Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 427 of 433
Found at i:131165794 original size:95 final size:95
Alignment explanation
Indices: 131165690--131165881 Score: 357
Period size: 95 Copynumber: 2.0 Consensus size: 95
131165680 CCTTAAGAGC
*
131165690 CTAACATTGCTTGAATCTTTGGACCTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTCA
1 CTAACATTGCTTGAATCTTTGGACCTCTCTTCTAATCAGTTCTCTAGAAATATATCTGCCCTTCA
131165755 GAGCCTAACATTGCTTGAATCTTTGGACCT
66 GAGCCTAACATTGCTTGAATCTTTGGACCT
*
131165785 CTAACATTGCTTGAATCTTTGGACCTCTCTTCTAATCAGTTCTCTAGAAATATATCTGTCCTTCA
1 CTAACATTGCTTGAATCTTTGGACCTCTCTTCTAATCAGTTCTCTAGAAATATATCTGCCCTTCA
*
131165850 GAGCCTAACATTGCTTGAATTTTTGGACCT
66 GAGCCTAACATTGCTTGAATCTTTGGACCT
131165880 CT
1 CT
131165882 CTTCTAACCA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (95 bp):
CTAACATTGCTTGAATCTTTGGACCTCTCTTCTAATCAGTTCTCTAGAAATATATCTGCCCTTCA
GAGCCTAACATTGCTTGAATCTTTGGACCT
Found at i:131165795 original size:26 final size:26
Alignment explanation
Indices: 131165759--131165812 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
131165749 CCTTCAGAGC
131165759 CTAACATTGCTTGAATCTTTGGACCT
1 CTAACATTGCTTGAATCTTTGGACCT
131165785 CTAACATTGCTTGAATCTTTGGACCT
1 CTAACATTGCTTGAATCTTTGGACCT
131165811 CT
1 CT
131165813 CTTCTAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (26 bp):
CTAACATTGCTTGAATCTTTGGACCT
Found at i:131165927 original size:69 final size:69
Alignment explanation
Indices: 131165784--131165929 Score: 211
Period size: 69 Copynumber: 2.1 Consensus size: 69
131165774 TCTTTGGACC
* * *
131165784 TCTAACATTGCTTGAATCTTTGGACCTCTCTTCTAATCAGTTCTCTAGAAATATATCTGTCCTTC
1 TCTAACATTGCTTGAATCTTTGGACCTCTCTTCTAACCAGTTCTCTAGAAATATATCAGCCCTTC
*
131165849 AGAG
66 AAAG
* * * * *
131165853 CCTAACATTGCTTGAATTTTTGGACCTCTCTTCTAACCAGTTCTTTGGAAATATATCAGCCCTTG
1 TCTAACATTGCTTGAATCTTTGGACCTCTCTTCTAACCAGTTCTCTAGAAATATATCAGCCCTTC
131165918 AAAG
66 AAAG
131165922 TCTAACAT
1 TCTAACAT
131165930 CCCTCCAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (69 bp):
TCTAACATTGCTTGAATCTTTGGACCTCTCTTCTAACCAGTTCTCTAGAAATATATCAGCCCTTC
AAAG
Found at i:131165945 original size:69 final size:69
Alignment explanation
Indices: 131165803--131165945 Score: 169
Period size: 69 Copynumber: 2.1 Consensus size: 69
131165793 GCTTGAATCT
* * * * ** **
131165803 TTGGACCTCTCTTCTAATCAGTTCTCTAGAAATATATCTGTCCTTCAGAGCCTAACATTGCTTGA
1 TTGGACCTCTCTTCTAACCAGTTCTCTAGAAATATATCAGCCCTTCAAAGCCTAACATCCCTCCA
*
131165868 ATTT
66 ATTA
* * * *
131165872 TTGGACCTCTCTTCTAACCAGTTCTTTGGAAATATATCAGCCCTTGAAAGTCTAACATCCCTCCA
1 TTGGACCTCTCTTCTAACCAGTTCTCTAGAAATATATCAGCCCTTCAAAGCCTAACATCCCTCCA
131165937 ATTA
66 ATTA
131165941 TTGGA
1 TTGGA
131165946 TATTTCAAAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.36
Consensus pattern (69 bp):
TTGGACCTCTCTTCTAACCAGTTCTCTAGAAATATATCAGCCCTTCAAAGCCTAACATCCCTCCA
ATTA
Found at i:131171429 original size:11 final size:10
Alignment explanation
Indices: 131171397--131171421 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
131171387 TGATGGCCAG
131171397 AAAAAGACTA
1 AAAAAGACTA
131171407 AAAAAGACTA
1 AAAAAGACTA
131171417 AAAAA
1 AAAAA
131171422 TACATAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAGACTA
Found at i:131171557 original size:2 final size:2
Alignment explanation
Indices: 131171550--131171585 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
131171540 TGCAACTAAA
* *
131171550 AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131171586 CAAAATCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:131171724 original size:11 final size:11
Alignment explanation
Indices: 131171708--131171732 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
131171698 TTTTCAACAT
131171708 GTTAAATCCAA
1 GTTAAATCCAA
131171719 GTTAAATCCAA
1 GTTAAATCCAA
131171730 GTT
1 GTT
131171733 GTCAATGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (11 bp):
GTTAAATCCAA
Found at i:131175298 original size:3 final size:3
Alignment explanation
Indices: 131175290--131175389 Score: 62
Period size: 3 Copynumber: 32.3 Consensus size: 3
131175280 TGAATTTCTA
* * *
131175290 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TAT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * * *
131175338 TAT T-T ATAC TA- TACT TAA TAT TTT TAT TAT TAT TA- TATT TAC TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
131175383 TAT TAT T
1 TAT TAT T
131175390 TATAAATATT
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 5 0.07
3 59 0.79
4 11 0.15
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:131175569 original size:3 final size:3
Alignment explanation
Indices: 131175563--131175629 Score: 82
Period size: 3 Copynumber: 21.7 Consensus size: 3
131175553 TTATTACTGC
*
131175563 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
131175609 TA- TATT TAT ATAA TAT TAT TA
1 TAT TA-T TAT -TAT TAT TAT TA
131175630 ATAGGTACTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 47 0.84
4 7 0.12
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:131175895 original size:24 final size:22
Alignment explanation
Indices: 131175868--131175915 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
131175858 TAGTGTGTTT
131175868 TATTATATGTATATATACTCTCAA
1 TATTATAT-T-TATATACTCTCAA
* *
131175892 TATTATATTTTTATACTCTTAA
1 TATTATATTTATATACTCTCAA
131175914 TA
1 TA
131175916 CCATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 1 0.05
24 8 0.36
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTATATTTATATACTCTCAA
Found at i:131175921 original size:22 final size:22
Alignment explanation
Indices: 131175881--131175922 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
131175871 TATATGTATA
**
131175881 TATACTCTCAATATTATATTTT
1 TATACTCTCAATACCATATTTT
*
131175903 TATACTCTTAATACCATATT
1 TATACTCTCAATACCATATT
131175923 ATTCTTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (22 bp):
TATACTCTCAATACCATATTTT
Found at i:131181417 original size:26 final size:26
Alignment explanation
Indices: 131181381--131181490 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
131181371 TGATACAAAT
131181381 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131181407 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131181433 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131181459 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131181485 TGATAA
1 TGATAA
131181491 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:131182960 original size:28 final size:26
Alignment explanation
Indices: 131182918--131182988 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
131182908 AAAAGTAGCT
* * *
131182918 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
131182946 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
131182972 AAATTACCGTTATACCC
1 AAATTACTGTTATACCC
131182989 TAGGGTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 19 0.50
27 1 0.03
28 18 0.47
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:131183136 original size:27 final size:27
Alignment explanation
Indices: 131183095--131183210 Score: 178
Period size: 27 Copynumber: 4.3 Consensus size: 27
131183085 GAGGAAGCGT
*
131183095 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
131183122 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
131183149 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
131183176 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
131183204 TCTGGTG
1 TCTGGTG
131183211 ACTGTCACAT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 74 0.91
28 7 0.09
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:131183180 original size:54 final size:55
Alignment explanation
Indices: 131183095--131183232 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
131183085 GAGGAAGCGT
* * *
131183095 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
131183149 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
131183204 TCTGGT-G-ACTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
131183233 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 12 0.16
53 8 0.11
54 49 0.64
55 7 0.09
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:131183225 original size:25 final size:26
Alignment explanation
Indices: 131183093--131183232 Score: 133
Period size: 27 Copynumber: 5.3 Consensus size: 26
131183083 TGGAGGAAGC
*
131183093 GTTCTGGTGGCTA-TGCCACAAATATCT
1 GTTCTGGTGGC-ACTGCCAC-ATTATCT
* * *
131183120 GATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCACTGCCAC-ATTATCT
* *
131183147 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCACTGCCACAT-TATCT
*
131183174 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCACTGCCAC-ATTATCT
*
131183201 GTATCTGGT-G-ACTGTCACATTATCT
1 GT-TCTGGTGGCACTGCCACATTATCT
131183226 GTTCTGG
1 GTTCTGG
131183233 CAGCCATGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
24 5 0.05
25 9 0.09
26 7 0.07
27 74 0.72
28 8 0.08
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCACTGCCACATTATCT
Found at i:131187202 original size:26 final size:26
Alignment explanation
Indices: 131187166--131187275 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
131187156 TGATACAAAT
131187166 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131187192 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131187218 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131187244 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131187270 TGATAA
1 TGATAA
131187276 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:131188932 original size:27 final size:27
Alignment explanation
Indices: 131188891--131189006 Score: 178
Period size: 27 Copynumber: 4.3 Consensus size: 27
131188881 GAGGAAGCGT
*
131188891 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
131188918 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
131188945 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
131188972 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
131189000 TCTGGTG
1 TCTGGTG
131189007 ACCTGTCACA
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 74 0.91
