Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 124 of 189
Found at i:35271191 original size:19 final size:20
Alignment explanation
Indices: 35271167--35271205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
35271157 GATATTCCTT
35271167 TAGTGTA-TTTGATTATCTC
1 TAGTGTATTTTGATTATCTC
35271186 TAGTGTATTTTTGATTATCT
1 TAGTGTA-TTTTGATTATCT
35271206 TGTGGGTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (20 bp):
TAGTGTATTTTGATTATCTC
Found at i:35271768 original size:32 final size:33
Alignment explanation
Indices: 35271718--35271788 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
35271708 CAGTTTTCCT
* * *
35271718 AAAATATTTTCAAGAAATT-TTCCAAACAATAG
1 AAAATATTTTCAACAAATTCATCCAAACAACAG
*
35271750 AAAATATTTT-ACACAAATTCATCCAAACACCAG
1 AAAATATTTTCA-ACAAATTCATCCAAACAACAG
35271783 AAAATA
1 AAAATA
35271789 ATAATTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 1 0.03
32 16 0.48
33 16 0.48
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (33 bp):
AAAATATTTTCAACAAATTCATCCAAACAACAG
Found at i:35271803 original size:19 final size:18
Alignment explanation
Indices: 35271779--35271828 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
35271769 CATCCAAACA
35271779 CCAGAAAATAATAATTTTT
1 CCAGAAAATAATAA-TTTT
*
35271798 CCAGAAAAGTAAGTCATTTT
1 CCAGAAAA-TAA-TAATTTT
35271818 CCAG-AAATAAT
1 CCAGAAAATAAT
35271829 TTTCTAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 3 0.11
19 11 0.39
20 11 0.39
21 2 0.07
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (18 bp):
CCAGAAAATAATAATTTT
Found at i:35273094 original size:19 final size:19
Alignment explanation
Indices: 35273067--35273105 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
35273057 CCCTGTTTTA
*
35273067 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCCCTTCTGTTC
*
35273086 CCCTTTGCCCCTTCTGTTC
1 CCCTCTGCCCCTTCTGTTC
35273105 C
1 C
35273106 TTCCTTCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.49, G:0.10, T:0.41
Consensus pattern (19 bp):
CCCTCTGCCCCTTCTGTTC
Found at i:35276261 original size:25 final size:26
Alignment explanation
Indices: 35276229--35276283 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
35276219 TTATTAAATT
*
35276229 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
35276254 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
35276279 A-ATAT
1 ATATAT
35276284 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:35276514 original size:16 final size:16
Alignment explanation
Indices: 35276495--35276546 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
35276485 GATTTGCTAT
* *
35276495 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
35276511 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35276527 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35276543 TACA
1 TACA
35276547 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35277876 original size:16 final size:16
Alignment explanation
Indices: 35277854--35277903 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
35277844 TAAGTATAAA
*
35277854 ATGTTTTTCTTTCTTT
1 ATGTTTTTCTTACTTT
* *
35277870 TTGTTTTACTTACTTT
1 ATGTTTTTCTTACTTT
**
35277886 ATGTTTTTAATACTTT
1 ATGTTTTTCTTACTTT
35277902 AT
1 AT
35277904 TATTATTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (16 bp):
ATGTTTTTCTTACTTT
Found at i:35290929 original size:36 final size:36
Alignment explanation
Indices: 35290889--35290965 Score: 129
Period size: 36 Copynumber: 2.1 Consensus size: 36
35290879 ATTGTTGCTA
35290889 AAGAAGAAGAAGTCAT-TGAAAATGAGAAAGAAAAAG
1 AAGAAGAAGAAGT-ATCTGAAAATGAGAAAGAAAAAG
*
35290925 AAGAAGAAGAAGTTTCTGAAAATGAGAAAGAAAAAG
1 AAGAAGAAGAAGTATCTGAAAATGAGAAAGAAAAAG
35290961 AAGAA
1 AAGAA
35290966 TAAAATTATG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.61, C:0.03, G:0.25, T:0.12
Consensus pattern (36 bp):
AAGAAGAAGAAGTATCTGAAAATGAGAAAGAAAAAG
Found at i:35292557 original size:66 final size:66
Alignment explanation
Indices: 35292434--35292558 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 66
35292424 CTTATTGCAT
* * *
35292434 TAATGTCGTTGCATGACTTAATCCCAGATTGAGTCCAGAATTGTCGCTGCACCTAACAGCTGCCC
1 TAATGTCGCTGCATGACTTAATCCCAGATTGAGTCCAAAATTGTCGCCGCACCTAACAGCTGCCC
35292499 G
66 G
* * * * *
35292500 TAATGTCGCTGCATGAGTTAATTCCAGATTGCA-TCCAAAATTGTTGCCGTACTTAACAG
1 TAATGTCGCTGCATGACTTAATCCCAGATTG-AGTCCAAAATTGTCGCCGCACCTAACAG
35292559 TTGTCTGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
66 49 0.98
67 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (66 bp):
TAATGTCGCTGCATGACTTAATCCCAGATTGAGTCCAAAATTGTCGCCGCACCTAACAGCTGCCC
G
Found at i:35312989 original size:40 final size:40
Alignment explanation
Indices: 35312934--35313014 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
35312924 AATATACCCC
35312934 TCCCAAAAGTTATGACCACTACCCTTCTTAACTAGTGTAG
1 TCCCAAAAGTTATGACCACTACCCTTCTTAACTAGTGTAG
35312974 TCCCAAAAGTTATGACCACTACCCTTCTTAACTAGTGTAG
1 TCCCAAAAGTTATGACCACTACCCTTCTTAACTAGTGTAG
35313014 T
1 T
35313015 TGAGACTTGA
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:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (40 bp):
TCCCAAAAGTTATGACCACTACCCTTCTTAACTAGTGTAG
Found at i:35316555 original size:5 final size:5
Alignment explanation
Indices: 35316545--35316571 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35316535 TAAGTTCCCT
35316545 TTTTG TTTTG TTTTG TTTTG TTTTG TT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TT
35316572 CATGCCTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:35323412 original size:68 final size:68
Alignment explanation
Indices: 35323303--35323439 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 68
35323293 GAACAAATTT
*
35323303 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACACGGGCATAGTT
1 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACACGAGCATAGTT
35323368 GAG
66 GAG
*
35323371 TAACGTTAGTGCCTAAATTAAAAAAAGTT-AAAGTAGGTGACCAAAACATGAACGCGAGCATAGT
1 TAACGTTAGTGCCTAAATTAAAAAAA-TTCAAAGTAGGTGACCAAAACATGAACACGAGCATAGT
35323435 TGAG
65 TGAG
35323439 T
1 T
35323440 GACCATTTGT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 64 0.97
69 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (68 bp):
TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACACGAGCATAGTT
GAG
Found at i:35325245 original size:16 final size:17
Alignment explanation
Indices: 35325213--35325245 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35325203 TCTCTTAGGG
*
35325213 TTAGGGTTTTTATTTTA
1 TTAGGGTTTTTAGTTTA
35325230 TTAGGGTTTTT-GTTTA
1 TTAGGGTTTTTAGTTTA
35325246 GGGTTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (17 bp):
TTAGGGTTTTTAGTTTA
Found at i:35327739 original size:39 final size:39
Alignment explanation
Indices: 35327696--35327774 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
35327686 ATCAATGGCT
* *
35327696 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGATGTATACAATTAGAACTATAAGATTAC
*
35327735 ACAATTAGAAGATGTATACAATTAGAACTATAAGATTAC
1 ACAATTAAAAGATGTATACAATTAGAACTATAAGATTAC
35327774 A
1 A
35327775 TAATCATATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (39 bp):
ACAATTAAAAGATGTATACAATTAGAACTATAAGATTAC
Found at i:35331058 original size:39 final size:39
Alignment explanation
Indices: 35331015--35331093 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
35331005 ATCAATGGCT
* *
35331015 ACAATTAAAAGCTGTATACAATTAGTACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
*
35331054 ACAATTAGAAGCTGTATACAATTAGAAATCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
35331093 A
1 A
35331094 TAATCATATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
Found at i:35338682 original size:19 final size:21
Alignment explanation
Indices: 35338644--35338683 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35338634 CTATTTACAC
35338644 AAAAAAATTATAATTATAATA
1 AAAAAAATTATAATTATAATA
35338665 AAAAAAATTA-AATT-TAATA
1 AAAAAAATTATAATTATAATA
35338684 TTATTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 4 0.21
21 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAAATTATAATTATAATA
Found at i:35338879 original size:9 final size:9
Alignment explanation
Indices: 35338867--35338937 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
35338857 TATTAAAAAA
35338867 GAGAGAGTT
1 GAGAGAGTT
35338876 GAGAG-GCTT
1 GAGAGAG-TT
*
35338885 GAGAGACTT
1 GAGAGAGTT
*
35338894 GAGAGGGTTT
1 GAGAGAG-TT
*
35338904 GAGAGAATTT
1 GAGAG-AGTT
* *
35338914 AAGAGAATT
1 GAGAGAGTT
35338923 GAGAGAGTT
1 GAGAGAGTT
35338932 GAGAGA
1 GAGAGA
35338938 AGGATGTGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 1 0.02
9 35 0.71
10 13 0.27
ACGTcount: A:0.35, C:0.03, G:0.39, T:0.23
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:35339507 original size:19 final size:19
Alignment explanation
Indices: 35339464--35339524 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
35339454 TTTGAAATTT
**
35339464 AAAATATAAAAAATTAAAAA
1 AAAATAT-AAAAATTAACTA
35339484 TAAAATATAAAAATTAACTA
1 -AAAATATAAAAATTAACTA
*
35339504 AAAATATAGAAACTT-ACTA
1 AAAATATA-AAAATTAACTA
35339523 AA
1 AA
35339525 TATTTTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 14 0.39
20 15 0.42
21 7 0.19
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATATAAAAATTAACTA
Found at i:35345526 original size:13 final size:14
Alignment explanation
Indices: 35345501--35345529 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35345491 TCGAATCCAA
35345501 AAATTCAACACAAC
1 AAATTCAACACAAC
35345515 AAATTC-ACACAAC
1 AAATTCAACACAAC
35345528 AA
1 AA
35345530 TACATCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATTCAACACAAC
Found at i:35350099 original size:27 final size:26
Alignment explanation
Indices: 35350069--35350157 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
35350059 ATACGCCAGA
*
35350069 AAATGAAAGCCTTTATGGTAGTCTATG
1 AAATGAAAGCCTTTGTGG-AGTCTATG
* *
35350096 AAATGGAAGCCTTTGTGGCAGTCTATA
1 AAATGAAAGCCTTTGTGG-AGTCTATG
*
35350123 AAAT-AGAAGTCTTTGTGGAGATCTATGG
1 AAATGA-AAGCCTTTGTGGAG-TCTAT-G
35350151 AAATGAA
1 AAATGAA
35350158 TGTCTTCGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.04
27 43 0.84
28 5 0.10
29 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (26 bp):
AAATGAAAGCCTTTGTGGAGTCTATG
Found at i:35350163 original size:28 final size:27
Alignment explanation
Indices: 35350079--35350170 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
35350069 AAATGAAAGC
* * * *
35350079 CTTTATGGTAGTCTATGAAATGGAAGC
1 CTTTGTGGCAGTCTATGAAATAGAAGT
*
35350106 CTTTGTGGCAGTCTATAAAATAGAAGT
1 CTTTGTGGCAGTCTATGAAATAGAAGT
35350133 CTTTGTGG-AGATCTATGGAAAT-GAATGT
1 CTTTGTGGCAG-TCTAT-GAAATAGAA-GT
*
35350161 CTTCGTGGCA
1 CTTTGTGGCA
35350171 CATTCTAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.04
27 38 0.70
28 13 0.24
29 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
CTTTGTGGCAGTCTATGAAATAGAAGT
Found at i:35350294 original size:26 final size:26
Alignment explanation
Indices: 35350265--35350315 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
35350255 CAAACCCTGG
