Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 118 of 145
Found at i:39395257 original size:27 final size:27
Alignment explanation
Indices: 39395218--39395270 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
39395208 TTTACTATGA
* *
39395218 GTAAAATCTTCAAAATTTTACCGAAGG
1 GTAAAATCGTCAAAAATTTACCGAAGG
*
39395245 GTAAAATCGTCAAAAATTTACTGAAG
1 GTAAAATCGTCAAAAATTTACCGAAG
39395271 TAAAATTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (27 bp):
GTAAAATCGTCAAAAATTTACCGAAGG
Found at i:39396192 original size:12 final size:12
Alignment explanation
Indices: 39396175--39396199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39396165 GGTGTAAGAG
39396175 AGAATTAAAGGT
1 AGAATTAAAGGT
39396187 AGAATTAAAGGT
1 AGAATTAAAGGT
39396199 A
1 A
39396200 AAAATTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AGAATTAAAGGT
Found at i:39396737 original size:21 final size:21
Alignment explanation
Indices: 39396712--39396752 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
39396702 TGCTAGGAAT
*
39396712 TTAGAAAACAGATTGAAATTA
1 TTAGAAAACAAATTGAAATTA
*
39396733 TTAGAAAAGAAATTGAAATT
1 TTAGAAAACAAATTGAAATT
39396753 TGTATTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.15, T:0.29
Consensus pattern (21 bp):
TTAGAAAACAAATTGAAATTA
Found at i:39398260 original size:14 final size:14
Alignment explanation
Indices: 39398241--39398277 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
39398231 GGCCGAGAGC
39398241 TGGGATAAGGATAA
1 TGGGATAAGGATAA
39398255 TGGGATAAGGATAA
1 TGGGATAAGGATAA
*
39398269 GGGGATAAG
1 TGGGATAAG
39398278 TGATTGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (14 bp):
TGGGATAAGGATAA
Found at i:39399922 original size:75 final size:75
Alignment explanation
Indices: 39399810--39399990 Score: 303
Period size: 75 Copynumber: 2.4 Consensus size: 75
39399800 TCAAATTCAT
39399810 TTTTCTAA-TTTTATTTTATTTTTTATTTATATAATTTTTTTTATTTCTGATATCTTACTTATTT
1 TTTT-TAACTTTTATTTTA-TTTTTATTTATATAATTTTTTTTATTTCTGATATCTTACTTATTT
39399874 AATTTCAAGATA
64 AATTTCAAGATA
39399886 TTTTTAACTTTTATTTTATTTTTATTTATATAATTTTTTTTATTTCTGATATCTTACTTATTTAA
1 TTTTTAACTTTTATTTTATTTTTATTTATATAATTTTTTTTATTTCTGATATCTTACTTATTTAA
39399951 TTTCAAGATA
66 TTTCAAGATA
*
39399961 TTTTTAACTCTTCTAATTTA-TTTTATTTAT
1 TTTTTAACT-TT-TATTTTATTTTTATTTAT
39399991 TTTCCAGCAA
Statistics
Matches: 101, Mismatches: 1, Indels: 6
0.94 0.01 0.06
Matches are distributed among these distances:
75 69 0.68
76 26 0.26
77 6 0.06
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (75 bp):
TTTTTAACTTTTATTTTATTTTTATTTATATAATTTTTTTTATTTCTGATATCTTACTTATTTAA
TTTCAAGATA
Found at i:39404368 original size:20 final size:20
Alignment explanation
Indices: 39404337--39404404 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
39404327 GAAAATCATT
*
39404337 TTAAAATTATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
39404357 TTGAAATCATTTTGACTTGA
1 TTAAAATCATTTTAACTTGA
* **
39404377 CTAAAATCATTTGCACTTGA
1 TTAAAATCATTTTAACTTGA
39404397 TTTAAAAT
1 -TTAAAAT
39404405 TGTTTCAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 33 0.85
21 6 0.15
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:39406532 original size:19 final size:20
Alignment explanation
Indices: 39406491--39406544 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
39406481 AACCCCAGTG
* *
39406491 GTATCGATATTTTTCCACGA
1 GTATCGATATTTTTACACAA
*
39406511 GTATCGATATTTTTATA-AA
1 GTATCGATATTTTTACACAA
39406530 GTATCGATATTTTTA
1 GTATCGATATTTTTA
39406545 AGTTGGTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (20 bp):
GTATCGATATTTTTACACAA
Found at i:39413242 original size:215 final size:216
Alignment explanation
Indices: 39412860--39413291 Score: 857
Period size: 215 Copynumber: 2.0 Consensus size: 216
39412850 AATAATTTCA
39412860 ATTAACTAAACCAAATATAAAATATTTAATAATATGTAAATAATTACATTTTAATAATCTTATTA
1 ATTAACTAAACCAAATATAAAATATTTAATAATATGTAAATAATTACATTTTAATAATCTTATTA
39412925 TCAAAATTAATTTTAATTTTATATTTCATAAATCAAATCTCTCTCAAAATATGATGTAGAAGTAT
66 TCAAAATTAATTTTAATTTTATATTTCATAAATCAAATCTCTCTCAAAATATGATGTAGAAGTAT
39412990 GGATTATTTCTTGAAATCCTTGATCTGAGATGAGATGTTCATACTTGGACTTCGTTTCACCTGAT
131 GGATTATTTCTTGAAATCCTTGATCTGAGATGAGATGTTCATACTTGGACTTCGTTTCACCTGAT
39413055 TTAAACTATTATATAATTAAT
196 TTAAACTATTATATAATTAAT
39413076 ATTAACTAAA-CAAATATAAAATATTTAATAATATGTAAATAATTACATTTTAATAATCTTATTA
1 ATTAACTAAACCAAATATAAAATATTTAATAATATGTAAATAATTACATTTTAATAATCTTATTA
39413140 TCAAAATTAATTTTAATTTTATATTTCATAAATCAAATCTCTCTCAAAATATGATGTAGAAGTAT
66 TCAAAATTAATTTTAATTTTATATTTCATAAATCAAATCTCTCTCAAAATATGATGTAGAAGTAT
39413205 GGATTATTTCTTGAAATCCTTGATCTGAGATGAGATGTTCATACTTGGACTTCGTTTCACCTGAT
131 GGATTATTTCTTGAAATCCTTGATCTGAGATGAGATGTTCATACTTGGACTTCGTTTCACCTGAT
39413270 TTAAACTATTATATAATTAAT
196 TTAAACTATTATATAATTAAT
39413291 A
1 A
39413292 GATTTTTTTA
Statistics
Matches: 216, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
215 206 0.95
216 10 0.05
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (216 bp):
ATTAACTAAACCAAATATAAAATATTTAATAATATGTAAATAATTACATTTTAATAATCTTATTA
TCAAAATTAATTTTAATTTTATATTTCATAAATCAAATCTCTCTCAAAATATGATGTAGAAGTAT
GGATTATTTCTTGAAATCCTTGATCTGAGATGAGATGTTCATACTTGGACTTCGTTTCACCTGAT
TTAAACTATTATATAATTAAT
Found at i:39415046 original size:17 final size:18
Alignment explanation
Indices: 39415010--39415064 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
39415000 AGTCAAAGTT
39415010 TATATTATAAGAATATAA
1 TATATTATAAGAATATAA
* *
39415028 TATTTTATAATAA-ATAA
1 TATATTATAAGAATATAA
39415045 TATATTATATAGAAT-TAA
1 TATATTATA-AGAATATAA
39415063 TA
1 TA
39415065 ATAATAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
TATATTATAAGAATATAA
Found at i:39415066 original size:21 final size:21
Alignment explanation
Indices: 39415010--39415067 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
39415000 AGTCAAAGTT
39415010 TATATTATA-AGAA-T-ATAA
1 TATATTATATAGAATTAATAA
*
39415028 TAT-TT-TAT--AATAAATAA
1 TATATTATATAGAATTAATAA
39415045 TATATTATATAGAATTAATAA
1 TATATTATATAGAATTAATAA
39415066 TA
1 TA
39415068 ATAAATATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 9 0.29
18 5 0.16
19 3 0.10
21 10 0.32
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
TATATTATATAGAATTAATAA
Found at i:39416259 original size:50 final size:49
Alignment explanation
Indices: 39416186--39416309 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
39416176 CACTATATAT
* * * * *
39416186 TTTGCATTT-GATTATTTCATGCATTATGTAACTCATATATTAATTCAG
1 TTTGCATTTAAATTATGTCATGCATTATGAAACTCATATATTAAATAAG
*
39416234 TTTGCATATTAAATTATGTCATGCATTATGAAACTCATATGTTAAATAAG
1 TTTGCAT-TTAAATTATGTCATGCATTATGAAACTCATATATTAAATAAG
* * *
39416284 TTTGCATTTTAATTAAGCCATGCATT
1 TTTGCATTTAAATTATGTCATGCATT
39416310 TATGCATCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 7 0.11
49 18 0.28
50 40 0.62
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (49 bp):
TTTGCATTTAAATTATGTCATGCATTATGAAACTCATATATTAAATAAG
Found at i:39416313 original size:50 final size:50
Alignment explanation
Indices: 39416203--39416328 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
39416193 TTGATTATTT
* * * * * *
39416203 CATGCATTATGTAACTCATATATTAATTCAGTTTGCATATTAAATTATGT
1 CATGCATTATGAAACTCATATGTTAAATAAGTTTGCATATTAAATTAAGC
*
39416253 CATGCATTATGAAACTCATATGTTAAATAAGTTTGCAT-TTTAATTAAGC
1 CATGCATTATGAAACTCATATGTTAAATAAGTTTGCATATTAAATTAAGC
* * *
39416302 CATGCATTTATGCATCTTATATGTTAA
1 CATGCA-TTATGAAACTCATATGTTAA
39416329 TTATGTTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 14 0.22
50 51 0.78
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (50 bp):
CATGCATTATGAAACTCATATGTTAAATAAGTTTGCATATTAAATTAAGC
Found at i:39417979 original size:16 final size:17
Alignment explanation
Indices: 39417960--39417992 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39417950 CTCTATCACT
*
39417960 TTTTGAAATT-TTTTTA
1 TTTTAAAATTATTTTTA
39417976 TTTTAAAATTATTTTTA
1 TTTTAAAATTATTTTTA
39417993 AAAATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTAAAATTATTTTTA
Found at i:39418004 original size:12 final size:12
Alignment explanation
Indices: 39417973--39418005 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39417963 TGAAATTTTT
39417973 TTATTTT-AAAA
1 TTATTTTAAAAA
39417984 TTATTTTTAAAAA
1 TTA-TTTTAAAAA
39417997 TTATTTTAA
1 TTATTTTAA
39418006 TTTTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 10 0.50
13 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTTAAAAA
Found at i:39427217 original size:21 final size:21
Alignment explanation
Indices: 39427179--39427218 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
39427169 TTATAACATT
39427179 AAATAATATAAATAATATAAA
1 AAATAATATAAATAATATAAA
*
39427200 AAATTATA-AAATAGATATA
1 AAATAATATAAATA-ATATA
39427219 TCATGAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATAATATAAATAATATAAA
Found at i:39434042 original size:22 final size:22
Alignment explanation
Indices: 39434017--39434058 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39434007 TCTCAACACT
39434017 AAACCACTCAA-TTTTGATTTAC
1 AAACCA-TCAAGTTTTGATTTAC
*
39434039 AAACTATCAAGTTTTGATTT
1 AAACCATCAAGTTTTGATTT
39434059 CTTTCAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (22 bp):
AAACCATCAAGTTTTGATTTAC
Found at i:39438604 original size:73 final size:73
Alignment explanation
Indices: 39438485--39438630 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
39438475 CTTAGTGAGA
*
39438485 AGAAATATCTAAAGGTACTTCGTATATCATCCACTGATCCAACCTAGTCATTGTCAATGTACCCA
1 AGAAATATCTAAAGGTACTTCGCATATCATCCACTGATCCAACCTAGTCATTGTCAATGTACCCA
39438550 ATCAGTTT
66 ATCAGTTT
39438558 AGAAATATCTAAAGGTACTTCGCATATCATCCACTGATCCAACCTAGTCATTGTCAATGTACCCA
1 AGAAATATCTAAAGGTACTTCGCATATCATCCACTGATCCAACCTAGTCATTGTCAATGTACCCA
39438623 ATCAGTTT
66 ATCAGTTT
39438631 TAAGAAGTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (73 bp):
AGAAATATCTAAAGGTACTTCGCATATCATCCACTGATCCAACCTAGTCATTGTCAATGTACCCA
ATCAGTTT
Found at i:39446610 original size:24 final size:24
Alignment explanation
Indices: 39446578--39446631 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
39446568 GTCCAATTAT
39446578 TTAATAATAAAAGGAGGCTCATAA
1 TTAATAATAAAAGGAGGCTCATAA
39446602 TTAATAATAAAAGGAGGCTCATAA
1 TTAATAATAAAAGGAGGCTCATAA
39446626 TTAATA
1 TTAATA
39446632 TTCAGTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (24 bp):
TTAATAATAAAAGGAGGCTCATAA
Found at i:39452961 original size:12 final size:12
Alignment explanation
Indices: 39452944--39452976 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
39452934 AAGGCAAGAA
39452944 CCCAACACAAGG
1 CCCAACACAAGG
39452956 CCCAACACAAGG
1 CCCAACACAAGG
*
39452968 CCTAACACA
1 CCCAACACA
39452977 GAGAGACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.42, G:0.12, T:0.03
Consensus pattern (12 bp):
CCCAACACAAGG
Found at i:39459067 original size:57 final size:57
Alignment explanation
Indices: 39459004--39459113 Score: 211
Period size: 57 Copynumber: 1.9 Consensus size: 57
39458994 GCTACACCTC
39459004 GGGGCATCAACAAAGTCTTCTAGGACTTCTAAACACATATCAAGTTTAAAAAGTCTT
1 GGGGCATCAACAAAGTCTTCTAGGACTTCTAAACACATATCAAGTTTAAAAAGTCTT
*
39459061 GGGGCATCAACAAAGTTTTCTAGGACTTCTAAACACATATCAAGTTTAAAAAG
1 GGGGCATCAACAAAGTCTTCTAGGACTTCTAAACACATATCAAGTTTAAAAAG
39459114 AGTCATCAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (57 bp):
GGGGCATCAACAAAGTCTTCTAGGACTTCTAAACACATATCAAGTTTAAAAAGTCTT
Found at i:39460212 original size:131 final size:131
Alignment explanation
Indices: 39459789--39460839 Score: 1760
Period size: 131 Copynumber: 8.0 Consensus size: 131
39459779 CCCAGAGAAC
* *
39459789 GGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTT
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA-AGCAGATCTT
* *
39459854 ATCTTCATGTATTGGCGTAAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAA
65 GTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAA
39459919 GT
130 GT
* * *
39459921 GGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGAGAGCAGATCTT
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA-AGCAGATCTT
* *
39459986 ATCTTCATGTATTGGCGTAAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAA
65 GTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAA
39460051 GT
130 GT
* * *
39460053 GGATCGAAGATGCAGATCTTGTCCTCCCATATTGGTGGCGAAGTAGATCAAAGAAGCAAATCTTG
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAGATCTTG
*
39460118 TATTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
66 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
39460183 T
131 T
*
