Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 135 of 318
Found at i:41871413 original size:27 final size:28
Alignment explanation
Indices: 41871329--41871426 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
41871319 CATGAGATTG
* * * *
41871329 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
41871358 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
41871386 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41871413 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
41871427 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41871437 original size:27 final size:27
Alignment explanation
Indices: 41871357--41871439 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
41871347 TAAATTGTAC
* *
41871357 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
41871385 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
41871412 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
41871439 A
1 A
41871440 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:41871440 original size:29 final size:27
Alignment explanation
Indices: 41871329--41871440 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
41871319 CATGAGATTG
** * *
41871329 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
41871358 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
41871386 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
41871413 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
41871441 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:41879463 original size:44 final size:44
Alignment explanation
Indices: 41879366--41880608 Score: 501
Period size: 44 Copynumber: 28.3 Consensus size: 44
41879356 CAAGCTGATA
* * * * * *
41879366 CTTCGATCTGTTCTCTGTCGAACACAAAGATGACAAATCTACTAT
1 CTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTACTAT
* *
41879411 CTTCGATCTGCTCTCTGACAATATAGGGACGCCAAATCTACTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* ** * *
41879455 CTTTGATCTGCTCTCTGACAATATGGAGATGCCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
*
41879499 CTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
**
41879543 CTTCGATCCACTCTCTGACAATACAGAGACGCCAAATCTACTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* *
41879587 CTTCGATCTTCTCTCTGACAATACAGAGATGCCAAA--T-C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* * * **
41879627 CTTGGATTTG--CT-T--CAATGA-AG-G--TCC-AATCTGTTAT
1 CTTCGATCTGCTCTCTGACAAT-ACAGAGACGCCAAATCTACTAT
* * * *
41879662 GCCTTCGATCTACTCTCCGTCTAATACAGAGATGCCAAATC-ATCTTGGAT
1 --CTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTA-C-T--AT
* * * ** * ** * ** * * * *
41879712 CTGCTATCTTCAATCTGTTCTCTGACA-ATACAGAGACACCAAATCAT
1 CTTCGATCTGCTCTCTG-ACAAT-ACAGAGAC-GCCAAATCTACT-AT
* * * * *
41879759 CTTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAATC-AGCTATGT
1 CTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCTA-CTA--T
* * * * *
41879806 CTTCGATCTGTTCCCTGTCGAATACAGAGATGCCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTACTAT
** * *
41879851 CTTCGATCTATTCTCTGACAATATAGAGACGCCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
*
41879895 CTTCGATCTGCTCTCTGACAATACAGAGATGCCAAA--T-C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* * * * * *
41879935 CTTAGATTTGCT-TC-AACATAAACACATGAAAGCCAAATC-AGCTATGT
1 CTTCGATCTGCTCTCTGACA-ATACAGA-G-ACGCCAAATCTA-CTA--T
* * * * *
41879982 CTTCGATCTGCTCCCTGTCGAATACAGAGATGCCAAATCT-GTTT
1 CTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTACTAT
* * *
41880026 CTTCGATTTGTTCTCTGACAATACAGAGACGCCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* *
41880070 CTTCGATTTGCTCTCTGACAATACAGAGACACCAAA--T-C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* * * * *
41880110 CTTAGATTTGCTTCAACTTA-AATACATGA-AAGCCAAATC-AGCTATGT
1 CTTCGATCTGC-TC-TCTGACAATACA-GAGACGCCAAATCTA-CTA--T
* * * * * * *
41880157 CTTTGATCTGCTCCCTGTCGGATACAGAGATGCCAAATCT-GTTT
1 CTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTACTAT
* * * *
41880201 CTTCGATTTGTTCTCTGACAATATAGAGACGCCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* *
41880245 CTTTGATCTGCTCTCTGACAATACAGAGACACCAAA--T-C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* * * * *
41880285 CTTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAAT-TAACTATGT
1 CTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCT-ACTA--T
* * * * * * *
41880332 CTTTGATCTGCTCCCTGTCGAATACAGAGATGCGAAATCT-GTTT
1 CTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCTACTAT
* * * *
41880376 CTTCGATTTGTTCTCTGACAATACAGAGACACCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* * *
41880420 CTTCGATCTTCTCTCTGACAATACAGATATGCCAAA--T-C-AT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
* * * * *
41880460 CTTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAATC-AGCTATGT
1 CTTCGATCTGCTCTCTGAC--AATACA-GAG-ACGCCAAATCTA-CTA--T
* * *
41880507 CTTCGATCTGCTCAT-TGCCGAATACAGAG-CGTTGCCAAATCT-GTTT
1 CTTCGATCTGCTC-TCTGAC-AATACAGAGAC---GCCAAATCTACTAT
* * * *
41880553 CTTCGATTTGTTCTCTGAAAATACAGAGACGCCAAATCTGCTAT
1 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
41880597 CTTCGATCTGCT
1 CTTCGATCTGCT
41880609 TCAGTGTAAA
Statistics
Matches: 894, Mismatches: 199, Indels: 211
0.69 0.15 0.16
Matches are distributed among these distances:
31 2 0.00
32 2 0.00
33 1 0.00
34 1 0.00
35 8 0.01
36 1 0.00
37 8 0.01
38 9 0.01
39 19 0.02
40 64 0.07
41 39 0.04
42 13 0.01
43 67 0.07
44 395 0.44
45 52 0.06
46 31 0.03
47 108 0.12
48 34 0.04
49 36 0.04
50 4 0.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTAT
Found at i:41880125 original size:175 final size:175
Alignment explanation
Indices: 41879710--41880608 Score: 1474
Period size: 175 Copynumber: 5.1 Consensus size: 175
41879700 ATCATCTTGG
* *
41879710 ATCTGCTATCTTCAATCTGTTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
*
41879775 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGTTCCCTGTCGAATACAGAGATGCC
66 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCC
* * * *
41879840 AAATCTGCTATCTTCGATCTATTCTCTGACAATATAGAGACGCCAA
131 AAATCTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGACGCCAA
**
41879886 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
* *
41879951 CATAAACACATGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCC
66 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCC
41880016 AAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGACGCCAA
131 AAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGACGCCAA
*
41880061 ATCTGCTATCTTCGATTTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
* * * * *
41880126 CTTAAATACATGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCCCTGTCGGATACAGAGATGCC
66 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCC
*
41880191 AAATCTGTTTCTTCGATTTGTTCTCTGACAATATAGAGACGCCAA
131 AAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGACGCCAA
*
41880236 ATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
* * * *
41880301 CGTAAACACGTGAAAGCCAAATTAACTATGTCTTTGATCTGCTCCCTGTCGAATACAGAGATGCG
66 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCC
*
41880366 AAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGACACCAA
131 AAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGACGCCAA
* * **
41880411 ATCTGCTATCTTCGATCTTCTCTCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
** * *
41880476 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCATTGCCGAATACAGAGCGTTG
66 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGA--GATG
*
41880541 CCAAATCTGTTTCTTCGATTTGTTCTCTGAAAATACAGAGACGCCAA
129 CCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGACGCCAA
41880588 ATCTGCTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCT
41880609 TCAGTGTAAA
Statistics
Matches: 675, Mismatches: 46, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
175 478 0.71
176 130 0.19
177 67 0.10
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (175 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATTTGCTTCAA
CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGCC
AAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGACGCCAA
Found at i:41894786 original size:13 final size:13
Alignment explanation
Indices: 41894765--41894804 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
41894755 GCTTGACAAG
*
41894765 GACACGCCCATGT
1 GACACGCCCGTGT
*
41894778 GACATGCCCGTGT
1 GACACGCCCGTGT
41894791 GACACGCCCGTGT
1 GACACGCCCGTGT
41894804 G
1 G
41894805 CGATTGCTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:41899008 original size:30 final size:30
Alignment explanation
Indices: 41898968--41899038 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
41898958 CGAGGCTATC
41898968 CCTTTT-CATAATTCGACGGTCGTCACCA-T
1 CCTTTTCCATAATT-GACGGTCGTCACCATT
*
41898997 CCTTTTCCATAATTGATGGTCGTCACCATT
1 CCTTTTCCATAATTGACGGTCGTCACCATT
41899027 CC-TTTCCATAAT
1 CCTTTTCCATAAT
41899039 CGATAGCTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 29 0.74
30 10 0.26
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (30 bp):
CCTTTTCCATAATTGACGGTCGTCACCATT
Found at i:41900007 original size:22 final size:22
Alignment explanation
Indices: 41899982--41900037 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
41899972 TATTTAATCC
41899982 TTTTG-ACACTATAAAACTCAAG
1 TTTTGCAC-CTATAAAACTCAAG
**
41900004 TTTTGCACCTATTGAACTCAAG
1 TTTTGCACCTATAAAACTCAAG
41900026 TTTTGCACCTAT
1 TTTTGCACCTAT
41900038 TGCAATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (22 bp):
TTTTGCACCTATAAAACTCAAG
Found at i:41900038 original size:22 final size:22
Alignment explanation
Indices: 41899996--41900039 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
41899986 GACACTATAA
41899996 AACTCAAGTTTTGCACCTATTG
1 AACTCAAGTTTTGCACCTATTG
41900018 AACTCAAGTTTTGCACCTATTG
1 AACTCAAGTTTTGCACCTATTG
41900040 CAATTTAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (22 bp):
AACTCAAGTTTTGCACCTATTG
Found at i:41916674 original size:29 final size:29
Alignment explanation
Indices: 41916641--41916700 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
41916631 CACATTCATA
41916641 AAGCAGCAATAACATTATGTATATATATG
1 AAGCAGCAATAACATTATGTATATATATG
*
41916670 AAGCAGTAATAACATTATGTATATATATG
1 AAGCAGCAATAACATTATGTATATATATG
41916699 AA
1 AA
41916701 CAATTCTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (29 bp):
AAGCAGCAATAACATTATGTATATATATG
Found at i:41916974 original size:9 final size:9
Alignment explanation