*
35350265 AAGAATGATATGTATGGCT-AACTTTA
1 AAGAATGATAGGTATGG-TAAACTTTA
*
35350291 AAGAATGGTAGGTATGGTAAACTTT
1 AAGAATGATAGGTATGGTAAACTTT
35350316 GAGAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (26 bp):
AAGAATGATAGGTATGGTAAACTTTA
Found at i:35361971 original size:29 final size:29
Alignment explanation
Indices: 35361697--35361970 Score: 217
Period size: 29 Copynumber: 9.4 Consensus size: 29
35361687 TTAGAGTCTC
* * * *
35361697 GCCATAAAGGCGTCCTTTTAACAGAGTTT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * * * * *
35361726 GCCA-TAAGACATTCATTTATCTGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
35361754 GCAACAAAGGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
35361783 GCCACAAATGCATCCTTTTAACAAAGATT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * * ** * *
35361812 GACACAAAGACTTTTTTTTTTTAACAAAGATT
1 GCCACAAAGGC---ATCCTTTTAACAGAGATA
** * *
35361844 GCCACAAAGGTTTCCTTTTAATAGAGACA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
35361873 GCAACAAAGACATCCTTTTAACAAAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
35361902 GTCACAAAGGCATCCTTTTAATAGAGATC
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* *
35361931 GCCACAAAGGCTTCCTTTTAATAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
35361960 GCCACAAAGGC
1 GCCACAAAGGC
35361971 TCACTTATGC
Statistics
Matches: 190, Mismatches: 51, Indels: 8
0.76 0.20 0.03
Matches are distributed among these distances:
28 18 0.09
29 149 0.78
32 23 0.12
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (29 bp):
GCCACAAAGGCATCCTTTTAACAGAGATA
Found at i:35373057 original size:29 final size:30
Alignment explanation
Indices: 35373003--35373060 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
35372993 TATAAAAAGA
35373003 AACGAGCTGAATGTAAGTTCAAATGAGCTC
1 AACGAGCTGAATGTAAGTTCAAATGAGCTC
*
35373033 AACGAGCTGAAT-TAAGTTCCAATGAGCT
1 AACGAGCTGAATGTAAGTTCAAATGAGCT
35373061 AAATGGAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (30 bp):
AACGAGCTGAATGTAAGTTCAAATGAGCTC
Found at i:35373070 original size:30 final size:30
Alignment explanation
Indices: 35373002--35373072 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
35372992 GTATAAAAAG
35373002 AAACGAGCTGAATGTAAGTTCAAATGAGCT
1 AAACGAGCTGAATGTAAGTTCAAATGAGCT
* *
35373032 CAACGAGCTGAAT-TAAGTTCCAATGAGCT
1 AAACGAGCTGAATGTAAGTTCAAATGAGCT
*
35373061 AAATGGAGCTGA
1 AAA-CGAGCTGA
35373073 CAGCAAATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (30 bp):
AAACGAGCTGAATGTAAGTTCAAATGAGCT
Found at i:35377191 original size:75 final size:75
Alignment explanation
Indices: 35377063--35377201 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 75
35377053 GAACGAGTTT
* * * *
35377063 ACCTGAAACAAATGGTTGGTAGGCCTTCACAACGTTGTCCAAAGACACACAGTCTTCTTCTGTGA
1 ACCTGAAACAAATGGCTGGTAGGCCTTCACAACATTGTCCAAAGACACACAGTCTCCTCCTGTGA
35377128 GATCCATGCC
66 GATCCATGCC
* * * * * *
35377138 ACCTGAAATAGATGGCTGGTGGGCCTTCGCAACATTTTCCAAAGACACGCAGTCTCCTCCTGTG
1 ACCTGAAACAAATGGCTGGTAGGCCTTCACAACATTGTCCAAAGACACACAGTCTCCTCCTGTG
35377202 GGGTTTGATG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 54 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (75 bp):
ACCTGAAACAAATGGCTGGTAGGCCTTCACAACATTGTCCAAAGACACACAGTCTCCTCCTGTGA
GATCCATGCC
Found at i:35378037 original size:21 final size:21
Alignment explanation
Indices: 35378011--35378062 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
35378001 CAACGGTGGT
*
35378011 GGTGAGATTAGTTACTATAGC
1 GGTGAGATTAGATACTATAGC
* *
35378032 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTATAGC
35378053 GGTGAGATTA
1 GGTGAGATTA
35378063 AAAACAGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.31
Consensus pattern (21 bp):
GGTGAGATTAGATACTATAGC
Found at i:35391463 original size:29 final size:29
Alignment explanation
Indices: 35391374--35391465 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
35391364 TCCAGGCACC
* * * *
35391374 GGTGATTACAATTTTAGGTACTTTGTAACT
1 GGTGATTATAGTTTCAGGTACTATGT-ACT
* * * * *
35391404 -GTG-TTATAGTTCCAGGCACTCTGTGCC
1 GGTGATTATAGTTTCAGGTACTATGTACT
35391431 GGTGATTATAGTTTCAGGTACTATGTACT
1 GGTGATTATAGTTTCAGGTACTATGTACT
35391460 GGTGAT
1 GGTGAT
35391466 GGATACCATA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.38
29 28 0.60
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (29 bp):
GGTGATTATAGTTTCAGGTACTATGTACT
Found at i:35396445 original size:19 final size:19
Alignment explanation
Indices: 35396423--35396460 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35396413 CGATTTGGGT
35396423 TCTCAAGCCCAATTTTCAA
1 TCTCAAGCCCAATTTTCAA
*
35396442 TCTCAAGTCCAATTTTCAA
1 TCTCAAGCCCAATTTTCAA
35396461 GTCCAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (19 bp):
TCTCAAGCCCAATTTTCAA
Found at i:35396460 original size:13 final size:13
Alignment explanation
Indices: 35396444--35396468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35396434 ATTTTCAATC
35396444 TCAAGTCCAATTT
1 TCAAGTCCAATTT
35396457 TCAAGTCCAATT
1 TCAAGTCCAATT
35396469 ACCTATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (13 bp):
TCAAGTCCAATTT
Found at i:35401860 original size:3 final size:3
Alignment explanation
Indices: 35401852--35401896 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
35401842 TTCATCTGCA
35401852 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35401897 AAAATAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:35403200 original size:12 final size:11
Alignment explanation
Indices: 35403183--35403239 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
35403173 AACAAATCCT
35403183 CTCTCATATTTC
1 CTCTCA-ATTTC
35403195 CTCTCAA-TTC
1 CTCTCAATTTC
*
35403205 CTCTCAATTTA
1 CTCTCAATTTC
* *
35403216 CTTTCAAAATT-
1 CTCTC-AATTTC
35403227 CTCTCAATTTC
1 CTCTCAATTTC
35403238 CT
1 CT
35403240 TCCAAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 14 0.38
11 13 0.35
12 10 0.27
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:35403230 original size:22 final size:22
Alignment explanation
Indices: 35403200--35403255 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
35403190 ATTTCCTCTC
*
35403200 AATTCCTCTCAATTTACTTTCAA
1 AATT-CTCTCAATTTACTTCCAA
*
35403223 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTACTTCCAA
35403245 AATTCTCTCAA
1 AATTCTCTCAA
35403256 ATCTATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTCTCTCAATTTACTTCCAA
Found at i:35403266 original size:51 final size:52
Alignment explanation
Indices: 35403211--35403324 Score: 178
Period size: 51 Copynumber: 2.2 Consensus size: 52
35403201 ATTCCTCTCA
* * *
35403211 ATTTACTTTCAAAATT-CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTAT
1 ATTTAATTTCAAAATTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCAT
*
35403262 ATTTAATTTC-AATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCAT
1 ATTTAATTTCAAAATTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCAT
35403313 ATTTAATTTCAA
1 ATTTAATTTCAA
35403325 TTTCCTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 4 0.07
51 52 0.91
52 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (52 bp):
ATTTAATTTCAAAATTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCAT
Found at i:35403325 original size:51 final size:51
Alignment explanation
Indices: 35403227--35403330 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
35403217 TTTCAAAATT
* *
35403227 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
35403278 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
35403329 CT
1 CT
35403331 TTTTTAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (51 bp):
CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:35403511 original size:26 final size:26
Alignment explanation
Indices: 35403482--35403537 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
35403472 AATTTTTAAA
* *
35403482 TATTATTTA-AGAATTTTTTATTTAT
1 TATTATTTAGAGAATTATTAATTTAT
*
35403507 GTATT-TTTAGATAATTATTAATTTAT
1 -TATTATTTAGAGAATTATTAATTTAT
35403533 TATTA
1 TATTA
35403538 GTTATAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTATTTAGAGAATTATTAATTTAT
Found at i:35404487 original size:7 final size:7
Alignment explanation
Indices: 35404475--35404499 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35404465 ATTTGATTGA
35404475 TATTTAG
1 TATTTAG
35404482 TATTTAG
1 TATTTAG
35404489 TATTTAG
1 TATTTAG
35404496 TATT
1 TATT
35404500 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:35405177 original size:18 final size:18
Alignment explanation
Indices: 35405151--35405185 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35405141 AGGTGCGTTT
*
35405151 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
35405169 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
35405186 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:35405657 original size:44 final size:45
Alignment explanation
Indices: 35405608--35405694 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
35405598 ATATTTTGAA
*
35405608 TATTTTGATATTATTTTATGTAAAAAAATAGAAA-TTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATA-AAAGTTTATTTGAGT
*
35405652 TATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAAAAGTTTATTTGA
35405695 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 3 0.08
44 31 0.79
45 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAAAAGTTTATTTGAGT
Found at i:35405754 original size:30 final size:30
Alignment explanation
Indices: 35405720--35405787 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
35405710 AACCTAATTT
*
35405720 AACCCTAAACCCTAACTTAAAATAATTAAA
1 AACCCTAAACCATAACTTAAAATAATTAAA
* **
35405750 AACCCAAAACCATAACTTAATTTAATTAAA
1 AACCCTAAACCATAACTTAAAATAATTAAA
35405780 AACCCTAA
1 AACCCTAA
35405788 CCTAATCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (30 bp):
AACCCTAAACCATAACTTAAAATAATTAAA
Found at i:35405880 original size:146 final size:141
Alignment explanation
Indices: 35405700--35406900 Score: 801
Period size: 146 Copynumber: 8.4 Consensus size: 141
35405690 TTTGATGTAA
*
35405700 TAAAAACCCTAA-CC-TAATT--TAACCCTAAACCCTAACTTAAAATAATTAAAAACCCAAAACC
1 TAAAAACCCTAACCCTTAATTAAAAACCCT-AACCCTAA-TT--AATAATTAAAAACCC-AAACC
* * *
35405761 ATAACTTAATTTAATTAAAAACCCTAACCTAA-TCAATTAAAAACCCTAAACCCTTAACTAAAAA
61 -TAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAA
35405825 CCCTAGCCTAATTTAAT
125 CCCTAGCCTAATTTAAT
*
35405842 TAAAAACCCTAAACCCTTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAA-C
1 TAAAAACCCT-AACCCTTAATTAAAAACCCTAACCCTAA-TTAA-T-AATTAAAAACCC-AAACC
*
35405906 ---CC----TTAACTTAAAAACCCTAACCTAAATTAATTAAAAACCCTAAACCCTTAATTAAAAA
61 TAACCTAATTTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAA
*
35405964 CCCTAACCCTAACCTAATTCAAT
125 CCCT-AGCCTAA--T--TT-AAT
* *
35405987 TAAAAAGCCTAAACCCTTAACTTAAAAACCCTAA-CCTAATT--TAATTAAAAACCCTAACCTAA
1 TAAAAACCCT-AACCCTTAA-TTAAAAACCCTAACCCTAATTAATAATTAAAAACCCAAACCTAA
* *
35406049 CCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAGCCCTAGCCTAACCTAATTTAATTAA
64 CCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA----AACC---CTTAATTAA
