Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 43 of 93
Found at i:16476033 original size:49 final size:49
Alignment explanation
Indices: 16475977--16476125 Score: 168
Period size: 49 Copynumber: 3.1 Consensus size: 49
16475967 ATAGTTAAAG
16475977 TAATATAAATTAATTTTACATTTATTAGTTTACAAATTACAAGTTCAAC
1 TAATATAAATTAATTTTACATTTATTAGTTTACAAATTACAAGTTCAAC
* * *
16476026 TAATATAAA--AATTTTATATATT-TAAGTTTAC--A-T-CATAGTTCAAG
1 TAATATAAATTAATTTTACAT-TTATTAGTTTACAAATTACA-AGTTCAAC
** * *
16476070 TAATATAAATTTGTTTTACATTTATTAGGTTACAAATTACAAGTTCAAT
1 TAATATAAATTAATTTTACATTTATTAGTTTACAAATTACAAGTTCAAC
16476119 TAATATA
1 TAATATA
16476126 TAAATTTTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
43 2 0.02
44 17 0.21
45 3 0.04
46 14 0.17
47 17 0.21
48 3 0.04
49 24 0.29
50 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (49 bp):
TAATATAAATTAATTTTACATTTATTAGTTTACAAATTACAAGTTCAAC
Found at i:16476103 original size:93 final size:93
Alignment explanation
Indices: 16475954--16476275 Score: 455
Period size: 93 Copynumber: 3.5 Consensus size: 93
16475944 TGATATGTTA
* * * *
16475954 TTAAATTTGCATCATAGTTAAAGTAATATAAATTAATTTTACATTTATTAGTTTACAAATTACAA
1 TTAAGTTTGCATCATAGTTCAAGTAATATAAATTTATTTTACATTTATTAGGTTACAAATTACAA
16476019 GTTCAACTAATATAAAAATTTTATATAT
66 GTTCAACTAATATAAAAATTTTATATAT
* *
16476047 TTAAGTTTACATCATAGTTCAAGTAATATAAATTTGTTTTACATTTATTAGGTTACAAATTACAA
1 TTAAGTTTGCATCATAGTTCAAGTAATATAAATTTATTTTACATTTATTAGGTTACAAATTACAA
* *
16476112 GTTCAATTAATATATAAATTTTATATAT
66 GTTCAACTAATATAAAAATTTTATATAT
* * * *
16476140 TCAAGTTTGCATCATAGTTTTAA-TAATATAAATTTATTTTATATTTGTTA-GTT-C--A--A-A
1 TTAAGTTTGCATCATAG-TTCAAGTAATATAAATTTATTTTACATTTATTAGGTTACAAATTACA
16476197 AGTTCAACTAATATAAAAATTTTATATA-
65 AGTTCAACTAATATAAAAATTTTATATAT
*
16476225 TTAAGTTTGCATCATAGTTCAAGTAATACAAATTTATTTTACATTTATTAG
1 TTAAGTTTGCATCATAGTTCAAGTAATATAAATTTATTTTACATTTATTAG
16476276 TTTGCATGTG
Statistics
Matches: 205, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
84 4 0.02
85 40 0.20
86 27 0.13
87 1 0.00
89 1 0.00
91 1 0.00
92 3 0.01
93 124 0.60
94 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (93 bp):
TTAAGTTTGCATCATAGTTCAAGTAATATAAATTTATTTTACATTTATTAGGTTACAAATTACAA
GTTCAACTAATATAAAAATTTTATATAT
Found at i:16476697 original size:58 final size:58
Alignment explanation
Indices: 16476609--16476806 Score: 254
Period size: 58 Copynumber: 3.4 Consensus size: 58
16476599 CAAATTGTAC
** * * * * * *
16476609 TCAAGATCAAGTTTAAGTCCAAACCTTTGAAGACAAAGTTCTAAAGTCCAAATCATGT
1 TCAAGATCAAGTCCAAGTCTAGACCCTTGAAGACGAAGTTCTCAAGTCCAAATCGTGT
* * * *
16476667 TTAAGATCAAGTCCAAGTCTAGACCCTTGAAGATGAAGATCTCAAGTCCAAATTGTGT
1 TCAAGATCAAGTCCAAGTCTAGACCCTTGAAGACGAAGTTCTCAAGTCCAAATCGTGT
*
16476725 TCAAGATCAACTCCCAA-TCTAGACCCTTGAAGACGAAGTTCTCAAGTCCAAATCGTGT
1 TCAAGATCAAGT-CCAAGTCTAGACCCTTGAAGACGAAGTTCTCAAGTCCAAATCGTGT
*
16476783 TCAAGATCAAGTCCAAATCTAGAC
1 TCAAGATCAAGTCCAAGTCTAGAC
16476807 TTGAGAACTT
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
57 4 0.03
58 112 0.93
59 4 0.03
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (58 bp):
TCAAGATCAAGTCCAAGTCTAGACCCTTGAAGACGAAGTTCTCAAGTCCAAATCGTGT
Found at i:16476880 original size:58 final size:58
Alignment explanation
Indices: 16476801--16477102 Score: 354
Period size: 58 Copynumber: 5.2 Consensus size: 58
16476791 AAGTCCAAAT
* * *
16476801 CTAGACTTGAGAACTTTGTCTTCAAGGGCCTGGACTTGGACTTGATCTTGAACATGAG
1 CTAGACTTGAGAACTTCGTCTTCAAGGGTCTGGACTTGGACTTGATCTTGAACACGAG
* * * * ** * * *
16476859 TTGGACTTAAAAACTTCGTCTTCAAGGGTCAAGACTTGGATTTGATCTTGAACATGAT
1 CTAGACTTGAGAACTTCGTCTTCAAGGGTCTGGACTTGGACTTGATCTTGAACACGAG
* * * *
16476917 CTAGACTTGAGAACTTCATCTTCAAGGGTTTGGACTTAGACTTGATCTTGAACACAAG
1 CTAGACTTGAGAACTTCGTCTTCAAGGGTCTGGACTTGGACTTGATCTTGAACACGAG
* * *
16476975 CTAGACTTGAGAACTTCGTCTTCAAGGGTCTGGACTTGGGCTT-ACTCTTGAATACGAC
1 CTAGACTTGAGAACTTCGTCTTCAAGGGTCTGGACTTGGACTTGA-TCTTGAACACGAG
* * * * * * *
16477033 CAAGAATTGAGAACTTCGTCTTTAAGGGTTTGGACATGGACTTGATCTTGAACACAAT
1 CTAGACTTGAGAACTTCGTCTTCAAGGGTCTGGACTTGGACTTGATCTTGAACACGAG
16477091 CTAGACTTGAGA
1 CTAGACTTGAGA
16477103 GCTTTAGTAA
Statistics
Matches: 201, Mismatches: 41, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
57 1 0.00
58 199 0.99
59 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (58 bp):
CTAGACTTGAGAACTTCGTCTTCAAGGGTCTGGACTTGGACTTGATCTTGAACACGAG
Found at i:16478717 original size:16 final size:15
Alignment explanation
Indices: 16478696--16478744 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
16478686 GTTTGGTACT
16478696 TTACAATACAATGTGA
1 TTACAA-ACAATGTGA
*
16478712 TTACAAATAATGTGA
1 TTACAAACAATGTGA
* * *
16478727 TTGCAAGCAATATGA
1 TTACAAACAATGTGA
16478742 TTA
1 TTA
16478745 TAAGGAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (15 bp):
TTACAAACAATGTGA
Found at i:16479029 original size:167 final size:167
Alignment explanation
Indices: 16478753--16479086 Score: 472
Period size: 167 Copynumber: 2.0 Consensus size: 167
16478743 TATAAGGAAA
* * * *
16478753 ATAACATTACAGTATTTGATATACAAATAAAATAATGATTAAAATGTAAGAAATATAACATTGTA
1 ATAACATTACAGTATTTGATATACAAACAAAATAATGATTAAAATGCAAGAAAGATAACATTGCA
** * * *
16478818 GTATTTGGTTTACAAGTACTTTATTGAGAATGTAATATTAATTTTTAAAATTACCCATATTTATT
66 ACATTTGATTTACAAGTACTTTACTGAGAATGTAATATTAATTTTCAAAATTACCCATATTTATT
*
16478883 -AAAATGTAAGTTTAATATACTTGTATTTTTTATTGT
131 AAAAATGTAAGTTTAATATACTTATATTTTTTATTGT
* * * *
16478919 NATAACATTACAGTGTTTGGTATACAAGCAAAATAATGATTAAAATGCAAGGAAGATAACATTGC
1 -ATAACATTACAGTATTTGATATACAAACAAAATAATGATTAAAATGCAAGAAAGATAACATTGC
* * * * * *
16478984 AACGTTTGATTTATAAGTACTTTGCTGGGAATGTAATGTTAATTTTCAAAATTACCCCTATTTAT
65 AACATTTGATTTACAAGTACTTTACTGAGAATGTAATATTAATTTTCAAAATTACCCATATTTAT
16479049 TAAAAATGTAAGTTTAATATACTTATATTTTTTATTGT
130 TAAAAATGTAAGTTTAATATACTTATATTTTTTATTGT
16479087 TAATTTTTAT
Statistics
Matches: 146, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
167 111 0.76
168 35 0.24
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (167 bp):
ATAACATTACAGTATTTGATATACAAACAAAATAATGATTAAAATGCAAGAAAGATAACATTGCA
ACATTTGATTTACAAGTACTTTACTGAGAATGTAATATTAATTTTCAAAATTACCCATATTTATT
AAAAATGTAAGTTTAATATACTTATATTTTTTATTGT
Found at i:16479167 original size:33 final size:33
Alignment explanation
Indices: 16479130--16479215 Score: 111
Period size: 32 Copynumber: 2.6 Consensus size: 33
16479120 TTTTAATATC
*
16479130 ATATATTTTATTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTTATTTTTTAATATAATCTT
* *
16479163 ATATATTTTATTTTCA-TTTTTAATATAATTTT
1 ATATATTTTATTTTTATTTTTTAATATAATCTT
* *
16479195 TTATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
16479216 AATTTCTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 23 0.51
33 19 0.42
34 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTTAATATAATCTT
Found at i:16479168 original size:70 final size:72
Alignment explanation
Indices: 16479074--16479220 Score: 165
Period size: 72 Copynumber: 2.1 Consensus size: 72
16479064 AATATACTTA
* *
16479074 TATTTTTTATTGTTAATTTTTATATAATATCATC-TCTTCAATAT-ATTTTTAATATCATATATT
1 TATTTTTTATTGATAATTTATATATAATATCATCATCTTCAATATAATTTTTAATATCATATATT
16479137 TTATTTT
66 TTATTTT
** ** * * * *
16479144 TATTTTTTATT-ATAATCTTATATATTTTATTTTCATTTTTAATATAATTTTTTATATTATATAT
1 TATTTTTTATTGATAAT-TTATATATAATATCATCATCTTCAATATAATTTTTAATATCATATAT
16479208 TTTATTTT
65 TTTATTTT
*
16479216 AATTT
1 TATTT
16479221 CTTTTACCTA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
69 4 0.06
70 23 0.37
71 8 0.13
72 28 0.44
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.65
Consensus pattern (72 bp):
TATTTTTTATTGATAATTTATATATAATATCATCATCTTCAATATAATTTTTAATATCATATATT
TTATTTT
Found at i:16479285 original size:25 final size:25
Alignment explanation
Indices: 16479241--16479292 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
16479231 TATTATAAAA
*
16479241 ATTTTAATTTTTAATATTTTATTTT
1 ATTTTAATTTTTAATATTTTATATT
*
16479266 ATTTTAATTTTTTGAT-TTTTATATT
1 ATTTTAA-TTTTTAATATTTTATATT
16479291 AT
1 AT
16479293 ATATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTTAATTTTTAATATTTTATATT
Found at i:16479300 original size:34 final size:33
Alignment explanation
Indices: 16479242--16479308 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
16479232 ATTATAAAAA
16479242 TTTTAATTTTTAATATTTTATTTTATTTTAATT
1 TTTTAATTTTTAATATTTTATTTTATTTTAATT
*
16479275 TTTTGATTTTT-ATATTATATATTTTATTTTAATT
1 TTTTAATTTTTAATATT-T-TATTTTATTTTAATT
16479309 AAAACGTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 5 0.16
33 11 0.35
34 15 0.48
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (33 bp):
TTTTAATTTTTAATATTTTATTTTATTTTAATT
Found at i:16483805 original size:83 final size:83
Alignment explanation
Indices: 16483686--16483856 Score: 263
Period size: 83 Copynumber: 2.1 Consensus size: 83
16483676 ATTAAAAACC
* *
16483686 AAAGAAATGAAGAAGAAATAGAAGAGCATAACCATTAGCACAAATATTTGTGGAACAAAATAATA
1 AAAGAAATGAAGAAGAAACAGAAAAGCATAACCATTAGCACAAATATTTGTGGAACAAAATAATA
16483751 CCCTTT-AATTGAGTGAAG
66 -CCTTTCAATTGAGTGAAG
* * *
16483769 AAAGAAATGAAGAAGAAACAGAAAAGCATAATCATTAGCATAAATATTTGTGGAACAGAATAATA
1 AAAGAAATGAAGAAGAAACAGAAAAGCATAACCATTAGCACAAATATTTGTGGAACAAAATAATA
* *
16483834 CTTTTCAGTTGAGTGAAG
66 CCTTTCAATTGAGTGAAG
16483852 AAAGA
1 AAAGA
16483857 CTCCGAACAT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 4 0.05
83 76 0.95
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.22
Consensus pattern (83 bp):
AAAGAAATGAAGAAGAAACAGAAAAGCATAACCATTAGCACAAATATTTGTGGAACAAAATAATA
CCTTTCAATTGAGTGAAG
Found at i:16487802 original size:14 final size:14
Alignment explanation
Indices: 16487783--16487812 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16487773 CGAAAAGCCA
16487783 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
*
16487797 AAAAAAAGGAAAAG
1 AAAAAAAGAAAAAG
16487811 AA
1 AA
16487813 TCCAAATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:16489644 original size:26 final size:27
Alignment explanation
Indices: 16489600--16489654 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
16489590 AAACCCCTCC
16489600 TCCACCCCTCTCCTTTCCCCCCAATTT
1 TCCACCCCTCTCCTTTCCCCCCAATTT
16489627 NTCCA-CCCTCT-CTTTCCCCCCAATTT
1 -TCCACCCCTCTCCTTTCCCCCCAATTT
16489653 TC
1 TC
16489655 TCGCTCTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 2 0.07
26 15 0.56
27 6 0.22
28 4 0.15
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.35
Consensus pattern (27 bp):
TCCACCCCTCTCCTTTCCCCCCAATTT
