Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 143 of 222
Found at i:46361340 original size:25 final size:25
Alignment explanation
Indices: 46361283--46361341 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
46361273 AAATTTCTCC
*
46361283 TAAATTTTAATTTCATTTAATTATT
1 TAAATTTTAATTTCATTGAATTATT
*
46361308 TAACTTTTCAATTT-ATTGAATT-TT
1 TAAATTTT-AATTTCATTGAATTATT
46361332 TAATATTTTA
1 TAA-ATTTTA
46361342 TGCTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 6 0.21
25 18 0.62
26 5 0.17
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (25 bp):
TAAATTTTAATTTCATTGAATTATT
Found at i:46379212 original size:16 final size:19
Alignment explanation
Indices: 46379191--46379236 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 19
46379181 TTATCAAAAT
46379191 AAATCAAAA-AAAT-T-AA
1 AAATCAAAATAAATATGAA
46379207 AAATCAAAATAAATATGAA
1 AAATCAAAATAAATATGAA
46379226 AAATCGAAAAT
1 AAATC-AAAAT
46379237 TGAAACAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
17 4 0.15
18 1 0.04
19 7 0.27
20 5 0.19
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (19 bp):
AAATCAAAATAAATATGAA
Found at i:46379628 original size:27 final size:27
Alignment explanation
Indices: 46379585--46379645 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
46379575 GGTGTCTATC
* *
46379585 TGGTAGGTGCTATTAGTAACTCATATT
1 TGGTAGGTGCCACTAGTAACTCATATT
* *
46379612 TGGTAGGTGCCACTAGTGACTCCTATT
1 TGGTAGGTGCCACTAGTAACTCATATT
*
46379639 TGATAGG
1 TGGTAGG
46379646 CGCTCTAGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (27 bp):
TGGTAGGTGCCACTAGTAACTCATATT
Found at i:46385743 original size:27 final size:27
Alignment explanation
Indices: 46385705--46385757 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
46385695 CTGATACCGG
46385705 CTAAACTGTTAGAATTTAAGGCTGTGA
1 CTAAACTGTTAGAATTTAAGGCTGTGA
*
46385732 CTAAACTGTTAGAATTTAAGGTTGTG
1 CTAAACTGTTAGAATTTAAGGCTGTG
46385758 CTGTTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (27 bp):
CTAAACTGTTAGAATTTAAGGCTGTGA
Found at i:46387851 original size:16 final size:17
Alignment explanation
Indices: 46387827--46387866 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46387817 AAATAAAAAT
46387827 TAAATAAAATTACATT-A
1 TAAA-AAAATTACATTAA
*
46387844 TAAAAAAATTGCATTAA
1 TAAAAAAATTACATTAA
46387861 TAAAAA
1 TAAAAA
46387867 TTCACAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (17 bp):
TAAAAAAATTACATTAA
Found at i:46387951 original size:103 final size:100
Alignment explanation
Indices: 46387844--46388184 Score: 524
Period size: 103 Copynumber: 3.4 Consensus size: 100
46387834 AATTACATTA
* * * *
46387844 TAAAAAAATTGCATTAATAAAAATTCACAAAACACTAAACTAAACACTAATAATTTATAACCTAA
1 TAAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
46387909 TCATAAATTATTAACAAAATAACTATAAAATTATTTTT
66 TCATAAATTATTAACAAAATAACTAT--AATT-TTTTT
* *
46387947 TAAAAAAATTATATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAGTTTATAACCTAA
1 TAAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
*
46388012 TCATAAATTACTAACAAAATAACTATAATTTTTTT
66 TCATAAATTATTAACAAAATAACTATAATTTTTTT
* *
46388047 T--AAAATTTACATTACTAAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTA
1 TAAAAAAATTACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTA
* *
46388110 ATTATAAATTATTAACAAAATAACCATAATTTTTTT
65 ATCATAAATTATTAACAAAATAACTATAATTTTTTT
46388146 TAAAAAAAATTACATTACTAAAAAATCACAAAACACTAA
1 T-AAAAAAATTACATTACTAAAAAATCACAAAACACTAA
46388185 CAATTTATAA
Statistics
Matches: 219, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
98 13 0.06
99 78 0.36
100 6 0.03
101 24 0.11
102 14 0.06
103 84 0.38
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (100 bp):
TAAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
TCATAAATTATTAACAAAATAACTATAATTTTTTT
Found at i:46388227 original size:88 final size:85
Alignment explanation
Indices: 46388091--46388268 Score: 261
Period size: 88 Copynumber: 2.1 Consensus size: 85
46388081 TAAACTAAAT
* *
46388091 ACTAACAATTTATAACCTAATTATAAATTATTAACAAAATAACCATAATTTTTTTTAAAAAAAAT
1 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACCATAATTTTTTTT-----AAAT
46388156 TACATTACT-AAAAAATCACAAAAC
61 TACATTACTAAAAAAATCACAAAAC
*
46388180 ACTAACAATTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTTTTAAATTACAT
1 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACCATAATTTTTTTTAAATTACAT
*
46388244 TACTAAAAAAATTACAAAAC
66 TACTAAAAAAATCACAAAAC
46388264 ACTAA
1 ACTAA
46388269 ACTAAACACT
Statistics
Matches: 84, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
83 13 0.15
84 19 0.23
88 29 0.35
89 23 0.27
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (85 bp):
ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACCATAATTTTTTTTAAATTACAT
TACTAAAAAAATCACAAAAC
Found at i:46388304 original size:185 final size:197
Alignment explanation
Indices: 46387862--46388409 Score: 692
Period size: 185 Copynumber: 2.8 Consensus size: 197
46387852 TTGCATTAAT
*
46387862 AAAAATTCACAAAACACTAAACTAAACACTAATAATTTATAACCTAATCATAAATTATTAACAAA
1 AAAAATT-ACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAA
* *
46387927 ATAACTATAAAATTATTTTTTAAAAAAATTATATTACTAAAAAATCACAAAACACTAAACTAAAC
65 ATAACCAT-AAATTATTTTTTAAAAAAATTACATTACTAAAAAATCACAAAACAC--AACT-AAC
46387992 ACTAACAGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTAC
126 AC-AACAGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTAC
46388057 ATTACTAA
190 ATTACTAA
* * *
46388065 AAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTAATTATAAATTATTAACAAAA
1 AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAA
46388130 TAACCAT-AATT-TTTTTTAAAAAAAATTACATTACTAAAAAATCAC-AAA-AC-ACT-A-AC-A
66 TAACCATAAATTATTTTTT-AAAAAAATTACATTACTAAAAAATCACAAAACACAACTAACACAA
46388187 -A-TTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTTTT-AAA-TTACATTAC
130 CAGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTACATTAC
46388247 TAA
195 TAA
* *
46388250 AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACGTAATCATAAATTACTAACAAAA
1 AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAA
* * * ** *
46388315 TAA--TTAAA--A----ATAATAATTTTACATTAATAAAAAATCACAAAACACTAAACTAAACAC
66 TAACCATAAATTATTTTTTAAAAAAATTACATTACTAAAAAATCACAAAACAC--AACT-AACAC
* *
46388372 ATA-A-TTTATAACATAATCCTAAATTACTAACAAAATAA
128 A-ACAGTTTATAACCTAATCATAAATTACTAACAAAATAA
46388410 TTTTAAAATA
Statistics
Matches: 312, Mismatches: 19, Indels: 42
0.84 0.05 0.11
Matches are distributed among these distances:
178 23 0.07
179 4 0.01
180 2 0.01
183 4 0.01
184 2 0.01
185 76 0.24
186 5 0.02
187 31 0.10
188 32 0.10
189 18 0.06
190 1 0.00
192 2 0.01
193 1 0.00
195 3 0.01
198 2 0.01
199 9 0.03
200 30 0.10
202 61 0.20
203 6 0.02
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (197 bp):
AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAA
TAACCATAAATTATTTTTTAAAAAAATTACATTACTAAAAAATCACAAAACACAACTAACACAAC
AGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTACATTACT
AA
Found at i:46388403 original size:92 final size:95
Alignment explanation
Indices: 46388176--46388421 Score: 295
Period size: 92 Copynumber: 2.6 Consensus size: 95
46388166 AAAAATCACA
* * *** ** *
46388176 AAACACTAACAATTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTTTTAA-AT
1 AAACAC-AACAATTTATAACATAATCATAAATTACTAACAAAATAA-TTTAA-AAATAATAATTT
* *
46388239 TACATTACTAAAAAAATTACAAAACACTAAACT
63 TACATTAATAAAAAAATCACAAAACACTAAACT
*
46388272 AAACACTAACAATTTATAACGTAATCATAAATTACTAACAAAATAA-TTAAAAATAATAATTTTA
1 AAACAC-AACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAATAATTTTA
46388336 CATTAAT-AAAAAATCACAAAACACTAAACT
65 CATTAATAAAAAAATCACAAAACACTAAACT
* * *
46388366 AAACAC-ATAATTTATAACATAATCCTAAATTACTAACAAAATAATTTTAAAATAAT
1 AAACACAACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAAT
46388422 TATAAACAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
92 35 0.26
93 10 0.08
94 32 0.24
95 12 0.09
96 27 0.20
97 17 0.13
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (95 bp):
AAACACAACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAATAATTTTAC
ATTAATAAAAAAATCACAAAACACTAAACT
Found at i:46388456 original size:92 final size:93
Alignment explanation
Indices: 46387964--46388433 Score: 264
Period size: 99 Copynumber: 5.0 Consensus size: 93
46387954 ATTATATTAC
* * *
46387964 TAAAAAATCACAAAACACTAAACTAAACACTAACAGTTTATAACCTAATCATAAATTACTAACAA
1 TAAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACAA
*** * * *
46388029 AATAACTATAATTTTTTTTAA-AATT-TACATTAC
65 AATAA-T-TAA----AAATAATAATTAAACATAAA
* * * * *
46388062 TAAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTAATTATAAATTATTAACA
1 T-AAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
** * ** ** *
46388127 AAATAA-CCATAATTTTTTTTAAA-AAAAA
64 AAATAATTAAAAATAATAATTAAACATAAA
* * * * * * *
46388155 T-TACATTACTAAAAA-A-T-CACAAAACACTAACAATTTATAACCTAATCAT-AATTACTAACA
1 TAAAAAAT-CAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
* * ** ** * *
46388215 AAATAACT-ATAATTTTTTTTAAATTACATTAC
64 AAATAATTAAAAATAATAATT-AA--ACATAAA
* * *
46388247 TAAAAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACGTAATCATAAATTACTAACA
1 T-AAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
** *
46388312 AAATAATTAAAAATAATAATTTTACATTAA
64 AAATAATTAAAAATAATAATTAAACATAAA
* * *
46388342 TAAAAAATCACAAAACACTAAACTAAACAC-ATAATTTATAACATAATCCTAAATTACTAACAAA
1 TAAAAAATCAAAAAACACTAAACTAAACACAACAATTTATAACATAATCATAAATTACTAACAAA
* *
46388406 ATAATTTTAAAATAATTA-TAAACA-AAA
66 ATAA-TTAAAAATAATAATTAAACATAAA
46388433 T
1 T
46388434 TACATTCATA
Statistics
Matches: 298, Mismatches: 57, Indels: 41
0.75 0.14 0.10
Matches are distributed among these distances:
88 28 0.09
89 30 0.10
90 1 0.00
91 8 0.03
92 49 0.16
93 20 0.07
94 33 0.11
95 8 0.03
96 30 0.10
97 18 0.06
98 8 0.03
99 65 0.22
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (93 bp):
TAAAAAATCAAAAAACACTAAACTAAACACAACAATTTATAACATAATCATAAATTACTAACAAA
ATAATTAAAAATAATAATTAAACATAAA
Found at i:46388577 original size:12 final size:11
Alignment explanation
Indices: 46388560--46388605 Score: 55
Period size: 9 Copynumber: 4.5 Consensus size: 11
46388550 TACATACCTT
46388560 TTCTTTCTTTCC
1 TTCTTTCTTT-C
46388572 TTCTTTCTTTC
1 TTCTTTCTTTC
46388583 TTC-TTC-TTC
1 TTCTTTCTTTC
46388592 TTC-TTC-TTC
1 TTCTTTCTTTC
46388601 TTCTT
1 TTCTT
46388606 CTTAGCGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 15 0.45
10 4 0.12
11 4 0.12
12 10 0.30
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TTCTTTCTTTC
Found at i:46388588 original size:3 final size:3
Alignment explanation
Indices: 46388580--46388608 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46388570 CCTTCTTTCT