* *
35406114 AAACCCTAACCTAATTCAAT
122 AAACCCTAGCCTAATTTAAT
* *
35406134 TAAAAACCCTAACCCTTAACTTAAAAACCCTAA-CCTAATT--TAATTAAAAA--C---CTTAGC
1 TAAAAACCCTAACCCTTAA-TTAAAAACCCTAACCCTAATTAATAATTAAAAACCCAAACCTAAC
* * *
35406191 CTAATTTAATCAAAAACCCTACCCTAATTTAATTAAAAACCTTAAACCCTTAACTTTAAAAACCC
65 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA--TTAAAAACCC
*
35406256 TAACCTAATTTAAT
128 TAGCCTAATTTAAT
* ***** *
35406270 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAA-AAACCCTAACCCTAACC
1 TAAAAACCCTAACC---CTTAATTAAAAACCCT-AACCC-TAATTAATAATTAAAAACCC-AAAC
* * * * *
35406334 CTAACATAATTGAATTAAAAACCTTAAACC---CTTAACTTAAAAACCCT-AACCTAATTTAATT
60 CTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAAACC---CTTAATT
35406395 AAAAACCCTAGTCTAACCTAATTTAAT
120 AAAAACCCTAG-----CCTAATTTAAT
* * *
35406422 TAAAAACCCTAAACCCTTAATTAAAAACCCTAACCCTAACCTAATTCAATTAAAAATCC-TA---
1 TAAAAACCCT-AACCCTTAATTAAAAACCCTAACCCTAA-TTAA-T-AATTAAAAACCCAAACCT
* * *
35406483 AACC---TTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACTCT-AGCCTAATTTAATTAAA
62 AACCTAATTTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAA
35406544 AACCCTAGCCTAATTTAAT
123 AACCCTAGCCTAATTTAAT
* *
35406563 TAAAAACCCTAACCTAATTTAATTAAAAACCCT-AGCCTAATT--TAATTAAAAA--C---CCTA
1 TAAAAACCCTAACC---CTTAATTAAAAACCCTAACCCTAATTAATAATTAAAAACCCAAACCTA
* *
35406620 GCCTAATTTAATT-AAAACCCTAACCTAATTTAATTAAAAACCCAAAACCCTTAATTAAAAACCC
63 ACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATT--AAA---
*
35406684 TAACCCTAACCTAATTTAAT
123 -AACCCTAGCCTAATTTAAT
* * *
35406704 TAAAAACCCT-A-GCTTAATTTAATTAAAACCCTAA-CCTAATT--TAATTAAAAATCCTAACCT
1 TAAAAACCCTAACCCTTAA-TT-A--AAAACCCTAACCCTAATTAATAATTAAAAACCCAAACCT
** * * *
35406764 AATTTAA-TTAA-AAACCTTAAACCCTAACCTAATTTAATTAAAAA-CCT-AGCCTAATTTAATT
62 AACCTAATTTAATTAA----AAACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATT
*
35406825 -AAAACCCTAACCTAATTTAAT
120 AAAAACCCTAGCCTAATTTAAT
* * * *
35406846 TACAAACCTTAACCTAATTTAATTAAAAACCCT-AGCCTAATT--TAATTAAAAACCC
1 TAAAAACCCTAACC---CTTAATTAAAAACCCTAACCCTAATTAATAATTAAAAACCC
35406901 TGAACCCTTA
Statistics
Matches: 873, Mismatches: 80, Indels: 211
0.75 0.07 0.18
Matches are distributed among these distances:
134 4 0.00
135 7 0.01
136 44 0.05
137 51 0.06
138 36 0.04
139 47 0.05
140 51 0.06
141 102 0.12
142 50 0.06
143 47 0.05
144 22 0.03
145 52 0.06
146 160 0.18
147 57 0.07
148 50 0.06
149 21 0.02
150 20 0.02
152 33 0.04
153 19 0.02
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (141 bp):
TAAAAACCCTAACCCTTAATTAAAAACCCTAACCCTAATTAATAATTAAAAACCCAAACCTAACC
TAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAG
CCTAATTTAAT
Found at i:35405942 original size:95 final size:96
Alignment explanation
Indices: 35405780--35406938 Score: 702
Period size: 95 Copynumber: 12.1 Consensus size: 96
35405770 TTTAATTAAA
*
35405780 AACCCTAACCTAA-TCAATTAAAAACCCTAAACCCTTAAC-TAAAAACCCTAGCCTAATTTAATT
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTAATT
35405843 AAAAACCCTAAACCCTTAA-TTAAAAACCCT
66 AAAAACCCTAAACCCTTAACTTAAAAACCCT
*
35405873 AACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAAATTAATT
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTAATT
35405938 AAAAACCCTAAACCCTTAA-TTAAAAACCCT
66 AAAAACCCTAAACCCTTAACTTAAAAACCCT
*
35405968 AACCCTAACCTAATTCAATTAAAAAGCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTAATT
* *
35406033 AAAAACCCT-AACCTAACCTAATTTAATTAAA----
66 AAAAACCCTAAACC---CTTAACTTAA--AAACCCT
* * *
35406064 AACCCTAACCTAATTTAATTAAAAGCCCTAGCCTAACCTAATTTAA-TTAAAAACCCTAACCTAA
1 AACCCTAACCTAATTCAATTAAAAACCCTA----AACC---CTTAACTTAAAAACCCTAACCTAA
*
35406128 TTCAATTAAAAACCCT-AACCCTTAACTTAAAAACCCT
59 TTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * * *
35406165 AA-CCTAA--T--TT-AATTAAAAA-CCTTAGCCTAATTTAA-TCAAAAACCCTACCCTAATTTA
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCTAACCTAATTTA
*
35406222 ATTAAAAACCTTAAACCCTTAACTTTAAAAACCCT
63 ATTAAAAACCCTAAACCCTTAAC-TTAAAAACCCT
* *
35406257 AA-CCTAA--T--TT-AATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAAACC---CTT
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCT-AACCTAATTT
* ***
35406311 AATTAAAAACCCT-AACCC-TAACCCTAACATAATTGAATT
62 AATTAAAAACCCTAAACCCTTAA-CTTAA-A-AA---CCCT
* * *
35406350 AAAAACCTTAAACC--CTT-AACTTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAGTCTA
1 ---AACCCT-AACCTAATTCAA-TTAAAAACCCTAAACC---CTTAACTTAAAAA-CC----CTA
35406410 ACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACCCT
53 ACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
35406453 AACCCTAACCTAATTCAATTAAAAATCCTAAACCTTTAACTTAAAAACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTAATT
* * *
35406518 AAAAACTCT--AGCC-TAATTTAATTAAA----
66 AAAAACCCTAAACCCTTAACTTAA--AAACCCT
* * * *
35406544 AACCCTAGCCTAATTTAATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAGCCTAATTTA
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCTAACCTAATTTA
* * *
35406607 ATTAAAAACCCT--AGCC-TAATTTAATTAA----
63 ATTAAAAACCCTAAACCCTTAACTTAA-AAACCCT
* *
35406635 AACCCTAACCTAATTTAATTAAAAACCCAAAACCCTTAA-TTAAAAACCCTAACCCTAACCTAAT
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTT--AAA----AACCCTAACCTAAT
* * *
35406699 TTAATTAAAAACCCT--A-GCTTAATTTAATTAA----
60 TTAATTAAAAACCCTAAACCCTTAACTTAA-AAACCCT
* * *
35406730 AACCCTAACCTAATTTAATTAAAAATCCT-AACCTAATTTAA-TTAAAAACCTTAAACCCTAACC
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACC---CTTAACTT---AA----AAACCCTAACC
* * *
35406793 TAATTTAATTAAAAA-CCT--AGCC-TAATTTAATTAA----
56 TAATTTAATTAAAAACCCTAAACCCTTAACTTAA-AAACCCT
* * * * *
35406827 AACCCTAACCTAATTTAATTACAAA-CCTTAACCTAATTTAA-TTAAAAACCCTAGCCTAATTTA
1 AACCCTAACCTAATTCAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCTAACCTAATTTA
*
35406890 ATTAAAAACCCTGAACCCTTAACTTTAAAAACCCT
63 ATTAAAAACCCTAAACCCTTAAC-TTAAAAACCCT
* *
35406925 AACCTTAACGTAAT
1 AACCCTAACCTAAT
35406939 GTTAGATTTC
Statistics
Matches: 919, Mismatches: 61, Indels: 167
0.80 0.05 0.15
Matches are distributed among these distances:
88 6 0.01
89 13 0.01
90 86 0.09
91 72 0.08
92 102 0.11
93 35 0.04
94 45 0.05
95 231 0.25
96 34 0.04
97 69 0.08
98 49 0.05
99 19 0.02
100 28 0.03
101 44 0.05
102 46 0.05
103 5 0.01
105 4 0.00
106 4 0.00
107 1 0.00
108 18 0.02
109 5 0.01
110 3 0.00
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (96 bp):
AACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTAATT
AAAAACCCTAAACCCTTAACTTAAAAACCCT
Found at i:35406344 original size:56 final size:57
Alignment explanation
Indices: 35406274--35406384 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 57
35406264 TTTAATTAAA
* *
35406274 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACCCTAACCCT
1 AACCCTAACATAATTGAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCT
*
35406330 AACCCTAACATAATTGAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTAACC
1 AACCCTAACATAATTGAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACC
35406385 TAATTTAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 36 0.71
57 15 0.29
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (57 bp):
AACCCTAACATAATTGAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCT
Found at i:35406397 original size:362 final size:354
Alignment explanation
Indices: 35405755--35406901 Score: 1309
Period size: 362 Copynumber: 3.2 Consensus size: 354
35405745 TTAAAAACCC
* * * * * *
35405755 AAAACCATAACTTAATTTAATTAAAAACCCTAACCTAATCAATTAAAAACCCTAAACC---CTTA
1 AAAACCCTAACCTAA-TTAATTAAAAACCCTAACC-ATTTAATTAAAAACCCT-AGCCTAATTTA
* *
35405817 ACTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAA--AAACCCTAACCCT
63 ATTAAAAACCCTAGCCTAATTTAATCAAAAACCCT-AA-CC-TAATTTAATTAAA----AACCCT
* * * *
35405879 AACCTAATTCAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCTAACCTAAATTAATTAAA
121 ACCCTAA-TCTATTAAAAACCCT-AACCTAATTTAA-TTAAAAACCCTAACCTAATTTAATTAAA
*
35405941 AACCCTAAACCCTTAATTAAAAACCCTAACCCTAACCTA-AT--TCAATTAAAAAGCCTAAACCC
183 AACCCTAAACCCTTAATTAAAAACCCTAACCCTAACCTACATAATTAATTAAAAA-CCTAAACCC
35406003 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACC
247 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACC
35406068 CTAACCTAATTTAATTAAAAGCCCTAGCCTAACCTAATTTAATTA
312 CTAACCTAATTTAATTAAAA-CCCTA-CCTAACCTAATTTAATTA
* *
35406113 AAAACCCTAACCTAATTCAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACCTAATTTAA
1 AAAACCCTAACCTAATT-AATTAAAAACCCTAACCATTTAA-TTAAAAACCCTAGCCTAATTTAA
* * *
35406177 TTAAAAACCTTAGCCTAATTTAATCAAAAACCCTACCCTAATTTAATTAAAAACCTTAAACCCTT
64 TTAAAAACCCTAGCCTAATTTAATCAAAAACCCTAACCTAATTTAATTAAAAACCCT--ACCC-T
35406242 AA-CT-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
126 AATCTATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
35406305 ACCCTTAATTAAAAACCCTAACCCTAACCCTAACATAATTGAATTAAAAACCTTAAACCCTTAAC
191 ACCCTTAATTAAAAACCCTAACCCTAA-CCT-ACATAATT-AATTAAAAACC-TAAACCCTTAAC
**
35406370 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGTCTAACCTAATTTAATTAAAAACCCTAAA
252 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCT-AA
* *
35406435 CC---CTTAATTAAAAACCCTAACCCTAACCTAATTCAATTA
316 CCTAATTTAATT-AAAACCCT-A-CCTAACCTAATTTAATTA
* *
35406474 AAAATCCTAAACCT--TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACTCTAGCCTAATTT
1 AAAACCCT-AACCTAATTAA-TTAAAAACCCTAACC--ATTTAATTAAAAACCCTAGCCTAATTT
* *
35406537 AATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTA
62 AATTAAAAACCCTAGCCTAATTTAATCAAAAACCCTAACCTAATTTAATTAAAAACCCTACCCTA
* * *
35406602 ATTTAATTAAAAACCCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTAAAAACCCAAA
127 ATCT-ATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* *
35406666 ACCCTTAATTAAAAACCCTAACCCTAACCTA-AT--TTAATTAAAAACCCT--A-GCTTAATTTA
191 ACCCTTAATTAAAAACCCTAACCCTAACCTACATAATTAATTAAAAA-CCTAAACCCTTAACTT-
* ** *
35406725 ATTAAAACCCTAACCTAATTTAATTAAAAATCCTAACCTAATTTAA-TTAA-AAACCTTAAACCC
254 A--AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAA----AAACCC
*
35406788 TAACCTAATTTAATTAAAA----ACCTAGCCTAATTTAATT-
313 TAACCTAATTTAATTAAAACCCTACCTAACCTAATTTAATTA
* *
35406825 AAAACCCTAACCTAATTTAATTACAAACCTTAACCTAATTTAATTAAAAACCCTAGCCTAATTTA
1 AAAACCCTAACCTAA-TTAATTAAAAACCCTAACC--ATTTAATTAAAAACCCTAGCCTAATTTA
35406890 ATTAAAAACCCT
63 ATTAAAAACCCT
35406902 GAACCCTTAA
Statistics
Matches: 696, Mismatches: 47, Indels: 98
0.83 0.06 0.12
Matches are distributed among these distances:
350 5 0.01
351 7 0.01
352 76 0.11
353 9 0.01
354 8 0.01
355 64 0.09
356 81 0.12
357 36 0.05
358 41 0.06
359 52 0.07
360 34 0.05
361 91 0.13
362 184 0.26
363 8 0.01
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (354 bp):
AAAACCCTAACCTAATTAATTAAAAACCCTAACCATTTAATTAAAAACCCTAGCCTAATTTAATT
AAAAACCCTAGCCTAATTTAATCAAAAACCCTAACCTAATTTAATTAAAAACCCTACCCTAATCT
ATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
TAATTAAAAACCCTAACCCTAACCTACATAATTAATTAAAAACCTAAACCCTTAACTTAAAAACC
CTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA
TTAAAACCCTACCTAACCTAATTTAATTA
Found at i:35406900 original size:23 final size:23
