Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 95 of 335
Found at i:30521993 original size:3 final size:3
Alignment explanation
Indices: 30521987--30522168 Score: 83
Period size: 3 Copynumber: 60.7 Consensus size: 3
30521977 ATAATAATAA
* *
30521987 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAA TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * *
30522033 T-T TAC TAT TAT TCAA TA- TAC TAT TAT TGT T-T TCT T-T T-T TTT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
30522074 TAT TAT TAG TAGT AACG TAA TAG TAT TTT TAT TAT T-T T-T TAT TAT
1 TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
30522119 TTT TACCT TTT TAT TAC TAT TAT TAT TAAT CTAT TAT TAT TAT T-T TAT
1 TAT TA--T TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT
30522167 TA
1 TA
30522169 ATATAGTGTT
Statistics
Matches: 139, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
2 16 0.12
3 111 0.80
4 9 0.06
5 3 0.02
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:30522623 original size:27 final size:28
Alignment explanation
Indices: 30522566--30522623 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
30522556 CATTTTGTAT
* * *
30522566 ATTATTGATTTTCGGATTCTTTTCTTAC
1 ATTATTGATTTTCGAATTCATTTATTAC
30522594 ATTATT-ATTTT-GAATTCATTTATTATC
1 ATTATTGATTTTCGAATTCATTTATTA-C
30522621 ATT
1 ATT
30522624 TTCAAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.42
27 9 0.35
28 6 0.23
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTATTGATTTTCGAATTCATTTATTAC
Found at i:30528753 original size:88 final size:88
Alignment explanation
Indices: 30528599--30529255 Score: 890
Period size: 88 Copynumber: 7.5 Consensus size: 88
30528589 AATCTCCACT
* * * * * * * *
30528599 AGCCTTAACTCCCTAAACAGTAAGGCAACGGGCTGGAAATTACAGATCTTATCTCCTTAAGCAGT
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
30528664 AGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * *
30528687 AGCCTTATGCCCCTAAGTAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGTAGT
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
30528752 AGTGGAGTAGATCGAAGACAGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * * * * *
30528775 AACCTTA-ACCCCTAACCAGTA-GGCAACAGGATGAAGATTACAGATCTTATCTCCCTGAGCAGT
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
30528838 AGTGGAGCGGGTCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * *
30528861 AGCTTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTACAGATCTTATCT-CCTAAGCAGT
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
30528925 AATGGAGCAAATCGAAGGA-GGTG
66 AGTGGAGCAGATCGAA-GACGGTG
*
30528948 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
30529013 AGTGAAGCAGATTGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * *
30529036 AGCCTTATTCCCCTAAACAGTAGGGAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAAT
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
**
30529101 AGTGGAGTGGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* ** *
30529124 AGCCTTATCCCCCTAAGCAGTAGGGAAACATGCCAAAAATTACAGATCTTATCTCCCTAAGCAGC
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
30529189 AGTGGAGCAGATCGAAGATGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
30529212 AGCCTTATCCTCCTAAGCAGTAGGGAAACAGGCTGAAGATTACA
1 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACA
30529256 AATCATAAGC
Statistics
Matches: 496, Mismatches: 68, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
86 61 0.12
87 100 0.20
88 335 0.68
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (88 bp):
AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTG
Found at i:30528999 original size:44 final size:44
Alignment explanation
Indices: 30528951--30529187 Score: 137
Period size: 44 Copynumber: 5.4 Consensus size: 44
30528941 GGAGGTGAGC
*
30528951 CTTATCCCCCTAAGCAGTAGGGAAACAGGCTGGAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGAT
* * * * * * * *
30528995 CTTATCTCCCTAAGCAGTAGTGAAGCA-GATTG-AA-GACGGTGAGC
1 CTTATCCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTAC--AGA-T
* * *
30529039 CTTATTCCCCTAAACAGTAGGGAAACAGGCTAAAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGAT
* * ** * * * * *
30529083 CTTATCTCCCTAAGCAATAGTGG--AGTGGATCG-AA-GACGGTGAGC
1 CTTATCCCCCTAAGCAGTAG-GGAAACAGGCTAGAAATTAC--AGA-T
* * *
30529127 CTTATCCCCCTAAGCAGTAGGGAAACATGCCAAAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGAT
*
30529171 CTTATCTCCCTAAGCAG
1 CTTATCCCCCTAAGCAG
30529188 CAGTGGAGCA
Statistics
Matches: 135, Mismatches: 44, Indels: 28
0.65 0.21 0.14
Matches are distributed among these distances:
41 4 0.03
42 4 0.03
43 13 0.10
44 96 0.71
45 10 0.07
46 4 0.03
47 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (44 bp):
CTTATCCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGAT
Found at i:30529250 original size:44 final size:44
Alignment explanation
Indices: 30528851--30529251 Score: 135
Period size: 44 Copynumber: 9.1 Consensus size: 44
30528841 GGAGCGGGTC
* * * *
30528851 GAAGACGGTGAGCTTTAACCCCCTAAGCAGTAGGGAAACAGGCT
1 GAAGATGGTGAGCCTTATCCTCCTAAGCAGTAGGGAAACAGGCT
* * * *
30528895 GAAGAT--TACAGATCTTAT-CTCCTAAGCAGTAATGGAGCAA-A-TC-
1 GAAGATGGT-GAG-CCTTATCCTCCTAAGCAGT-A-GG-GAAACAGGCT
*
30528938 GAAGGA-GGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCT
1 GAA-GATGGTGAGCCTTATCCTCCTAAGCAGTAGGGAAACAGGCT
* * * * **
30528982 GGAA-AT--TACAGATCTTAT-CTCCCTAAGCAGTAGTGAAGCAGATT
1 -GAAGATGGT-GAG-CCTTATCCT-CCTAAGCAGTAGGGAAACAGGCT
* *
30529026 GAAGACGGTGAGCCTTATTCC-CCTAAACAGTAGGGAAACAGGCT
1 GAAGATGGTGAGCCTTA-TCCTCCTAAGCAGTAGGGAAACAGGCT
* * * * * ** *
30529070 AAAAAT--TACAGATCTTAT-CTCCCTAAGCAATAGTGG--AGTGGAT
1 GAAGATGGT-GAG-CCTTATCCT-CCTAAGCAGTAG-GGAAACAGGCT
* * * *
30529113 CGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACATGCC
1 -GAAGATGGTGAGCCTTATCCTCCTAAGCAGTAGGGAAACAGGCT
* * * * * * *
30529158 AAAAAT--TACAGATCTTAT-CTCCCTAAGCAGCAGTGG-AGCA-GAT
1 GAAGATGGT-GAG-CCTTATCCT-CCTAAGCAGTAG-GGAAACAGGCT
30529201 CGAAGATGGTGAGCCTTATCCTCCTAAGCAGTAGGGAAACAGGCT
1 -GAAGATGGTGAGCCTTATCCTCCTAAGCAGTAGGGAAACAGGCT
30529246 GAAGAT
1 GAAGAT
30529252 TACAAATCAT
Statistics
Matches: 247, Mismatches: 67, Indels: 86
0.62 0.17 0.22
Matches are distributed among these distances:
41 3 0.01
42 8 0.03
43 45 0.18
44 159 0.64
45 25 0.10
46 7 0.03
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (44 bp):
GAAGATGGTGAGCCTTATCCTCCTAAGCAGTAGGGAAACAGGCT
Found at i:30529534 original size:13 final size:13
Alignment explanation
Indices: 30529516--30529596 Score: 85
Period size: 13 Copynumber: 6.0 Consensus size: 13
30529506 CAACCCAAAT
30529516 ACCACCCCACTAA
1 ACCACCCCACTAA
30529529 ACCACCCCACTAA
1 ACCACCCCACTAA
*
30529542 CTCCAACACCCCACTAA
1 ----ACCACCCCACTAA
30529559 ACCGA--CCACTAA
1 ACC-ACCCCACTAA
30529571 ACCACCCCACTAA
1 ACCACCCCACTAA
*
30529584 ACCACCTCACTAA
1 ACCACCCCACTAA
30529597 CTCCATCACC
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
11 1 0.02
12 10 0.17
13 34 0.59
14 1 0.02
17 12 0.21
ACGTcount: A:0.38, C:0.51, G:0.01, T:0.10
Consensus pattern (13 bp):
ACCACCCCACTAA
Found at i:30529554 original size:30 final size:30
Alignment explanation
Indices: 30529518--30529611 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
30529508 ACCCAAATAC
30529518 CACCCCACTAAACCACCCCACTAACTCCAA
1 CACCCCACTAAACCACCCCACTAACTCCAA
*
30529548 CACCCCACTAAACCGA--CCACTAA----AC
1 CACCCCACTAAACC-ACCCCACTAACTCCAA
* *
30529573 CACCCCACTAAACCACCTCACTAACTCCAT
1 CACCCCACTAAACCACCCCACTAACTCCAA
30529603 CACCCCACT
1 CACCCCACT
30529612 TGATTGTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
24 1 0.02
25 15 0.28
26 6 0.11
29 7 0.13
30 24 0.44
31 1 0.02
ACGTcount: A:0.35, C:0.52, G:0.01, T:0.12
Consensus pattern (30 bp):
CACCCCACTAAACCACCCCACTAACTCCAA
Found at i:30530000 original size:3 final size:3
Alignment explanation
Indices: 30529994--30530033 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
30529984 TATTTTAAAA
*
30529994 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30530034 TTATTATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30530038 original size:3 final size:3
Alignment explanation
Indices: 30530032--30530086 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
30530022 ATAATAATAA
30530032 TAT 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 TAT
30530080 TAT TAT T
1 TAT TAT T
30530087 CTATATACTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30530508 original size:26 final size:25