46388580 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
46388609 AGCGTCACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:46388693 original size:24 final size:25
Alignment explanation
Indices: 46388666--46388712 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
46388656 TATATATTTA
* *
46388666 AAAATAATATTT-TTTTAAAAAAAT
1 AAAATAAAATTTATTATAAAAAAAT
46388690 AAAATAAAATTTATTATAAAAAA
1 AAAATAAAATTTATTATAAAAAA
46388713 TAGGTAGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAATAAAATTTATTATAAAAAAAT
Found at i:46391075 original size:44 final size:44
Alignment explanation
Indices: 46391027--46391114 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
46391017 TCTTGAACAA
* *
46391027 ATTAAAATCTAATTATTTTTAAATGTGTAACAATCACAACTTCT
1 ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
* ** *
46391071 ATTAAATTATAATTATTTTTAAATGTATAATTATCTCAACTTCT
1 ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
46391115 CTTTTATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (44 bp):
ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
Found at i:46394022 original size:13 final size:13
Alignment explanation
Indices: 46394004--46394028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46393994 AATGTGTGAT
46394004 AAATGCGTTTATC
1 AAATGCGTTTATC
46394017 AAATGCGTTTAT
1 AAATGCGTTTAT
46394029 TTGATAGAAT
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:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
AAATGCGTTTATC
Found at i:46398999 original size:89 final size:89
Alignment explanation
Indices: 46398845--46399114 Score: 477
Period size: 89 Copynumber: 3.0 Consensus size: 89
46398835 ATTCATACCA
* * * * * *
46398845 AATTAAGCCCCTGTTGTTAATTAAAATAATCGATTAAGTCCTTCCGTTAATAGTTTCTGTTATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
46398910 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
46398934 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
46398999 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
*
46399023 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTAGTCATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
46399088 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
46399112 AAT
1 AAT
46399115 CAAATGATGA
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 174 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (89 bp):
AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
ACTGTTAAAATAAATTGACAGACC
Found at i:46399257 original size:29 final size:29
Alignment explanation
Indices: 46399219--46399310 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
46399209 TTAAATTGAT
*
46399219 ATAAACTTATAAAAAAATATAAAAACTTATA
1 ATAAA-TTATAAAAAAATATAAAAAATT-TA
* * *
46399250 A-ATATTATCAAAAAGTA-AAAAAATTTA
1 ATAAATTATAAAAAAATATAAAAAATTTA
* * *
46399277 ATAAAGTATAAAAAATTATAAAAAAATTA
1 ATAAATTATAAAAAAATATAAAAAATTTA
46399306 ATAAA
1 ATAAA
46399311 ACTTAATTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.06
28 19 0.38
29 25 0.50
30 2 0.04
31 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.28
Consensus pattern (29 bp):
ATAAATTATAAAAAAATATAAAAAATTTA
Found at i:46399300 original size:37 final size:37
Alignment explanation
Indices: 46399228--46399301 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 37
46399218 TATAAACTTA
*
46399228 TAAAAAAATATAAAAACTTATAAATATTATCAAAAAG
1 TAAAAAAATATAAAAACTTATAAAAATTATCAAAAAG
* * *
46399265 TAAAAAAATTTAATAAA-GTATAAAAAATTATAAAAAA
1 TAAAAAAATATAA-AAACTTAT-AAAAATTATCAAAAA
46399302 ATTAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (37 bp):
TAAAAAAATATAAAAACTTATAAAAATTATCAAAAAG
Found at i:46399939 original size:21 final size:21
Alignment explanation
Indices: 46399903--46399947 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
46399893 TTTTAAAGAA
*
46399903 TTAAATACATTTTTATAAAATT
1 TTAAATACAGTTTTAT-AAATT
*
46399925 TTAAATA-AGTTTTATTAATT
1 TTAAATACAGTTTTATAAATT
46399945 TTA
1 TTA
46399948 CAATTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATACAGTTTTATAAATT
Found at i:46400564 original size:11 final size:11
Alignment explanation
Indices: 46400541--46400585 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
46400531 AACAAATCCT
46400541 CTCTCATATTTC
1 CTCTCA-ATTTC
46400553 CTCTCAATTT-
1 CTCTCAATTTC
*
46400563 C-CTCAATTTT
1 CTCTCAATTTC
46400573 CTCTCAATTTC
1 CTCTCAATTTC
46400584 CT
1 CT
46400586 TCCAAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 2 0.07
11 14 0.47
12 6 0.20
ACGTcount: A:0.18, C:0.33, G:0.00, T:0.49
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:46400576 original size:20 final size:21
Alignment explanation
Indices: 46400543--46400585 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
46400533 CAAATCCTCT
46400543 CTCATATTTCCTCTCAATTTC
1 CTCATATTTCCTCTCAATTTC
*
46400564 CTCA-ATTTTCTCTCAATTTC
1 CTCATATTTCCTCTCAATTTC
46400584 CT
1 CT
46400586 TCCAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.49
Consensus pattern (21 bp):
CTCATATTTCCTCTCAATTTC
Found at i:46400640 original size:51 final size:51
Alignment explanation
Indices: 46400565--46400673 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
46400555 CTCAATTTCC
* * * * * *
46400565 TCAATTTTCTCTCAATTTCCTTCCAAAATTCTAAT-AAATCCATATTTAATT
1 TCAATTTCCTATCAAATTCATTCCAAAAATCT-ATCAAACCCATATTTAATT
*
46400616 TCAATTTCCTATCAAATTCATTCCAAAAATCTCTCAAACCCATATTTAATT
1 TCAATTTCCTATCAAATTCATTCCAAAAATCTATCAAACCCATATTTAATT
46400667 TCAATTT
1 TCAATTT
46400674 GCTCTCAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTATCAAATTCATTCCAAAAATCTATCAAACCCATATTTAATT
Found at i:46401817 original size:7 final size:7
Alignment explanation
Indices: 46401801--46401832 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
46401791 TGCAAATAGA
*
46401801 TATTTTG
1 TATTTAG
46401808 TATTTAG
1 TATTTAG
46401815 TATTTAG
1 TATTTAG
46401822 TATTTAG
1 TATTTAG
46401829 TATT
1 TATT
46401833 ATGTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:46401838 original size:14 final size:13
Alignment explanation
Indices: 46401804--46401838 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
46401794 AAATAGATAT
46401804 TTTGTATTTAGTA
1 TTTGTATTTAGTA
46401817 TTTAGTATTTAGTA
1 TTT-GTATTTAGTA
46401831 TTATGTAT
1 TT-TGTAT
46401839 ATAACTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (13 bp):
TTTGTATTTAGTA
Found at i:46402510 original size:18 final size:18
Alignment explanation
Indices: 46402484--46402518 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46402474 AGGTGCGTTT
* *
46402484 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
46402502 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
46402519 TCCTTTTCCG
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:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:46402949 original size:25 final size:25
Alignment explanation
Indices: 46402920--46403033 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 25
46402910 TTTAAATTTA
*
46402920 TTATTTGATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAAGT
**
46402945 TTATTTGATGTAATACGCATAGAAAGT
1 TTATTTGATGTAATA-AAATAG-AAGT
* ** *
46402972 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
46402990 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
46403016 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
46403034 ACCCTAACCT
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.01
19 3 0.04
20 4 0.06
21 4 0.06
23 2 0.03
24 3 0.04
25 36 0.54
26 9 0.13
27 5 0.07
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:46403056 original size:22 final size:23
Alignment explanation
Indices: 46403026--46403068 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
46403016 TTATTTGATG
46403026 TAAT-AAAAACCCTAACCTAATT
1 TAATAAAAAACCCTAACCTAATT
*
46403048 TAATTAAAAACCCTAACCTAA
1 TAATAAAAAACCCTAACCTAA
46403069 ACCCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (23 bp):
TAATAAAAAACCCTAACCTAATT
Found at i:46403071 original size:29 final size:29
Alignment explanation
Indices: 46403033--46403592 Score: 885
Period size: 29 Copynumber: 19.4 Consensus size: 29
46403023 ATGTAATAAA
* **
46403033 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
46403062 AA-CCT-A-A-ACCCTAATTAAAAATCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
46403087 AACCCTAACCTAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
46403116 AACCCTAACATAACTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
46403145 AACCCTAACCTAACCTAATTAAAAACCAT
1 AACCCTAACATAACCTAATTAAAAACCCT
46403174 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
46403203 AACCCTAACATAACTTAATTAAGAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
46403232 AACCCTAACATAACATAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
46403261 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
46403290 AACCCTAACCTAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* * *
46403319 AACTCTAACCTAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
46403348 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
46403377 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
46403406 AACCCTAACATAACATAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
46403435 AACCCTAACCTAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
46403464 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
46403493 AACCCTAACATAACTTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
46403522 AACCCAAACATAACTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
46403551 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
46403580 AACCCTAACATAA
1 AACCCTAACATAA
46403593 TAAATTTACA
Statistics
Matches: 489, Mismatches: 38, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
25 16 0.03
26 3 0.01
27 2 0.00
28 3 0.01
29 465 0.95
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (29 bp):
AACCCTAACATAACCTAATTAAAAACCCT
Found at i:46406945 original size:124 final size:124
Alignment explanation
Indices: 46406717--46407066 Score: 567
Period size: 124 Copynumber: 2.8 Consensus size: 124
46406707 CCCAAACTTG
*
46406717 CTACTGTAGCAAAATCGTGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * * *
46406782 AAGAAGCAATTTTATACTTTTTGCTCAGAAACGTGAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * *
46406841 CTGCTGTAGAAAAATAGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
46406906 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * * *
46406965 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATTGCATCCTCG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
46407030 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
46407067 CTCGAAATAA
Statistics
Matches: 208, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 207 1.00