Found at i:16493952 original size:2 final size:2
Alignment explanation
Indices: 16493865--16493932 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
16493855 GCAAGTAGGG
16493865 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
16493907 GA GA GA GA GA GA GA GA GG GA -A GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
16493933 GAACCCANGA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16502495 original size:21 final size:21
Alignment explanation
Indices: 16502458--16502498 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16502448 ATAAAAACTA
*
16502458 ATAAATAATAATTAAATTAAG
1 ATAAATAATAATAAAATTAAG
16502479 ATAAATAA-ATATAAAATTAA
1 ATAAATAATA-ATAAAATTAA
16502499 ATTAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAAATAATAATAAAATTAAG
Found at i:16502510 original size:25 final size:26
Alignment explanation
Indices: 16502456--16502518 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
16502446 ACATAAAAAC
*
16502456 TAATAAATA-ATAATTAAATTAAGAT
1 TAATAAATATAAAATTAAATTAAGAT
* *
16502481 AAATAAATATAAAATTAAATTAA-CT
1 TAATAAATATAAAATTAAATTAAGAT
*
16502506 TAATAAAAATAAA
1 TAATAAATATAAA
16502519 CTAAATAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TAATAAATATAAAATTAAATTAAGAT
Found at i:16503490 original size:22 final size:22
Alignment explanation
Indices: 16503462--16503505 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
16503452 ACGAGATCTT
*
16503462 GCTGCAGTGGAAAGGCATTCTC
1 GCTGCAGCGGAAAGGCATTCTC
16503484 GCTGCAGCGGAAAGGCATTCTC
1 GCTGCAGCGGAAAGGCATTCTC
16503506 AACTGGCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.32, T:0.20
Consensus pattern (22 bp):
GCTGCAGCGGAAAGGCATTCTC
Found at i:16504959 original size:3 final size:3
Alignment explanation
Indices: 16504951--16504986 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16504941 GTGAGAGAGG
16504951 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
16504987 CCAGCTGCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16506826 original size:43 final size:43
Alignment explanation
Indices: 16506757--16506879 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
16506747 GCCTGTAGAG
* *
16506757 TTATGATGCCATCCGTTAAGACTACTCTAGATGATGATTATGT
1 TTATGATGCCATCCGTTGAGATTACTCTAGATGATGATTATGT
* * * *
16506800 TTATGATGCCATCTGTTGATATTACTCTGGGTGATGATTATGT
1 TTATGATGCCATCCGTTGAGATTACTCTAGATGATGATTATGT
*
16506843 TTATGATGCCATCCGTTGGGAGATTACTCCAGATGAT
1 TTATGATGCCATCCGTT--GAGATTACTCTAGATGAT
16506880 AACTTTGATT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 53 0.79
45 14 0.21
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (43 bp):
TTATGATGCCATCCGTTGAGATTACTCTAGATGATGATTATGT
Found at i:16507971 original size:73 final size:73
Alignment explanation
Indices: 16507874--16508078 Score: 229
Period size: 73 Copynumber: 2.8 Consensus size: 73
16507864 AAAGATGGCT
* * * * *
16507874 AGTTTAGAAACAGAACCAACTTAATTGACTAAGAGATATTGTTAGTCGACTAAGTGCTTACTACC
1 AGTTTAGAAAGAAAACCAATTTAATCGACTAAGAGATATTGTTAGTCGACTAAGAGCTTACTACC
*
16507939 AGAAGCTG
66 AGAAACTG
* * *
16507947 AGTTTAGAAAGAAAACCAATTTAATCGACTAAGAGGA-ATCGTTAGTCGACTAAGAGCCTACTGC
1 AGTTTAGAAAGAAAACCAATTTAATCGACTAAGA-GATATTGTTAGTCGACTAAGAGCTTACTAC
*
16508011 CTGAAACTG
65 CAGAAACTG
* * *
16508020 GGATCAG-AAGATAGAACCAATTTAATCGACTAAGA-AGTA-TGTTAGTCGACTAAGAGCTT
1 AGTTTAGAAAGA-A-AACCAATTTAATCGACTAAGAGA-TATTGTTAGTCGACTAAGAGCTT
16508079 TCTGTCTGAA
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
72 5 0.04
73 83 0.74
74 24 0.21
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (73 bp):
AGTTTAGAAAGAAAACCAATTTAATCGACTAAGAGATATTGTTAGTCGACTAAGAGCTTACTACC
AGAAACTG
Found at i:16515965 original size:55 final size:54
Alignment explanation
Indices: 16515869--16515979 Score: 159
Period size: 55 Copynumber: 2.0 Consensus size: 54
16515859 AATAGGAAGA
* * *
16515869 TTAGGGAGATAGAAGGTAGGAATGATTTAGGGGCAACTTAGGAATTAAGCTGTT
1 TTAGGGAGATAGAAGGTAGGAATAATTTAGGAGCAACTTAGGAATTAAGCTATT
* * *
16515923 TTAGAGGAGATAGAAGGTAGGAATAATTTATGAGTAATTTAGGAATTAAGCTATT
1 TTAG-GGAGATAGAAGGTAGGAATAATTTAGGAGCAACTTAGGAATTAAGCTATT
16515978 TT
1 TT
16515980 TTTTTTGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
54 4 0.08
55 46 0.92
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (54 bp):
TTAGGGAGATAGAAGGTAGGAATAATTTAGGAGCAACTTAGGAATTAAGCTATT
Found at i:16528757 original size:30 final size:28
Alignment explanation
Indices: 16528723--16528847 Score: 115
Period size: 29 Copynumber: 4.3 Consensus size: 28
16528713 GTTGAAGTGA
*
16528723 AAACCCTTGATTTTTAACGGGTTCAACCAC
1 AAACCCAT-ATTTTTAACGGGTTC-ACCAC
* * *
16528753 AAACCAATAGTTTTCAACGGGTTCACCAT
1 AAACCCATA-TTTTTAACGGGTTCACCAC
* *
16528782 AAACCCATAATTTTAATGGGTTCACCAC
1 AAACCCATATTTTTAACGGGTTCACCAC
* * * * *
16528810 AAATCCATGGTTTTTAATGGGATCACCAT
1 AAACCCAT-ATTTTTAACGGGTTCACCAC
16528839 AAACCCATA
1 AAACCCATA
16528848 CAATGGATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 22 0.29
29 36 0.47
30 19 0.25
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (28 bp):
AAACCCATATTTTTAACGGGTTCACCAC
Found at i:16528823 original size:57 final size:58
Alignment explanation
Indices: 16528734--16528847 Score: 160
Period size: 57 Copynumber: 2.0 Consensus size: 58
16528724 AACCCTTGAT
*
16528734 TTTTAACGGGTTCAACCACAAACCAATAGTTTTCAACGGGTTCACCATAAACCCATAA
1 TTTTAACGGGTTCAACCACAAACCAATAGTTTTCAACGGGATCACCATAAACCCATAA
* * * *
16528792 TTTTAATGGGTTC-ACCACAAATCC-ATGGTTTTTAATGGGATCACCATAAACCCATA
1 TTTTAACGGGTTCAACCACAAA-CCAATAGTTTTCAACGGGATCACCATAAACCCATA
16528848 CAATGGATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 36 0.72
58 14 0.28
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (58 bp):
TTTTAACGGGTTCAACCACAAACCAATAGTTTTCAACGGGATCACCATAAACCCATAA
Found at i:16543607 original size:14 final size:14
Alignment explanation
Indices: 16543584--16543616 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16543574 TGGATTTTAG
*
16543584 TTGTTTATTCTATT
1 TTGTTAATTCTATT
16543598 TTGTTAATTCTATT
1 TTGTTAATTCTATT
16543612 TTGTT
1 TTGTT
16543617 CTTAATGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (14 bp):
TTGTTAATTCTATT
Found at i:16556740 original size:19 final size:19
Alignment explanation
Indices: 16556716--16556762 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
16556706 GCATTACCCC
16556716 CCTTAAAATAAAATTTTGA
1 CCTTAAAATAAAATTTTGA
16556735 CCTTAAAATAAAATTTTGA
1 CCTTAAAATAAAATTTTGA
*
16556754 CCTCAAAAT
1 CCTTAAAAT
16556763 TTCATTTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (19 bp):
CCTTAAAATAAAATTTTGA
Found at i:16572555 original size:21 final size:21
Alignment explanation
Indices: 16572531--16572588 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
16572521 ATTTTGAGCA
*
16572531 AATGTATCGATACATTGAGGC
1 AATGTATCAATACATTGAGGC
16572552 AATGTATCAATACATTGAGGC
1 AATGTATCAATACATTGAGGC
16572573 AATGTATCAATACATT
1 AATGTATCAATACATT
16572589 TCAAGCAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (21 bp):
AATGTATCAATACATTGAGGC
Found at i:16574259 original size:66 final size:66
Alignment explanation
Indices: 16574166--16574351 Score: 178
Period size: 66 Copynumber: 2.8 Consensus size: 66
16574156 AAGTTAGTTG
* * *** *
16574166 TTGGGTTTTGGTTGATCCCG-GTAAAAACCATTATTGTAGGTTGAGGTTGAGCCTTGAAAAACCA
1 TTGGGTTTTAGTTGAGCCCGTG-AAAAACCATTATAAAAGGTTGAGGTTGAGCCTTAAAAAACCA
16574230 CC
65 CC
* * * * * *
16574232 TTGGGTTTTAGTTTAGCTCGTGAAAAACTAGTGTAAAAGGTTGTGGTTGAGCCTTAAAAAACCAC
1 TTGGGTTTTAGTTGAGCCCGTGAAAAACCATTATAAAAGGTTGAGGTTGAGCCTTAAAAAACCAC
*
16574297 T
66 C
* * * * *
16574298 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGCT-AAAGGTTGTGGCTGAGCCT
1 TTGGGTTTTAGTTGAGCCCGTGAAAAACCATT-ATAAAAGGTTGAGGTTGAGCCT
16574352 AGGAAAAGCC
Statistics
Matches: 97, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
66 95 0.98
67 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (66 bp):
TTGGGTTTTAGTTGAGCCCGTGAAAAACCATTATAAAAGGTTGAGGTTGAGCCTTAAAAAACCAC
C
Found at i:16594280 original size:26 final size:26
Alignment explanation
Indices: 16594223--16594273 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
16594213 TTAAAATTCT
*
16594223 TATTTACAAAATAGGTAAATCTTATA
1 TATTTACAAAATAGATAAATCTTATA
* * *
16594249 TATTTACATATTAGATAAGTCTTAT
1 TATTTACAAAATAGATAAATCTTAT
16594274 TAATTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (26 bp):
TATTTACAAAATAGATAAATCTTATA
Found at i:16594372 original size:2 final size:2
Alignment explanation
Indices: 16594365--16594389 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16594355 TAGATTTGAT
16594365 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16594390 TTAGATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16594597 original size:15 final size:15
Alignment explanation
Indices: 16594563--16594596 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16594553 AAATCTTCTC
16594563 ATTTTCTTAATACTT
1 ATTTTCTTAATACTT
*
16594578 ATTTTCTT-ATAGTT
1 ATTTTCTTAATACTT
16594592 ATTTT
1 ATTTT
16594597 TTCAAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (15 bp):
ATTTTCTTAATACTT
Found at i:16594740 original size:126 final size:126
Alignment explanation
Indices: 16594586--16594834 Score: 374
Period size: 126 Copynumber: 2.0 Consensus size: 126
16594576 TTATTTTCTT
* * *
16594586 ATAGTTATTTTTTCAAGTTCATTCACTTCATTTATAAATATACAATCGAATAAAATCTTTCATTT
1 ATAGTTATTTTTTCAAATTCATTCACTTCATTTATAAATACACAATCAAATAAAATCTTTCATTT
* * *
16594651 TCTAAATGCTTTTCTCTCATAATTGTTTTTTTAAGTTATATTTTATAATACATTATCAGCA
66 TCTAAATGCTTTTCTATCATAATTGTTTTTTTAAATTATATTTTATAACACATTATCAGCA
* * * * *
16594712 ATAGTTGTTTTTTCAAATTCACTT-ACTTCATTTGTAAATACACATTTAAATAAGATCTTTCATT
1 ATAGTTATTTTTTCAAATTCA-TTCACTTCATTTATAAATACACAATCAAATAAAATCTTTCATT
*
16594776 TTCTTAATGCTTTTCTATCATAATTGTTTTTTTAAATTATATTTTATAACACATTATCA
65 TTCTAAATGCTTTTCTATCATAATTGTTTTTTTAAATTATATTTTATAACACATTATCA
16594835 ACACGATTCT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
126 108 0.98
127 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.49
Consensus pattern (126 bp):
ATAGTTATTTTTTCAAATTCATTCACTTCATTTATAAATACACAATCAAATAAAATCTTTCATTT
TCTAAATGCTTTTCTATCATAATTGTTTTTTTAAATTATATTTTATAACACATTATCAGCA
Found at i:16596418 original size:27 final size:27
Alignment explanation
Indices: 16596388--16596441 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
16596378 ATTTAATTGA
*
16596388 ACTCTTGGACGATAACGTAATGAACAT
1 ACTCTTGGACCATAACGTAATGAACAT
16596415 ACTCTTGGACCATAACGTAATGAACAT
1 ACTCTTGGACCATAACGTAATGAACAT