Alignment explanation
Indices: 30530450--30530509 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
30530440 TCTATTTTAT
30530450 TTATTTATTTCAGATTTTTACATAA
1 TTATTTATTTCAGATTTTTACATAA
*
30530475 -TATCTATTTCCA-ACTTTTATACA-AA
1 TTATTTATTT-CAGA-TTTT-TACATAA
30530500 TTATTTATTT
1 TTATTTATTT
30530510 TAAATGTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 9 0.31
25 8 0.28
26 12 0.41
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.55
Consensus pattern (25 bp):
TTATTTATTTCAGATTTTTACATAA
Found at i:30530659 original size:27 final size:28
Alignment explanation
Indices: 30530602--30530659 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
30530592 CATTTTGTAT
* * *
30530602 ATTATTGATTTTCGGATTCTTTTCTTAC
1 ATTATTGATTTTCGAATTCATTTATTAC
30530630 ATTATT-ATTTT-GAATTCATTTATTATC
1 ATTATTGATTTTCGAATTCATTTATTA-C
30530657 ATT
1 ATT
30530660 TTCAAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.42
27 9 0.35
28 6 0.23
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTATTGATTTTCGAATTCATTTATTAC
Found at i:30532473 original size:19 final size:19
Alignment explanation
Indices: 30532449--30532494 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
30532439 CTTACTTTCT
30532449 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
30532468 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
30532487 TGTGCATT
1 TTTGCATT
30532495 AAACTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:30536786 original size:88 final size:88
Alignment explanation
Indices: 30536663--30537294 Score: 892
Period size: 88 Copynumber: 7.2 Consensus size: 88
30536653 ACAATAAGGC
* * *
30536663 AACAGGCTGGAAATTAAAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
1 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
* *
30536728 CTTATGCCCCTAAGTAGTAGGGA
66 CTTATCCCCCTAAGCAGTAGGGA
* *
30536751 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTGAAC
1 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
* **
30536816 CTTAACCCCCTAAGCAGTAGGCC
66 CTTATCCCCCTAAGCAGTAGGGA
* * * * *
30536839 AACAGGATGAAGATTACAGATCTTATCTCCCTGAGCAGTAGTGGAGCGGGTCGAAGACGGTGAGC
1 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
* *
30536904 TTTAACCCCCTAAGCAGTAGGGA
66 CTTATCCCCCTAAGCAGTAGGGA
* * * *
30536927 AACAGGCTGAAGATTATAGATCTTATCT-CCTAAGCAGTAGTGGAGCAAATCGAAGGA-GGTGAA
1 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GACGGTGAG
30536990 CCTTAT-CCCCTAAGCAGTAGGGA
65 CCTTATCCCCCTAAGCAGTAGGGA
* * *
30537013 AACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGACGGTGAGC
1 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
* *
30537078 CTTATTCCCCTAAACAGTAGGGA
66 CTTATCCCCCTAAGCAGTAGGGA
* * **
30537101 AACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAATAGTGGAGTGGATCGAAGACGGTGAGC
1 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
*
30537166 CTTATCCCCCTAAGCAGTAGAGA
66 CTTATCCCCCTAAGCAGTAGGGA
* ** * *
30537189 AACATGCCAAAAATTACAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGTGAGC
1 AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
*
30537254 CTTATCCTCCTAAGCAGTAGGGA
66 CTTATCCCCCTAAGCAGTAGGGA
*
30537277 AACAGGCTGAAGATTACA
1 AACAGGCTGAAAATTACA
30537295 AATCATAAGC
Statistics
Matches: 480, Mismatches: 60, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
86 44 0.09
87 65 0.14
88 371 0.77
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (88 bp):
AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
CTTATCCCCCTAAGCAGTAGGGA
Found at i:30537258 original size:44 final size:43
Alignment explanation
Indices: 30536684--30537273 Score: 207
Period size: 44 Copynumber: 13.5 Consensus size: 43
30536674 AATTAAAGAT
* *
30536684 CTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGTGAGC
* * * * * *
30536728 CTTATGC-CCCTAAGTAGTAG-GGAAACAG-GCTGAAAAT-TACAGAT
1 CTTAT-CTCCCTAAGCAGTAGTGG-AGCAGATC-GAAGATGT-GAG-C
*
30536772 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTGAAC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGTGAGC
* * * * * *
30536816 CTTAACCCCCTAAGCAGTAG-GCCAACAGGAT-GAAGAT-TACAGAT
1 CTTATCTCCCTAAGCAGTAGTG-GAGCA-GATCGAAGATGT-GAG-C
* * * *
30536860 CTTATCTCCCTGAGCAGTAGTGGAGCGGGTCGAAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGTGAGC
* * * * * * *
30536904 TTTAACCCCCTAAGCAGTAG-GGAAACAG-GCTGAAGAT-TATAGAT
1 CTTATCTCCCTAAGCAGTAGTGG-AGCAGATC-GAAGATGT-GAG-C
* * *
30536948 CTTATCT-CCTAAGCAGTAGTGGAGCAAATCGAAGGAGGTGAAC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGTGAGC
* * * * *
30536991 CTTATC-CCCTAAGCAGTAG-GGAAACAGGCTGGAA-AT-TACAGAT
1 CTTATCTCCCTAAGCAGTAGTGG-AGCA-GATCGAAGATGT-GAG-C
* * *
30537034 CTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGTGAGC
* * * * * * *
30537078 CTTAT-TCCCCTAAACAGTAG-GGAAACAG-GCTAAAAAT-TACAGAT
1 CTTATCT-CCCTAAGCAGTAGTGG-AGCAGATC-GAAGATGT-GAG-C
* ** *
30537122 CTTATCTCCCTAAGCAATAGTGGAGTGGATCGAAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGTGAGC
* * * * * * * * *
30537166 CTTATCCCCCTAAGCAGTAGAGAAACATG-CCAAAAAT-TACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGATGT-GAG-C
*
30537210 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-GTGAGC
30537254 CTTATC-CTCCTAAGCAGTAG
1 CTTATCTC-CCTAAGCAGTAG
30537274 GGAAACAGGC
Statistics
Matches: 381, Mismatches: 112, Indels: 106
0.64 0.19 0.18
Matches are distributed among these distances:
41 1 0.00
42 9 0.02
43 74 0.19
44 267 0.70
45 25 0.07
46 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGTGAGC
Found at i:30537573 original size:13 final size:13
Alignment explanation
Indices: 30537555--30537635 Score: 76
Period size: 13 Copynumber: 6.0 Consensus size: 13
30537545 CAACCCAAAT
30537555 ACCACCCCACTAA
1 ACCACCCCACTAA
30537568 ACCACCCCACTAA
1 ACCACCCCACTAA
*
30537581 CTCCAACACCCCACTAA
1 ----ACCACCCCACTAA
30537598 ACCGA--CCACTAA
1 ACC-ACCCCACTAA
*
30537610 ACCACCCAACTAA
1 ACCACCCCACTAA
*
30537623 ACCACCTCACTAA
1 ACCACCCCACTAA
30537636 CTCCATCACC
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
11 1 0.02
12 10 0.18
13 32 0.57
14 1 0.02
17 12 0.21
ACGTcount: A:0.40, C:0.49, G:0.01, T:0.10
Consensus pattern (13 bp):
ACCACCCCACTAA
Found at i:30537593 original size:30 final size:30
Alignment explanation
Indices: 30537557--30537650 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 30
30537547 ACCCAAATAC
30537557 CACCCCACTAAACCACCCCACTAACTCCAA
1 CACCCCACTAAACCACCCCACTAACTCCAA
*
30537587 CACCCCACTAAACCGA--CCACTAA----AC
1 CACCCCACTAAACC-ACCCCACTAACTCCAA
* * *
30537612 CACCCAACTAAACCACCTCACTAACTCCAT
1 CACCCCACTAAACCACCCCACTAACTCCAA
30537642 CACCCCACT
1 CACCCCACT
30537651 TGATTGTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
24 1 0.02
25 14 0.27
26 6 0.12
29 7 0.13
30 23 0.44
31 1 0.02
ACGTcount: A:0.36, C:0.51, G:0.01, T:0.12
Consensus pattern (30 bp):
CACCCCACTAAACCACCCCACTAACTCCAA
Found at i:30538035 original size:3 final size:3
Alignment explanation
Indices: 30538029--30538065 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
30538019 TATTATTTTA
*
30538029 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30538066 TTATATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30538075 original size:3 final size:3
Alignment explanation
Indices: 30538064--30538111 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
30538054 ATAATAATAA
* *
30538064 TAT TA- TAT TAT TAT TAT TGT TAT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30538111 T
1 T
30538112 CTATATACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30538407 original size:3 final size:3
Alignment explanation
Indices: 30538399--30538425 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
30538389 AATCAATTTA
30538399 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
30538426 ATTTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30538458 original size:20 final size:21
Alignment explanation
Indices: 30538420--30538458 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
30538410 TTATTATTAT
* *
30538420 TATTATATTTTTTCTTTTTTG
1 TATTATATTTATTCATTTTTG
30538441 TATT-TATTTATTCATTTT
1 TATTATATTTATTCATTTT
30538459 ATTTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (21 bp):
TATTATATTTATTCATTTTTG
Found at i:30543989 original size:20 final size:22
Alignment explanation
Indices: 30543950--30543990 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
30543940 TTTAATTTTT
30543950 TAAAGAATTCAAAAAATATTTC
1 TAAAGAATTCAAAAAATATTTC
*
30543972 TAAA-AATT-AAAAATTATTT