125 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:46410288 original size:12 final size:13
Alignment explanation
Indices: 46410271--46410299 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46410261 TTTAGATAAA
46410271 TTAATTCAT-ATT
1 TTAATTCATCATT
46410283 TTAATTCATCATT
1 TTAATTCATCATT
46410296 TTAA
1 TTAA
46410300 ACCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:46414066 original size:19 final size:18
Alignment explanation
Indices: 46414042--46414087 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
46414032 CGCTCCTTTT
* *
46414042 TGCATTCATTTCATGCATC
1 TGCATTCATGTCAT-CATA
46414061 TGCATTGCATGTCATCATA
1 TGCATT-CATGTCATCATA
46414080 TGCATTCA
1 TGCATTCA
46414088 AGATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (18 bp):
TGCATTCATGTCATCATA
Found at i:46423375 original size:12 final size:13
Alignment explanation
Indices: 46423358--46423386 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46423348 TTTAGATAAA
46423358 TTAATTCAT-ATT
1 TTAATTCATCATT
46423370 TTAATTCATCATT
1 TTAATTCATCATT
46423383 TTAA
1 TTAA
46423387 ACCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:46428669 original size:37 final size:37
Alignment explanation
Indices: 46428619--46428729 Score: 152
Period size: 37 Copynumber: 3.0 Consensus size: 37
46428609 ATACTCCCTG
*
46428619 ATTTAGCGTGTTATAGGGTGGATTAACTCTTATGAGC
1 ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
*
46428656 ATTTAGCGTGTTATATGGTGGATTAGCTCTTATGAGC
1 ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
* * * *
46428693 ATTT-GACGCGTTATCGGGTAGATTAGCTCTTACGAGC
1 ATTTAG-CGTGTTATAGGGTGGATTAGCTCTTATGAGC
46428730 GATTGGCGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.37
Consensus pattern (37 bp):
ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
Found at i:46429818 original size:48 final size:49
Alignment explanation
Indices: 46429751--46429855 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 49
46429741 GACACGGTTG
46429751 TGTGTCCCTATTTCAAAAGTTACACAACTT-GGGCATTCCACACGGCCA
1 TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
* ** * *
46429799 TGTGTCCTTATTTTGAAAGTTACACGACTTGGGGCATTCCACACGGCCG
1 TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
46429848 TGTGTCCC
1 TGTGTCCC
46429856 CTGTTTTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 26 0.52
49 24 0.48
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (49 bp):
TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
Found at i:46447169 original size:42 final size:42
Alignment explanation
Indices: 46447115--46447214 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
46447105 GCTCTCAGTA
*
46447115 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
** *
46447157 TCGCACACTTAGTGCCCATTATTCAACATTGTCATTTTATTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
46447199 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
46447215 GTTCATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:46449374 original size:29 final size:29
Alignment explanation
Indices: 46449332--46449418 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
46449322 CCATCAATGG
*
46449332 TACATAGTACCTGATAAATATAACACCGA
1 TACAGAGTACCTGATAAATATAACACCGA
* * *
46449361 TACAGAGTGCCTGATAACTATAACACCGG
1 TACAGAGTACCTGATAAATATAACACCGA
* * * *
46449390 TAGAAAGTACCTAATAAATGTAATCACCG
1 TACAGAGTACCTGATAAATATAA-CACCG
46449419 GCACATAGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 42 0.89
30 5 0.11
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (29 bp):
TACAGAGTACCTGATAAATATAACACCGA
Found at i:46450346 original size:7 final size:7
Alignment explanation
Indices: 46450336--46450371 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 7
46450326 AAAATTTACA
46450336 AAAAAAG
1 AAAAAAG
46450343 AAAAAAG
1 AAAAAAG
46450350 AAAAGAAG
1 AAAA-AAG
46450358 AAAAGAAG
1 AAAA-AAG
46450366 AAAAAA
1 AAAAAA
46450372 AACAGATAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 13 0.46
8 15 0.54
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:46450368 original size:16 final size:15
Alignment explanation
Indices: 46450335--46450372 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
46450325 TAAAATTTAC
46450335 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
46450350 AAAAGAAGAAAAGAAG
1 AAAAAAAGAAAA-AAG
46450366 AAAAAAA
1 AAAAAAA
46450373 ACAGATAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:46450764 original size:19 final size:20
Alignment explanation
Indices: 46450729--46450768 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
46450719 AACGATTTCT
*
46450729 GAAAAATTATTACTTTCCTG
1 GAAAAATTAATACTTTCCTG
46450749 GAAAAATTAATA-TTTCCTG
1 GAAAAATTAATACTTTCCTG
46450768 G
1 G
46450769 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
GAAAAATTAATACTTTCCTG
Found at i:46451347 original size:16 final size:19
Alignment explanation
Indices: 46451322--46451377 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
46451312 TAAAATTGAA
46451322 ATATTAAATAATTTATTAA-
1 ATATT-AATAATTTATTAAT
46451341 A-A-TAATAAATTATATTAATT
1 ATATTAAT-AATT-TATTAA-T
46451361 ATATTAATAATTTATTA
1 ATATTAATAATTTATTA
46451378 TATGACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 5 0.16
18 7 0.23
19 1 0.03
20 6 0.19
21 5 0.16
22 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTAATAATTTATTAAT
Found at i:46451739 original size:13 final size:13
Alignment explanation
Indices: 46451721--46451747 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46451711 TCAACACTAA
46451721 TATTGAATCAGAT
1 TATTGAATCAGAT
46451734 TATTGAATCAGAT
1 TATTGAATCAGAT
46451747 T
1 T
46451748 TTAATCCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TATTGAATCAGAT
Found at i:46454670 original size:15 final size:16
Alignment explanation
Indices: 46454650--46454684 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
46454640 TTCAATTTTT
*
46454650 TAATAATTTTAAA-AA
1 TAATAATCTTAAATAA
46454665 TAATAATCTTAAATAA
1 TAATAATCTTAAATAA
46454681 TAAT
1 TAAT
46454685 CTTTCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATCTTAAATAA
Found at i:46454680 original size:13 final size:13
Alignment explanation
Indices: 46454662--46454687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46454652 ATAATTTTAA
46454662 AAATAATAATCTT
1 AAATAATAATCTT
46454675 AAATAATAATCTT
1 AAATAATAATCTT
46454688 TCAATATTAA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAATAATCTT
Found at i:46454726 original size:16 final size:15
Alignment explanation
Indices: 46454696--46454752 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
46454686 TTTCAATATT
46454696 AATATTTTAATAATA
1 AATATTTTAATAATA
46454711 AATATTTATTATAATAATA
1 AATA--T-TT-TAATAATA
**
46454730 AATACATTAATAATA
1 AATATTTTAATAATA
*
46454745 AATGTTTT
1 AATATTTT
46454753 GCAGTCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 1 0.03
18 2 0.06
19 12 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:46463910 original size:20 final size:20
Alignment explanation
Indices: 46463887--46463936 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
46463877 GTTCTGCCAA
* * *
46463887 CTTGACTGCGAATCTGGTGG
1 CTTGACTACAAATCTAGTGG
46463907 CTTGACTACAAATCTAGTGG
1 CTTGACTACAAATCTAGTGG
46463927 CTTGACTACA
1 CTTGACTACA
46463937 TATATCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (20 bp):
CTTGACTACAAATCTAGTGG
Found at i:46468904 original size:51 final size:51
Alignment explanation
Indices: 46468781--46469023 Score: 249
Period size: 51 Copynumber: 4.8 Consensus size: 51
46468771 CTTTTATCAT
* * *
46468781 TCGATACACGTAGTAGCCTTCACATAGTACTACACACATGATCA-AGTTT-
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
* * * * * *
46468830 TACGGTTCATGTAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 T-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
* * * * *
46468882 TCGATTCACGTAGTAGCTTTCACACAGTACTACACACGTGACCA-AAGCTTC
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAA-TTTA
* * * * * * *
46468933 TCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTAACCATTATTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
*
46468984 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
46469024 TTCATCGATG
Statistics
Matches: 152, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
49 1 0.01
50 37 0.24
51 112 0.74
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
Found at i:46468983 original size:102 final size:101
Alignment explanation
Indices: 46468781--46469023 Score: 353
Period size: 102 Copynumber: 2.4 Consensus size: 101
46468771 CTTTTATCAT
* * * * * **
46468781 TCGATACACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTACGGTTCATGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
*
46468846 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 GCCTTCACTTAGTACTACACATGTAACCATCATTTA
* * *
46468882 TCGATTCACGTAGTAGCTTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAG
*
46468946 TAGCCTTCACTTAGTACTACACATGTAACCATTATTTA
64 TAGCCTTCACTTAGTACTACACATGTAACCATCATTTA
46468984 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
46469024 TTCATCGATG
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 38 0.30
102 85 0.67
103 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (101 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTAACCATCATTTA
Found at i:46469545 original size:30 final size:31
Alignment explanation
Indices: 46469491--46469549 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
46469481 TCTTCGACTC
46469491 AACTTTTGTCAAAATTACGATTTTGTCCCTA
1 AACTTTTGTCAAAATTACGATTTTGTCCCTA
*
46469522 AACTTTTG-CATAATTAC-ATTTTTGTCCC
1 AACTTTTGTCAAAATTACGA-TTTTGTCCC
46469550 CAAGCTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 8 0.31
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTTTTGTCAAAATTACGATTTTGTCCCTA
Found at i:46471921 original size:23 final size:23
Alignment explanation
Indices: 46471888--46471962 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
46471878 ATAAGTGCCA
* *
46471888 CACTGATATGTAGTCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
46471911 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
46471934 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
46471957 CACTGA
1 CACTGA
46471963 TCAATAACAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:46472215 original size:18 final size:17
Alignment explanation
Indices: 46472189--46472227 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46472179 ATTTTCCTTC
46472189 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
46472206 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
46472224 CACA
1 CACA
46472228 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:46480364 original size:27 final size:27