28 7 0.09
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:131188976 original size:54 final size:55
Alignment explanation
Indices: 131188891--131189029 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
131188881 GAGGAAGCGT
* * *
131188891 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
131188945 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
131189000 TCTGGTGAC-CTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
131189030 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 12 0.16
54 56 0.73
55 9 0.12
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:131197421 original size:14 final size:14
Alignment explanation
Indices: 131197402--131197437 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
131197392 ACGCTGAGGT
131197402 ATTTTCAATTTCTG
1 ATTTTCAATTTCTG
131197416 ATTTTCAATTTCTG
1 ATTTTCAATTTCTG
*
131197430 CTTTTCAA
1 ATTTTCAA
131197438 CTTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTTTCAATTTCTG
Found at i:131197471 original size:103 final size:102
Alignment explanation
Indices: 131197342--131197644 Score: 423
Period size: 103 Copynumber: 2.9 Consensus size: 102
131197332 TTTATTTCTG
131197342 TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTT
131197407 CAATTTCTGATTTTCAATTTCTGCTTTTCAACTTATAT
65 CAATTTCTGATTTTCAATTTCTGCTTTTCAACTTATAT
*
131197445 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTT
* * * *
131197510 CAATTTCTGCTTTTCAATTTCTG-TTTCTCAATTTCTGT
65 CAATTTCTGATTTTCAATTTCTGCTTT-TCAACTTATAT
* * *
131197548 TTGTC--AAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATT
1 TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGG-GCAC--GCTGAGGTATT
* * *
131197611 TTCAATTTATGTTTTTTCAATTTATGCTTTTCAA
63 TTCAATTTCTG-ATTTTCAATTTCTGCTTTTCAA
131197645 AAATCAACTC
Statistics
Matches: 181, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
100 2 0.01
101 39 0.22
102 3 0.02
103 118 0.65
104 16 0.09
105 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (102 bp):
TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTC
AATTTCTGATTTTCAATTTCTGCTTTTCAACTTATAT
Found at i:131197525 original size:14 final size:13
Alignment explanation
Indices: 131197506--131197554 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 13
131197496 CGCTGAGGTA
131197506 TTTTCAATTTCTG
1 TTTTCAATTTCTG
131197519 CTTTTCAATTTCTG
1 -TTTTCAATTTCTG
131197533 TTTCTCAATTTCTG
1 TTT-TCAATTTCTG
131197547 TTTGTCAA
1 TTT-TCAA
131197555 AAATCAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
13 3 0.09
14 30 0.91
ACGTcount: A:0.16, C:0.18, G:0.08, T:0.57
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:131197629 original size:15 final size:16
Alignment explanation
Indices: 131197609--131197641 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
131197599 TGCTGAGGTA
131197609 TTTTCAATTTATG-TT
1 TTTTCAATTTATGCTT
131197624 TTTTCAATTTATGCTT
1 TTTTCAATTTATGCTT
131197640 TT
1 TT
131197642 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTCAATTTATGCTT
Found at i:131197651 original size:191 final size:187
Alignment explanation
Indices: 131197416--131198149 Score: 686
Period size: 174 Copynumber: 4.1 Consensus size: 187
131197406 TCAATTTCTG
*
131197416 ATTTTCAATTTCTGCTTTTCAACTTATAT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
1 ATTTTCAATTTCTGTTTTTCAA-TT-TATGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
*
131197480 GTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTCTCAATTTC
62 GTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTT-TCAATTTC
* * *
131197545 TGTTTGTCAAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT
126 TGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT
*
131197608 ATTTTCAATTTATGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 ATTTTCAATTTCTG-TTTTTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
*
131197673 TGAGCCTCAGGGCATGCTGAGGTATTTTCAA-TT-T-C---T--A----T-TTTTCAATTTCTGT
64 TGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTTCAATTTCTGT
131197725 TCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT
129 TCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT
* * *
131197784 ATTTTCAATTTCTATTTTTCAATTTCTGTTTGTC-AAAATCAACTCATATTACGAGAGGTGAGTT
1 ATTTTCAATTTCTGTTTTTCAATTTATGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
131197848 GAGCCTCAGGACACGCTGAGGTATTCTCAATTTCTG------------T-TTTTCAATTTCTGTT
65 GAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTTCAATTTCTGTT
* *
131197900 CGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGG-
130 CGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT
*
131197955 ----T-AA--------TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTT
1 ATTTTCAATTTCTGTTTTTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * * * * ******
131198007 GAGCCTCAGGACACGCTGAGGTATTTTTAATCTCCGTTTTTCAATTTATG-TTTCAAAAAAAAAA
65 GAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTTC--AATTTCTG
* *** *
131198071 AT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGT
128 TTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT
* *
131198128 AATTTCAAGTTCTGTTTTTCAA
1 ATTTTCAATTTCTGTTTTTCAA
131198150 AATCAACTCA
Statistics
Matches: 469, Mismatches: 34, Indels: 84
0.80 0.06 0.14
Matches are distributed among these distances:
158 13 0.03
159 63 0.13
166 2 0.00
167 1 0.00
171 5 0.01
172 60 0.13
173 3 0.01
174 116 0.25
175 18 0.04
176 65 0.14
177 16 0.03
178 5 0.01
179 1 0.00
183 1 0.00
185 1 0.00
186 6 0.01
188 1 0.00
189 1 0.00
190 2 0.00
191 62 0.13
192 15 0.03
193 12 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (187 bp):
ATTTTCAATTTCTGTTTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTTCAATTTCTGTTC
GTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT
Found at i:131197880 original size:174 final size:176
Alignment explanation
Indices: 131197523--131198058 Score: 709
Period size: 174 Copynumber: 3.1 Consensus size: 176
131197513 TTTCTGCTTT
* * * *
131197523 TCAATTTCTGTTTCTCAATTTCTGTTTGTCAAAAATCAACTTATATTGTGAGAGGTGAGTTGAGC
1 TCAATTTCTGTTTTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
131197588 CTCGGCTCACATGCTGAGGTATTTTCAATTTATGTTTTTTCAATTTATGCTTTTCAAAAATCAAC
65 CTCGGCTCACATGCTGAGGTATTTTCAATTTATGATTTTTCAATTTATGCTTTTCAAAAATCAAC
* * * *
131197653 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTT
130 TCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTC
*
131197700 TCAATTTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
131197765 TCGGCTCACATGCTGAGGTATTTTCAATTTCT-ATTTTTCAATTTCTG-TTTGTC-AAAATCAAC
66 TCGGCTCACATGCTGAGGTATTTTCAATTTATGATTTTTCAATTTATGCTTT-TCAAAAATCAAC
131197827 TCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTC
130 TCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTC
131197874 TCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
131197939 TCAAG---ACACGCTGAGG-----------TA--A--TTTCAATTTATGCTTTTCAAAAATCAAC
66 TC-GGCTCACATGCTGAGGTATTTTCAATTTATGATTTTTCAATTTATGCTTTTCAAAAATCAAC
* * *
131197986 TCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
130 TCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTC
* * * *
131198033 TTAATCTCCGTTTTTCAATTTATGTT
1 TCAATTTCTGTTTTTCAATTTCTGTT
131198059 TCAAAAAAAA
Statistics
Matches: 331, Mismatches: 24, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
158 13 0.04
159 78 0.24
160 1 0.00
161 1 0.00
172 10 0.03
174 121 0.37
175 16 0.05
176 64 0.19
177 27 0.08
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (176 bp):
TCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCGGCTCACATGCTGAGGTATTTTCAATTTATGATTTTTCAATTTATGCTTTTCAAAAATCAACT
CATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTC
Found at i:131197975 original size:86 final size:86
Alignment explanation
Indices: 131197520--131197977 Score: 634
Period size: 86 Copynumber: 5.2 Consensus size: 86
131197510 CAATTTCTGC
* * * *
131197520 TTTTCAATTTCTGTTTCTCAATTTCTGTTTGTCAAAAATCAACTTATATTGTGAGAGGTGAGTTG
1 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTG
131197585 AGCCTC-GGCTCACATGCTGAGGTA
65 AGCCTCAGG---ACATGCTGAGGTA
* * *
131197609 TTTTCAATTTATGTTTTTTCAATTTATGCTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCTG-TTTTTCAATTTCTG-TTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGT
*
131197673 TGAGCCTCAGGGCATGCTGAGGTA
63 TGAGCCTCAGGACATGCTGAGGTA
*
131197697 TTTTCAATTTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
131197762 GCCTC-GGCTCACATGCTGAGGTA
66 GCCTCAGG---ACATGCTGAGGTA
* * *
131197785 TTTTCAATTTCTATTTTTCAATTTCTGTTTGTCAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
131197850 GCCTCAGGACACGCTGAGGTA
66 GCCTCAGGACATGCTGAGGTA
*
131197871 TTCTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
131197936 GCCTCAAGACACGCTGAGGTA
66 GCCTCAGGACATGCTGAGGTA
* * *
131197957 ATTTCAATTTATGCTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
131197978 AAATCAACTC
Statistics
Matches: 337, Mismatches: 24, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
85 2 0.01
86 149 0.44
87 15 0.04
88 103 0.31
89 14 0.04
90 50 0.15
91 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (86 bp):
TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGACATGCTGAGGTA
Found at i:131198015 original size:159 final size:160
Alignment explanation
Indices: 131197800--131198183 Score: 513
Period size: 159 Copynumber: 2.3 Consensus size: 160
131197790 AATTTCTATT
*
131197800 TTTCAATTTCTGTTTGTCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTCAATTTCTGTTT-TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * * * *
131197865 GAGGTATTCTCAATTTCTGTTTTTCAATTTCTG-TTC-GT-CAAAATCAACTCATATTGCGAGAG
65 GAGGTATTCTCAATCTCCGTTTTTCAATTTATGTTTCAATAAAAAATCAACTCATATTGCGAGAG
131197927 GTGAGTTGAGCCTCAAGACACGCTGAGGTAA
130 GTGAGTTGAGCCTCAAGACACGCTGAGGTAA
* *
131197958 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTG-TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
131198023 TGAGGTATTTTTAATCTCCGTTTTTCAATTTATGTTTCAAAAAAAAAAATAAAAAAATCAACTCA
64 TGAGGTATTCTCAATCTCCGTTTTTCAATTTATGTTTC---------AAT-AAAAAATCAACTCA
*