Indices: 41916960--41916986 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
41916950 CCAAAACTTG
41916960 CAATTTAAC
1 CAATTTAAC
41916969 CAATTTAAC
1 CAATTTAAC
41916978 CAATTTAAC
1 CAATTTAAC
41916987 TAAAATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
CAATTTAAC
Found at i:41922959 original size:57 final size:58
Alignment explanation
Indices: 41922861--41923039 Score: 136
Period size: 57 Copynumber: 3.1 Consensus size: 58
41922851 TATTTTTCGT
* * *
41922861 ATACTTAAATCTAATATTACTTATTTTATTTATTCATTTATTGT-TTTA-TATTTTAAA
1 ATACTTAAATTTAATATTACTTATTTTATCTATTCACTTATT-TATTTATTATTTTAAA
* * * * *
41922918 ATACTTAAATTTAATATTATTTATTTT-TCCTCTTTACTTATTTATTTATTATTTTTAT
1 ATACTTAAATTTAATATTACTTATTTTAT-CTATTCACTTATTTATTTATTATTTTAAA
* ** * * *
41922976 ATATTTAAATTCGATGTTACTTATATTTCTCT-TTCA-TT-TTTATTTTTTTATTTTCAAA
1 ATACTTAAATTTAATATTACTTAT-TTTATCTATTCACTTATTTA-TTTATTATTTT-AAA
*
41923034 TTACTT
1 ATACTT
41923040 TATTTATTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
56 6 0.06
57 50 0.52
58 34 0.35
59 5 0.05
60 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (58 bp):
ATACTTAAATTTAATATTACTTATTTTATCTATTCACTTATTTATTTATTATTTTAAA
Found at i:41929576 original size:3 final size:3
Alignment explanation
Indices: 41929568--41929599 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
41929558 GAGCTTTTAG
41929568 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
41929600 GATCACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:41931258 original size:3 final size:3
Alignment explanation
Indices: 41931246--41931275 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
41931236 GACAGAGGAG
41931246 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
41931276 TAAAACGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:41934243 original size:42 final size:42
Alignment explanation
Indices: 41934190--41934322 Score: 126
Period size: 42 Copynumber: 3.1 Consensus size: 42
41934180 AGACGATGTT
* * *
41934190 TTACATGTAATCAAATATCGATGCCAGTGTCCTAGATA-GGTC
1 TTACATGTAATCAAATA-CGATGCCAATGTCCCAGACATGGTC
* * *
41934232 TTACACGTAATCATATACGATGTCAATGTCCCAGACATGGTC
1 TTACATGTAATCAAATACGATGCCAATGTCCCAGACATGGTC
* * * *
41934274 TTACATGTAAATCTCAAAT-CGATTCCAACGTCCCAAACGTGGTC
1 TTACATGT-AA--TCAAATACGATGCCAATGTCCCAGACATGGTC
41934318 TTACA
1 TTACA
41934323 CGATAACTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 16 0.22
42 26 0.35
43 2 0.03
44 25 0.34
45 5 0.07
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (42 bp):
TTACATGTAATCAAATACGATGCCAATGTCCCAGACATGGTC
Found at i:41937424 original size:39 final size:39
Alignment explanation
Indices: 41937380--41937626 Score: 331
Period size: 39 Copynumber: 6.4 Consensus size: 39
41937370 GACTTTATAA
*
41937380 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
41937419 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
41937458 TGGTGTTATATCCGAGCTAAGTCCCAAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
41937497 TGGTGTTATATCCGGACGAAGTCTCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
41937536 TGGTGTTATATCCGGGCT-A-TCCCCGAGGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGT-CCCGAAGGCATTCGTGC
*
41937574 TGGTGTTATATCCGGGCTAAAGTCCC-ACAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGA-AGGCATTCGTGC
*
41937613 TGGTATTATATCCG
1 TGGTGTTATATCCG
41937627 AGCTTAAAGT
Statistics
Matches: 182, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 33 0.18
39 140 0.77
40 7 0.04
41 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:41943797 original size:28 final size:28
Alignment explanation
Indices: 41943763--41943827 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
41943753 TCAGTGTACG
*
41943763 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGGCACTTAATGTGCA
* * *
41943791 AGATATTGAGAATGTCACTTAGTGTGCA
1 AAATATTGAGAATGGCACTTAATGTGCA
41943819 AAATATTGA
1 AAATATTGA
41943828 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGGCACTTAATGTGCA
Found at i:41943944 original size:39 final size:39
Alignment explanation
Indices: 41943900--41944122 Score: 304
Period size: 39 Copynumber: 5.7 Consensus size: 39
41943890 GACTTTATAA
* *
41943900 TGGTGTTATATCCGGGCTAAGTCTCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
41943939 TGGTGTTATATCTGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
**
41943978 TGGTGTTATATCCGGGCTAAGTCCCGAAGTTATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
41944017 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
41944056 TGGTGTTATATCCGGGCTCAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
* *
41944095 TGGTCTTATATCCGAGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
41944123 CATGCTTTGT
Statistics
Matches: 163, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 143 0.88
40 20 0.12
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:41952064 original size:27 final size:27
Alignment explanation
Indices: 41952026--41952081 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
41952016 AACCCGAGCA
41952026 CTAACCCCACTAAATAACTTTATTTTT
1 CTAACCCCACTAAATAACTTTATTTTT
41952053 CTAACCCCACTAAATAACTTTATTTTT
1 CTAACCCCACTAAATAACTTTATTTTT
41952080 CT
1 CT
41952082 TTCATTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (27 bp):
CTAACCCCACTAAATAACTTTATTTTT
Found at i:41953224 original size:9 final size:9
Alignment explanation
Indices: 41953212--41953268 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
41953202 TTAATCATTT
41953212 TATTATTAC
1 TATTATTAC
**
41953221 TATTATTTT
1 TATTATTAC
41953230 TATTATTAC
1 TATTATTAC
41953239 TATTATTAC
1 TATTATTAC
** *
41953248 TCCTATTTC
1 TATTATTAC
41953257 T-TTATTAC
1 TATTATTAC
41953265 TATT
1 TATT
41953269 CTATCTTATT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
8 6 0.16
9 32 0.84
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTATTAC
Found at i:41953232 original size:18 final size:18
Alignment explanation
Indices: 41953209--41953245 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
41953199 ATTTTAATCA
41953209 TTTTATTATTACTATTAT
1 TTTTATTATTACTATTAT
41953227 TTTTATTATTACTATTAT
1 TTTTATTATTACTATTAT
41953245 T
1 T
41953246 ACTCCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATTATTACTATTAT
Found at i:41964879 original size:31 final size:31
Alignment explanation
Indices: 41964841--41964934 Score: 188
Period size: 31 Copynumber: 3.0 Consensus size: 31
41964831 GTTTATTGAC
41964841 AATATACTAATCTATTCAAAGACAGAATTCG
1 AATATACTAATCTATTCAAAGACAGAATTCG
41964872 AATATACTAATCTATTCAAAGACAGAATTCG
1 AATATACTAATCTATTCAAAGACAGAATTCG
41964903 AATATACTAATCTATTCAAAGACAGAATTCG
1 AATATACTAATCTATTCAAAGACAGAATTCG
41964934 A
1 A
41964935 GCATGCACAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (31 bp):
AATATACTAATCTATTCAAAGACAGAATTCG
Found at i:41968660 original size:21 final size:21
Alignment explanation
Indices: 41968634--41968810 Score: 126
Period size: 21 Copynumber: 8.4 Consensus size: 21
41968624 AACTCTTGTG
*
41968634 TGTTCAGCTCTTACGAGCTTT
1 TGTTCAACTCTTACGAGCTTT
*
41968655 TGTTCAACTCTT-CTAAG-TTT
1 TGTTCAACTCTTAC-GAGCTTT
* * * * *
41968675 CTCTTTAGCTCTTACGAACTTC
1 -TGTTCAACTCTTACGAGCTTT
* *
41968697 TGTTCAACTCTTATGAGTTTT
1 TGTTCAACTCTTACGAGCTTT
* *
41968718 TGTTTAGCTCTTACGAG-TTT
1 TGTTCAACTCTTACGAGCTTT
* *
41968738 CTGTTCAACTCTTACCAGCTTC
1 -TGTTCAACTCTTACGAGCTTT
* * *
41968760 AGTTCAACTCTTATGAGTTTT
1 TGTTCAACTCTTACGAGCTTT
* * *
41968781 TGTTCAGCTCTTACCAGCTTC
1 TGTTCAACTCTTACGAGCTTT
*
41968802 TATTCAACT
1 TGTTCAACT
41968811 TTGAAGCTTC
Statistics
Matches: 115, Mismatches: 35, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
20 7 0.06
21 103 0.90
22 5 0.04
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.45
Consensus pattern (21 bp):
TGTTCAACTCTTACGAGCTTT
Found at i:41968686 original size:42 final size:42
Alignment explanation
Indices: 41968639--41968751 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
41968629 TTGTGTGTTC
*
41968639 AGCTCTTACGAGCTTTTGTTCAACTCTTCTAAGTTTCTCTTT
1 AGCTCTTACGAGCTTTTGTTCAACTCTTATAAGTTTCTCTTT
* * * * *
41968681 AGCTCTTACGAACTTCTGTTCAACTCTTATGAGTTTTTGTTT
1 AGCTCTTACGAGCTTTTGTTCAACTCTTATAAGTTTCTCTTT
41968723 AGCTCTTACGAG-TTTCTGTTCAACTCTTA
1 AGCTCTTACGAGCTTT-TGTTCAACTCTTA
41968752 CCAGCTTCAG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.03
42 60 0.97
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (42 bp):
AGCTCTTACGAGCTTTTGTTCAACTCTTATAAGTTTCTCTTT
Found at i:41968737 original size:63 final size:64
Alignment explanation
Indices: 41968634--41968794 Score: 200
Period size: 63 Copynumber: 2.5 Consensus size: 64
41968624 AACTCTTGTG
* * * * * * *
41968634 TGTTCAGCTCTTACGAGCTTTTGTTCAACTCTT-CTAAGTTTCTCTTTAGCTCTTACGAACTTC
1 TGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACTAAGTTTCTCTTCAACTCTTACCAACTTC
* * * *
41968697 TGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTAC-GAGTTTCTGTTCAACTCTTACCAGCTTC
1 TGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACTAAGTTTCTCTTCAACTCTTACCAACTTC
*
41968760 AGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTAC
1 TGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTAC
41968795 CAGCTTCTAT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
63 83 0.99
64 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (64 bp):
TGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACTAAGTTTCTCTTCAACTCTTACCAACTTC
Found at i:41968771 original size:42 final size:42
Alignment explanation
Indices: 41968635--41968801 Score: 149
Period size: 42 Copynumber: 4.0 Consensus size: 42
41968625 ACTCTTGTGT
* * *
41968635 GTTCAGCTCTTACGAGCTTT-TGTTCAACTCTT-CTAAGTTTCT
1 GTTCAGCTCTTACGAG-TTTCTGTTCAACTCTTAC-CAGCTTCA
* * ** ** * **
41968677 CTTTAGCTCTTACGAACTTCTGTTCAACTCTTATGAGTTTTT
1 GTTCAGCTCTTACGAGTTTCTGTTCAACTCTTACCAGCTTCA
*
41968719 GTTTAGCTCTTACGAGTTTCTGTTCAACTCTTACCAGCTTCA
1 GTTCAGCTCTTACGAGTTTCTGTTCAACTCTTACCAGCTTCA
* * * *
41968761 GTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACCAGCTTC
1 GTTCAGCTCTTACGAGTTTCTGTTCAACTCTTACCAGCTTC
41968802 TATTCAACTT
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 101 0.98
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (42 bp):
GTTCAGCTCTTACGAGTTTCTGTTCAACTCTTACCAGCTTCA
Found at i:41968808 original size:63 final size:63
Alignment explanation
Indices: 41968683--41968810 Score: 193
Period size: 63 Copynumber: 2.0 Consensus size: 63
41968673 TTCTCTTTAG
* * * * * *
