Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 41
Found at i:3963666 original size:94 final size:95
Alignment explanation
Indices: 3963399--3964626 Score: 1413
Period size: 106 Copynumber: 12.1 Consensus size: 95
3963389 TGCTCGAGAG
* *
3963399 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
3963464 GGGACCGCTGGTTGTCAATAAAAAATTCCCAATTTCAGA
66 GGGACCGCTGGTTGTCAAT---AAA----CAACTTC--A
3963503 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
1 -CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
3963568 AGGGACCGCTGGTTGTCAATAAACAACTTC-
65 AGGGACCGCTGGTTGTCAATAAACAACTTCA
* * *
3963598 TCAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
3963663 GGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGA
66 GGGACCGCTGGTTGT---C-AATAA---AC-AACTTC--A
*
3963703 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
1 -CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
3963768 AGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTGCAGA
65 AGGGACCGCTGGTTGTCAATAAACAA----C---TT-C--A
3963809 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
1 -CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
3963874 AGGGACCGCTGGTTGTCAATAAACAACTTC-
65 AGGGACCGCTGGTTGTCAATAAACAACTTCA
* *
3963904 CCAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
3963969 GGGACCGCTGGTTGTCAATAAACAACTTC-
66 GGGACCGCTGGTTGTCAATAAACAACTTCA
* *
3963998 CCAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
3964063 GGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGA
66 GGGACCGCTGGTTGT---C-AATAA---AC-AACTTC--A
* *
3964103 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAATTCAACTTCACAACGA
1 -CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
3964168 AGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGA
65 AGGGACCGCTGGTTGT---C-AATAA---AC-AACTTC--A
* *
3964209 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGA
1 -CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
3964274 AGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGA
65 AGGGACCGCTGGTTGT---C-AATAA---AC-AACTTC--A
3964315 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
1 -CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
3964380 AGGGACCGCTGGTTGTCAATAAACAA-TTCCCCAA
65 AGGGACCGCTGGTTGTCAATAAACAACTT---C-A
* * *
3964414 TTTCAGAGTTTCAACTTCACAGCGAAGGATATTGTACTCCAGACAACGCAAGTTCAACTTCAAGA
1 --CCA-A-TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
3964479 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCATA
62 CGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TTC--A
3964523 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
1 -CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
3964588 AGGGACCGCTGGTTGTCAATAAACAACTTC-
65 AGGGACCGCTGGTTGTCAATAAACAACTTCA
3964618 CCAATTTCA
1 CCAATTTCA
3964627 GAGCCAATTT
Statistics
Matches: 1033, Mismatches: 42, Indels: 107
0.87 0.04 0.09
Matches are distributed among these distances:
94 258 0.25
97 4 0.00
98 24 0.02
99 4 0.00
100 3 0.00
101 4 0.00
102 107 0.10
103 2 0.00
105 84 0.08
106 536 0.52
107 1 0.00
108 3 0.00
109 1 0.00
111 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (95 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAACTTCA
Found at i:3963784 original size:106 final size:106
Alignment explanation
Indices: 3963599--3964759 Score: 1690
Period size: 106 Copynumber: 11.3 Consensus size: 106
3963589 AACAACTTCT
* *
3963599 CAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
3963664 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
*
3963705 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
3963770 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTGCAGAGC
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
3963811 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
3963876 GGACCGCTGGTTGT---C-AATAA---AC-AACTTC----C
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
* *
3963905 CAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
3963970 GGACCGCTGGTTGT---C-AATAA---AC-AACTTC----C
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
* *
3963999 CAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
3964064 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
* *
3964105 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAATTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
3964170 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
* *
3964211 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
3964276 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
3964317 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
3964382 GGACCGCTGGTTGTCAATAAACAATTCCCCAATTTCAGAG-
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
* *
3964422 ---TTTCAACTTCACAGCGAAGGATATTGTACTCCAGACAACGCAAGTTCAACTTCAAGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * * *
3964484 GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCATAGC
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
3964525 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
3964590 GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
** * * * * *
3964631 CAATTTTGACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGCTCAATTTCACGACGAA
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAA
* * * *
3964695 GGGGCGGCTGATTGTCAAC-AA-AATTT-C--A-TTCAGAGT
65 GGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
3964731 CAATTTCAACTTCACAGCGAAGGATATTG
1 CAATTTCAACTTCACAGCGAAGGATATTG
3964760 ACATCGAAAC
Statistics
Matches: 989, Mismatches: 49, Indels: 40
0.92 0.05 0.04
Matches are distributed among these distances:
94 172 0.17
97 1 0.00
98 9 0.01
99 1 0.00
100 32 0.03
101 2 0.00
102 107 0.11
103 2 0.00
104 4 0.00
105 4 0.00
106 655 0.66
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
Found at i:3963876 original size:43 final size:43
Alignment explanation
Indices: 3963815--3964064 Score: 142
Period size: 43 Copynumber: 5.4 Consensus size: 43
3963805 CAGAGCCAAT
3963815 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
3963858 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
3963909 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
3963952 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
3964003 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
3964046 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
3964065 GACCGCTGGT
Statistics
Matches: 146, Mismatches: 44, Indels: 34
0.65 0.20 0.15
Matches are distributed among these distances:
43 55 0.38
44 7 0.05
45 6 0.04
46 14 0.10
48 14 0.10
49 6 0.04
50 6 0.04
51 38 0.26
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:3963925 original size:51 final size:51
Alignment explanation
Indices: 3963858--3964021 Score: 155
Period size: 51 Copynumber: 3.4 Consensus size: 51
3963848 ACAACGCAAG
*
3963858 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *** ** * * * *
3963909 TTCAACTTCGCAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
1 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
*
3963952 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
*
3964003 TTCAACTTCGCAACGAAGG
1 TTCAACTTCACAACGAAGG
3964022 ATATTGGACT
Statistics
Matches: 81, Mismatches: 24, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