131198088 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
119 TATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAA
*
131198130 TTTCAAGTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAATTTCTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
131198184 TTTAATTTCT
Statistics
Matches: 196, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
158 13 0.07
159 76 0.39
160 3 0.02
170 1 0.01
171 35 0.18
172 68 0.35
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (160 bp):
TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTATTCTCAATCTCCGTTTTTCAATTTATGTTTCAATAAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTCAAGACACGCTGAGGTAA
Found at i:131198048 original size:73 final size:73
Alignment explanation
Indices: 131197904--131198050 Score: 222
Period size: 73 Copynumber: 2.0 Consensus size: 73
131197894 TCTGTTCGTC
* *
131197904 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATCTAC
131197969 GCTTTTCA
66 GCTTTTCA
* * * * *
131197977 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATCTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATCTAC
*
131198042 GTTTTTCA
66 GCTTTTCA
131198050 A
1 A
131198051 TTTATGTTTC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATCTAC
GCTTTTCA
Found at i:131198216 original size:54 final size:54
Alignment explanation
Indices: 131198137--131198365 Score: 370
Period size: 56 Copynumber: 4.2 Consensus size: 54
131198127 TAATTTCAAG
131198137 TTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
1 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
131198190 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
1 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
* * *
131198244 TTTTGTTTTTTGAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAAT
1 TTCTG-TTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
* *
131198300 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTTTCAAT
1 TTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
131198356 TTCTGTTTTT
1 TTCTGTTTTT
131198366 AATGTTTAGT
Statistics
Matches: 163, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
53 11 0.07
54 46 0.28
55 10 0.06
56 96 0.59
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (54 bp):
TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
Found at i:131200193 original size:3 final size:3
Alignment explanation
Indices: 131200187--131200289 Score: 68
Period size: 3 Copynumber: 33.3 Consensus size: 3
131200177 TGAATTTCTA
* * * *
131200187 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * *
131200235 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TAT TA- TATT TAC
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
131200280 TAT TAT TAT T
1 TAT TAT TAT T
131200290 TATGAATATT
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
2 5 0.06
3 62 0.79
4 11 0.14
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:131200469 original size:3 final size:3
Alignment explanation
Indices: 131200463--131200514 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
131200453 TTATTACTGC
* *
131200463 TAT TAT TGT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT TAT
131200510 TAT TA
1 TAT TA
131200515 ATAGGTACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 32 0.78
4 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:131200780 original size:24 final size:22
Alignment explanation
Indices: 131200753--131200800 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
131200743 TAGTGTGTTT
131200753 TATTATATGTATATATACTCTCAA
1 TATTATAT-T-TATATACTCTCAA
* *
131200777 TATTATATTTTTATACTCTTAA
1 TATTATATTTATATACTCTCAA
131200799 TA
1 TA
131200801 CCATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 1 0.05
24 8 0.36
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTATATTTATATACTCTCAA
Found at i:131200806 original size:22 final size:22
Alignment explanation
Indices: 131200766--131200807 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
131200756 TATATGTATA
**
131200766 TATACTCTCAATATTATATTTT
1 TATACTCTCAATACCATATTTT
*
131200788 TATACTCTTAATACCATATT
1 TATACTCTCAATACCATATT
131200808 ATTCTTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (22 bp):
TATACTCTCAATACCATATTTT
Found at i:131202294 original size:2 final size:2
Alignment explanation
Indices: 131202287--131202319 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
131202277 ACACATTATC
*
131202287 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131202320 CACTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131202377 original size:2 final size:2
Alignment explanation
Indices: 131202372--131202400 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
131202362 TATGTGTAAC
131202372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
131202401 CCATCTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131204104 original size:25 final size:27
Alignment explanation
Indices: 131204067--131204119 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
131204057 TCAAACATGC
131204067 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
131204093 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
131204119 A
1 A
131204120 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:131205630 original size:26 final size:26
Alignment explanation
Indices: 131205599--131205705 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
131205589 TGAAATGCCC
*
131205599 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
131205625 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
131205651 ATCAT-GAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
131205676 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
131205702 ATCA
1 ATCA
131205706 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:131205675 original size:51 final size:52
Alignment explanation
Indices: 131205599--131205705 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
131205589 TGAAATGCCC
131205599 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
131205651 ATCAT-GAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
131205702 ATCA
1 ATCA
131205706 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 48 0.91
52 5 0.09
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:131211133 original size:24 final size:25
Alignment explanation
Indices: 131211097--131211144 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
131211087 TCAAACATGC
131211097 ATTTAGGTCAATTTAACCCTAGGGT
1 ATTTAGGTCAATTTAACCCTAGGGT
* * *
131211122 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
131211145 GTAAAACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:131212660 original size:26 final size:26
Alignment explanation
Indices: 131212629--131212736 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
131212619 TGAAATGCCC
*
131212629 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
131212655 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
131212681 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
131212707 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
131212733 ATCA
1 ATCA
131212737 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:131214385 original size:17 final size:17
Alignment explanation
Indices: 131214363--131214398 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
131214353 TAACAAGTAC
131214363 TAAAAAATATATATATA
1 TAAAAAATATATATATA
131214380 TAAAAAATATATATATA
1 TAAAAAATATATATATA
131214397 TA
1 TA
131214399 CATGTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAAATATATATATA
Found at i:131214397 original size:25 final size:25
Alignment explanation
Indices: 131214369--131214527 Score: 62
Period size: 25 Copynumber: 6.2 Consensus size: 25
131214359 GTACTAAAAA
131214369 ATATATATATATAAAAAATATATAT
1 ATATATATATATAAAAAATATATAT
* * *
131214394 ATATACATGTAT-AATAATGA-ATA-
1 ATATATATATATAAAAAAT-ATATAT
* * *
131214417 ATATGATATATGA-AAATAATACTAAAA
1 ATAT-ATATAT-ATAAAAAATA-TATAT
* *
131214444 AGTATATATACGTGTAATAAAATATATGT
1 A-TATATATA--TATAA-AAAATATATAT
* *
131214473 AT-TA-ATATTAATAATAAATATAAAT
1 ATATATATA-T-ATAAAAAATATATAT
* *
131214498 A-ATATATATATTAAAAAACATAGAT
1 ATATATATATA-TAAAAAATATATAT
131214523 ATATA
1 ATATA
131214528 AAACATAGTA
Statistics
Matches: 98, Mismatches: 19, Indels: 33
0.65 0.13 0.22
Matches are distributed among these distances:
23 4 0.04
24 14 0.14
25 43 0.44
26 14 0.14
27 8 0.08
28 4 0.04
29 6 0.06
30 5 0.05
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATATATATAAAAAATATATAT
Found at i:131214524 original size:16 final size:15
Alignment explanation
Indices: 131214490--131214566 Score: 50
Period size: 15 Copynumber: 4.9 Consensus size: 15
131214480 TTAATAATAA
* * *
131214490 ATATAAATAATATAT
1 ATATAAAAAACATAG
131214505 ATATTAAAAAACATAG
1 ATA-TAAAAAACATAG
*
131214521 ATATATAAAACATAG
1 ATATAAAAAACATAG
131214536 -TACTAAAATATACAT-G
1 ATA-TAAAA-A-ACATAG
*
131214552 ATATATAAGAACATA
1 ATATA-AAAAACATA
131214567 TAATATAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 2 0.04
15 22 0.45
16 17 0.35
17 8 0.16
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.30
Consensus pattern (15 bp):
ATATAAAAAACATAG
Found at i:131214786 original size:15 final size:16
Alignment explanation
Indices: 131214766--131214805 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
131214756 ATAAATATAT
131214766 ATATACATACTAA-AA
1 ATATACATACTAATAA
*
131214781 ATATACATAATAATAA
1 ATATACATACTAATAA
131214797 ATA-ACATAC
1 ATATACATAC
131214806 CAAAGTACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (16 bp):
ATATACATACTAATAA
Found at i:131214853 original size:18 final size:18
Alignment explanation
Indices: 131214826--131214860 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
131214816 TAAATTTATA
*
131214826 AATAATAATAGTAAATAT
1 AATAACAATAGTAAATAT
*
131214844 AATAACAATATTAAATA
1 AATAACAATAGTAAATA
131214861 GAATTAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AATAACAATAGTAAATAT
Found at i:131216324 original size:26 final size:26
Alignment explanation
Indices: 131216287--131216421 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