16596442 TTACACGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (27 bp):
ACTCTTGGACCATAACGTAATGAACAT
Found at i:16604707 original size:9 final size:9
Alignment explanation
Indices: 16604693--16604769 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
16604683 TATTTAATCA
16604693 TGTTAAACG
1 TGTTAAACG
* *
16604702 TATTAATCG
1 TGTTAAACG
16604711 TGTTAAACG
1 TGTTAAACG
*
16604720 TGTTAATCG
1 TGTTAAACG
16604729 TGTTAAACG
1 TGTTAAACG
*
16604738 TGTTAATCG
1 TGTTAAACG
*
16604747 TATTAAACG
1 TGTTAAACG
*
16604756 TGTTAAATG
1 TGTTAAACG
16604765 TGTTA
1 TGTTA
16604770 TTAATCGTGT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (9 bp):
TGTTAAACG
Found at i:16604709 original size:18 final size:18
Alignment explanation
Indices: 16604686--16604761 Score: 125
Period size: 18 Copynumber: 4.2 Consensus size: 18
16604676 ATATTTTTAT
* *
16604686 TTAATCATGTTAAACGTA
1 TTAATCGTGTTAAACGTG
16604704 TTAATCGTGTTAAACGTG
1 TTAATCGTGTTAAACGTG
16604722 TTAATCGTGTTAAACGTG
1 TTAATCGTGTTAAACGTG
*
16604740 TTAATCGTATTAAACGTG
1 TTAATCGTGTTAAACGTG
16604758 TTAA
1 TTAA
16604762 ATGTGTTATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
TTAATCGTGTTAAACGTG
Found at i:16608506 original size:182 final size:182
Alignment explanation
Indices: 16608084--16608576 Score: 627
Period size: 182 Copynumber: 2.7 Consensus size: 182
16608074 TTCTCTAAAT
* * *
16608084 AGTGTTTTCTTTATTTCTATAGAAAACAAAGAAACTTAAGGAAACCAAGAGTTCCATGAGTTTTC
1 AGTGTTTTCTTTATTTCTCTCGAAAACAAAGAAACTTAAGGAAACCAAGAGGTCCATGAGTTTTC
* * * * *
16608149 AAGACTCCTACTTTTGAGCCATTAATTACAAAAGGTATCTCAATTCTCAAGAGATGCTACAAACT
66 AAGACTCCTACTTCTAAGCCATCAACTACAAAAGG------AA-CCTCAAGAGATGCTACAAACT
**
16608214 CCAATATGTCAAAAAAACTAGAAGAATGAACAAACTTCCTGCTTTGATTCTCTTTGAAC
124 CCAATATGTCAAAAAAACTAGAAGAATGAACAAACTTCCTGCTTCAATTCTCTTTGAAC
* * * * *
16608273 AGTGTTGTCTTTATTTCCCTCAAAAACAAAAAAACTTAAGGAAATCAAGAGGTCCATGAGTTTTC
1 AGTGTTTTCTTTATTTCTCTCGAAAACAAAGAAACTTAAGGAAACCAAGAGGTCCATGAGTTTTC
** * *
16608338 AAGACTTTTGCTTCTAAGCCATCAACTACAAAAGGAACCTCAAGAGATGCTACAAACTCCAATCT
66 AAGACTCCTACTTCTAAGCCATCAACTACAAAAGGAACCTCAAGAGATGCTACAAACTCCAATAT
16608403 GT-AAAAAGAA-TCAGAAGAATGAACAAACTTCCTGCTTCAATTCT-TTCTGAAC
131 GTCAAAAA-AACT-AGAAGAATGAACAAACTTCCTGCTTCAATTCTCTT-TGAAC
* * * * *
16608455 AAG-GTTTTCTTTGTTTCTCTCGAAGACAAAGAAACCTATGGAAACCAAGAGGTCCATGGGTTTT
1 -AGTGTTTTCTTTATTTCTCTCGAAAACAAAGAAACTTAAGGAAACCAAGAGGTCCATGAGTTTT
*
16608519 CAAGACTCCTACTTCTTAG-CATCAACTACAAAAGGAACCTCAAGAGATGCTACAAACT
65 CAAGACTCCTACTTCTAAGCCATCAACTACAAAAGGAACCTCAAGAGATGCTACAAACT
16608577 TCTTCTGACC
Statistics
Matches: 267, Mismatches: 33, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
181 47 0.18
182 131 0.49
183 4 0.01
189 85 0.32
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (182 bp):
AGTGTTTTCTTTATTTCTCTCGAAAACAAAGAAACTTAAGGAAACCAAGAGGTCCATGAGTTTTC
AAGACTCCTACTTCTAAGCCATCAACTACAAAAGGAACCTCAAGAGATGCTACAAACTCCAATAT
GTCAAAAAAACTAGAAGAATGAACAAACTTCCTGCTTCAATTCTCTTTGAAC
Found at i:16618738 original size:39 final size:39
Alignment explanation
Indices: 16618684--16618760 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
16618674 TTTAGATAGC
*
16618684 AATTCGTCGGAGACCCCAGGTTCTTCTATTCCAAGGGAT
1 AATTCGTCGGAGACCCCAGGCTCTTCTATTCCAAGGGAT
16618723 AATTCGTCGGAGACCCCAGGCTCTTCTATTCCAAGGGA
1 AATTCGTCGGAGACCCCAGGCTCTTCTATTCCAAGGGA
16618761 CATTGAGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
AATTCGTCGGAGACCCCAGGCTCTTCTATTCCAAGGGAT
Found at i:16620022 original size:27 final size:27
Alignment explanation
Indices: 16619968--16620020 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
16619958 TTATCAGTTC
*
16619968 TAAAACATGATGGGGCAGAAAATTTTA
1 TAAAACATGATGGGACAGAAAATTTTA
*
16619995 TAAAACATGATGGAGACAGAACATTT
1 TAAAACATGATGG-GACAGAAAATTT
16620021 ATTAGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.25
Consensus pattern (27 bp):
TAAAACATGATGGGACAGAAAATTTTA
Found at i:16620537 original size:12 final size:12
Alignment explanation
Indices: 16620522--16620547 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16620512 TATTATTTTT
16620522 ATTACCATCATC
1 ATTACCATCATC
16620534 ATTACCATCATC
1 ATTACCATCATC
16620546 AT
1 AT
16620548 GAGGCTTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTACCATCATC
Found at i:16627846 original size:10 final size:11
Alignment explanation
Indices: 16627833--16627873 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
16627823 TTATACCATA
16627833 ATAT-ATATAT
1 ATATCATATAT
*
16627843 ATAT-ATACAT
1 ATATCATATAT
16627853 ATATCATATAT
1 ATATCATATAT
16627864 CATATCATAT
1 -ATATCATAT
16627874 GCTTTTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 13 0.48
11 5 0.19
12 9 0.33
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATCATATAT
Found at i:16631294 original size:32 final size:32
Alignment explanation
Indices: 16631258--16631322 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
16631248 CTTTGGTCCA
16631258 TTACTTT-TGCTTGAGATATTAATTATATTGGT
1 TTACTTTCT-CTTGAGATATTAATTATATTGGT
16631290 TTACTTTCTCTTGAGATATTAATTATATTGGT
1 TTACTTTCTCTTGAGATATTAATTATATTGGT
16631322 T
1 T
16631323 GTGGCAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.54
Consensus pattern (32 bp):
TTACTTTCTCTTGAGATATTAATTATATTGGT
Found at i:16648275 original size:34 final size:35
Alignment explanation
Indices: 16648227--16648303 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
16648217 TCCAATGTTG
* * *
16648227 TTTAAGTTGTTATTTGA-ATATTTGTTTTT-AGTTA
1 TTTAAATTGATATTTGATATATTCGTTTTTGAG-TA
16648261 TTTAAATTGATATTTGATATATTCGTTTTTGAGTA
1 TTTAAATTGATATTTGATATATTCGTTTTTGAGTA
16648296 TTTAAATT
1 TTTAAATT
16648304 TAATTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 15 0.39
35 21 0.55
36 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.13, T:0.58
Consensus pattern (35 bp):
TTTAAATTGATATTTGATATATTCGTTTTTGAGTA
Found at i:16653789 original size:41 final size:41
Alignment explanation
Indices: 16653735--16653819 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
16653725 GTAGACATTG
16653735 AAAGAGGAATCATGAAATGAGAAGAAAAATCTTGGATCTGA
1 AAAGAGGAATCATGAAATGAGAAGAAAAATCTTGGATCTGA
* * * *
16653776 AAAGTGGATTCATGAATTGAGAAGAAGAATCTTGGATCTGA
1 AAAGAGGAATCATGAAATGAGAAGAAAAATCTTGGATCTGA
16653817 AAA
1 AAA
16653820 AAAAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.22
Consensus pattern (41 bp):
AAAGAGGAATCATGAAATGAGAAGAAAAATCTTGGATCTGA
Found at i:16659010 original size:23 final size:23
Alignment explanation
Indices: 16658984--16659034 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16658974 TTTTAGAGTT
*
16658984 TGTGAAATGGAATGGTGGGAATG
1 TGTGAAACGGAATGGTGGGAATG
* *
16659007 TGTGACACGGCATGGTGGGAATG
1 TGTGAAACGGAATGGTGGGAATG
16659030 TGTGA
1 TGTGA
16659035 CACATCATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.06, G:0.43, T:0.25
Consensus pattern (23 bp):
TGTGAAACGGAATGGTGGGAATG
Found at i:16659035 original size:23 final size:23
Alignment explanation
Indices: 16658995--16659062 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
16658985 GTGAAATGGA
16658995 ATGGTGGGAATGTGTGACACGGC
1 ATGGTGGGAATGTGTGACACGGC
**
16659018 ATGGTGGGAATGTGTGACACATC
1 ATGGTGGGAATGTGTGACACGGC
* * *
16659041 ATGGTGAGAATATGTGAGACGG
1 ATGGTGGGAATGTGTGACACGG
16659063 GTGTGACACG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.40, T:0.24
Consensus pattern (23 bp):
ATGGTGGGAATGTGTGACACGGC
Found at i:16659185 original size:23 final size:23
Alignment explanation
Indices: 16659088--16659185 Score: 72
Period size: 23 Copynumber: 4.2 Consensus size: 23
16659078 GTATAGAGTT
* **
16659088 TGTGACATGGCATGGTGGCAATG
1 TGTGACATGTCATGGTGATAATG
* * *
16659111 TGTGACACGTCATGGTGAGAATA
1 TGTGACATGTCATGGTGATAATG
* * * *
16659134 TGTGACAAGACAGGGT-TTAGAGTG
1 TGTGACATGTCATGGTGATA-A-TG
*
16659158 TGTGACATGTCAAGGTGATAATG
1 TGTGACATGTCATGGTGATAATG
16659181 TGTGA
1 TGTGA
16659186 GACGGCACGA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
22 1 0.02
23 39 0.68
24 15 0.26
25 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.35, T:0.28
Consensus pattern (23 bp):
TGTGACATGTCATGGTGATAATG
Found at i:16659341 original size:22 final size:22
Alignment explanation
Indices: 16659316--16659364 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
16659306 TGTGACACTG
16659316 GTGTGACACAGCAGCG-TTTAGA
1 GTGTGACACAGCAG-GTTTTAGA
* *
16659338 GTGTGACACGGTAGGTTTTAGA
1 GTGTGACACAGCAGGTTTTAGA
16659360 GTGTG
1 GTGTG
16659365 TGACATGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.22, C:0.12, G:0.37, T:0.29
Consensus pattern (22 bp):
GTGTGACACAGCAGGTTTTAGA
Found at i:16659342 original size:126 final size:126
Alignment explanation
Indices: 16659212--16659475 Score: 359
Period size: 126 Copynumber: 2.1 Consensus size: 126
16659202 TGTGATAGGG
* **
16659212 GTGTGACACGACAGGGTTTAGAGTGTGTGACACGCTATGGAGAGAATCTGTGACACGGCAGGGTG
1 GTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAATCTGTGACACAACAGGGTG
* *
16659277 ATAATGTTTGAGACGACACGGTGAGAATATGTGACACTGGTGTGACAC-AGCAGCGTTTAGA
66 ATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACACGA-CAGCGTTTAGA
** * * * *
16659338 GTGTGACACGGTAGGTTTTAGAGTGTGTGACATGCCATGGAGGGAATTTGTGACACAACAGGGTG
1 GTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAATCTGTGACACAACAGGGTG
* * * *
16659403 ATAATGTGTGAGGCGGCATGGTGAGAATATGTGACACGGGTGTGACACGACAGTGTTTAGA
66 ATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACACGACAGCGTTTAGA
16659464 GTGCGTGACACG
1 GT--GTGACACG
16659476 CCATGGACAG
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 111 0.93
127 1 0.01
128 8 0.07
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.24
Consensus pattern (126 bp):
GTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAATCTGTGACACAACAGGGTG
ATAATGTGTGAGACGACACGGTGAGAATATGTGACACGGGTGTGACACGACAGCGTTTAGA
Found at i:16659598 original size:230 final size:227
Alignment explanation
Indices: 16659171--16659607 Score: 540
Period size: 230 Copynumber: 1.9 Consensus size: 227
16659161 GACATGTCAA
* *
16659171 GGTGATAATGTGTGAGACGGCACGATGAGAATGTGATAGGGGTGTGACACGACAGGGTTTAGAGT
1 GGTGATAATGTGTGAGACGGCACGATGAGAATGTGACACGGGTGTGACACGACAGGGTTTAGAGT
* * * * * * *
16659236 GTGTGACACGCTATGGAGAGAATCTGTGACACGGCAGGGTGATAATGTTTGAGACGACACGGTGA
66 GCGTGACACGCCATGGACAGAATCTGTGACACGGCAGGGTCATAATGTGTGAAACGACACAGTGA
*** * *
16659301 GAATATGTGACACTGGTGTGACACAGCAGCGTTTAGAGTGTGACACGGTAGGTTTTAGAGTGTGT
131 GAATATGTGACACTGGTGTGACACAGCAGCGTTTAGAGTGTGACACACCAGG-TTCAGAGCGTGT