43 19 0.23
44 3 0.04
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 36 0.44
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (51 bp):
TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
Found at i:3964146 original size:400 final size:401
Alignment explanation
Indices: 3963395--3964759 Score: 2020
Period size: 400 Copynumber: 3.3 Consensus size: 401
3963385 ATATTGCTCG
3963395 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGA
3963460 CGAAGGGACCGCTGGTTGTCAATAAAAAATTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGA
66 CGAAGGGACCGCTGGTTGTCAAT---AAA----CAATTTC--A-CCAATTTCAACTTCACAGCGA
3963525 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
121 AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAA
*
3963590 ACAACTTCTCAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
186 ACAACTTCCCAATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
3963655 ACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCAC
251 ACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCAC
*
3963720 AACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
316 AGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
*
3963785 AACAAATAATTTCCTAATTGC
381 AACAAATAATTTCCTAATTTC
* *
3963806 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGA
* * *
3963871 CGAAGGGACCGCTGGTTGTCAATAAACAACTTC-CCAATTTCAACTTCGCAACGAAGGATATTGG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCACCAATTTCAACTTCACAGCGAAGGATATTGG
3963935 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
131 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
3964000 AATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
196 AATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
3964065 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
261 GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* *
3964130 ATTGGACTCCAGACAACGCAAATTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAAT
326 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAAT
3964195 TTCCTAATTTC
391 TTCCTAATTTC
* *
3964206 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGA
*
3964271 CGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCG
66 CGAAGGGACCGCTGGTTGT---C-AATAA---AC-AATTTC--A-CCAATTTCAACTTCACAGCG
3964336 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
120 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
* * *
3964401 AACAA-TTCCCCAATTTCAGAGTTTCAACTTCACAGCGAAGGATATTGTACTCCAGACAACGCAA
185 AACAACTT--CC-----CA-A-TTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAA
* * * * * *
3964465 GTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCATAGCCAATT
241 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATT
3964530 TCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
306 TCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
* * * *
3964595 GCTGGTTGTCAATAAACAACTTCCCAATTTC
371 GCTGGTTGTCAACAAATAATTTCCTAATTTC
** * * * * *
3964626 AGAGCCAATTTTGACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGCTCAATTTCACG
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGCTCAACTTCACG
* * * *
3964690 ACGAAGGGGCGGCTGATTGTCAA-CAA-AATTTCATTCAGAGTCAATTTCAACTTCACAGCGAAG
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCA--C-----CAATTTCAACTTCACAGCGAAG
3964753 GATATTG
123 GATATTG
3964760 ACATCGAAAC
Statistics
Matches: 880, Mismatches: 46, Indels: 53
0.90 0.05 0.05
Matches are distributed among these distances:
400 377 0.43
403 1 0.00
404 11 0.01
407 1 0.00
408 9 0.01
409 1 0.00
410 6 0.01
411 88 0.10
412 88 0.10
413 2 0.00
414 29 0.03
415 1 0.00
416 2 0.00
417 1 0.00
418 2 0.00
419 3 0.00
420 258 0.29
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (401 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGCTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCACCAATTTCAACTTCACAGCGAAGGATATTGG
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAAT
TTCCTAATTTC
Found at i:3966593 original size:16 final size:16
Alignment explanation
Indices: 3966572--3966609 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
3966562 GTACTTTCAA
3966572 AATTTTAATTTATTTT
1 AATTTTAATTTATTTT
3966588 AATTTTAATTTATTTT
1 AATTTTAATTTATTTT
3966604 AATTTT
1 AATTTT
3966610 TTTCATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTTTAATTTATTTT
Found at i:3967070 original size:32 final size:32
Alignment explanation
Indices: 3967029--3967094 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
3967019 ATAAGATCCT
3967029 CTACCTCCATTTTCTTCAGAACATCTTCAAAG
1 CTACCTCCATTTTCTTCAGAACATCTTCAAAG
3967061 CTACCTCCATTTTCTTCAGAACATCTTCAAAG
1 CTACCTCCATTTTCTTCAGAACATCTTCAAAG
3967093 CT
1 CT
3967095 TCCAACCTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.32, G:0.06, T:0.35
Consensus pattern (32 bp):
CTACCTCCATTTTCTTCAGAACATCTTCAAAG
Found at i:3967150 original size:69 final size:69
Alignment explanation
Indices: 3967077--3967215 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
3967067 CCATTTTCTT
3967077 CAGAACATCTTCAAAGCTTCCAACCTGCTCCAACATATCAGATCAAATGTAAGAAAAGCAAAAGC
1 CAGAACATCTTCAAAGCTTCCAACCTGCTCCAACATATCAGATCAAATGTAAGAAAAGCAAAAGC
3967142 AAAG
66 AAAG
3967146 CAGAACATCTTCAAAGCTTCCAACCTGCTCCAACATATCAGATCAAATGTAAGAAAAGCAAAAGC
1 CAGAACATCTTCAAAGCTTCCAACCTGCTCCAACATATCAGATCAAATGTAAGAAAAGCAAAAGC
3967211 AAAG
66 AAAG
3967215 C
1 C
3967216 CGAAAATTAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.45, C:0.25, G:0.13, T:0.17
Consensus pattern (69 bp):
CAGAACATCTTCAAAGCTTCCAACCTGCTCCAACATATCAGATCAAATGTAAGAAAAGCAAAAGC
AAAG
Found at i:3969812 original size:20 final size:19
Alignment explanation
Indices: 3969770--3969826 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
3969760 CTGAAATTTA
* *
3969770 TTATTAAATTAATATTTCAT
1 TTATTAAAATAATA-TTAAT
3969790 TTATTAAAATAATATTAATT
1 TTATTAAAATAATATTAA-T
*
3969810 TTATAAAAATAAT-TTAA
1 TTATTAAAATAATATTAA
3969827 GGGACTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTAAAATAATATTAAT
Found at i:3970165 original size:21 final size:23
Alignment explanation
Indices: 3970131--3970178 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
3970121 TTATTTTCAT
*
3970131 TAAAGTTATAATAATAT-TTATA
1 TAAACTTATAATAATATCTTATA
*
3970153 TAAACTTA-AATAATATCTTATC
1 TAAACTTATAATAATATCTTATA
3970175 TAAA
1 TAAA
3970179 GTACAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAACTTATAATAATATCTTATA
Found at i:3971170 original size:9 final size:9
Alignment explanation
Indices: 3971156--3971239 Score: 51
Period size: 9 Copynumber: 8.8 Consensus size: 9
3971146 GGCTGCTGGA
3971156 AACCGGTTT
1 AACCGGTTT
3971165 AACCGGTTTT
1 AACCGG-TTT
3971175 CAACCGGTTCT
1 -AACCGGTT-T
* *
3971186 GACCAGTTT
1 AACCGGTTT
* *
3971195 GACCGGTTCG
1 AACCGGTT-T
3971205 AACCGGTTT
1 AACCGGTTT
* *
3971214 GACCGGTCTG
1 AACCGGT-TT
*
3971224 AATCGGTTT
1 AACCGGTTT
*
3971233 GACCGGT
1 AACCGGT
3971240 CTGACCCGAC
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
9 26 0.46
10 24 0.42
11 7 0.12
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:3971201 original size:19 final size:19
Alignment explanation
Indices: 3971177--3971243 Score: 84
Period size: 19 Copynumber: 3.5 Consensus size: 19
3971167 CCGGTTTTCA
*
3971177 ACCGGTTCTG-ACCAGTTTG