131216277 TGATACAAAT
* *
131216287 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131216313 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * *
131216339 TGATAAT-AGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131216364 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131216390 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131216416 TGATAA
1 TGATAA
131216422 GAATATCATG
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 22 0.22
26 78 0.78
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:131216356 original size:51 final size:51
Alignment explanation
Indices: 131216287--131216421 Score: 225
Period size: 51 Copynumber: 2.6 Consensus size: 51
131216277 TGATACAAAT
131216287 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATA-GTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
*
131216339 TGATAATAGTTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
131216390 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAAT-AGTTAGGTAAATGTTCCATGATAA
131216422 GAATATCATG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 49 0.63
52 29 0.37
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:131218447 original size:135 final size:137
Alignment explanation
Indices: 131218203--131218487 Score: 520
Period size: 135 Copynumber: 2.1 Consensus size: 137
131218193 TGAGTAGTCT
131218203 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
131218268 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
131218333 ACTGTTA
131 ACTGTTA
131218340 CCCAAATGGGCTTGCATATG-TTA-TGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
131218403 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
131218468 ACTGTTA
131 ACTGTTA
**
131218475 CCTGAATGGGCTT
1 CCCAAATGGGCTT
131218488 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 121 0.84
136 3 0.02
137 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:131219859 original size:18 final size:18
Alignment explanation
Indices: 131219832--131219867 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
131219822 ATGTTTTTTT
*
131219832 ACTCGGTTTATGAAATTC
1 ACTCGATTTATGAAATTC
131219850 ACTCGATTTATGAAATTC
1 ACTCGATTTATGAAATTC
131219868 GGTTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (18 bp):
ACTCGATTTATGAAATTC
Found at i:131220484 original size:132 final size:131
Alignment explanation
Indices: 131219957--131220487 Score: 491
Period size: 132 Copynumber: 4.0 Consensus size: 131
131219947 ATTATTCATT
* * * * * *
131219957 TAAAAATTCTTTAAAACGAATGCGAGAT-TT-GATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 TAAAAACTCTTTAAAACGAAAGC-A-ATGTTCGGTGTTTGGCAATTCG-GGAATAGTGCCCTATC
* * * * * *
131220020 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGT
63 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCGAAATTTCACTCATGT
*
131220085 CTTC
128 TTTC
* * *
131220089 TAAAAA-TCCTTTAAAACGAAGGCAATACTT-GGTGTTTGACAATTCGGGAATCA-TGCCCTATC
1 TAAAAACT-CTTTAAAACGAAAGCAAT-GTTCGGTGTTTGGCAATTCGGGAAT-AGTGCCCTATC
* ** * * **
131220151 GTGCTAGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTT-TAGGTTTTCACTCATG
63 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCGA-AATTTCACTCATG
*
131220215 TTTTT
127 TTTTC
* * * *
131220220 TAAGAAAACCCTTTAAAAC-AAATGCAATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTATC
1 T-A-AAAACTCTTTAAAACGAAA-GCAATGTTCGGTGTTTGGCAATTCGGGAATAGTGCCCTATC
** * * * ** * * *
131220284 GTGCTGGGTTGCGCTTTTTCATTTGTTCGAAACGCTAGAAGATCCCTTCGAAATTTCACTCACGT
63 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCGAAATTTCACTCATGT
131220349 TTTC
128 TTTC
* *
131220353 TAAAAACTCTTTAAAGCGAAAGAAATGTTCGGTGTTTGGCAATTCGGGGAATAGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAAGCAATGTTCGGTGTTTGGCAATTC-GGGAATAGTGCCCTATCGT
* * * * * * *
131220418 GCTGGGTTGCAATCTCCCGTTTGTTCAAAATAATCGAATATCTCTTCGGAATTTCACTCGTATTT
65 GCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCGAAATTTCACTCATGTTT
131220483 TC
130 TC
131220485 TAA
1 TAA
131220488 GGTGAGACAA
Statistics
Matches: 319, Mismatches: 66, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
130 3 0.01
131 104 0.33
132 114 0.36
133 97 0.30
134 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TAAAAACTCTTTAAAACGAAAGCAATGTTCGGTGTTTGGCAATTCGGGAATAGTGCCCTATCGTG
CTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCGAAATTTCACTCATGTTTT
C
Found at i:131223001 original size:25 final size:26
Alignment explanation
Indices: 131222907--131223015 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
131222897 TGATACAAAT
131222907 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
131222933 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
131222959 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
131222985 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
131223010 TGATAA
1 TGATAA
131223016 GAATTCATGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:131225035 original size:135 final size:136
Alignment explanation
Indices: 131224793--131225076 Score: 518
Period size: 135 Copynumber: 2.1 Consensus size: 136
131224783 GAGTAGTCTC
131224793 CCCAAATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
131224858 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTATCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
131224922 CTGTTA
131 CTGTTA
131224928 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTA-TGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
131224992 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
131225057 ACTGTTA
130 ACTGTTA
**
131225064 CCTGAATGGGCTT
1 CCCAAATGGGCTT
131225077 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 3 0.02
135 112 0.78
136 29 0.20
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:131226332 original size:12 final size:12
Alignment explanation
Indices: 131226315--131226341 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
131226305 ACTCGGGGAA
131226315 GAGGCCGTGGTC
1 GAGGCCGTGGTC
131226327 GAGGCCGTGGTC
1 GAGGCCGTGGTC
131226339 GAG
1 GAG
131226342 CCGAGGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.22, G:0.52, T:0.15
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:131228453 original size:16 final size:16
Alignment explanation
Indices: 131228434--131228468 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
131228424 AACCTAACCC
*
131228434 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
131228449 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
131228465 AAAA
1 AAAA
131228469 CCTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:131228483 original size:16 final size:16
Alignment explanation
Indices: 131228464--131228500 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
131228454 AAAGAAAAAG
*
131228464 AAAAACCTACCCCAAA
1 AAAAACCTAACCCAAA
131228480 AAAAACCTAACCCAAA
1 AAAAACCTAACCCAAA
131228496 AAAAA
1 AAAAA
131228501 AAAAGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.65, C:0.30, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAACCTAACCCAAA
Found at i:131228484 original size:17 final size:17
Alignment explanation
Indices: 131228459--131228501 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
131228449 AAAAAAAAGA
131228459 AAAAGAAAAACCT-ACCC
1 AAAA-AAAAACCTAACCC
*
131228476 CAAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
131228493 AAAAAAAAA
1 AAAAAAAAA
131228502 AAAGAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.67, C:0.26, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:131228497 original size:43 final size:42
Alignment explanation
Indices: 131228421--131228513 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 42
131228411 GCCCCCCCAA
*
131228421 AAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAGAAAAAG
1 AAAAACCTAACCCAAAAAAAAACAAACAAAAAAAAA-AAAAAG
* * *
131228464 AAAAACCTACCCCAAAAAAAACCTAACCCAAAAAAAAAAAAGAAG
1 AAAAACCTAACCCAAAAAAAAAC-AA-ACAAAAAAAAAAAA-AAG
131228509 AAAAA
1 AAAAA
131228514 AGAAAAACCT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 21 0.49
44 5 0.12
45 17 0.40
ACGTcount: A:0.73, C:0.18, G:0.05, T:0.03
Consensus pattern (42 bp):
AAAAACCTAACCCAAAAAAAAACAAACAAAAAAAAAAAAAAG
Found at i:131232747 original size:26 final size:26
Alignment explanation
Indices: 131232718--131232827 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
131232708 TGATACAAAT
131232718 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
131232744 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
131232770 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
131232796 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
131232822 TGATAA
1 TGATAA
131232828 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:131234820 original size:136 final size:137
Alignment explanation
Indices: 131234575--131234860 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
131234565 GAGTAGTCTC
131234575 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
131234640 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
131234705 ACTGTTA
131 ACTGTTA
131234712 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
131234776 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
131234841 ACTGTTA
131 ACTGTTA
**
131234848 CCTGAATGGGCTT
1 CCCAAATGGGCTT
131234861 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:131237202 original size:15 final size:15
Alignment explanation
Indices: 131237182--131237212 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
131237172 GTAAGGATTA
131237182 AATTGAAATTTTACC
1 AATTGAAATTTTACC
131237197 AATTGAAATTTTACC
1 AATTGAAATTTTACC
131237212 A
1 A
131237213 TATCTTTTGG
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:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTGAAATTTTACC
Found at i:131242554 original size:22 final size:23
Alignment explanation
Indices: 131242522--131242571 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
131242512 TTTAAAGCCA
**
131242522 TTATTTATGAGTTTTATTTAAAT
1 TTATTTATGAGTTAGATTTAAAT
131242545 TTATTT-TGAGTTAGATTTAAAT
1 TTATTTATGAGTTAGATTTAAAT
*