Alignment explanation
Indices: 35405755--35406906 Score: 958
Period size: 23 Copynumber: 48.5 Consensus size: 23
35405745 TTAAAAACCC
* *
35405755 AAAACCATAACTTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35405778 AAAACCCTAACCTAA-TCAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
35405800 AAAACCCTAAACC---CTTAACTA
1 AAAACCCT-AACCTAATTTAATTA
*
35405821 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
35405844 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
*
35405867 AACCCTAACCCTAACCTAATTCAATTA
1 AA----AACCCTAACCTAATTTAATTA
*
35405894 AAAACCCTAAACC---CTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
*
35405916 AAAACCCTAACCTAAATTAATTA
1 AAAACCCTAACCTAATTTAATTA
35405939 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
*
35405962 AACCCTAACCCTAACCTAATTCAATTA
1 AA----AACCCTAACCTAATTTAATTA
* *
35405989 AAAAGCCTAAACC---CTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
35406011 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
35406034 AAAACCCTAACCTAACCTAATTTAATTA
1 AAAA--C---CCTAACCTAATTTAATTA
35406062 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406085 AAAGCCCTAGCCTAACCTAATTTAATTA
1 AAA-----ACCCTAACCTAATTTAATTA
*
35406113 AAAACCCTAACCTAATTCAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406136 AAAACCCTAACC---CTTAACTTA
1 AAAACCCTAACCTAATTTAA-TTA
35406157 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* * *
35406180 AAAACCTTAGCCTAATTTAATCA
1 AAAACCCTAACCTAATTTAATTA
*
35406203 AAAACCCTACCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
35406226 AAAACCTTAAACC---CTTAACTTTA
1 AAAACCCT-AACCTAATTTAA--TTA
35406249 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
35406272 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406295 AAAACCCTAAACC---CTTAATTA
1 AAAACCCT-AACCTAATTTAATTA
** *
35406316 AAAACCCTAACCCTAACCCTAACATA
1 AAAACCCTAA-CCTAA-TTTAA-TTA
***** *
35406342 ATTGAATTAAAAACCTTAAACCCTTAACTTA
1 A---AAACCCTAACC-T-AA--TTTAA-TTA
35406373 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
35406396 AAAACCCTAGTCTAACCTAATTTAATTA
1 AAAA-CC----CTAACCTAATTTAATTA
35406424 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
*
35406447 AACCCTAACCCTAACCTAATTCAATTA
1 AA----AACCCTAACCTAATTTAATTA
*
35406474 AAAATCCTAAACC---TTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
35406496 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
35406519 AAAACTCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406542 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
35406565 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406588 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406611 AAAACCCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
35406633 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406656 AAAACCCAAAACCCTTAA-TTAA--A
1 AAAACCC-TAA-CC-TAATTTAATTA
35406679 AACCCTAACCCTAACCTAATTTAATTA
1 AA----AACCCTAACCTAATTTAATTA
* *
35406706 AAAACCCTAGCTTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
35406728 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406751 AAAATCCTAACCTAATTTAATTAAAA
1 AAAACCCTAACCTAATTTAATT---A
35406777 ACCTTAAACCCTAACCTAATTTAATTA
1 A----AAACCCTAACCTAATTTAATTA
*
35406804 AAAA-CCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
35406825 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
35406848 CAAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
35406871 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
35406894 AAAACCCTGAACC
1 AAAACCCT-AACC
35406907 CTTAACTTTA
Statistics
Matches: 941, Mismatches: 78, Indels: 219
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.01
21 75 0.08
22 122 0.13
23 441 0.47
24 64 0.07
25 54 0.06
26 28 0.03
27 40 0.04
28 73 0.08
29 5 0.01
30 22 0.02
31 9 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (23 bp):
AAAACCCTAACCTAATTTAATTA
Found at i:35406917 original size:23 final size:21
Alignment explanation
Indices: 35406891--35406933 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
35406881 CCTAATTTAA
35406891 TTAAAAACCCTGAACCCTTAACT
1 TTAAAAACCCT-AA-CCTTAACT
35406914 TTAAAAACCCTAACCTTAAC
1 TTAAAAACCCTAACCTTAAC
35406934 GTAATGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 2 0.10
23 11 0.55
ACGTcount: A:0.42, C:0.30, G:0.02, T:0.26
Consensus pattern (21 bp):
TTAAAAACCCTAACCTTAACT
Found at i:35407069 original size:116 final size:116
Alignment explanation
Indices: 35406929--35407152 Score: 367
Period size: 116 Copynumber: 1.9 Consensus size: 116
35406919 AACCCTAACC
* *
35406929 TTAACGTAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTTTACATAAT
1 TTAACATAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAAT
* *
35406994 TTGATAATTTTATTAACTATTAATACAATTTTTTGACTTAATAATTTTACA
66 TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACA
* * * **
35407045 TTAACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTGTATGTAAT
1 TTAACATAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAAT
35407110 TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATA
35407153 CAATTTATCA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (116 bp):
TTAACATAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAAT
TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACA
Found at i:35407169 original size:17 final size:18
Alignment explanation
Indices: 35407128--35407169 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
35407118 TTTACTAACC
* *
35407128 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
35407146 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
35407163 ATTAATA
1 ATTAATA
35407170 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:35410355 original size:126 final size:126
Alignment explanation
Indices: 35410127--35410480 Score: 550
Period size: 126 Copynumber: 2.8 Consensus size: 126
35410117 CCCAAACATG
*
35410127 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
35410192 TAGAAGCGATTTTATATTATTTGCTCAGAAACATCAAAAAAAAAATTATTTCTTAC-ATGAC
66 TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAAAAATTATTTCTT-CTATGAC
* * * * *
35410253 CTACTGTAGCAAAAACGCG-CTGACGAGGCCGCAATTTAACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
35410317 CTAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAATAATTATTTCTTCTGTGAC
65 CTAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAAAAATTATTTCTTCTATGAC
*
35410379 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
35410444 TAGAAGTGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAA
35410481 CTCGAAATTA
Statistics
Matches: 205, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
125 2 0.01
126 202 0.99
127 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAAAAATTATTTCTTCTATGAC
Found at i:35411967 original size:6 final size:6
Alignment explanation
Indices: 35411956--35411981 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35411946 GTATTTTCTA
35411956 TGGTTC TGGTTC TGGTTC TGGTTC TG
1 TGGTTC TGGTTC TGGTTC TGGTTC TG
35411982 CTAGGGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.35, T:0.50
Consensus pattern (6 bp):
TGGTTC
Found at i:35418123 original size:32 final size:32
Alignment explanation
Indices: 35418081--35418156 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
35418071 TGCATGTGTG
* * *
35418081 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
* **
35418113 TAACTCTTCATATTCAAGTCTTTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
35418145 TAACTTTTCATA
1 TAACTCTTCATA
35418157 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:35422635 original size:32 final size:32
Alignment explanation
Indices: 35422593--35422668 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
35422583 TGCATGTGTG
* * *
35422593 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
* **
35422625 TAACTCTTCATATTCAAGTCTTTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
35422657 TAACTTTTCATA
1 TAACTCTTCATA
35422669 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:35424801 original size:20 final size:20
Alignment explanation
Indices: 35424776--35424813 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35424766 ATTCAACTAA
35424776 ATTAACTA-ATATCACATGAC
1 ATTAACTATATAT-ACATGAC
35424796 ATTAACTATATATACATG
1 ATTAACTATATATACATG
35424814 CTCAACCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTAACTATATATACATGAC
Found at i:35425522 original size:20 final size:20
Alignment explanation
Indices: 35425495--35425547 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
35425485 AGTTGTGCAA
35425495 ATAGGGACACCGAAGTGTA-
1 ATAGGGACACCGAAGTGTAT
**
35425514 ATCAGGGACATTGAAGTGTAT
1 AT-AGGGACACCGAAGTGTAT
*
35425535 ATAGGGGCACCGA
1 ATAGGGACACCGA
35425548 GGTGCAATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (20 bp):
ATAGGGACACCGAAGTGTAT
Found at i:35433288 original size:38 final size:37
Alignment explanation
Indices: 35433242--35433313 Score: 135
Period size: 38 Copynumber: 1.9 Consensus size: 37
35433232 AAAATGAAAA
35433242 TGAAAAAGAAATTGAAAGAAAAGAAAACAAAAAGAGAT
1 TGAAAAAGAAATTGAAAGAAAAGAAAA-AAAAAGAGAT
35433280 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAGA
1 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAGA
35433314 AAAAGACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 7 0.21
38 27 0.79
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (37 bp):
TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAGAGAT
Found at i:35433290 original size:28 final size:28
Alignment explanation
Indices: 35433230--35433284 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
35433220 AGTGCGAGCG
*
35433230 AGAAAATGAAAATGAAAAAGAAATTGAA
1 AGAAAATGAAAATCAAAAAGAAATTGAA
*
35433258 AGAAAA-GAAAA-CAAAAAGAGATTGAA
1 AGAAAATGAAAATCAAAAAGAAATTGAA
35433284 A
1 A
35433285 AAGAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 5 0.20
28 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (28 bp):
AGAAAATGAAAATCAAAAAGAAATTGAA
Found at i:35433349 original size:43 final size:43
Alignment explanation
Indices: 35433256--35433350 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
35433246 AAAGAAATTG
* * *
35433256 AAAGAAAAGAAAACAAAAAGAGATTGAAAAAGAAATTGAAAGA
1 AAAGAAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
* * **
35433299 AAAGAAAAAAAAAGAAAAAGACATTG-GAAAGAAAATGAGTGA
1 AAAGAAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
*
35433341 AAAGGAAAAA
1 AAAGAAAAAA
35433351 GAGCTTGAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 21 0.48
43 23 0.52
ACGTcount: A:0.69, C:0.02, G:0.20, T:0.08
Consensus pattern (43 bp):
AAAGAAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
Found at i:35437124 original size:21 final size:21
Alignment explanation
Indices: 35437100--35437163 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
35437090 TTTAGCAACT
35437100 TCTTCTTTAGCAACAACTTCC
1 TCTTCTTTAGCAACAACTTCC
** *
35437121 TCTTCTGCAGCAGCAACTT-C
1 TCTTCTTTAGCAACAACTTCC
*
35437141 T-TTC-TTAACAACAA-TGTCC
1 TCTTCTTTAGCAACAACT-TCC
35437160 TCTT
1 TCTT