16659366 GACATGCCATGGAGGGAATTTGTGACACAACAG
195 GACATGCCATGGAGGGAATTTGTGACACAACAG
* * * *
16659399 GGTGATAATGTGTGAGGCGGCATGGTGAGAATATGTGACACGGGTGTGACACGACAGTGTTTAGA
1 GGTGATAATGTGTGAGACGGCACGATGAG-A-ATGTGACACGGGTGTGACACGACAGGGTTTAGA
* *
16659464 GTGCGTGACACGCCATGGACAGAA-CGTGTGACATGGTAGGGTCATAATGTGTGAAACGACACAG
64 GTGCGTGACACGCCATGGACAGAATC-TGTGACACGGCAGGGTCATAATGTGTGAAACGACACAG
* * ** *
16659528 TGATAATGTGTGACA-TGGGTGTGACATGGTAGCGTTTAGAGTGTGGGACACACCATGG-TCAGA
128 TGAGAATATGTGACACT-GGTGTGACACAGCAGCGTTTAGAGTGT--GACACACCA-GGTTCAGA
*
16659591 -CGTGTGACATGGCATGG
189 GCGTGTGACATGCCATGG
16659608 CTTGAACGTG
Statistics
Matches: 176, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
228 26 0.15
229 3 0.02
230 135 0.77
231 4 0.02
232 6 0.03
233 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.24
Consensus pattern (227 bp):
GGTGATAATGTGTGAGACGGCACGATGAGAATGTGACACGGGTGTGACACGACAGGGTTTAGAGT
GCGTGACACGCCATGGACAGAATCTGTGACACGGCAGGGTCATAATGTGTGAAACGACACAGTGA
GAATATGTGACACTGGTGTGACACAGCAGCGTTTAGAGTGTGACACACCAGGTTCAGAGCGTGTG
ACATGCCATGGAGGGAATTTGTGACACAACAG
Found at i:16659629 original size:23 final size:23
Alignment explanation
Indices: 16659603--16659653 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
16659593 TGTGACATGG
*
16659603 CATGGCTTGAACGTGTGACACAC
1 CATGGCTTGAACATGTGACACAC
* * * *
16659626 CATGGGTTTAATATGTGACACGC
1 CATGGCTTGAACATGTGACACAC
16659649 CATGG
1 CATGG
16659654 TGTGAAAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (23 bp):
CATGGCTTGAACATGTGACACAC
Found at i:16660172 original size:55 final size:56
Alignment explanation
Indices: 16660094--16660460 Score: 419
Period size: 55 Copynumber: 6.7 Consensus size: 56
16660084 TATGGCGTTA
* *
16660094 TGGGTTAACT-GATTTTTTGGGTTTTTAACGTGTCACGGCTGTTCTTGGCGTGTTG
1 TGGGTTAACTGGATTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGTGTTG
* * * *** * * *
16660149 TAGGTTAACT-AATTTTTTAGGTTTTTAGCGTGTCACTATTGTTCCTAGTGTGTAG
1 TGGGTTAACTGGATTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGTGTTG
* * *
16660204 TGGGTTAACTGGATTTTTT-TGTTTTTAGCGTGTCACGACTGTTCCTGACGTGTTG
1 TGGGTTAACTGGATTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGTGTTG
* * * *
16660259 TGGGTTAACTGGATTTTTT-GGCTTTTGGCGTGTCACGGTTGTTCTTGGCGTGTTG
1 TGGGTTAACTGGATTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGTGTTG
* * *
16660314 TGGGTTAACTGG-TTTTTTGGGTTTTTAGCGTGTCACAGCTATTCTTGGCGTGTTG
1 TGGGTTAACTGGATTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGTGTTG
* *
16660369 TGGGTTAATTGGA-TTTTTGGGTTTTT-GACGTGTGATC-GCTGTTCCTGGCGTGTTG
1 TGGGTTAACTGGATTTTTTGGGTTTTTAG-CGTGTCA-CGGCTGTTCCTGGCGTGTTG
** *
16660424 TGGGTTAACTGG-TTTTTTGAATTTTTAGCGTATCACG
1 TGGGTTAACTGGATTTTTTGGGTTTTTAGCGTGTCACG
16660461 ACTATTGGTG
Statistics
Matches: 263, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
54 8 0.03
55 246 0.94
56 9 0.03
ACGTcount: A:0.13, C:0.12, G:0.29, T:0.46
Consensus pattern (56 bp):
TGGGTTAACTGGATTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGTGTTG
Found at i:16660333 original size:27 final size:27
Alignment explanation
Indices: 16660252--16660333 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 27
16660242 CTGTTCCTGA
16660252 CGTGTTGTGGGTTAACTGGATTTTTTGG
1 CGTGTTGTGGGTTAACTGG-TTTTTTGG
*
16660280 C-T-TT-TGGCGTGTCAC-GGTTGTTCTTGG
1 CGTGTTGTGG-GT-TAACTGGTT-TT-TTGG
16660307 CGTGTTGTGGGTTAACTGGTTTTTTGG
1 CGTGTTGTGGGTTAACTGGTTTTTTGG
16660334 GTTTTTAGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
25 5 0.11
26 8 0.18
27 13 0.30
28 7 0.16
29 8 0.18
30 3 0.07
ACGTcount: A:0.07, C:0.11, G:0.35, T:0.46
Consensus pattern (27 bp):
CGTGTTGTGGGTTAACTGGTTTTTTGG
Found at i:16660555 original size:25 final size:25
Alignment explanation
Indices: 16660494--16660558 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
16660484 TTATAGATTT
*
16660494 TGGCATGTCACAACACTAATAGGCA
1 TGGCATGTCACGACACTAATAGGCA
* *
16660519 TGGCATGTCACGACACTGATATGCA
1 TGGCATGTCACGACACTAATAGGCA
*
16660544 TGGCGTGTCACGACA
1 TGGCATGTCACGACA
16660559 TTTAACTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (25 bp):
TGGCATGTCACGACACTAATAGGCA
Found at i:16660582 original size:31 final size:31
Alignment explanation
Indices: 16660535--16660623 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 31
16660525 GTCACGACAC
* *
16660535 TGATATGCATGGCGTGTCACGACATTTAACT
1 TGATATGCATGGCGTGTAACAACATTTAACT
* * * *
16660566 TGATATACATGACGTGTTACAAC-TTTTACT
1 TGATATGCATGGCGTGTAACAACATTTAACT
*
16660596 TCATATGCATGGCGTGTAACAACATTTA
1 TGATATGCATGGCGTGTAACAACATTTA
16660624 TTTCTTTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (31 bp):
TGATATGCATGGCGTGTAACAACATTTAACT
Found at i:16662984 original size:81 final size:81
Alignment explanation
Indices: 16662867--16663032 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
16662857 TAGATGATGC
* * * *
16662867 TGAATGAGTCCATGTTCCTTAAGTTGATTCGGTTATCGATGCATCTACGAGAA-GGGAGAGGGAC
1 TGAAAGAGCCCATGTTCCTTAAGCTGATTCGGTTATCGATGCATCTACGA-AAGGGGAGAGAGAC
16662931 CTTCACTCACTCGTGGT
65 CTTCACTCACTCGTGGT
* *
16662948 TGAAAGAGCCCATGTTCC-TAAGGCTGATTCGGTTATCGATGCGTCTGCGAAAGGGGAGAGAGAC
1 TGAAAGAGCCCATGTTCCTTAA-GCTGATTCGGTTATCGATGCATCTACGAAAGGGGAGAGAGAC
* *
16663012 CTTCAGTCGCTCGTGGT
65 CTTCACTCACTCGTGGT
16663029 TGAA
1 TGAA
16663033 GGACAACATC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 5 0.07
81 70 0.93
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (81 bp):
TGAAAGAGCCCATGTTCCTTAAGCTGATTCGGTTATCGATGCATCTACGAAAGGGGAGAGAGACC
TTCACTCACTCGTGGT
Found at i:16664624 original size:86 final size:86
Alignment explanation
Indices: 16664491--16664797 Score: 434
Period size: 86 Copynumber: 3.6 Consensus size: 86
16664481 GTAAGATTGC
* * *
16664491 AACAAGTCAACGTGTCACATCAGAAGTCTGCATGTACTCAGCATGTCACTACGATTGGCCCCTGC
1 AACAAGTCAACGTGTCACATCAGAAGTCTGCATGCACTCAGCGTGTCACCACGATTGGCCCCTGC
16664556 CGTGTCACCCCACAAGACTAT
66 CGTGTCACCCCACAAGACTAT
* * * * * *
16664577 AACAAGTCAGCATGTCACGTCAGAAGTCTGCATGCATTCAACGTGTCACCACAATTGGCCCCTGC
1 AACAAGTCAACGTGTCACATCAGAAGTCTGCATGCACTCAGCGTGTCACCACGATTGGCCCCTGC
*
16664642 CGTGTCACCCCACAAGACTGT
66 CGTGTCACCCCACAAGACTAT
* * * * * *
16664663 AACAAGTCAGCGTGTCACGTCAGAAGTTTGCATTCACTTAGCGTGTCACCACGATTGGCCCCTGT
1 AACAAGTCAACGTGTCACATCAGAAGTCTGCATGCACTCAGCGTGTCACCACGATTGGCCCCTGC
*
16664728 CGTGTCACCCCACAAGACTAC
66 CGTGTCACCCCACAAGACTAT
* * *
16664749 AACAAGTCAACGTGTCACACCATAAGTCTGCATGCACTCAGTGTGTCAC
1 AACAAGTCAACGTGTCACATCAGAAGTCTGCATGCACTCAGCGTGTCAC
16664798 TACAAGCATT
Statistics
Matches: 193, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 193 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (86 bp):
AACAAGTCAACGTGTCACATCAGAAGTCTGCATGCACTCAGCGTGTCACCACGATTGGCCCCTGC
CGTGTCACCCCACAAGACTAT
Found at i:16665315 original size:15 final size:14
Alignment explanation
Indices: 16665272--16665319 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
16665262 ATATATTTTT
16665272 TAAATTA-AAAATA
1 TAAATTATAAAATA
* *
16665285 TAAATTCATGACATA
1 TAAATT-ATAAAATA
16665300 TAAATTATATAAATA
1 TAAATTATA-AAATA
16665315 TAAAT
1 TAAAT
16665320 AAAAGTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 19 0.68
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAATTATAAAATA
Found at i:16665717 original size:25 final size:25
Alignment explanation
Indices: 16665679--16665764 Score: 163
Period size: 25 Copynumber: 3.4 Consensus size: 25
16665669 ACATAAAATG
*
16665679 TTAAATCAAGTGAAATAGAAAGGAA
1 TTAAATCAAATGAAATAGAAAGGAA
16665704 TTAAATCAAATGAAATAGAAAGGAA
1 TTAAATCAAATGAAATAGAAAGGAA
16665729 TTAAATCAAATGAAATAGAAAGGAA
1 TTAAATCAAATGAAATAGAAAGGAA
16665754 TTAAATCAAAT
1 TTAAATCAAAT
16665765 AATTAATTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.22
Consensus pattern (25 bp):
TTAAATCAAATGAAATAGAAAGGAA
Found at i:16669412 original size:31 final size:31
Alignment explanation
Indices: 16669087--16669411 Score: 401
Period size: 31 Copynumber: 10.5 Consensus size: 31
16669077 TCAATACATT
16669087 ACACGCCATGCATATAACGTAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTTGTA
* *
16669118 GCACGTCATGCATATAACGTAAAATG-TGATA
1 ACACGCCATGCATATAACGTAAAATGTTG-TA
* * * *
16669149 AGACGCCATGTATATGATGTAAAATG-TGATA
1 ACACGCCATGCATATAACGTAAAATGTTG-TA
* *
16669180 ACACGTCATGCATATGACGTAAAATG-TGATA
1 ACACGCCATGCATATAACGTAAAATGTTG-TA
*** *
16669211 ACACATGATGCATATAACATAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTTGTA
* *
16669242 ACACGCCATGCATATAGCGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTTGTA
**
16669273 ACACGCCATATATATAACGTAAAATG-TGATA
1 ACACGCCATGCATATAACGTAAAATGTTG-TA
* *
16669304 ACATGCCAT-C-TATAACGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTTGTA
16669333 ACACGCCATGCATATAACGTAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTTGTA
*
16669364 ACACGCCATGCATATAATGTAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTTGTA
16669395 ACACGCCATGCATATAA
1 ACACGCCATGCATATAA
16669412 TCAATGTCAT
Statistics
Matches: 256, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
29 24 0.09
30 5 0.02
31 225 0.88
32 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (31 bp):
ACACGCCATGCATATAACGTAAAATGTTGTA
Found at i:16672526 original size:43 final size:43
Alignment explanation
Indices: 16672458--16672540 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
16672448 TTCTGGAAAT
*
16672458 GCTTTGGTTCTTCAGAATCCCCATTCTTAGACTTTTGGGAGAG
1 GCTTTGGTTCTTCAGAAACCCCATTCTTAGACTTTTGGGAGAG
* *
16672501 GCTTTGGTTCTTCAGAAACCTCATTCTTGGACTTTTGGGA
1 GCTTTGGTTCTTCAGAAACCCCATTCTTAGACTTTTGGGA
16672541 CTTTAAAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (43 bp):
GCTTTGGTTCTTCAGAAACCCCATTCTTAGACTTTTGGGAGAG
Found at i:16672581 original size:50 final size:50
Alignment explanation
Indices: 16672497--16672641 Score: 157
Period size: 51 Copynumber: 2.9 Consensus size: 50
16672487 GACTTTTGGG
* * * *
16672497 AGAGGCTTTGGTTCTTCAGAAACCTCATTCTTGGACTTTTGGGACTT-TAA
1 AGAGGCTTTGGTTCTTCA-AAACATCCTTTTTGGACTTGTGGGACTTATAA
* * * **
16672547 AGAGGCTTTGGTTCTTCAAAATCTTCCTTTTTGGACTTGTGAGAGTTATTG
1 AGAGGCTTTGGTTCTTCAAAA-CATCCTTTTTGGACTTGTGGGACTTATAA
* *
16672598 AGAGGCTTTTGTTATTCAAAACCATCCTTTTTGGACTTGTGGGA
1 AGAGGCTTTGGTTCTTCAAAA-CATCCTTTTTGGACTTGTGGGA
16672642 GCTCTGAAGA
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 3 0.04
50 37 0.46
51 40 0.50
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (50 bp):
AGAGGCTTTGGTTCTTCAAAACATCCTTTTTGGACTTGTGGGACTTATAA
Found at i:16673460 original size:16 final size:16
Alignment explanation