1 TAAAGAATTCAAAAAATATTT
30543991 AAAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAGAATTCAAAAAATATTTC
Found at i:30545057 original size:19 final size:20
Alignment explanation
Indices: 30545016--30545064 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
30545006 ATTTATATTT
* * *
30545016 TAAAAAAATATTAATTACTA
1 TAAAAAATTATTAAGTACGA
30545036 TAAAAAATTATT-AGTACGA
1 TAAAAAATTATTAAGTACGA
30545055 TAAAATAATT
1 TAAAA-AATT
30545065 TCTAAATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
TAAAAAATTATTAAGTACGA
Found at i:30545781 original size:26 final size:26
Alignment explanation
Indices: 30545752--30545803 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
30545742 AAATGTATTT
30545752 TTGAGGCTCCGTTTTTATAAATTAGA
1 TTGAGGCTCCGTTTTTATAAATTAGA
30545778 TTGAGGCTCCGTTTTTATAAATTAGA
1 TTGAGGCTCCGTTTTTATAAATTAGA
30545804 CTCGTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
TTGAGGCTCCGTTTTTATAAATTAGA
Found at i:30546068 original size:35 final size:37
Alignment explanation
Indices: 30546005--30546088 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 37
30545995 GCCGCATAAG
* * *
30546005 TATATTATTATAAAATTTAAAGTAAATATAT-ATTATA
1 TATATTA-TATAAAATTAAAACTAAATATATAAGTATA
* * *
30546042 -ATATTATATAATATTAAAACTTAATATTTAAGTATA
1 TATATTATATAAAATTAAAACTAAATATATAAGTATA
30546078 TATATTATATA
1 TATATTATATA
30546089 TTATATTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 18 0.46
36 11 0.28
37 10 0.26
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (37 bp):
TATATTATATAAAATTAAAACTAAATATATAAGTATA
Found at i:30546116 original size:15 final size:14
Alignment explanation
Indices: 30546098--30546159 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
30546088 ATTATATTAT
*
30546098 AATATAAAACAAAGA
1 AATA-AAAAAAAAGA
30546113 AATAAAAGAAAAAGA
1 AATAAAA-AAAAAGA
*
30546128 AATAGAAAAGAAAGA
1 AATA-AAAAAAAAGA
*
30546143 AAGAAAACAAAACAGA
1 AATAAAA-AAAA-AGA
30546159 A
1 A
30546160 GGGAAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 6 0.15
15 26 0.67
16 7 0.18
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.06
Consensus pattern (14 bp):
AATAAAAAAAAAGA
Found at i:30546144 original size:30 final size:31
Alignment explanation
Indices: 30546098--30546159 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
30546088 ATTATATTAT
* * *
30546098 AATATAAAACAAAGAAATAAAAGAAAA-AGA
1 AATAGAAAACAAAGAAAGAAAACAAAACAGA
*
30546128 AATAGAAAAGAAAGAAAGAAAACAAAACAGA
1 AATAGAAAACAAAGAAAGAAAACAAAACAGA
30546159 A
1 A
30546160 GGGAAAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.06
Consensus pattern (31 bp):
AATAGAAAACAAAGAAAGAAAACAAAACAGA
Found at i:30546620 original size:20 final size:20
Alignment explanation
Indices: 30546595--30546642 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
30546585 GGAATTTAAG
30546595 AAAATATTGAGTAAAAATTT
1 AAAATATTGAGTAAAAATTT
30546615 AAAATATTGAGTAAAAATTT
1 AAAATATTGAGTAAAAATTT
30546635 AAAATATT
1 AAAATATT
30546643 AAATATGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (20 bp):
AAAATATTGAGTAAAAATTT
Found at i:30546912 original size:2 final size:2
Alignment explanation
Indices: 30546905--30546955 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
30546895 GATTGAATTG
30546905 AT AT AT AT AT AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
30546948 AT AT AT AT
1 AT AT AT AT
30546956 TATGAATGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30550007 original size:20 final size:20
Alignment explanation
Indices: 30549982--30550024 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
30549972 TCATCAAGGT
30549982 TGTAAAGCTTTTTTAGCCTA
1 TGTAAAGCTTTTTTAGCCTA
30550002 TGTAAAGCTTTTTTAGCCTA
1 TGTAAAGCTTTTTTAGCCTA
30550022 TGT
1 TGT
30550025 TATCAATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (20 bp):
TGTAAAGCTTTTTTAGCCTA
Found at i:30553133 original size:25 final size:27
Alignment explanation
Indices: 30553096--30553148 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
30553086 TCAAACATGC
30553096 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
30553122 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
30553148 A
1 A
30553149 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:30556166 original size:25 final size:25
Alignment explanation
Indices: 30556115--30556193 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 25
30556105 TAATATAAAC
* **
30556115 AAAGAAATAAAAGAAAAAGAAGTAGA
1 AAAGAAA-GAAAGAAAAAGAAACAGA
*
30556141 AAAGAAAGAAAGAAAATGAAACAGA
1 AAAGAAAGAAAGAAAAAGAAACAGA
*
30556166 ACGGAA-AAAGAAAGAAAAAGGAA-AGA
1 A---AAGAAAGAAAGAAAAAGAAACAGA
30556192 AA
1 AA
30556194 GAAGGAGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 1 0.02
25 15 0.34
26 11 0.25
27 15 0.34
28 2 0.05
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.04
Consensus pattern (25 bp):
AAAGAAAGAAAGAAAAAGAAACAGA
Found at i:30556178 original size:31 final size:30
Alignment explanation
Indices: 30556115--30556203 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 30
30556105 TAATATAAAC
* *
30556115 AAAGAAATAAAAGAAAAAGAAGTAGAAAAG
1 AAAGAAAGAAAAGAAAAAGAAGGAGAAAAG
*
30556145 AAAGAAAGAAAATGAAACAGAACGGA-AAAAG
1 AAAGAAAGAAAA-GAAAAAGAA-GGAGAAAAG
*
30556176 AAAGAAA-AAGGAA-AGAAAGAAGGAGAAA
1 AAAGAAAGAA--AAGAAAAAGAAGGAGAAA
30556204 GACAAGCTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
29 3 0.06
30 22 0.45
31 20 0.41
32 4 0.08
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.03
Consensus pattern (30 bp):
AAAGAAAGAAAAGAAAAAGAAGGAGAAAAG
Found at i:30557454 original size:27 final size:27
Alignment explanation
Indices: 30557419--30557530 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
30557409 AGCATGACTG
* *
30557419 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
30557445 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
30557473 CCAG-GACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
30557500 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
30557527 CCAG
1 CCAG
30557531 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:30557483 original size:54 final size:54
Alignment explanation
Indices: 30557419--30557533 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
30557409 AGCATGACTG
* *
30557419 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGGACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
30557473 CCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGGACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
30557527 CCAGGAC
1 CCAGGAC
30557534 GCTTCCTTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGGACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:30564082 original size:26 final size:24
Alignment explanation
Indices: 30564044--30564111 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 24
30564034 AATAAAATGT
*
30564044 TTTAAAAATATAATAAATCAAATACA
1 TTTAAAAACATAA-AAA-CAAATACA
30564070 TTTAAAAACATAAAAACAAAT--A
1 TTTAAAAACATAAAAACAAATACA
*
30564092 -TT-AAAACAAAAAAACAAATA
1 TTTAAAAACATAAAAACAAATA
30564112 AAAAATGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 16 0.41
21 2 0.05
22 1 0.03
24 5 0.13
25 3 0.08
26 12 0.31
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATACA
Found at i:30575584 original size:20 final size:20
Alignment explanation
Indices: 30575539--30575583 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
30575529 CTTATCATGT
*
30575539 TAAAAATAAACTATTATTTA
1 TAAAAATAAACTATTATATA
30575559 TAAAAATAAAC-ATTATATA
1 TAAAAATAAACTATTATATA
30575578 TAAAAA
1 TAAAAA
30575584 AAAATAATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATAAACTATTATATA
Found at i:30575584 original size:21 final size:20
Alignment explanation
Indices: 30575540--30575585 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
30575530 TTATCATGTT
*
30575540 AAAAATAAACTATTATTTAT
1 AAAAATAAACTATTATTTAA
30575560 AAAAATAAAC-ATTATATATAA
1 AAAAATAAACTATTAT-T-TAA
30575581 AAAAA
1 AAAAA
30575586 AATAATGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 11 0.48
21 7 0.30
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATAAACTATTATTTAA
Found at i:30575774 original size:22 final size:21
Alignment explanation
Indices: 30575714--30575770 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
30575704 AAATTTTAAC
* *
30575714 TTATCATATTAAAAATAAATTA
1 TTAT-ATATAAAAAATAAATCA
*
30575736 TTATTTATAAAAAATAAA-CA
1 TTATATATAAAAAATAAATCA
30575756 TTATATATAACAAAA
1 TTATATATAA-AAAA