131242567 ATATT
1 TTATT
131242572 CTAATTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (23 bp):
TTATTTATGAGTTAGATTTAAAT
Found at i:131243054 original size:69 final size:69
Alignment explanation
Indices: 131242796--131243041 Score: 350
Period size: 69 Copynumber: 3.6 Consensus size: 69
131242786 AAAGTTATCT
* * ** * *
131242796 CTCTCTTCCAATCAGTTTTCTGGAAATATATCTATCCTTGAGAGCCTAACATTACTTGAATCTTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
131242861 GGAC
66 GGAC
* * *
131242865 CTCTCTTTTAATCTA-TTCTCTGGAAATATATTTGCCCTTCAGAGCCTAACATTGCTTGCATCTT
1 CTCTCTTCTAATC-AGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTT
131242929 TGGAC
65 TGGAC
* * * *
131242934 CTCTCTTTTAATCAATTTTCTGGAAATATACCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
*
131242999 AGAC
66 GGAC
131243003 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTT
131243042 GAAAGTCTAA
Statistics
Matches: 157, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
68 1 0.01
69 155 0.99
70 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (69 bp):
CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
GGAC
Found at i:131243070 original size:138 final size:138
Alignment explanation
Indices: 131242796--131243070 Score: 356
Period size: 138 Copynumber: 2.0 Consensus size: 138
131242786 AAAGTTATCT
* * * *
131242796 CTCTCTTCCAATCAGTTTTCTGGAAATATATCTATCCTTGAGAGCCTAACATTACTTGAATCTTT
1 CTCTCTTCCAATCAATTTTCTGGAAATATACCTACCCTTCAGAGCCTAACATTACTTGAATCTTT
* * * * * * *
131242861 GGACCTCTCTTTTAATCTATTCTCTGGAAATATATTTGCCCTTCAGAGCCTAACATTGCTTGCAT
66 AGACCTCTCTTCTAATCTATTCTCTGGAAATATATCTGCCCTTCAAAGCCTAACATTCCCTCCAT
*
131242926 CTTTGGAC
131 CGTTGGAC
** * *
131242934 CTCTCTTTTAATCAATTTTCTGGAAATATACCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
1 CTCTCTTCCAATCAATTTTCTGGAAATATACCTACCCTTCAGAGCCTAACATTACTTGAATCTTT
* *
131242999 AGACCTCTCTTCTAATC-AGTTCTCTGGAAATATATCTGCCCTTGAAAGTCTAACA-TCCCTCCA
66 AGACCTCTCTTCTAATCTA-TTCTCTGGAAATATATCTGCCCTTCAAAGCCTAACATTCCCTCC-
131243062 ATCGTTGGA
129 ATCGTTGGA
131243071 TGTTTCAAAC
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
137 5 0.04
138 112 0.96
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (138 bp):
CTCTCTTCCAATCAATTTTCTGGAAATATACCTACCCTTCAGAGCCTAACATTACTTGAATCTTT
AGACCTCTCTTCTAATCTATTCTCTGGAAATATATCTGCCCTTCAAAGCCTAACATTCCCTCCAT
CGTTGGAC
Found at i:131248496 original size:21 final size:21
Alignment explanation
Indices: 131248470--131248510 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
131248460 ATCTGCTCAA
* *
131248470 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
131248491 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
131248511 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:131252268 original size:21 final size:19
Alignment explanation
Indices: 131252232--131252275 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
131252222 TCACATATTA
131252232 TTTTTATATAATATTAATAT
1 TTTTTATATAATATTAAT-T
131252252 TTTTTATAATTAA-ATTAATT
1 TTTTTAT-A-TAATATTAATT
131252272 TTTT
1 TTTT
131252276 ATTATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.55
21 7 0.32
22 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTATATAATATTAATT
Found at i:131256143 original size:26 final size:26
Alignment explanation
Indices: 131256074--131256208 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
131256064 ACATGAATTC
*
131256074 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
131256100 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
131256125 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
131256151 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
131256177 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
131256203 TTATCA
1 TTATCA
131256209 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.24
26 78 0.76
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:131261912 original size:26 final size:26
Alignment explanation
Indices: 131261874--131261983 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
131261864 CATGATATTC
131261874 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131261900 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131261926 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131261952 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131261978 TTATCA
1 TTATCA
131261984 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:131261952 original size:52 final size:52
Alignment explanation
Indices: 131261874--131261983 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
131261864 CATGATATTC
131261874 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
131261926 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
131261978 TTATCA
1 TTATCA
131261984 ATTTGTATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:131262447 original size:26 final size:26
Alignment explanation
Indices: 131262411--131262520 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
131262401 TGATACAAAT
131262411 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
131262437 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131262463 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131262489 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
131262515 TGATAA
1 TGATAA
131262521 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:131263999 original size:28 final size:26
Alignment explanation
Indices: 131263957--131264031 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
131263947 AAAAGTAGCT
* *
131263957 AAATTACTATAATACCCCTATGTATAG-A
1 AAATTACTGTTATACCCCTA-G-AT-GCA
* *
131263985 AAATTACTGTTATACCTCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
131264011 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
131264032 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.03
26 21 0.52
27 1 0.03
28 17 0.43
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:131264176 original size:27 final size:27
Alignment explanation
Indices: 131264135--131264274 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
131264125 GAGGAAGCGT
*
131264135 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
131264162 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
131264189 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
131264216 TCTGGTGGCTCTGCCACGATTATTTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
131264244 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
131264270 TCTGG
1 TCTGG
131264275 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 80 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:131264220 original size:54 final size:55
Alignment explanation
Indices: 131264135--131264274 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
131264125 GAGGAAGCGT
* * *
131264135 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
131264189 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATTTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
131264244 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
131264275 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:131264360 original size:19 final size:22
Alignment explanation
Indices: 131264336--131264375 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
131264326 CTCCCCACAC
131264336 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
131264355 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
131264376 TTGAGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:131272876 original size:69 final size:69
Alignment explanation
Indices: 131272757--131273071 Score: 459
Period size: 69 Copynumber: 4.6 Consensus size: 69
131272747 AACATTATCT
* * * *
131272757 CTCTCTTATAATCAATTTTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCATT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTT
*
131272822 GAAC
66 GGAC
* * *
131272826 CTATCTTCTAATCAGTTCTCCGGAAATATATCTGCCCTTAAGAGCTTAACATTGCTTGAATCTTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTT
131272891 GGAC
66 GGAC
* * * *
131272895 CTCTCTTCTAATCAATTCTCCGAAAATATATCTGCCCTTGAGAGCCTAACATTGCTTGAATCTTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTT
*
131272960 GGTC
66 GGAC
* * *
131272964 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTAAGAACTTAACGTTGCTTGAATCTTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTT
131273029 GGAC
66 GGAC
* * *
131273033 CTCTCTTCTAATGAGTTCTTTGGAAACATATCTGCCCTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTT
131273072 GAAAATCTAA
Statistics
Matches: 221, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 221 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (69 bp):
CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTT
GGAC
Found at i:131276661 original size:127 final size:126
Alignment explanation
Indices: 131276345--131276661 Score: 352
Period size: 127 Copynumber: 2.5 Consensus size: 126
131276335 GTCCAACGAA
* * ** * *
131276345 AAAAAACGACACCCAGCACGGCAGGGCACGTTTCCTCGAATTTCCAAACATTGAACATTGCCTCG
1 AAAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTG
* *
131276410 CTTTAGCATTAGAAAATATGAATGAAATTCTAAAGGAATATTCAACTATTTTAAGCAAATC
66 CTTTAGCATTAGAAAACACGAATGAAATTCTAAAGGAATATTCAACTATTTTAAGCAAATC
* * * * * *
131276471 GAAAATCGAAACCCAGCACGATTGGGCACGATTCC-CTAGATTTCCAAGCGTTGAATATTGCCTT
1 AAAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGA-ATTTCCAAACATTGAACATTGCCTT
* * * * * *
131276535 GTTTTAGCACTTTGAAGACACGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAA-CAAA-C
65 GCTTTAGCA-TTAGAAAACACGAATGAAATTCTAAAGGAATATTCAACTATTTT-AAGCAAATC
* * * **
131276597 AAGAAATTGAAACCCAGCACGATAGGGCACGACTCCTCGAATTTCGAAACATCAAACATTGCCTT
1 AA-AAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTT
131276662 TGGTTTGGAG
Statistics
Matches: 155, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
125 2 0.01
126 59 0.38
127 90 0.58
128 4 0.03
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (126 bp):
AAAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTG
CTTTAGCATTAGAAAACACGAATGAAATTCTAAAGGAATATTCAACTATTTTAAGCAAATC