1 ACCGG-TCTGAACCGGTTTG
3971196 ACCGGT-TCGAACCGGTTTG
1 ACCGGTCT-GAACCGGTTTG
*
3971215 ACCGGTCTGAATCGGTTTG
1 ACCGGTCTGAACCGGTTTG
3971234 ACCGGTCTGA
1 ACCGGTCTGA
3971244 CCCGACCCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.02
18 2 0.05
19 39 0.91
20 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.28
Consensus pattern (19 bp):
ACCGGTCTGAACCGGTTTG
Found at i:3971268 original size:22 final size:22
Alignment explanation
Indices: 3971242--3971284 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3971232 TGACCGGTCT
3971242 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
3971264 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
3971285 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:3972931 original size:17 final size:17
Alignment explanation
Indices: 3972897--3972933 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
3972887 GATTCTCAAA
3972897 TTAATGATATTAATTTT
1 TTAATGATATTAATTTT
*
3972914 TTAAGTGATTTTAATTTT
1 TTAA-TGATATTAATTTT
3972932 TT
1 TT
3972934 TATATGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (17 bp):
TTAATGATATTAATTTT
Found at i:3974006 original size:2 final size:2
Alignment explanation
Indices: 3973963--3973989 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3973953 AAGGAAAATA
3973963 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
3973990 CTTAAAATAT
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:3974556 original size:2 final size:2
Alignment explanation
Indices: 3974549--3974575 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3974539 TAGGGAAAAG
3974549 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
3974576 AAAGATGAAA
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:3978896 original size:28 final size:30
Alignment explanation
Indices: 3978859--3978916 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
3978849 TGTTTTATAA
3978859 AATATAAACTT-A-TAAAAAAAACTAAATT
1 AATATAAACTTAATTAAAAAAAACTAAATT
* *
3978887 AATATCAACTTAATTTAAAAAAAATTAAAT
1 AATATAAACTTAA-TTAAAAAAAACTAAAT
3978917 AACTATGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 1 0.04
31 14 0.56
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (30 bp):
AATATAAACTTAATTAAAAAAAACTAAATT
Found at i:3978980 original size:2 final size:2
Alignment explanation
Indices: 3978973--3979008 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3978963 TATCCATATG
* *
3978973 CT CT CT CT CC CT CC CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3979009 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:3982115 original size:16 final size:15
Alignment explanation
Indices: 3982090--3982119 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3982080 TTACACACGC
3982090 AAAAAAAAATAAAAT
1 AAAAAAAAATAAAAT
3982105 AAAAAAGAAATAAAA
1 AAAAAA-AAATAAAA
3982120 AAACATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (15 bp):
AAAAAAAAATAAAAT
Found at i:3982704 original size:30 final size:28
Alignment explanation
Indices: 3982630--3982704 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
3982620 TGTTGGCGAT
3982630 AATCAAAATCAAAAGAAGTATTTTTTTA
1 AATCAAAATCAAAAGAAGTATTTTTTTA
*
3982658 AATCAAAATAAAAAGAAGTATTTTTTTTAA
1 AATCAAAATCAAAAGAAGTA-TTTTTTT-A
*
3982688 AATCAAAATCAGAAGAA
1 AATCAAAATCAAAAGAA
3982705 CTTTGGGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 19 0.45
29 7 0.17
30 16 0.38
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.31
Consensus pattern (28 bp):
AATCAAAATCAAAAGAAGTATTTTTTTA
Found at i:3988272 original size:23 final size:24
Alignment explanation
Indices: 3988231--3988275 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3988221 TTGTAAGGAT
*
3988231 TATTTTAACTAATTATTTATTTTA
1 TATTTTAACAAATTATTTATTTTA
*
3988255 TATTTTAA-AAATTGTTTATTT
1 TATTTTAACAAATTATTTATTT
3988276 CACATTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTTTAACAAATTATTTATTTTA
Found at i:3989745 original size:23 final size:23
Alignment explanation
Indices: 3989678--3989745 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
3989668 CAGCTCGTAT
**
3989678 AATTGCACCGGAGTGCCACGTAG
1 AATTGCACCGGAGTGCCATATAG
*
3989701 AATTGCACCGGAGTGCCGTATAG
1 AATTGCACCGGAGTGCCATATAG
*
3989724 AATTGCACCGTAGTGCCATATA
1 AATTGCACCGGAGTGCCATATA
3989746 ATAATGTCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (23 bp):
AATTGCACCGGAGTGCCATATAG
Found at i:3989968 original size:103 final size:103
Alignment explanation
Indices: 3989789--3990061 Score: 519
Period size: 103 Copynumber: 2.7 Consensus size: 103
3989779 AGTATACTAG
* *
3989789 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAATAATACATATATGTCCTGAAGGA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGA
*
3989854 CCACATATCATTCCTTAATAATCATATACATATGCCAA
66 CCACATATCATTCCTTAAGAATCATATACATATGCCAA
3989892 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGA
3989957 CCACATATCATTCCTTAAGAATCATATACATATGCCAA
66 CCACATATCATTCCTTAAGAATCATATACATATGCCAA
3989995 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGA
3990060 CC
66 CC
3990062 GCGTAGACCC
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 167 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (103 bp):
GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGA
CCACATATCATTCCTTAAGAATCATATACATATGCCAA
Found at i:3991458 original size:22 final size:21
Alignment explanation
Indices: 3991433--3991492 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
3991423 TTCGCTTGAG
*
3991433 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
*
3991455 GGGTACCGAAT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
3991475 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
3991493 CCCAGAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.47
21 9 0.26
22 9 0.26
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:3995050 original size:21 final size:21
Alignment explanation
Indices: 3995024--3995083 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
3995014 CGTCCGAGTT
3995024 ACCCGCGACGGCCGCAATAGC
1 ACCCGCGACGGCCGCAATAGC
* *
3995045 ATCCGCGACAGCCGCAATAGC
1 ACCCGCGACGGCCGCAATAGC
*
3995066 GCCCGCGACGGCCGCAAT
1 ACCCGCGACGGCCGCAAT
3995084 CACGGTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.42, G:0.28, T:0.07
Consensus pattern (21 bp):
ACCCGCGACGGCCGCAATAGC
Found at i:4006593 original size:17 final size:16
Alignment explanation
Indices: 4006571--4006625 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
4006561 TATCTGATTA
*
4006571 CCGGGTACCCGCAAAAT
1 CCGGGTACCCG-AATAT
*
4006588 CCGGGTACCCGATTA-
1 CCGGGTACCCGAATAT
4006603 CCGGGTACCCGTAATAT
1 CCGGGTACCCG-AATAT
4006620 CCGGGT
1 CCGGGT
4006626 CGAGACACGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 11 0.33
16 5 0.15
17 17 0.52
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (16 bp):
CCGGGTACCCGAATAT
Found at i:4006602 original size:32 final size:32
Alignment explanation
Indices: 4006557--4006625 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
4006547 AACCGGGTAT
* *
4006557 CGGGTATCTGATTACCGGGTACCCGCAAAATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
* *
4006589 CGGGTACCCGATTACCGGGTACCCGTAATATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
4006621 CGGGT
1 CGGGT