Indices: 16673436--16673477 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16673426 TATGTGTCTT
*
16673436 TAAAATAATTA-GTTAA
1 TAAATTAATTACGTT-A
16673452 TAAATTAATTACGTTA
1 TAAATTAATTACGTTA
16673468 T-AATTAATTA
1 TAAATTAATTA
16673478 TAAGACTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 12 0.50
17 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (16 bp):
TAAATTAATTACGTTA
Found at i:16674969 original size:39 final size:39
Alignment explanation
Indices: 16674932--16675004 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 39
16674922 TGCAATGTTC
*
16674932 TTGCT-TTTTTTTTTCTTGGTTCCATTGC-TTGTTATGT
1 TTGCTATTTTTTTTTCTTAGTTCCATTGCTTTGTTATGT
* *
16674969 TTGCTATTTTTTTTTCTTAGTTGCTTTGCTTTGTTA
1 TTGCTATTTTTTTTTCTTAGTTCCATTGCTTTGTTA
16675005 GAATTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 5 0.16
38 20 0.65
39 6 0.19
ACGTcount: A:0.07, C:0.12, G:0.15, T:0.66
Consensus pattern (39 bp):
TTGCTATTTTTTTTTCTTAGTTCCATTGCTTTGTTATGT
Found at i:16675507 original size:76 final size:76
Alignment explanation
Indices: 16675379--16675631 Score: 187
Period size: 76 Copynumber: 3.3 Consensus size: 76
16675369 TTAAATTATG
*
16675379 ATGATAACCTTGGTAAGTGCTCATTATAGCACAAACTAAAGTCAGAGTGGAAGAAATTGAA-AGA
1 ATGATAACCTTGGTAAGTGCTCATTATAGCACAAACTAAAGTCAGAGCGGAAGAAATT-AAGAGA
16675443 TTCTTAATGATA
65 TTCTTAATGATA
* * * *
16675455 ATGAT-ACCTTTGGTAAGTGCTCATTATAGTACAATCTAAAATTGCA-A-CGGAAGATATTAAGA
1 ATGATAACC-TTGGTAAGTGCTCATTATAGCACAAACT-AAAGT-CAGAGCGGAAGAAATTAAGA
* * *
16675517 GATTCTTTATCACA
63 GATTCTTAATGATA
* * * * * * * * * **
16675531 ACGATAGCCTTAGTAAGTGCTTACTT-TAACACATACAAAAAT-TGAAATGGAA-AAATTAAGAG
1 ATGATAACCTTGGTAAGTGCTCA-TTATAGCACAAACTAAAGTCAG-AGCGGAAGAAATTAAGAG
* * *
16675593 ATTCTTTATCACA
64 ATTCTTAATGATA
**
16675606 ATGATAGTCTTGGTAAGTGCTCATTA
1 ATGATAACCTTGGTAAGTGCTCATTA
16675632 CGGCATAATC
Statistics
Matches: 142, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
74 2 0.01
75 51 0.36
76 78 0.55
77 9 0.06
78 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (76 bp):
ATGATAACCTTGGTAAGTGCTCATTATAGCACAAACTAAAGTCAGAGCGGAAGAAATTAAGAGAT
TCTTAATGATA
Found at i:16680926 original size:14 final size:13
Alignment explanation
Indices: 16680899--16680944 Score: 60
Period size: 12 Copynumber: 3.6 Consensus size: 13
16680889 TTTTTTTTGA
*
16680899 ATTTTTTATT-TT
1 ATTTATTATTATT
16680911 ATTTATTATTTATT
1 ATTTATTA-TTATT
16680925 ATTTATTATTATT
1 ATTTATTATTATT
16680938 -TTTATTA
1 ATTTATTA
16680945 CAAAAAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 14 0.45
13 7 0.23
14 10 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTATTATTATT
Found at i:16681293 original size:60 final size:60
Alignment explanation
Indices: 16681134--16681846 Score: 897
Period size: 59 Copynumber: 12.0 Consensus size: 60
16681124 TAAGTTCGAA
* * * * * * *
16681134 AAAAATGAAATTTCTA-AGCTTGATTTAGGCACGACCTATCTCAGAATAGGTTCGA-TTTA
1 AAAATTGAAATTCCTAGA-CTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * * *
16681193 AAAATTGGAATTCTTAGACTTAATTTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * *
16681253 AAATTTGAAATTCCTAGACTTGATTTAGGCTCGACTTATCTTAGAACAGGTTCGA-TTTG
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * * * * * *
16681312 AAAATTGAAATT-CTAGACTTGATCTATGCTTGACCTATTTTAGGACAGGCTCAATTTTA
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
*
16681371 AAAATTGAAATTCCTAGACTTGATCTAGTCTCGACCTATCTTAGAACAGGTTCGATTTT-
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
*
16681430 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAAGTTCGA-TTTG
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * * *
16681489 AAAATTGAAATTCTTAGACTTGATCTAAGTTCGACCTATCTTAGAACAAGTTCGA-TTTG
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * * *
16681548 AAAATTGAAATTCCTAGACTTGATCTAGGTTCAACCTATC-TATG-ACAGGTTAGATTTTA
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTA-GAACAGGTTCGATTTTG
* * *
16681607 AAAATTGAAATTCCTAGACTTGATCTGGGCTCGACCTATCTTAGAACATGTTTGATTTTG
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * * * * * * *
16681667 AAAATTGAAATTCCTAGACTTGATCTAGGTTCAAACTCTCTTAGGACAAGTTTGATTTTA
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * *
16681727 AAAATTGAAATTCTTAGACTTGATCTAGGCTCGACTTATCTTAGAACAAGTTCGA-TTTG
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
* * * *
16681786 AAAATTGAAATTCTTAGACTTAATCTAGGATCGACCTATCTTAGAACAGGTTCAATTTTG
1 AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
16681846 A
1 A
16681847 TTCACCGATG
Statistics
Matches: 574, Mismatches: 70, Indels: 19
0.87 0.11 0.03
Matches are distributed among these distances:
58 47 0.08
59 316 0.55
60 211 0.37
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (60 bp):
AAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGATTTTG
Found at i:16694647 original size:22 final size:22
Alignment explanation
Indices: 16694622--16694667 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16694612 TTTTTTCTTA
16694622 CCCTCTCTCTCTCAGCTTCTCT
1 CCCTCTCTCTCTCAGCTTCTCT
* * * *
16694644 CCCTTTCTTTCTCGGCTTTTCT
1 CCCTCTCTCTCTCAGCTTCTCT
16694666 CC
1 CC
16694668 TTTTTTCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.02, C:0.46, G:0.07, T:0.46
Consensus pattern (22 bp):
CCCTCTCTCTCTCAGCTTCTCT
Found at i:16694696 original size:14 final size:14
Alignment explanation
Indices: 16694672--16694719 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
16694662 TTCTCCTTTT
*
16694672 TTCTTCTCTCTC-C
1 TTCTTCCCTCTCTC
16694685 TTCCTTCCCTCTCTC
1 TT-CTTCCCTCTCTC
*
16694700 TTCTTCCTTCTCTC
1 TTCTTCCCTCTCTC
16694714 TATCTT
1 T-TCTT
16694720 TTGGTTTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 2 0.07
14 21 0.70
15 7 0.23
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.54
Consensus pattern (14 bp):
TTCTTCCCTCTCTC
Found at i:16694699 original size:18 final size:18
Alignment explanation
Indices: 16694676--16694714 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
16694666 CCTTTTTTCT
16694676 TCTCTCTCCTTCCTTCCC
1 TCTCTCTCCTTCCTTCCC
* *
16694694 TCTCTCTTCTTCCTTCTC
1 TCTCTCTCCTTCCTTCCC
16694712 TCT
1 TCT
16694715 ATCTTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTCTCCTTCCTTCCC
Found at i:16694719 original size:18 final size:18
Alignment explanation
Indices: 16694684--16694719 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16694674 CTTCTCTCTC
*
16694684 CTTCCTTCCCTCTCTCTT
1 CTTCCTTCCCTCTATCTT
*
16694702 CTTCCTTCTCTCTATCTT
1 CTTCCTTCCCTCTATCTT
16694720 TTGGTTTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.53
Consensus pattern (18 bp):
CTTCCTTCCCTCTATCTT
Found at i:16694852 original size:35 final size:35
Alignment explanation
Indices: 16694812--16694893 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 35
16694802 CCAAACCGGC
*
16694812 GGCTCAAACCCCCTCTTTTCCTCCCTCTAATC-GAA
1 GGCTCAAACCCCCTCTTTTCCTCCCTCTAACCAG-A
*
16694847 GGCTCAAATCCCCTCTTTTCCTCCCTCTAACCAGA
1 GGCTCAAACCCCCTCTTTTCCTCCCTCTAACCAGA
16694882 GGCTCAAACCCC
1 GGCTCAAACCCC
16694894 TATTTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.21, C:0.44, G:0.10, T:0.26
Consensus pattern (35 bp):
GGCTCAAACCCCCTCTTTTCCTCCCTCTAACCAGA
Found at i:16695718 original size:2 final size:2
Alignment explanation
Indices: 16695711--16695770 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
16695701 ATGGCAACCA
16695711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16695753 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
16695771 NNNNNNNNNN
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16695875 original size:2 final size:2
Alignment explanation
Indices: 16695868--16695945 Score: 147
Period size: 2 Copynumber: 39.0 Consensus size: 2
16695858 NNNNNNNNNA
16695868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
16695910 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16695946 CATTCCCAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16701450 original size:7 final size:7
Alignment explanation
Indices: 16701434--16701477 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
16701424 TTTAGTTGGT
16701434 AAGGAAG
1 AAGGAAG
*
16701441 AAGAAAG
1 AAGGAAG
16701448 AAGGAAG
1 AAGGAAG
16701455 AAGGAAG
1 AAGGAAG
16701462 AAGGAAG
1 AAGGAAG
*
16701469 AAGAAAG
1 AAGGAAG
16701476 AA
1 AA
16701478 CAATAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (7 bp):
AAGGAAG
Found at i:16701453 original size:14 final size:14
Alignment explanation
Indices: 16701434--16701477 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
16701424 TTTAGTTGGT
16701434 AAGGAAGAAGAAAG
1 AAGGAAGAAGAAAG
*
16701448 AAGGAAGAAGGAAG
1 AAGGAAGAAGAAAG
16701462 AAGGAAGAAGAAAG
1 AAGGAAGAAGAAAG
16701476 AA
1 AA
16701478 CAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
AAGGAAGAAGAAAG
Found at i:16706443 original size:2 final size:2
Alignment explanation
Indices: 16706438--16706476 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
16706428 TGCATANTAG
16706438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16706477 TGTATATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16708052 original size:9 final size:9
Alignment explanation
Indices: 16708033--16708071 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
16708023 ATATTTTTAT
*
16708033 TTAATCGTG
1 TTAAACGTG
*
16708042 TTAAACATG
1 TTAAACGTG
*
16708051 TTAATCGTG
1 TTAAACGTG
16708060 TTAAACGTG
1 TTAAACGTG
16708069 TTA
1 TTA
16708072 TTAATTGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (9 bp):
TTAAACGTG
Found at i:16708056 original size:18 final size:18
Alignment explanation
Indices: 16708033--16708071 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
16708023 ATATTTTTAT
16708033 TTAATCGTGTTAAACATG
1 TTAATCGTGTTAAACATG
*
16708051 TTAATCGTGTTAAACGTG
1 TTAATCGTGTTAAACATG
16708069 TTA
1 TTA
16708072 TTAATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (18 bp):
TTAATCGTGTTAAACATG
Found at i:16716813 original size:20 final size:20
Alignment explanation
Indices: 16716771--16716813 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
16716761 AAATGGATGA
* *
16716771 TTTAGATACTTAAATTTATT
1 TTTAGATACTGAAATGTATT
16716791 TTTAGATA-TGAAATGTATAT
1 TTTAGATACTGAAATGTAT-T
16716811 TTT
1 TTT
16716814 TCATTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTAGATACTGAAATGTATT
Found at i:16720458 original size:250 final size:252
Alignment explanation
Indices: 16719939--16721741 Score: 2085
Period size: 250 Copynumber: 7.2 Consensus size: 252
16719929 NNNNNNNNNN