Found at i:131277432 original size:2 final size:2
Alignment explanation
Indices: 131277425--131277455 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
131277415 AAATAAACAA
131277425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131277456 AATAATACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131277827 original size:22 final size:21
Alignment explanation
Indices: 131277758--131277829 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 21
131277748 AAGGTTCTAT
131277758 ATATATATAAAAC-TTAAAGTAA
1 ATATATA-AAAACTTTAAA-TAA
*
131277780 ATAATAGTAAAACAGTTTGAAATAA
1 AT-ATA-TAAAA-ACTTT-AAATAA
131277805 ACTATATAAAAACTTTAAATAA
1 A-TATATAAAAACTTTAAATAA
131277827 ATA
1 ATA
131277830 ACATATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
21 2 0.05
22 9 0.21
23 10 0.24
24 8 0.19
25 9 0.21
26 4 0.10
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (21 bp):
ATATATAAAAACTTTAAATAA
Found at i:131279979 original size:130 final size:129
Alignment explanation
Indices: 131279519--131279981 Score: 398
Period size: 130 Copynumber: 3.6 Consensus size: 129
131279509 CGAGAAATCA
* * * * ** * * * *
131279519 CAACCCAGCACGATAGAGCATGATTCC-CGAATCGTCAAACACCAAGTATTGCCTTCGTTTTAAA
1 CAACCCAACACGTTAGGGCACGATTCCGCGAATCCCCGAACATCAAATATCGCCTTCGTTTT-AA
* * * * * *
131279583 GGATTTTTAGAAGAGC-CGAGTGAAATTTTGAAGGAATATTTGATTATTTTAAAC-AATCAGGAA
65 -GAATTTTAAAAGA-CACGAATGAAATTTTGAAGGAA-ATTCGATTATTTTGAACAAAT-ACGAA
131279646 ATTG
126 ATTG
* * ** * **
131279650 CTACCCAACACGTTAGGGCACGATTTCGCGAATTGCCGAATATCATGTATCGCCTTCGTTTT-AG
1 CAACCCAACACGTTAGGGCACGATTCCGCGAATCCCCGAACATCAAATATCGCCTTCGTTTTAAG
*** * * * *
131279714 AGATTTTAAAAGACACGAGCAAAATTTTAAAATGATATTCGATTATTTTGAACAAATGCGAAATT
66 A-ATTTTAAAAGACACGAATGAAATTTT-GAAGGAAATTCGATTATTTTGAACAAATACGAAATT
131279779 G
129 G
* * * * * ** *
131279780 CAACCCAACACGTTAGGGCACAATTCTGCGAATTGCCCAAACATCAAATCTCATCTTC-ATTTAA
1 CAACCCAACACGTTAGGGCACGATTCCGCGAA-TCCCCGAACATCAAATATCGCCTTCGTTTTAA
* * *
131279844 GGAATTTTAAAA-ATATGAATGAAATTTTGAAGGGAAATTCGATTATTTTGAGCAAATACGAAAT
65 -GAATTTTAAAAGACACGAATGAAATTTTGAA-GGAAATTCGATTATTTTGAACAAATACGAAAT
131279908 TG
128 TG
* *
131279910 CAACCCAACGCGTTAGGGCACGATTCCGCGAATCCCCGAACATCAAATTTCGCCTTCGTTTTGAA
1 CAACCCAACACGTTAGGGCACGATTCCGCGAATCCCCGAACATCAAATATCGCCTTCGTTTT-AA
131279975 GAATTTT
65 GAATTTT
131279982 TGGATGAATA
Statistics
Matches: 264, Mismatches: 57, Indels: 23
0.77 0.17 0.07
Matches are distributed among these distances:
129 25 0.09
130 154 0.58
131 56 0.21
132 29 0.11
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (129 bp):
CAACCCAACACGTTAGGGCACGATTCCGCGAATCCCCGAACATCAAATATCGCCTTCGTTTTAAG
AATTTTAAAAGACACGAATGAAATTTTGAAGGAAATTCGATTATTTTGAACAAATACGAAATTG
Found at i:131282583 original size:44 final size:44
Alignment explanation
Indices: 131282516--131282942 Score: 275
Period size: 44 Copynumber: 10.0 Consensus size: 44
131282506 AGATTCGTCG
* ** * *
131282516 TCTTCGATTTGCTCTTTGTCAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGCGA
* * *
131282560 TCTTCGATCTGTTCTCAGCCAATAAAGAGACGCCAAATCTGAGA
1 TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGCGA
* * * * *
131282604 TCTTCAATCTGCTCTCCGCCAATACAAAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGCGA
*
131282648 TCTTCGATCTGCTCTCCA-CCAATACAGAGATGCCAAATCTGCGA
1 TCTTCGATCTGCTCT-CAGCCAATACAGAGACGCCAAATCTGCGA
* ** * *
131282692 TCTTCGATCTGCTCTCTGCC--GCCA-A-ATCTG--AGATCTTCGA
1 TCTTCGATCTGCTCTCAGCCAATACAGAGA-C-GCCAAATCTGCGA
* ** * * * *
131282732 TCTGCTCTCCGC-CAATACAG--AGATGCCA-A-ATCTG-C-TATCTCCGA
1 TCTTCGATCTGCTC--T-CAGCCA-AT-ACAGAGA-C-GCCAAATCTGCGA
* *
131282776 TC-T--AT-T-CTCT--GCCAATACAGAGATGCTAAATCTGCGA
1 TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGCGA
* * *
131282813 TTTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGA
1 TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGCGA
* * * * *
131282857 TCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATTTGCTA
1 TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGCGA
* *
131282901 TCTTTGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGC
1 TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGC
131282943 AGGATTTACC
Statistics
Matches: 307, Mismatches: 50, Indels: 52
0.75 0.12 0.13
Matches are distributed among these distances:
35 4 0.01
36 3 0.01
37 10 0.03
38 2 0.01
39 2 0.01
40 20 0.07
41 4 0.01
42 9 0.03
43 1 0.00
44 251 0.82
45 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCAGCCAATACAGAGACGCCAAATCTGCGA
Found at i:131282728 original size:77 final size:80
Alignment explanation
Indices: 131282635--131282942 Score: 316
Period size: 88 Copynumber: 3.7 Consensus size: 80
131282625 ATACAAAGAT
* *
131282635 GCCAAATCTGCTATCTTCGATCTGCTCTCCACCAATACAGAGATGCCAAATCTGCGATCTTCGAT
1 GCCAAATCTGCGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTCGAT
131282700 CTGCTCTCTG-C-C-
66 CTGCTCTCTGCCACA
* * *
131282712 GCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTCCGAT
1 GCCAAATCTGCGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTCGAT
**
131282777 CTATTCTCTGCCAATACAGAGA
66 CTGCTCTCTGCC---AC----A
* * *
131282799 TGCTAAATCTGCGATTTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTTGA
1 -GCCAAATCTGCGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTCGA
*
131282864 TCTGCTCTCCGCCAATACAGAGA
65 TCTGCTCTCTGCC---AC----A
* * * *
131282887 TGCCAAATTTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGC
1 -GCCAAATCTGCGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
131282943 AGGATTTACC
Statistics
Matches: 198, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
77 68 0.34
78 1 0.01
82 1 0.01
88 128 0.65
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (80 bp):
GCCAAATCTGCGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTCGAT
CTGCTCTCTGCCACA
Found at i:131282755 original size:30 final size:32
Alignment explanation
Indices: 131282679--131282755 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
131282669 ATACAGAGAT
* *
131282679 GCCAAATCTGCGATCTTCGATCTGCTCTCTGCC
1 GCCAAATCAGAGATCTTCGATCTGC-CTCTGCC
*
131282712 GCCAAATCTGAGATCTTCGATCTG-CTCT-CC
1 GCCAAATCAGAGATCTTCGATCTGCCTCTGCC
131282742 GCC-AATACAGAGAT
1 GCCAAAT-CAGAGAT
131282756 GCCAAATCTG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 3 0.07
30 11 0.27
31 4 0.10
33 23 0.56
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.27
Consensus pattern (32 bp):
GCCAAATCAGAGATCTTCGATCTGCCTCTGCC
Found at i:131282807 original size:121 final size:123
Alignment explanation
Indices: 131282589--131282942 Score: 478
Period size: 121 Copynumber: 2.8 Consensus size: 123
131282579 CAATAAAGAG
* *
131282589 ACGCCAAATCTGAGATCTTCAATCTGCTCTCCGCCAATACAAAGATGCCAAATCTGCTATCTTCG
1 ACGCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
* *
131282654 ATCTGCTCTCCACCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTCTG-C
66 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTCCGCC
*
131282711 -CGCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTCCG
1 ACGCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
** * * *
131282775 ATCTATTCTCTGCCAATACAGAGATGCTAAATCTGCGATTTTCGATCTGCTCTCCGCC
66 ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTCCGCC
* * *
131282833 AATACAGAGATGCCAAATCTGCGATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATTTG
1 ---AC------GCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTG
* *
131282898 CTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGC
57 CTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
131282943 AGGATTTACC
Statistics
Matches: 201, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
121 110 0.55
122 1 0.00
126 1 0.00
132 89 0.44
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (123 bp):
ACGCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTTCG
ATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTCCGCC
Found at i:131282821 original size:165 final size:165
Alignment explanation
Indices: 131282546--131282872 Score: 483
Period size: 165 Copynumber: 2.0 Consensus size: 165
131282536 AATACAGAGA
** * *
131282546 CGCCAAATCTGCTATCTTCGATCTGTTCTCAGCCAATAAAGAGACGCCAAATCTGAGATCTTCAA
1 CGCCAAATCTGAGATCTTCGATCTGCTCTCAGCCAATAAAGAGACGCCAAATCTGAGATCTCCAA
* *
131282611 TCTGCTCTCCGCCAATACAAAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCACCAATACAGA
66 TCTACTCTCCGCCAATACAAAGATGCCAAATCTGCGATCTTCGATCTGCTCTCCACCAATACAGA
131282676 GATGCCAAATCTGCGATCTTCGATCTGCTCTCTGC
131 GATGCCAAATCTGCGATCTTCGATCTGCTCTCTGC
* * * ** *
131282711 CGCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTCCGA
1 CGCCAAATCTGAGATCTTCGATCTGCTCTCAGCCAATAAAGAGACGCCAAATCTGAGATCTCCAA
* * * * * *
131282776 TCTATTCTCTGCCAATACAGAGATGCTAAATCTGCGATTTTCGATCTGCTCTCCGCCAATACAGA
66 TCTACTCTCCGCCAATACAAAGATGCCAAATCTGCGATCTTCGATCTGCTCTCCACCAATACAGA
*
131282841 GATGCCAAATCTGCGATCTTTGATCTGCTCTC
131 GATGCCAAATCTGCGATCTTCGATCTGCTCTC
131282873 CGCCAATACA
Statistics
Matches: 143, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
165 143 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (165 bp):
CGCCAAATCTGAGATCTTCGATCTGCTCTCAGCCAATAAAGAGACGCCAAATCTGAGATCTCCAA
TCTACTCTCCGCCAATACAAAGATGCCAAATCTGCGATCTTCGATCTGCTCTCCACCAATACAGA
GATGCCAAATCTGCGATCTTCGATCTGCTCTCTGC
Found at i:131282834 original size:88 final size:88
Alignment explanation
Indices: 131282712--131282942 Score: 338
Period size: 88 Copynumber: 2.6 Consensus size: 88
131282702 GCTCTCTGCC
* * *
131282712 GCCAAATCTGAGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTCCGAT
1 GCCAAATCTGCGATTTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTCCGAT
* *
131282777 CTATTCTCTGCCAATACAGAGAT
66 CTACTCTCCGCCAATACAGAGAT
* **
131282800 GCTAAATCTGCGATTTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTTTGAT
1 GCCAAATCTGCGATTTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTCCGAT
*
131282865 CTGCTCTCCGCCAATACAGAGAT
66 CTACTCTCCGCCAATACAGAGAT
* * *
131282888 GCCAAATTTGCTATCTTT-GATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGC
1 GCCAAATCTGCGAT-TTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