39460184 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAAATCTTG
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAGATCTTG
*
39460249 TATTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
66 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
39460314 T
131 T
* * *
39460315 GGATCGAAGATGCAGATATTGTTTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAAATCTTG
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAGATCTTG
*
39460380 TATTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
66 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
39460445 T
131 T
39460446 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAGATCTTG
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAGATCTTG
* * * *
39460511 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGCCCTATCTTCTTATATTAGTAGGAAG
66 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
39460576 T
131 T
* * *
39460577 GAATCGAAGATGCAGATCTTGTCTTCCCACACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTT
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAG-AAGCAGATCTT
* * * *
39460642 GTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGCCCTATCTTCTTATATTAGTAGGAA
65 GTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAA
39460707 GT
130 GT
* *
39460709 GAATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAGCAGATCTTG
1 GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAGATCTTG
** *
39460774 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCGGGTCCTGTCTTCCTATATTGGTAGGAAG
66 TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
39460839 T
131 T
39460840 AGATTGAAAA
Statistics
Matches: 889, Mismatches: 29, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
131 577 0.65
132 312 0.35
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (131 bp):
GGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAGCAGATCTTG
TCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCATGTCCTATCTTCCTATATTGGTAGGAAG
T
Found at i:39460839 original size:44 final size:45
Alignment explanation
Indices: 39459790--39460843 Score: 776
Period size: 44 Copynumber: 24.1 Consensus size: 45
39459780 CCAGAGAACG
* * *
39459790 GATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * * * **
39459834 GATCGAAGAGAGCAGATCTTATCTTCATGTATTGG-CGTAAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * *
39459878 GATCAAAGATAGCATG-TCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCAAAGATAGCA-GATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * *
39459922 GATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCAAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * * * **
39459966 GATCGAAGAGAGCAGATCTTATCTTCATGTATTGG-CGTAAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * *
39460010 GATCAAAGATAGCATG-TCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCAAAGATAGCA-GATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * *
39460054 GATCGAAGAT-GCAGATCTTGTCCTCCCATATTGGTGGCGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * * *
39460098 GATCAAAGA-AGCAAATCTTGTATTCATGTATTGG-CGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * *
39460141 GATCAAAGATAGCATG-TCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCAAAGATAGCA-GATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * *
39460185 GATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * * *
39460229 GATCAAAGA-AGCAAATCTTGTATTCATGTATTGG-CGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * *
39460272 GATCAAAGATAGCATG-TCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCAAAGATAGCA-GATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * * *
39460316 GATCGAAGAT-GCAGATATTGTTTTCCCATACTGGTGGCGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * * *
39460360 GATCAAAGA-AGCAAATCTTGTATTCATGTATTGG-CGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * *
39460403 GATCAAAGATAGCATG-TCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCAAAGATAGCA-GATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * *
39460447 GATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * *
39460491 GATCAAAGA-AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
** * * * *
39460534 GATCAAAGATAGCAGGCCCTATCTTCTTATATTAGTAG-GAAGT-
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * *
39460577 GAATCGAAGAT-GCAGATCTTGTCTTCCCACACTGGTGGCGAAGTA
1 G-ATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * * *
39460622 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
** * * * *
39460666 GATCAAAGATAGCAGGCCCTATCTTCTTATATTAGTAG-GAAGT-
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * *
39460709 GAATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
1 G-ATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * * * *
39460754 GATCGAAGA-AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
* * *
39460797 GATCAAAGATAGCGGGTCCTGTCTTCCTATATTGGTAG-GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
39460841 GAT
1 GAT
39460844 TGAAAAATAG
Statistics
Matches: 781, Mismatches: 187, Indels: 84
0.74 0.18 0.08
Matches are distributed among these distances:
42 5 0.01
43 215 0.28
44 490 0.63
45 71 0.09
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
GATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTA
Found at i:39469017 original size:27 final size:27
Alignment explanation
Indices: 39468986--39469058 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
39468976 TATCTGGTAT
39468986 CACTTCATCTAAATCATTGTGTTGAAA
1 CACTTCATCTAAATCATTGTGTTGAAA
39469013 CACTTCATCTAAATCATTGTGTTGAAA
1 CACTTCATCTAAATCATTGTGTTGAAA
*
39469040 CACTTCAACTAAAATCATT
1 CACTTCATCT-AAATCATT
39469059 AAATGGTAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 36 0.82
28 8 0.18
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (27 bp):
CACTTCATCTAAATCATTGTGTTGAAA
Found at i:39471874 original size:46 final size:46
Alignment explanation
Indices: 39471807--39471894 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
39471797 ATACTTTCAT
*
39471807 TTATCTCCAAGTATTCTCATTTGACTCATGTGACTCATGTGATGTG
1 TTATCTCCAAGCATTCTCATTTGACTCATGTGACTCATGTGATGTG
39471853 TTATCTCCAAGCATTCTCATTTGACTCATGTGACTCATGTGA
1 TTATCTCCAAGCATTCTCATTTGACTCATGTGACTCATGTGA
39471895 CACATTTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (46 bp):
TTATCTCCAAGCATTCTCATTTGACTCATGTGACTCATGTGATGTG
Found at i:39483142 original size:50 final size:50
Alignment explanation
Indices: 39483018--39483258 Score: 234
Period size: 50 Copynumber: 4.8 Consensus size: 50
39483008 GATAATAACA
* ** * *
39483018 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * * ** *
39483067 TACAAATGCCATATCCCAGATATGGTCTTACATGGGATTTCCCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *** *
39483117 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
39483167 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
39483217 TGCCAACGCTATGTCCCAGACAAGGTCTTACAGGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
39483259 TTACCCAAAT
Statistics
Matches: 156, Mismatches: 34, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 117 0.75
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:39483566 original size:52 final size:52
Alignment explanation
Indices: 39483483--39483587 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
39483473 CCACCTATTT
* * * * **
39483483 AGTCTTCAACCTTATTCTTTCCTTTGTCTAACCTCGGATTCTGTTCTTCTTG
1 AGTCGTCAACCTTAGTCTTTCCTTCGTCTAACCTCGAATTCCATTCTTCTTG
39483535 AGTCGTCAACCTTAGTCTTTCC-TCGATCTAACCTCGAATTCCATTCTTCTTG
1 AGTCGTCAACCTTAGTCTTTCCTTCG-TCTAACCTCGAATTCCATTCTTCTTG
39483587 A
1 A
39483588 TCTATAATAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 2 0.04
52 44 0.96
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (52 bp):
AGTCGTCAACCTTAGTCTTTCCTTCGTCTAACCTCGAATTCCATTCTTCTTG
Found at i:39486656 original size:41 final size:41
Alignment explanation
Indices: 39486611--39486722 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 41
39486601 ATCGGAGTGT
*
39486611 AAACAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTACAATTCAAGGGTACTGAAGTAC
* * * *
39486652 AAACAGAGGCACTTATGTACAATTGAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTACAATTCAAGGGTACTGAAGTAC
* *
39486693 AAATAGGGGCATGTATGTACAATTC-AGGGT
1 AAACAGGGGCACGTATGTACAATTCAAGGGT
39486723 TAATTAACTA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
40 4 0.07
41 56 0.93
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTACAATTCAAGGGTACTGAAGTAC
Found at i:39493431 original size:27 final size:27
Alignment explanation
Indices: 39493401--39493452 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
39493391 TAGCAAAACC
*
39493401 TAAAATTCATTCATCTTTTTCAAGTTT
1 TAAAATTCATTCATCTTTCTCAAGTTT
*
39493428 TAAAATTCATTTATCTTTCTCAAGT
1 TAAAATTCATTCATCTTTCTCAAGT
39493453 CTTCTTCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (27 bp):
TAAAATTCATTCATCTTTCTCAAGTTT
Found at i:39496757 original size:12 final size:12
Alignment explanation
Indices: 39496740--39496772 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39496730 TTAACCCTTG
39496740 GAACTTAATTTT
1 GAACTTAATTTT
39496752 GAACTTAATTTT
1 GAACTTAATTTT
39496764 -AAGCTTAAT
1 GAA-CTTAAT
39496773 GGTCTGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 18 0.90
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (12 bp):
GAACTTAATTTT
Found at i:39496971 original size:31 final size:31
Alignment explanation
Indices: 39496917--39496991 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
39496907 CCTAGACTCT
* * *
39496917 CGTGTGGCCCACACGTTCCAATTGGCTAGCC
1 CGTGTGGCCCACACGATCAAATTGGCCAGCC
*
39496948 CGTGTGGCCCACACGAAT-AAATTGGCCAGGC
1 CGTGTGGCCCACACG-ATCAAATTGGCCAGCC
* *
39496979 TGTGTTGCCCACA
1 CGTGTGGCCCACA
39496992 TGGCCCTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.21
Consensus pattern (31 bp):
CGTGTGGCCCACACGATCAAATTGGCCAGCC
Found at i:39502214 original size:30 final size:30
Alignment explanation
Indices: 39502178--39502240 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
39502168 ACATAACCTT
39502178 ACAATATTTATTTTAAAATCAAGGCGTGTC
1 ACAATATTTATTTTAAAATCAAGGCGTGTC
39502208 ACAATATTTATTTTAAAATCAAGGCGTGTC
1 ACAATATTTATTTTAAAATCAAGGCGTGTC
39502238 ACA
1 ACA
39502241 TACTAGGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (30 bp):
ACAATATTTATTTTAAAATCAAGGCGTGTC
Found at i:39510117 original size:17 final size:16
Alignment explanation
Indices: 39510097--39510128 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
39510087 AGAAAGGAAA
39510097 CAAAAGAAGAAAAAAAT
1 CAAAAGAA-AAAAAAAT
39510114 CAAAAGAAAAAAAAA
1 CAAAAGAAAAAAAAA
39510129 CTAGCTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.03
Consensus pattern (16 bp):
CAAAAGAAAAAAAAAT
Found at i:39510304 original size:94 final size:92
Alignment explanation
Indices: 39510206--39510413 Score: 362
Period size: 94 Copynumber: 2.2 Consensus size: 92
39510196 GTGCCAAATA
39510206 AAAAATAATAAAAACAAAAAAATATAAAATAAATATAAAATATAAAACTAAATGAAATAATTTTG
1 AAAAA-AATAAAAA-AAAAAAATATAAAATAAATATAAAATATAAAACTAAATGAAATAATTTTG
39510271 GTTGGGTAGGAAGGAAACAAAAGAAGAAG
64 GTTGGGTAGGAAGGAAACAAAAGAAGAAG
39510300 AAAAAAATCAAAAAACAAAAAATATAAAATAAATATAAAATATAAAACTAAATGAAATAATTTTG
1 AAAAAAAT-AAAAAA-AAAAAATATAAAATAAATATAAAATATAAAACTAAATGAAATAATTTTG
39510365 GTTGGGTAGGAAGGAAACAAAAGAAGAAG
64 GTTGGGTAGGAAGGAAACAAAAGAAGAAG
* *
39510394 AAAAAAATCAAAAGAAAAAA
1 AAAAAAATAAAAAAAAAAAA
39510414 GAAACTAGCT
Statistics
Matches: 110, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
92 6 0.05
93 8 0.07
94 96 0.87
ACGTcount: A:0.65, C:0.04, G:0.13, T:0.18
Consensus pattern (92 bp):
AAAAAAATAAAAAAAAAAAATATAAAATAAATATAAAATATAAAACTAAATGAAATAATTTTGGT
TGGGTAGGAAGGAAACAAAAGAAGAAG
Found at i:39519024 original size:27 final size:27
Alignment explanation
Indices: 39518992--39519290 Score: 251
Period size: 27 Copynumber: 11.1 Consensus size: 27
39518982 TTACACTATT
* *
39518992 ATGACCAAAATACCTTCATTGGGTAAA
1 ATGACCGAAATACCTTCATAGGGTAAA
* * * *
39519019 AGGACCGAAATATC-TCTATAAGGTAGA
1 ATGACCGAAATACCTTC-ATAGGGTAAA
* **
39519046 ATGACCGGAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCTTCATAGGGTAAA
* * *
39519073 ATGACCGAAGTACCTTCGTAAGGTAAA
1 ATGACCGAAATACCTTCATAGGGTAAA
*
39519100 ATGACCGAAATACC-CCTATAGGGTAAA
1 ATGACCGAAATACCTTC-ATAGGGTAAA
**
39519127 ATGACTAAAATACCTTCATAGGGTAAA
1 ATGACCGAAATACCTTCATAGGGTAAA
* * ** *
39519154 ATGACCAAAACACCCCCATAGGGTAGA
1 ATGACCGAAATACCTTCATAGGGTAAA
* **
39519181 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCTTCATAGGGTAAA
* ** *