* * * * * * *
16719939 ATTTTTAAATAAA-AATAATAAGGGTAAAAGTAATTAAAGTTTAAAATTG-ACATAGATAAATTT
1 ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGAATATAGAAAAATCT
* *
16720002 TAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTT
66 TGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGATGGAATAACTAAATTTTAAATCTT
** * *
16720067 AACGTAAACATGTGAGAGTTAACGTAACAAATTAATTAAGTAAAAAAATCT-ATTTTAGTGAAAA
131 AACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAA
* *
16720131 ATAAATATTTAAATTTATATTTTCAGACTAAAAGTATTTAACAATATATAAATTTTA
196 ATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATATATAAATTTTA
*
16720188 ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAA-TGAATATAGAAAAATCT
1 ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGAATATAGAAAAATCT
* * * *
16720252 TGACGTAAAACTGTAAGAATTGATGTAAACACTTATAAAGATGAAATAATTAAATTTTAAATCTT
66 TGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGATGGAATAACTAAATTTTAAATCTT
** * * *
16720317 AATATAAATATGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTATTGAAAA
131 AACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAA
* * * *
16720382 ATAAATATTTAAATTTATATTCTCGGAATAAAAGTATTTAACAATATACAAATTTTA
196 ATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATATATAAATTTTA
* * *
16720439 ATTTTTAAATAAA-AATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATA-A-ATAAA-C
1 ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGA-ATATAGAAAAATC
* * *
16720500 TTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAGAGGTGGAATAACTAAATTTTAAATT
65 -TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGATGGAATAACTAAATTTTAAATC
* * * * * * *
16720565 TTAACGTAAATGTGTAAAAGTTAACGCAATAAGTTAATTAAGTAAAAAAGTCTAATTTTAATGAA
129 TTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAA
** * ** * * *
16720630 AAATAAGCATTTATATTTATATAATCAGATTAAAAGTATGTAACGATAT-TCAAATTTTT
194 AAATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATATAT-AAATTTTA
* * * * * * **
16720689 A-TTTTAAATAAAGAATAATAAAGATAAAGATATTTATAGTT-AAAAGTT-ACTATTGACAAGGC
1 ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAA-TTGAATATAGAAAAATC
** * * * *
16720751 TTGACGTAAAGTTGTAAGAATTAATGTAAAATCTTATAAA-AGTGGAATAAGC-AAATTTAAAAT
65 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGA-TGGAATAA-CTAAATTTTAAAT
* * *
16720814 TTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTCAATGA
128 CTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGA
* * * * * *
16720879 AAAACAAACATTTAAATTTTTATTCTTAGACTAAAAGTGTTGAACGATATATAAATTTTA
193 AAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATATATAAATTTTA
* * * **
16720939 ATTTTTAAATAAAAAATAAT-AGGATAAAAATAATTATTGTTCAAATTTGACATA-A-AAAAGCC
1 ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGA-ATATAGAAAAATC
* * * *
16721001 TTGACGTAAAACTGTAAGAATTAACTTAAAAACTTATAAAGGTGAAATAACT-AATTTTAAATCT
65 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGATGGAATAACTAAATTTTAAATCT
* *
16721065 TAACGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTCTAGTGAAA
130 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAA
* * * *
16721130 AGTAAATATTTGAATTTATATCCTCGGACTAAAAGTATTTAACGATATACT-AATTTTA
195 AATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATATA-TAAATTTTA
* *
16721188 ATTTTTAAATGAAA-AATAATAAAGATAAAAATAATTATAGTTCAAAATT-AACATA-AAAAAGT
1 ATTTTTAAAT-AAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGAATATAGAAAAA-T
* *
16721250 CTTGACGTAAAACTGTAATAATTGACATAAAAACTTATAAA-AGTGGAATAACTAAATTTTAAAT
64 CTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGA-TGGAATAACTAAATTTTAAAT
* * * * * *
16721314 CTTAACGTAAATGTGTAAAAATTAACATAAAAAGTCAATTAAGTAAAAAAAATCTAATTGTAGTG
128 CTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AAAAAAATCTAATTTTAGTG
* * * * *
16721379 AAACACAAATATTTAAATTTATATTCTCAAACAAAAAGTGTTTAACGATATATAAATTTTA
192 AAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATATATAAATTTTA
* * * **
16721440 ATTTTTGAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTG-ACATAGATAAGCCT
1 ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGAATATAGAAAAATCT
* * * * * *
16721504 TAACTTAAAACTGTAATAATTGACGTAAACATTTATAAA-AGTGGACTAACTAAATTTTAAATCT
66 TGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGA-TGGAATAACTAAATTTTAAATCT
* * * * *
16721568 TAATGTAAATGTATGAGAGTTAACGTAACAATTCAATTAAGTAAAAAAAAATTTAATTTTAGTAA
130 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT--AAAAAAATCTAATTTTAGTGA
* * * * * *
16721633 AAAATAAATATTTAGATATATATT-T-AGGGTCTAAAAATGTTTAACAATATATAAATTTTA
193 AAAATAAATATTTAAATTTATATTCTCA--GACTAAAAGTATTTAACGATATATAAATTTTA
* **
16721693 ATTTTAAAATAAAGAATAATAATAATAATAATAATAATTATAGTTCAAA
1 ATTTTTAAATAAAGAATAATAAGGAT-A-AA-AATAATTATAGTTCAAA
16721742 TTTGGCAAAA
Statistics
Matches: 1331, Mismatches: 184, Indels: 71
0.84 0.12 0.04
Matches are distributed among these distances:
248 4 0.00
249 172 0.13
250 666 0.50
251 161 0.12
252 217 0.16
253 91 0.07
254 1 0.00
255 2 0.00
256 17 0.01
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.34
Consensus pattern (252 bp):
ATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGAATATAGAAAAATCT
TGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGATGGAATAACTAAATTTTAAATCTT
AACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAA
ATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATATATAAATTTTA
Found at i:16721205 original size:750 final size:753
Alignment explanation
Indices: 16719939--16721745 Score: 2406
Period size: 750 Copynumber: 2.4 Consensus size: 753
16719929 NNNNNNNNNN
* * * * * * ***
16719939 ATTTTTAAATAAA-AATAATAAGGGTAAAAGTAATTAAAGTTTAAAATTGACATAGATAAATTTT
1 ATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGACAAGCCTT
* *
16720003 AACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTA
66 AACGTAAAACTGTAAGAATTGACGTAAAATCTTATAAAAGTGGAATAACTAAATTTTAAATCTTA
** *
16720068 ACGTAAACATGTGAGAGTTAACGTAACAAATTAATTAAGTAAAAAAATCT-ATTTTAGTGAAAAA
131 ACGTAAATGTGTGAGAGTTAACGTAACAAATCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAA
*
16720132 TAAATATTTAAATTTATATTTTCAGACTAAAAGTATTTAACAATATATAAATTTTAATTTTTAAA
196 TAAATATTTAAATTTATATTTT-AGACTAAAAGTGTTTAACAATATATAAATTTTAATTTTTAAA
* * * *
16720197 TAAAGAATAATAAGGATAAAAATAATTATAATTCAAA-ATGAATATAGAAAAATCTTGACGTAAA
260 TAAAAAATAATAAGGATAAAAATAATTATAGTTCAAATTTGAATATAGAAAAACCTTGACGTAAA
* * * *
16720261 ACTGTAAGAATTGATGTAAACACTTATAAAGATGAAATAATTAAATTTTAAATCTTAATATAAAT
325 ACTGTAAGAATTAATGTAAAAACTTATAAAGATGAAATAACTAAATTTTAAATCTTAACATAAAT
* *
16720326 ATGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTATTGAAAAATAAATATT
390 ATGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTCTAGTGAAAAATAAATATT
*
16720391 TAAATTTATATTCTCGGAATAAAAGTATTTAACAATATACAAATTTTAATTTTTAAATAAAAATA
455 TAAATTTATATCCTCGGAATAAAAGTATTTAACAATATACAAATTTTAATTTTTAAATAAAAATA
* *
16720456 ATAAAGATAAAAATAATTATAGTTTAAAATTGACATAAATAAACT-TTGACGTAAAACTGTAAGA
520 ATAAAGATAAAAATAATTATAGTTCAAAATTAACATAAA-AAACTCTTGACGTAAAACTGTAAGA
* * * * *
16720520 ATTGACGTAAAAACTTATAGAGGTGGAATAACTAAATTTTAAATTTTAACGTAAATGTGTAAAAG
584 ATTGACATAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTAAAAA
* * * * * * * *
16720585 TTAACGCAATAAGTTAATTAAGT-AAAAAAGTCTAATTTTAATGAAAAATAAGCATTTATATTTA
649 TTAACACAAAAAGTCAATTAAGTAAAAAAAATCTAATTGTAATGAAAAACAAACATTTAAATTTA
* ** *
16720649 TATAATCAGATTAAAAGTATGTAACGATAT-TCAAATTTTT
714 TATAATCAAACAAAAAGTATGTAACGATATAT-AAATTTTA
* * * *
16720689 A-TTTTAAATAAAGAATAATAAAGATAAAGATATTTATAGTT-AAAAGTT-ACTATTGACAAGGC
1 ATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCAAAA-TTGAC-ATAGACAAGCC
* ** * * * *
16720751 TTGACGTAAAGTTGTAAGAATTAATGTAAAATCTTATAAAAGTGGAATAAGC-AAATTTAAAATT
64 TTAACGTAAAACTGTAAGAATTGACGTAAAATCTTATAAAAGTGGAATAA-CTAAATTTTAAATC
* * *
16720815 TTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTCAATGAA
128 TTAACGTAAATGTGTGAGAGTTAACGTAACAAATCAATTAAGTAAAAAAATCTAATTTTAGTGAA
* * * * *
16720880 AAACAAACATTTAAATTTTTATTCTTAGACTAAAAGTGTTGAACGATATATAAATTTTAATTTTT
193 AAATAAATATTTAAATTTATATT-TTAGACTAAAAGTGTTTAACAATATATAAATTTTAATTTTT
* *
16720945 AAATAAAAAATAAT-AGGATAAAAATAATTATTGTTCAAATTTGACATA-A-AAAAGCCTTGACG
257 AAATAAAAAATAATAAGGATAAAAATAATTATAGTTCAAATTTGA-ATATAGAAAAACCTTGACG
* *
16721007 TAAAACTGTAAGAATTAACT-TAAAAACTTATAAAGGTGAAATAACT-AATTTTAAATCTTAACG
321 TAAAACTGTAAGAATTAA-TGTAAAAACTTATAAAGATGAAATAACTAAATTTTAAATCTTAACA
* *
16721070 TAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTCTAGTGAAAAGTAA
385 TAAATATGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTCTAGTGAAAAATAA
* * * *
16721135 ATATTTGAATTTATATCCTCGGACTAAAAGTATTTAACGATATACTAATTTTAATTTTTAAATGA
450 ATATTTAAATTTATATCCTCGGAATAAAAGTATTTAACAATATACAAATTTTAATTTTTAAAT-A
*
16721200 AAAATAATAAAGATAAAAATAATTATAGTTCAAAATTAACATAAAAAAGTCTTGACGTAAAACTG
514 AAAATAATAAAGATAAAAATAATTATAGTTCAAAATTAACATAAAAAACTCTTGACGTAAAACTG
*
16721265 TAATAATTGACATAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
579 TAAGAATTGACATAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
* * * *
16721330 AAAAATTAACATAAAAAGTCAATTAAGTAAAAAAAATCTAATTGTAGTGAAACACAAATATTTAA
644 AAAAATTAACACAAAAAGTCAATTAAGTAAAAAAAATCTAATTGTAATGAAAAACAAACATTTAA
** * *
16721395 ATTTATATTCTCAAACAAAAAGTGTTTAACGATATATAAATTTTA
709 ATTTATATAATCAAACAAAAAGTATGTAACGATATATAAATTTTA
* * *
16721440 ATTTTTGAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGACATAGATAAGCCTT
1 ATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGACAAGCCTT
* * *
16721505 AACTTAAAACTGTAATAATTGACGTAAACAT-TTATAAAAGTGGACTAACTAAATTTTAAATCTT
66 AACGTAAAACTGTAAGAATTGACGTAAA-ATCTTATAAAAGTGGAATAACTAAATTTTAAATCTT
* * * * *
16721569 AATGTAAATGTATGAGAGTTAACGTAACAATTCAATTAAGTAAAAAAAAATTTAATTTTAGTAAA
130 AACGTAAATGTGTGAGAGTTAACGTAACAAATCAATTAAGT--AAAAAAATCTAATTTTAGTGAA
* * * *
16721634 AAATAAATATTTAGATATATA-TTTAGGGTCTAAAAATGTTTAACAATATATAAATTTTAATTTT
193 AAATAAATATTTAAATTTATATTTTA--GACTAAAAGTGTTTAACAATATATAAATTTTAATTTT
* ** *
16721698 AAAATAAAGAATAATAATAATAATAATAATAATTATAGTTCAAATTTG
256 TAAAT-AA-AA-AATAATAAGGATAAAAATAATTATAGTTCAAATTTG
16721746 GCAAAAATAA
Statistics
Matches: 911, Mismatches: 120, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
749 155 0.17
750 348 0.38
751 149 0.16
752 144 0.16
753 9 0.01
754 71 0.08
755 2 0.00
756 2 0.00
757 6 0.01
758 25 0.03
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.34
Consensus pattern (753 bp):
ATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCAAAATTGACATAGACAAGCCTT
AACGTAAAACTGTAAGAATTGACGTAAAATCTTATAAAAGTGGAATAACTAAATTTTAAATCTTA