35437164 GATCAGCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 5 0.15
20 4 0.12
21 16 0.48
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (21 bp):
TCTTCTTTAGCAACAACTTCC
Found at i:35437171 original size:39 final size:39
Alignment explanation
Indices: 35437093--35437171 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 39
35437083 CCTCATTTTT
* *
35437093 AGCAACTTCTTCTTTAGCAACAACTTCCTCTTCTGCAGC
1 AGCAACTTCTTCTTTAACAACAACTTCCTCTTATGCAGC
35437132 AGCAACTTCTT-TCTTAACAACAA-TGTCCTCTTGAT-CAGC
1 AGCAACTTCTTCT-TTAACAACAACT-TCCTCTT-ATGCAGC
35437171 A
1 A
35437172 AAAAGATCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
38 2 0.06
39 32 0.91
40 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (39 bp):
AGCAACTTCTTCTTTAACAACAACTTCCTCTTATGCAGC
Found at i:35449551 original size:49 final size:47
Alignment explanation
Indices: 35449254--35449856 Score: 972
Period size: 47 Copynumber: 12.6 Consensus size: 47
35449244 CCCTTCGGGA
* * * * * *
35449254 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35449301 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35449348 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35449395 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35449442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35449489 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35449536 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35449587 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35449636 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35449685 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35449734 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35449781 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35449830 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
35449857 TATTCAAATA
Statistics
Matches: 529, Mismatches: 21, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 294 0.56
49 190 0.36
51 45 0.09
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35456849 original size:56 final size:56
Alignment explanation
Indices: 35456784--35456903 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
35456774 ACAAGGGATG
35456784 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
35456840 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAGATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35456896 ATGGGCAA
1 ATGGGCAA
35456904 TAAAATAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35462678 original size:40 final size:40
Alignment explanation
Indices: 35462440--35462664 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
35462430 TCGAATGATG
* * * *
35462440 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
35462480 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35462520 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35462559 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35462599 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35462640 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35462665 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 121 0.74
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35462686 original size:119 final size:119
Alignment explanation
Indices: 35462440--35462697 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
35462430 TCGAATGATG
* *
35462440 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
35462505 GTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
35462559 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
35462622 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
35462679 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35462698 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:35465746 original size:20 final size:20
Alignment explanation
Indices: 35465721--35465763 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
35465711 TTTTTCATTA
35465721 TTTTCTTCTTTCT-TTTCCTC
1 TTTTCTT-TTTCTATTTCCTC
35465741 TTTTCTTTTTCTATTTCCTC
1 TTTTCTTTTTCTATTTCCTC
35465761 TTT
1 TTT
35465764 CAATTGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTTTTCTATTTCCTC
Found at i:35473740 original size:18 final size:19
Alignment explanation
Indices: 35473717--35473755 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
35473707 ATATATAGAT
35473717 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
35473735 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
35473754 AT
1 AT
35473756 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:35475764 original size:48 final size:48
Alignment explanation
Indices: 35475693--35475784 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
35475683 TTCTTTGCTT
*
35475693 AAAAATGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAAACGC
1 AAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAAACGC
* *
35475741 AAAAACGCCTAAGTCGGCCTAACTTGTAATGATAAAGGATTCAA
1 AAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAA
35475785 CAAAATTCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAAACGC
Found at i:35476013 original size:17 final size:17
Alignment explanation
Indices: 35475991--35476054 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
35475981 CATCAAATGC
*
35475991 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
35476008 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
35476027 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
35476044 TACAATTAGAA
1 TACAATTAGAA
35476055 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:35476033 original size:19 final size:19
Alignment explanation
Indices: 35476009--35476062 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
35475999 AAAGCTGTAT
35476009 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
35476028 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
35476045 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
35476063 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:35476040 original size:36 final size:36
Alignment explanation
Indices: 35475992--35476062 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
35475982 ATCAAATGCT
35475992 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
35476028 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
35476063 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:35481134 original size:17 final size:17
Alignment explanation
Indices: 35481112--35481175 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
35481102 CATCAAAGGC
*
35481112 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
35481129 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
35481148 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
35481165 TACAATTAGAA
1 TACAATTAGAA
35481176 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:35481154 original size:19 final size:19
Alignment explanation
Indices: 35481130--35481183 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
35481120 AAAGCTGTAT
35481130 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
35481149 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
35481166 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
35481184 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:35481161 original size:36 final size:36
Alignment explanation
Indices: 35481113--35481183 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
35481103 ATCAAAGGCT
35481113 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
35481149 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
35481184 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:35502001 original size:13 final size:13
Alignment explanation
Indices: 35501983--35502007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35501973 ATTGGGTTTT
35501983 AATTAATTAATTA
1 AATTAATTAATTA
35501996 AATTAATTAATT
1 AATTAATTAATT
35502008 GCATGGTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:35507970 original size:13 final size:13
Alignment explanation
Indices: 35507952--35507976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35507942 ATAATGACTC
35507952 TAAAAATATTTAA
1 TAAAAATATTTAA
35507965 TAAAAATATTTA
1 TAAAAATATTTA
35507977 CGGCTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:35511837 original size:37 final size:37
Alignment explanation
Indices: 35511791--35511916 Score: 173
Period size: 37 Copynumber: 3.4 Consensus size: 37
35511781 AGCTTTTCGG
35511791 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
* * *
35511828 AGCACCTGGCTTGTTATCAGGTGGATTAGCTCTTATA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
* ** *
35511865 AGCATTTGGTGTGTTATTAGGTGGATTAGATCTTATGA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTAT-A
35511903 A-CATCTGGCATGTT
1 AGCATCTGGCATGTT
35511917 TCAGTTAGAC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
37 74 0.97
38 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.38
Consensus pattern (37 bp):
AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
Found at i:35516491 original size:13 final size:13
Alignment explanation
Indices: 35516475--35516501 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35516465 GACAAGAAGA
35516475 ATTTGATGACTCC
1 ATTTGATGACTCC
35516488 ATTTGATGACTCC
1 ATTTGATGACTCC
35516501 A
1 A
35516502 ATAGAGGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTTGATGACTCC
Found at i:35517166 original size:28 final size:27
Alignment explanation
Indices: 35517130--35517211 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 27
35517120 TAATATTAAG
*
35517130 AATTTTATTAAATTATATATTTTTATTA
1 AATTATATTAAATTAT-TATTTTTATTA
* * *
35517158 AATTATATTTAATAATTATTATT-TTA
1 AATTATATTAAATTATTATTTTTATTA
* *
35517184 AAATATTATTAAACTATTTATTATTTAT
1 AATTA-TATTAAATTA-TTATT-TTTAT
35517212 ATTAATAATC
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
26 7 0.17
27 13 0.32
28 18 0.44
29 2 0.05
30 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTATATTAAATTATTATTTTTATTA
Found at i:35517181 original size:61 final size:58
Alignment explanation
Indices: 35517019--35517181 Score: 159
Period size: 61 Copynumber: 2.7 Consensus size: 58
35517009 TAACGTGGGG
*
35517019 GAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA
1 GAATTATATATTTTTATTAAATTATATTTAATAATAATTA-TTTAAATTAAATTTTATA
* * * ** * * * *
35517078 GTATTATATATTATGATTTTAGTAAATTCATATAAGAA-TATTTAATATTAAGAATTTTATTA
1 GAATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTAA-ATT-A-AATTTTA-TA
*
35517140 -AATTATATATTTTTATTAAATTATATTTAATAATTATTATTT
1 GAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
35517182 TAAAATATTA
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
58 5 0.06
59 27 0.35
60 12 0.15
61 32 0.41
62 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (58 bp):
GAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTAAATTAAATTTTATA
Found at i:35517420 original size:16 final size:16
Alignment explanation
Indices: 35517399--35517451 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
35517389 AGGATTACCT
35517399 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
