCAATTGTG
338011 TA
66 TA
* ** *
338013 TCCCACTAAATGCAAGTCATCGAGTCTTTTTGGATTAAAATAATTAATTTATTATATCAATTGTG
1 TCCCACTAAATGCAACTCATCGAGTCTTTTCCGACTAAAATAATTAATTTATTATATCAATTGTG
338078 TA
66 TA
338080 T
1 T
338081 TGACTCATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (67 bp):
TCCCACTAAATGCAACTCATCGAGTCTTTTCCGACTAAAATAATTAATTTATTATATCAATTGTG
TA
Found at i:338209 original size:23 final size:21
Alignment explanation
Indices: 338179--338221 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
338169 ATTTTATTTT
338179 TAAAAATTAAAATTAATTTAAAA
1 TAAAAATT-AAATT-ATTTAAAA
338202 TAAAAATTAAATTATTTAAA
1 TAAAAATTAAATTATTTAAA
338222 CTCATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATTAAATTATTTAAAA
Found at i:339164 original size:13 final size:13
Alignment explanation
Indices: 339146--339174 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
339136 TTAAGGCATT
339146 ATATCATTATAAG
1 ATATCATTATAAG
339159 ATATCATTATAAG
1 ATATCATTATAAG
339172 ATA
1 ATA
339175 GGAGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (13 bp):
ATATCATTATAAG
Found at i:339393 original size:20 final size:21
Alignment explanation
Indices: 339354--339394 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
339344 TTTCTAACAC
* *
339354 TTTTAGAGATAATTTTTTAAT
1 TTTTAAAGATAATTTATTAAT
339375 TTTTAAAGATAA-TTATTAAT
1 TTTTAAAGATAATTTATTAAT
339395 CATTTTTATT
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:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTTAAAGATAATTTATTAAT
Found at i:339734 original size:2 final size:2
Alignment explanation
Indices: 339727--339757 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
339717 ATACCTCCAT
*
339727 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
339758 GTAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:339988 original size:23 final size:22
Alignment explanation
Indices: 339956--340002 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
339946 ATTTAAAATT
*
339956 AATTTAAAAAATAAAAAGAA-AA
1 AATTTTAAAAATAAAAA-AATAA
339978 AATTTTAAAAATAAAAAAATAA
1 AATTTTAAAAATAAAAAAATAA
340000 AAT
1 AAT
340003 CTTCTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (22 bp):
AATTTTAAAAATAAAAAAATAA
Found at i:340247 original size:29 final size:28
Alignment explanation
Indices: 340214--340273 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
340204 ACCCCTCATA
*
340214 TTTAAATAAATTATCAAAATAATATTAAT
1 TTTAAATAAATTACCAAAATAATATT-AT
* * *
340243 TTTAAATGAATTACCTAAATATTATTAT
1 TTTAAATAAATTACCAAAATAATATTAT
340271 TTT
1 TTT
340274 GCCATGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (28 bp):
TTTAAATAAATTACCAAAATAATATTAT
Found at i:340426 original size:15 final size:15
Alignment explanation
Indices: 340406--340436 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
340396 CATAAATAAA
*
340406 AGAATTTTTTATTAT
1 AGAATTTATTATTAT
340421 AGAATTTATTATTAT
1 AGAATTTATTATTAT
340436 A
1 A
340437 TTTATAAATA
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:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
AGAATTTATTATTAT
Found at i:340479 original size:17 final size:18
Alignment explanation
Indices: 340459--340522 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
340449 ATAATATTTT
340459 TAATTAAAAAAT-AAACA
1 TAATTAAAAAATAAAACA
*
340476 TAA-TAATAAAATTAACAATA
1 TAATTAA-AAAA-TAA-AACA
340496 TAATTAAAAAATAAAAGCA
1 TAATTAAAAAATAAAA-CA
340515 TAATTAAA
1 TAATTAAA
340523 TTAATAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.08
17 7 0.18
18 3 0.08
19 13 0.33
20 10 0.26
21 3 0.08
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
TAATTAAAAAATAAAACA
Found at i:340505 original size:19 final size:18
Alignment explanation
Indices: 340459--340541 Score: 57
Period size: 19 Copynumber: 4.6 Consensus size: 18
340449 ATAATATTTT
*
340459 TAATTAAAAAATAAACATAA
1 TAATTAAAAATTAAA-AT-A