41968683 CTCTTACGAACTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGTTTCTGTTCAA
1 CTCTTACCAACTTCAGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACCAGCTTCTATTCAA
*
41968746 CTCTTACCAGCTTCAGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACCAGCTTCTATTCAA
1 CTCTTACCAACTTCAGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACCAGCTTCTATTCAA
41968809 CT
1 CT
41968811 TTGAAGCTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (63 bp):
CTCTTACCAACTTCAGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACCAGCTTCTATTCAA
Found at i:41979225 original size:24 final size:24
Alignment explanation
Indices: 41979193--41979241 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
41979183 GTTTATTAAG
*
41979193 GAAAATTGGAAGATTTACTAAGGT
1 GAAAATTGGAAGATTCACTAAGGT
41979217 GAAAATTGGAAGATTCACTAAGGT
1 GAAAATTGGAAGATTCACTAAGGT
41979241 G
1 G
41979242 TTGCGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (24 bp):
GAAAATTGGAAGATTCACTAAGGT
Found at i:41983637 original size:17 final size:18
Alignment explanation
Indices: 41983615--41983649 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41983605 GATATGATAC
*
41983615 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
41983632 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
41983650 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:41984018 original size:36 final size:36
Alignment explanation
Indices: 41983942--41984019 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
41983932 CATATCTTCT
*
41983942 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCTAAGATTGTATCATATCG
41983978 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCTAAGATTG--TATCATATCG
41984014 AAGATT
1 AAGATT
41984020 ATATTTCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 32 0.82
37 1 0.03
38 6 0.15
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (36 bp):
AAGATTGCATATCATATCTAAGATTGTATCATATCG
Found at i:41984019 original size:17 final size:19
Alignment explanation
Indices: 41983939--41984011 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
41983929 AAACATATCT
41983939 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
41983958 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
41983975 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
41983994 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
41984012 TGAAGATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:41984411 original size:45 final size:45
Alignment explanation
Indices: 41984344--41984572 Score: 212
Period size: 45 Copynumber: 5.1 Consensus size: 45
41984334 GGAAGGCGAT
* * * *
41984344 ATCTGCTATCTTTGATCAGCTCCCCATCTAATACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
41984389 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* ** * *
41984434 ATCTGCT-TCTTTAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * * ** * * * * *
41984478 ATCTGTCATCTTGGATCTGCT-TCAATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACA-AAG-ACGCCAA
* *
41984523 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTA--TCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
41984570 ATC
1 ATC
41984573 ATCTTGGATC
Statistics
Matches: 144, Mismatches: 33, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
43 3 0.02
44 44 0.31
45 69 0.48
47 19 0.13
48 6 0.04
49 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
Found at i:41984466 original size:44 final size:45
Alignment explanation
Indices: 41984344--41984498 Score: 215
Period size: 45 Copynumber: 3.5 Consensus size: 45
41984334 GGAAGGCGAT
* *
41984344 ATCTGCTATCTTTGATCAGCTCCCCATCTAATACAAAGACGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* *
41984389 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * *
41984434 ATCTGCT-TCTTTAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
*
41984478 ATCTG-TCATCTTGGATCTGCT
1 ATCTGCT-ATCTTTGATCTGCT
41984499 TCAATGTAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
43 1 0.01
44 38 0.39
45 58 0.60
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.31
Consensus pattern (45 bp):
ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
Found at i:41984527 original size:89 final size:89
Alignment explanation
Indices: 41984344--41984591 Score: 256
Period size: 89 Copynumber: 2.8 Consensus size: 89
41984334 GGAAGGCGAT
* * * * * *
41984344 ATCTGCTATCTTTGATCAGCTCCCCATCTAATACAAAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGC
* **
41984409 TCCCCGTCTAATACAAAGACGCCAA
66 T-TCAATCTAATACAAAGACGCCAA
*
41984434 ATCTGCT-TCTTTAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGC
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGC
* * * * *
41984498 TTCAATGTAA-ACACATGAAGGTCAG
66 TTCAATCTAATACA-AAG-ACGCCAA
* *
41984523 ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTGGATCT
1 ATCTGCTA--TCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCT
41984584 GCTTCAAT
64 GCTTCAAT
41984592 AAAGGTCAGA
Statistics
Matches: 135, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
87 3 0.02
88 28 0.21
89 61 0.45
90 7 0.05
92 36 0.27
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (89 bp):
ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGC
TTCAATCTAATACAAAGACGCCAA
Found at i:41984644 original size:78 final size:77
Alignment explanation
Indices: 41984515--41984728 Score: 320
Period size: 78 Copynumber: 2.7 Consensus size: 77
41984505 TAAACACATG
*
41984515 AAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCTTGG
41984580 ATCTGCTTCAATA
65 ATCTGCTTCAATA
* *
41984593 AAGGTCAGATCTACTGTGTCTTCGATCTGCTCCACGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCC-CGTCTAATACAGAGATGCCAAATCATCTTGG
*
41984658 ATCTGCTTCAATG
65 ATCTGCTTCAATA
* * * **
41984671 AAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAAATC
41984729 TGTTTCTTCG
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 2 0.02
78 120 0.98
79 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (77 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATA
Found at i:41993041 original size:17 final size:18
Alignment explanation
Indices: 41993019--41993053 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41993009 GATATGATAC
*
41993019 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
41993036 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
41993054 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:41993350 original size:23 final size:22
Alignment explanation
Indices: 41993307--41993364 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
41993297 AAAAGGTATC
* *
41993307 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
41993328 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
41993351 TGCATATCATATCT
1 TACAAATCATATCT
41993365 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:41993367 original size:19 final size:19
Alignment explanation
Indices: 41993343--41993379 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41993333 AATCATATCT
41993343 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
41993362 TCTAAGATTGTATATCAT
1 TCTAAGATTGCATATCAT
41993380 TGAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:41993387 original size:17 final size:19
Alignment explanation
Indices: 41993346--41993387 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
41993336 CATATCTTCT
*
41993346 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
*
41993365 AAGATTGTATATCAT-T-G
1 AAGATTGCATATCATATCG
41993382 AAGATT
1 AAGATT
41993388 ATATTTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:42001316 original size:44 final size:43
Alignment explanation
Indices: 42001218--42001340 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 43
42001208 GATAAGTACA
* * * *
42001218 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATTCAGTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATTCAGAATCG
*
42001261 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATTTCA-AATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAA-TTCAGAATCG
** * *
42001305 ATGCCTGTGTCCCTA-ACACGTTCTTACACGATAATT
1 ATGCCAATGTCCC-AGACATGGTCTTACACGA-AATT
42001341 TAGATCAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
43 30 0.45
44 32 0.48
45 5 0.07
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATTCAGAATCG
Found at i:42008500 original size:44 final size:42
Alignment explanation
Indices: 42008369--42008527 Score: 124
Period size: 44 Copynumber: 3.7 Consensus size: 42
42008359 CAATGCCAAC
* * * *
42008369 GTCCCAGACGTGGTCTTACATGAAATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGAAATTCA-AATCGATGCCTAT
* * * * * *
42008412 GTCCTAGACAGGGTCTTATAC-AAGAAT-AGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAA-ATTCAAAT-CGATGCCTAT
42008454 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTAT
1 GTCCCAGACATGGTCTTACACG-AAA-TTCAAATCGATGCCTAT
** * *
42008498 GTCCTTGACACGTTCTTACACGATAATTCA
1 GTCCCAGACATGGTCTTACACGA-AATTCA
42008528 GATCAATACC
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 24 0.27
44 32 0.36
45 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATTCAAATCGATGCCTAT
Found at i:42010010 original size:68 final size:67
Alignment explanation
Indices: 42009931--42010138 Score: 180
Period size: 67 Copynumber: 3.1 Consensus size: 67
42009921 CATCACGTGT
*
42009931 ACAAGAAAGCTACGAGATATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAGATA-TATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
42009996 TAG
65 TAG
* ** * * * * *
42009999 ACAAGAGAGCTACG-G-GATAT-ATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAAGGACACCA
1 ACAAGAGAGCTACGAGATATATAATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCA
*
42010061 TATAG
63 TGTAG
* * * * *
42010066 ACAAGAGAGCTACGAGATA-A-ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 ACAAGAGAGCTACGAGATATATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
42010127 -G
66 AG
42010128 TACAAGAGAGC
1 -ACAAGAGAGC
42010139 CGAACTATAT
Statistics
Matches: 110, Mismatches: 23, Indels: 19
0.72 0.15 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 20 0.18
65 11 0.10
66 16 0.15
67 26 0.24
68 17 0.15
69 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
AG
Found at i:42010473 original size:28 final size:28
Alignment explanation
Indices: 42010435--42010587 Score: 118
Period size: 28 Copynumber: 5.5 Consensus size: 28
42010425 AAACGAACGG
*
42010435 CACTTAGTGTGCGAAGTATTGAGGATGG
1 CACTTAGTGTGCGAAGTATTGAGGATGA
* * *
42010463 CACTTAGTGTGC-AAGACATCCGA-AATGA