39519208 ATGATCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCTTCATAGGGTAAA
* ** * *
39519235 ATGATCGAAATACCACCATAGGATAAG
1 ATGACCGAAATACCTTCATAGGGTAAA
* **
39519262 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCTTCATAGGGTAAA
39519289 AT
1 AT
39519291 AACTGTTATA
Statistics
Matches: 224, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.01
27 219 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCTTCATAGGGTAAA
Found at i:39519130 original size:81 final size:81
Alignment explanation
Indices: 39519013--39519290 Score: 297
Period size: 81 Copynumber: 3.4 Consensus size: 81
39519003 ACCTTCATTG
* * * * * * *
39519013 GGTAAAAGGACCGAAATATCTCTATAAGGTAGAATGACCGGAATACCCCCATAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
* ** *
39519078 CGAAGTACCTTCGTAA
66 CGAAATACCACCATAA
* ** **
39519094 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTAAAATACCTTCATAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
* * * *
39519159 CAAAACACCCCCATAG
66 CGAAATACCACCATAA
* * * * *
39519175 GGTAGAATGATCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGAT
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
39519240 CGAAATACCACCAT-A
66 CGAAATACCACCATAA
* *
39519255 GGATAAGATGACCAAAATACCCCCATAGGGTAAAAT
1 GG-TAAAATGACCGAAATACCCCCATAGGGTAAAAT
39519291 AACTGTTATA
Statistics
Matches: 161, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
80 2 0.01
81 159 0.99
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (81 bp):
GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
CGAAATACCACCATAA
Found at i:39519302 original size:54 final size:54
Alignment explanation
Indices: 39518992--39519290 Score: 303
Period size: 54 Copynumber: 5.5 Consensus size: 54
39518982 TTACACTATT
** * * * * * * * *
39518992 ATGACCAAAATACCTTCATTGGGTAAAAGGACCGAAATATCTCTATAAGGTAGA
1 ATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCACCATAGGGTAAA
** * * ** * *
39519046 ATGACCGGAATACCCCCATAGGGTAAAATGACCGAAGTACCTTCGTAAGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCACCATAGGGTAAA
* * * **
39519100 ATGACCGAAATACCCCTATAGGGTAAAATGA-CTAAAATACCTTCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAAATGATC-GAAATACCACCATAGGGTAAA
* * *
39519154 ATGACCAAAACACCCCCATAGGGTAGAATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCACCATAGGGTAAA
* * * * *
39519208 ATGATCGAAATACCCCCATAGGGTAGAATGATCGAAATACCACCATAGGATAAG
1 ATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCACCATAGGGTAAA
39519262 ATGACCAAAATACCCCCATAGGGTAAAAT
1 ATGACCAAAATACCCCCATAGGGTAAAAT
39519291 AACTGTTATA
Statistics
Matches: 209, Mismatches: 34, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
53 1 0.00
54 207 0.99
55 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (54 bp):
ATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCACCATAGGGTAAA
Found at i:39522117 original size:43 final size:42
Alignment explanation
Indices: 39522061--39522314 Score: 226
Period size: 43 Copynumber: 6.0 Consensus size: 42
39522051 TTAATTCAGT
* * * *
39522061 GATACGGGGAATCAACGCATAGCAGCCCCTTTCACAATCAAA
1 GATACGTGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
* * * * **
39522103 GATACAGTGGAATCAGCACTTAGCAACCACCTTT-ATATTTAGT
1 GATAC-GTGGAATCAGCACATAGCAACC-CCTTTCACAATCAAA
* *
39522146 GATACGGGGAATCAACACATAGCAACCCCTTTCACAATCAAA
1 GATACGTGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
* * * * **
39522188 GATACTGTGGAATCAGCACTTAGCAACCACCTTT-ATATTGAGT
1 GATAC-GTGGAATCAGCACATAGCAACC-CCTTTCACAATCAAA
*
39522231 GATACGAGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGTGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
* * * *
39522273 TATATGGTGGAATCAGCACTTAGCAACCACCTTT-AGAATCAA
1 GATA-CGTGGAATCAGCACATAGCAACC-CCTTTCACAATCAA
39522315 TAATTCAGGG
Statistics
Matches: 166, Mismatches: 38, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
41 10 0.06
42 60 0.36
43 81 0.49
44 15 0.09
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (42 bp):
GATACGTGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
Found at i:39522167 original size:85 final size:85
Alignment explanation
Indices: 39522025--39522307 Score: 451
Period size: 85 Copynumber: 3.3 Consensus size: 85
39522015 CCGTTACTCG
* * * *
39522025 GTGGATTCAACACTTAGCAACCACCTTTA-ATTCAGTGATACGGGGAATCAACGCATAGCAGCCC
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATAGCAACCC
39522089 CTTTCACAATCAAAGATACA
66 CTTTCACAATCAAAGATACA
*
39522109 GTGGAATCAGCACTTAGCAACCACCTTTATATTTAGTGATACGGGGAATCAACACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATAGCAACCC
*
39522174 CTTTCACAATCAAAGATACT
66 CTTTCACAATCAAAGATACA
* * *
39522194 GTGGAATCAGCACTTAGCAACCACCTTTATATTGAGTGATACGAGGAATCAGCACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATAGCAACCC
* **
39522259 CTTTCACAATCAAATATATG
66 CTTTCACAATCAAAGATACA
39522279 GTGGAATCAGCACTTAGCAACCACCTTTA
1 GTGGAATCAGCACTTAGCAACCACCTTTA
39522308 GAATCAATAA
Statistics
Matches: 186, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 27 0.15
85 159 0.85
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (85 bp):
GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATAGCAACCC
CTTTCACAATCAAAGATACA
Found at i:39522169 original size:42 final size:41
Alignment explanation
Indices: 39522031--39522307 Score: 207
Period size: 43 Copynumber: 6.5 Consensus size: 41
39522021 CTCGGTGGAT
*
39522031 TCAACACTTAGCAACCACCTTTA-ATTCAGTGATACGGGGAA
1 TCAACACATAGCAACC-CCTTTACATTCAGTGATACGGGGAA
* * * ** *
39522072 TCAACGCATAGCAGCCCCTTTCACAATCAAAGATACAGTGGAA
1 TCAACACATAGCAACCCCTTT-ACATTCAGTGATAC-GGGGAA
* * * *
39522115 TCAGCACTTAGCAACCACCTTTATATTTAGTGATACGGGGAA
1 TCAACACATAGCAACC-CCTTTACATTCAGTGATACGGGGAA
* ** *
39522157 TCAACACATAGCAACCCCTTTCACAATCAAAGATACTGTGGAA
1 TCAACACATAGCAACCCCTTT-ACATTCAGTGATAC-GGGGAA
* * * * *
39522200 TCAGCACTTAGCAACCACCTTTATATTGAGTGATACGAGGAA
1 TCAACACATAGCAACC-CCTTTACATTCAGTGATACGGGGAA
* * * *
39522242 TCAGCACATAGCAACCCCTTTCACAATCAAAT-ATATGGTGGAA
1 TCAACACATAGCAACCCCTTT-ACATTC-AGTGATACGG-GGAA
* *
39522285 TCAGCACTTAGCAACCACCTTTA
1 TCAACACATAGCAACC-CCTTTA
39522308 GAATCAATAA
Statistics
Matches: 184, Mismatches: 41, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
40 5 0.03
41 24 0.13
42 64 0.35
43 76 0.41
44 15 0.08
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (41 bp):
TCAACACATAGCAACCCCTTTACATTCAGTGATACGGGGAA
Found at i:39522337 original size:42 final size:43
Alignment explanation
Indices: 39522023--39522340 Score: 235
Period size: 42 Copynumber: 7.5 Consensus size: 43
39522013 ATCCGTTACT
* * * * *
39522023 CGGTGGATTCAACACTTAGCAACCACCTTTA-ATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATAATA
* * * *
39522065 CGG-GGAATCAACGCATAGCAGCC-CCTTTCACAATCAA-AGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAATA-ATA
* * * * * *
39522107 CAGTGGAATCAGCACTTAGCAACCACCTTTATATTTAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATAATA
* *
39522150 CGG-GGAATCAACACATAGCAACC-CCTTTCACAATCAA-AGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAATA-ATA
* * * * * *
39522192 CTGTGGAATCAGCACTTAGCAACCACCTTTATATTGAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATAATA
* *
39522235 C-GAGGAATCAGCACATAGCAACC-CCTTTCACAATCAA-ATATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAATA-ATA
* * *
39522277 TGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATAATA
* *
39522320 CAG-GGAATTAGCACTTAGCAA
1 CGGTGGAATCAGCACTTAGCAA
39522341 ACCCTCGGGA
Statistics
Matches: 212, Mismatches: 48, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
40 5 0.02
41 27 0.13
42 83 0.39
43 81 0.38
44 16 0.08
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATAATA
Found at i:39522589 original size:17 final size:18
Alignment explanation
Indices: 39522555--39522594 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 18
39522545 TAATTCACAT
39522555 ACAAACTTACTTTGGTGCA
1 ACAAACTTAC-TTGGTGCA
39522574 ACAAACTTAC-TGGTGCA
1 ACAAACTTACTTGGTGCA
39522591 ACAA
1 ACAA
39522595 TATAGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.52
19 10 0.48
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (18 bp):
ACAAACTTACTTGGTGCA
Found at i:39525263 original size:12 final size:12
Alignment explanation
Indices: 39525246--39525276 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
39525236 TGCGACACGA
39525246 GCGTGTGATCGT
1 GCGTGTGATCGT
39525258 GCGTGTGATCGT
1 GCGTGTGATCGT
39525270 GCGTGTG
1 GCGTGTG
39525277 GTGAACCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.16, G:0.45, T:0.32
Consensus pattern (12 bp):
GCGTGTGATCGT
Found at i:39525636 original size:27 final size:27
Alignment explanation
Indices: 39525605--39525911 Score: 224
Period size: 27 Copynumber: 11.4 Consensus size: 27
39525595 CCCAATATTT
*
39525605 GTAAAATGACCGTCATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* ** *
39525632 GTAAAATGACCGTAATGCCTTTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* *
39525659 GTAAAATGACTGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* *
39525686 GTAAAATAACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* * * *
39525713 GTAAAGTGACCGTTATGCCCCTATAAG
1 GTAAAATGACCGTAATACCCCTATAGG
*
39525740 GTAAAATGATCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* ** * * *
39525767 GTTAAATGAATGTTATGCCCCTAT-GAC
1 GTAAAATGACCGTAATACCCCTATAG-G
* * ** * * *
39525794 ATTAAATGAATGTTATGCCCCTAT-GAC
1 GTAAAATGACCGTAATACCCCTATAG-G
* * * * * *
39525821 ATTAAATGACTGTTATGCCCCTAT-GTT
1 GTAAAATGACCGTAATACCCCTATAG-G
* ** *
39525848 ATAAAATGATTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
*
39525875 GTAAAATGACAGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
39525902 GTAAAATGAC
1 GTAAAATGAC
39525912 AGTTTTGCCC
Statistics
Matches: 234, Mismatches: 44, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 232 0.99
28 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAGG
Found at i:39525664 original size:54 final size:54
Alignment explanation
Indices: 39525605--39525911 Score: 251
Period size: 54 Copynumber: 5.7 Consensus size: 54
39525595 CCCAATATTT
* * * **
39525605 GTAAAATGACCGTCATACCCCTATAGGGTAAAATGACCGTAATGCCTTTGTAGG
1 GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGG
* *
39525659 GTAAAATGACTGTAATGCCCCTATAGGGTAAAATAACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGG
* * * * *
39525713 GTAAAGTGACCGTTATGCCCCTATAAGGTAAAATGATCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGG
* ** * ** * ** * * * *
39525767 GTTAAATGAATGTTATGCCCCTAT-GACATTAAATGAATGTTATGCCCCTAT-GAC
1 GTAAAATGACCGTAATGCCCCTATAG-GGTAAAATGACCGTAATACCCCTGTAG-G
* * * * ** **
39525821 ATTAAATGACTGTTATGCCCCTAT-GTTATAAAATGATTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTATAG-GGTAAAATGACCGTAATACCCCTGTAGG
* *
39525875 GTAAAATGACAGTAATACCCCTATAGGGTAAAATGAC
1 GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGAC
39525912 AGTTTTGCCC
Statistics
Matches: 204, Mismatches: 45, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
53 1 0.00
54 201 0.99
55 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (54 bp):
GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGG
Found at i:39525935 original size:26 final size:27
Alignment explanation
Indices: 39525849--39525936 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
39525839 CCCTATGTTA
** **
39525849 TAAAATGATTGTAATACCCCTGTAGGG
1 TAAAATGACAGTAATACCCCTACAGGG
*
39525876 TAAAATGACAGTAATACCCCTATAGGG
1 TAAAATGACAGTAATACCCCTACAGGG
** *
39525903 TAAAATGACAGTTTTGCCCCT-CAGGG
1 TAAAATGACAGTAATACCCCTACAGGG
*
39525929 TTAAATGA
1 TAAAATGA
39525937 TTGATTTGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 11 0.21
27 42 0.79
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
TAAAATGACAGTAATACCCCTACAGGG
Found at i:39525962 original size:24 final size:24
Alignment explanation
Indices: 39525930--39526024 Score: 111
Period size: 24 Copynumber: 4.0 Consensus size: 24
39525920 CCCTCAGGGT
*
39525930 TAAATGATTGATTTGTCTGTGATG
1 TAAATGATTGATTTGTCTATGATG
*
39525954 TAAATGATTGATTTGTTTGA-GATG
1 TAAATGATTGATTTGTCT-ATGATG
* ** * *
39525978 TAAGTGACCGATGTGTCTATGATT
1 TAAATGATTGATTTGTCTATGATG
39526002 TAAATGATTGATTTGTCTATGAT
1 TAAATGATTGATTTGTCTATGAT
39526025 TGGTATGGCT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.98
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.44
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTATGATG
Found at i:39526025 original size:24 final size:24
Alignment explanation
Indices: 39525929--39526062 Score: 108
Period size: 24 Copynumber: 5.6 Consensus size: 24
39525919 CCCCTCAGGG