131282943 AGGATTTACC
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
88 126 0.98
89 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (88 bp):
GCCAAATCTGCGATTTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCGATCTCCGAT
CTACTCTCCGCCAATACAGAGAT
Found at i:131282881 original size:209 final size:209
Alignment explanation
Indices: 131282516--131282916 Score: 613
Period size: 209 Copynumber: 1.9 Consensus size: 209
131282506 AGATTCGTCG
* ** * * *
131282516 TCTTCGATTTGCTCTTTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGTTCTCAGCCA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTCCGATCTATTCTCAGCCA
131282581 ATAAAGAGACGCCAAATCTGAGATCTTCAATCTGCTCTCCGCCAATACAAAGATGCCAAATCTGC
66 ATAAAGAGACGCCAAATCTGAGATCTTCAATCTGCTCTCCGCCAATACAAAGATGCCAAATCTGC
*
131282646 TATCTTCGATCTGCTCTCCACCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTCTGC
131 GATCTTCGATCTGCTCTCCACCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTCTGC
131282711 CGCCAAATCTGAGA
196 CGCCAAATCTGAGA
* *
131282725 TCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTATCTCCGATCTATTCTCTGCCA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTCCGATCTATTCTCAGCCA
* * * * * * *
131282790 ATACAGAGATGCTAAATCTGCGATTTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
66 ATAAAGAGACGCCAAATCTGAGATCTTCAATCTGCTCTCCGCCAATACAAAGATGCCAAATCTGC
* * * * *
131282855 GATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATTTGCTATCTTTGATCTGCTCTC
131 GATCTTCGATCTGCTCTCCACCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTC
131282917 CGCCAATACA
Statistics
Matches: 171, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
209 171 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (209 bp):
TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTCCGATCTATTCTCAGCCA
ATAAAGAGACGCCAAATCTGAGATCTTCAATCTGCTCTCCGCCAATACAAAGATGCCAAATCTGC
GATCTTCGATCTGCTCTCCACCAATACAGAGATGCCAAATCTGCGATCTTCGATCTGCTCTCTGC
CGCCAAATCTGAGA
Found at i:131292801 original size:47 final size:47
Alignment explanation
Indices: 131292737--131292847 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
131292727 GACATTGAGT
*
131292737 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
131292784 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
131292831 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
131292848 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:131297301 original size:130 final size:130
Alignment explanation
Indices: 131297139--131297496 Score: 391
Period size: 130 Copynumber: 2.8 Consensus size: 130
131297129 AGGAATAGTT
* * *
131297139 GATTATTTTAAACAATTGGGAAAATT-CTACCCAACACGTTAGGGCACGATTCC-CTGAATTGCC
1 GATTATTTTAAACAAATGCG-AAATTGCAACCCAACACGTTAGGGCACGATTCCGC-GAATTGCC
* ** * * *
131297202 GAATATCATGTATCGCCTTCGTTTTAAAG-ATTTTAAAAGACACGAGCAAAATTTTAAAATGATA
64 GAACATCAAATATCGCCTTCGTTTTAAAGAATTTTAAAA-ACACGAACAAAATTTTAAAAGGAAA
131297266 TTC
128 TTC
* *
131297269 GATTATTTTAAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCCA
1 GATTATTTTAAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG-CCG
* ** * * * * ** *
131297334 AACATCAAATCTCATCTTC-ATTTAAGGAATTTTAAAAATATGAATGAAATTTTGAAAGGAAATT
65 AACATCAAATATCGCCTTCGTTTTAAAGAATTTTAAAAACACGAACAAAATTTTAAAAGGAAATT
131297398 C
130 C
* * * * * *
131297399 GATTATTTTGAGCAAATACGAAATTGCAACCCAACGCGTTAGGGCACGATTCCGCGAATCGCAGA
1 GATTATTTTAAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGA
* *
131297464 ACATCAAATTTCGCCTTCGTTTTGAAGAATTTT
66 ACATCAAATATCGCCTTCGTTTTAAAGAATTTT
131297497 TGGATGAATA
Statistics
Matches: 188, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
129 22 0.12
130 141 0.75
131 25 0.13
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (130 bp):
GATTATTTTAAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGA
ACATCAAATATCGCCTTCGTTTTAAAGAATTTTAAAAACACGAACAAAATTTTAAAAGGAAATTC
Found at i:131300897 original size:50 final size:49
Alignment explanation
Indices: 131300767--131301011 Score: 312
Period size: 49 Copynumber: 5.0 Consensus size: 49
131300757 GTAGCCGAAG
* * * *
131300767 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * *
131300816 TTATCCGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
* * *
131300866 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * * *
131300916 GTTATCAGGTACGCATAGTAGCCTGC-CTTAGTACTACACATGTGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
131300965 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
131301012 TCACAATAGC
Statistics
Matches: 165, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
48 20 0.12
49 63 0.38
50 62 0.38
51 20 0.12
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:131300971 original size:99 final size:99
Alignment explanation
Indices: 131300781--131301011 Score: 340
Period size: 99 Copynumber: 2.3 Consensus size: 99
131300771 CTGGTACGCA
* * * *
131300781 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAATAGCCTGCACTTA
*
131300846 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACAATCTGATACACG
* * *
131300880 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGC-CT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAATAGCCTGCACT
* *
131300944 TAGTACTACACATGTGACC-AACAATCTGGTACACG
64 TAGTACTACACACGTGACCTAACAATCTGATACACG
131300979 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
131301012 TCACAATAGC
Statistics
Matches: 119, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
98 1 0.01
99 74 0.62
100 23 0.19
101 21 0.18
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAATAGCCTGCACTTA
GTACTACACACGTGACCTAACAATCTGATACACG
Found at i:131301686 original size:30 final size:30
Alignment explanation
Indices: 131301652--131301711 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
131301642 CTTTAATACG
131301652 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
131301682 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
131301712 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:131303410 original size:17 final size:15
Alignment explanation
Indices: 131303376--131303405 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
131303366 CTATTGATTG
131303376 GGTTTTATTTTTATT
1 GGTTTTATTTTTATT
*
131303391 GGTTTTATATTTATT
1 GGTTTTATTTTTATT
131303406 TTGGTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (15 bp):
GGTTTTATTTTTATT
Found at i:131303672 original size:15 final size:16
Alignment explanation
Indices: 131303644--131303674 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
131303634 ATTCATCTAA
131303644 AAATTAATATATAATT
1 AAATTAATATATAATT
131303660 AAATTAA-ATATAATT
1 AAATTAATATATAATT
131303675 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTAATATATAATT
Found at i:131304647 original size:8 final size:8
Alignment explanation
Indices: 131304634--131304678 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
131304624 TTATTTCTTT
131304634 TTTTTTTC
1 TTTTTTTC
131304642 -TTTTTTC
1 TTTTTTTC
131304649 TTTTTTTC
1 TTTTTTTC
131304657 --TTTTTC
1 TTTTTTTC
131304663 TTTTCTTTC
1 TTTT-TTTC
*
131304672 TATTTTT
1 TTTTTTT
131304679 GAATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
6 6 0.19
7 7 0.22
8 12 0.38
9 7 0.22
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:131304654 original size:15 final size:15
Alignment explanation
Indices: 131304634--131304678 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
131304624 TTATTTCTTT
131304634 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTC
131304649 TTTTTTTC-TTTTTC
1 TTTTTTTCTTTTTTC
131304663 TTTTCTTTCTATTTTT
1 TTTT-TTTCT-TTTTT
131304679 GAATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.37
15 12 0.44
17 5 0.19
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTTTTTTC
Found at i:131304668 original size:11 final size:11
Alignment explanation
Indices: 131304627--131304670 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
131304617 ATCTTATTTA
*
131304627 TTTCTTTTTTT
1 TTTCTTTTCTT
131304638 TTTCTTTT-TT
1 TTTCTTTTCTT
131304648 CTTT-TTTTCTT
1 -TTTCTTTTCTT
131304659 TTTCTTTTCTT
1 TTTCTTTTCTT
131304670 T
1 T
131304671 CTATTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:131304678 original size:26 final size:26
Alignment explanation
Indices: 131304627--131304678 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
131304617 ATCTTATTTA
* *
131304627 TTTCTTTTTTTTTTCTTTTTTCTTTT
1 TTTCTTTTTCTTTTCTTTTATCTTTT
131304653 TTTCTTTTTCTTTTCTTTCTAT-TTTT
1 TTTCTTTTTCTTTTCTTT-TATCTTTT
131304679 GAATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (26 bp):
TTTCTTTTTCTTTTCTTTTATCTTTT
Found at i:131305561 original size:18 final size:18
Alignment explanation
Indices: 131305507--131305567 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
131305497 ATTGTATCTA
*
131305507 ATTTTATTTATT-TATTT
1 ATTTTATGTATTATATTT
* *
131305524 AAATTTATGTTATTA-CTTT
1 -ATTTTATG-TATTATATTT
131305543 ATTTTATGTATTATATTT
1 ATTTTATGTATTATATTT
131305561 ATATTTA
1 AT-TTTA
131305568 CATTTACGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 5 0.15
18 18 0.53
19 11 0.32
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTATGTATTATATTT
Found at i:131305663 original size:20 final size:20
Alignment explanation
Indices: 131305615--131305664 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
131305605 TTTTTATATA
*
131305615 TATTATTTTCATTTGCATCT
1 TATTATTATCATTTGCATCT
131305635 TACTTATTATCATTTTGCATCT
1 TA-TTATTATCA-TTTGCATCT
131305657 T-TTATTAT
1 TATTATTAT
131305665 TATTATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 8 0.30
22 10 0.37
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTATTATCATTTGCATCT
Found at i:131305666 original size:3 final size:3
Alignment explanation
Indices: 131305658--131305720 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
131305648 TTTGCATCTT
131305658 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
131305706 TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA T
131305721 CTTTTGTCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:131305822 original size:9 final size:9
Alignment explanation