1 CACTTAGTGTGCGAAG-TAT-TGAGGATGA
** *
42010491 CAC--AGTGTATGAAGTATTGATGATGA
1 CACTTAGTGTGCGAAGTATTGAGGATGA
* ** **
42010517 CACTTAGTGTGCAAAACATCT-AAAATGA
1 CACTTAGTGTGCGAAGTAT-TGAGGATGA
* *
42010545 CACTTAGTGTGCGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAGTATTGAGGATGA
42010573 CACTTAGTGTGCGAA
1 CACTTAGTGTGCGAA
42010588 ACATCCGATA
Statistics
Matches: 94, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 6 0.06
28 69 0.73
29 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (28 bp):
CACTTAGTGTGCGAAGTATTGAGGATGA
Found at i:42010505 original size:54 final size:54
Alignment explanation
Indices: 42010439--42010595 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 54
42010429 GAACGGCACT
*
42010439 TAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCAAGACATCCGAAATGACAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCAA-ACATCCGAAATGACAC
* * * **
42010494 -AGTGTATGAAGTATTGATGATGACACTTAGTGTGCAAAACATCTAAAATGACAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGC-AAACATCCGAAATGACAC
* *
42010548 TTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCGA
1 -TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGC-AAACATCCGA
42010596 TATAGCACTT
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
54 45 0.53
55 2 0.02
56 38 0.45
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.25
Consensus pattern (54 bp):
TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCAAACATCCGAAATGACAC
Found at i:42010603 original size:28 final size:27
Alignment explanation
Indices: 42010517--42010620 Score: 77
Period size: 28 Copynumber: 3.7 Consensus size: 27
42010507 TTGATGATGA
* **
42010517 CACTTAGTGTGCAAAACATCTAAAATG
1 CACTTAGTGTGCGAAACATCCGAAATG
** *
42010544 ACACTTAGTGTGCGAAGTAT-CGAGGATGG
1 -CACTTAGTGTGCGAAACATCCGA-AAT-G
*
42010573 CACTTAGTGTGCGAAACATCCGATATAG
1 CACTTAGTGTGCGAAACATCCGAAAT-G
*
42010601 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
42010621 GATTGTGCAG
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
27 3 0.05
28 54 0.89
29 4 0.07
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
CACTTAGTGTGCGAAACATCCGAAATG
Found at i:42010605 original size:56 final size:55
Alignment explanation
Indices: 42010435--42010612 Score: 218
Period size: 56 Copynumber: 3.2 Consensus size: 55
42010425 AAACGAACGG
42010435 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCAAGACATCCGAAATGA
1 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCAA-ACATCCGAAATGA
** * * **
42010491 CAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCAAAACATCTAAAATGA
1 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAACATCCGAAATGA
* *
42010545 CACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCGATAT-A
1 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAACATCCGAAATGA
*
42010600 GCACTTAGCGTGC
1 -CACTTAGTGTGC
42010613 AAGACATCGA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
54 45 0.44
55 3 0.03
56 54 0.53
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (55 bp):
CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCAAACATCCGAAATGA
Found at i:42015289 original size:25 final size:27
Alignment explanation
Indices: 42015252--42015304 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
42015242 TCAAACATGC
42015252 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
42015278 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
42015304 A
1 A
42015305 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:42018398 original size:55 final size:55
Alignment explanation
Indices: 42018278--42018403 Score: 146
Period size: 55 Copynumber: 2.3 Consensus size: 55
42018268 AACATGGCCA
* ** *
42018278 TGGTCGAGCCTGCCAAAACACCACGAGCGTGCGACATGCCCGTGTGGAAGAACCG
1 TGGTCGAACCTGTTAAAACACCACGAGCGTGCGACATGCCCGTGTCGAAGAACCG
* * * * *
42018333 TGGACAAACCTGTTAAAACAGCACGAGCGTGCGACATGCCCGTGTCTAA-TACCTG
1 TGGTCGAACCTGTTAAAACACCACGAGCGTGCGACATGCCCGTGTCGAAGAACC-G
*
42018388 TGGTCGAACCTATTAA
1 TGGTCGAACCTGTTAA
42018404 TGAACACGGG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
54 3 0.05
55 55 0.95
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (55 bp):
TGGTCGAACCTGTTAAAACACCACGAGCGTGCGACATGCCCGTGTCGAAGAACCG
Found at i:42018432 original size:13 final size:13
Alignment explanation
Indices: 42018414--42018440 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42018404 TGAACACGGG
42018414 CGTGGGGCTTGCA
1 CGTGGGGCTTGCA
42018427 CGTGGGGCTTGCA
1 CGTGGGGCTTGCA
42018440 C
1 C
42018441 ACACGGGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.26, G:0.44, T:0.22
Consensus pattern (13 bp):
CGTGGGGCTTGCA
Found at i:42021511 original size:55 final size:55
Alignment explanation
Indices: 42021389--42021518 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
42021379 TACGATATGG
* ** *
42021389 CCGTGGTCGAGCCTGCCAAAACACCACGGGCGTGCGACACGCCCGTGTGGAAGAA
1 CCGTGGTCGAACCTGTTAAAACACCACGGGCGTGCGACACGCCCGTGTCGAAGAA
* * * * *
42021444 CCATGGAT-GAACCTGTTAAAACAGCACGGGCGTGCGACACGTCCGTGTCTAA-CA
1 CCGTGG-TCGAACCTGTTAAAACACCACGGGCGTGCGACACGCCCGTGTCGAAGAA
*
42021498 CTCGTGGTCGAACCTATTAAA
1 C-CGTGGTCGAACCTGTTAAA
42021519 TGAACACGAG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 3 0.05
55 57 0.93
56 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTTAAAACACCACGGGCGTGCGACACGCCCGTGTCGAAGAA
Found at i:42029070 original size:195 final size:193
Alignment explanation
Indices: 42028737--42029125 Score: 679
Period size: 195 Copynumber: 2.0 Consensus size: 193
42028727 CCTTATAATA
*
42028737 GCCTACGATGCCTTAAACATGCTTTAGAAGTGGTTTGGGACTAAACCGATAACATATAAAAATTT
1 GCCTACGATGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCGATAACATATAAAAATTT
* *
42028802 TGAAAACTTAGGAAAATTTCAAACATACAGGGACCCCACGCCCGAGTGAACAGGCCGTATGCCTC
66 TGAAAACTTAGGAAAACTTCAAACATACAGGGACCCCACGCCCGAGTGAACAGGCCGTATACCTC
* *
42028867 ACACGGCTCCAAACACGCCCGTGTCTTAGGTTGTATAAAAAAACAGAGCATACATACTGACTTGG
131 AAACGGCTCCAAACACGCCCGTGTCTTAGGTCGTAT--AAAAACAGAGCATACATACTGACTTGG
* * *
42028932 GCCTACGATGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCGATAACATGTGAAAGTTT
1 GCCTACGATGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCGATAACATATAAAAATTT
42028997 TGAAAACTTAGGAAAACTTCAAACATACAGGGACCCCACGCCCGAGTGAACAGGCCGTATACCTC
66 TGAAAACTTAGGAAAACTTCAAACATACAGGGACCCCACGCCCGAGTGAACAGGCCGTATACCTC
*
42029062 AAACGGCTCCAAACACGCCCGTGTCTTAGGTCGTGTAAAAACAGAGCATACATACTGACTTGG
131 AAACGGCTCCAAACACGCCCGTGTCTTAGGTCGTATAAAAACAGAGCATACATACTGACTTGG
42029125 G
1 G
42029126 TCACACGACC
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
193 28 0.15
195 157 0.85
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (193 bp):
GCCTACGATGCCTTAAACATGCTTTAGAAGTGGTTCGGGACTAAACCGATAACATATAAAAATTT
TGAAAACTTAGGAAAACTTCAAACATACAGGGACCCCACGCCCGAGTGAACAGGCCGTATACCTC
AAACGGCTCCAAACACGCCCGTGTCTTAGGTCGTATAAAAACAGAGCATACATACTGACTTGG
Found at i:42029994 original size:37 final size:37
Alignment explanation
Indices: 42029944--42030022 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42029934 TTATTACGAA
* * *
42029944 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
42029981 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
42030018 GTCTT
1 GTCTT
42030023 TAAAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:42030219 original size:47 final size:47
Alignment explanation
Indices: 42030143--42030291 Score: 199
Period size: 47 Copynumber: 3.2 Consensus size: 47
42030133 CTTCAGGACT
* * * * *
42030143 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
42030190 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* *
42030237 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCAC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
*
42030284 TTTCACAT
1 TATCACAT
42030292 TCATCAGATC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:42030288 original size:31 final size:31
Alignment explanation
Indices: 42030250--42030322 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
42030240 CACATATATA
42030250 CACTTTCACATTCATCACATCGGCCATTAGG
1 CACTTTCACATTCATCACATCGGCCATTAGG
*
42030281 CACTTTCACATTCATCAGATCGGCCATTAGG
1 CACTTTCACATTCATCACATCGGCCATTAGG
42030312 C-CTTATCACAT
1 CACTT-TCACAT
42030323 ATATACACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 3 0.08
31 37 0.93
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (31 bp):
CACTTTCACATTCATCACATCGGCCATTAGG
Found at i:42030289 original size:78 final size:78
Alignment explanation
Indices: 42030203--42030369 Score: 309
Period size: 78 Copynumber: 2.1 Consensus size: 78
42030193 CACATATATA
42030203 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
42030268 ATCGGCCATTAGG
66 ATCGGCCATTAGG
*
42030281 CACTTTCACATTCATCAGATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
42030346 ATCGGCCATTAGG
66 ATCGGCCATTAGG
42030359 C-CTTATCACAT
1 CACTT-TCACAT
42030370 ATATACACTT
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
77 3 0.03
78 84 0.97
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (78 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGG
Found at i:42030334 original size:47 final size:47
Alignment explanation
Indices: 42030281--42030593 Score: 563
Period size: 47 Copynumber: 6.6 Consensus size: 47
42030271 GGCCATTAGG
*
42030281 CACTTTCACATTCATCAGATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
42030328 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
42030375 CACTTTCACATTCATCACATCGGCCATTACGCCCTATCACATATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
* *
42030424 CACTTTCACATTCATCACATCTGTCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
42030471 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
42030518 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
42030565 CACTTTCACATTCATCACATCGGCCATTA
1 CACTTTCACATTCATCACATCGGCCATTA
42030594 CGCCATACTA
Statistics
Matches: 255, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
47 212 0.83
49 43 0.17
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:42030378 original size:125 final size:125
Alignment explanation
Indices: 42030156--42030403 Score: 426
Period size: 125 Copynumber: 2.0 Consensus size: 125
42030146 CACATTTATA
* * *
42030156 CACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACGTCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
42030221 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
* * *