*
39525929 TTAAATGATTGATTTGTCTGTGAT
1 TTAAATGATTGATTTGTCTATGAT
* *
39525953 GTAAATGATTGATTTGTTTGA-GAT
1 TTAAATGATTGATTTGTCT-ATGAT
* * ** *
39525977 GTAAGTGACCGATGTGTCTATGAT
1 TTAAATGATTGATTTGTCTATGAT
39526001 TTAAATGATTGATTTGTCTATGAT
1 TTAAATGATTGATTTGTCTATGAT
*** ** *
39526025 TGGTATGGCTGATTTGTCTGTGAT
1 TTAAATGATTGATTTGTCTATGAT
**
39526049 TTGTATGATTGATT
1 TTAAATGATTGATT
39526063 CTGAGCATGG
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
23 1 0.01
24 85 0.99
ACGTcount: A:0.24, C:0.05, G:0.25, T:0.46
Consensus pattern (24 bp):
TTAAATGATTGATTTGTCTATGAT
Found at i:39526043 original size:48 final size:48
Alignment explanation
Indices: 39525938--39526062 Score: 130
Period size: 48 Copynumber: 2.6 Consensus size: 48
39525928 GTTAAATGAT
*
39525938 TGATTTGTCTGTGATGTAAATGATTGATTTGTTTGAGATGTAAGTGAC
1 TGATTTGTCTGTGATTTAAATGATTGATTTGTTTGAGATGTAAGTGAC
* * * * *
39525986 CGATGTGTCTATGATTTAAATGATTGATTTGTCTATGA-TTGGT-A-TGGC
1 TGATTTGTCTGTGATTTAAATGATTGATTTGT-T-TGAGAT-GTAAGTGAC
**
39526034 TGATTTGTCTGTGATTTGTATGATTGATT
1 TGATTTGTCTGTGATTTAAATGATTGATT
39526063 CTGAGCATGG
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
48 55 0.87
49 3 0.05
50 5 0.08
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (48 bp):
TGATTTGTCTGTGATTTAAATGATTGATTTGTTTGAGATGTAAGTGAC
Found at i:39526244 original size:32 final size:32
Alignment explanation
Indices: 39526206--39526268 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
39526196 TGCTACGATG
* *
39526206 CTACTGATGGCTGTGTGCCGATCATATTACTA
1 CTACTGATGGCTGTATGCCAATCATATTACTA
*
39526238 CTACTGATGGCTTTATGCCAATCATATTACT
1 CTACTGATGGCTGTATGCCAATCATATTACT
39526269 GTACTTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (32 bp):
CTACTGATGGCTGTATGCCAATCATATTACTA
Found at i:39527457 original size:27 final size:27
Alignment explanation
Indices: 39527419--39527475 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
39527409 TACCGAGGGG
* *
39527419 ATTGGTGATTTTATCATATTATATGAT
1 ATTGATGATTTTATCACATTATATGAT
* *
39527446 ATTGATGATTTTATCGCATTATATGTT
1 ATTGATGATTTTATCACATTATATGAT
39527473 ATT
1 ATT
39527476 TGGTAGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (27 bp):
ATTGATGATTTTATCACATTATATGAT
Found at i:39532635 original size:50 final size:49
Alignment explanation
Indices: 39532521--39532654 Score: 223
Period size: 50 Copynumber: 2.7 Consensus size: 49
39532511 TCATTCGATA
*
39532521 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTACAGCT
* *
39532570 CACGTAGTAGCCTTCACATAGTCCTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAA-TTTTACAGCT
*
39532620 CACGTAGTAGCCTTCACATAGTACTACATACGTGA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA
39532655 CCAAAGCTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 38 0.48
50 41 0.52
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTACAGCT
Found at i:39532720 original size:51 final size:50
Alignment explanation
Indices: 39532516--39532856 Score: 194
Period size: 51 Copynumber: 6.8 Consensus size: 50
39532506 TTTTATCATT
* * * * * * *
39532516 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AATTTTA
1 CGATACACATAGTAGCCTTCACATAGCACCACACACGTAACCAAAGTTTC
* * * * *
39532565 C-AGTTCACGTAGTAGCCTTCACATAGTC-CTACACACGTGATC-AAGTTTTAC
1 CGA-TACACATAGTAGCCTTCACATAG-CACCACACACGTAACCAAAG-TTT-C
* * * * * * *
39532616 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTC
1 CGATACACATAGTAGCCTTCACATAGCACCACACACGTAACCAAAG-TTTC
* * *
39532666 CGATATC-CATAGTAGCCTTCACTTAGCACCACACATGTAACCATAGTTTAC
1 CGATA-CACATAGTAGCCTTCACATAGCACCACACACGTAACCAAAGTTT-C
* * * * * *
39532717 CGATACACGTAGTAGCTTTCACACAGTACTACACACGT-GCTCAAAAG-TTC
1 CGATACACATAGTAGCCTTCACATAGCACCACACACGTAAC-C-AAAGTTTC
* * * *
39532767 TCGGTACACATAGTAGCCTTCACTTAGCACCACACATGTAACCATAGTTTAC
1 -CGATACACATAGTAGCCTTCACATAGCACCACACACGTAACCAAAGTTT-C
* * * * *
39532819 CGATACACGTAGTAGCTTTCACACAGTACTACACACGT
1 CGATACACATAGTAGCCTTCACATAGCACCACACACGT
39532857 GTTCATCGAT
Statistics
Matches: 228, Mismatches: 47, Indels: 32
0.74 0.15 0.10
Matches are distributed among these distances:
48 1 0.00
49 39 0.17
50 48 0.21
51 134 0.59
52 6 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (50 bp):
CGATACACATAGTAGCCTTCACATAGCACCACACACGTAACCAAAGTTTC
Found at i:39532746 original size:102 final size:102
Alignment explanation
Indices: 39532516--39532857 Score: 382
Period size: 102 Copynumber: 3.4 Consensus size: 102
39532506 TTTTATCATT
* * * * * *
39532516 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AA-TTTTAC-AGTTCACGTAG
1 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTGCTCAAAAGTTCT-CGA-TACACATAG
* * * * *
39532577 TAGCCTTCACATAGTC-CTACACACGTGATCA-AGTTTTAC
64 TAGCCTTCACTTAG-CACCACACATGTAACCATAG-TTTAC
* * * * *
39532616 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGAC-C-AAAGCTT-TCCGATATC-CAT
1 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAAG-TTCT-CGATA-CACAT
39532676 AGTAGCCTTCACTTAGCACCACACATGTAACCATAGTTTAC
62 AGTAGCCTTCACTTAGCACCACACATGTAACCATAGTTTAC
*
39532717 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTGCTCAAAAGTTCTCGGTACACATAGTA
1 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTGCTCAAAAGTTCTCGATACACATAGTA
39532782 GCCTTCACTTAGCACCACACATGTAACCATAGTTTAC
66 GCCTTCACTTAGCACCACACATGTAACCATAGTTTAC
39532819 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG
39532858 TTCATCGATA
Statistics
Matches: 211, Mismatches: 18, Indels: 24
0.83 0.07 0.09
Matches are distributed among these distances:
99 34 0.16
100 5 0.02
101 40 0.19
102 127 0.60
103 5 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (102 bp):
CGATACACGTAGTAGCTTTCACACAGTACTACACACGTGCTCAAAAGTTCTCGATACACATAGTA
GCCTTCACTTAGCACCACACATGTAACCATAGTTTAC
Found at i:39532853 original size:153 final size:150
Alignment explanation
Indices: 39532516--39532856 Score: 366
Period size: 153 Copynumber: 2.3 Consensus size: 150
39532506 TTTTATCATT
* * * *
39532516 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTACAGTTCACGTAGTAGC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAAGTTTACAGTACACGTAGTAGC
* * * * * *
39532581 CTTCACATAGTCCTACACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACATAGTACTA
66 CTTCACACAGTACTACACACGTGATCAAGTTCTACGGCTCACATAGTAGCCTTCACATAGCACCA
* *
39532646 CATACGTGACCAAAGCTTTC
131 CACACGTAACCAAAGCTTTC
* * * * * *
39532666 CGATATC-CATAGTAGCCTTCACTTAGCACCACACATGTAACCATAGTTTACCGATACACGTAGT
1 CGATA-CACGTAGTAGCCTTCACATAGTACTACACACGTAACCA-AGTTTACAG-TACACGTAGT
* * *
39532730 AGCTTTCACACAGTACTACACACGTGCTCAAAAGTTCT-CGG-TACACATAGTAGCCTTCACTTA
63 AGCCTTCACACAGTACTACACACGTGATC--AAGTTCTACGGCT-CACATAGTAGCCTTCACATA
* *
39532793 GCACCACACATGTAACCATAG-TTTAC
125 GCACCACACACGTAACCAAAGCTTT-C
* *
39532819 CGATACACGTAGTAGCTTTCACACAGTACTACACACGT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGT
39532857 GTTCATCGAT
Statistics
Matches: 153, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
150 34 0.22
151 8 0.05
152 39 0.25
153 66 0.43
154 6 0.04
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (150 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAAGTTTACAGTACACGTAGTAGC
CTTCACACAGTACTACACACGTGATCAAGTTCTACGGCTCACATAGTAGCCTTCACATAGCACCA
CACACGTAACCAAAGCTTTC
Found at i:39539256 original size:51 final size:51
Alignment explanation
Indices: 39539042--39539485 Score: 354
Period size: 51 Copynumber: 8.8 Consensus size: 51
39539032 TTTCATCATT
* * *
39539042 CGATACACGTAGTGGCCTTCACATAGTACTACACACGTGATC--AGTTTTAT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTAC
* * *
39539092 AG-TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTAC
* * *
39539142 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTT-C
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTAC
* * * * * * *
39539192 CGGTATC-CATAGTAGCCTTCACTTAGTACCACACATGTAACCATAGTTTAC
1 CGATA-CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTAC
* * **
39539243 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAACTT-C
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGTTTAC
* * * * * *
39539293 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
1 -CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTTAC
* **
39539345 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTT-C
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTAC
* * * * * * * *
39539395 TCGGTATACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TTTAG
1 -CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTTAC
* * **
39539447 CGATTCACGTAGTAGCCTTCACACAACACTACACACGTG
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
39539486 TTCATCGATA
Statistics
Matches: 313, Mismatches: 65, Indels: 31
0.77 0.16 0.08
Matches are distributed among these distances:
49 37 0.12
50 54 0.17
51 218 0.70
52 4 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (51 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTAC
Found at i:39539273 original size:102 final size:101
Alignment explanation
Indices: 39539042--39539485 Score: 508
Period size: 102 Copynumber: 4.4 Consensus size: 101
39539032 TTTCATCATT
* * * *** * * *
39539042 CGATACACGTAGTGGCCTTCACATAGTACTACACACGTGATC-AGTTTTAT-AGT-TCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTATC-CATAGT
* * *
39539104 AGCCTTCACATAGTACTACACACGTGATCA-AGTTTTAC
65 AGCCTTCACTTAGTACTACACATGTGACCATA--TTTAC
* * * * *
39539142 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTT-TCCGGTATCCATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCT-CGGTATCCATAGT
* *
39539205 AGCCTTCACTTAGTACCACACATGTAACCATAGTTTAC
65 AGCCTTCACTTAGTACTACACATGTGACCATA-TTTAC
*
39539243 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAAACTTCTCGGTA-CACATAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAACTTCTCGGTATC-CATAG
*
39539306 TAGCCTTCACTTAGTACTACACATGTGACCATTATTTAT
64 TAGCCTTCACTTAGTACTACACATGTGACCA-TATTTAC
* *
39539345 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTATACATTGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTATCCATAGTA
*
39539410 GCCTTCACTTAGTACTACACATGTGACCATCATTTAG
66 GCCTTCACTTAGTACTACACATGTGACCAT-ATTTAC
* **
39539447 CGATTCACGTAGTAGCCTTCACACAACACTACACACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
39539486 TTCATCGATA
Statistics
Matches: 299, Mismatches: 32, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
99 35 0.12
100 5 0.02
101 42 0.14
102 213 0.71
103 4 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTATCCATAGTA
GCCTTCACTTAGTACTACACATGTGACCATATTTAC
Found at i:39548082 original size:74 final size:76
Alignment explanation
Indices: 39547961--39548122 Score: 199
Period size: 74 Copynumber: 2.2 Consensus size: 76
39547951 AAAATTATAT
* *
39547961 CAAAATAAAATCTATTAAACCGTAGGAATAACTCCCGAAATAGATTTTATTTAATTTAA-TTCT-
1 CAAAATAAAATCTATTAAACCGTAGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTC
*
39548024 A-ATTTGGAAA
66 ATATTTGAAAA
* *
39548034 CAAAATAAAATCTTGTTAAACAACG-A-GAATAAATCCCGAAACATATTTTATTTAATTTAATTT
1 CAAAATAAAATC-TATTAAAC--CGTAGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTT
*
39548097 CTCATTTTTGAAAA
63 CTCATATTTGAAAA
*
39548111 CAAAATCAAATC
1 CAAAATAAAATC
39548123 AAATAAATCT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
73 12 0.16
74 38 0.50
75 5 0.07
76 3 0.04
77 18 0.24
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (76 bp):
CAAAATAAAATCTATTAAACCGTAGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTC
ATATTTGAAAA
Found at i:39548246 original size:86 final size:85
Alignment explanation
Indices: 39548060--39548258 Score: 204
Period size: 86 Copynumber: 2.3 Consensus size: 85
39548050 TAAACAACGA
* * *
39548060 GAATAAATCCCGAAACATATTTTATTTAATTTAATTTCTCATTTTTGAAAACAAAATCAAATCAA
1 GAATCAATCCCGAAACAGATTTTATTTAAATTAATTTCTCATTTTTGAAAACAAAATCAAATCAA
* *
39548125 ATAAATCTTACTAAACGGCGG
66 ATAAATATTA-TAAACGGCAG
** * * ** *
39548146 GAA-CAAATTTCGAAATAGATTTTATTTAAATTAATTTCTCGTTTTTGGCAACAAAATCAAAATG
1 GAATC-AATCCCGAAACAGATTTTATTTAAATTAATTTCTCATTTTTGAAAACAAAATC-AAATC
* * *
39548210 TAATAAATATGT-TGAATGGCAG
64 AAATAAATAT-TATAAACGGCAG
*
39548232 GAATCAATCCCGAAACAGGTTTTATTT
1 GAATCAATCCCGAAACAGATTTTATTT
39548259 TACTCATTTT
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
86 76 0.84
87 13 0.14
88 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (85 bp):
GAATCAATCCCGAAACAGATTTTATTTAAATTAATTTCTCATTTTTGAAAACAAAATCAAATCAA
ATAAATATTATAAACGGCAG
Found at i:39548317 original size:79 final size:79
Alignment explanation
Indices: 39548211--39548603 Score: 440
Period size: 79 Copynumber: 5.0 Consensus size: 79