30575771 ATAATGCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 16 0.53
22 4 0.13
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TTATATATAAAAAATAAATCA
Found at i:30575814 original size:184 final size:188
Alignment explanation
Indices: 30575502--30575929 Score: 670
Period size: 184 Copynumber: 2.3 Consensus size: 188
30575492 AATATTAGGT
*
30575502 TTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAACTATTATTTATAAAAATA
1 TTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATTTATAAAAATA
30575567 AACATTATATATAAAAAAAAATAATGCAAAAACAACTCTAATGTTTGAAATTTTATAAAAATAAC
66 AACATTATATATAAAAAAAAATAATGCAAAAACAACTCTAATGTTTGAAATTTTATAAAAATAAC
* * * *
30575632 GTTAATTTAAA-TATTAGATTGTTTACTTAACGAAAATATTAGTGTTTAAG-AATTCA
131 ATTAATATAAAGTATTACATTGTTTACTTAACGAAAATATTAGTGTTTAAGAAACTCA
* * *
30575688 -T-AACTTGTGTTGGTCGAAATTTTAACTTATCATATTAAAAATAAATTATTATTTATAAAAAAT
1 TTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATTTAT-AAAAAT
* *
30575751 AAACATTATATAT-AACAAAAATAATGCCAAAACAACTCTAA-GTTTTGAAATTTTATAAAAATA
65 AAACATTATATATAAAAAAAAATAATGCAAAAACAACTCTAATG-TTTGAAATTTTATAAAAATA
*
30575814 ACATTAATATAAAGTATTACATTGTTTACTTAATGAAAATATTAGTGTTTAAGAAACTCA
129 ACATTAATATAAAGTATTACATTGTTTACTTAACGAAAATATTAGTGTTTAAGAAACTCA
* *
30575874 TTTCAACTTGTGTTGATCAAAATTTTAACTTATCGTGTTAAAAATAAATTACTATT
1 -TTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATT
30575930 GATGTAAGAC
Statistics
Matches: 219, Mismatches: 16, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
183 1 0.00
184 108 0.49
185 57 0.26
186 5 0.02
188 1 0.00
189 47 0.21
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (188 bp):
TTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATTTATAAAAATA
AACATTATATATAAAAAAAAATAATGCAAAAACAACTCTAATGTTTGAAATTTTATAAAAATAAC
ATTAATATAAAGTATTACATTGTTTACTTAACGAAAATATTAGTGTTTAAGAAACTCA
Found at i:30576378 original size:36 final size:36
Alignment explanation
Indices: 30576331--30576403 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
30576321 ACATTATTCA
30576331 TGAAATGATGCGTAAAGGCTTTATACCTGATACTAG
1 TGAAATGATGCGTAAAGGCTTTATACCTGATACTAG
30576367 TGAAATGATGCGTAAAGGCTTTATACCTGATACTAG
1 TGAAATGATGCGTAAAGGCTTTATACCTGATACTAG
30576403 T
1 T
30576404 ACATACTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (36 bp):
TGAAATGATGCGTAAAGGCTTTATACCTGATACTAG
Found at i:30577685 original size:40 final size:40
Alignment explanation
Indices: 30577641--30577791 Score: 196
Period size: 40 Copynumber: 3.7 Consensus size: 40
30577631 TTGACGACAA
30577641 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
* *
30577681 TTCGGCTATGTATGGCATTTAGTGTGCAATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
* * * *
30577721 TTCGACTATGTATGACACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGC--GATTCGAGATAGC
* *
30577762 TTCAGTTATGTATTGGCACTTAGTGTGCGA
1 TTCGGCTATGTA-TGGCACTTAGTGTGCGA
30577792 GAATTCGAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 64 0.67
41 15 0.16
42 17 0.18
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
Found at i:30586388 original size:27 final size:27
Alignment explanation
Indices: 30586321--30586388 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
30586311 TGTTACTGAT
* * *
30586321 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
30586347 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
30586374 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
30586389 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:30587965 original size:10 final size:11
Alignment explanation
Indices: 30587933--30587962 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
30587923 ATGATACAAC
30587933 CTTTTATTTTA
1 CTTTTATTTTA
30587944 -TTTTATTTTA
1 CTTTTATTTTA
30587954 CTTTTATTT
1 CTTTTATTT
30587963 ACTAATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
CTTTTATTTTA
Found at i:30588413 original size:18 final size:18
Alignment explanation
Indices: 30588387--30588421 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30588377 AAATTAAATT
*
30588387 TTTTTAAAAATAATATTA
1 TTTTAAAAAATAATATTA
*
30588405 TTTTAAAAAATTATATT
1 TTTTAAAAAATAATATT
30588422 TAATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAAAATAATATTA
Found at i:30589731 original size:21 final size:21
Alignment explanation
Indices: 30589690--30589735 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
30589680 CCGCCCGTAT
*
30589690 TAATTTTTAAATTATTTTATA
1 TAATTTTTAAATTATTATATA
30589711 TAATTTTTAAATATATATATATA
1 TAATTTTTAAAT-TAT-TATATA
30589734 TA
1 TA
30589736 TATATAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 3 0.14
23 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTTTAAATTATTATATA
Found at i:30589887 original size:30 final size:30
Alignment explanation
Indices: 30589853--30589917 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
30589843 ACTTAACAAG
30589853 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
30589883 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
30589913 -AAATA
1 CAAATA
30589918 AAATAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:30601076 original size:2 final size:2
Alignment explanation
Indices: 30601066--30601099 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
30601056 TTTTTTATTT
*
30601066 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30601100 ATACTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:30607370 original size:33 final size:32
Alignment explanation
Indices: 30607317--30607415 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 32
30607307 TGAGCCGGGT
* * *
30607317 GGAGTAGAATACGACGGTGGATATAGGCCAGGA
1 GGAGTAGAGTACGGCGGTGGATATCGGCC-GGA
*
30607350 GGAGTAGAGTACGGCAGTGGATA-CGGCTCTGGA
1 GGAGTAGAGTACGGCGGTGGATATCGGC-C-GGA
* * *
30607383 AGAGTGGAGTACGGTGGTGGATATCGGCCGGA
1 GGAGTAGAGTACGGCGGTGGATATCGGCCGGA
30607415 G
1 G
30607416 TACTGAGGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
32 6 0.11
33 44 0.81
34 4 0.07
ACGTcount: A:0.26, C:0.13, G:0.43, T:0.17
Consensus pattern (32 bp):
GGAGTAGAGTACGGCGGTGGATATCGGCCGGA
Found at i:30609520 original size:14 final size:16
Alignment explanation
Indices: 30609482--30609513 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30609472 AATAATAATA
30609482 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
30609497 ATATAAAAATTACATT
1 ATATAAAAATTACATT
30609513 A
1 A
30609514 AAAAAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:30609904 original size:106 final size:105
Alignment explanation
Indices: 30609503--30609905 Score: 436
Period size: 113 Copynumber: 3.8 Consensus size: 105
30609493 CATTATATAA
* * *
30609503 AAATTACATTA--AAAAAATCACAAAACACTAAACTA-GAAACACTAACAA--TT-T-A--TAAT
1 AAATTACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTTTGTAACCTAAT
30609559 CATAAATTACTAACACAAAATAACTA-AAAATTATTATTTTTT
66 CATAAATTACT-A-ACAAAATAACTATAAAATTATT-TTTTTT
* * *
30609601 AAA-TACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAGCAATTTATGTAAACTAA
1 AAATTACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTT-TGTAACCTAA
* *
30609665 TCATAAATTACTAATAAAATAGCTATAAAATTA-TTTTTTT
65 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
** * * * *
30609705 AAAACATATTACTAAAAAACCACAATACACTAATATACTAAACCACAAAACACTAACAATTTTTA
1 AAATTACATTACT---AAA--A-AAT-CAC-AATACACTAAACCACTAAACACTAACAA-TTTTG
30609770 TAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
57 TAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
*
30609819 AAATTACATTACTAAAAAATCACAATACTCTAAACCACTAAACACTAACAA-TTTGTAACCTAAT
1 AAATTACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTTTGTAACCTAAT
*
30609883 CCCATAAATTATTAACAAAATAA
66 --CATAAATTACTAACAAAATAA
30609906 ATAACTATAA
Statistics
Matches: 256, Mismatches: 25, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
97 7 0.03
98 3 0.01
99 21 0.08
100 11 0.04
102 1 0.00
103 1 0.00
104 22 0.09
105 19 0.07
106 53 0.21
107 18 0.07
108 6 0.02
109 1 0.00
110 1 0.00
111 6 0.02
112 2 0.01
113 64 0.25
114 20 0.08
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (105 bp):
AAATTACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTTTGTAACCTAAT
CATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
Found at i:30612456 original size:24 final size:24
Alignment explanation
Indices: 30612423--30612472 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
30612413 AAGTCTGTCT
30612423 GGAGAAGATTTAGGAGCTGATCAG
1 GGAGAAGATTTAGGAGCTGATCAG
* *