42030281 CACTTTCACATTCATCA-GATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 CACTTTCACATCCATCACG-TCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
42030345 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
65 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
42030404 CGCCCTATCA
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
124 1 0.01
125 115 0.99
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (125 bp):
CACTTTCACATCCATCACGTCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
Found at i:42030458 original size:143 final size:141
Alignment explanation
Indices: 42030281--42030593 Score: 563
Period size: 143 Copynumber: 2.2 Consensus size: 141
42030271 GGCCATTAGG
*
42030281 CACTTTCACATTCATCAGATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
42030346 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCCTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCCTA
42030411 TCACATATATATA
131 TCAC--ATATATA
* *
42030424 CACTTTCACATTCATCACATCTGTCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* *
42030489 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCCTA
42030554 TCACATATATA
131 TCACATATATA
42030565 CACTTTCACATTCATCACATCGGCCATTA
1 CACTTTCACATTCATCACATCGGCCATTA
42030594 CGCCATACTA
Statistics
Matches: 163, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 34 0.21
143 129 0.79
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (141 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTACGCCCTA
TCACATATATA
Found at i:42034075 original size:25 final size:24
Alignment explanation
Indices: 42034014--42034113 Score: 82
Period size: 24 Copynumber: 4.2 Consensus size: 24
42034004 TTCATTTCTA
* * *
42034014 CTCTTTTGAGCTATGATCAGTAAG
1 CTCTATTGAGCTAAGAACAGTAAG
42034038 CTCCT-TCTG-GCTAATGAACAGTAAG
1 CT-CTAT-TGAGCTAA-GAACAGTAAG
*
42034063 CTCTATTGAGCTAA-AACGGTAAG
1 CTCTATTGAGCTAAGAACAGTAAG
* *
42034086 CTCTGA-CGAGCTGAGAACAGTAAG
1 CTCT-ATTGAGCTAAGAACAGTAAG
42034110 CTCT
1 CTCT
42034114 TACAAGCTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
23 18 0.29
24 24 0.38
25 21 0.33
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
CTCTATTGAGCTAAGAACAGTAAG
Found at i:42034088 original size:23 final size:23
Alignment explanation
Indices: 42034058--42034135 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
42034048 CTAATGAACA
*
42034058 GTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATCGAGCTAAAACG
* *
42034081 GTAAGCTCTGA-CGAGCTGAGAACA
1 GTAAGCTCT-ATCGAGCT-AAAACG
*
42034105 GTAAGCTCT-TACAAGCTAAAACG
1 GTAAGCTCTAT-CGAGCTAAAACG
42034128 GTAAGCTC
1 GTAAGCTC
42034136 CAATGACTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 26 0.58
24 19 0.42
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (23 bp):
GTAAGCTCTATCGAGCTAAAACG
Found at i:42034107 original size:47 final size:46
Alignment explanation
Indices: 42034053--42034161 Score: 139
Period size: 47 Copynumber: 2.3 Consensus size: 46
42034043 TCTGGCTAAT
** **
42034053 GAACAGTAAGCTC-TATTGAGCTAAAACGGTAAGCTCTGACGAGCTGA
1 GAACAGTAAGCTCTTA-CAAGCTAAAACGGTAAGCTCCAACGA-CTGA
*
42034100 GAACAGTAAGCTCTTACAAGCTAAAACGGTAAGCTCCAATGACTGA
1 GAACAGTAAGCTCTTACAAGCTAAAACGGTAAGCTCCAACGACTGA
*
42034146 GAACAATAAGCTCTTA
1 GAACAGTAAGCTCTTA
42034162 TGAACTGATA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 19 0.35
47 34 0.62
48 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACAGTAAGCTCTTACAAGCTAAAACGGTAAGCTCCAACGACTGA
Found at i:42038728 original size:15 final size:15
Alignment explanation
Indices: 42038708--42038738 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42038698 AGTTAAGTTG
42038708 TATATTGCTGAAAAT
1 TATATTGCTGAAAAT
42038723 TATATTGCTGAAAAT
1 TATATTGCTGAAAAT
42038738 T
1 T
42038739 TGAGACTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (15 bp):
TATATTGCTGAAAAT
Found at i:42041170 original size:27 final size:23
Alignment explanation
Indices: 42041143--42041189 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42041133 ACGTTTAATG
42041143 TATGTATAGAAAATAATTTTCAT
1 TATGTATAGAAAATAATTTTCAT
42041166 TATGTATAGAAAATAATTTTCAT
1 TATGTATAGAAAATAATTTTCAT
42041189 T
1 T
42041190 GCAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (23 bp):
TATGTATAGAAAATAATTTTCAT
Found at i:42044505 original size:5 final size:5
Alignment explanation
Indices: 42044495--42044527 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
42044485 CTGTTTGTTC
*
42044495 TTTAT TTTAT TTTAT ATTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
42044528 CACAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:42057398 original size:55 final size:55
Alignment explanation
Indices: 42057339--42057468 Score: 143
Period size: 55 Copynumber: 2.4 Consensus size: 55
42057329 CCCGTGTTCA
* * *
42057339 TTTAACAGGTTCGACCACGGGTGTTAGACACGGGCGTGTCGCACGCCCGTGCTGT
1 TTTAACAGGTTCGACCACGGGTCTTACACACAGGCGTGTCGCACGCCCGTGCTGT
* * * * * * *
42057394 TTTAACAGGTTTGTCCATGGTTCTTCCACACAGGCGTGTCGCACGCCTGTGGTGT
1 TTTAACAGGTTCGACCACGGGTCTTACACACAGGCGTGTCGCACGCCCGTGCTGT
** *
42057449 TTTGGCAGGCTCGACCACGG
1 TTTAACAGGTTCGACCACGG
42057469 CCATATTGCA
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGGTCTTACACACAGGCGTGTCGCACGCCCGTGCTGT
Found at i:42065827 original size:24 final size:24
Alignment explanation
Indices: 42065793--42065844 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
42065783 TTTCTAGAAG
* *
42065793 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
**
42065817 ATTTAGCATTTATTTGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
42065841 ATTT
1 ATTT
42065845 GACTTTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:42066008 original size:5 final size:5
Alignment explanation
Indices: 42065994--42066030 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
42065984 CTGTCTGTTC
42065994 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
42066031 CACATGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:42074190 original size:30 final size:30
Alignment explanation
Indices: 42074156--42074216 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42074146 TCCTTAACTC
42074156 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42074186 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42074216 A
1 A
42074217 GGCTGGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42076146 original size:20 final size:20
Alignment explanation
Indices: 42076095--42076209 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
42076085 CATAACTAGA
* *
42076095 GCACCGAAGTGCAGACAGGG
1 GCACCGAAGTGCAAACAAGG
*
42076115 GCA-CAAATGTGCAAACAAGG
1 GCACCGAA-GTGCAAACAAGG
* *
42076135 GCACCGTAGTGCGAACAAGG
1 GCACCGAAGTGCAAACAAGG
** * * * *
42076155 ATACCAAAGTGTATACAGGG
1 GCACCGAAGTGCAAACAAGG
* *
42076175 GCA-CTAGAGTGCAAACAGGG
1 GCACCGA-AGTGCAAACAAGG
42076195 GCACCGAAGTGCAAA
1 GCACCGAAGTGCAAA
42076210 TCTCGTACAA
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.07
20 62 0.87
21 4 0.06
ACGTcount: A:0.37, C:0.22, G:0.31, T:0.10
Consensus pattern (20 bp):
GCACCGAAGTGCAAACAAGG
Found at i:42080223 original size:43 final size:42
Alignment explanation
Indices: 42080174--42080346 Score: 118
Period size: 43 Copynumber: 4.1 Consensus size: 42
42080164 GGCTATCGAG
42080174 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGT
* * * * * *
42080216 ACTGTGATTACGTGTAA-AGCCGTGTTTTGGTCATTGGCATCAT-T
1 A-TGTGATTACATGTAAGA-CCATGTCTGGGACATTGGAAT--TGT
* * * * * * * * *
42080260 ATTTGATTTCGTATAAGACCCTGTCTAGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTG-T
* * *
42080303 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGAATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGT
42080344 ATG
1 ATG
42080347 AGCTTTATGT
Statistics
Matches: 98, Mismatches: 26, Indels: 15
0.71 0.19 0.11
Matches are distributed among these distances:
41 4 0.04
42 8 0.08
43 82 0.84
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGT
Found at i:42085697 original size:40 final size:39
Alignment explanation
Indices: 42085526--42085735 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
42085516 AGACTAAGAT
42085526 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
42085565 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
42085604 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
42085643 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
42085683 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
42085723 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42085736 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 114 0.71
40 46 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:42085749 original size:40 final size:39
Alignment explanation
Indices: 42085475--42085735 Score: 236
Period size: 39 Copynumber: 6.6 Consensus size: 39
42085465 TGAATGATGT
* * * *
42085475 CCGGGCTATGTCCCGAAGGC--TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* * *
42085514 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
42085554 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
42085593 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
42085632 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
42085670 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
42085711 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42085736 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
39 128 0.64
40 61 0.31
41 10 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:42093516 original size:39 final size:39
Alignment explanation
Indices: 42093473--42093608 Score: 236
Period size: 39 Copynumber: 3.5 Consensus size: 39
42093463 GGACTAAGAT
42093473 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
42093512 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
42093551 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
42093591 CCGAAGGCATTTGTGCGA
1 CCGAAGGCATTTGTGCGA
42093609 ATTACTATAA
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 74 0.80
40 19 0.20
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:42093614 original size:40 final size:39
Alignment explanation
Indices: 42093459--42093626 Score: 232
Period size: 39 Copynumber: 4.3 Consensus size: 39
42093449 AAGTGACAAT
* *
42093459 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
*
42093499 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
* *
42093538 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
*
42093577 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-A
42093618 A-CCGGGCTA
1 ATCCGGGCTA