35517415 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
35517431 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
35517447 ATTAC
1 ATTAC
35517452 AATGAACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.23, C:0.36, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:35520273 original size:16 final size:18
Alignment explanation
Indices: 35520242--35520279 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
35520232 AGAAATAAAA
*
35520242 ATAAAAATGAATAGAA-C
1 ATAAAAATGAACAGAATC
35520259 ATAAAAAT-AACAGAATC
1 ATAAAAATGAACAGAATC
35520276 ATAA
1 ATAA
35520280 TGTAATACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (18 bp):
ATAAAAATGAACAGAATC
Found at i:35526660 original size:171 final size:171
Alignment explanation
Indices: 35526375--35526718 Score: 652
Period size: 171 Copynumber: 2.0 Consensus size: 171
35526365 AAGAGATGAT
* *
35526375 GGTAACAAAAAACAAGACATTGAATAGGTAGGTCTTGCTTGCAAAACACTTTTAATAAAAACTTC
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTA
*
35526440 TTTCCCTCCTTGGAAGAGTGGTTTAATACACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
66 TTTCCCTCCTTGGAAGAGTGGTTTAATACACAAAATATCTATTCGGCTGTTCATACGATCTTTTA
*
35526505 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCTCAAAATAA
131 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
35526546 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTA
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTA
35526611 TTTCCCTCCTTGGAAGAGTGGTTTAATACACAAAATATCTATTCGGCTGTTCATACGATCTTTTA
66 TTTCCCTCCTTGGAAGAGTGGTTTAATACACAAAATATCTATTCGGCTGTTCATACGATCTTTTA
35526676 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
131 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
35526717 GG
1 GG
35526719 GAGCCCCAAA
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 169 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (171 bp):
GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTA
TTTCCCTCCTTGGAAGAGTGGTTTAATACACAAAATATCTATTCGGCTGTTCATACGATCTTTTA
ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
Found at i:35533088 original size:26 final size:26
Alignment explanation
Indices: 35533058--35533132 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
35533048 TGGAGGAAGT
* *
35533058 ATACTGTTACTGGCAACTTTGTTGC-G
1 ATACTGCTACTGGCAACTTTGCT-CTG
35533084 ATACTGCTACTGGCAACTTTGCTCTG
1 ATACTGCTACTGGCAACTTTGCTCTG
*
35533110 ATACTGCTACTGGCAGCTTTGCT
1 ATACTGCTACTGGCAACTTTGCT
35533133 ACGGTATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 1 0.02
26 44 0.98
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGCTACTGGCAACTTTGCTCTG
Found at i:35541761 original size:26 final size:26
Alignment explanation
Indices: 35541727--35541833 Score: 124
Period size: 26 Copynumber: 4.1 Consensus size: 26
35541717 TGGAGGAAGT
* *
35541727 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
* * * * *
35541753 ATATTGTTATTGGCAGCTCTACCGTG
1 ATACTGTTACTGGCAGCTTTACTGCG
* *
35541779 ATACTGTTACTGGCAGCTTTGCTACG
1 ATACTGTTACTGGCAGCTTTACTGCG
*
35541805 ATACTATTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
35541831 ATA
1 ATA
35541834 TTGGTGTGTT
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:35551735 original size:47 final size:47
Alignment explanation
Indices: 35551666--35552313 Score: 1003
Period size: 47 Copynumber: 13.6 Consensus size: 47
35551656 AGTATATGTG
* *
35551666 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGTCGATGTGAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
35551715 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
35551762 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
35551811 GAATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
35551858 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
35551907 GAATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
35551954 GAATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
35551999 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
35552046 GAATGTGAAAGTGTAAATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT--ATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
35552095 GAATGTGAAAGTGTATATTATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATA-TATGTGATAAGGCCTAATGGCCGATGTGAT
35552143 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
35552192 GAATGTGAAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * *
35552239 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
35552286 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
35552314 TCCCGAAGGG
Statistics
Matches: 556, Mismatches: 32, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
45 43 0.08
47 280 0.50
48 41 0.07
49 188 0.34
50 4 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:35551779 original size:96 final size:96
Alignment explanation
Indices: 35551666--35552313 Score: 1074
Period size: 96 Copynumber: 6.8 Consensus size: 96
35551656 AGTATATGTG
* *
35551666 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
35551731 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
35551762 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
35551827 ATATTTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
35551858 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
35551923 ATATGTGATAAGGTCGAATGGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
35551954 GAATGTGAAA--G--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
35552015 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
*
35552046 GAATGTGAAAGTGTAAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
35552111 ATTATGTGATAAGGCCGAATGGCCAATGTGAT
66 A-TATGTGATAAGGCCTAATAGCCGATGTGAT
*
35552143 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
35552208 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
* * * * * * *
35552239 GAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGACGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
35552302 AAATGTGATAAG
66 ATATGTGATAAG
35552314 TCCCGAAGGG
Statistics
Matches: 519, Mismatches: 28, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
92 88 0.17
94 55 0.11
96 285 0.55
97 91 0.18
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATAGCCGATGTGAT
Found at i:35559538 original size:31 final size:31
Alignment explanation
Indices: 35559503--35559561 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
35559493 CAATCGCATT
35559503 TTAACCCTTT-ATCATTTTCCAATCACATAAA
1 TTAA-CCTTTCATCATTTTCCAATCACATAAA
*
35559534 TTAACCTTTCATCCTTTTCCAATCACAT
1 TTAACCTTTCATCATTTTCCAATCACAT
35559562 CAATGTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.41
Consensus pattern (31 bp):
TTAACCTTTCATCATTTTCCAATCACATAAA
Found at i:35574382 original size:21 final size:20
Alignment explanation
Indices: 35574357--35574399 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
35574347 TGTATTTGCC
35574357 TTTTCTTTCTTTTCTTTTCTT
1 TTTTCTTT-TTTTCTTTTCTT
35574378 TTTTCTTTTTTT-TTTT-TT
1 TTTTCTTTTTTTCTTTTCTT
35574396 TTTT
1 TTTT
35574400 TTGAGAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 4 0.18
21 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (20 bp):
TTTTCTTTTTTTCTTTTCTT
Found at i:35574384 original size:17 final size:15
Alignment explanation
Indices: 35574357--35574401 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
35574347 TGTATTTGCC
*
35574357 TTTTCTTTCTTTTCTT
1 TTTTTTTTCTTTT-TT
35574373 TTCTTTTTTCTTTTTT
1 TT-TTTTTTCTTTTTT
35574389 TTTTTTTT-TTTTT
1 TTTTTTTTCTTTTT
35574402 GAGAAGGCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 6 0.22
17 10 0.37
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:35574400 original size:21 final size:21
Alignment explanation
Indices: 35574357--35574401 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
35574347 TGTATTTGCC
35574357 TTTTCTTTCTTTTCTTTTCTT
1 TTTTCTTTCTTTTCTTTTCTT
* *
35574378 TTTTCTTT-TTTTTTTTTTTT
1 TTTTCTTTCTTTTCTTTTCTT
35574398 TTTT
1 TTTT
35574402 GAGAAGGCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (21 bp):
TTTTCTTTCTTTTCTTTTCTT
Found at i:35576483 original size:94 final size:94
Alignment explanation
Indices: 35576321--35576500 Score: 288
Period size: 94 Copynumber: 1.9 Consensus size: 94
35576311 TTTAATTAGA
* *
35576321 ACTTGAACTCGAACCTGAATAATCAGGTTTAAAATTGAACATGATTACTTTTACGGGATATGACG
1 ACTTGAACTCGAACCTGAATAATCACGTTTAAAATCGAACATGATTACTTTTACGGGATATGACG
*
35576386 TATTAGATCCTCCGGATACATGAAACTTG
66 TATTAGATCCTCCGAATACATGAAACTTG
* * * **
35576415 ACTTGAACTCGAACTTGAATAATCACGTTTAAAATCGAGCATGATTATTTTTACGGGATATGGTG
1 ACTTGAACTCGAACCTGAATAATCACGTTTAAAATCGAACATGATTACTTTTACGGGATATGACG
35576480 TATTAGATCCTCCGAATACAT
66 TATTAGATCCTCCGAATACAT
35576501 TATATATGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (94 bp):
ACTTGAACTCGAACCTGAATAATCACGTTTAAAATCGAACATGATTACTTTTACGGGATATGACG
TATTAGATCCTCCGAATACATGAAACTTG
Found at i:35585160 original size:14 final size:14
Alignment explanation
Indices: 35585143--35585182 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35585133 GAGTCTTGAT
35585143 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
* *
35585157 TTTAGAGTTTATGG
1 TTTAGGGTTTATAG
*
35585171 TTTGGGGTTTAT
1 TTTAGGGTTTAT
35585183 TATTTTATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:35585376 original size:7 final size:7
Alignment explanation
Indices: 35585348--35585532 Score: 97
Period size: 7 Copynumber: 26.6 Consensus size: 7
35585338 AATATATATA
*
35585348 TTTAGAG
1 TTTAGGG
*
35585355 TTTAAGG
1 TTTAGGG
*
35585362 TGTA-GG
1 TTTAGGG
*
35585368 TTTATGG
1 TTTAGGG
35585375 TTT-GGG
1 TTTAGGG
*
35585381 ATTTAAGG
1 -TTTAGGG
35585389 TTTAGGG
1 TTTAGGG
* *
35585396 TTTATGA
1 TTTAGGG
*
35585403 TTTAGTG
1 TTTAGGG
* **
35585410 TTAACAG
1 TTTAGGG
*
35585417 TTTAGTG
1 TTTAGGG
**
35585424 TTTACAG
1 TTTAGGG
35585431 TTTAGGG
1 TTTAGGG
*
35585438 TGTA-GG
1 TTTAGGG
*
35585444 TTTATGG
1 TTTAGGG
*
35585451 TTTAGTG
1 TTTAGGG
* *
35585458 TTTATGA
1 TTTAGGG
35585465 TTTAGGG
1 TTTAGGG
35585472 TTTAGGG
1 TTTAGGG
**
35585479 TTTAGTA
1 TTTAGGG
*
35585486 TTTATGG
1 TTTAGGG
35585493 TTTAGGGG
1 TTTA-GGG
*
35585501 TTAAGGG
1 TTTAGGG
* *
35585508 CTTATGG
1 TTTAGGG
*
35585515 TTTAGGA
1 TTTAGGG
35585522 TTTAGGG
1 TTTAGGG
35585529 TTTA
1 TTTA
35585533 AGGTGTAACA
Statistics
Matches: 128, Mismatches: 45, Indels: 10
0.70 0.25 0.05
Matches are distributed among these distances:
6 12 0.09
7 109 0.85
8 7 0.05
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:35585469 original size:34 final size:35
Alignment explanation
Indices: 35585416--35585482 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
35585406 AGTGTTAACA
35585416 GTTTAGTGTTTACAGTTTAGGGTGTA-GGTTTATG
1 GTTTAGTGTTTACAGTTTAGGGTGTAGGGTTTATG
* *
35585450 GTTTAGTGTTTA-TGATTTAGGGTTTAGGGTTTA
1 GTTTAGTGTTTACAG-TTTAGGGTGTAGGGTTTA
35585483 GTATTTATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.03
34 22 0.76
35 6 0.21
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.49
Consensus pattern (35 bp):
GTTTAGTGTTTACAGTTTAGGGTGTAGGGTTTATG
Found at i:35585484 original size:62 final size:62
Alignment explanation