30612447 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATCAG
30612471 GG
1 GG
30612473 TGAACTGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.06, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATCAG
Found at i:30613942 original size:27 final size:26
Alignment explanation
Indices: 30613902--30614013 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
30613892 AGGAAGCGTC
*
30613902 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
30613929 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
30613956 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
30613984 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
30614010 CTGG
1 CTGG
30614014 CTGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:30614006 original size:54 final size:54
Alignment explanation
Indices: 30613902--30614013 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
30613892 AGGAAGCGTC
*
30613902 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
30613956 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
30614010 CTGG
1 CTGG
30614014 CTGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:30630875 original size:21 final size:21
Alignment explanation
Indices: 30630849--30630917 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
30630839 ATTGTTTTGA
30630849 TTACTGAATTGAATTGTGAAG
1 TTACTGAATTGAATTGTGAAG
* *
30630870 TTACTGAA-T--ATTGTTATG
1 TTACTGAATTGAATTGTGAAG
* * *
30630888 TATACTGCATTGAACTGTGAAA
1 T-TACTGAATTGAATTGTGAAG
30630910 TTACTGAA
1 TTACTGAA
30630918 GTAATGAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 8 0.22
19 6 0.17
20 2 0.06
21 14 0.39
22 6 0.17
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (21 bp):
TTACTGAATTGAATTGTGAAG
Found at i:30630883 original size:40 final size:40
Alignment explanation
Indices: 30630809--30630917 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
30630799 AATTGAGACT
* * * * *
30630809 TATACTGAACTGAATTATGGAA-TACTGAATATTGTTTTG
1 TATACTGAATTGAACTGTGAAATTACTGAATATTGTTATG
* *
30630848 -ATTACTGAATTGAATTGTGAAGTTACTGAATATTGTTATG
1 TA-TACTGAATTGAACTGTGAAATTACTGAATATTGTTATG
*
30630888 TATACTGCATTGAACTGTGAAATTACTGAA
1 TATACTGAATTGAACTGTGAAATTACTGAA
30630918 GTAATGAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.02
39 16 0.27
40 41 0.69
41 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (40 bp):
TATACTGAATTGAACTGTGAAATTACTGAATATTGTTATG
Found at i:30631228 original size:51 final size:51
Alignment explanation
Indices: 30631090--30631244 Score: 150
Period size: 45 Copynumber: 3.2 Consensus size: 51
30631080 TTTTGCCGGC
* *
30631090 TTACTGA-TCAGGCAC-TTATGTGTCGACA-ACTGTTACTGTTA-TCGTTACTA
1 TTACTGATTCA-GCACTTTGTGTGTCGA-ATACTGTTACTGTTACT-GTTACCA
* *
30631140 TTACCGATTCAGCACTTTGTGTGTCGAATAC---TA---TTACTATTACCA
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCA
* * *
30631185 TTACTGATTCAGCACTTTGTGTGTTGAATACTGTTACTGTTACTGCTACCC
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCA
30631236 TTACTGATT
1 TTACTGATT
30631245 ATTGTTCAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
45 37 0.43
46 1 0.01
48 4 0.05
50 11 0.13
51 33 0.38
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (51 bp):
TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCA
Found at i:30633760 original size:34 final size:34
Alignment explanation
Indices: 30633688--30633761 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
30633678 GACAGTCTAG
* *
30633688 TATCAGTGTGGGCCTTAGCCCATTACAAAAATAG
1 TATCAGTGTGGGCCTTAGCCCATTACAAAAACAA
**
30633722 TATCAGTGTGGGCCTTAGCCCATTACAGTAACAA
1 TATCAGTGTGGGCCTTAGCCCATTACAAAAACAA
30633756 TATCAG
1 TATCAG
30633762 AAATGCAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (34 bp):
TATCAGTGTGGGCCTTAGCCCATTACAAAAACAA
Found at i:30638028 original size:60 final size:60
Alignment explanation
Indices: 30637957--30638086 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
30637947 AACTGGCCCT
* *
30637957 TAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATATTGGGCC
* *
30638017 TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTGGGCC
*
30638077 TTGCCCATAT
1 TAGCCCATAT
30638087 TAACATAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
60 53 0.85
61 7 0.11
62 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTGGGCC
Found at i:30638050 original size:28 final size:27
Alignment explanation
Indices: 30637957--30638050 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 27
30637947 AACTGGCCCT
* *
30637957 TAGCCCATATCAATATTAATCTGGGCC
1 TAGCCCATATCAGTATCAATCTGGGCC
* *
30637984 ATAGCCCCT-TACAGTATCAGAGTATATTGGGCC
1 -TAGCCCATAT-CAGTATC--A--AT-CTGGGCC
30638017 TAGCCCATATCAGTATCAATCTGGGCC
1 TAGCCCATATCAGTATCAATCTGGGCC
30638044 GTAGCCC
1 -TAGCCC
30638051 TATTACAAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
27 7 0.13
28 20 0.38
30 2 0.04
32 16 0.31
33 7 0.13
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (27 bp):
TAGCCCATATCAGTATCAATCTGGGCC
Found at i:30638863 original size:46 final size:46
Alignment explanation
Indices: 30638803--30639114 Score: 394
Period size: 46 Copynumber: 7.0 Consensus size: 46
30638793 TTTGACATGA
* * * * * *
30638803 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*** **
30638849 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
30638895 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
30638941 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
30638987 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
30639033 TGCCATGGTATCTTTCAACCATGGTCTT--ACA----C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
30639071 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
30639115 AGAGCACACT
Statistics
Matches: 239, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
38 34 0.14
40 3 0.01
43 1 0.00
44 3 0.01
45 4 0.02
46 191 0.80
47 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:30639078 original size:38 final size:38
Alignment explanation
Indices: 30639027--30639102 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
30639017 ACATTTTATA
30639027 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
30639065 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
30639103 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:30641266 original size:11 final size:11
Alignment explanation
Indices: 30641250--30641301 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
30641240 TATACTAAAT
30641250 AAATAATAATA
1 AAATAATAATA
*
30641261 AAATAAT-ATT
1 AAATAATAATA
* *
30641271 AAATATCTCATA
1 AAATA-ATAATA
*
30641283 AAATATTAATA
1 AAATAATAATA
30641294 AAATAATA
1 AAATAATA
30641302 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:30644297 original size:45 final size:46
Alignment explanation
Indices: 30644142--30644451 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
30644132 TTTGACATGA
* * * * * *
30644142 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** **
30644188 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30644234 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30644279 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
30644324 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30644370 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30644408 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
30644452 AGAGCACACT
Statistics
Matches: 240, Mismatches: 13, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
38 34 0.14
40 3 0.01
43 1 0.00
44 9 0.04
45 79 0.33
46 114 0.47
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:30644365 original size:136 final size:129
Alignment explanation
Indices: 30644142--30644451 Score: 413
Period size: 136 Copynumber: 2.3 Consensus size: 129
30644132 TTTGACATGA
* * * * * * *
30644142 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTATATCAGGTTGCCATGGTATCTTTCAAC
***
30644207 CATGGTCTTGTTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
65 CATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACAC---TC-
30644272 TATCAGT
126 -A--AGT
30644279 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTATATCAGGTTGCCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTATATCAGGTTGCCATGGTATCTTTCAACC
* ** *
30644344 ATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACTCAGGT
66 ATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACTCAAGT
30644408 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-ATATCAG
30644452 AGAGCACACT
Statistics