4006626 CGAGACACGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.22
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTACCCGCAAAATC
Found at i:4006608 original size:15 final size:15
Alignment explanation
Indices: 4006566--4006613 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
4006556 TCGGGTATCT
4006566 GATTACCGGGTACCC
1 GATTACCGGGTACCC
**
4006581 GCAAAATCCGGGTACCC
1 G-ATTA-CCGGGTACCC
4006598 GATTACCGGGTACCC
1 GATTACCGGGTACCC
4006613 G
1 G
4006614 TAATATCCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 12 0.44
16 4 0.15
17 11 0.41
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (15 bp):
GATTACCGGGTACCC
Found at i:4006683 original size:15 final size:16
Alignment explanation
Indices: 4006661--4006705 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
4006651 ACCCGAAAGT
4006661 TCCGGGTACCCGGAAA
1 TCCGGGTACCCGGAAA
*
4006677 T-CGGGTACCCGAAAA
1 TCCGGGTACCCGGAAA
*
4006692 TCCGGGTATCCGGA
1 TCCGGGTACCCGGA
4006706 TTTGCACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.16
Consensus pattern (16 bp):
TCCGGGTACCCGGAAA
Found at i:4006699 original size:16 final size:16
Alignment explanation
Indices: 4006651--4006699 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
4006641 GAAATCGTCG
*
4006651 ACCCGAAAGTTCCGGGT
1 ACCCGAAA-ATCCGGGT
*
4006668 ACCCGGAAAT-CGGGT
1 ACCCGAAAATCCGGGT
4006683 ACCCGAAAATCCGGGT
1 ACCCGAAAATCCGGGT
4006699 A
1 A
4006700 TCCGGATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 14 0.50
16 7 0.25
17 7 0.25
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (16 bp):
ACCCGAAAATCCGGGT
Found at i:4015099 original size:22 final size:22
Alignment explanation
Indices: 4015073--4015117 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4015063 AAGGGAAAAA
*
4015073 AATGATATAATTGATTTCAATT
1 AATGATATAATAGATTTCAATT
4015095 AATGATATAATAGATTTCAATT
1 AATGATATAATAGATTTCAATT
4015117 A
1 A
4015118 GTGTCCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
AATGATATAATAGATTTCAATT
Found at i:4016386 original size:2 final size:2
Alignment explanation
Indices: 4016379--4016406 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4016369 AAATTTATTA
4016379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4016407 TTAGGGACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4017754 original size:16 final size:16
Alignment explanation
Indices: 4017721--4017754 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4017711 TTACTATTCA
* *
4017721 CGTGAATAGTGAATTT
1 CGTGAATAGTAAAATT
4017737 CGTGAATAGTAAAATT
1 CGTGAATAGTAAAATT
4017753 CG
1 CG
4017755 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTAAAATT
Found at i:4024793 original size:2 final size:2
Alignment explanation
Indices: 4024786--4024826 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4024776 ATGTGTATGC
4024786 AT AT AT AT AT 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 AT AT AT AT AT A
4024827 AGTGTTTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4026329 original size:21 final size:21
Alignment explanation
Indices: 4026303--4026348 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
4026293 GGCATCGCCA
4026303 TCTGTTGTCGTATGTTCATAC
1 TCTGTTGTCGTATGTTCATAC
*
4026324 TCTGTTGTTGTATGTTCATAC
1 TCTGTTGTCGTATGTTCATAC
4026345 TCTG
1 TCTG
4026349 AATCATGCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.17, G:0.20, T:0.50
Consensus pattern (21 bp):
TCTGTTGTCGTATGTTCATAC
Found at i:4029420 original size:16 final size:16
Alignment explanation
Indices: 4029398--4029437 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4029388 ATTTTTTTTA
*
4029398 AAAAATTTACAAAGAT
1 AAAAATTTAAAAAGAT
* *
4029414 CAAAATTAAAAAAGAT
1 AAAAATTTAAAAAGAT
4029430 AAAAATTT
1 AAAAATTT
4029438 TGTAGTAGCA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (16 bp):
AAAAATTTAAAAAGAT
Found at i:4033705 original size:20 final size:22
Alignment explanation
Indices: 4033655--4033712 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 22
4033645 ATATTGCTTC
4033655 ATGTAGTATCGATACCACATGT
1 ATGTAGTATCGATACCACATGT
*
4033677 ATG-AGTATCGATACC-C-TTT
1 ATGTAGTATCGATACCACATGT
4033696 ATGTAGTATCGATACCA
1 ATGTAGTATCGATACCA
4033713 TAGGCAGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 5 0.15
20 13 0.39
21 12 0.36
22 3 0.09
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGTAGTATCGATACCACATGT
Found at i:4033785 original size:23 final size:20
Alignment explanation
Indices: 4033723--4033774 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4033713 TAGGCAGAGT
*
4033723 TAGTACCAATACCATCAAGG
1 TAGTACCGATACCATCAAGG
4033743 TAGTACCGATACCATCAAGG
1 TAGTACCGATACCATCAAGG
4033763 TAGTACCGATAC
1 TAGTACCGATAC
4033775 TACCATGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (20 bp):
TAGTACCGATACCATCAAGG
Found at i:4034308 original size:34 final size:34
Alignment explanation
Indices: 4034244--4034308 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
4034234 AATGGGTTTT
* *
4034244 GGTTCTAGCTGAGCCTGTTAAAAGCCAGGGATAA
1 GGTTCTAGCTGAGCCTGTAAAAAACCAGGGATAA
* * *
4034278 GGTTCTAGTTTAGCCTGTAAAAAACTAGGGA
1 GGTTCTAGCTGAGCCTGTAAAAAACCAGGGA
4034309 GTTGTAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (34 bp):
GGTTCTAGCTGAGCCTGTAAAAAACCAGGGATAA
Found at i:4037751 original size:34 final size:34
Alignment explanation
Indices: 4037708--4037772 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
4037698 AAGGGGTTTT
* * *
4037708 GGTTCTAGTTGAGCCTGTTAAAATCTAGGGATAA
1 GGTTCTAGTTGAGCCCGTGAAAAACTAGGGATAA
*
4037742 GGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
1 GGTTCTAGTTGAGCCCGTGAAAAACTAGGGA
4037773 GTTGTAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (34 bp):
GGTTCTAGTTGAGCCCGTGAAAAACTAGGGATAA
Found at i:4040033 original size:20 final size:20
Alignment explanation
Indices: 4040004--4040058 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
4039994 AAATAACCAA
4040004 CAAATTCGCAACGCGGACTC
1 CAAATTCGCAACGCGGACTC
* * * **
4040024 CAATTTCGCAACTCAGTTTC
1 CAAATTCGCAACGCGGACTC
4040044 CAAATTCGCAACGCG
1 CAAATTCGCAACGCG
4040059 AATCTGTAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGGACTC
Found at i:4040074 original size:20 final size:20
Alignment explanation
Indices: 4040045--4040095 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4040035 CTCAGTTTCC
*
4040045 AAATTCGCAACGCGAATCTGT
1 AAATT-GCAACGCGAACCTGT
4040066 AAATTGCAACGCGAACCTGT
1 AAATTGCAACGCGAACCTGT
4040086 AAATTGCAAC
1 AAATTGCAAC
4040096 ACAGAAGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
AAATTGCAACGCGAACCTGT
Found at i:4040114 original size:20 final size:20
Alignment explanation
Indices: 4040086--4040134 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
4040076 GCGAACCTGT
4040086 AAATT-GCAACACAGAAGTC
1 AAATTCGCAACACAGAAGTC
4040105 AAATTCGCAACACAGAAGTC
1 AAATTCGCAACACAGAAGTC
4040125 AAATTCGCAA
1 AAATTCGCAA
4040135 AGCGCGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACACAGAAGTC
Found at i:4040705 original size:19 final size:20
Alignment explanation
Indices: 4040683--4040735 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
4040673 AAATCGCAAC
4040683 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTAAGTTTCGCGTT
*