Alignment explanation
Indices: 46480333--46480399 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
46480323 ATATGCATAA
46480333 ATATAATAATAAAAA-AATATAAAATAT
1 ATATAATAATAAAAATAA-ATAAAATAT
* *
46480360 GTAT-ATATATAAAAATAAATAATATAT
1 ATATAATA-ATAAAAATAAATAAAATAT
46480387 ATATATATAATAA
1 ATATA-ATAATAA
46480400 GATACATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.09
27 21 0.64
28 6 0.18
29 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (27 bp):
ATATAATAATAAAAATAAATAAAATAT
Found at i:46480370 original size:33 final size:34
Alignment explanation
Indices: 46480323--46480387 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
46480313 ATATGCGTGT
*
46480323 ATATGCATAAATATAATAATAAA-AAAATATAAA
1 ATATGCATAAATATAAAAATAAATAAAATATAAA
* * *
46480356 ATATGTATATATATAAAAATAAATAATATATA
1 ATATGCATAAATATAAAAATAAATAAAATATA
46480388 TATATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (34 bp):
ATATGCATAAATATAAAAATAAATAAAATATAAA
Found at i:46480383 original size:25 final size:25
Alignment explanation
Indices: 46480331--46480396 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
46480321 GTATATGCAT
*
46480331 AAATATA-ATA-ATAAAAAAATATA
1 AAATATATATATATATAAAAATATA
*
46480354 AAATATGTATATATATAAAAATA-A
1 AAATATATATATATATAAAAATATA
46480378 ATAATATATATATATATAA
1 A-AATATATATATATATAA
46480397 TAAGATACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 6 0.16
24 5 0.14
25 26 0.70
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATATATATATATATAAAAATATA
Found at i:46481880 original size:50 final size:50
Alignment explanation
Indices: 46481826--46482505 Score: 420
Period size: 50 Copynumber: 13.6 Consensus size: 50
46481816 GCACCGCTAA
* *
46481826 GGAAATCAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
** * ** **** * * *
46481876 GGAAATCAGATCTACCGTTGTGACTTCAATCTACTCCGCTGCACCGCCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * * *
46481926 GGAAGTAAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * ** ** * * * *
46481976 GGAAACCAGATACGCCGTTGTGACTTCAATCTGCTCCACTGC-ATCGCCAA
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCT-GTCAG
* * *
46482026 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * ** **** * * * *
46482076 GGAAACCAGATCTGCCGTTGTGGCTTCAATCTGCTCCGCTACACCGCCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* *
46482126 GGAAATAAGATCCGCCGTTATGGCTTCAATCTTTTTAATTGCGCTGTC-G
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * ** *** * * *
46482175 AGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTTCGCTGCACCGCCAG
1 -GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * ** *
46482226 GGAAGTAAGATCCGTTGTTGTGGCTTCAATC-TTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * ** ** * * * * *
46482275 GGAAACCAAATCCGCCGTTGTGACTTCAATCTGCTCCACTAC-ATCGCCAA
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCT-GTCAG
* * * * *
46482325 GGAAGTAAGATCCGCCGTTGTGGTTTCAATCCTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * ** ** * * *
46482375 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGC-ATCGCCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCT-GTCAG
* * *
46482425 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGTTGTC-G
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* *
46482474 GGAAA-CTAGATCCGCCGTTGTGACTCCAATCT
1 GGAAATC-AGATCCGCCGTTGTGGCTTCAATCT
46482506 ACTCCGCTAC
Statistics
Matches: 440, Mismatches: 180, Indels: 21
0.69 0.28 0.03
Matches are distributed among these distances:
49 65 0.15
50 371 0.84
51 4 0.01
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (50 bp):
GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
Found at i:46481947 original size:100 final size:100
Alignment explanation
Indices: 46481770--46482513 Score: 1026
Period size: 100 Copynumber: 7.5 Consensus size: 100
46481760 CCAATTACAA
* * * * * *** * * * *
46481770 TGTCGAGGAAACAAGATCCGCCGTCGT-AGCTTCAACCTGTTAAACTGCACCGCTAAGGAAATCA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAA
*
46481834 GATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGC
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* ** *
46481870 TGTCGGGGAAATCAGATCTACCGTTGTGACTTCAATCTACTCCGCTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAAG
* *
46481935 ATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * *
46481970 TGTCGGGGAAACCAGATACGCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCAAGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAAG
*
46482035 ATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * * *
46482070 TGTCAGGGAAACCAGATCTGCCGTTGTGGCTTCAATCTGCTCCGCTACACCGCCAGGGAAATAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAAG
*
46482135 ATCCGCCGTTATGGCTTCAATCTTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* *
46482170 TGTCGAGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTTCGCTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAAG
**
46482235 ATCCGTTGTTGTGGCTTCAATC-TTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * * *
46482269 TGTCGGGGAAACCAAATCCGCCGTTGTGACTTCAATCTGCTCCACTACATCGCCAAGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAAG
* *
46482334 ATCCGCCGTTGTGGTTTCAATCCTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
46482369 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAAG
*
46482434 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGT
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
46482469 TGTC-GGGAAACTAGATCCGCCGTTGTGACTCCAATCTACTCCGCT
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCT
46482514 ACAACGCTAA
Statistics
Matches: 569, Mismatches: 73, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
99 125 0.22
100 443 0.78
101 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (100 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAGTAAG
ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
Found at i:46482105 original size:200 final size:199
Alignment explanation
Indices: 46481813--46482539 Score: 1035
Period size: 199 Copynumber: 3.6 Consensus size: 199
46481803 AACCTGTTAA
* * * * *
46481813 ACTGCACCGCTAAGGAAATCAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGGG
1 ACTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGG
* ** * * *
46481878 AAATCAGATCTACCGTTGTGACTTCAATCTACTCCGCTGCACCGCCAGGGAAGTAAGATCTGCCA
66 AAACCAGATCCGCCGTTGTGACTTCAATCTACTCCGCTACACCGCCAGGGAAGTAAGATCCGCCG
46481943 TTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATACGCCGTTGTGACTTCAATCT
131 TTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGAT-CGCCGTTGTGACTTCAATCT
46482008 GCTCC
195 GCTCC
* *
46482013 ACTGCATCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCAGGG
1 ACTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGG
* * * *
46482078 AAACCAGATCTGCCGTTGTGGCTTCAATCTGCTCCGCTACACCGCCAGGGAAATAAGATCCGCCG
66 AAACCAGATCCGCCGTTGTGACTTCAATCTACTCCGCTACACCGCCAGGGAAGTAAGATCCGCCG
* *
46482143 TTATGGCTTCAATCTTTTTAATTGCGCTGTCGAGGAAACCAGATCCGCCGTTGTGACTTCAATCT
131 TTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGAT-CGCCGTTGTGACTTCAATCT
*
46482208 GCTTC
195 GCTCC
* * **
46482213 GCTGCACCGCCAGGGAAGTAAGATCCGTTGTTGTGGCTTCAAT-CTTTTAATTGCGCTGTCGGGG
1 ACTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGG
* * * * *
46482277 AAACCAAATCCGCCGTTGTGACTTCAATCTGCTCCACTACATCGCCAAGGAAGTAAGATCCGCCG
66 AAACCAGATCCGCCGTTGTGACTTCAATCTACTCCGCTACACCGCCAGGGAAGTAAGATCCGCCG
* *
46482342 TTGTGGTTTCAATCCTTTTAATTGCGCTGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCT
131 TTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATC-GCCGTTGTGACTTCAATCT
46482407 GCTCC
195 GCTCC
* * * *
46482412 ACTGCATCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGTTGTC-GGG
1 ACTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGG
* * * * * * *
46482476 AAACTAGATCCGCCGTTGTGACTCCAATCTACTCCGCTACAACGCTAAGGAAATAAGATTCGCC
66 AAACCAGATCCGCCGTTGTGACTTCAATCTACTCCGCTACACCGCCAGGGAAGTAAGATCCGCC
46482540 ATTTTTAACC
Statistics
Matches: 473, Mismatches: 52, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
198 1 0.00
199 238 0.50
200 234 0.49
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (199 bp):
ACTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGG
AAACCAGATCCGCCGTTGTGACTTCAATCTACTCCGCTACACCGCCAGGGAAGTAAGATCCGCCG
TTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCGCCGTTGTGACTTCAATCTG
CTCC
Found at i:46483904 original size:15 final size:15
Alignment explanation
Indices: 46483884--46483916 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46483874 TCACATATTT
46483884 TTTCTTCTCTTTTTC
1 TTTCTTCTCTTTTTC
*
46483899 TTTCTTTTCTTTTTC
1 TTTCTTCTCTTTTTC
46483914 TTT
1 TTT
46483917 TTTGCGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTCTCTTTTTC
Found at i:46484407 original size:9 final size:9
Alignment explanation
Indices: 46484382--46484448 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 9
46484372 CCTAGCGAGG
46484382 TTCTTTTTCT
1 TTCTTTTT-T
46484392 TTCTTTTTT
1 TTCTTTTTT
*
46484401 TT-GTTTTT
1 TTCTTTTTT
46484409 TTCTTATTTT
1 TTCTT-TTTT
*
46484419 TCCCCTTTTTT
1 T--TCTTTTTT
*
46484430 GT-TTTTTT
1 TTCTTTTTT
46484438 TTCTTTTTT
1 TTCTTTTTT
46484447 TT
1 TT
46484449 TGGATTGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 14 0.30
9 12 0.26
10 13 0.28
11 4 0.09
12 3 0.07
ACGTcount: A:0.01, C:0.13, G:0.03, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:46484449 original size:10 final size:10
Alignment explanation
Indices: 46484385--46484449 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
46484375 AGCGAGGTTC
46484385 TTTTTCTTTCT
1 TTTTTCTTT-T
46484396 TTTTT-TTGTT
1 TTTTTCTT-TT
*
46484406 TTTTTC-TTA
1 TTTTTCTTTT
***
46484415 TTTTTCCCCT
1 TTTTTCTTTT
*
46484425 TTTTTGTTTT
1 TTTTTCTTTT
46484435 TTTTTCTTTT
1 TTTTTCTTTT
46484445 TTTTT
1 TTTTT
46484450 GGATTGAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
9 7 0.17
10 29 0.69
11 6 0.14
ACGTcount: A:0.02, C:0.12, G:0.03, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:46487104 original size:16 final size:16
Alignment explanation
Indices: 46487079--46487113 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46487069 TTCTATAATG
46487079 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
* *
46487095 AAATGTCATGCATTCA
1 AAATGCCATGCAGTCA
46487111 AAA
1 AAA
46487114 CAAAATACAA
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:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:46488759 original size:34 final size:36
Alignment explanation
Indices: 46488711--46488783 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 36
46488701 ATATGCGTGT
*
46488711 ATATGCATAAATATAATAAT-AA-AAAATATATAAA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