ACGTAAATGTGTGAGAGTTAACGTAACAAATCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAA
TAAATATTTAAATTTATATTTTAGACTAAAAGTGTTTAACAATATATAAATTTTAATTTTTAAAT
AAAAAATAATAAGGATAAAAATAATTATAGTTCAAATTTGAATATAGAAAAACCTTGACGTAAAA
CTGTAAGAATTAATGTAAAAACTTATAAAGATGAAATAACTAAATTTTAAATCTTAACATAAATA
TGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTCTAGTGAAAAATAAATATTT
AAATTTATATCCTCGGAATAAAAGTATTTAACAATATACAAATTTTAATTTTTAAATAAAAATAA
TAAAGATAAAAATAATTATAGTTCAAAATTAACATAAAAAACTCTTGACGTAAAACTGTAAGAAT
TGACATAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTAAAAATT
AACACAAAAAGTCAATTAAGTAAAAAAAATCTAATTGTAATGAAAAACAAACATTTAAATTTATA
TAATCAAACAAAAAGTATGTAACGATATATAAATTTTA
Found at i:16721625 original size:20 final size:22
Alignment explanation
Indices: 16721597--16721641 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
16721587 TTAACGTAAC
16721597 AATTCAA-TTAAGTAAAAAA-A
1 AATTCAATTTAAGTAAAAAATA
* *
16721617 AATTTAATTTTAGTAAAAAATA
1 AATTCAATTTAAGTAAAAAATA
16721639 AAT
1 AAT
16721642 ATTTAGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTCAATTTAAGTAAAAAATA
Found at i:16733355 original size:30 final size:30
Alignment explanation
Indices: 16733321--16733446 Score: 75
Period size: 30 Copynumber: 4.3 Consensus size: 30
16733311 AAATATAACG
* *
16733321 TATAACAATAATATTTTTTTCAACATGGCA
1 TATAACAACAATATTTTTTTCAACATGACA
* * * *
16733351 TATAATAACAGTATTTTTTTTTCAATATGACG
1 TATAACAACA--ATATTTTTTTCAACATGACA
* * *
16733383 TGT---AA-TA-ATTTTTTT-AATCATGACG
1 TATAACAACAATATTTTTTTCAA-CATGACA
* **
16733408 TGTAACAACAATATTTTTTTCAACATGGTA
1 TATAACAACAATATTTTTTTCAACATGACA
16733438 TATAACAAC
1 TATAACAAC
16733447 TTAATTATGA
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
24 2 0.03
25 16 0.22
26 1 0.01
28 2 0.03
29 3 0.04
30 28 0.39
31 2 0.03
32 18 0.25
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (30 bp):
TATAACAACAATATTTTTTTCAACATGACA
Found at i:16733490 original size:22 final size:23
Alignment explanation
Indices: 16733465--16733511 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
16733455 GATATGTCAC
* *
16733465 ATAT-TTTTTTACATGACGTGTA
1 ATATGTTTTATACATGACATGTA
16733487 ATATGGTTTTATACATGACATGTA
1 ATAT-GTTTTATACATGACATGTA
16733511 A
1 A
16733512 CATCGTAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
24 17 0.81
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (23 bp):
ATATGTTTTATACATGACATGTA
Found at i:16735908 original size:24 final size:23
Alignment explanation
Indices: 16735859--16735934 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 23
16735849 ACTATTAGTT
*
16735859 ATAAAAAAAATTATTTGATTTAA
1 ATAAAAAAAATAATTTGATTTAA
*
16735882 ATAAAAATAAATGAATTTGATTGAA
1 ATAAAAA-AAAT-AATTTGATTTAA
*
16735907 TATAATAAAATAATAAATTTTATTTAA
1 -ATAA-AAAA-AAT-AATTTGATTTAA
16735934 A
1 A
16735935 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 7 0.16
24 4 0.09
25 10 0.23
26 6 0.14
27 16 0.37
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (23 bp):
ATAAAAAAAATAATTTGATTTAA
Found at i:16748423 original size:25 final size:25
Alignment explanation
Indices: 16748372--16748434 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
16748362 CATTCTGATT
*
16748372 TATTATATTTTTCTTTTTAATAAATA
1 TATTATATTTTTATTTTT-ATAAATA
16748398 T-TTATATTTTTATTATTT-TAACATA
1 TATTATATTTTTATT-TTTATAA-ATA
16748423 TATTA-ATTTTTA
1 TATTATATTTTTA
16748435 AAATTGAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 3 0.09
25 23 0.70
26 7 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TATTATATTTTTATTTTTATAAATA
Found at i:16748778 original size:119 final size:119
Alignment explanation
Indices: 16748559--16748789 Score: 354
Period size: 119 Copynumber: 1.9 Consensus size: 119
16748549 AGTGAAAAAA
* *
16748559 GTGAAAGAGTTATTTCAATATAGAAACTAAGAAATTATATTTTAAATGGTAAAAATCAAAATAAT
1 GTGAAAGAGTTATTTCAATATAAAAACTAAGAAATTATATTTTAAACGGTAAAAATCAAAATAAT
* *
16748624 ATGCGTCTATAATTTTAATAGCCACACGTATTATTTAAGGTAAAATATTCTCAG
66 ATGCGTCTATAATTTTAAAAGCCACACGTACTATTTAAGGTAAAATATTCTCAG
* * *
16748678 GTGAAAGAGTTATTTCAGTATAAAAACTAAGAAATTATATTTTAAACGGTAGAAATCAAGATAAT
1 GTGAAAGAGTTATTTCAATATAAAAACTAAGAAATTATATTTTAAACGGTAAAAATCAAAATAAT
* * * * *
16748743 ATGTGTCTATAATTTTAAAAGCTACATGTGCTATTTAGGGTAAAATA
66 ATGCGTCTATAATTTTAAAAGCCACACGTACTATTTAAGGTAAAATA
16748790 CTCTTACTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
119 100 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (119 bp):
GTGAAAGAGTTATTTCAATATAAAAACTAAGAAATTATATTTTAAACGGTAAAAATCAAAATAAT
ATGCGTCTATAATTTTAAAAGCCACACGTACTATTTAAGGTAAAATATTCTCAG
Found at i:16749060 original size:15 final size:16
Alignment explanation
Indices: 16749033--16749063 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16749023 GACCAATGCA
16749033 CCCCTGAATTTTTTTT
1 CCCCTGAATTTTTTTT
16749049 CCCCTG-ATTTTTTTT
1 CCCCTGAATTTTTTTT
16749064 ACAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.10, C:0.26, G:0.06, T:0.58
Consensus pattern (16 bp):
CCCCTGAATTTTTTTT
Found at i:16753698 original size:3 final size:3
Alignment explanation
Indices: 16753690--16753727 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
16753680 TGCCGCTACT
* *
16753690 TCC TCC TCC CCC TCC TCC TCC TCC TCC TCC TCT TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
16753728 GTCGTAATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:16755127 original size:21 final size:20
Alignment explanation
Indices: 16755097--16755141 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
16755087 TCCATGCGTC
*
16755097 CTTTTTTGCTTTTGCTTTCT
1 CTTTTTTGCTTCTGCTTTCT
*
16755117 CTTTTTATGCTTCTGGTTTCT
1 CTTTTT-TGCTTCTGCTTTCT
16755138 -TTTT
1 CTTTT
16755142 CTGTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.02, C:0.18, G:0.11, T:0.69
Consensus pattern (20 bp):
CTTTTTTGCTTCTGCTTTCT
Found at i:16755314 original size:2 final size:2
Alignment explanation
Indices: 16755307--16755335 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16755297 AATTGGGTAT
16755307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16755336 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16763878 original size:29 final size:28
Alignment explanation
Indices: 16763814--16763881 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
16763804 TTTCCTTTTT
***
16763814 CAATAATAAAACTTGGCATGTATAAAAA
1 CAATAATAAAACTTGGCACAAATAAAAA
16763842 -AAGGTAATAAAACTTGGCACAAATGAAAAA
1 CAA--TAATAAAACTTGGCACAAAT-AAAAA
16763872 CAATAATAAA
1 CAATAATAAA
16763882 GGGAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
29 24 0.73
30 5 0.15
31 2 0.06
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (28 bp):
CAATAATAAAACTTGGCACAAATAAAAA
Found at i:16767977 original size:46 final size:46
Alignment explanation
Indices: 16767927--16768049 Score: 112
Period size: 46 Copynumber: 2.7 Consensus size: 46
16767917 CTTTTACTAC
* * * *
16767927 AATTAAATAATATTT-TNATAATTTAATAATATTT-GTATTAGAAGAT
1 AATTAAAT-AT-TTTATTATAATTAAATAATATTTAATATTAAAAGAT
*
16767973 AATTAAATCTTTTATTATAATTAAATAATATTTAATATTAAAAGAT
1 AATTAAATATTTTATTATAATTAAATAATATTTAATATTAAAAGAT
16768019 AA--AATATATTCTTCATTA-AATTTAAATAATA
1 AATTAA-ATATT-TT-ATTATAA-TTAAATAATA
16768050 CTAAATAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
44 5 0.08
45 22 0.34
46 24 0.37
47 14 0.22
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTAAATATTTTATTATAATTAAATAATATTTAATATTAAAAGAT
Found at i:16768103 original size:45 final size:45
Alignment explanation
Indices: 16768043--16768136 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
16768033 ATTAAATTTA
*
16768043 AATAATACTAAATAATATTCTTTATTACATTTATTATA-TTCAAAT
1 AATAATACTAAATAATATTCTTTATAACATTTATTATAGTT-AAAT
* **
16768088 AATAATATTAAATAATATTCTTTATAATGTTTATTATAGTTAAAT
1 AATAATACTAAATAATATTCTTTATAACATTTATTATAGTTAAAT
16768133 AATA
1 AATA
16768137 TTAATATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (45 bp):
AATAATACTAAATAATATTCTTTATAACATTTATTATAGTTAAAT
Found at i:16770748 original size:19 final size:20
Alignment explanation
Indices: 16770719--16770756 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16770709 AATCAATTAT
16770719 GATTTTGCATTTATTATATG
1 GATTTTGCATTTATTATATG
*
16770739 GATTTT-CATTTGTTATAT
1 GATTTTGCATTTATTATAT
16770757 AGCAACTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (20 bp):
GATTTTGCATTTATTATATG
Found at i:16776240 original size:49 final size:49
Alignment explanation
Indices: 16776183--16776299 Score: 198
Period size: 49 Copynumber: 2.4 Consensus size: 49
16776173 TTTCCAAATA
* * *
16776183 GAGTTCCTGGTTGAATCTTCTGTCATTGGTTTCTATTGAAGAAGCTTTT
1 GAGTTCCTGGTTGAAACTTCTGTCATTGGTTTCTATTAAAGAAGCTATT
*
16776232 GAGTTCCTGGTTGAAACTTCTGTCATTTGTTTCTATTAAAGAAGCTATT
1 GAGTTCCTGGTTGAAACTTCTGTCATTGGTTTCTATTAAAGAAGCTATT
16776281 GAGTTCCTGGTTGAAACTT
1 GAGTTCCTGGTTGAAACTT
16776300 GCGGCTTCTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (49 bp):
GAGTTCCTGGTTGAAACTTCTGTCATTGGTTTCTATTAAAGAAGCTATT
Found at i:16777761 original size:33 final size:33
Alignment explanation
Indices: 16777724--16777800 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
16777714 CTCCACCATC
16777724 TCCTCTGCCCCTTCTTCCCCCGTCTCTACCACT
1 TCCTCTGCCCCTTCTTCCCCCGTCTCTACCACT
*
16777757 TCCTCTGCCCCTTCTTCCCGCGTCTCTACCACT
1 TCCTCTGCCCCTTCTTCCCCCGTCTCTACCACT
16777790 TCCTCTGCCCC
1 TCCTCTGCCCC
16777801 GCTCTCCTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.05, C:0.55, G:0.08, T:0.32
Consensus pattern (33 bp):
TCCTCTGCCCCTTCTTCCCCCGTCTCTACCACT
Found at i:16778767 original size:22 final size:21
Alignment explanation
Indices: 16778739--16778779 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
16778729 TGCACACGGG
16778739 TCTCTTTCTATTTGTTTTTTTT
1 TCTCTTTCTATTT-TTTTTTTT
*
16778761 TCTCTTTTTATTTTTTTTT
1 TCTCTTTCTATTTTTTTTT
16778780 ATACCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (21 bp):
TCTCTTTCTATTTTTTTTTTT
Found at i:16780194 original size:35 final size:35
Alignment explanation
Indices: 16780148--16780219 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
16780138 TTCTCCTTGT
16780148 ACTTCTCTTCATTTTCCTTTTTGCTTTAAAACTGA
1 ACTTCTCTTCATTTTCCTTTTTGCTTTAAAACTGA
16780183 ACTTCTCTTCATTTTCCTTTTTGCTTTAAAACTGA
1 ACTTCTCTTCATTTTCCTTTTTGCTTTAAAACTGA
16780218 AC
1 AC
16780220 ACACGCACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.50
Consensus pattern (35 bp):
ACTTCTCTTCATTTTCCTTTTTGCTTTAAAACTGA
Found at i:16780231 original size:35 final size:35
Alignment explanation