42093627 TGTCACGAAG
Statistics
Matches: 117, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 74 0.63
40 41 0.35
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:42093623 original size:79 final size:80
Alignment explanation
Indices: 42093421--42093626 Score: 253
Period size: 79 Copynumber: 2.6 Consensus size: 80
42093411 TTGAATGATG
* * * * * *
42093421 TCCGGGCTATGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAGACCCGAAGGCATT
*
42093484 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
42093500 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
42093561 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
42093578 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTA
42093627 TGTCACGAAG
Statistics
Matches: 110, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
78 46 0.42
79 55 0.50
80 8 0.07
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:42093636 original size:40 final size:39
Alignment explanation
Indices: 42093421--42093639 Score: 218
Period size: 39 Copynumber: 5.6 Consensus size: 39
42093411 TTGAATGATG
* * * *
42093421 TCCGGGCTATGTCCCGAAGGC--TTGTGCTAAGTGACAATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTA-A
*
42093460 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTAA
42093499 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAA
*
42093538 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACT-AA
*
42093578 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTA-A
* * *
42093618 ACCGGGCTATGTCACGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
42093640 ATTGAACGAG
Statistics
Matches: 157, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
39 90 0.57
40 59 0.38
41 7 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAA
Found at i:42093665 original size:79 final size:79
Alignment explanation
Indices: 42093494--42093676 Score: 187
Period size: 79 Copynumber: 2.3 Consensus size: 79
42093484 TGTGCGAGAT
* * * *
42093494 ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCACGAAGG
* ** *
42093558 CATTTGTGCGAGTT
66 CAATTGAACGAGTG
*
42093572 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCACGA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CACGA
42093635 AGGCAATTGAACGAG-G
63 AGGCAATTGAACGAGTG
* * *
42093651 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
42093677 TACGTGATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 18 0.20
79 47 0.53
80 23 0.26
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCACGAAGG
CAATTGAACGAGTG
Found at i:42095994 original size:30 final size:30
Alignment explanation
Indices: 42095960--42096017 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
42095950 TCTGGGTTGT
42095960 GTTTTGATGTAGGAAGGCAAAGTCATAGGC
1 GTTTTGATGTAGGAAGGCAAAGTCATAGGC
42095990 GTTTTGATGTAGGAAGGCAAAGTCATAG
1 GTTTTGATGTAGGAAGGCAAAGTCATAG
42096018 CTTATGCCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.28
Consensus pattern (30 bp):
GTTTTGATGTAGGAAGGCAAAGTCATAGGC
Found at i:42097849 original size:19 final size:19
Alignment explanation
Indices: 42097821--42097858 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42097811 GCCTTAGGAA
*
42097821 TAGTATAGGATACAAATGT
1 TAGTAGAGGATACAAATGT
42097840 TAGTAGAGGATACAAATGT
1 TAGTAGAGGATACAAATGT
42097859 CATTACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (19 bp):
TAGTAGAGGATACAAATGT
Found at i:42097927 original size:43 final size:43
Alignment explanation
Indices: 42097880--42098045 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
42097870 GTTATTGAGA
*
42097880 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
* * * * *
42097923 TGTGAGTACGTGTAAGACTATGTTTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-TAT
* * * ** *
42097967 T-TGATTTCTTGTAAGACCCTGTCCGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
* *
42098008 ATGTG-TTAACATGTAAGACCATATCTAGGATA-TGGCAT
1 -TGTGATT-ACATGTAAGACCATGTCTAGGACATTGGCAT
42098046 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 83 0.85
44 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:42098793 original size:25 final size:21
Alignment explanation
Indices: 42098767--42098809 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
42098757 GGATGCGAAG
42098767 CTAGCTTTAAATAGAGAGAAC
1 CTAGCTTTAAATAGAGAGAAC
42098788 CTAGCTTTAAATAGAGAGAAC
1 CTAGCTTTAAATAGAGAGAAC
42098809 C
1 C
42098810 ATGAGGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (21 bp):
CTAGCTTTAAATAGAGAGAAC
Found at i:42099483 original size:81 final size:81
Alignment explanation
Indices: 42099195--42099508 Score: 350
Period size: 81 Copynumber: 3.9 Consensus size: 81
42099185 TTAGTTTACC
* * * * * * *
42099195 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATAATCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAA
42099260 ATACCCTTGGTTTGTA
66 ATACCCTTGGTTTGTA
* *
42099276 AAATTACCAAAATACCC-CTGATTTGTGAAATTACTAAAATA-CCTCTGGTTTGTAAAATTACCA
1 AAATTACCAAAATACCCTC-GATTTGTAAAATTACTAAAATACCCT-TGATTTGTAAAATTACCA
*
42099339 AAATACCCTTGGTTTATA
64 AAATACCCTTGGTTTGTA
* * * *
42099357 AAATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTACCGA
1 AAATTACCAAAATACCCTCGA-TTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCAA
* *
42099421 AATA-CCTTCAGTTTGCA
65 AATACCCTT-GGTTTGTA
** * * *
42099438 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTGACTTGCAAAAATTA-CAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTTGATTTG-TAAAATTACCAA
42099502 AAGTACC
65 AA-TACC
42099509 TCCGATTTAC
Statistics
Matches: 197, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
80 10 0.05
81 170 0.86
82 16 0.08
83 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAA
ATACCCTTGGTTTGTA
Found at i:42099494 original size:27 final size:27
Alignment explanation
Indices: 42099195--42099508 Score: 303
Period size: 27 Copynumber: 11.6 Consensus size: 27
42099185 TTAGTTTACC
* * **
42099195 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
42099222 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
42099249 AAATAATCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
42099276 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* *
42099303 AAATTACTAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCT-TGATTTGTA
* *
42099330 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*
42099357 AAATTACCAAAATACCTCTAG-TTTGTA
1 AAATTACCAAAATACC-CTTGATTTGTA
*
42099384 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
42099411 AAATTACCGAAATA-CCTTCAGTTTGCA
1 AAATTACCAAAATACCCTTGA-TTTGTA
** *
42099438 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
** * *
42099465 AAATTACTGAAATACCCTTGACTTGCAA
1 AAATTACCAAAATACCCTTGATTTG-TA
42099493 AAATTA-CAAAAGTACC
1 AAATTACCAAAA-TACC
42099509 TCCGATTTAC
Statistics
Matches: 242, Mismatches: 37, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.04
27 211 0.87
28 21 0.09
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:42099578 original size:27 final size:27
Alignment explanation
Indices: 42099548--42099742 Score: 273
Period size: 27 Copynumber: 7.2 Consensus size: 27
42099538 TGATTTACAA
*
42099548 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
42099575 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
42099602 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
42099629 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * *
42099656 AATTACCAAAATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
42099683 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
42099710 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
42099737 AATTAC
1 AATTAC
42099743 CATTTTGCCC
Statistics
Matches: 148, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:42099985 original size:25 final size:25
Alignment explanation
Indices: 42099948--42100037 Score: 137
Period size: 25 Copynumber: 3.6 Consensus size: 25
42099938 AGGAAGTGCT
* *
42099948 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
42099973 AAAAGGGCCTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
42099998 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
42100023 AAAAGGGCTTT-CCCC
1 AAAAGGGCTTTGCCCC
42100038 TGGTTATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
24 4 0.07
25 56 0.93
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:42100049 original size:24 final size:25
Alignment explanation
Indices: 42099948--42100049 Score: 107
Period size: 25 Copynumber: 4.1 Consensus size: 25
42099938 AGGAAGTGCT
** * *
42099948 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGGTTATCA
* * *
42099973 AAAAGGGCCTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGGTTATCA
*
42099998 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGGTTATCA
* *
42100023 AAAAGGGCTTT-CCCCTGGTTATTA
1 AAAAGGGCTTTGCCCCAGGTTATCA
42100047 AAA
1 AAA
42100050 GAGGCTATGC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
24 13 0.19
25 56 0.81
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGGTTATCA
Found at i:42101221 original size:23 final size:23
Alignment explanation
Indices: 42101195--42101268 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
42101185 ACCTTATCAG
42101195 ACATATGCATGTTCACATTCATC
1 ACATATGCATGTTCACATTCATC
* *
42101218 ACAT-TGGCCA--TTCGGCCTT-ATCAC
1 ACATAT-G-CATGTTC-ACATTCAT--C
42101242 ACATATGCATGTTCACATTCATC
1 ACATATGCATGTTCACATTCATC
42101265 ACAT
1 ACAT
42101269 TGGCCATTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
22 6 0.16
23 15 0.39
24 11 0.29
25 6 0.16
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (23 bp):
ACATATGCATGTTCACATTCATC
Found at i:42101237 original size:47 final size:47
Alignment explanation
Indices: 42101168--42101687 Score: 815
Period size: 47 Copynumber: 11.1 Consensus size: 47
42101158 TTCCACGTTT
* ** *
42101168 ATCACATTAGCCATTCTACCTTATCAGACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
42101215 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
** *
42101262 ATCACATTGGCCATTCGGCCTTATCACGTATATACATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
42101309 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCATATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * *
42101356 ATCACATTGGCCATTAGGCCTTATCTCATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
42101403 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * *
42101450 ATCACATTGGCCATTAGGCCTTATCTCATATATGCATGTCCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