39548201 ATCAAAATGT
* *
39548211 AATAAATAT-GTTGAATGGCAGGAATCAATCCCGAAACAGGTTTTATTTTACTCATTTTTGGAAA
1 AATAAAT-TCGTTGAACGGCGGGAATCAATCCCGAAACAGGTTTTATTTTACTCATTTTTGGAAA
*
39548275 TAAAGCAAAATTTGA
65 TAAAACAAAATTTGA
*
39548290 AATAAATTCGTTGAACGGCGGGAATCAATCCCGAAA-TGGATTTTATTTTACTCATTTTTGGAAA
1 AATAAATTCGTTGAACGGCGGGAATCAATCCCGAAACAGG-TTTTATTTTACTCATTTTTGGAAA
*
39548354 TAAAATC-AAATTTGG
65 TAAAA-CAAAATTTGA
* * *
39548369 AATAAAATT-GTTGAACAGCGAGG-ATCAATCTCGAAA-AGGATTTTATTTT-CTTCATTTTTGA
1 AAT-AAATTCGTTGAACGGCG-GGAATCAATCCCGAAACAGG-TTTTATTTTAC-TCATTTTTGG
* *
39548430 AAATAAAATAAAATTTGG
62 AAATAAAACAAAATTTGA
* * * * * * *
39548448 AATAAAATCATTGAACAGCGGGAATCAATCTCGAAACAGATTTTATTTTACTCGTTTTCGGAAAT
1 AATAAATTCGTTGAACGGCGGGAATCAATCCCGAAACAGGTTTTATTTTACTCATTTTTGGAAAT
* *
39548513 AAAACCAAATTTCA
66 AAAACAAAATTTGA
* * * ** *
39548527 AATAAAATCGTTGAATGGCGGGAATCAATCCCGAAACAGATTTTATTTTACTTGTTTTTGGAAAC
1 AATAAATTCGTTGAACGGCGGGAATCAATCCCGAAACAGGTTTTATTTTACTCATTTTTGGAAAT
*
39548592 AAATCAAAATTT
66 AAAACAAAATTT
39548604 TGGAAGAGAA
Statistics
Matches: 274, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
78 10 0.04
79 253 0.92
80 11 0.04
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (79 bp):
AATAAATTCGTTGAACGGCGGGAATCAATCCCGAAACAGGTTTTATTTTACTCATTTTTGGAAAT
AAAACAAAATTTGA
Found at i:39548404 original size:158 final size:158
Alignment explanation
Indices: 39548187--39548654 Score: 536
Period size: 158 Copynumber: 3.0 Consensus size: 158
39548177 TAATTTCTCG
* * * *
39548187 TTTTTGGCAACAAAATCAAA-ATGTAAT-AAATATGTTGAATGGC-AGGAATCAATCCCGAAACA
1 TTTTTGGAAATAAAATCAAATTTGAAATAAAAT-TGTTGAATGGCGAGGAATCAATCCCGAAACA
* * *
39548249 GGTTTTATTTTACTCATTTTTGGAAATAAAGCAAAATTTGAAATAAATTCGTTGAACGGCGGGAA
65 GGTTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAA-TCGTTGAACAGCGGGAA
*
39548314 TCAATCCCGAAATGGATTTTATTTTACTCA
129 TCAATCCCGAAACGGATTTTATTTTACTCA
* ** *
39548344 TTTTTGGAAATAAAATCAAATTTGGAATAAAATTGTTGAACAGCGAGG-ATCAATCTCGAAA-AG
1 TTTTTGGAAATAAAATCAAATTTGAAATAAAATTGTTGAATGGCGAGGAATCAATCCCGAAACAG
* * *
39548407 GATTTTATTTT-CTTCATTTTTGAAAATAAAATAAAATTTGGAATAAAATCATTGAACAGCGGGA
66 G-TTTTATTTTAC-TCATTTTTGGAAATAAAACAAAATTTGGAAT-AAATCGTTGAACAGCGGGA
* * *
39548471 ATCAATCTCGAAACAGATTTTATTTTACTCG
128 ATCAATCCCGAAACGGATTTTATTTTACTCA
* * * *
39548502 TTTTCGGAAATAAAACCAAATTTCAAATAAAATCGTTGAATGGCG-GGAATCAATCCCGAAACAG
1 TTTTTGGAAATAAAATCAAATTTGAAATAAAATTGTTGAATGGCGAGGAATCAATCCCGAAACAG
* ** * * * ** *
39548566 ATTTTATTTTACTTGTTTTTGGAAACAAATCAAAATTTTGGAAGAGAATCGTTGAACAGTAGGAG
66 GTTTTATTTTACTCATTTTTGGAAATAAAACAAAA-TTTGGAATA-AATCGTTGAACAGCGGGAA
*
39548631 TCAATCCTGAAACGGATTTTATTT
129 TCAATCCCGAAACGGATTTTATTT
39548655 CTCTTTAATT
Statistics
Matches: 260, Mismatches: 40, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
157 24 0.09
158 180 0.69
159 56 0.22
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (158 bp):
TTTTTGGAAATAAAATCAAATTTGAAATAAAATTGTTGAATGGCGAGGAATCAATCCCGAAACAG
GTTTTATTTTACTCATTTTTGGAAATAAAACAAAATTTGGAATAAATCGTTGAACAGCGGGAATC
AATCCCGAAACGGATTTTATTTTACTCA
Found at i:39548494 original size:237 final size:239
Alignment explanation
Indices: 39548231--39548659 Score: 625
Period size: 237 Copynumber: 1.8 Consensus size: 239
39548221 TTGAATGGCA
* * * *
39548231 GGAATCAATCCCGAAACAGGTTTTATTTTACTCATTTTTGGAAATAAAGCAAAATTTGAAATAAA
1 GGAATCAATCCCGAAACAGATTTTATTTTACTCATTTTCGGAAATAAAACAAAATTTCAAATAAA
* **
39548296 TTCGTTGAACGGCGGGAATCAATCCCGAAATGGATTTTATTTTACTCATTTTTGGAAATAAAATC
66 ATCGTTGAACGGCGGGAATCAATCCCGAAACAGATTTTATTTTACTCATTTTTGGAAA-AAAATC
* *
39548361 -AAA-TTTGGAATAAAATTGTTGAACAGCGAGGA-TCAAT-CTCGAAAAGGATTTTATTT-TCTT
130 AAAATTTTGGAAGAAAATCGTTGAACAG-GAGGAGTCAATCCT-GAAAAGGATTTTATTTCTCTT
39548421 CATTTTTGAAAATAAAATAAAATTTGGAATAAAATCATTGAACAGCG
193 CATTTTTGAAAATAAAATAAAATTTGGAATAAAATCATTGAACAGCG
* * *
39548468 GGAATCAATCTCGAAACAGATTTTATTTTACTCGTTTTCGGAAATAAAACCAAATTTCAAATAAA
1 GGAATCAATCCCGAAACAGATTTTATTTTACTCATTTTCGGAAATAAAACAAAATTTCAAATAAA
* ** *
39548533 ATCGTTGAATGGCGGGAATCAATCCCGAAACAGATTTTATTTTACTTGTTTTTGGAAACAAATCA
66 ATCGTTGAACGGCGGGAATCAATCCCGAAACAGATTTTATTTTACTCATTTTTGGAAAAAAATCA
* * *
39548598 AAATTTTGGAAGAGAATCGTTGAACAGTAGGAGTCAATCCTGAAACGGATTTTATTTCTCTT
131 AAATTTTGGAAGAAAATCGTTGAACAGGAGGAGTCAATCCTGAAAAGGATTTTATTTCTCTT
39548660 TAATTTCTCG
Statistics
Matches: 168, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
236 5 0.03
237 117 0.70
238 40 0.24
239 6 0.04
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (239 bp):
GGAATCAATCCCGAAACAGATTTTATTTTACTCATTTTCGGAAATAAAACAAAATTTCAAATAAA
ATCGTTGAACGGCGGGAATCAATCCCGAAACAGATTTTATTTTACTCATTTTTGGAAAAAAATCA
AAATTTTGGAAGAAAATCGTTGAACAGGAGGAGTCAATCCTGAAAAGGATTTTATTTCTCTTCAT
TTTTGAAAATAAAATAAAATTTGGAATAAAATCATTGAACAGCG
Found at i:39548751 original size:90 final size:89
Alignment explanation
Indices: 39548641--39548811 Score: 211
Period size: 90 Copynumber: 1.9 Consensus size: 89
39548631 TCAATCCTGA
* * *
39548641 AACGGATTTTATTTCTCTTTAATTT-CTCGTTTGAAAATAAAACAAATTAATAGAATAAAATCCA
1 AACGGATTTTATTACTCTTTAATTTCCT-ATTTGAAAATAAAACAAA-AAATAGAATAAAATCCA
*
39548705 TTGAATGGCGAGAATAAAATCTGTTG
64 TTGAACGGCGAGAATAAAATCTGTTG
* * * * *
39548731 AACGGATTTTAATTAC-CTTTAATTTCCTATTTGGAAATAAAATAAAAAATGGAATAAGATCCGT
1 AACGGATTTT-ATTACTCTTTAATTTCCTATTTGAAAATAAAACAAAAAATAGAATAAAATCCAT
*
39548795 TGAACGGCGGGAATAAA
65 TGAACGGCGAGAATAAA
39548812 TCCCAAATCG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
89 29 0.42
90 34 0.49
91 6 0.09
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (89 bp):
AACGGATTTTATTACTCTTTAATTTCCTATTTGAAAATAAAACAAAAAATAGAATAAAATCCATT
GAACGGCGAGAATAAAATCTGTTG
Found at i:39551020 original size:33 final size:33
Alignment explanation
Indices: 39550922--39551021 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
39550912 TCAACATAAG
* *
39550922 TGATTGGAACATCTATCAAGGCAGCTTCATCAA
1 TGATTGGAACATCTATCGAGGCAGCTTCATCAT
* *
39550955 TGATTGCAACATCTATCGGGGCAGCTTCATCAT
1 TGATTGGAACATCTATCGAGGCAGCTTCATCAT
* *
39550988 TGATTGGAACAACTATTGAGGCAGCTTCATCAT
1 TGATTGGAACATCTATCGAGGCAGCTTCATCAT
39551021 T
1 T
39551022 CTGTTCGACT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (33 bp):
TGATTGGAACATCTATCGAGGCAGCTTCATCAT
Found at i:39560310 original size:19 final size:21
Alignment explanation
Indices: 39560286--39560324 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
39560276 TTTTAAAGTA
39560286 ATATTGATAA-AA-TTAAAAC
1 ATATTGATAATAATTTAAAAC
39560305 ATATTGATAATAATTTAAAA
1 ATATTGATAATAATTTAAAA
39560325 AAATAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATTGATAATAATTTAAAAC
Found at i:39560885 original size:101 final size:101
Alignment explanation
Indices: 39560687--39560881 Score: 356
Period size: 101 Copynumber: 1.9 Consensus size: 101
39560677 TTAAAAAAAC
39560687 CATCAAAATCAAATGTTACAAATAACGTTAGATTTTATAATATACGAAAATAGGATTAATTATAA
1 CATCAAAATCAAATGTTACAAATAACGTTAGATTTTATAATATACGAAAATAGGATTAATTATAA
39560752 TTAAAAAATGTTATTGATTTCTTTTTTTTTAAACTA
66 TTAAAAAATGTTATTGATTTCTTTTTTTTTAAACTA
* * *
39560788 CATCAAAATCAAATGTTACAAATCATGTTAGATTTTATAATATATGAAAATAGGATTAATTATAA
1 CATCAAAATCAAATGTTACAAATAACGTTAGATTTTATAATATACGAAAATAGGATTAATTATAA
39560853 -TAAAAAATGTTATTGATTTCTTTTTTTTT
66 TTAAAAAATGTTATTGATTTCTTTTTTTTT
39560882 TAAAACTAAA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
100 29 0.32
101 62 0.68
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (101 bp):
CATCAAAATCAAATGTTACAAATAACGTTAGATTTTATAATATACGAAAATAGGATTAATTATAA
TTAAAAAATGTTATTGATTTCTTTTTTTTTAAACTA
Found at i:39562515 original size:131 final size:131
Alignment explanation
Indices: 39562274--39562634 Score: 553
Period size: 131 Copynumber: 2.8 Consensus size: 131
39562264 TGCATCACCT
* ** *
39562274 GGGAAG-TAAGATTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTATAGTT
1 GGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
* ** *
39562338 TTCAACCTACTCCACTGCTGCACAAGGAGATAAGGTTTGTGACTTAAATCTGCTTCCCTACTCCT
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAAGGTTTGTGACTTAAATCTGCTTCCCTACTCCT
39562403 A
131 A
* * * *
39562404 GGGAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTATTGCTTAAGGAGATAAGATCTGCAATT
1 GGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
*
39562469 TTCAACCTACTCCACTACTGCTTAGGGAGATAAGGTTTGTGGCTTAAATCTGCTTCCCTACTCCT
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAAGGTTTGTGACTTAAATCTGCTTCCCTACTCCT
*
39562534 G
131 A
* *
39562535 GGGAAGATAAGATTCGTTGTCTTCGATCTGCTCCACCACTGCTTAGGGAGATAAGATCTGCAATT
1 GGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
* *
39562600 TTCAACCTACTCCACTAATGCTTAGAGAGATAAGG
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAAGG
39562635 CTAGTCTTCA
Statistics
Matches: 208, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
130 6 0.03
131 202 0.97
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (131 bp):
GGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
TTCAACCTACTCCACTACTGCTTAGGGAGATAAGGTTTGTGACTTAAATCTGCTTCCCTACTCCT
A
Found at i:39562587 original size:44 final size:43
Alignment explanation
Indices: 39562280--39563105 Score: 283
Period size: 44 Copynumber: 19.1 Consensus size: 43
39562270 ACCTGGGAAG
* *
39562280 TAAGATTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGAGA
1 TAAGATTCG-TGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * * * * ** *
39562324 TAAGA-TCTATAGTTTTCAACCTACTCCACTGCTGCACAAGGAGA
1 TAAGATTC-GT-GTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * * * *
39562368 TAAGGTTTGTGACTTAAATCTGCTTCC-CTACT-CCTAGGGAAGA
1 TAAGATTCGTGTCTTCAATCTGC-TCCACTACTGCTTAGGG-AGA
* * * * *
39562411 TAAGATTCGCCGTCTTCGATCTGTTCCACTATTGCTTAAGGAGA
1 TAAGATTCG-TGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * *
39562455 TAAGA-TC-TGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
1 TAAGATTCGTG---TCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * * * * *
39562499 TAAGGTTTGTGGCTTAAATCTGCTTCC-CTACT-CCTGGGGAAGA
1 TAAGATTCGTGTCTTCAATCTGC-TCCACTACTGCTTAGGG-AGA
* *
39562542 TAAGATTCGTTGTCTTCGATCTGCTCCACCACTGCTTAGGGAGA
1 TAAGATTCG-TGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * * * *
39562586 TAAGA-TC-TGCAATTTTCAACCTACTCCACTAATGCTTAGAGAGA
1 TAAGATTCGTG---TCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * ** * ** *
39562630 TAAG--GC-TAGTCTTCAACCTATTCCACTGA-TG-TCCAAAGTGA
1 TAAGATTCGT-GTCTTCAATCTGCTCCACT-ACTGCT-TAGGGAGA
* * * * * *
39562671 TAGGGTTTGTGGCTTAAATCTGCTTCC-CTACT-CTTGGGGAAGA
1 TAAGATTCGTGTCTTCAATCTGC-TCCACTACTGCTTAGGG-AGA
*
39562714 TAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TAAGATTCGT-GTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * * * *
39562758 TAAGATCTACAAT-T-TTTAACCTACTCCACTACTACTTAGGGAGA
1 TAAGAT-T-C-GTGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * ** * * * *
39562802 TAAG--GC-TAGTCTTCAACCTATTCCACTGCTG-TCCAGAGCGA
1 TAAGATTCGT-GTCTTCAATCTGCTCCACTACTGCT-TAGGGAGA
* * * * * * * *
39562843 TAGGGTTTGTGGCTTAAATCTGCTTCC-CTACTCCTGAGGAAGA
1 TAAGATTCGTGTCTTCAATCTGC-TCCACTACTGCTTAGGGAGA
** *
39562886 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TAAGATTCG-TGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * * *
39562930 TAAGA-TCTGTAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
1 TAAGATTC-GT-GTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * * * *
39562974 TAAG--GC-TGGCTTAAATCTGCTTCC-CTACT-CCTGGGGAAGA
1 TAAGATTCGTGTCTTCAATCTGC-TCCACTACTGCTTAGGG-AGA
* * ** *
39563014 TAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGA
1 TAAGATTCG-TGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* * *
39563058 TAAGA-TC-TGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
1 TAAGATTCGTG---TCTTCAATCTGCTCCACTACTGCTTAGGGAGA
39563102 TAAG
1 TAAG
39563106 GCTAGTCTTC
Statistics
Matches: 563, Mismatches: 158, Indels: 122
0.67 0.19 0.14
Matches are distributed among these distances:
38 1 0.00
39 5 0.01
40 23 0.04
41 58 0.10
42 12 0.02
43 115 0.20
44 320 0.57
45 25 0.04
46 3 0.01
47 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
TAAGATTCGTGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
Found at i:39562695 original size:172 final size:172
Alignment explanation
Indices: 39562497--39562980 Score: 824
Period size: 172 Copynumber: 2.8 Consensus size: 172
39562487 TGCTTAGGGA
* *
39562497 GATAAGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGTTGTCTTCGAT
1 GATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGAT
* * *
39562562 CTGCTCCACCACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTAATGCTTAGAG
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGG
*
39562627 AGATAAGGCTAGTCTTCAACCTATTCCACTGATGTCCAAAGT
131 AGATAAGGCTAGTCTTCAACCTATTCCACTGATGTCCAAAGC
*
39562669 GATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCGTCGTCTTCGAT
1 GATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGAT
* * *
39562734 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTTAACCTACTCCACTACTACTTAGGG
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGG
* *
39562799 AGATAAGGCTAGTCTTCAACCTATTCCACTGCTGTCCAGAGC
131 AGATAAGGCTAGTCTTCAACCTATTCCACTGATGTCCAAAGC
* * *
39562841 GATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGAGGAAGATAAGATTCGCCATCTTCGAT
1 GATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGAT
*
39562906 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTTAGGG
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGG
39562971 AGATAAGGCT
131 AGATAAGGCT
39562981 GGCTTAAATC
Statistics
Matches: 292, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 292 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (172 bp):
GATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGAT
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGG
AGATAAGGCTAGTCTTCAACCTATTCCACTGATGTCCAAAGC
Found at i:39562984 original size:128 final size:128
Alignment explanation
Indices: 39562852--39563108 Score: 460
Period size: 128 Copynumber: 2.0 Consensus size: 128
39562842 ATAGGGTTTG
*
39562852 TGGCTTAAATCTGCTTCCCTACTCCTGAGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTA
1 TGGCTTAAATCTGCTTCCCTACTCCTGAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTA
*
39562917 CTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGC
66 CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGC
* * * *
39562980 TGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTTGATCTACTCCACTA
1 TGGCTTAAATCTGCTTCCCTACTCCTGAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTA
39563045 CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGC
66 CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGC
39563108 T
1 T
39563109 AGTCTTCACT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (128 bp):
TGGCTTAAATCTGCTTCCCTACTCCTGAGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTA
CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGC
Found at i:39563061 original size:172 final size:170
Alignment explanation
Indices: 39562469--39563105 Score: 667
Period size: 172 Copynumber: 3.7 Consensus size: 170
39562459 ATCTGCAATT
* * * * * * *
39562469 TTCAACCTACTCCACTACTGCTTAGGGAGATAAGGTTTGTGGCTTAAATCTGCTTCCCTACTCCT
1 TTCAACCTATTCC-CTACTCCTGAAGAAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCTT
* *** *
39562534 GGGGAAGATAAGATTCGTTGTCTTCGATCTGCTCCACCACTGCTTAGGGAGATAAGATCTGCAAT
65 AGGG-AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
* *
39562599 TTTCAACCTACTCCACTAATGCTTAGAGAGATAAGGCTAGTC
129 TTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTAGTC
* * *
39562641 TTCAACCTATTCCACTGATGTCC-AAAG-TGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTC
1 TTCAACCTATTCC-CT-A-CTCCTGAAGAAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTC
* * * *
39562704 TTGGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
63 TTAGGG-AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* *
39562769 ATTTTTAACCTACTCCACTACTACTTAGGGAGATAAGGCTAGTC
127 ATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTAGTC
* * *
39562813 TTCAACCTATT-CC-ACTGCTGTCCAGAGCGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTC
1 TTCAACCTATTCCCTACTCCTG--AAGA-AGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACT-
* * *
39562876 CTGAGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
62 CTTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
*
39562941 ATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCT-GGC
127 ATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTAGTC
* * * ** * * * * ** *
39562984 TTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTTGATCTAC-TCCACTACTG
1 TTCAACCT-ATTCCCTACTCCTGAAGAAGATAGGGTTTG-TGGCTTAAATCTGCTTCC-CTACT-
* * * * *
39563048 CTTAGGGAGATAAGA-TCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAAG
62 CTTAGGGAGATAAGATTC-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
39563106 GCTAGTCTTC
Statistics
Matches: 399, Mismatches: 52, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
167 2 0.01
168 1 0.00
170 3 0.01
171 23 0.06
172 353 0.88
173 9 0.02
174 8 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (170 bp):
TTCAACCTATTCCCTACTCCTGAAGAAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCTTA
GGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
TCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTAGTC
Found at i:39567465 original size:33 final size:32
Alignment explanation
Indices: 39567423--39567529 Score: 125
Period size: 33 Copynumber: 3.4 Consensus size: 32
39567413 CGGTGGATTT
39567423 AGCACTTAGCAACCACCAGTGATTCGGGGAATC
1 AGCACTTAGCAACCACCA-TGATTCGGGGAATC
** *
39567456 AGCACTTAGCAATAACCAATGAGTCGGGGAATC
1 AGCACTTAGCAACCACC-ATGATTCGGGGAATC
*
39567489 AGCACTTAGCAACC-CC----TTGGGGGAATC
1 AGCACTTAGCAACCACCATGATTCGGGGAATC
39567516 AGCACTTAGCAACC
1 AGCACTTAGCAACC
39567530 CCCTTCACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
27 23 0.35
32 2 0.03
33 40 0.61
34 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (32 bp):
AGCACTTAGCAACCACCATGATTCGGGGAATC
Found at i:39567626 original size:102 final size:102
Alignment explanation
Indices: 39567450--39567636 Score: 302
Period size: 102 Copynumber: 1.8 Consensus size: 102
39567440 AGTGATTCGG
*
39567450 GGAATCAGCACTTAGCAATAACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAT
1 GGAATCAGCACTTAGCAACAACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAT
*
39567515 CAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
66 CAACACTTAGCAACCCCCTTCACATTTAAAATACGGT
* * * * * *
39567552 GGAATTAGCACTTAGCAACCACCAATGATTCGGGGAATCAGTACTTAGTAACCCTTTGGGGGAAT
1 GGAATCAGCACTTAGCAACAACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAT
39567617 CAACACTTAGCAACCCCCTT
66 CAACACTTAGCAACCCCCTT
39567637 TATATTCAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 77 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (102 bp):
GGAATCAGCACTTAGCAACAACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAT
CAACACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:39580889 original size:24 final size:24
Alignment explanation
Indices: 39580855--39580900 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
39580845 ACAGTTACTT
*
39580855 AGCTTGAAAGAGCTTACCGATTAC
1 AGCTTGAAAGAGCATACCGATTAC
*
39580879 AGCTTGTAAGAGCATACCGATT
1 AGCTTGAAAGAGCATACCGATT
39580901 TAAGAGCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (24 bp):
AGCTTGAAAGAGCATACCGATTAC
Found at i:39581116 original size:16 final size:17
Alignment explanation
Indices: 39581095--39581127 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
39581085 CCTGATATAT
39581095 TGATACATGTA-ATGAA
1 TGATACATGTATATGAA
39581111 TGATACATGTATATGAA
1 TGATACATGTATATGAA
39581128 ATATGAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (17 bp):
TGATACATGTATATGAA
Found at i:39588556 original size:25 final size:24
Alignment explanation
Indices: 39588500--39588558 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
39588490 AGGGTTACCT
39588500 ATTTCAGCTCGTGAGAGCTTACTG
1 ATTTCAGCTCGTGAGAGCTTACTG
39588524 ATTCTCAGCTCGT-ATGAGCTTAAC-G
1 ATT-TCAGCTCGTGA-GAGCTT-ACTG
39588549 ATATTCAGCT
1 AT-TTCAGCT
39588559 TGCAAGAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
24 4 0.13
25 24 0.77
26 3 0.10
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (24 bp):
ATTTCAGCTCGTGAGAGCTTACTG
Found at i:39593254 original size:12 final size:12
Alignment explanation
Indices: 39593237--39593262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39593227 AATTTGAGTT
39593237 TTTGACCAATTA
1 TTTGACCAATTA
39593249 TTTGACCAATTA
1 TTTGACCAATTA
39593261 TT
1 TT
39593263 AAAGAGATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTGACCAATTA
Found at i:39595792 original size:23 final size:24
Alignment explanation
Indices: 39595743--39595791 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
39595733 CAAAATTTGT
39595743 AATAGAAATGTTCCTTGAAAAAAA
1 AATAGAAATGTTCCTTGAAAAAAA
39595767 AATAGAAATGTTCCTTGAAAAAAA
1 AATAGAAATGTTCCTTGAAAAAAA
39595791 A
1 A
39595792 TGTGAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
AATAGAAATGTTCCTTGAAAAAAA
Found at i:39596192 original size:28 final size:28
Alignment explanation
Indices: 39596106--39596195 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
39596096 TCTTGGGTTC
39596106 AAGGCCCAAATTGTTACTGTATTGGGCT
1 AAGGCCCAAATTGTTACTGTATTGGGCT
* *
39596134 AACGCCCACATTGTTACTGTATTGGGCT
1 AAGGCCCAAATTGTTACTGTATTGGGCT
* * *
39596162 AAGGCCCATATTGCTATTGTATTGGGCT
1 AAGGCCCAAATTGTTACTGTATTGGGCT
39596190 AAGGCC
1 AAGGCC
39596196 TACACTATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (28 bp):
AAGGCCCAAATTGTTACTGTATTGGGCT
Found at i:39596228 original size:61 final size:56
Alignment explanation
Indices: 39596106--39596228 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 56
39596096 TCTTGGGTTC
* * * *
39596106 AAGGCCCAAATTGTTACTGTATTGGGCTAACGCCCACATTGTTACTGTATTGGGCT
1 AAGGCCCAAATTGCTACTGTATTGGGCTAACGCCCACATTCTTACTGAATAGGGCT
* * *
39596162 AAGGCCCATATTGCTATTGTATTGGGCTAAGGCCTACACTATATTCTTACTGAATAGGGCT
1 AAGGCCCAAATTGCTACTGTATTGGGCTAACGCC--CAC---ATTCTTACTGAATAGGGCT
*
39596223 CAGGCC
1 AAGGCC
39596229 TAGACTGTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
56 30 0.56
58 3 0.06
61 21 0.39
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (56 bp):
AAGGCCCAAATTGCTACTGTATTGGGCTAACGCCCACATTCTTACTGAATAGGGCT
Found at i:39597476 original size:28 final size:28
Alignment explanation
Indices: 39597430--39597542 Score: 174
Period size: 28 Copynumber: 4.0 Consensus size: 28
39597420 GTGTATGAGA
* *
39597430 TATTGGGTTCAAGGTCCACATTGTTACTG
1 TATTGGGCT-AAGGCCCACATTGTTACTG
*
39597459 TATTGGGCTAAGGCCCACATTGTTACTA
1 TATTGGGCTAAGGCCCACATTGTTACTG
39597487 TATTGGGCTAAGGCCCACATTGTTACTG
1 TATTGGGCTAAGGCCCACATTGTTACTG
*
39597515 TATTGGGCTAAGGCCCACACTG-TACTG
1 TATTGGGCTAAGGCCCACATTGTTACTG
39597542 T
1 T
39597543 TACTGAATAG
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 6 0.08
28 65 0.82
29 8 0.10
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACATTGTTACTG
Found at i:39600793 original size:22 final size:21
Alignment explanation
Indices: 39600761--39600802 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
39600751 TTGGTATTTA
39600761 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
39600782 GGAATTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAAATGGTA
39600803 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:39602700 original size:15 final size:15
Alignment explanation
Indices: 39602672--39602708 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
39602662 TAAAAAATGC
*
39602672 ATAAGTTAGCATTTG
1 ATAAGATAGCATTTG
*
39602687 ATAAGATAGTATTTG
1 ATAAGATAGCATTTG
39602702 ATAAGAT
1 ATAAGAT
39602709 TTTGCATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (15 bp):
ATAAGATAGCATTTG
Found at i:39612626 original size:12 final size:12
Alignment explanation
Indices: 39612579--39612634 Score: 76
Period size: 12 Copynumber: 4.6 Consensus size: 12
39612569 ATCACGTGTA
*
39612579 ACAATTTCAATA
1 ACAATTTCAATC
*
39612591 ACTATTTCAATC
1 ACAATTTCAATC
39612603 ACAATTTCAATC
1 ACAATTTCAATC
*
39612615 TCAATTTCAATCC
1 ACAATTTCAAT-C
39612628 ACAATTT
1 ACAATTT
39612635 TAAATTTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
12 31 0.82
13 7 0.18
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (12 bp):
ACAATTTCAATC
Found at i:39612867 original size:23 final size:23
Alignment explanation
Indices: 39612801--39612867 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
39612791 CTGATCAATA
*
39612801 TACGACACAT-AAGTGCCTGAGG
1 TACGACACATAAAGTGCCTGATG
39612823 TACGACACATAAAGTGCCTGATG
1 TACGACACATAAAGTGCCTGATG
*
39612846 TACGGCACATAAAGTGCCTGAT
1 TACGACACATAAAGTGCCTGAT
39612868 CGGCAAAGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 10 0.24
23 32 0.76
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGATG
Found at i:39620077 original size:12 final size:12
Alignment explanation
Indices: 39620060--39620102 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
39620050 ATCACATGAA
39620060 ACAATTTCAATC
1 ACAATTTCAATC
39620072 ACAATTTCAAT-