* * *
46488745 ATATGTATATATATAAAAATAAATAAAATATATATA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
46488781 ATA
1 ATA
46488784 AGATACATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 17 0.52
35 2 0.06
36 14 0.42
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (36 bp):
ATATGCATAAATATAAAAATAAATAAAATATATAAA
Found at i:46502211 original size:12 final size:12
Alignment explanation
Indices: 46502180--46502215 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
46502170 TAATTAATTA
*
46502180 ATTAATATTATT
1 ATTACTATTATT
46502192 ATTACTATTATT
1 ATTACTATTATT
*
46502204 ATTGCTATTATT
1 ATTACTATTATT
46502216 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:46502442 original size:17 final size:18
Alignment explanation
Indices: 46502422--46502460 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
46502412 ATATTTTTAC
46502422 ATTTTATAATT-TTATTT
1 ATTTTATAATTATTATTT
*
46502439 ATTTTATTATTATTATTT
1 ATTTTATAATTATTATTT
46502457 ATTT
1 ATTT
46502461 ATTTACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTATAATTATTATTT
Found at i:46503091 original size:22 final size:22
Alignment explanation
Indices: 46503048--46503092 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46503038 TCGTGGACCA
* *
46503048 AAATCATTATTTTAATAAAACC
1 AAATCATTATATTAAAAAAACC
46503070 AAATCATT-TATTAAAAACAACC
1 AAATCATTATATTAAAAA-AACC
46503092 A
1 A
46503093 CTTTTTGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATCATTATATTAAAAAAACC
Found at i:46507763 original size:27 final size:27
Alignment explanation
Indices: 46507733--46507910 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
46507723 ATATTGAGTC
* * * *
46507733 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
46507760 CGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAGTCAAAT
46507787 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46507815 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46507842 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46507869 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46507896 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46507911 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.80
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46512336 original size:45 final size:45
Alignment explanation
Indices: 46512275--46512999 Score: 993
Period size: 45 Copynumber: 16.1 Consensus size: 45
46512265 GGAGTAGGTT
* * *
46512275 GAAGATAGCAGATCTTGTCTTCCTGTATTGACAACGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
46512320 AAAGATAGCAGGTCTTGTCTTCCTGTACTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
**
46512365 GAAGATAGCAGGCCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
46512410 GAAGATAGCAGGTTTTGTCTTCCTGCATTAGCAACAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
46512455 GAAGATAGTAGATATTGCCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
46512500 GAAGATAGCAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTGGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
46512545 GAAGATAGCAGGTCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
46512590 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
46512635 GAAGATAGCAAATGTTGTCTTCTTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
46512680 AAACATAGTAGGTTTTATCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
46512725 GAAGATAGTAGGTCTTGTCTTCCTGTATTGACAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
46512770 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
46512815 GAAGATAGCAGGTATTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* **
46512860 GAAGATGGCAGATCTTGTCTT-CTCGTATTGGCAGTAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATC
* * *
46512905 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
46512950 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
46512995 GAAGA
1 GAAGA
46513000 CATCAGCCTT
Statistics
Matches: 597, Mismatches: 81, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
44 2 0.00
45 593 0.99
46 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:46516033 original size:101 final size:101
Alignment explanation
Indices: 46515867--46516185 Score: 490
Period size: 101 Copynumber: 3.2 Consensus size: 101
46515857 TGAGTACTTC
* * * *
46515867 TGATTAGTGACAAGTGATAAGTGCTAGTTTAGCTACATTTATCTGATCAGTGATAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
46515932 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
46515968 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTG---A-T--C-AGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
* *
46516026 GATAAGTGATAGCTTTAGCTGCACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* * *
46516062 TGATAAGTGACAAGTGATACGTGGTAGCTTAGCTACACTTATCTGATCGGTGACAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
46516127 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* *
46516163 TGACAAGTGACAAGTGACAAGTG
1 TGATAAGTGACAAGTGATAAGTG
46516186 ATAAATGTGA
Statistics
Matches: 197, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
94 87 0.44
97 1 0.01
98 2 0.01
100 1 0.01
101 106 0.54
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (101 bp):
TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
Found at i:46516173 original size:7 final size:7
Alignment explanation
Indices: 46516161--46516186 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46516151 TTATCTGATC
46516161 AGTGACA
1 AGTGACA
46516168 AGTGACA
1 AGTGACA
46516175 AGTGACA
1 AGTGACA
46516182 AGTGA
1 AGTGA
46516187 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:46516686 original size:13 final size:14
Alignment explanation
Indices: 46516651--46516688 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
46516641 AAGTCCTATT
*
46516651 TATTATGAATATAA
1 TATTATGAAGATAA
*
46516665 TATTTTGAAGAT-A
1 TATTATGAAGATAA
46516678 TATTATGAAGA
1 TATTATGAAGA
46516689 ATTTTAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TATTATGAAGATAA
Found at i:46516903 original size:44 final size:44
Alignment explanation
Indices: 46516829--46517595 Score: 389
Period size: 44 Copynumber: 17.2 Consensus size: 44
46516819 GGGTGTCACA
* * * * *
46516829 GGAGTAGACTGAAGATAGCAAACCTTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGT
*
46516874 GGAGCAGTTTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * *
46516918 GGAGCAGATTGAAGCA-ATTAATCCTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAG-ATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * ** *
46516962 GGACCAGATTAAAACGATA--AATCCTATAC-CTTTGAAATTGCAGT
1 GGAGCAGATT-GAA-GATACTAATCTTAT-CTCCCTGAAGTTGCAGT
* * * * *
46517006 AGG-TCGGATTAAATCTACCATAATAAGTCTTATCTCCCTGAAGTTGCAGT
1 -GGAGCAGATT-GA---A-GATACTAA-TCTTATCTCCCTGAAGTTGCAGT
** * *
46517056 GGAGCAGATTGAAGCCA-TTATCTTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * ** * * *** *
46517099 GGAGTAGATTAAAGCCACAAACCTTATCTATATGAAGTTGTAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * * * * * * *
46517143 AGAGTAGGTTAAAG-TAACAAACCTTACCCCCCTAAAGTTGCAGT
1 GGAGCAGATTGAAGAT-ACTAATCTTATCTCCCTGAAGTTGCAGT
* * * * *
46517187 GGGGCAGATTGAAGATGCGAGTTTTATCTCCCTGAAGTTGCAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
46517231 GGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
1 GGAGCAGATTGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
46517276 GGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGTAGT
1 GGAGCAGATTGAAG--AT--ACT--A-ATCTTATCTCCCTGAAGTTGCAGT
* * * * * * *
46517327 AGAGCATA-T-CATAT-CAAACCTTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
46517368 GGAGCAGGTT--A-A-ACCAATCTTATCTTCCTGAAGTTGCAGC
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
46517408 GGAGCAGATTGAAGCTACTAATCCTATCTCTCTGAAGTTACAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * * * * *
46517452 GGAGCATATT-AAAACAATGAATCCTATAC-CTCTAAAGTTGCAGT
1 GGAGCAGATTGAAGATACT-AATCTTAT-CTCCCTGAAGTTGCAGT
* * * * * *
46517496 AGG-TCAGATTAAACCATAACCAATCTTATCTCTCTGAAGTTGCAGC
1 -GGAGCAGATTGAA-GAT-ACTAATCTTATCTCCCTGAAGTTGCAGT
* * *
46517542 GGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
*
46517586 GGAGCGGATT
1 GGAGCAGATT
46517596 AAAACGATGA
Statistics
Matches: 555, Mismatches: 128, Indels: 79
0.73 0.17 0.10
Matches are distributed among these distances:
40 32 0.06
41 28 0.05
42 3 0.01
43 41 0.07
44 284 0.51
45 67 0.12
46 32 0.06
47 10 0.02
49 8 0.01
50 24 0.04
51 26 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
Found at i:46517186 original size:181 final size:182
Alignment explanation
Indices: 46516852--46517290 Score: 396
Period size: 181 Copynumber: 2.4 Consensus size: 182
46516842 GATAGCAAAC
* * *
46516852 CTTATCTCCCTGAAGTTGTAGTGGAGCAGTTTGAAGATACTAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
* * * * * * * *
46516917 TGGAGCAGATTGAAGCAATTAATCCTATCTCCCTGAAGTTGTAGTGGACCAGATTAAAACGATAA
66 TGGAGCAGATTAAAGCAATCAAACCTATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACAA
**
46516982 ATCCTATACCTTTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
131 ATCCTATACCCCTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
* * *
46517034 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-TTATCTTATCTCCCTGAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
* * * ** * **
46517098 TGGAGTAGATTAAAGCCA-CAAACCTTATCTATATGAAGTTGTAGTAGAGTAGGTTAAAGTAACA
66 TGGAGCAGATTAAAGCAATCAAACC-TATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACA
* * * * * ***
46517162 AA-CCT-TACCCCCCT-AAAGTTGCAGTGGGGCAGATT-GA---A-GAT-GCGAGT
130 AATCCTATA--CCCCTGAAA-TTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
* * * * * *
46517209 TTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-CTAATCTTATCTCCCTGAAGTTGCA
* *
46517274 GTGGAACAGATTGAAGC
65 GTGGAGCAGATTAAAGC
46517291 TATAAATTAC
Statistics
Matches: 207, Mismatches: 44, Indels: 17
0.77 0.16 0.06
Matches are distributed among these distances:
175 37 0.18
176 2 0.01
177 35 0.17
179 2 0.01
180 11 0.05
181 85 0.41
182 35 0.17
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (182 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAAGCAATCAAACCTATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACAA
ATCCTATACCCCTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
Found at i:46517538 original size:134 final size:134
Alignment explanation
Indices: 46517379--46517662 Score: 437
Period size: 134 Copynumber: 2.1 Consensus size: 134
46517369 GAGCAGGTTA
* *
46517379 AACCAATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCTCTGAA
1 AACCAATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAA
* * *
46517444 GTTACAGTGGAGCATATTAAAACAATGAATCCTATACCTCTAAAGTTGCAGTAGGTCAGATTAAA