42101497 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * *
42101544 ATCACATTGGTCATTAGGCCTTATCTCATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
42101591 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * **
42101638 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
42101685 ATC
1 ATC
42101688 TCATAAAATC
Statistics
Matches: 433, Mismatches: 40, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 433 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:42111380 original size:28 final size:28
Alignment explanation
Indices: 42111345--42111421 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
42111335 TACTAAATGC
42111345 CTCACACACTAAGTGCCATACTCGATAT
1 CTCACACACTAAGTGCCATACTCGATAT
* *
42111373 CTCGCACACTAAGTGCCACACTCGATAT
1 CTCACACACTAAGTGCCATACTCGATAT
* *
42111401 CTCACACACTAGGTGTCATAC
1 CTCACACACTAAGTGCCATAC
42111422 ATAGCCGAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (28 bp):
CTCACACACTAAGTGCCATACTCGATAT
Found at i:42120629 original size:20 final size:20
Alignment explanation
Indices: 42120563--42120629 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
42120553 ATTTTGATAA
*
42120563 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42120583 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42120603 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
42120623 ACATGAT
1 ACATGAT
42120630 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42120708 original size:24 final size:24
Alignment explanation
Indices: 42120679--42120868 Score: 221
Period size: 24 Copynumber: 8.0 Consensus size: 24
42120669 GAGGAAGTGT
*
42120679 AAAAAGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATG
42120703 ATAAA-GGCTTATG-CCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
*
42120726 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATG
*
42120751 AAAAGGGCTTATGCCCTAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATG
* *
42120775 ATAAAGGGCTTATGCCCCAATTATT
1 A-AAAGGGCTTATGCCCCAGTTATG
*
42120800 AAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
42120823 AAAA-GGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
42120845 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
42120869 ATGATAAAGT
Statistics
Matches: 149, Mismatches: 8, Indels: 17
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.01
22 19 0.13
23 29 0.19
24 57 0.38
25 42 0.28
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATG
Found at i:42120764 original size:72 final size:71
Alignment explanation
Indices: 42120680--42120843 Score: 253
Period size: 72 Copynumber: 2.3 Consensus size: 71
42120670 AGGAAGTGTA
*
42120680 AAAAGGCTTATGCCCCAGTTATGATAAA-GGCTTATG-CCCAGTTATGATAAAGGGCTTATGCCC
1 AAAAGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGA-AAAGGGCTTATG-CC
42120743 CAGTTATT
64 CAGTTATT
* *
42120751 AAAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCC
1 AAAA-GGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAAAAGGGCTTATGCCC
42120816 AGTTATT
65 AGTTATT
42120823 AAAAGGCTT-TGCCCCAGTTAT
1 AAAAGGCTTATGCCCCAGTTAT
42120844 TAAAAGAGGC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
70 11 0.13
71 9 0.10
72 37 0.43
73 20 0.23
74 9 0.10
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (71 bp):
AAAAGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAAAAGGGCTTATGCCCA
GTTATT
Found at i:42120791 original size:49 final size:48
Alignment explanation
Indices: 42120684--42120854 Score: 260
Period size: 49 Copynumber: 3.6 Consensus size: 48
42120674 AGTGTAAAAA
*
42120684 GGCTTATGCCCCAGTTATGATAAA-GGCTTATGCCCAGTTATGATAAAG
1 GGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCAGTTATGATAAAG
42120732 GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCTAGTTATGATAAAG
1 GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC-AGTTATGATAAAG
* *
42120781 GGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCAGTTAT--TAAAA
1 GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCAGTTATGATAAAG
42120827 GGCTT-TGCCCCAGTTATTAAAAGAGGCT
1 GGCTTATGCCCCAGTTATTAAAAG-GGCT
42120855 AGGCCTCCAG
Statistics
Matches: 116, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
45 17 0.15
46 13 0.11
47 3 0.03
48 36 0.31
49 47 0.41
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (48 bp):
GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCAGTTATGATAAAG
Found at i:42120886 original size:97 final size:96
Alignment explanation
Indices: 42120681--42120886 Score: 253
Period size: 97 Copynumber: 2.1 Consensus size: 96
42120671 GGAAGTGTAA
* *
42120681 AAAG-GCTTATGCCCCAGTTATGATAAAGGCTTATGCCCAGTTATGATAAAGGGCTTATGCCCCA
1 AAAGAGCTTATGCCCCAATTATGATAAAGGCTTATGCCCAGTTAT-ATAAAAGGCTTATGCCCCA
* *
42120745 GTTATTAAAAGGGCTTATGCCCTAGTTATGAT
65 GTTATTAAAAGGGCTTAGGCCCCAGTTATGAT
* *
42120777 AAAGGGCTTATGCCCCAATTATTA-AAAGGGCTTATGCCCAGTTAT-TAAAAGGCTT-TGCCCCA
1 AAAGAGCTTATGCCCCAATTATGATAAA-GGCTTATGCCCAGTTATATAAAAGGCTTATGCCCCA
42120839 GTTATTAAAAGAGGC-TAGGCCTCCAGTTATATGAT
65 GTTATTAAAAG-GGCTTAGGCC-CCAG-T-TATGAT
42120874 AAAGTAGC-TATGC
1 AAAG-AGCTTATGC
42120887 TGCCAGTGGA
Statistics
Matches: 97, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
94 23 0.24
95 15 0.15
96 8 0.08
97 49 0.51
98 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (96 bp):
AAAGAGCTTATGCCCCAATTATGATAAAGGCTTATGCCCAGTTATATAAAAGGCTTATGCCCCAG
TTATTAAAAGGGCTTAGGCCCCAGTTATGAT
Found at i:42121100 original size:31 final size:31
Alignment explanation
Indices: 42121062--42121124 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
42121052 CGTTTACAGT
42121062 AAAGGCTTCAACCCAGTAATATGAAATATGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
** **
42121093 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
42121124 A
1 A
42121125 GTGTGAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAACCCAGTAATATGAAATATGA
Found at i:42122024 original size:14 final size:14
Alignment explanation
Indices: 42122005--42122031 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42121995 TTTCTGTTTT
42122005 AAAGTTTTCAAATA
1 AAAGTTTTCAAATA
42122019 AAAGTTTTCAAAT
1 AAAGTTTTCAAAT
42122032 TTCTATTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAGTTTTCAAATA
Found at i:42128733 original size:11 final size:11
Alignment explanation
Indices: 42128697--42128752 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
42128687 CATGGTATGT
42128697 ATGATATGCAC
1 ATGATATGCAC
* *
42128708 ATGACATG--T
1 ATGATATGCAC
42128717 ATGATATGCAC
1 ATGATATGCAC
*
42128728 ATGATATG--T
1 ATGATATGCAC
42128737 ATGATATGCAC
1 ATGATATGCAC
42128748 ATGAT
1 ATGAT
42128753 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42128752 original size:20 final size:20
Alignment explanation
Indices: 42128686--42128752 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
42128676 ATTTTGATAA
*
42128686 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42128706 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42128726 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42128746 ACATGAT
1 ACATGAT
42128753 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42128883 original size:23 final size:24
Alignment explanation
Indices: 42128801--42128940 Score: 186
Period size: 23 Copynumber: 6.0 Consensus size: 24
42128791 GGAGGAAGTG
42128801 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
42128825 GATAAAGGGCTTATGCCCCAGTTA-
1 TA-AAAGGGCTTATGCCCCAGTTAT
42128849 T-AAA-GGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
42128870 TAAAAGGGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
42128893 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
42128916 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
42128941 ATGATAAAGC
Statistics
Matches: 105, Mismatches: 3, Indels: 15
0.85 0.02 0.12
Matches are distributed among these distances:
20 8 0.08
21 9 0.09
22 8 0.08
23 44 0.42
24 7 0.07
25 29 0.28
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:42129169 original size:31 final size:31
Alignment explanation
Indices: 42129134--42129196 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
42129124 CGTTTACAGT
42129134 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
42129165 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
42129196 A
1 A
42129197 GTGTGAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:42144001 original size:10 final size:10
Alignment explanation
Indices: 42143986--42144014 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
42143976 AAACACACAT
42143986 CCAATACCAA
1 CCAATACCAA
42143996 CCAATACCAA
1 CCAATACCAA
42144006 CCAAT-CCAA
1 CCAATACCAA
42144015 GCATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.48, C:0.41, G:0.00, T:0.10
Consensus pattern (10 bp):
CCAATACCAA
Found at i:42145916 original size:27 final size:27
Alignment explanation
Indices: 42145879--42146093 Score: 265
Period size: 27 Copynumber: 8.0 Consensus size: 27
42145869 GGGGCAAAAT
* * * *
42145879 GGTAATT-TACCCCAAAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42145905 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42145932 GGCAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42145959 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42145986 GGTAATTTTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42146013 GGTAATTCTA-CCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42146039 GGTAATTCTACCCTACAGGGGTTTTTTC
1 GGTAATTCTACCCTACAGGGG-TATTTC
42146067 -GTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42146093 G
1 G
42146094 ATATTTTACA
Statistics
Matches: 162, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 36 0.22
27 122 0.75
28 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42146071 original size:80 final size:81
Alignment explanation
Indices: 42145906--42146093 Score: 270
Period size: 80 Copynumber: 2.3 Consensus size: 81
42145896 GGGTATCTCG
* * *
42145906 GTAATTCTACCTTACAGGGGTATTTCGGCAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
* *
42145971 CTATAGGGGTATTTTG
66 CTACAGGGGTATTTTC
* * * **
42145987 GTAATTTTATCCTACAGGGGTATTTCGGTAATTCTA-CCTACAAGGGTATTTTGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
*
42146051 CTACAGGGGTTTTTTC
66 CTACAGGGGTATTTTC
42146067 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
42146094 ATATTTTACA
Statistics
Matches: 94, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 62 0.66
81 32 0.34
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTTC
Found at i:42146116 original size:80 final size:80