Matches: 158, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
129 38 0.24
130 7 0.04
131 1 0.01
133 2 0.01
136 81 0.51
137 29 0.18
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (129 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTATATCAGGTTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACTCAAGT
Found at i:30644415 original size:38 final size:38
Alignment explanation
Indices: 30644364--30644439 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
30644354 ACATTTTATA
30644364 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
30644402 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
30644440 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:30646604 original size:11 final size:11
Alignment explanation
Indices: 30646588--30646639 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
30646578 TATACTAAAT
30646588 AAATAATAATA
1 AAATAATAATA
*
30646599 AAATAAT-ATT
1 AAATAATAATA
* *
30646609 AAATATCTCATA
1 AAATA-ATAATA
*
30646621 AAATATTAATA
1 AAATAATAATA
30646632 AAATAATA
1 AAATAATA
30646640 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:30647631 original size:8 final size:8
Alignment explanation
Indices: 30647604--30647634 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
30647594 ACAAAATGCT
30647604 GGCTTTTC
1 GGCTTTTC
*
30647612 GGCATTTC
1 GGCTTTTC
30647620 GGCTTTTC
1 GGCTTTTC
30647628 GGCTTTT
1 GGCTTTT
30647635 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:30648426 original size:14 final size:14
Alignment explanation
Indices: 30648401--30648441 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
30648391 GCTATAGGGG
*
30648401 AGAA-AAGAAAAACA
1 AGAAGAAGAAAAA-T
30648415 AGAAGAAGAAAAAT
1 AGAAGAAGAAAAAT
30648429 AGAAGAAGAAAAA
1 AGAAGAAGAAAAA
30648442 ATGAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (14 bp):
AGAAGAAGAAAAAT
Found at i:30648452 original size:10 final size:10
Alignment explanation
Indices: 30648420--30648463 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
30648410 AAACAAGAAG
*
30648420 AAGAAAAATAG
1 AAGAAAAA-AA
30648431 AAGAAGAAAAA
1 AAGAA-AAAAA
*
30648442 ATGAAAAAAA
1 AAGAAAAAAA
30648452 AAGAAAAAAA
1 AAGAAAAAAA
30648462 AA
1 AA
30648464 TATAAATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 16 0.55
11 10 0.34
12 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:30648455 original size:21 final size:22
Alignment explanation
Indices: 30648422--30648464 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
30648412 ACAAGAAGAA
* *
30648422 GAAAAATAGAAGAAGAAAAAAT
1 GAAAAATAAAAGAAAAAAAAAT
30648444 GAAAAA-AAAAGAAAAAAAAAT
1 GAAAAATAAAAGAAAAAAAAAT
30648465 ATAAATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (22 bp):
GAAAAATAAAAGAAAAAAAAAT
Found at i:30649955 original size:28 final size:28
Alignment explanation
Indices: 30649907--30649987 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
30649897 GTGACAGAGT
* *
30649907 CACTAGATACAGATATTTTGTGGCAGTGC
1 CACTAGA-ACAGATAATTTGTGGCAGGGC
30649936 CACTAGAACAGATAATTTGTGGCAGGGC
1 CACTAGAACAGATAATTTGTGGCAGGGC
*
30649964 CACCAGAACAGATAATTTGTGGCA
1 CACTAGAACAGATAATTTGTGGCA
30649988 TAACCACCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 42 0.86
29 7 0.14
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (28 bp):
CACTAGAACAGATAATTTGTGGCAGGGC
Found at i:30649994 original size:28 final size:27
Alignment explanation
Indices: 30649915--30649997 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
30649905 GTCACTAGAT
* *
30649915 ACAGATATTTTGTGGCAGTGCCACTAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
*
30649943 ACAGATAATTTGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
*
30649971 ACAGATAATTTGTGGCATAACCACCAG
1 ACAGATAATTTGTGGCAT-GCCACCAG
30649998 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
ACAGATAATTTGTGGCATGCCACCAGA
Found at i:30650150 original size:28 final size:28
Alignment explanation
Indices: 30650103--30650167 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
30650093 AAATTAACCC
*
30650103 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
30650131 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
30650159 TAGGGGTAT
1 TAGGGGTAT
30650168 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:30652585 original size:3 final size:3
Alignment explanation
Indices: 30652577--30652603 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
30652567 AAACATACTA
30652577 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
30652604 TAAAACATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30654190 original size:25 final size:25
Alignment explanation
Indices: 30654150--30654199 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
30654140 CTAACATAAT
*
30654150 ATTAACTCCCTCAAACTTATACCTA
1 ATTAACTACCTCAAACTTATACCTA
* *
30654175 ATTAACTACCTTAAACTTATGCCTA
1 ATTAACTACCTCAAACTTATACCTA
30654200 CACCTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (25 bp):
ATTAACTACCTCAAACTTATACCTA
Found at i:30655928 original size:30 final size:30
Alignment explanation
Indices: 30655892--30655952 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
30655882 TTCTCGAGCC
*
30655892 TAGGGGCAAAATTGTAATTCTGCAAAAGTT
1 TAGGGGCAAAATGGTAATTCTGCAAAAGTT
* *
30655922 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTCTGCAAAAGTT
30655952 T
1 T
30655953 GTATTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTCTGCAAAAGTT
Found at i:30656426 original size:47 final size:47
Alignment explanation
Indices: 30656372--30656548 Score: 195
Period size: 47 Copynumber: 3.8 Consensus size: 47
30656362 TGGTTGAACA
*
30656372 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
30656419 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
30656466 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGAT-TCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAAACG
* *
30656512 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30656549 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 37 0.34
47 56 0.51
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:30670843 original size:11 final size:11
Alignment explanation
Indices: 30670824--30670853 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
30670814 AATGTTTCCT
*
30670824 AATAAATTAAA
1 AATATATTAAA
30670835 AATATATTAAA
1 AATATATTAAA
30670846 AATATATT
1 AATATATT
30670854 TATACTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATATTAAA
Found at i:30671842 original size:16 final size:16
Alignment explanation
Indices: 30671812--30671849 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
30671802 AAATCATAAC
30671812 AATATATTAAAAAATT
1 AATATATTAAAAAATT
30671828 AATA-ATTAAACAAATT
1 AATATATTAAA-AAATT
*
30671844 CATATA
1 AATATA
30671850 GCAAGTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 12 0.63
17 1 0.05
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATATTAAAAAATT
Found at i:30672205 original size:22 final size:21
Alignment explanation
Indices: 30672168--30672208 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
30672158 AATTATTATA
30672168 TTTTATTTTATTTATTTATGC
1 TTTTATTTTATTTATTTATGC
*
30672189 TTTTATTTTTTTCTATTTAT
1 TTTTATTTTATT-TATTTAT
30672209 TATAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTTATTTATGC
Found at i:30672637 original size:23 final size:24
Alignment explanation
Indices: 30672594--30672639 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
30672584 TATTATTTTA
*
30672594 TGTTAATAATTATTATTTAATTAG
1 TGTTAATAATTATTATCTAATTAG
30672618 TGTT-ATAATTA-TATGCTAATTA
1 TGTTAATAATTATTAT-CTAATTA
30672640 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (24 bp):
TGTTAATAATTATTATCTAATTAG
Found at i:30674814 original size:6 final size:6
Alignment explanation
Indices: 30674803--30674858 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
30674793 ATTTAAACAT
* * * *
30674803 TAAATA TAAATA TAAATA TATATA TATATA TAAA-A TATATT TAAA-A
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
30674849 -AAATA TAAAT
1 TAAATA TAAAT
30674859 CAAATTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 5 0.12
6 33 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATA
Found at i:30681943 original size:11 final size:10
Alignment explanation
Indices: 30681923--30681973 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
30681913 CCCACAGAAA
30681923 TTTTTT-TAT
1 TTTTTTGTAT
30681932 TTTTTTCGTAT
1 TTTTTT-GTAT
30681943 TTTTTTGTACT
1 TTTTTTGTA-T
*
30681954 TTTTTTATCACT