1 ACAATTTCAATC
*
39620083 TCAATTTCAATCC
1 ACAATTTCAAT-C
39620096 ACAATTT
1 ACAATTT
39620103 TAAATTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 10 0.37
12 11 0.41
13 6 0.22
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (12 bp):
ACAATTTCAATC
Found at i:39620309 original size:23 final size:23
Alignment explanation
Indices: 39620272--39620332 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
39620262 ATCAATATAT
39620272 GACACAT-AAGTGCCTGAGGTAC
1 GACACATAAAGTGCCTGAGGTAC
*
39620294 GACACATAAAGTGCCTGATGTAC
1 GACACATAAAGTGCCTGAGGTAC
*
39620317 GGCACATAAAGTGCCT
1 GACACATAAAGTGCCT
39620333 AGTCAACGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 7 0.19
23 29 0.81
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
GACACATAAAGTGCCTGAGGTAC
Found at i:39621353 original size:10 final size:9
Alignment explanation
Indices: 39621327--39621366 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
39621317 CTTTCTTTCC
39621327 TTCTTTTAT
1 TTCTTTTAT
*
39621336 TTCATTTACT
1 TTCTTTTA-T
39621346 TTCTTTTAT
1 TTCTTTTAT
39621355 TTCATTTTAT
1 TTC-TTTTAT
39621365 TT
1 TT
39621367 TATTTACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 11 0.41
10 16 0.59
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (9 bp):
TTCTTTTAT
Found at i:39621371 original size:10 final size:10
Alignment explanation
Indices: 39621330--39621371 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
39621320 TCTTTCCTTC
39621330 TTTTATTTCA
1 TTTTATTTCA
39621340 -TTTACTTTC-
1 TTTTA-TTTCA
39621349 TTTTATTTCA
1 TTTTATTTCA
*
39621359 TTTTATTTTA
1 TTTTATTTCA
39621369 TTT
1 TTT
39621372 ACTTTATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATTTCA
Found at i:39623833 original size:43 final size:42
Alignment explanation
Indices: 39623772--39623913 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 42
39623762 TATCCATTAT
*
39623772 CGGTGGATTCAGCACTTAGCAACCCCTTTCACATTCAAAAATA
1 CGGTGGAATCAGCACTTAGCAACCCCTTTCACATTC-AAAATA
* * *
39623815 CGGTGGAATCAGCACTTAGCAA--CC--AC-CA-GC-GAAT-
1 CGGTGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAATA
* *
39623849 CGG-GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATA
1 CGGTGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAATA
*
39623890 CGGTGGGATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
39623914 GCCAATGATT
Statistics
Matches: 80, Mismatches: 10, Indels: 19
0.73 0.09 0.17
Matches are distributed among these distances:
33 18 0.22
34 3 0.04
35 5 0.06
37 2 0.03
38 4 0.05
39 1 0.01
40 2 0.03
41 5 0.06
42 19 0.24
43 21 0.26
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (42 bp):
CGGTGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAATA
Found at i:39623930 original size:75 final size:76
Alignment explanation
Indices: 39623780--39623950 Score: 254
Period size: 75 Copynumber: 2.3 Consensus size: 76
39623770 ATCGGTGGAT
*
39623780 TCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCACCAGC
1 TCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCACCAAC
*
39623845 GAATCGGGGAA
66 GAATCCGGGAA
* * * * *
39623856 TCAGCACTTAGCAACCCCTTTCACATT-TAAGATACGGTGGGATCAGCACTTAGCAACCGCCAAT
1 TCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCACCAAC
*
39623920 GATTCCGGGAA
66 GAATCCGGGAA
*
39623931 TCATCACTTAGCAACCCCTT
1 TCAGCACTTAGCAACCCCTT
39623951 GGGGGAATCA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 59 0.69
76 27 0.31
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (76 bp):
TCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAATCAGCACTTAGCAACCACCAAC
GAATCCGGGAA
Found at i:39624003 original size:102 final size:102
Alignment explanation
Indices: 39623850--39624052 Score: 327
Period size: 102 Copynumber: 2.0 Consensus size: 102
39623840 CCAGCGAATC
* * * *
39623850 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCG
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
39623915 CCAATGATTCCGG-GAATCATCACTTAGCAACCCCTTG
66 CCAATGAAT-CGGAGAATCAGCACTTAGCAACCCCTTG
39623952 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
39624017 CCAATGAATCGGAGAATTAGCACTTAGCAACCCCTT
66 CCAATGAATCGGAGAATCAGCACTTAGCAACCCCTT
39624053 TATATTCAAT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 3 0.03
102 90 0.97
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGAGAATCAGCACTTAGCAACCCCTTG
Found at i:39636875 original size:16 final size:16
Alignment explanation
Indices: 39636854--39636914 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
39636844 TTATATTTGA
39636854 AACTATAGACTGAGAC
1 AACTATAGACTGAGAC
* *
39636870 AACTATTGACT-ATGAAA
1 AACTATAGACTGA-G-AC
*
39636887 AACTATAGACTAAGAC
1 AACTATAGACTGAGAC
*
39636903 AACTACAGACTG
1 AACTATAGACTG
39636915 TGTAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 1 0.03
16 22 0.61
17 12 0.33
18 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (16 bp):
AACTATAGACTGAGAC
Found at i:39643630 original size:34 final size:34
Alignment explanation
Indices: 39643587--39643654 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
39643577 TCATTTTTGA
* *
39643587 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
39643620 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
39643655 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:39644291 original size:31 final size:31
Alignment explanation
Indices: 39644256--39644324 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
39644246 CAATACATAT
**
39644256 ATTCATATTTCTCAATACACATGTCGTAACA
1 ATTCATATTTCTCAATACACATCCCGTAACA
39644287 ATTCATATTTCTCAATACACATCCCGTAACA
1 ATTCATATTTCTCAATACACATCCCGTAACA
39644318 ATTCATA
1 ATTCATA
39644325 ATCATTTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (31 bp):
ATTCATATTTCTCAATACACATCCCGTAACA
Found at i:39653369 original size:27 final size:27
Alignment explanation
Indices: 39653330--39653477 Score: 185
Period size: 27 Copynumber: 5.5 Consensus size: 27
39653320 GTGAATTATA
*
39653330 GGTAAAATGACTGAAATACCCTTC-AAA
1 GGTAAAATGACTGAAATACCC-TCGAAG
*
39653357 GGTAAAATTACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
39653384 GGTAAAATGACCGAAATACCCTTGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
39653411 GGTAAAATAACAGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
*
39653438 GGTAAAATGA-TCGAAATACCC-CCATAG
1 GGTAAAATGACT-GAAATACCCTCGA-AG
39653465 GGTAAAATGACTG
1 GGTAAAATGACTG
39653478 TTATAGCCCT
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.04
27 101 0.95
28 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTCGAAG
Found at i:39653415 original size:54 final size:54
Alignment explanation
Indices: 39653330--39653458 Score: 204
Period size: 54 Copynumber: 2.4 Consensus size: 54
39653320 GTGAATTATA
* * *
39653330 GGTAAAATGACTGAAATACCCTTCAAAGGTAAAATTACTGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTTCAAAGGTAAAATAACAGAAATACCCTCGAAG
* *
39653384 GGTAAAATGACCGAAATACCCTTGAAGGGTAAAATAACAGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTTCAAAGGTAAAATAACAGAAATACCCTCGAAG
*
39653438 GGTAAAATGATCGAAATACCC
1 GGTAAAATGACCGAAATACCC
39653459 CCATAGGGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (54 bp):
GGTAAAATGACCGAAATACCCTTCAAAGGTAAAATAACAGAAATACCCTCGAAG
Found at i:39653846 original size:28 final size:28
Alignment explanation
Indices: 39653805--39653894 Score: 108
Period size: 28 Copynumber: 3.1 Consensus size: 28
39653795 ACTGCATTGT
*
39653805 ACTGATTACTGTATTGGGCTAAGGCTCAC
1 ACTG-TTACTGTATTGGGCTAAGGCACAC
*
39653834 ACTGTTACTGTATTGGGATAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGG--CACAC
* * *
39653864 ACTATTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCACAC
39653892 ACT
1 ACT
39653895 ATACTGCTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 25 0.47
29 4 0.08
30 24 0.45
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCACAC
Found at i:39653872 original size:30 final size:30
Alignment explanation
Indices: 39653809--39653893 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
39653799 CATTGTACTG
*
39653809 ATTACTGTATTGGGCTAAGG--CTCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
* *
39653837 GTTACTGTATTGGGATAAGGCCCACACACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
*
39653867 ATTACTGTAATGGGCTAAGGCCCACAC
1 ATTACTGTATTGGGCTAAGGCCCACAC
39653894 TATACTGCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 18 0.37
30 31 0.63
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (30 bp):
ATTACTGTATTGGGCTAAGGCCCACACACT
Found at i:39653915 original size:33 final size:34
Alignment explanation
Indices: 39653869--39653935 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
39653859 CACACACTAT
*
39653869 TACTGTAATGGGCTAAGGCCCACACTA-TACTGC
1 TACTGTAATGGGCTAAGGCCCAAACTATTACTGC
*
39653902 TACTG-AATAGGGCTCAGGCCCAAACTATTACTGC
1 TACTGTAAT-GGGCTAAGGCCCAAACTATTACTGC
39653936 ATGTTGTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 3 0.10
33 21 0.70
34 6 0.20
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (34 bp):
TACTGTAATGGGCTAAGGCCCAAACTATTACTGC
Found at i:39657863 original size:13 final size:13
Alignment explanation
Indices: 39657810--39657862 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
39657800 AGTTCTTCAT
39657810 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
39657823 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
39657836 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
39657849 TTCTTTTGAAAAG
1 TGCTTTTGAAAAG
39657862 T
1 T
39657863 TTGGTTTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:39665453 original size:20 final size:20
Alignment explanation
Indices: 39665430--39665467 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39665420 ATTTTAATCT
39665430 TTTCTTAGTTTTATCTTTTA
1 TTTCTTAGTTTTATCTTTTA
*
39665450 TTTCTTATTTTTATCTTT
1 TTTCTTAGTTTTATCTTT
39665468 GTTATTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.11, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTCTTAGTTTTATCTTTTA
Found at i:39665486 original size:19 final size:19
Alignment explanation
Indices: 39665462--39665501 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39665452 TCTTATTTTT
* *
39665462 ATCTTTGTTATTAATCTTA
1 ATCTTTATTATTAATATTA
*
39665481 ATCTTTATTTTTAATATTA
1 ATCTTTATTATTAATATTA
39665500 AT
1 AT
39665502 GTTAGTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (19 bp):
ATCTTTATTATTAATATTA
Found at i:39668204 original size:2 final size:2
Alignment explanation
Indices: 39668197--39668221 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39668187 CACATGTTAA
39668197 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
39668222 AAATGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:39672835 original size:620 final size:616
Alignment explanation
Indices: 39672046--39673848 Score: 2979
Period size: 620 Copynumber: 2.9 Consensus size: 616
39672036 AATTTTCTTG
* * *
39672046 TTGTTGTTACAAATATTAATAGATCATCACATAAATCTTCTTTTAGAATAGTTGATAATATAAAC
1 TTGTTGTTACAAATATT-ATAAATCATTACATAAATCTTCTTTTAGAATAGTTGATAATATAGAC
* * *
39672111 CATTTTTCTTCCT-TTTTTTCTTTTCATTTTTTATTTGTAAGTTATACTAAGATTGAGTTAATTT
65 AATTTTTCTTCTTCTTTTTTCTTTTCATTTTTTATTTATAAGTTATACTAAGATTGAGTTAATTT
* * * * *
39672175 AGAATAACAGCTTAATGTTGTCCTAAATATCTTCATAAAAAAATTGAAGTTGTTTACTGTCTAGA
130 GGAATAACAGCTCAATGTTGTCCTAAATATCTTGATAAAAAAATTGAATTTGTTTATTGTCTAGA
*
39672240 TTTCTTTTTCTTATATAAAAATATGAAACTAAGATGAAAATTATTTTGTAATGAAAATGCAAAAA
195 TTTCTTTTTCTTATATAAAAATATGAAACTAAGATAAAAATTATTTTGTAATGAAAATGCAAAAA
* * *
39672305 GATAAGTTAGCACAATTGTTCGTAGATAGAAGAGTACAATATTA-TTTTAAAGAAAAATCAAACA
260 TATAAGTTAGCACAATTGTTGGTAGATAGAAGAGTACAATATTATTTTTAAA-AACAA-CAAACA
* *
39672369 AAAAAAGTCACCAAACCCATCACATTACTTATACCTTTTTTTTTTTTACCAATTATTAGAGAGAT
323 AAAAAAGTCACCAAACCCATCACATTGCTTATACC--TTTTTTTTTTACCGATTATT-GAGAGAT
*
39672434 GCCTAAATAGGTTAGTGACAAAGACATACCTATTGAGGAAGAGGCCAAAATTTTTAGAAATATTA
385 GCCTAAATAGGTTAGTGACAAAGACATACCTATTGAGGAAGAGGCCAAAATTGTTAGAAATATTA
* *
39672499 CTATAATTGCAAGAAAATTTCCTTGTTTGGAAAATTTTAATAACCAAGAAGAATTATTTACTGTT
450 CCATAATTGCAAGAAAATTTCCTTGTTTGGAAAATTTTAATAGCCAAGAAGAATTATTTACTGTT
* *
39672564 GAATACCTTTCACAATGAAGTTCGCAATGGTGTTCTCCTACAATATATCTCGTTTATCAATGTTG
515 GAATACCTTTCACAATGAAGTTCACAATGGTGTTGTCCTACAATATATCTCGTTTATCAATGTTG
39672629 TCTAATAATATCTCATTATAATTTTTCTTGTTGTTGA
580 TCTAATAATATCTCATTATAATTTTTCTTGTTGTTGA
*
39672666 -TGTTGTTACAAATATTATTAAATCATTACATAAATCTTCTTTTTGAATAGTTGATAATATAGAC
1 TTGTTGTTACAAATATTA-TAAATCATTACATAAATCTTCTTTTAGAATAGTTGATAATATAGAC
* * *
39672730 AATTTTTCTTTTTCTTTTTTGTTTTCATTTTTTATTTATAAGTTATACTAAGATTGAGTTAACTT