Alignment explanation
Indices: 42145906--42146125 Score: 217
Period size: 80 Copynumber: 2.7 Consensus size: 80
42145896 GGGTATCTCG
* ** ** * * * **
42145906 GTAATTCTACCTTACAGGGGTATTTCGGCAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTA-CAAACAAGAGTATTTTGGTAATTCTACC
* *
42145971 CTATAGGGGTATTTTG
65 CTACAGGGGTATTTTC
* * * ** *
42145987 GTAATTTTATCCTACAGGGGTATTTCGGTAATTCTACCTACAAGGGTATTTTGGTAATTCTACCC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAACAAGAGTATTTTGGTAATTCTACCC
*
42146052 TACAGGGGTTTTTTC
66 TACAGGGGTATTTTC
* * *
42146067 GTAATTCTACCCTACAGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTTGATAATT
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAA-CAAGAGTATTTTGGTAATT
42146126 TCACAAATTA
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 7 0.06
80 79 0.67
81 32 0.27
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAACAAGAGTATTTTGGTAATTCTACCC
TACAGGGGTATTTTC
Found at i:42146133 original size:27 final size:27
Alignment explanation
Indices: 42146086--42146208 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 27
42146076 CCCTACAGGG
*
42146086 GTATTTCGAT-ATTTTACAAATCGAGA
1 GTATTTTGATAATTTTACAAATCGAGA
* * *
42146112 GTATTTTGATAATTTCACAAAT-TAGGG
1 GTATTTTGATAATTTTACAAATCGA-GA
* * *
42146139 GTATTTTGATAATTTTAC-AAGCCAGG
1 GTATTTTGATAATTTTACAAATCGAGA
* **
42146165 GATATTTTGGTAATTTTACTGATCGAGA
1 G-TATTTTGATAATTTTACAAATCGAGA
*
42146193 GTATTTTGGTAATTTT
1 GTATTTTGATAATTTT
42146209 GTAAACCAAG
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
26 15 0.19
27 60 0.75
28 5 0.06
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (27 bp):
GTATTTTGATAATTTTACAAATCGAGA
Found at i:42146223 original size:27 final size:27
Alignment explanation
Indices: 42146193--42146249 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
42146183 CTGATCGAGA
*
42146193 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTAGTAATTTTGTAAACCAAGG
**
42146220 GTATTTTAGTAATTTTGTAAATTAAGG
1 GTATTTTAGTAATTTTGTAAACCAAGG
42146247 GTA
1 GTA
42146250 AAATAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.44
Consensus pattern (27 bp):
GTATTTTAGTAATTTTGTAAACCAAGG
Found at i:42146259 original size:27 final size:27
Alignment explanation
Indices: 42146201--42146492 Score: 343
Period size: 27 Copynumber: 10.8 Consensus size: 27
42146191 GAGTATTTTG
* * ***
42146201 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTGTAAATCGAGGGTAAAATA
**
42146228 GTAATTTTGTAAATTAAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAATA
* * *
42146255 ATAATTCTGTAAATCGAGGGTAAAA-C
1 GTAATTTTGTAAATCGAGGGTAAAATA
*
42146281 GATAATTCTGTAAATCGAGGGTAAAATA
1 G-TAATTTTGTAAATCGAGGGTAAAATA
* *
42146309 GTAATTTTGTAAATCGAGGGCAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAATA
* * * *
42146336 ATAATTCTGTAAATTGAGGGTAAAATT
1 GTAATTTTGTAAATCGAGGGTAAAATA
42146363 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAATA
**
42146390 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAATA
*
42146417 GTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAATA
* * **
42146444 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAATA
*
42146471 GCAATTTTGTAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
42146493 TTTCAGTAAT
Statistics
Matches: 225, Mismatches: 38, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
27 224 1.00
28 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAATA
Found at i:42150770 original size:18 final size:18
Alignment explanation
Indices: 42150711--42150898 Score: 90
Period size: 18 Copynumber: 10.0 Consensus size: 18
42150701 AACTGGAAAG
*
42150711 ATTGACTGTTACTGAATA
1 ATTGATTGTTACTGAATA
* * *
42150729 ATTTAATTGTTACTGTACA
1 A-TTGATTGTTACTGAATA
* *
42150748 TTTGATTTTTACTGAATA
1 ATTGATTGTTACTGAATA
*
42150766 ATTGACTGTTACTGGATAACCAATCA
1 ATTGATTGTTACT-G------AAT-A
*
42150792 ATTGATTGATACTGAATA
1 ATTGATTGTTACTGAATA
* * *
42150810 ACTGATTATTATTGAATA
1 ATTGATTGTTACTGAATA
*
42150828 ATTGATTGTTACCGAATA
1 ATTGATTGTTACTGAATA
* * * *
42150846 ACTGAATATTACTAAATA
1 ATTGATTGTTACTGAATA
* * * *
42150864 AATAATTGTT-CTGATTG
1 ATTGATTGTTACTGAATA
* *
42150881 ATTGATCGTTAATGAATA
1 ATTGATTGTTACTGAATA
42150899 TTAATAATTG
Statistics
Matches: 120, Mismatches: 40, Indels: 20
0.67 0.22 0.11
Matches are distributed among these distances:
17 11 0.09
18 76 0.63
19 17 0.14
25 4 0.03
26 12 0.10
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (18 bp):
ATTGATTGTTACTGAATA
Found at i:42150864 original size:36 final size:36
Alignment explanation
Indices: 42150791--42150873 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
42150781 ATAACCAATC
* * * * *
42150791 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGAATATTACTAAAT
42150827 AATTGATTGTTACCGAATAACTGAATATTACTAAAT
1 AATTGATTGTTACCGAATAACTGAATATTACTAAAT
* *
42150863 AAATAATTGTT
1 AATTGATTGTT
42150874 CTGATTGATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGAATATTACTAAAT
Found at i:42166902 original size:23 final size:22
Alignment explanation
Indices: 42166851--42166902 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
42166841 CCTCGTCTTT
*
42166851 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
42166873 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
42166896 TTCTTTT
1 TTCTTTT
42166903 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:42169378 original size:23 final size:22
Alignment explanation
Indices: 42169327--42169378 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
42169317 CCTCGTCTTT
*
42169327 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
42169349 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
42169372 TTCTTTT
1 TTCTTTT
42169379 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:42171777 original size:6 final size:6
Alignment explanation
Indices: 42171766--42171791 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42171756 ATAAATAAAT
42171766 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
42171792 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:42174056 original size:20 final size:20
Alignment explanation
Indices: 42174019--42174057 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42174009 ATATTTTCTG
* *
42174019 GTAAATCATTTTATAGAAAA
1 GTAAAACATTTTACAGAAAA
*
42174039 GTAAAACATTTTCCAGAAA
1 GTAAAACATTTTACAGAAA
42174058 TCATTTTACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAA
Found at i:42174064 original size:14 final size:14
Alignment explanation
Indices: 42174041--42174080 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
42174031 ATAGAAAAGT
*
42174041 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
42174055 AAATCATTTTACGG
1 AAAACATTTTACAG
42174069 AAAACATTTTAC
1 AAAACATTTTAC
42174081 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:42174549 original size:18 final size:17
Alignment explanation
Indices: 42174524--42174589 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
42174514 ACCTATTAAA
42174524 AAATATTTTAAAATTTT
1 AAATATTTTAAAATTTT
**
42174541 -AATATATTTAATTTTTTT
1 AAATAT-TTTAA-AATTTT
*
42174559 AAATTTTTTTAAAATTTT
1 AAA-TATTTTAAAATTTT
*
42174577 AAATATATTAAAA
1 AAATATTTTAAAA
42174590 AATCTTTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 5 0.13
17 13 0.34
18 11 0.29
19 7 0.18
20 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATATTTTAAAATTTT
Found at i:42174624 original size:11 final size:11
Alignment explanation
Indices: 42174608--42174662 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 11
42174598 TCTCTTTAAC
42174608 TATTAAAAATA
1 TATTAAAAATA
42174619 TATT--AAATA
1 TATTAAAAATA
42174628 TATT-AAAAT-
1 TATTAAAAATA
42174637 T-TTAAAATATA
1 TATTAAAA-ATA
*
42174648 TTTTAAAAATA
1 TATTAAAAATA
42174659 TATT
1 TATT
42174663 GAACATATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
8 2 0.05
9 13 0.34
10 6 0.16
11 11 0.29
12 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:42174633 original size:20 final size:20
Alignment explanation
Indices: 42174608--42174675 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
42174598 TCTCTTTAAC
42174608 TATTAAAAATATATTAAATA
1 TATTAAAAATATATTAAATA
42174628 TATT-AAAAT-T-TTAAAATA
1 TATTAAAAATATATT-AAATA
* *
42174646 TATTTTAAAAATATATTGAACA
1 TA--TTAAAAATATATTAAATA
42174668 TATTAAAA
1 TATTAAAA
42174676 TTTTAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
17 2 0.05
18 8 0.20
19 5 0.12
20 12 0.30
21 5 0.12
22 6 0.15
23 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (20 bp):
TATTAAAAATATATTAAATA
Found at i:42174739 original size:33 final size:34
Alignment explanation
Indices: 42174698--42174764 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
42174688 TTATACTTAA
42174698 CATTTTTT-AATATATTTAAAATTTT-AATATATT
1 CATTTTTTAAAT-TATTTAAAATTTTAAATATATT
*
42174731 CATTTTTTAAATTTTTTAAAATTTTAAATATATT
1 CATTTTTTAAATTATTTAAAATTTTAAATATATT
42174765 AAGAAAATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 20 0.65
34 11 0.35
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (34 bp):
CATTTTTTAAATTATTTAAAATTTTAAATATATT
Found at i:42174766 original size:17 final size:17
Alignment explanation
Indices: 42174621--42174766 Score: 69
Period size: 17 Copynumber: 7.8 Consensus size: 17
42174611 TAAAAATATA
42174621 TTAAATATATTAAAATT
1 TTAAATATATTAAAATT
42174638 TTAAAATATATTTTAAAAATAT
1 TT-AAATATA--TT-AAAAT-T
* *
42174660 ATTGAACATATTAAAATT
1 -TTAAATATATTAAAATT
*
42174678 TTAAAATTGATTATACTTAACATTT
1 TT--AA---A-TATA-TTAA-AATT
*
42174703 TTTAATATATTTAAAATT
1 TTAAATATA-TTAAAATT
* **
42174721 TT-AATATATTCATTTT
1 TTAAATATATTAAAATT
* *
42174737 TTAAATTTTTTAAAATT
1 TTAAATATATTAAAATT
42174754 TTAAATATATTAA
1 TTAAATATATTAA
42174767 GAAAATCTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
16 7 0.07
17 30 0.31
18 13 0.14
19 14 0.15
20 5 0.05
21 5 0.05
22 7 0.07
23 6 0.06
24 4 0.04
25 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (17 bp):
TTAAATATATTAAAATT
Found at i:42174836 original size:23 final size:21
Alignment explanation
Indices: 42174810--42174858 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
42174800 TATATTAAGC
42174810 ATATTCAAATTGTAAGTGGTTTT
1 ATATT-AAATT-TAAGTGGTTTT
**
42174833 ATATTTTATTTAAGTGGTTTT
1 ATATTAAATTTAAGTGGTTTT
42174854 ATATT
1 ATATT
42174859 TTATTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
22 3 0.12
23 5 0.21
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (21 bp):
ATATTAAATTTAAGTGGTTTT
Done.