4040702 GCGATTTTCA-TTTCGCGTT
1 GCGATTTTAAGTTTCGCGTT
4040721 GCGATTTTAAGTTTC
1 GCGATTTTAAGTTTC
4040736 AGAAACTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.47
Consensus pattern (20 bp):
GCGATTTTAAGTTTCGCGTT
Found at i:4042497 original size:21 final size:21
Alignment explanation
Indices: 4042456--4042497 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4042446 TGGTGCATGG
*
4042456 CGTGATGAGGTACGGTCTTTA
1 CGTGATGAGGTAAGGTCTTTA
*
4042477 CGTGGTGAGGTAGAGGT-TTTA
1 CGTGATGAGGTA-AGGTCTTTA
4042498 TGCGATGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.19, C:0.10, G:0.38, T:0.33
Consensus pattern (21 bp):
CGTGATGAGGTAAGGTCTTTA
Found at i:4042888 original size:41 final size:41
Alignment explanation
Indices: 4042843--4042964 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
4042833 GCCCGAAGCA
* * * * *
4042843 CCTATCATCGTTCAAGAGGCCTCTCCTATCGTTTAAGAGGT
1 CCTATCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGC
*
4042884 CCTATCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGC
1 CCTATCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGC
* * *
4042925 CCATGTCATCGTTCAAGAGGTCCCTCCCACCGTTCGAGAG
1 CC-TATCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAG
4042965 CCCAATTCAC
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 37 0.53
42 33 0.47
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (41 bp):
CCTATCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGC
Found at i:4042958 original size:21 final size:20
Alignment explanation
Indices: 4042851--4042964 Score: 86
Period size: 21 Copynumber: 5.5 Consensus size: 20
4042841 CACCTATCAT
* *
4042851 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCC-CTCCCAC
* * **
4042872 CGTTTAAGAGGTCCTATCATC
1 CGTTCAAGAGGCCCTCCCA-C
4042893 C-TTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGG-CCCTCCCAC
** *
4042913 CGTTCAAGAGGCCCATGTCAT
1 CGTTCAAGAGGCCC-TCCCAC
4042934 CGTTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGG-CCCTCCCAC
*
4042955 CGTTCGAGAG
1 CGTTCAAGAG
4042965 CCCAATTCAC
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
20 16 0.23
21 52 0.73
22 3 0.04
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (20 bp):
CGTTCAAGAGGCCCTCCCAC
Found at i:4044441 original size:18 final size:18
Alignment explanation
Indices: 4044418--4044453 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4044408 AAGCCGGTTG
4044418 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
4044436 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
4044454 CCTTTTGCTT
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:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:4045630 original size:6 final size:6
Alignment explanation
Indices: 4045607--4045651 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
4045597 AGTGGAGCCG
* * * *
4045607 AAATTC ATATTG AAATTC AAATTC AAATTG AAATTT AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAATTC AAATTC AAATTC AAA
4045652 CTCCAATTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (6 bp):
AAATTC
Found at i:4045630 original size:18 final size:18
Alignment explanation
Indices: 4045607--4045651 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4045597 AGTGGAGCCG
*
4045607 AAATTCATATTGAAATTC
1 AAATTCAAATTGAAATTC
*
4045625 AAATTCAAATTGAAATTT
1 AAATTCAAATTGAAATTC
4045643 AAATTCAAA
1 AAATTCAAA
4045652 CTCCAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (18 bp):
AAATTCAAATTGAAATTC
Found at i:4046065 original size:25 final size:25
Alignment explanation
Indices: 4046037--4046086 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4046027 CATTATTTTC
*
4046037 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4046062 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4046087 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:4046256 original size:63 final size:63
Alignment explanation
Indices: 4046157--4046285 Score: 179
Period size: 63 Copynumber: 2.0 Consensus size: 63
4046147 AAGGTACACT
* ** * * * *
4046157 TTCGCAACGCGAAAGTCAAATTTGCGTTGCGATTTTCTCGTT-TCGATTGTTGTGATAGTTAAA
1 TTCGCAACGCGAAAGTAAAATTCACGTTGCGATTTTCACGTTGT-GATTGTTGCGAAAGTCAAA
4046220 TTCGCAACGCGAAAGTAAAATTCACGTTGCGATTTTCACGTTGTGATTGTTGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTAAAATTCACGTTGCGATTTTCACGTTGTGATTGTTGCGAAAGTCAAA
4046283 TTC
1 TTC
4046286 ACATTGCGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 57 0.98
64 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (63 bp):
TTCGCAACGCGAAAGTAAAATTCACGTTGCGATTTTCACGTTGTGATTGTTGCGAAAGTCAAA
Found at i:4048861 original size:24 final size:24
Alignment explanation
Indices: 4048827--4048880 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4048817 CTGAAACATC
4048827 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
4048851 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
4048875 AACAAA
1 ATCAAA
4048881 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4049938 original size:20 final size:21
Alignment explanation
Indices: 4049887--4050019 Score: 106
Period size: 20 Copynumber: 6.6 Consensus size: 21
4049877 CAGAAATCGA
*
4049887 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAATTCAGC
4049908 GTTGCGAATTTGTAAA-TCA-C
1 GTTGCGAATTTG-AAATTCAGC
* * *
4049928 GTTGCGAATTTG-ACTTCTGT
1 GTTGCGAATTTGAAATTCAGC
4049948 GTTGCG-ATTT-ACAGATTC-GC
1 GTTGCGAATTTGA-A-ATTCAGC
4049968 GTTGCG-ATTT-ACATATTC-GC
1 GTTGCGAATTTGA-A-ATTCAGC
*
4049988 GTTGCGAATTTGAAAATC-GC
1 GTTGCGAATTTGAAATTCAGC
4050008 GTTGCGAATTTG
1 GTTGCGAATTTG
4050020 GAAAATCGCA
Statistics
Matches: 96, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.01
19 6 0.06
20 62 0.65
21 23 0.24
22 4 0.04
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCAGC
Found at i:4049971 original size:40 final size:41
Alignment explanation
Indices: 4049867--4050019 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 41
4049857 CGAAAATCCA
* *
4049867 GTTGCGAATTCAGAAATCGA-GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTACAAATC-ACGTTGCGAATTTGAAATTCAGT
** * *
4049908 GTTGCGAATTTGTAAATCACGTTGCGAATTTG-ACTTCTGT
1 GTTGCGAATTTACAAATCACGTTGCGAATTTGAAATTCAGT
* * *
4049948 GTTGCG-ATTTACAGATTCGCGTTGCG-ATTT-ACATATTC-GC
1 GTTGCGAATTTACA-AATCACGTTGCGAATTTGA-A-ATTCAGT
*
4049988 GTTGCGAATTTGA-AAATCGCGTTGCGAATTTG
1 GTTGCGAATTT-ACAAATCACGTTGCGAATTTG
4050020 GAAAATCGCA
Statistics
Matches: 91, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
39 9 0.10
40 42 0.46
41 39 0.43
42 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (41 bp):
GTTGCGAATTTACAAATCACGTTGCGAATTTGAAATTCAGT
Found at i:4050025 original size:21 final size:21
Alignment explanation
Indices: 4049858--4050101 Score: 96
Period size: 20 Copynumber: 12.0 Consensus size: 21
4049848 TTACGAATTC
**
4049858 GAAAATC-CAGTTGCGAATTCA
1 GAAAATCGC-GTTGCGAATTTG
*
4049879 G-AAATCGAGTTGCGAATTT-
1 GAAAATCGCGTTGCGAATTTG
* *
4049898 GAAATTCAGTGTTGCGAATTT-
1 GAAAATC-GCGTTGCGAATTTG
* *
4049919 GTAAATCACGTTGCGAATTT-
1 GAAAATCGCGTTGCGAATTTG
** * *
4049939 G-ACTTCTGTGTTGCG-ATTTA
1 GAAAATC-GCGTTGCGAATTTG
* * * *
4049959 CAGATTCGCGTTGCG-ATTTA
1 GAAAATCGCGTTGCGAATTTG
* * *
4049979 CATATTCGCGTTGCGAATTT-
1 GAAAATCGCGTTGCGAATTTG
4049999 GAAAATCGCGTTGCGAATTTG
1 GAAAATCGCGTTGCGAATTTG