1 TTTTTTGT-A-T
30681966 TTTTTTGT
1 TTTTTTGT
30681974 GGGAAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
9 6 0.17
10 3 0.08
11 17 0.47
12 10 0.28
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.76
Consensus pattern (10 bp):
TTTTTTGTAT
Found at i:30689560 original size:16 final size:15
Alignment explanation
Indices: 30689536--30689565 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30689526 TGTATAACAA
30689536 TAAAAACATATATAT
1 TAAAAACATATATAT
30689551 TAAAATACATATATA
1 TAAAA-ACATATATA
30689566 CACGCAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAACATATATAT
Found at i:30689771 original size:21 final size:21
Alignment explanation
Indices: 30689747--30689787 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30689737 TACACAATAC
30689747 ATAATATGTTA-AAAAATATAT
1 ATAATAT-TTATAAAAATATAT
*
30689768 ATAATATTTATAAAGATATA
1 ATAATATTTATAAAAATATA
30689788 AAAGTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAATATTTATAAAAATATAT
Found at i:30690080 original size:20 final size:20
Alignment explanation
Indices: 30690057--30690095 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30690047 ATATATTAGG
*
30690057 AACAATAATAATATATATAA
1 AACAACAATAATATATATAA
*
30690077 AACAACCATAATATATATA
1 AACAACAATAATATATATA
30690096 TATGTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
AACAACAATAATATATATAA
Found at i:30690898 original size:14 final size:13
Alignment explanation
Indices: 30690871--30690919 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
30690861 ATATATTCGA
30690871 AAAGAAAAAAAAT
1 AAAGAAAAAAAAT
30690884 AAAGAAAATAAAAT
1 AAAGAAAA-AAAAT
*
30690898 AAA-AATAAAAAAA
1 AAAGAA-AAAAAAT
30690911 AAACGAAAA
1 AAA-GAAAA
30690920 TGATAACACA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 17 0.55
14 12 0.39
15 2 0.06
ACGTcount: A:0.84, C:0.02, G:0.06, T:0.08
Consensus pattern (13 bp):
AAAGAAAAAAAAT
Found at i:30690902 original size:11 final size:10
Alignment explanation
Indices: 30690875--30690912 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
30690865 ATTCGAAAAG
30690875 AAAAAAAAT-
1 AAAAAAAATA
*
30690884 AAAGAAAATA
1 AAAAAAAATA
30690894 AAATAAAAATA
1 AAA-AAAAATA
30690905 AAAAAAAA
1 AAAAAAAA
30690913 ACGAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 8 0.32
11 9 0.36
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:30692002 original size:29 final size:31
Alignment explanation
Indices: 30691965--30692033 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
30691955 AAATTTACTT
* *
30691965 AAAACTACATTTATC-TC-ATATTTAAAATA
1 AAAATTACATATATCATCTATATTTAAAATA
*
30691994 AAAATTACATATATCTATCTATTTTTAAAATA
1 AAAATTACATATATC-ATCTATATTTAAAATA
30692026 AAATATTA
1 AAA-ATTA
30692034 AGTTTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
31 2 0.06
32 14 0.42
33 4 0.12
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAATTACATATATCATCTATATTTAAAATA
Found at i:30695395 original size:33 final size:33
Alignment explanation
Indices: 30695342--30695410 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
30695332 TTATGAGTCA
*
30695342 GGGATCTCAGACCGGATGTTGGAATCACTTCTT
1 GGGAGCTCAGACCGGATGTTGGAATCACTTCTT
* * *
30695375 GGGAGCTCAGACTGGGTGTTGGAATCACTTGTT
1 GGGAGCTCAGACCGGATGTTGGAATCACTTCTT
30695408 GGG
1 GGG
30695411 TATAGGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (33 bp):
GGGAGCTCAGACCGGATGTTGGAATCACTTCTT
Found at i:30696470 original size:22 final size:23
Alignment explanation
Indices: 30696445--30696490 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30696435 CAACCAAATC
30696445 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
30696467 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
30696490 A
1 A
30696491 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:30696496 original size:23 final size:23
Alignment explanation
Indices: 30696452--30696496 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30696442 ATCAATTCAA
*
30696452 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
30696475 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
30696497 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:30699862 original size:42 final size:42
Alignment explanation
Indices: 30699803--30699890 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
30699793 GTATTGTATG
*
30699803 ATTGATAATTAGTGAACAAGTTAAAATTGAACATATATAAAT
1 ATTGATAATTAGTGAACAAGTTAAAATTGAAAATATATAAAT
30699845 ATTGATAATTAGTGAACAAGTTAAAATTGAAAATATATAAAT
1 ATTGATAATTAGTGAACAAGTTAAAATTGAAAATATATAAAT
30699887 ATTG
1 ATTG
30699891 TTAAATAGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (42 bp):
ATTGATAATTAGTGAACAAGTTAAAATTGAAAATATATAAAT
Found at i:30699949 original size:2 final size:2
Alignment explanation
Indices: 30699944--30699980 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
30699934 ATATATATAT
*
30699944 AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
30699981 TAATGAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30700316 original size:47 final size:47
Alignment explanation
Indices: 30700262--30700357 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
30700252 GTGACAGCCC
30700262 TAATTTGACCCTATTCGGGAAGTGGTTTCGGGACCACAAAACCAAGT
1 TAATTTGACCCTATTCGGGAAGTGGTTTCGGGACCACAAAACCAAGT
*
30700309 TAATTTGACCCTATTCGGGAAGTGGTTTCGGGACCACAAAACCGAGT
1 TAATTTGACCCTATTCGGGAAGTGGTTTCGGGACCACAAAACCAAGT
30700356 TA
1 TA
30700358 TAAAAATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (47 bp):
TAATTTGACCCTATTCGGGAAGTGGTTTCGGGACCACAAAACCAAGT
Found at i:30702394 original size:2 final size:2
Alignment explanation
Indices: 30702389--30702426 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
30702379 GTGAAATTCG
30702389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30702427 TCTGAAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:30702946 original size:39 final size:39
Alignment explanation
Indices: 30702892--30703015 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
30702882 ATTTGATGTG
30702892 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
30702931 TATCCGGACTTAGGGTCCGCATGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
** * * *
30702970 TATATGGACTTAAGGTCCGCAGGCTAAGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
30703009 TGTCCGG
1 TATCCGG
30703016 GCTAAAGTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:30704931 original size:28 final size:28
Alignment explanation
Indices: 30704899--30704959 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
30704889 CTAGTCAGCT
*
30704899 TAAATAAACGATTGACTAGTATTAAAAA
1 TAAATAAACGATTGACTACTATTAAAAA
30704927 TAAATAAACGATTGACTACTATTAAAAA
1 TAAATAAACGATTGACTACTATTAAAAA
30704955 TAAAT
1 TAAAT
30704960 GTAAACTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (28 bp):
TAAATAAACGATTGACTACTATTAAAAA
Found at i:30712342 original size:21 final size:21
Alignment explanation
Indices: 30712302--30712342 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30712292 AAATTTCTTC
*
30712302 AAACTTTTTTTATTAAAATAG
1 AAACTTTGTTTATTAAAATAG
* *
30712323 AAACTTTGTTTCTTACAATA
1 AAACTTTGTTTATTAAAATA
30712343 CTTTAATTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (21 bp):
AAACTTTGTTTATTAAAATAG
Found at i:30712540 original size:2 final size:2
Alignment explanation
Indices: 30712533--30712566 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
30712523 GCTATCTATC
30712533 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30712567 AATAAAGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30714898 original size:6 final size:6
Alignment explanation
Indices: 30714887--30714912 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30714877 AGATTCAGGA
30714887 TTTGAG TTTGAG TTTGAG TTTGAG TT
1 TTTGAG TTTGAG TTTGAG TTTGAG TT
30714913 CAAGGTAAAA
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:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (6 bp):
TTTGAG
Found at i:30720710 original size:2 final size:2
Alignment explanation
Indices: 30720703--30720764 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
30720693 CCCAACTAAC
30720703 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30720745 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
30720765 GGAATAATTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30723267 original size:14 final size:16
Alignment explanation
Indices: 30723236--30723267 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