66 GTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTACAGTAGGTCAGATTAAA
46517509 CCAT
131 CCAT
46517513 AACCAATCTTATC-TCTCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAA
1 AACCAATCTTATCTTC-CTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAA
* * * * *
46517577 AGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACATTTGAAGTTACAGTAGGTCAGATTAA
65 AGTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTACAGTAGGTCAGATTAA
46517642 ACCAT
130 ACCAT
**
46517647 AAGAAATCTTAT-TTCC
1 AACCAATCTTATCTTCC
46517663 CTAGCGTTAA
Statistics
Matches: 136, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
133 3 0.02
134 133 0.98
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (134 bp):
AACCAATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAA
GTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTACAGTAGGTCAGATTAAA
CCAT
Found at i:46517596 original size:90 final size:85
Alignment explanation
Indices: 46517346--46517598 Score: 224
Period size: 90 Copynumber: 2.9 Consensus size: 85
46517336 CATATCAAAC
* * * * * * * *
46517346 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAA-ACCAATCTTATCTTCCTGAAGTTGCAGCGG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACACTAATCCTATCTCCCTAAAGTTGCAGTGG
* * *
46517410 AGCAGATTGAAGCTACTAAT
66 AGCAGATTAAACCTACCAAT
* * * * *
46517430 CCTATCTCTCTGAAGTTACAGTGGAGCATATTAAAACAATGAATCCTATAC-CTCTAAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--AACACT-AATCCTAT-CTCCCTAAAGTTGCA
*
46517494 GTAGG-TCAGATTAAACCATAACCAAT
62 GT-GGAGCAGATTAAACC-T-ACCAAT
*
46517520 CTTATCTCTCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-C-ACTAATCCTATCTCCCTAAAGTTGCAG
*
46517585 TGGAGCGGATTAAA
63 TGGAGCAGATTAAA
46517599 ACGATGAATC
Statistics
Matches: 131, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
84 26 0.20
86 2 0.02
87 1 0.01
88 27 0.21
89 9 0.07
90 64 0.49
91 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (85 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACACTAATCCTATCTCCCTAAAGTTGCAGTGG
AGCAGATTAAACCTACCAAT
Found at i:46518078 original size:44 final size:44
Alignment explanation
Indices: 46517911--46518131 Score: 176
Period size: 44 Copynumber: 4.9 Consensus size: 44
46517901 AAAGCAGATC
* * *
46517911 ATAT-CAAACCTTATCTCCCTGGAGTTACAGTGGAGTAGGTTAAAA
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTT--GA
* * * * *
46517956 ATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG-A
* ** * * *
46518001 GACAGGCTACAAGTCTTATCTCTCTGAAGTTGCATTAGAGTAGGTTGA
1 -ATA---TACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGA
* * *
46518049 AGTA-ACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGA
1 A-TATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGA
* **
46518093 ATATGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAG
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAG
46518132 ACTGAAGCTG
Statistics
Matches: 136, Mismatches: 32, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
43 2 0.01
44 62 0.46
45 4 0.03
46 33 0.24
47 1 0.01
48 2 0.01
49 32 0.24
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGA
Found at i:46519652 original size:12 final size:12
Alignment explanation
Indices: 46519632--46519667 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
46519622 TTTTTAATTA
*
46519632 ATTAATATTATT
1 ATTACTATTATT
46519644 ATTACTATTATT
1 ATTACTATTATT
*
46519656 ATTGCTATTATT
1 ATTACTATTATT
46519668 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:46522256 original size:65 final size:63
Alignment explanation
Indices: 46522145--46522266 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 63
46522135 GAGAATCATT
* ** *
46522145 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTCATTTTCTTGCATAA
1 AGAAAAGTTGGTGTTATTTTAGAATTTTATGTTCATTTTAAATATGTTT-ATTTTCTTGCATAA
*
46522209 AGAATAAGTTGGTTTTATTTTAGAATTTTTATG-TCATTTTAAATATGTTTATTTTCTT
1 AGAA-AAGTTGGTGTTATTTTAGAA-TTTTATGTTCATTTTAAATATGTTTATTTTCTT
46522267 TATTCAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 12 0.24
65 32 0.63
66 7 0.14
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTTAGAATTTTATGTTCATTTTAAATATGTTTATTTTCTTGCATAA
Found at i:46523622 original size:11 final size:11
Alignment explanation
Indices: 46523596--46523630 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
46523586 TGAAACAGGG
46523596 GAAAAGAAAGAA
1 GAAAAGAAA-AA
46523608 GAAAAGAAAAA
1 GAAAAGAAAAA
46523619 GAAAAGGAAAAA
1 GAAAA-GAAAAA
46523631 TTAGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:46524818 original size:23 final size:23
Alignment explanation
Indices: 46524791--46524937 Score: 107
Period size: 21 Copynumber: 6.5 Consensus size: 23
46524781 TGCCGATCAA
46524791 GCACTTTATGTGTCGTATTTCAG
1 GCACTTTATGTGTCGTATTTCAG
*
46524814 GCACTTCATGTGTCG--TTTCAG
1 GCACTTTATGTGTCGTATTTCAG
46524835 GCAC-TTATGTGTCGTATACTAATCAG
1 GCACTTTATGTGTCGTAT--T--TCAG
**
46524861 ATACTATGTAT-TGT--TATTTCAG
1 GCACT-T-TATGTGTCGTATTTCAG
* *
46524883 GCACTTTATGTGTCATACTTCAG
1 GCACTTTATGTGTCGTATTTCAG
*
46524906 GCAC-TT-CGTG-CGTCATTTCAG
1 GCACTTTATGTGTCGT-ATTTCAG
46524927 GCAC-TTATGTG
1 GCACTTTATGTG
46524938 CCATTTACTG
Statistics
Matches: 99, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
20 14 0.14
21 29 0.29
22 13 0.13
23 25 0.25
24 2 0.02
26 9 0.09
28 4 0.04
29 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (23 bp):
GCACTTTATGTGTCGTATTTCAG
Found at i:46524927 original size:21 final size:21
Alignment explanation
Indices: 46524876--46524932 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
46524866 ATGTATTGTT
* *
46524876 ATTTCAGGCACTTTATGTGTC
1 ATTTCAGGCACTTCATGCGTC
*
46524897 ATACTTCAGGCACTTCGTGCGTC
1 AT--TTCAGGCACTTCATGCGTC
46524920 ATTTCAGGCACTT
1 ATTTCAGGCACTT
46524933 ATGTGCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
23 18 0.58
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
ATTTCAGGCACTTCATGCGTC
Found at i:46524958 original size:92 final size:92
Alignment explanation
Indices: 46524791--46524962 Score: 245
Period size: 92 Copynumber: 1.9 Consensus size: 92
46524781 TGCCGATCAA
* * * * * *
46524791 GCACTTTATGTGTCGTATTTCAGGCACTTCATGTGTCGTTTCAGGCACTTATGTGTCGTATACTA
1 GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATGTGCCATATACTA
46524856 ATCAGATACTATGTATTGTTATTTCAG
66 ATCAGATACTATGTATTGTTATTTCAG
* * *
46524883 GCACTTTATGTGTCATACTTCAGGCACTTCGTGCGTCATTTCAGGCACTTATGTGCCATTTACTG
1 GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATGTGCCATATACTA
* *
46524948 ATTAGGTACTATGTA
66 ATCAGATACTATGTA
46524963 CCATTTTAGG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (92 bp):
GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATGTGCCATATACTA
ATCAGATACTATGTATTGTTATTTCAG
Found at i:46531547 original size:24 final size:24
Alignment explanation
Indices: 46531520--46531571 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
46531510 ATTGTTTAAA
46531520 ATTTTAAAAATTGTATATTA-AAT-T
1 ATTTTAAAAATTG-AT-TTATAATAT
*
46531544 A-TTTACAAATTGATTTATAATAT
1 ATTTTAAAAATTGATTTATAATAT
46531567 ATTTT
1 ATTTT
46531572 TTAAAGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 12 0.50
24 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTTAAAAATTGATTTATAATAT
Found at i:46538501 original size:58 final size:58
Alignment explanation
Indices: 46538439--46538562 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 58
46538429 AATTCATATT
* * * * *
46538439 ATAATAATTACATTAAGAATGTTATTAAATTATATATTA-TTTTATTAAATTGTATTTA
1 ATAATAATTACA-TAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
* *
46538497 ATAATAATTATATAAAAATATGATTAAATTATTTATTATTTTTATTAAAATATATTTA
1 ATAATAATTACATAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
46538555 ATAATAAT
1 ATAATAAT
46538563 CTTATTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 22 0.38
58 36 0.62
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (58 bp):
ATAATAATTACATAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
Found at i:46538763 original size:16 final size:16
Alignment explanation
Indices: 46538742--46538793 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
46538732 TGAATTACTG
46538742 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
* *
46538758 ATTATAGTTCTATTTC
1 ATTATAGCTCTATTCC
* * *
46538774 ATTACAACTCTATTCA
1 ATTATAGCTCTATTCC
46538790 ATTA
1 ATTA
46538794 CAGCCATATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:46542947 original size:23 final size:23
Alignment explanation
Indices: 46542915--46542990 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
46542905 AGTGTTATTA
* *
46542915 ATCAGAGGTAGCTCCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
46542938 TTCAGTGGTAGTTACGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
46542961 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
46542984 ATCAGTG
1 ATCAGTG
46542991 TGGCACTTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:46546564 original size:35 final size:35
Alignment explanation
Indices: 46546524--46546601 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 35
46546514 ATATTAAGTC
46546524 CGCACACTCAGTGCTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTTAGTGCTATATAATCAAACT
46546559 CG--CA--CA---CTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTTAGTGCTATATAATCAAACT
*
46546587 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
46546602 GTACAATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
28 24 0.69
30 2 0.06
31 2 0.06
32 1 0.03
33 2 0.06
35 4 0.11
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (35 bp):
CGCACACTCAGTGCTTAGTGCTATATAATCAAACT
Found at i:46546624 original size:29 final size:28
Alignment explanation
Indices: 46546537--46546629 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
46546527 ACACTCAGTG
46546537 CTTAGTGCTATATAATCAAACTCGCACA
1 CTTAGTGCTATATAATCAAACTCGCACA
46546565 CTTAGTGCTATATAATCAAACTCGCACA
1 CTTAGTGCTATATAATCAAACTCGCACA
* * * *
46546593 CTTAGTGCTGTACAATTTAAACCCGCACA
1 CTTAGTGCTATATAA-TCAAACTCGCACA
46546622 CTTAGTGC
1 CTTAGTGC
46546630 CAATCTCATG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 41 0.68
29 19 0.32
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (28 bp):
CTTAGTGCTATATAATCAAACTCGCACA
Found at i:46554588 original size:28 final size:28
Alignment explanation
Indices: 46554525--46554647 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
46554515 ATATTAAGTC
*
46554525 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
46554552 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
46554580 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
46554608 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
46554637 CGCACACTTAG
1 CGCACACTTAG