**** *
4050020 GAAAATCGCAACACGAATTCG
1 GAAAATCGCGTTGCGAATTTG
* ***
4050041 TAAAATCGCAACGCGAATTTG
1 GAAAATCGCGTTGCGAATTTG
* * *
4050062 GAAACT-GAGTTGCGAAATTG
1 GAAAATCGCGTTGCGAATTTG
**
4050082 G-AGTTCGCGTTGCGAATTTG
1 GAAAATCGCGTTGCGAATTTG
4050102 TTGGTCATTT
Statistics
Matches: 175, Mismatches: 39, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
19 10 0.06
20 102 0.58
21 63 0.36
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (21 bp):
GAAAATCGCGTTGCGAATTTG
Found at i:4052720 original size:34 final size:34
Alignment explanation
Indices: 4052661--4052727 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
4052651 TTCTTGAGAG
*
4052661 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
4052695 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
4052728 AATTCTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:4053596 original size:3 final size:3
Alignment explanation
Indices: 4053588--4053614 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4053578 TGAAATCTTC
4053588 GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT
4053615 CGATGAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:4055793 original size:30 final size:30
Alignment explanation
Indices: 4055759--4055816 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4055749 TATAACAACT
4055759 AACTAA-TCAGCTAACTAATAAACTAACTTG
1 AACTAACTCAGCTAACTAAT-AACTAACTTG
* *
4055789 AACTAACTGAGCTAACTGATAACTAACT
1 AACTAACTCAGCTAACTAATAACTAACT
4055817 AATTACAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (30 bp):
AACTAACTCAGCTAACTAATAACTAACTTG
Found at i:4060350 original size:30 final size:30
Alignment explanation
Indices: 4060316--4060373 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4060306 TACAACAACT
4060316 AACTAA-TCAGCTAACTAATAAACTAACTTG
1 AACTAACTCAGCTAACTAAT-AACTAACTTG
* *
4060346 AACTAACTGAGCTAACTGATAACTAACT
1 AACTAACTCAGCTAACTAATAACTAACT
4060374 AATTGCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (30 bp):
AACTAACTCAGCTAACTAATAACTAACTTG
Found at i:4063667 original size:22 final size:22
Alignment explanation
Indices: 4063639--4063683 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4063629 AGGGGAAAAA
4063639 AATGATATAATAGATTTCAATT
1 AATGATATAATAGATTTCAATT
4063661 AATGATATAATAGATTTCAATT
1 AATGATATAATAGATTTCAATT
4063683 A
1 A
4063684 GTGTCCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (22 bp):
AATGATATAATAGATTTCAATT
Found at i:4065569 original size:3 final size:3
Alignment explanation
Indices: 4065561--4065614 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
4065551 AATTTTCAGA
4065561 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
4065609 GAG GAG
1 GAG GAG
4065615 AGGTTGATGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:4068303 original size:25 final size:25
Alignment explanation
Indices: 4068275--4068323 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4068265 ATCCCCGTCC
* * *
4068275 CCGTCCCCGTCCTCGTTTAAAAAAG
1 CCGTACCCGTCCCCGCTTAAAAAAG
4068300 CCGTACCCGTCCCCGCTTAAAAAA
1 CCGTACCCGTCCCCGCTTAAAAAA
4068324 CTGCGGGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.39, G:0.14, T:0.20
Consensus pattern (25 bp):
CCGTACCCGTCCCCGCTTAAAAAAG
Found at i:4069175 original size:12 final size:11
Alignment explanation
Indices: 4069148--4069190 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
4069138 ATCTAATATA
4069148 TTTA-TATTTT
1 TTTATTATTTT
4069158 TTTATTATTTT
1 TTTATTATTTT
4069169 TTCTATTATTATT
1 TT-TATTATT-TT
*
4069182 ATTATTATT
1 TTTATTATT
4069191 ATATGTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 4 0.14
11 8 0.28
12 14 0.48
13 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:4069247 original size:2 final size:2
Alignment explanation
Indices: 4069240--4069271 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4069230 TTTAACATTA
4069240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4069272 TAGTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4070456 original size:23 final size:22
Alignment explanation
Indices: 4070419--4070491 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
4070409 TTTATGCTCC
*
4070419 ACCTTTTC-TTTTCT-TTTTTA
1 ACCTTTTCACTTTCTCTTTTTA
4070439 ACCTTTTCACTTTCTCTTTATTCA
1 ACCTTTTCACTTTCTCTTT-TT-A
*
4070463 A-CTTTTCAACTTTTTCTTTTTA
1 ACCTTTTC-ACTTTCTCTTTTTA
*
4070485 ATCTTTT
1 ACCTTTT
4070492 TGACTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
20 8 0.18
21 5 0.11
22 5 0.11
23 15 0.33
24 12 0.27
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (22 bp):
ACCTTTTCACTTTCTCTTTTTA
Found at i:4070480 original size:24 final size:23
Alignment explanation
Indices: 4070427--4070504 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
4070417 CCACCTTTTC
*
4070427 TTTTCTTTTTTAACCTTTTCACT
1 TTTTCTTTTTCAACCTTTTCACT
*
4070450 TTCTCTTTATTCAA-CTTTTCAACT
1 TTTTCTTT-TTCAACCTTTTC-ACT
* *
4070474 TTTTCTTTTT-AATCTTTTTGACT
1 TTTTCTTTTTCAA-CCTTTTCACT
4070497 TTTT-TTTT
1 TTTTCTTTT
4070505 AAATATAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
22 6 0.13
23 22 0.48
24 18 0.39
ACGTcount: A:0.14, C:0.18, G:0.01, T:0.67
Consensus pattern (23 bp):
TTTTCTTTTTCAACCTTTTCACT
Found at i:4075934 original size:21 final size:22
Alignment explanation
Indices: 4075864--4075946 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
4075854 TTAGTGCAGA
* * *
4075864 GGGAATCGATACCCCTCTTGAAG
1 GGGAATCGATTCCCC-CTTTAAT
4075887 GGGAATCGATTCCCCCTTTGAAT
1 GGGAATCGATTCCCCCTTT-AAT
*
4075910 GGGAACCGATTCCCTCCTTT-A-
1 GGGAATCGATTCCC-CCTTTAAT
*
4075931 GGGAATCGATACCCCC
1 GGGAATCGATTCCCCC
4075947 ACGAGTTATG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.04
21 12 0.23
22 4 0.08
23 29 0.56
24 5 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (22 bp):
GGGAATCGATTCCCCCTTTAAT
Found at i:4078662 original size:16 final size:16
Alignment explanation
Indices: 4078641--4078677 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4078631 TTCTTGAGGG
4078641 ATTTGTAAGGTTACTC
1 ATTTGTAAGGTTACTC
4078657 ATTTGTAAGGTTACTC
1 ATTTGTAAGGTTACTC
4078673 -TTTGT
1 ATTTGT
4078678 CCTCAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.49
Consensus pattern (16 bp):
ATTTGTAAGGTTACTC
Found at i:4078962 original size:23 final size:22
Alignment explanation
Indices: 4078932--4079015 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 22
4078922 TCCACCTTTT
4078932 CTTTTCTTTTTTAACTTTTTAA
1 CTTTTCTTTTTTAACTTTTTAA
* *
4078954 CTTTCTCTTTATTCAACTTTTCAA
1 CTTT-TCTTT-TTTAACTTTTTAA
*
4078978 CTTTT-TGTTTTTAATCTTTTTGA
1 CTTTTCT-TTTTTAA-CTTTTTAA
*
4079001 CTTTTTTATTTTTAA
1 CTTTTCT-TTTTTAA
4079016 ATATAAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
22 9 0.18
23 19 0.37
24 23 0.45
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.65
Consensus pattern (22 bp):
CTTTTCTTTTTTAACTTTTTAA
Found at i:4079126 original size:33 final size:33
Alignment explanation
Indices: 4079089--4079152 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
4079079 TTCTCTTTTT
4079089 ATTATTTTATT-ATT-TTATTTATTTCTTTAAAAA
1 ATTATTTT-TTCATTGTT-TTTATTTCTTTAAAAA
*
4079122 ATTATTTTTTCATTGTTTTTTTTTCTTTAAA
1 ATTATTTTTTCATTGTTTTTATTTCTTTAAA
4079153 CTTGATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 2 0.07