Indices: 35585382--35585499 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 62
35585372 TGGTTTGGGA
* *
35585382 TTTAAGGTTTAGGGTTTATGATTTAGTGTTAACAGTTTAGTGTTTACAGTTTAGGGTGTAGG
1 TTTAAGGTTTAGGGTTTATGATTTAGGGTTAACAGTTTAGTATTTACAGTTTAGGGTGTAGG
* * * ** **
35585444 TTTATGGTTTAGTGTTTATGATTTAGGGTTTAGGGTTTAGTATTTATGGTTTAGGG
1 TTTAAGGTTTAGGGTTTATGATTTAGGGTTAACAGTTTAGTATTTACAGTTTAGGG
35585500 GTTAAGGGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (62 bp):
TTTAAGGTTTAGGGTTTATGATTTAGGGTTAACAGTTTAGTATTTACAGTTTAGGGTGTAGG
Found at i:35586591 original size:18 final size:18
Alignment explanation
Indices: 35586568--35586612 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
35586558 ATAGTGTGAA
35586568 ACGATCTCC-GACATCCTT
1 ACGATC-CCTGACATCCTT
35586586 ACGATCCCTGACATCCTT
1 ACGATCCCTGACATCCTT
35586604 ACGATCCCT
1 ACGATCCCT
35586613 AAATTTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.22, C:0.40, G:0.11, T:0.27
Consensus pattern (18 bp):
ACGATCCCTGACATCCTT
Found at i:35591266 original size:161 final size:161
Alignment explanation
Indices: 35590996--35591301 Score: 549
Period size: 161 Copynumber: 1.9 Consensus size: 161
35590986 TTATAGAAAG
* * * *
35590996 TTTGCGGCTTTTGAGAAGTAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTTTGGGGAAGAG
1 TTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
35591061 GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
66 GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
35591126 TAAGGTTGGAAGAGAATTGTTATAGAAACTT
131 TAAGGTTGGAAGAGAATTGTTATAGAAACTT
* *
35591157 TTTGTGGCTTTTGAGAAGCAATATGGAGATAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
1 TTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
*
35591222 GAGGTTTTAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
66 GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
35591287 TAAGGTTGGAAGAGA
131 TAAGGTTGGAAGAGA
35591302 GTGTAGGCAA
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 138 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (161 bp):
TTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
TAAGGTTGGAAGAGAATTGTTATAGAAACTT
Found at i:35599417 original size:30 final size:31
Alignment explanation
Indices: 35599359--35599431 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
35599349 GAATGGGTTT
*
35599359 GGGGTAAAGTTGGGAGGAGAGCAAAAGTTATG
1 GGGGGAAAG-TGGGAGGAGAGCAAAAGTTATG
* *
35599391 GGGGGAAAGTGGGAGG-GAGTAAAAGTTTTG
1 GGGGGAAAGTGGGAGGAGAGCAAAAGTTATG
*
35599421 GGAGGAAAGTG
1 GGGGGAAAGTG
35599432 AAGAGGTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 22 0.59
31 7 0.19
32 8 0.22
ACGTcount: A:0.33, C:0.01, G:0.48, T:0.18
Consensus pattern (31 bp):
GGGGGAAAGTGGGAGGAGAGCAAAAGTTATG
Found at i:35602307 original size:56 final size:51
Alignment explanation
Indices: 35602134--35602325 Score: 217
Period size: 53 Copynumber: 3.6 Consensus size: 51
35602124 AAGCCAAAGT
* **
35602134 CATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTCGGTGCCAACGC
1 CATGTCCCAAACATGGTCTTACATGGGACCTCTCGATCTCGGTGCCAACGC
*
35602184 AATGTCCCAAACATGGTCTTATGACATGGGACCTCTCG-TCTCGGTGCCAACGC
1 CATGTCCCAAACATGGTC-T-T-ACATGGGACCTCTCGATCTCGGTGCCAACGC
* * *
35602237 CATGTCTCAAACATGGTCTTATATGGGACCTCTCATGATCTCAAGGATGCCAATGC
1 CATGTCCCAAACATGGTCTTACATGGGACCTCTC--GATCTC--GG-TGCCAACGC
* *
35602293 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAAACATGGTCTTACATGGGACCTCT
35602326 TTACCAAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
50 29 0.24
51 2 0.02
52 3 0.03
53 47 0.39
55 2 0.02
56 37 0.31
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (51 bp):
CATGTCCCAAACATGGTCTTACATGGGACCTCTCGATCTCGGTGCCAACGC
Found at i:35606032 original size:17 final size:17
Alignment explanation
Indices: 35606010--35606042 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35606000 TCTTTTACCA
35606010 GTAACTAGTAATAACCT
1 GTAACTAGTAATAACCT
*
35606027 GTAACTGGTAATAACC
1 GTAACTAGTAATAACC
35606043 CGATCGGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (17 bp):
GTAACTAGTAATAACCT
Found at i:35609795 original size:50 final size:50
Alignment explanation
Indices: 35609718--35609958 Score: 232
Period size: 50 Copynumber: 4.7 Consensus size: 50
35609708 TCGTGTACTT
* * * *
35609718 CCAATGCCATATCCAAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTG
* ** * *
35609768 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTT-TCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCGGTG
* * * ** * *
35609818 CCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTTGTCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTG
* *
35609868 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC--GG-TG
* *
35609924 TCAATACCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
35609959 TCTCTTTACC
Statistics
Matches: 158, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 2 0.01
50 117 0.74
51 2 0.01
53 1 0.01
55 2 0.01
56 34 0.22
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTG
Found at i:35609848 original size:100 final size:100
Alignment explanation
Indices: 35609718--35609910 Score: 260
Period size: 100 Copynumber: 1.9 Consensus size: 100
35609708 TCGTGTACTT
* ** * *
35609718 CCAATGCCATATCCAAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCC
1 CCAACGCCATATCCAAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCC
* *
35609783 AGACATGGTCTTACGGGGGACCTTTCATCTTGGTG
66 AGACATGGTCTTACAGGGGACCTCTCATCTTGGTG
* * ** * *
35609818 CCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTTGTCTTGGTGCCAACGCCATGTCCC
1 CCAACGCCATATCCAAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCC
*
35609883 AGACATGGTCTTACATGGGACCTCTCAT
66 AGACATGGTCTTACAGGGGACCTCTCAT
35609911 GATCTCAAGG
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (100 bp):
CCAACGCCATATCCAAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCC
AGACATGGTCTTACAGGGGACCTCTCATCTTGGTG
Found at i:35623108 original size:35 final size:32
Alignment explanation
Indices: 35623047--35623293 Score: 138
Period size: 33 Copynumber: 7.4 Consensus size: 32
35623037 CAACTATTCA
* * *
35623047 GATGTAAGACCATAGTTGGACCATGGCAGTGTAT
1 GATGTAAGACCATAGCTGGGCTATGGCA-T-TAT
* *
35623081 AAATGTAAGACCATAGCTAGGCTATGGCA-TACT
1 -GATGTAAGACCATAGCTGGGCTATGGCATTA-T
* *
35623114 GATGATAAAACCATAGCTGGGCTATGGCATTCT
1 GATG-TAAGACCATAGCTGGGCTATGGCATTAT
* * * * *
35623147 GATGATAAGACCGTAACT-AGTTATGGCACTAT
1 GATG-TAAGACCATAGCTGGGCTATGGCATTAT
* * * *
35623179 GGACGTAAGACCATGGTTGGGCCATGGCAGTGTAT
1 -GATGTAAGACCATAGCTGGGCTATGGCA-T-TAT
* * * *
35623214 ACATGTAAGACCATAGCTGGGCTATGACGTTCT
1 -GATGTAAGACCATAGCTGGGCTATGGCATTAT
** * *
35623247 GATGATAAGACCATAAATGGGTTATGACATTATT
1 GATG-TAAGACCATAGCTGGGCTATGGCATTA-T
* *
35623281 AACGTAAGACCAT
1 GATGTAAGACCAT
35623294 GGCAGAGCCA
Statistics
Matches: 161, Mismatches: 42, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
32 27 0.17
33 82 0.51
34 5 0.03
35 47 0.29
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (32 bp):
GATGTAAGACCATAGCTGGGCTATGGCATTAT
Found at i:35623261 original size:33 final size:33
Alignment explanation
Indices: 35623086--35623261 Score: 142
Period size: 33 Copynumber: 5.3 Consensus size: 33
35623076 TGTATAAATG
* *
35623086 TAAGACCATAGCTAGGCTATGGCATACTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
*
35623119 TAAAACCATAGCTGGGCTATGGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
* * * * * * *
35623152 TAAGACCGTAACT-AGTTATGGCACTATGGACG-
1 TAAGACCATAGCTGGGCTATGGCATTCT-GATGA
* * * * *
35623184 TAAGACCATGGTTGGGCCATGGCAGTGTATACATG-
1 TAAGACCATAGCTGGGCTATGGCA-T-TCT-GATGA
* *
35623219 TAAGACCATAGCTGGGCTATGACGTTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
35623252 TAAGACCATA
1 TAAGACCATA
35623262 AATGGGTTAT
Statistics
Matches: 109, Mismatches: 29, Indels: 10
0.74 0.20 0.07
Matches are distributed among these distances:
32 22 0.20
33 62 0.57
34 1 0.01
35 24 0.22
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTCTGATGA
Found at i:35623289 original size:133 final size:133
Alignment explanation
Indices: 35623050--35623291 Score: 333
Period size: 133 Copynumber: 1.8 Consensus size: 133
35623040 CTATTCAGAT
*
35623050 GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGGCATACTG
1 GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGACATACTG
** * * *
35623115 ATGATAAAACCATAGCTGGGCTATGGCATTCTGATGATAAGACCGTAACTAGTTATGGCACTATG
66 ATGATAAAACCATAAATGGGCTATGACATTCTAACGATAAGACCGTAACTAGTTATGGCACTATG
35623180 GAC
131 GAC
* * * * * *
35623183 GTAAGACCATGGTTGGGCCATGGCAGTGTATACATGTAAGACCATAGCTGGGCTATGACGTTCTG
1 GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGACATACTG
* * *
35623248 ATGATAAGACCATAAATGGGTTATGACATTATTAACG-TAAGACC
66 ATGATAAAACCATAAATGGGCTATGACATT-CTAACGATAAGACC
35623292 ATGGCAGAGC
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
133 90 0.97
134 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (133 bp):
GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGACATACTG
ATGATAAAACCATAAATGGGCTATGACATTCTAACGATAAGACCGTAACTAGTTATGGCACTATG
GAC
Found at i:35628847 original size:21 final size:20
Alignment explanation
Indices: 35628806--35628850 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
35628796 GTCTATGGGA
*
35628806 ACGGGCATGTGGAGGGTCAC
1 ACGGGCATGTGGAGAGTCAC
*
35628826 ACGGGCATGTGGAATAGTCAC
1 ACGGGCATGTGG-AGAGTCAC
35628847 ACGG
1 ACGG
35628851 CAGTGTGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.24, C:0.20, G:0.40, T:0.16
Consensus pattern (20 bp):
ACGGGCATGTGGAGAGTCAC
Found at i:35634477 original size:98 final size:98
Alignment explanation
Indices: 35634305--35634499 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
35634295 ACAACAAAAT
*
35634305 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
35634370 TCTAGAATCCCAAATTCAGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
35634403 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* * *
35634468 TTTAAAATCCCAAACTCGGAATATTTCTTTTA
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTA
35634500 TTATTTTTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
Found at i:35635981 original size:19 final size:19
Alignment explanation
Indices: 35635954--35636047 Score: 116
Period size: 19 Copynumber: 4.8 Consensus size: 19
35635944 AATCATATAT
35635954 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
35635973 TCCAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
35635992 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35636011 TCTAAGATTGCATATACCATA
1 TCTAAGATTGCATAT--CATA
**
35636032 TCTTGGATTGCATATC
1 TCTAAGATTGCATATC
35636048 CTCAAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 46 0.73
21 17 0.27
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35636013 original size:21 final size:21
Alignment explanation
Indices: 35635928--35636047 Score: 96
Period size: 19 Copynumber: 5.9 Consensus size: 21
35635918 TACAAATTAA
* *
35635928 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTGC-ATATCAT
*
35635950 ATATTCTAAGATTGCATATCAT