340479 TAA-T-AAAATTAACAATA
1 TAATTAAAAATTAA-AATA
* *
340496 TAATTAAAAAATAAAAGCA
1 TAATTAAAAATTAAAA-TA
*
340515 TAATT--AAATTAATAATG
1 TAATTAAAAATTAA-AATA
340532 TAATTAAAAA
1 TAATTAAAAA
340542 CCATATCAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
17 15 0.30
18 14 0.28
19 18 0.36
20 3 0.06
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
TAATTAAAAATTAAAATA
Found at i:340518 original size:36 final size:37
Alignment explanation
Indices: 340459--340541 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 37
340449 ATAATATTTT
*
340459 TAATTAAAAAATAAACATAATAATAAAATTAACAATA
1 TAATTAAAAAATAAACAGAATAATAAAATTAACAATA
* * * *
340496 TAATTAAAAAATAAA-AGCATAATTAAATTAATAATG
1 TAATTAAAAAATAAACAGAATAATAAAATTAACAATA
340532 TAATTAAAAA
1 TAATTAAAAA
340542 CCATATCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 26 0.63
37 15 0.37
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (37 bp):
TAATTAAAAAATAAACAGAATAATAAAATTAACAATA
Found at i:341647 original size:19 final size:19
Alignment explanation
Indices: 341623--341672 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
341613 TTTATATTAA
341623 TTAAAAATAATATATATAT
1 TTAAAAATAATATATATAT
*
341642 TT-AAAATAAAAATATATAT
1 TTAAAAAT-AATATATATAT
*
341661 TTAAAAGTAATA
1 TTAAAAATAATA
341673 GCTTAATGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 5 0.19
19 17 0.65
20 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTAAAAATAATATATATAT
Found at i:346576 original size:27 final size:27
Alignment explanation
Indices: 346541--346611 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
346531 AAAAGCCACC
*
346541 CTTTGTATTTGTCAAAAATGGTGGTTA
1 CTTTATATTTGTCAAAAATGGTGGTTA
*
346568 CTTTATATTTGTCAAAAATGGTGGTTC
1 CTTTATATTTGTCAAAAATGGTGGTTA
* *
346595 CTTTTTGTTTGTCAAAA
1 CTTTATATTTGTCAAAA
346612 TTTGTGGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.46
Consensus pattern (27 bp):
CTTTATATTTGTCAAAAATGGTGGTTA
Found at i:346618 original size:27 final size:26
Alignment explanation
Indices: 346548--346635 Score: 99
Period size: 27 Copynumber: 3.4 Consensus size: 26
346538 ACCCTTTGTA
* *
346548 TTTGTCAAAAATGGTGGTTACTTTATA
1 TTTGTCAAAAATGGTGGTT-CTTTTTG
346575 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTT-CTTTTTG
* * *
346602 TTTGTCAAAATTTGTGG--CTTGTTG
1 TTTGTCAAAAATGGTGGTTCTTTTTG
346626 TTTGTCAAAA
1 TTTGTCAAAA
346636 TTTGTGGCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 16 0.29
27 39 0.71
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (26 bp):
TTTGTCAAAAATGGTGGTTCTTTTTG
Found at i:346631 original size:24 final size:24
Alignment explanation
Indices: 346599--346644 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
346589 TGGTTCCTTT
346599 TTGTTTGTCAAAATTTGTGGCTTG
1 TTGTTTGTCAAAATTTGTGGCTTG
346623 TTGTTTGTCAAAATTTGTGGCT
1 TTGTTTGTCAAAATTTGTGGCT
346645 AATTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (24 bp):
TTGTTTGTCAAAATTTGTGGCTTG
Found at i:349191 original size:21 final size:22
Alignment explanation
Indices: 349162--349207 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
349152 TATTCAGACA
**
349162 AGTAGTACTCCGCAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
349184 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
349205 AGT
1 AGT
349208 TTCAACAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:351118 original size:27 final size:27
Alignment explanation
Indices: 351088--351165 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
351078 AAAAGCCACC
351088 CTTTGTGTTTGTCAAAAAT-A-GCGATTA
1 CTTTGTGTTTGTCAAAAATGATG-G-TTA
* *
351115 CTTTGTATTTGTCAAAAATGATGGTTC
1 CTTTGTGTTTGTCAAAAATGATGGTTA
* *
351142 CTTTTTGTTTGTCAAAAATTATGG
1 CTTTGTGTTTGTCAAAAATGATGG
351166 CTTGTTGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
27 41 0.93
28 2 0.05
29 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATGATGGTTA
Done.