Indices: 131305808--131305865 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
131305798 TCCTTTTTAC
131305808 TTATTCTTA
1 TTATTCTTA
131305817 TTATTCTTA
1 TTATTCTTA
131305826 TT-TAT-TT-
1 TTAT-TCTTA
131305833 TTATTCTTA
1 TTATTCTTA
* *
131305842 TCATTTTTA
1 TTATTCTTA
*
131305851 TTATTTTTA
1 TTATTCTTA
131305860 TCTATT
1 T-TATT
131305866 ATTTTCCTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.07
8 6 0.15
9 28 0.68
10 4 0.10
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (9 bp):
TTATTCTTA
Found at i:131305837 original size:25 final size:24
Alignment explanation
Indices: 131305808--131305868 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
131305798 TCCTTTTTAC
131305808 TTATTCTTATTATTCTTATTTATTT
1 TTATTCTTATTATTCTTA-TTATTT
* *
131305833 TTATTCTTATCATTTTTATTATTT
1 TTATTCTTATTATTCTTATTATTT
131305857 TTA-TC-TATTATT
1 TTATTCTTATTATT
131305869 TTCCTCTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 9 0.27
25 16 0.48
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.70
Consensus pattern (24 bp):
TTATTCTTATTATTCTTATTATTT
Found at i:131305849 original size:15 final size:16
Alignment explanation
Indices: 131305807--131305852 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
131305797 TTCCTTTTTA
*
131305807 CTTATTC-TTATTATT
1 CTTATTCATTTTTATT
*
131305822 CTTATTTATTTTTATT
1 CTTATTCATTTTTATT
131305838 CTTA-TCATTTTTATT
1 CTTATTCATTTTTATT
131305853 ATTTTTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.70
Consensus pattern (16 bp):
CTTATTCATTTTTATT
Found at i:131305867 original size:16 final size:16
Alignment explanation
Indices: 131305814--131305868 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
131305804 TTACTTATTC
*
131305814 TTATTATTCTTATTTA
1 TTATTATTCTTATCTA
* *
131305830 TTTTTATTCTTATCATTT
1 TTATTATTCTTATC--TA
*
131305848 TTATTATTTTTATCTA
1 TTATTATTCTTATCTA
131305864 TTATT
1 TTATT
131305869 TTCCTCTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 18 0.58
18 13 0.42
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTCTTATCTA
Found at i:131309643 original size:135 final size:137
Alignment explanation
Indices: 131309400--131309684 Score: 520
Period size: 135 Copynumber: 2.1 Consensus size: 137
131309390 CATTGGGCCT
** *
131309400 AAGCCCATTCAGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131309465 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
131309529 CATATGC
131 CATATGC
131309536 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
131309600 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
131309665 CATATGC
131 CATATGC
131309672 AAGCCCATTTGGG
1 AAGCCCATTTGGG
131309685 GAGACTACTC
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 81 0.56
136 63 0.44
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:131311501 original size:26 final size:26
Alignment explanation
Indices: 131311460--131311543 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
131311450 CATGAAATTC
*
131311460 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
131311486 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGGAACATTTACCTAACCCA
131311512 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
131311538 TTATCA
1 TTATCA
131311544 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:131316508 original size:4 final size:4
Alignment explanation
Indices: 131316499--131316562 Score: 128
Period size: 4 Copynumber: 16.0 Consensus size: 4
131316489 AAATTACATA
131316499 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
131316547 GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT
131316563 TAGCAATAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:131317209 original size:5 final size:5
Alignment explanation
Indices: 131317201--131317240 Score: 71
Period size: 5 Copynumber: 7.8 Consensus size: 5
131317191 AATGATATTA
131317201 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AATAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
131317241 AGGCAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:131318702 original size:32 final size:30
Alignment explanation
Indices: 131318608--131318724 Score: 182
Period size: 30 Copynumber: 3.8 Consensus size: 30
131318598 ACTTTTCTCA
*
131318608 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
131318638 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
131318668 ACTAGCCACACCTTCTT-CACCACCACAACTCC
1 ACTAGCCACACCTT-TTCCACCA-C-CAACTCC
*
131318700 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
131318725 CTTGTACCTA
Statistics
Matches: 81, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
30 50 0.62
31 5 0.06
32 26 0.32
ACGTcount: A:0.26, C:0.50, G:0.03, T:0.20
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:131318709 original size:62 final size:60
Alignment explanation
Indices: 131318608--131318724 Score: 182
Period size: 62 Copynumber: 1.9 Consensus size: 60
131318598 ACTTTTCTCA
* *
131318608 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
131318668 ACTAGCCACACCTTCTT-CACCACCACAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCA-C-CAACTCCACTAGCCACACCTTCTCCACCACCA
131318725 CTTGTACCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
60 18 0.35
61 3 0.06
62 31 0.60
ACGTcount: A:0.26, C:0.50, G:0.03, T:0.20
Consensus pattern (60 bp):
ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:131320415 original size:26 final size:26
Alignment explanation
Indices: 131320386--131320438 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
131320376 TTTACAGTTT
131320386 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
131320412 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
131320438 T
1 T
131320439 GCATGTTTGA
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:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:131325861 original size:26 final size:26
Alignment explanation
Indices: 131325832--131325939 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
131325822 TGGTACAAAT
131325832 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
131325858 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
131325884 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
131325910 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
131325936 TGAT
1 TGAT
131325940 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:131329046 original size:25 final size:25
Alignment explanation
Indices: 131329017--131329067 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
131329007 AAACAATAAA
131329017 TTGTGGTTCGTTTTTCCTTTCCTTC
1 TTGTGGTTCGTTTTTCCTTTCCTTC
131329042 TTGTGGTTCGTTTTTCCTTTCCTTC
1 TTGTGGTTCGTTTTTCCTTTCCTTC
131329067 T
1 T
131329068 ATCTTACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.00, C:0.24, G:0.16, T:0.61
Consensus pattern (25 bp):
TTGTGGTTCGTTTTTCCTTTCCTTC
Found at i:131329704 original size:16 final size:17
Alignment explanation
Indices: 131329683--131329722 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
131329673 GAGGGGTTAG
131329683 TAATTTTTATATTTT-A
1 TAATTTTTATATTTTAA
131329699 TAA--TTTATATTTTAA
1 TAATTTTTATATTTTAA
131329714 TCAATTTTT
1 T-AATTTTT
131329723 TCAAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
14 10 0.50
15 2 0.10
16 5 0.25
18 3 0.15
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATTTTTATATTTTAA
Found at i:131330787 original size:45 final size:45
Alignment explanation
Indices: 131330736--131330825 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
131330726 ATGTCTATGA
*
131330736 TTCATTATGCCAACTATTAAACAACTTATTAGAAATGCACGACAG
1 TTCATTATGCCAACTATTAAACAACTTATTAGAAATGCAAGACAG
131330781 TTCATTATGCCAACTATTAAACAACTTATTAGAAATGCAAGACAG
1 TTCATTATGCCAACTATTAAACAACTTATTAGAAATGCAAGACAG
131330826 CCAATTAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (45 bp):
TTCATTATGCCAACTATTAAACAACTTATTAGAAATGCAAGACAG
Found at i:131330858 original size:2 final size:2
Alignment explanation
Indices: 131330845--131330881 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
131330835 AATGTCAACC
*
131330845 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131330882 GAAAAAGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:131332441 original size:25 final size:25
Alignment explanation
Indices: 131332406--131332465 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
131332396 AAATTAATTG
131332406 TTAATTAATAAATTTTAAATAAGAA
1 TTAATTAATAAATTTTAAATAAGAA
* * * *
131332431 TTAATTCATAATTTTTTAATAATAA
1 TTAATTAATAAATTTTAAATAAGAA
*
131332456 TTAAATAATA
1 TTAATTAATA
131332466 TAAATTGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAATTAATAAATTTTAAATAAGAA
Found at i:131335085 original size:2 final size:2
Alignment explanation
Indices: 131335078--131335104 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
131335068 AACGAATTAG
131335078 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
131335105 AAGGCTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131335630 original size:2 final size:2
Alignment explanation
Indices: 131335623--131335664 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
131335613 TTGTGAAATG
131335623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
131335665 GTAACATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:131335740 original size:22 final size:22
Alignment explanation
Indices: 131335710--131335759 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
131335700 TATTCAAAAT
*
131335710 CTAACTCAAATAATGTAGTAGG
1 CTAAATCAAATAATGTAGTAGG
131335732 CTAAATCAAATAATGTAGTAGG
1 CTAAATCAAATAATGTAGTAGG
131335754 CTAAAT
1 CTAAAT
131335760 GAATAGTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (22 bp):
CTAAATCAAATAATGTAGTAGG
Found at i:131340804 original size:21 final size:21
Alignment explanation
Indices: 131340778--131340818 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
131340768 AGACGAGCGA
* *
131340778 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
131340799 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
131340819 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Done.