1 AT-CTCTAAGATTGCATATCAT
35635972 ATC-C-AAGATT--ATAT-AT
1 ATCTCTAAGATTGCATATCAT
35635988 CATCTCTAAGATTGCATATCAT
1 -ATCTCTAAGATTGCATATCAT
35636010 A--TCTAAGATTGCATATACCAT
1 ATCTCTAAGATTGCATAT--CAT
*
35636031 ATCT-T-GGATTGCATATC
1 ATCTCTAAGATTGCATATC
35636048 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 25
0.73 0.04 0.22
Matches are distributed among these distances:
16 2 0.02
17 7 0.09
18 1 0.01
19 28 0.34
20 1 0.01
21 19 0.23
22 13 0.16
23 11 0.13
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCTCTAAGATTGCATATCAT
Found at i:35636594 original size:217 final size:217
Alignment explanation
Indices: 35636250--35637564 Score: 2423
Period size: 217 Copynumber: 6.1 Consensus size: 217
35636240 AGGAATCAGT
* * * * * *
35636250 GCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTACCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * * *
35636315 AACTTCAGGAGGATAAGACTTGCTTCCTTAGTCTTCTCCACTGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
* * *
35636380 GATGCGATCTGCTCTCCGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
35636445 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
* *
35636467 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
*
35636532 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
35636597 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
35636662 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
35636684 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
35636749 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
35636814 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
35636879 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
35636901 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
35636966 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
35637031 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
35637096 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
35637118 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* *
35637183 AACTTCGGGAGGATAAGACTTGCTTACTTAGTCTTGTCTACCGCAACTTCAGGGAGATCAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
*
35637248 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
35637313 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
35637335 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
35637400 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
* * *
35637465 GATGTGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTATAATTTTAATCCACTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
35637530 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
*
35637552 ACTTTAATCTGCT
1 GCTTTAATCTGCT
35637565 TCCCACTATC
Statistics
Matches: 1075, Mismatches: 23, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
217 1075 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTGTCG
Found at i:35637629 original size:44 final size:44
Alignment explanation
Indices: 35637534--35638159 Score: 148
Period size: 44 Copynumber: 14.3 Consensus size: 44
35637524 CTGCAACTTC
* * *
35637534 AGGGAGATAGGA-TTGTCGACTTTAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * *
35637577 -GGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
35637621 AGGGAGATAAGATCT-ACAATCTTCAACCTACTCCACTACTGCTC
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * * *
35637665 AGGGAAACAAGGCTTGGT-GGCTTAAATTTGCTTCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-TCCACTACTGCTT
* * *
35637708 -GGAAAGATAAGATTTGTCGTCTTCGATTTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * * *
35637752 AGGGAGATAAGATCT-ACAATTTTCAACCTTCTCCGCTGCTACTT
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
35637796 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * * * * *
35637840 -GGAAATATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * ** *
35637884 AGGGAGATAAGATCT-ACAATTTTCAACCTTCTCTGCTACTGCTC
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
35637928 AGGGAGACAAGGCTTGGT-GGCTTAAATATGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* ** *
35637972 -GGAAAGATAAGA-TTCACTGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * ** * * * *
35638016 AGGGAGATAAGATCT-ACAATCTTCAGCCTTCTCCGCTGCTGCTC
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
35638060 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* ** * * * *
35638104 TGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTT
1 AGGGAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
35638148 AGGGAGATAAGA
1 AGGGAGATAAGA
35638160 GCTACAATTT
Statistics
Matches: 394, Mismatches: 146, Indels: 85
0.63 0.23 0.14
Matches are distributed among these distances:
42 41 0.10
43 48 0.12
44 263 0.67
45 30 0.08
46 12 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGGGAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
Found at i:35637902 original size:132 final size:132
Alignment explanation
Indices: 35637557--35638172 Score: 991
Period size: 132 Copynumber: 4.7 Consensus size: 132
35637547 TGTCGACTTT
* * *
35637557 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* * * * *
35637622 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
35637687 TA
131 TA
* * * *
35637689 AATTTGCTT-CCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATTTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
35637753 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTACTTAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
35637818 TA
131 TA
* *
35637820 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
35637885 GGGAGATAAGATCTACAATTTTCAACCTTCTCTGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
35637950 TA
131 TA
* * *
35637952 AATATGCTTCCCACTATCTTGGAAAGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
35638017 GGGAGATAAGATCTACAATCTTCAGCCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
35638082 TA
131 TA
* *
35638084 AATCTGCTTCCCACTATCTTTGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
35638149 GGGAGATAAGAGCTACAATTTTCA
66 GGGAGATAAGATCTACAATTTTCA
35638173 CTGATCTGTT
Statistics
Matches: 447, Mismatches: 36, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
131 121 0.27
132 326 0.73
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:35639401 original size:12 final size:12
Alignment explanation
Indices: 35639381--35639434 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
35639371 TGGCCTCTCC
*
35639381 TTTTACTTTTACT
1 TTTTCCTTTT-CT
*
35639394 TTTTCTTTTTTCCT
1 TTTTC-CTTTT-CT
35639408 TTTTCCTTTTCT
1 TTTTCCTTTTCT
35639420 TTTTCCTTTT-T
1 TTTTCCTTTTCT
35639431 TTTT
1 TTTT
35639435 GAAATATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 5 0.14
12 12 0.33
13 8 0.22
14 11 0.31
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCCTTTTCT
Found at i:35639431 original size:20 final size:20
Alignment explanation
Indices: 35639394--35639430 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
35639384 TACTTTTACT
35639394 TTTTCTTTTTTCCTTTTTCC
1 TTTTCTTTTTTCCTTTTTCC
35639414 TTTTC-TTTTTCCTTTTT
1 TTTTCTTTTTTCCTTTTT
35639431 TTTTGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTTCCTTTTTCC
Found at i:35660719 original size:14 final size:14
Alignment explanation
Indices: 35660700--35660726 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35660690 GTGGTCAAGT
35660700 TGAACTGAACCGAG
1 TGAACTGAACCGAG
35660714 TGAACTGAACCGA
1 TGAACTGAACCGA
35660727 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:35662760 original size:50 final size:50
Alignment explanation
Indices: 35662644--35662936 Score: 444
Period size: 50 Copynumber: 5.8 Consensus size: 50
35662634 GATCATAACA
* * *
35662644 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
35662695 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
35662745 TGCCAAAGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
35662795 TGCCCATGCCATGTCCCAGACATGGTCTTACA-GAGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
*
35662845 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
35662895 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGAGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
35662937 TTACCCAAAT
Statistics
Matches: 220, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
49 1 0.00
50 183 0.83
51 36 0.16
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:35663323 original size:29 final size:31
Alignment explanation
Indices: 35663273--35663330 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
35663263 CATCGACTCT
* *
35663273 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTATCATTTTTGCCCCTA
*
35663303 AACTTTTGCATAATTA-CATTTTTGCCCC
1 AACTTTTGCAAAATTATCATTTTTGCCCC
35663331 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (31 bp):
AACTTTTGCAAAATTATCATTTTTGCCCCTA
Found at i:35670365 original size:50 final size:50
Alignment explanation
Indices: 35670249--35670483 Score: 281
Period size: 50 Copynumber: 4.7 Consensus size: 50
35670239 GATCATAACA
* * ** * **
35670249 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTACTCATGTTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * * *
35670300 TGCCCATGCCATGTCCCAGACATGGTCTTATATGTGTCCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
35670350 TGCCCATGCCATGTCCCTGACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
35670400 TGCCAATGTCATGTCCCAAACATGGTCTTACGTGGGACATCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
35670450 TGCCAATGTCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
35670484 ATACCTCTTT
Statistics
Matches: 157, Mismatches: 27, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 125 0.80
51 32 0.20
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:35670877 original size:29 final size:30
Alignment explanation
Indices: 35670827--35670883 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
35670817 CCTCGACTCT
* *
35670827 AACTTTTTCAAAATTATGATTTTGCCCCTA
1 AACTTTTGCAAAATTATCATTTTGCCCCTA
* *
35670857 AACTTTTGCATAATTA-CATTTTTCCCC
1 AACTTTTGCAAAATTATCATTTTGCCCC
35670884 AAGGCTCGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (30 bp):
AACTTTTGCAAAATTATCATTTTGCCCCTA
Found at i:35677295 original size:27 final size:27
Alignment explanation
Indices: 35677265--35677317 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
35677255 TAATAAACCT
* * * *
35677265 TAAAATAGATTAATGAGATAAATAAAA
1 TAAAATAAATAAATAAGAAAAATAAAA
35677292 TAAAATAAATAAATAAGAAAAATAAA
1 TAAAATAAATAAATAAGAAAAATAAA
35677318 CAAATAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.23
Consensus pattern (27 bp):
TAAAATAAATAAATAAGAAAAATAAAA
Found at i:35677315 original size:17 final size:17
Alignment explanation
Indices: 35677282--35677338 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
35677272 GATTAATGAG
35677282 ATAAATAAAATAAAATAA
1 ATAAATAAAA-AAAATAA
*
35677300 ATAAATAAGAAAAATAA
1 ATAAATAAAAAAAATAA
* * *
35677317 ACAAATAATAAAAATCA
1 ATAAATAAAAAAAATAA
35677334 ATAAA
1 ATAAA
35677339 CTAATCAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 25 0.74
18 9 0.26
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (17 bp):
ATAAATAAAAAAAATAA
Done.