46554648 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46556591 original size:99 final size:99
Alignment explanation
Indices: 46556471--46556677 Score: 405
Period size: 99 Copynumber: 2.1 Consensus size: 99
46556461 AAACAAACCT
46556471 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
1 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
*
46556536 TGAGACATGGTATGTATGATCTGTTCTGTCACGC
66 TGAGACATGGTATGTATGATCTGTTCTATCACGC
46556570 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
1 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
46556635 TGAGACATGGTATGTATGATCTGTTCTATCACGC
66 TGAGACATGGTATGTATGATCTGTTCTATCACGC
46556669 TTAAGCATG
1 TTAAGCATG
46556678 TGTGATCTGT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 107 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (99 bp):
TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
TGAGACATGGTATGTATGATCTGTTCTATCACGC
Found at i:46564618 original size:75 final size:75
Alignment explanation
Indices: 46564435--46564607 Score: 229
Period size: 75 Copynumber: 2.3 Consensus size: 75
46564425 GCAGAGGGGT
* *
46564435 TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAGCCCAGCTCTAGACGGAAAA
1 TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAACCCAGCTCTAGACAGAAAA
*
46564500 ACCAGCAATG
66 ACCAACAATG
* * * ** *
46564510 TTTGAGCCCAGCGCTAGTCGGGTTAGCCGACGATATTGAATGTGAACCCAGCTCTAGTTAGATAA
1 TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAACCCAGCTCTAGACAGAAAA
**
46564575 ACCAACGGTG
66 ACCAACAATG
* *
46564585 TTTGCGCCCAGTGCTAGTTGGGT
1 TTTGCGCCCAGCGCTAGTCGGGT
46564608 ATTCCGACGA
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 84 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (75 bp):
TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAACCCAGCTCTAGACAGAAAA
ACCAACAATG
Found at i:46569104 original size:21 final size:21
Alignment explanation
Indices: 46569066--46569105 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46569056 AAGCCCGAAG
*
46569066 GCTAAACAGAAGCACATAAGT
1 GCTAAACAGAAACACATAAGT
* *
46569087 GCTAAACTGAAACCCATAA
1 GCTAAACAGAAACACATAA
46569106 AGGTTAAACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGT
Found at i:46569125 original size:21 final size:21
Alignment explanation
Indices: 46569101--46569169 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
46569091 AACTGAAACC
46569101 CATAAAGGTTAAACGGAAGCT
1 CATAAAGGTTAAACGGAAGCT
* * * * *
46569122 CAT-AAGAGCTGAACGAAAACC
1 CATAAAG-GTTAAACGGAAGCT
* *
46569143 CATAATGGTTAAACAGAAGCT
1 CATAAAGGTTAAACGGAAGCT
46569164 CA-AAAG
1 CATAAAG
46569170 AGCTGAACGG
Statistics
Matches: 33, Mismatches: 13, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
20 6 0.18
21 25 0.76
22 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.16
Consensus pattern (21 bp):
CATAAAGGTTAAACGGAAGCT
Found at i:46569127 original size:42 final size:41
Alignment explanation
Indices: 46569063--46569183 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 41
46569053 CAGAAGCCCG
* * * *
46569063 AAGGCTAAACAGAAGCACATAAGTGCTAAACTGAAACCCATA
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAAC-GAAACCCATA
*
46569105 AAGGTTAAACGGAAGCTCATAAGAGCTGAACGAAAACCCATA
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAACG-AAACCCATA
* *
46569147 ATGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAAC
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAAC-GAAAC
46569184 ATATTAGGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 67 0.97
43 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (41 bp):
AAGGTTAAACAGAAGCTCATAAGAGCTGAACGAAACCCATA
Found at i:46570931 original size:30 final size:30
Alignment explanation
Indices: 46570897--46570953 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46570887 TTTAGAACTT
*
46570897 GGGAATCCCGGGATTA-TTTTCAGACATCTC
1 GGGAATCCCGGGATAAGTTTT-AGACATCTC
*
46570927 GGGAATCCTGGGATAAGTTTTAGACAT
1 GGGAATCCCGGGATAAGTTTTAGACAT
46570954 ACTATCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (30 bp):
GGGAATCCCGGGATAAGTTTTAGACATCTC
Found at i:46577688 original size:19 final size:20
Alignment explanation
Indices: 46577664--46577705 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
46577654 GAGGCAAGAA
46577664 TTTTTCTTCTTTTTTTC-AT
1 TTTTTCTTCTTTTTTTCAAT
46577683 TTTTTCTTCTTTTTTTCAAT
1 TTTTTCTTCTTTTTTTCAAT
46577703 TTT
1 TTT
46577706 ACCTTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTTCTTTTTTTCAAT
Found at i:46587084 original size:88 final size:86
Alignment explanation
Indices: 46586924--46587102 Score: 250
Period size: 88 Copynumber: 2.0 Consensus size: 86
46586914 ATTTTGTATG
46586924 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGATAGTTGCTT
1 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGATAGTTGCTT
46586989 CAACAACAAATGTGACACTATAA
66 --ACAACAAATGTGACACTATAA
* * * *
46587012 ATATGTATGAATGAACTGGATTTGATCATTTAATAGTATAAATTGAATGTAGTTTATTGTAGTTG
1 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGA---TAGTTG
*
46587077 CTTCAACAACAAATGTGGCACTATAA
63 CTT--ACAACAAATGTGACACTATAA
46587103 TAACTTGTCT
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
88 52 0.63
91 31 0.37
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (86 bp):
ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGATAGTTGCTT
ACAACAAATGTGACACTATAA
Found at i:46587837 original size:20 final size:21
Alignment explanation
Indices: 46587805--46587843 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
46587795 AGGGACTAAA
46587805 GTGTATAAATTCTA-AAATTG
1 GTGTATAAATTCTATAAATTG
46587825 GTGTA-AAATTTCTATAAAT
1 GTGTATAAA-TTCTATAAAT
46587844 ATGAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (21 bp):
GTGTATAAATTCTATAAATTG
Found at i:46589766 original size:65 final size:65
Alignment explanation
Indices: 46589662--46589807 Score: 283
Period size: 65 Copynumber: 2.2 Consensus size: 65
46589652 ACGAGACATG
46589662 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
*
46589727 TTTGGTGTGTTGGAGAGTGTTAGCTTTATGCTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
46589792 TTTGGTGTGTTGGAGA
1 TTTGGTGTGTTGGAGA
46589808 TCCGTGTATC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 80 1.00
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (65 bp):
TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
Found at i:46592555 original size:15 final size:15
Alignment explanation
Indices: 46592526--46592565 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
46592516 CCAAGCCAGT
46592526 AAATATTTA--ATAA
1 AAATATTTACGATAA
46592539 AAATATTTACGATAA
1 AAATATTTACGATAA
46592554 AAATATTTACGA
1 AAATATTTACGA
46592566 ATTGATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (15 bp):
AAATATTTACGATAA
Found at i:46603535 original size:21 final size:22
Alignment explanation
Indices: 46603506--46603548 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46603496 ACCAAGCATA
*
46603506 ATAGGAAAA-CAACAAAAAATC
1 ATAGCAAAACCAACAAAAAATC
*
46603527 ATAGCAAAACCAACATAAAATC
1 ATAGCAAAACCAACAAAAAATC
46603549 TACCACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.12
Consensus pattern (22 bp):
ATAGCAAAACCAACAAAAAATC
Found at i:46614129 original size:60 final size:60
Alignment explanation
Indices: 46614032--46614149 Score: 173
Period size: 60 Copynumber: 2.0 Consensus size: 60
46614022 AAATTATATA
* * * *
46614032 GTTTTTCATCATAAGGCATTCCTTGTGTCTTCAACCGCCATCATTTCATCTTCTCCTCGT
1 GTTTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCATTCCATCTTCTCCTCGT
* **
46614092 GTTTTTCATCACAAGGAATTCATTGTGTCTTCGACCGCCATTGTTCCATCTTCTCCTC
1 GTTTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCATTCCATCTTCTCCTC
46614150 ATCATGAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.41
Consensus pattern (60 bp):
GTTTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCATTCCATCTTCTCCTCGT
Found at i:46619618 original size:35 final size:36
Alignment explanation
Indices: 46619569--46619640 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
46619559 TTCAACGAGT
46619569 TAGTAGAGGAACCAATTAGACATATGT-GTTGAGGC
1 TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
* *
46619604 TAGTGGAGGGACCAATTAGACATATGTGGTTGAGGC
1 TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
46619640 T
1 T
46619641 CAAATGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 25 0.74
36 9 0.26
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (36 bp):
TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
Found at i:46621234 original size:18 final size:18
Alignment explanation
Indices: 46621199--46621233 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46621189 TTTTCATAAT
*
46621199 TTTTAAAAACATATAAAA
1 TTTTAAAAAAATATAAAA
46621217 TTTTAAAAAAAT-TAAAA
1 TTTTAAAAAAATATAAAA
46621234 AAATTCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TTTTAAAAAAATATAAAA
Found at i:46626802 original size:50 final size:50
Alignment explanation
Indices: 46626718--46626864 Score: 255
Period size: 50 Copynumber: 3.0 Consensus size: 50
46626708 TTCTTTCCCT
*
46626718 ATAGCCATGTCCTAATAC-TG--TGAATTTAACATCTTAAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
46626765 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
*
46626815 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTGAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
46626865 GCTTTCTTGA
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 17 0.18
48 2 0.02
50 76 0.80
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (50 bp):
ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
Found at i:46626917 original size:26 final size:26
Alignment explanation
Indices: 46626888--46626974 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
46626878 GCTATCTATC
46626888 TTTCAAATATAGTAGTGAAAATTAGT
1 TTTCAAATATAGTAGTGAAAATTAGT
** * * * *
46626914 TTTCAAACT-TTCTTGATTAATTATCTATT
1 TTTCAAA-TATAGTAG-TGAA-AAT-TAGT
*
46626943 TTTCAAATATAGTAGTGAGAATTAGT
1 TTTCAAATATAGTAGTGAAAATTAGT
46626969 TTTCAA
1 TTTCAA
46626975 CCTCTTGAAG
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
26 19 0.44
27 6 0.14
28 5 0.12
29 13 0.30
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (26 bp):
TTTCAAATATAGTAGTGAAAATTAGT
Found at i:46626950 original size:55 final size:55
Alignment explanation
Indices: 46626866--46626974 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
46626856 TAAGCTTCAG
*
46626866 CTTTCTTGATTAGCTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
1 CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
* * *
46626921 CTTTCTTGATTAATTATCTATTTTTCAAATATAGTAGTGAGAATTAGTTTTCAA
1 CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAA
46626975 CCTCTTGAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (55 bp):
CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
Found at i:46632671 original size:19 final size:18
Alignment explanation
Indices: 46632647--46632683 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
46632637 TATTGTGGTA
46632647 AAATTTAATTAAAAAAATT
1 AAATTTAA-TAAAAAAATT
*
46632666 AAATTTAATAATAAAATT
1 AAATTTAATAAAAAAATT
46632684 CAATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTTAATAAAAAAATT
Found at i:46642728 original size:32 final size:32
Alignment explanation
Indices: 46642662--46642806 Score: 157
Period size: 32 Copynumber: 4.5 Consensus size: 32
46642652 GATATCCCAA
* ** *
46642662 ACTTAACAGACA-AGCTTGCGAACTTAATTCGC
1 ACTTAACAGACATA-CTTGTGAACACAGTTCGC
* *
46642694 ACTTAACAAACATACTTGTGAACACAGTTTGC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
* *
46642726 ACTTAACAGACATATTTGTGAACATAGTTCGC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
* * *
46642758 ATTTAACAGACATACTTGTGCACACAGTTCTC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
**
46642790 GTTTAACAGACATACTT
1 ACTTAACAGACATACTT
46642807 ACTAGAATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 95 0.99
33 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (32 bp):
ACTTAACAGACATACTTGTGAACACAGTTCGC
Found at i:46642733 original size:64 final size:64
Alignment explanation
Indices: 46642662--46642806 Score: 177
Period size: 64 Copynumber: 2.3 Consensus size: 64
46642652 GATATCCCAA
*
46642662 ACTTAACAGACA-AGCTTGCGAACTTAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
1 ACTTAACAGACATA-CTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
* * * * * *
46642726 ACTTAACAGACATATTTGTGAACATAGTTCGCATTTAACAGACATACTTGTGCACACAGTTCT-C
1 ACTTAACAGACATACTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTT-TGC
**
46642790 GTTTAACAGACATACTT
1 ACTTAACAGACATACTT
46642807 ACTAGAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
64 67 0.97
65 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (64 bp):
ACTTAACAGACATACTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
Found at i:46643449 original size:18 final size:18
Alignment explanation
Indices: 46643440--46643474 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46643430 TATTATCATG
46643440 GGTTTGCATAATAACATA
1 GGTTTGCATAATAACATA
*
46643458 GGTTTGCAGAATAACAT
1 GGTTTGCATAATAACAT
46643475 GCAACATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (18 bp):
GGTTTGCATAATAACATA
Found at i:46643481 original size:25 final size:25
Alignment explanation
Indices: 46643452--46643499 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
46643442 TTTGCATAAT
46643452 AACATAGGTTTGCAGAATAACATGC
1 AACATAGGTTTGCAGAATAACATGC
* *
46643477 AACATGGGTTTGCATAATAACAT
1 AACATAGGTTTGCAGAATAACAT
46643500 AGGTTCACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (25 bp):
AACATAGGTTTGCAGAATAACATGC
Found at i:46643497 original size:43 final size:43
Alignment explanation
Indices: 46643436--46643534 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
46643426 CACATATTAT
** *
46643436 CATGGGTTTGCATAATAACATAGGTTTGCAGAATAACATGCAA
1 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
*
46643479 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATATAA
1 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
*
46643522 CATGGGTTCGCAT
1 CATGGGTTTGCAT
46643535 CAAGACCAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (43 bp):
CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
Found at i:46645435 original size:8 final size:8
Alignment explanation
Indices: 46645422--46645456 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
46645412 TTATAAACTC
46645422 TTATTATT
1 TTATTATT
46645430 TTATTATT
1 TTATTATT
46645438 TTATTATT
1 TTATTATT
*
46645446 CTATT-TT
1 TTATTATT
46645453 TTAT
1 TTAT
46645457 AATTATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTATT
Found at i:46647429 original size:28 final size:28
Alignment explanation
Indices: 46647389--46647626 Score: 397
Period size: 28 Copynumber: 8.5 Consensus size: 28
46647379 TAAATTGTAC
*
46647389 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
46647417 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
46647445 AGCACTAAGTGTGCGAGTTTGATTATGC
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
46647473 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
46647501 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
46647529 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
46647557 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
46647585 AGCACTAAGTGTGCGA-ATTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
46647612 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46647627 GACTTAATAT
Statistics
Matches: 202, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 0.12
28 178 0.88
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:46655769 original size:28 final size:28
Alignment explanation
Indices: 46655697--46655959 Score: 397
Period size: 28 Copynumber: 9.4 Consensus size: 28
46655687 CATGAGATTG
* * *
46655697 GCACTAAGTGTGCGGGTTTAAAT-TGTACA
1 GCACTAAGTGTGCGAGTTTGATTATGT--A
*
46655726 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
46655754 GCACTAAGTGTACGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
46655782 GCACTAAGTGTGCGAGTTTGATTATGCA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
46655810 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
46655838 GC-CTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
46655865 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
46655893 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
46655921 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
46655948 GCACTGAGTGTG
1 GCACTAAGTGTG
46655960 TGGACTTAAT
Statistics
Matches: 220, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 48 0.22
28 149 0.68
29 20 0.09
30 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:46655872 original size:83 final size:84
Alignment explanation
Indices: 46655697--46655959 Score: 413
Period size: 83 Copynumber: 3.1 Consensus size: 84
46655687 CATGAGATTG
* * * *
46655697 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 GCACTAAGTGTGCGAGTTT-GATTATGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
*
46655762 TGTACGAGTTTGATTATGTA
65 TGTGCGAGTTTGATTATGTA
46655782 GCACTAAGTGTGCGAGTTTGATTATGCAGCACTAAGTGTGCGAGTTTGACTATGTAGC-CTAAGT
1 GCACTAAGTGTGCGAGTTTGATTATGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
46655846 GTGCGAGTTTGATTATGTA
66 GTGCGAGTTTGATTATGTA
* * *
46655865 GCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
1 GCACTAAGTGTGCGAGTTTGATTATGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
46655930 GTGCGAG-TTGATTATATA
66 GTGCGAGTTTGATTATGTA
*
46655948 GCACTGAGTGTG
1 GCACTAAGTGTG
46655960 TGGACTTAAT
Statistics
Matches: 167, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
83 100 0.60
84 49 0.29
85 18 0.11
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (84 bp):
GCACTAAGTGTGCGAGTTTGATTATGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTTGATTATGTA
Found at i:46655958 original size:111 final size:112
Alignment explanation
Indices: 46655697--46655959 Score: 404
Period size: 111 Copynumber: 2.4 Consensus size: 112
46655687 CATGAGATTG
* * * *
46655697 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
*
46655762 TGTACGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGCA
65 TGTACGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATACA
* * *
46655810 GCACTAAGTGTGCGAGTTTGACTATGTAGC-CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
* *
46655874 GTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATA
66 GTACGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATACA
*
46655921 GCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTG
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTG
46655960 TGGACTTAAT
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
110 11 0.08
111 101 0.74
112 6 0.04
113 18 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (112 bp):
GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTACGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATACA
Found at i:46659192 original size:96 final size:97
Alignment explanation
Indices: 46659039--46659218 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 97
46659029 AACTAATCTC
* * * *
46659039 TCACCTATTGTGAAATGTTACTAGTGTAGTTTAAAAGATTATGAGGGTTTTCGATGTCCAATTAA
1 TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTTCGATGTCCAATTAA
46659104 ATATCCAAATAGA-AAGAATACAATTAAGCTA
66 ATATCCAAATAGAGAAGAATACAATTAAGCTA
* * * * * *
46659135 TCACCTTTTGTGCAATGCTATTGGTGTAGTTAAAAATATCATAAGGGTTTTAC-ATGTCCAATTC
1 TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTT-CGATGTCCAATTA
*
46659199 AATATCCAACTAGAGAAGAA
65 AATATCCAAATAGAGAAGAA
46659219 AGTAAGTATG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
96 65 0.92
97 6 0.08
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (97 bp):
TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTTCGATGTCCAATTAA
ATATCCAAATAGAGAAGAATACAATTAAGCTA
Found at i:46665299 original size:20 final size:20
Alignment explanation
Indices: 46665276--46665344 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
46665266 TAAGTTTATT
*
46665276 ACAAACTTACTAAGCTTTAA
1 ACAAGCTTACTAAGCTTTAA
* *
46665296 ACAAGCTT-TTAAG-TTTATT
1 ACAAGCTTACTAAGCTTTA-A
*
46665315 ACGAGCTTACTAAGCTTTAA
1 ACAAGCTTACTAAGCTTTAA
46665335 ACAAGCTTAC
1 ACAAGCTTAC
46665345 CTCATTTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 20 0.51
21 4 0.10
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
ACAAGCTTACTAAGCTTTAA
Found at i:46665307 original size:39 final size:39
Alignment explanation
Indices: 46665264--46665342 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
46665254 TAAGTTAAAG
46665264 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
1 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
* *
46665303 TTTAAGTTTATTACGAGCTTACTAAGCTTTAAACAAGCT
1 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
46665342 T
1 T
46665343 ACCTCATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (39 bp):
TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
Found at i:46676560 original size:10 final size:10
Alignment explanation
Indices: 46676531--46676588 Score: 89
Period size: 10 Copynumber: 5.8 Consensus size: 10
46676521 GAAGGCAACC
*
46676531 TAATTTTTAT
1 TAATTTATAT
* *
46676541 TTATTAATAT
1 TAATTTATAT
46676551 TAATTTATAT
1 TAATTTATAT
46676561 TAATTTATAT
1 TAATTTATAT
46676571 TAATTTATAT
1 TAATTTATAT
46676581 TAATTTAT
1 TAATTTAT
46676589 TATTTATTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TAATTTATAT
Done.