30723226 ATTTTACTAA
30723236 CATGAGTGCCAGTCAC
1 CATGAGTGCCAGTCAC
30723252 CATG-GTGCCA-TCAC
1 CATGAGTGCCAGTCAC
30723266 CA
1 CA
30723268 AAAATATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.19
Consensus pattern (16 bp):
CATGAGTGCCAGTCAC
Found at i:30735969 original size:2 final size:2
Alignment explanation
Indices: 30735962--30735995 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
30735952 CAGGGGGTTA
30735962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30735996 TTTAATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30736820 original size:21 final size:21
Alignment explanation
Indices: 30736796--30736835 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30736786 TATGCCTTTA
*
30736796 AAAAT-TTTAATTATATTTAGT
1 AAAATATTTAAATAT-TTTAGT
30736817 AAAATATTTAAATATTTTA
1 AAAATATTTAAATATTTTA
30736836 ATTATATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
AAAATATTTAAATATTTTAGT
Found at i:30737470 original size:25 final size:23
Alignment explanation
Indices: 30737415--30737470 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
30737405 AAGTATACAT
30737415 ATTTTTTA-AAAAATTATTTTCA
1 ATTTTTTAGAAAAATTATTTTCA
*
30737437 ATTTGTTAGAAAACATTTATTTT-A
1 ATTTTTTAGAAAA-A-TTATTTTCA
30737461 ATATTTTTAG
1 AT-TTTTTAG
30737471 TATTTTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.25
23 4 0.14
24 4 0.14
25 13 0.46
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (23 bp):
ATTTTTTAGAAAAATTATTTTCA
Found at i:30738869 original size:11 final size:11
Alignment explanation
Indices: 30738853--30738886 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
30738843 CGCATCTAGT
30738853 TTTGTTCTTGA
1 TTTGTTCTTGA
*
30738864 TTTGTTCTTAA
1 TTTGTTCTTGA
*
30738875 TTTATTCTTGA
1 TTTGTTCTTGA
30738886 T
1 T
30738887 GATTTGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:30747112 original size:24 final size:24
Alignment explanation
Indices: 30747080--30747141 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
30747070 AGTGAAAGTC
30747080 GAGTTGATAAGGGATAGGATTTAG
1 GAGTTGATAAGGGATAGGATTTAG
30747104 GAGTTGATAAGGGATAGGATTTAG
1 GAGTTGATAAGGGATAGGATTTAG
**
30747128 GAGCAGATAAGGGA
1 GAGTTGATAAGGGA
30747142 GGAAATCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (24 bp):
GAGTTGATAAGGGATAGGATTTAG
Found at i:30748140 original size:16 final size:15
Alignment explanation
Indices: 30748114--30748144 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30748104 ACTAGATCGG
30748114 CAAAAGCCGAAAAGT
1 CAAAAGCCGAAAAGT
30748129 CAAAATGCCGAAAAGT
1 CAAAA-GCCGAAAAGT
30748145 TGGTATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (15 bp):
CAAAAGCCGAAAAGT
Found at i:30748601 original size:28 final size:28
Alignment explanation
Indices: 30748560--30748654 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
30748550 AGGAAGCGTC
*
30748560 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* *
30748588 CTGGTGGCTCTGCCACATA-TATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* * * *
30748615 CTGGTAGTTCTGCCAC-GATTATCTCTAT
1 CTGGTGGCTCTGCCACAAATTATCT-GAT
*
30748643 CTGGTGACTCTG
1 CTGGTGGCTCTG
30748655 TCACGTTATC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 26 0.48
28 27 0.50
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGAT
Found at i:30748618 original size:27 final size:26
Alignment explanation
Indices: 30748560--30748672 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
30748550 AGGAAGCGTC
* *
30748560 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
30748588 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* * *
30748615 CTGGTAGTTCTGCCACGATTATCTCTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
30748643 CTGGTGACTCTGTCACGTTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
30748669 CTGG
1 CTGG
30748673 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.10
27 34 0.48
28 30 0.42
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:30752121 original size:40 final size:40
Alignment explanation
Indices: 30751994--30752143 Score: 169
Period size: 40 Copynumber: 3.7 Consensus size: 40
30751984 ATTATGTTTG
* * * *
30751994 GCACTTAGTGTGCGTATTGAGATAACTTCGGCTATATAAA
1 GCACTTAGTGTGCGAATCGAGATAGCTTCAGCTATATAAA
* * * *
30752034 GCACTTAATGTACGTATCGAGATAGCTGCAGCTATATAAA
1 GCACTTAGTGTGCGAATCGAGATAGCTTCAGCTATATAAA
**
30752074 GCACTTAGTGTGCGAATCG-GAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGAATCGAG-ATAGCTTCAGCTATATAAA
30752114 GCACTTAGTGTGCGAGA-CTGAGATAGCTTC
1 GCACTTAGTGTGCGA-ATC-GAGATAGCTTC
30752144 GACTGTGAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 82 0.87
41 10 0.11
42 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATCGAGATAGCTTCAGCTATATAAA
Found at i:30753926 original size:19 final size:20
Alignment explanation
Indices: 30753873--30753927 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
30753863 TTTGTAACCA
30753873 ATTAGTTTAGGAAAAACCTTC
1 ATTA-TTTAGGAAAAACCTTC
*
30753894 ATTATTTACG-AAAACCTT-
1 ATTATTTAGGAAAAACCTTC
30753912 AGTT-TTTAGGAAAAAC
1 A-TTATTTAGGAAAAAC
30753928 TTGATTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.20
19 15 0.50
20 5 0.17
21 4 0.13
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
ATTATTTAGGAAAAACCTTC
Found at i:30772326 original size:46 final size:45
Alignment explanation
Indices: 30772239--30772412 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
30772229 GGGGTAGGAT
* *
30772239 GCCGATGCCATGTCCTAGACATGGTCTTAAACTGGC-TCATCTCGTA-
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTTCATCTCG-AG
* *
30772285 GCCGATGCATGTCCAAGACACGTCTTACACTAGCTTACATCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTT-CATCTCGAG
* * * * *
30772331 GCCAATGCATGTCCTAGATATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCT-TCATCTCGAG
* *
30772377 GCCGATTCCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGA-TGCATGTCCTAGACATGTCTTACACTAGCT
30772413 CACAATAACT
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
44 11 0.10
45 14 0.13
46 55 0.51
47 28 0.26
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTCATCTCGAG
Found at i:30776532 original size:19 final size:19
Alignment explanation
Indices: 30776508--30776545 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30776498 CATTTCTTTA
30776508 TTATCAGCCTAAGAAAATG
1 TTATCAGCCTAAGAAAATG
*
30776527 TTATCAGCCTTAGAAAATG
1 TTATCAGCCTAAGAAAATG
30776546 ATTTCTTCTT
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:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
TTATCAGCCTAAGAAAATG
Found at i:30782331 original size:22 final size:22
Alignment explanation
Indices: 30782296--30782337 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
30782286 CTTATATTCT
30782296 AGATTTTATATTTTAAATTTTA
1 AGATTTTATATTTTAAATTTTA
30782318 AGATTATTAT-TTTTAAATTT
1 AGATT-TTATATTTTAAATTT
30782338 GGTATCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
AGATTTTATATTTTAAATTTTA
Found at i:30787351 original size:7 final size:7
Alignment explanation
Indices: 30787339--30787368 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
30787329 GAAGAGAATG
30787339 AAAAATA
1 AAAAATA
30787346 AAAAATA
1 AAAAATA
30787353 AAAAAT-
1 AAAAATA
30787359 AAAAATA
1 AAAAATA
30787366 AAA
1 AAA
30787369 GGAAAGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:30787362 original size:13 final size:14
Alignment explanation
Indices: 30787339--30787368 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
30787329 GAAGAGAATG
30787339 AAAAATAAAAAATA
1 AAAAATAAAAAATA
30787353 AAAAAT-AAAAATA
1 AAAAATAAAAAATA
30787366 AAA
1 AAA
30787369 GGAAAGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAAATA
Found at i:30790683 original size:9 final size:10
Alignment explanation
Indices: 30790661--30790695 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
30790651 AATAAGGCCG
30790661 TTTTAATTAT
1 TTTTAATTAT
30790671 TTTTAATTAT
1 TTTTAATTAT
30790681 TTTTAATTAT
1 TTTTAATTAT
30790691 TTTTA
1 TTTTA
30790696 GTATGTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:30790704 original size:20 final size:21
Alignment explanation
Indices: 30790660--30790704 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
30790650 TAATAAGGCC
*
30790660 GTTTTAATTATTTTTAATTAT
1 GTTTTAATTATTTTTAAGTAT
30790681 -TTTTAATTATTTTT-AGTAT
1 GTTTTAATTATTTTTAAGTAT
30790700 GTTTT
1 GTTTT
30790705 GTTAGCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (21 bp):
GTTTTAATTATTTTTAAGTAT
Done.