65 AATTTTTCTTCTTCTTTTTTCTTTTCATTTTTTATTTATAAGTTATACTAAGATTGAGTTAATTT
*
39672795 GGAATAACAGCTCAATGTTGTTCTAAATATCTTGATAAAAAAATTGAATTTGTTTATTGTCTAGA
130 GGAATAACAGCTCAATGTTGTCCTAAATATCTTGATAAAAAAATTGAATTTGTTTATTGTCTAGA
*
39672860 TTTCTTTTTCTTAAATAAAAAATATGAAACTAAGATAAAAAATTATTTTGTAATGAAAATGCAAA
195 TTTCTTTTTCTTATAT-AAAAATATGAAACTAAGAT-AAAAATTATTTTGTAATGAAAATGCAAA
39672925 AATATAAGTTAGCACAATTGTTGGTAGATAGAAGAGTACAATATTATTTTTAAAAACAACAAACA
258 AATATAAGTTAGCACAATTGTTGGTAGATAGAAGAGTACAATATTATTTTTAAAAACAACAAACA
* *
39672990 AAAAAATGTCACCAAACCCATCACATTGCTTATACCTTTTTTTTTTATCGATTATTGAAGAGAGG
323 AAAAAA-GTCACCAAACCCATCACATTGCTTATACCTTTTTTTTTTACCGATTATTG-AGAGATG
* * *
39673055 GCTAAATAGGTTAGTGACAAAGACATTCCTATTGAGGAAGAGACCAAAATTGTTAGAAATATTAC
386 CCTAAATAGGTTAGTGACAAAGACATACCTATTGAGGAAGAGGCCAAAATTGTTAGAAATATTAC
* *
39673120 CATAATTGCAAGAAAATTTCCTTATTTGGAAAATTTTAATAGCTAAGAAGAATTATTTACTGTTG
451 CATAATTGCAAGAAAATTTCCTTGTTTGGAAAATTTTAATAGCCAAGAAGAATTATTTACTGTTG
*
39673185 AATACCTTTCACAATGAAGTTCACAATGGTGTTGTCCTACAATATATCTCGTTTATCTATGTTGT
516 AATACCTTTCACAATGAAGTTCACAATGGTGTTGTCCTACAATATATCTCGTTTATCAATGTTGT
*
39673250 CTAATAATATCTCATTATATTTTTTCTTGTTGTTGA
581 CTAATAATATCTCATTATAATTTTTCTTGTTGTTGA
* * *
39673286 TGTTGTTGTTACAAATATTATAAGATCATTACATAAGTCTTCGTTTAGAATAGCTGATAATATAG
1 --TTGTTGTTACAAATATTATAA-ATCATTACATAAATCTTCTTTTAGAATAGTTGATAATATAG
*
39673351 ACAATTTTTCTTCTTCTTTTTTCTTTTCATTTTTTATTTATAAGTTATAGTAAGATTGAGTTAAT
63 ACAATTTTTCTTCTTCTTTTTTCTTTTCATTTTTTATTTATAAGTTATACTAAGATTGAGTTAAT
39673416 TTGGAATAACAGCTCAATGTTGTCCTAAATATCTTGAT-AAAAAATTGAATTTGTTTATTGTCTA
128 TTGGAATAACAGCTCAATGTTGTCCTAAATATCTTGATAAAAAAATTGAATTTGTTTATTGTCTA
39673480 GATTTCTTTTTCTTATAT-AAAATATGAAACTAAGATAAAATATTATTTTGTAATGAAAATGCAA
193 GATTTCTTTTTCTTATATAAAAATATGAAACTAAGATAAAA-ATTATTTTGTAATGAAAATGC-A
*
39673544 AAAATATAAGTTAGCACAATTGTTGGTAGATAGAAGAGTACAAAATTATTTTTAAAAACAACAAA
256 AAAATATAAGTTAGCACAATTGTTGGTAGATAGAAGAGTACAATATTATTTTTAAAAACAACAAA
*
39673609 CAAAAAAAAGTCACCAAACCCATCATATTGCTTATACC-TTTTTTTTTACCGATTATTGGAGAGA
321 C-AAAAAAAGTCACCAAACCCATCACATTGCTTATACCTTTTTTTTTTACCGATTATT-GAGAGA
39673673 TGCCTAAATAGGTTAGTGACAAAGACATACCTATTGAGGAAGAGGCCAAAATTGTTAGAAATATT
384 TGCCTAAATAGGTTAGTGACAAAGACATACCTATTGAGGAAGAGGCCAAAATTGTTAGAAATATT
39673738 ACCATAATTGCAAGAAAATTTCCTTGTTTGGAAAATTTTAATAGCCAAGAAGAATTATTTACTGT
449 ACCATAATTGCAAGAAAATTTCCTTGTTTGGAAAATTTTAATAGCCAAGAAGAATTATTTACTGT
* * * *
39673803 TGAATACCTTTCACAATAAAATCCACAATGGTGTTGTCCTATAATA
514 TGAATACCTTTCACAATGAAGTTCACAATGGTGTTGTCCTACAATA
39673849 AAAACAATAA
Statistics
Matches: 1108, Mismatches: 60, Indels: 30
0.92 0.05 0.03
Matches are distributed among these distances:
618 1 0.00
619 73 0.07
620 593 0.54
621 126 0.11
622 156 0.14
623 159 0.14
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (616 bp):
TTGTTGTTACAAATATTATAAATCATTACATAAATCTTCTTTTAGAATAGTTGATAATATAGACA
ATTTTTCTTCTTCTTTTTTCTTTTCATTTTTTATTTATAAGTTATACTAAGATTGAGTTAATTTG
GAATAACAGCTCAATGTTGTCCTAAATATCTTGATAAAAAAATTGAATTTGTTTATTGTCTAGAT
TTCTTTTTCTTATATAAAAATATGAAACTAAGATAAAAATTATTTTGTAATGAAAATGCAAAAAT
ATAAGTTAGCACAATTGTTGGTAGATAGAAGAGTACAATATTATTTTTAAAAACAACAAACAAAA
AAAGTCACCAAACCCATCACATTGCTTATACCTTTTTTTTTTACCGATTATTGAGAGATGCCTAA
ATAGGTTAGTGACAAAGACATACCTATTGAGGAAGAGGCCAAAATTGTTAGAAATATTACCATAA
TTGCAAGAAAATTTCCTTGTTTGGAAAATTTTAATAGCCAAGAAGAATTATTTACTGTTGAATAC
CTTTCACAATGAAGTTCACAATGGTGTTGTCCTACAATATATCTCGTTTATCAATGTTGTCTAAT
AATATCTCATTATAATTTTTCTTGTTGTTGA
Found at i:39680748 original size:33 final size:33
Alignment explanation
Indices: 39680682--39680845 Score: 197
Period size: 33 Copynumber: 5.0 Consensus size: 33
39680672 AGTCGAACAA
* * *
39680682 AATGATGAAGCTACCCCAATAGGA-GTTCTAATC
1 AATGATGAAGCTGCCCCGATA-GATGTTCCAATC
*
39680715 AATAATGAA-CTTGCCCCGATAGATGTTCCAATC
1 AATGATGAAGC-TGCCCCGATAGATGTTCCAATC
* * * *
39680748 ATTGATGAAGCTGCTCTGATAGATATTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
*
39680781 AATGATGAAACTGCCCCGATAGATGTTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
* *
39680814 ATTGATGAAGCTGCCCTGATAGATGTTCCAAT
1 AATGATGAAGCTGCCCCGATAGATGTTCCAAT
39680846 AACTTATGTT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
32 3 0.03
33 107 0.96
34 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (33 bp):
AATGATGAAGCTGCCCCGATAGATGTTCCAATC
Found at i:39680796 original size:66 final size:66
Alignment explanation
Indices: 39680711--39680845 Score: 227
Period size: 66 Copynumber: 2.0 Consensus size: 66
39680701 TAGGAGTTCT
*
39680711 AATCAATAATGAACTTGCCCCGATAGATGTTCCAATCATTGATGAAGCTGCTCTGATAGATATTC
1 AATCAATAATGAACTTGCCCCGATAGATGTTCCAATCATTGATGAAGCTGCCCTGATAGATATTC
39680776 C
66 C
* *
39680777 AATCAATGATGAAAC-TGCCCCGATAGATGTTCCAATCATTGATGAAGCTGCCCTGATAGATGTT
1 AATCAATAATG-AACTTGCCCCGATAGATGTTCCAATCATTGATGAAGCTGCCCTGATAGATATT
39680841 CC
65 CC
39680843 AAT
1 AAT
39680846 AACTTATGTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 62 0.95
67 3 0.05
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (66 bp):
AATCAATAATGAACTTGCCCCGATAGATGTTCCAATCATTGATGAAGCTGCCCTGATAGATATTC
C
Found at i:39686319 original size:17 final size:18
Alignment explanation
Indices: 39686297--39686330 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39686287 TTTGGGCCGA
*
39686297 GTGGGC-CACATGGGCAT
1 GTGGGCTCACACGGGCAT
39686314 GTGGGCTCACACGGGCA
1 GTGGGCTCACACGGGCA
39686331 GACAACATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.26, G:0.41, T:0.15
Consensus pattern (18 bp):
GTGGGCTCACACGGGCAT
Found at i:39686846 original size:40 final size:41
Alignment explanation
Indices: 39686768--39686848 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
39686758 TTTTACTGAA
* *
39686768 TACTGCATGATTGCTACTGATACAGTGATGGGCTAAGGCCC
1 TACTGCATGATTGATACTGATACAGAGATGGGCTAAGGCCC
*
39686809 TACTGCAT-ATTTGATACTG-TACTGAGATGGGCTAAGGCCC
1 TACTGCATGA-TTGATACTGATACAGAGATGGGCTAAGGCCC
39686849 AAACTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 20 0.56
41 16 0.44
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TACTGCATGATTGATACTGATACAGAGATGGGCTAAGGCCC
Found at i:39694044 original size:19 final size:20
Alignment explanation
Indices: 39694015--39694052 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
39694005 GTTGGCTTTC
39694015 TTGGCAAACTAAGATAAAAA
1 TTGGCAAACTAAGATAAAAA
39694035 TTGG-AAACTAAGATAAAA
1 TTGGCAAACTAAGATAAAA
39694053 TATTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (20 bp):
TTGGCAAACTAAGATAAAAA
Found at i:39699102 original size:27 final size:27
Alignment explanation
Indices: 39699020--39699102 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
39699010 AAACCATCGT
* *
39699020 ATAACATA-AATGC-AAAAAATCTACTGA
1 ATAACATATAATGCGATAAAATC-AC-CA
**
39699047 ATAACATATAATGCGATAAAATCGTCA
1 ATAACATATAATGCGATAAAATCACCA
*
39699074 ATATCATATAATGCGATAAAATCACCA
1 ATAACATATAATGCGATAAAATCACCA
39699101 AT
1 AT
39699103 CCCTTTGACA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 35 0.74
28 5 0.11
29 7 0.15
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.25
Consensus pattern (27 bp):
ATAACATATAATGCGATAAAATCACCA
Found at i:39711907 original size:19 final size:21
Alignment explanation
Indices: 39711885--39711924 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
39711875 TCTACAAGGT
39711885 AATGAAAATT-A-ATGAAGAA
1 AATGAAAATTGAGATGAAGAA
*
39711904 AATGAAGATTGAGATGAAGAA
1 AATGAAAATTGAGATGAAGAA
39711925 TCACCTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (21 bp):
AATGAAAATTGAGATGAAGAA
Found at i:39722519 original size:40 final size:40
Alignment explanation
Indices: 39722475--39722555 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
39722465 GCGATAATCA
39722475 AACACAATACCAACTATGTTTTATTCTATTCATTTCAACT
1 AACACAATACCAACTATGTTTTATTCTATTCATTTCAACT
39722515 AACACAATACCAACTATGTTTTATTCTATTCATTTCAACT
1 AACACAATACCAACTATGTTTTATTCTATTCATTTCAACT
39722555 A
1 A
39722556 TAGGGTGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (40 bp):
AACACAATACCAACTATGTTTTATTCTATTCATTTCAACT
Found at i:39724448 original size:25 final size:25
Alignment explanation
Indices: 39724420--39724467 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
39724410 GTATAGTCTA
* *
39724420 TATAGTAGTCTCAATATATACTACC
1 TATAGCAGTCTCAAGATATACTACC
* *
39724445 TATAGCAGTTTCAGGATATACTA
1 TATAGCAGTCTCAAGATATACTA
39724468 TCAAAGACAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (25 bp):
TATAGCAGTCTCAAGATATACTACC
Found at i:39728745 original size:5 final size:5
Alignment explanation
Indices: 39728735--39728759 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
39728725 TTCTAAAGTG
39728735 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
39728760 GGTCCGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:39739266 original size:158 final size:158
Alignment explanation
Indices: 39738978--39739294 Score: 589
Period size: 158 Copynumber: 2.0 Consensus size: 158
39738968 AAGTTTTGAG
* *
39738978 TTTAGACCCACACATTATTTACGCCCTTTCGCAGCACACTAGCGAATCTTGTTGTTTTTTAATAA
1 TTTAGACCCACAAATTATTTACGCCCTTTCGCAGCAAACTAGCGAATCTTGTTGTTTTTTAATAA
* *
39739043 ACTTTAAAATAGACCTAAATTAAATTAAATTAACTTAAATCAATATATAAATTAATTAATACACC
66 ACTTTAAAACAGACCTAAATTAAATTAAATTAACTTAAATCAATATAGAAATTAATTAATACACC
39739108 TCTTATACAACCCCTAAACACCAAATTA
131 TCTTATACAACCCCTAAACACCAAATTA
39739136 TTTAGACCCACAAATTATTTACGCCCTTTCGCAGCAAACTAGCGAATCTTGTTGTTTTTTAATAA
1 TTTAGACCCACAAATTATTTACGCCCTTTCGCAGCAAACTAGCGAATCTTGTTGTTTTTTAATAA
39739201 ACTTTAAAACAGACCTAAATTAAATTAAATTAACTTAAATCAATATAGAAATTAATTAATACACC
66 ACTTTAAAACAGACCTAAATTAAATTAAATTAACTTAAATCAATATAGAAATTAATTAATACACC
*
39739266 TCTTATACAACCCCTAAACACCAACTTA
131 TCTTATACAACCCCTAAACACCAAATTA
39739294 T
1 T
39739295 GGGTTCAATC
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 154 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (158 bp):
TTTAGACCCACAAATTATTTACGCCCTTTCGCAGCAAACTAGCGAATCTTGTTGTTTTTTAATAA
ACTTTAAAACAGACCTAAATTAAATTAAATTAACTTAAATCAATATAGAAATTAATTAATACACC
TCTTATACAACCCCTAAACACCAAATTA
Found at i:39746603 original size:6 final size:6
Alignment explanation
Indices: 39746576--39746624 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
39746566 AACCAAAGTG
39746576 ATTTA- ATTTAGT -TTTAT A-TTAT ATTTAT ATTTAT ATTTAT ATTT-T
1 ATTTAT ATTTA-T ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT
39746621 ATTT
1 ATTT
39746625 GTTTATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 16 0.40
6 24 0.60
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:39746611 original size:12 final size:12
Alignment explanation
Indices: 39746576--39746624 Score: 61
Period size: 11 Copynumber: 4.3 Consensus size: 12
39746566 AACCAAAGTG
39746576 ATTTA-ATTTAGT
1 ATTTATATTTA-T
39746588 -TTTATA-TTAT
1 ATTTATATTTAT
39746598 ATTTATATTTAT
1 ATTTATATTTAT
39746610 ATTTATATTT-T
1 ATTTATATTTAT
39746621 ATTT
1 ATTT
39746625 GTTTATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 18 0.53
12 15 0.44
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
ATTTATATTTAT
Found at i:39747440 original size:28 final size:28
Alignment explanation
Indices: 39747400--39747453 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
39747390 AAGGACGTAG
39747400 ACAATATAGCCCTTGAATTATTGTTTAT
1 ACAATATAGCCCTTGAATTATTGTTTAT
39747428 ACAATATAGCCCTTGAATTATTGTTT
1 ACAATATAGCCCTTGAATTATTGTTT
39747454 GTGTTTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (28 bp):
ACAATATAGCCCTTGAATTATTGTTTAT
Found at i:39748115 original size:15 final size:17
Alignment explanation
Indices: 39748077--39748116 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
39748067 TTTTTGTTTT
39748077 AAAAAAA-ACAGAGATG
1 AAAAAAATACAGAGATG
39748093 AAAAAAATA-AGA-ATG
1 AAAAAAATACAGAGATG
39748108 AAAAAAATA
1 AAAAAAATA
39748117 TATATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.52
16 10 0.43
17 1 0.04
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (17 bp):
AAAAAAATACAGAGATG
Found at i:39758018 original size:26 final size:25
Alignment explanation
Indices: 39757984--39758064 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
39757974 AACACACCAA
* * *
39757984 TATCATAGCAGAGCTACTAGTAATAG
1 TATCGTAGCA-AGCTACCAGTAACAG
*
39758010 TATCGTAGCTAAGCTGCCAGTAACAG
1 TATCGTAGC-AAGCTACCAGTAACAG
* * *
39758036 TATCGCAGCAAATCTGCCAGTAACAG
1 TATCGTAGC-AAGCTACCAGTAACAG
39758062 TAT
1 TAT
39758065 ACTTCCTCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 46 0.98
27 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (25 bp):
TATCGTAGCAAGCTACCAGTAACAG
Done.