Indices: 16780157--16780231 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
16780147 TACTTCTCTT
* * **
16780157 CATTTTCCTTTTTGCTTTAAAACTGAACTTCTCTT
1 CATTTTCCTTTTTGCTTTAAAACTGAACTACACCA
16780192 CATTTTCCTTTTTGCTTTAAAACTGAAC-ACACGCA
1 CATTTTCCTTTTTGCTTTAAAACTGAACTACAC-CA
16780227 CATTT
1 CATTT
16780232 ATATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (35 bp):
CATTTTCCTTTTTGCTTTAAAACTGAACTACACCA
Found at i:16780236 original size:2 final size:2
Alignment explanation
Indices: 16780231--16780260 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16780221 CACGCACATT
16780231 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
16780261 NCTGAACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16780282 original size:2 final size:2
Alignment explanation
Indices: 16780277--16780308 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16780267 CACACGCACA
16780277 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
16780309 TAATTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16787228 original size:35 final size:35
Alignment explanation
Indices: 16787177--16787246 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
16787167 AAACTCTTTC
*
16787177 ATTGTTTCCACCAATTTACAG-GATAGAACTTCACT
1 ATTGATTCCACCAATTTAC-GTGATAGAACTTCACT
* *
16787212 ATTGATTCCACCAATTTGCGTGGTAGAACTTCACT
1 ATTGATTCCACCAATTTACGTGATAGAACTTCACT
16787247 GCCGTACCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (35 bp):
ATTGATTCCACCAATTTACGTGATAGAACTTCACT
Found at i:16798231 original size:17 final size:17
Alignment explanation
Indices: 16798199--16798231 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16798189 TATAACAAAA
16798199 CAAAATAACAATAACAT
1 CAAAATAACAATAACAT
16798216 CAAATATAACAA-AACA
1 CAAA-ATAACAATAACA
16798232 AAATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAATAACAATAACAT
Found at i:16798449 original size:18 final size:18
Alignment explanation
Indices: 16798386--16798449 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
16798376 TGCCATGTAT
*
16798386 ACACGTTTAAACATGATA
1 ACACGATTAAACATGATA
* * * * *
16798404 GCATGATTAAACACGTTT
1 ACACGATTAAACATGATA
* *
16798422 ATACGTTTAAACATGATA
1 ACACGATTAAACATGATA
16798440 ACACGATTAA
1 ACACGATTAA
16798450 TTAAACGTGT
Statistics
Matches: 31, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (18 bp):
ACACGATTAAACATGATA
Found at i:16800179 original size:14 final size:15
Alignment explanation
Indices: 16800156--16800184 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16800146 TTGGAATAAG
16800156 AAAAGAATAAAAATA
1 AAAAGAATAAAAATA
16800171 AAAAG-ATAAAAATA
1 AAAAGAATAAAAATA
16800185 CCCATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAAGAATAAAAATA
Found at i:16800222 original size:24 final size:25
Alignment explanation
Indices: 16800189--16800238 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
16800179 AAAATACCCA
* *
16800189 TTATTATATA-ATGATTATTTTATT
1 TTATTATATATATAATAATTTTATT
*
16800213 TTATTTTATATATAATAATTTTATT
1 TTATTATATATATAATAATTTTATT
16800238 T
1 T
16800239 ATAATCTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTATTATATATATAATAATTTTATT
Found at i:16800248 original size:20 final size:19
Alignment explanation
Indices: 16800209--16800285 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 19
16800199 ATGATTATTT
*
16800209 TATTTTATTT-TATATATAA
1 TATTTTATTTATA-ATCTAA
16800228 TAATTTTATTTATAATCTAA
1 T-ATTTTATTTATAATCTAA
* * *
16800248 TCATTAATATTACAAAATACTAA
1 T-ATT-TTATT-TATAAT-CTAA
16800271 TATTTTATTTATAAT
1 TATTTTATTTATAAT
16800286 TTAAATGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
19 1 0.02
20 22 0.49
21 10 0.22
22 7 0.16
23 5 0.11
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTATTTATAATCTAA
Found at i:16800306 original size:42 final size:42
Alignment explanation
Indices: 16800225--16800320 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
16800215 ATTTTATATA
*
16800225 TAATAATTTTATTTATAATCTAATCATTAATATTACAAAATAC
1 TAATAATTTTATTTATAATCTAA-CATTAATATGACAAAATAC
* *
16800268 TAAT-ATTTTATTTATAATTTAA-ATGTATTATGAGCAAAATA-
1 TAATAATTTTATTTATAATCTAACAT-TAATATGA-CAAAATAC
16800309 TAACTAATTTTA
1 TAA-TAATTTTA
16800321 ATTAATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
40 2 0.04
41 9 0.20
42 25 0.54
43 10 0.22
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (42 bp):
TAATAATTTTATTTATAATCTAACATTAATATGACAAAATAC
Found at i:16800364 original size:19 final size:20
Alignment explanation
Indices: 16800319--16800364 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
16800309 TAACTAATTT
16800319 TAATTAATTTTTAAAATTAAA
1 TAATT-ATTTTTAAAATTAAA
*
16800340 -ATATTATTTTTATAA-TAAA
1 TA-ATTATTTTTAAAATTAAA
16800359 TAATTA
1 TAATTA
16800365 AAACTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 8 0.36
20 11 0.50
21 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATTTTTAAAATTAAA
Found at i:16800481 original size:20 final size:20
Alignment explanation
Indices: 16800422--16800485 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
16800412 TTCAATTTCG
* *
16800422 ATATTAATATTTTATTTATA
1 ATATTATTATTTTATTTAAA
*
16800442 AT-TTATTCATTAATATTTTAAA
1 ATATTATT-ATT-TTA-TTTAAA
16800464 ATATTATTATTTTATTTAAA
1 ATATTATTATTTTATTTAAA
16800484 AT
1 AT
16800486 TTTAATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.11
20 13 0.36
21 4 0.11
22 10 0.28
23 5 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTATTATTTTATTTAAA
Found at i:16800565 original size:22 final size:21
Alignment explanation
Indices: 16800520--16800575 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
16800510 TTAATAATTT
*
16800520 TAAT-TAA-TTTTTAAATTTA
1 TAATATAATTTTTTAAATATA
*
16800539 AAATATAATTTTTTACAATATA
1 TAATATAATTTTTTA-AATATA
16800561 TAATATCTAATTTTT
1 TAATA--TAATTTTT
16800576 CAAACTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 6 0.21
22 9 0.31
24 8 0.28
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATATAATTTTTTAAATATA
Found at i:16800882 original size:16 final size:16
Alignment explanation
Indices: 16800861--16800891 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16800851 AATTTTTTAT
*
16800861 TTATAATTTAAATATG
1 TTATAATTAAAATATG
16800877 TTATAATTAAAATAT
1 TTATAATTAAAATAT
16800892 AAAAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATAATTAAAATATG
Found at i:16800950 original size:28 final size:29
Alignment explanation
Indices: 16800871--16800950 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 29
16800861 TTATAATTTA
* *
16800871 AATATGTTAT-AATTAAAATATAAAAATATT
1 AATAT-TTATAAATTTAAAT-TTAAAATATT
* * *
16800901 AATATTTTTATATTTTAATTTAAAATATT
1 AATATTTATAAATTTAAATTTAAAATATT
*
16800930 GAT-TTTATAAATTTAAATTTA
1 AATATTTATAAATTTAAATTTA
16800951 TAATTTTTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 15 0.38
29 14 0.35
30 11 0.28
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
AATATTTATAAATTTAAATTTAAAATATT
Found at i:16803637 original size:14 final size:14
Alignment explanation
Indices: 16803618--16803673 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 14
16803608 TATAATTGAA
16803618 ATAAATAAAAAAAT
1 ATAAATAAAAAAAT
16803632 ATAAATAATAAAAAAAT
1 AT--A-AATAAAAAAAT
16803649 ATAAATAGAAAAAAT
1 ATAAATA-AAAAAAT
16803664 -TAAATAAAAA
1 ATAAATAAAAA
16803674 CTTTACCTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.11
14 12 0.32
15 8 0.21
16 1 0.03
17 13 0.34
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
ATAAATAAAAAAAT
Found at i:16803662 original size:17 final size:17
Alignment explanation
Indices: 16803616--16803655 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
16803606 AATATAATTG
16803616 AAATAAATAAAAAAATAT
1 AAAT-AATAAAAAAATAT
16803634 AAATAATAAAAAAATAT
1 AAATAATAAAAAAATAT
16803651 AAATA
1 AAATA
16803656 GAAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAATAAAAAAATAT
Found at i:16808310 original size:2 final size:2
Alignment explanation
Indices: 16808303--16808330 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16808293 AATAAATCAT
16808303 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
16808331 CTACCACNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16812900 original size:22 final size:22
Alignment explanation
Indices: 16812861--16812905 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16812851 AACAATGAAA
* * * *
16812861 TGGGTGGAATAACTAATGTTGC
1 TGGGTGAAAAAACCAATGCTGC
16812883 TGGGTGAAAAAACCAATGCTGC
1 TGGGTGAAAAAACCAATGCTGC
16812905 T
1 T
16812906 TTGAAACCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (22 bp):
TGGGTGAAAAAACCAATGCTGC
Found at i:16813068 original size:31 final size:32
Alignment explanation
Indices: 16813007--16813141 Score: 145
Period size: 31 Copynumber: 4.3 Consensus size: 32
16812997 TTTCTTTTTT
*
16813007 TTTTCAATTTGATCCTCTAAACTTTTTCATTC
1 TTTTCAATTTGATCCTCTAAACATTTTCATTC
* *
16813039 TTTTCAATTTGGTCCTTTAAAC-TTTTCATTC
1 TTTTCAATTTGATCCTCTAAACATTTTCATTC
* * *
16813070 TTTTAAATGTGATCC-CTCAACATTTTC-TTC
1 TTTTCAATTTGATCCTCTAAACATTTTCATTC
* *
16813100 TTTTTCAATTT-AGTCCTCT-AATATTTTCTTTC
1 -TTTTCAATTTGA-TCCTCTAAACATTTTCATTC
16813132 TTTTCAATTT
1 TTTTCAATTT
16813142 AGTCATTCTC
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
30 8 0.09
31 55 0.62
32 25 0.28
ACGTcount: A:0.21, C:0.20, G:0.04, T:0.55
Consensus pattern (32 bp):
TTTTCAATTTGATCCTCTAAACATTTTCATTC
Found at i:16813433 original size:44 final size:44
Alignment explanation
Indices: 16813340--16813454 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 44
16813330 AACCACAAAT
*
16813340 TCAAGGATTTTGCTTATTATCTTT-GAAAGCTTAAAATCACAGT
1 TCAAGGATTTTGCTTATTATCTTTGGAAAGCTTAAAATCACAGC
* *
16813383 TCCAAGGATTTTGCTTATTATCTTTGGAAA-CTTAACATTACAGAC
1 T-CAAGGATTTTGCTTATTATCTTTGGAAAGCTTAAAATCACAG-C
** *
16813428 TCAAGGATTTCAC-TATTATCCTTGGAA
1 TCAAGGATTTTGCTTATTATCTTTGGAA
16813455 CTCAAAATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 14 0.22
44 44 0.70
45 5 0.08
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (44 bp):
TCAAGGATTTTGCTTATTATCTTTGGAAAGCTTAAAATCACAGC
Found at i:16816194 original size:21 final size:22
Alignment explanation
Indices: 16816170--16816211 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16816160 ACACACAGGA
16816170 AAAAAAAAAAACT-AAAAAAAC
1 AAAAAAAAAAACTCAAAAAAAC
*
16816191 AAAAACAAAAACTCAAAAAAA
1 AAAAAAAAAAACTCAAAAAAA
16816212 AAATCACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.83, C:0.12, G:0.00, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAAACTCAAAAAAAC
Done.