33 24 0.86
34 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (33 bp):
ATTATTTTTTCATTGTTTTTATTTCTTTAAAAA
Found at i:4084405 original size:23 final size:23
Alignment explanation
Indices: 4084379--4084433 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
4084369 GAAATCTATA
*
4084379 CCCCTCTTGAAGGGGAATCGATTC
1 CCCCT-TTGAAGGGGAACCGATTC
*
4084403 CCCCTTTGAATGGGAACCGATTC
1 CCCCTTTGAAGGGGAACCGATTC
4084426 CCTCCTTT
1 CC-CCTTT
4084434 AGGGAATCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.18, C:0.33, G:0.20, T:0.29
Consensus pattern (23 bp):
CCCCTTTGAAGGGGAACCGATTC
Found at i:4084438 original size:21 final size:22
Alignment explanation
Indices: 4084391--4084450 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
4084381 CCTCTTGAAG
4084391 GGGAATCGATTCCCCCTTTGAAT
1 GGGAATCGATTCCCCCTTT-AAT
*
4084414 GGGAACCGATTCCCTCCTTT-A-
1 GGGAATCGATTCCC-CCTTTAAT
*
4084435 GGGAATCGATACCCCC
1 GGGAATCGATTCCCCC
4084451 ACGAGTTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 2 0.06
21 12 0.36
22 1 0.03
23 13 0.39
24 5 0.15
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (22 bp):
GGGAATCGATTCCCCCTTTAAT
Found at i:4086593 original size:13 final size:11
Alignment explanation
Indices: 4086562--4086586 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4086552 AGTTTTAAAC
4086562 TTAAAATAATT
1 TTAAAATAATT
4086573 TTAAAATAATT
1 TTAAAATAATT
4086584 TTA
1 TTA
4086587 CAAAATATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAAATAATT
Found at i:4087548 original size:24 final size:22
Alignment explanation
Indices: 4087473--4087547 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 22
4087463 CCACCTTTTT
*
4087473 TTTTTCTTTTTTAACTTTTTCAC
1 TTTTTC-TTTTTAACTTTTTAAC
* *
4087496 TTTCTCTTTATTCAACTTTTCAAC
1 TTTTTCTTT-TT-AACTTTTTAAC
*
4087520 TTTTTCTTTTTAATCTTTTTGAC
1 TTTTTCTTTTTAA-CTTTTTAAC
4087543 TTTTT
1 TTTTT
4087548 TTATTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 5 0.12
23 21 0.49
24 17 0.40
ACGTcount: A:0.15, C:0.17, G:0.01, T:0.67
Consensus pattern (22 bp):
TTTTTCTTTTTAACTTTTTAAC
Found at i:4090499 original size:99 final size:99
Alignment explanation
Indices: 4090320--4090518 Score: 303
Period size: 99 Copynumber: 2.0 Consensus size: 99
4090310 TTATAATATT
*
4090320 ATATATATACAATAAAGATTGAGTTGTCCTTCTAGAGCAATTGGTTAAACACCCTGGATTTATGG
1 ATATATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCTGGATTTATGG
*
4090385 ATAAGATTCAACTAGCCTGGTAAAGGTGATTATA
66 ATAAGATTCAACTAGCCTGATAAAGGTGATTATA
* * * *
4090419 ATATCTATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAAC-GCCTCGGCTTTAT
1 ATATATATACAATAAAGATTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACACCCT-GGATTTAT
*
4090482 GGATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
64 GGATAAGATTCAACTAGCCTGATAAAGGTGATTATA
4090518 A
1 A
4090519 CATTAAGTTG
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
98 4 0.04
99 87 0.96
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (99 bp):
ATATATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCTGGATTTATGG
ATAAGATTCAACTAGCCTGATAAAGGTGATTATA
Found at i:4091618 original size:64 final size:64
Alignment explanation
Indices: 4091324--4091612 Score: 497
Period size: 64 Copynumber: 4.5 Consensus size: 64
4091314 TACAGCTTTT
* *
4091324 AGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
*
4091388 AGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
* * *
4091452 AGAGTCAATTTCAATTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
* * *
4091516 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
4091580 AGAGTCAATTTCAACTTCACAGCGAAGGATATT
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATT
4091613 TAACTCGAAA
Statistics
Matches: 214, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 214 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
Found at i:4091776 original size:113 final size:113
Alignment explanation
Indices: 4091636--4092587 Score: 1142
Period size: 113 Copynumber: 8.3 Consensus size: 113
4091626 TATAACTCTG
* * *
4091636 GATTGGATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCATAACGAAGGAGCT
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* * *
4091701 ATCCACGATTTTAACTTCACGACGATGGAAATCGTGCCCACAACCAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* * *
4091749 GATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACGACGAATGAGCC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* *
4091814 ATCCATGATTTCAATTTCACGACGAAGGATATCGTGCCCACAACCAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* *
4091862 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAATGG-GC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA-GGAGC
* * *
4091926 CATCCACGATTTCAACTTCACGATGAAAGATATCATGCCCACAACCAAA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* *
4091975 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTTAAAGCTCAACTTCACAACGAATGAGCC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* * * *
4092040 ATCCATGATTTCAACTTCACGACGAATGATATTGTGCCCACAACTAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* * * * * * * * *
4092088 TATTGGATTTCAAATTCACAACGAATGATATCCAATTTAACGTTCAACTTCACAACGAATGAGTC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* * * *
4092153 ATCCACAATTTTAACTTCACGACGAAGGATATCGTGCACATAACCAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* * * * * *
4092201 GATTGGATTTCAACTTAATGATGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAATGG-GT
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA-GGAGC
* * * * *
4092265 CATCCACGATTTCAAATTCACGACAAAGGATATCATGCACACTTA-CACAA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAC-AACCA-AA
* * * *
4092315 TATTAGATTTTAACTTCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGG-GC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA-GGAGC
* * *
4092379 CATCCACGATTTCAACTTCACGACGAAGGATATCATGCCTACTTA-CACAA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAC-AACCA-AA
** * * * *
4092429 GATTGGATTTCAACTTCACGATAAAGGATATACAATTCAAGGCTCAACTTCATAACGAA-GAGGT
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGA-GC
* *
4092493 CATCCACGATTTCAACTTCACGACGAAGGATGTCGTGCCCATAAGCAGCATCCATCTCTA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCC---A-CA--A-CCA----AA
4092553 GATTGGATTTCAACTTCACGACGAAGGATATCCAA
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAA
4092588 CTTAAGGAAG
Statistics
Matches: 726, Mismatches: 95, Indels: 25
0.86 0.11 0.03
Matches are distributed among these distances:
112 2 0.00
113 490 0.67
114 195 0.27
117 1 0.00
118 1 0.00
119 1 0.00
121 2 0.00
124 34 0.05
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.25
Consensus pattern (113 bp):
GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
Found at i:4092731 original size:80 final size:81
Alignment explanation
Indices: 4092594--4093020 Score: 500
Period size: 80 Copynumber: 5.2 Consensus size: 81
4092584 CCAACTTAAG
* * *
4092594 GAAGGGCTATCTGCCAATAAAAGACCTTCTAGTTCAATTACACTCAGCTCAAAGGCACATCAATT
1 GAAGGGCTATCTGCC---AAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTT
*
4092659 GCAGCATAGCTCAAGGTAA
63 GCAGCATAGCTCAAGGCAA
4092678 GAAGGGCTATCTGCC-AAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
1 GAAGGGCTATCTGCCAAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
* *
4092742 GTATAGCTCAAAGCAA
66 GCATAGCTCAAGGCAA
* * *
4092758 GAAGGGCTATGTGCC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTGCA
1 GAAGGGCTATCTGCCAAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
* *
4092822 GCATAACTCAAGGCGA
66 GCATAGCTCAAGGCAA
* * *
4092838 GAAGGGCTATCTACCAACAAAAAACCTTCAAGTTCGATTACACTCAGCTCAAAGGCATATCATTT
1 GAAGGGCTATCT-GC--CAAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTT
* *
4092903 ACAGCATAGCTCAAGGCGA
63 GCAGCATAGCTCAAGGCAA
* * * * * *
4092922 GAAGGGATATCTGCCATAAAAAGACCTTCGAGTTCGATTACATTCAAG-TTAGAGGCAAATCAAA
1 GAAGGGCTATCTGCC---AAAAGACCTTCAAGTTCGATTACACTC-AGCTCAAAGGCACATC--A
* *
4092986 TTTACAGCATAGCTTAAGGCAA
60 TTTGCAGCATAGCTCAAGGCAA
*
4093008 GAAGGGCTGTCTG
1 GAAGGGCTATCTG
4093021 TCAACAAAAT
Statistics
Matches: 300, Mismatches: 33, Indels: 18
0.85 0.09 0.05
Matches are distributed among these distances:
80 143 0.48
81 2 0.01
83 2 0.01
84 119 0.40
85 2 0.01
86 32 0.11
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (81 bp):
GAAGGGCTATCTGCCAAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
GCATAGCTCAAGGCAA
Found at i:4094463 original size:13 final size:11
Alignment explanation
Indices: 4094432--4094456 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4094422 AGTTTTAAAC
4094432 TTAAAATAATT
1 TTAAAATAATT
4094443 TTAAAATAATT
1 TTAAAATAATT
4094454 TTA
1 TTA
4094457 CAAAATATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAAATAATT
Found at i:4095383 original size:24 final size:22
Alignment explanation
Indices: 4095343--4095400 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
4095333 TCCACCTTTT
*
4095343 CTTTTCTTTTTTAACTTTTTC-A
1 CTTTTCTTTTTCAAC-TTTTCAA
4095365 CTTTCTCTTTATTCAACTTTTCAA
1 CTTT-TCTTT-TTCAACTTTTCAA
4095389 CTTTTTCTTTTT
1 C-TTTTCTTTTT
4095401 AATTTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.13
23 12 0.39
24 12 0.39
25 3 0.10
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (22 bp):
CTTTTCTTTTTCAACTTTTCAA
Found at i:4098316 original size:99 final size:99
Alignment explanation
Indices: 4098201--4098393 Score: 291
Period size: 99 Copynumber: 1.9 Consensus size: 99
4098191 TATTATATAC
* *
4098201 ATACAATAAAGATTGAGTTATCCTTCT-AGAGCAATTGGTTAAACA-CTCTGGATTTATGGATAA
1 ATACAATAAAGATTGAGTTATCCCTCTAAG-GCAATTGGTTAAACACCTC-AGATTTATGGATAA
*
4098264 GATTCAACTAGCCTGGTAAAGGTGATTATAATATCT
64 GATTCAACTAGCCTGATAAAGGTGATTATAATATCT
* * *
4098300 ATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACACCTCAGCTTTATGGATAAGA
1 ATACAATAAAGATTGAGTTATCCCTCTAAGGCAATTGGTTAAACACCTCAGATTTATGGATAAGA
*
4098365 TTCAGCTAGCCTGATAAAGGTGATTATAA
66 TTCAACTAGCCTGATAAAGGTGATTATAA
4098394 CATTAAGTTG
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 80 0.94
100 5 0.06
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (99 bp):
ATACAATAAAGATTGAGTTATCCCTCTAAGGCAATTGGTTAAACACCTCAGATTTATGGATAAGA
TTCAACTAGCCTGATAAAGGTGATTATAATATCT
Found at i:4099275 original size:63 final size:64
Alignment explanation
Indices: 4099175--4099398 Score: 378
Period size: 64 Copynumber: 3.5 Consensus size: 64
4099165 TGCAGCTTTT
* *
4099175 AGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCAACAAACAACTTTTCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
* *
4099239 AGAGTCAA-TTCAATTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
* * *
4099302 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
4099366 AGAGTCAATTTCAACTTCACAACGAAGGATATT
1 AGAGTCAATTTCAACTTCACAACGAAGGATATT
4099399 TAACTCGAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
63 59 0.39
64 92 0.61
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
Found at i:4099562 original size:113 final size:113
Alignment explanation
Indices: 4099422--4100319 Score: 1241
Period size: 113 Copynumber: 7.9 Consensus size: 113
4099412 TATAACTCTG
* * * *
4099422 GATTGGATTTTAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCATAACGAAGGAGCT
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* *
4099487 ATCCACGATTTTAACTTCACGACGAAGGAAATCGTGCCCACAACCAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* * *
4099535 GATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACGACGAATGAGCC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* * *
4099600 ATCCATGATTTCAATTTCACGATGAAGGATATCGTGCCCACAACCAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
*
4099648 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGG-GC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA-GGAGC
* *
4099712 CATCCACGATTTCAACTTCATGATGAAGGATATCGTGCCCACAACCAAA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* *
4099761 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTTAAAGCTCAACTTCACAACGAATGAGCC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* *
4099826 ATCCATGATTTCAACTTCACGACGAATGATATCGTGCCCACAACCAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* * * * * *
4099874 GATTGGATTTCAACTTCACAACGAATGATATCCAATTTAACGCTCAACTTCACAACGAATGAGTC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
* *
4099939 ATCCACGATTTTAACTTCACGACGAAGGATATCGTGCCCATAACCAAA
66 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
* * * *
4099987 GATTGGATTTCAACTTCATGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAATGG-GT
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA-GGAGC
* * * * *
4100051 CATCCACGATTTCAAATTCACGACAAAGGATATCATGCACACTTA-CACAA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAC-AACCA-AA
* * * *
4100101 TATTAGATTTTAACTTCATGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGG-GC
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA-GGAGC
* * *
4100165 CATCCACGATTTCAACTTCACGACGAAGGATATCATGCCTACTTA-CACAA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCAC-AACCA-AA
** * * *
4100215 GATTGGATTTCAACTTCACGATAAAGGATATACAATTCAAGGCTCAACTTCACAACGAA-GAGGT
1 GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGA-GC
*
4100279 CATCCACGATTTCAACTTCACGACGAAGGATGTCGTGCCCA
65 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCA
4100320 TAAGAAGCAT
Statistics
Matches: 708, Mismatches: 70, Indels: 13
0.90 0.09 0.02
Matches are distributed among these distances:
112 2 0.00
113 507 0.72
114 199 0.28
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (113 bp):
GATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCC
ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAA
Found at i:4100686 original size:84 final size:83
Alignment explanation
Indices: 4100378--4100801 Score: 450
Period size: 80 Copynumber: 5.1 Consensus size: 83
4100368 ATCCAACTCA
* * *
4100378 AAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCAT
1 AAGAAGGGCTATAT-CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
* *
4100443 TTGTAGCATAGCTCAAGGT
65 TTGCAGCATAGCTCAAGGC
** *
4100462 AAGAAGGG-T-TAT-CTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATT
1 AAGAAGGGCTATATCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATT
** *
4100524 TGCAATATAGCTCAAAGC
66 TGCAGCATAGCTCAAGGC
* * * *
4100542 AAGAAGGGCTATGTGC--C-AAATACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATT
1 AAGAAGGGCTATATCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATT
*
4100604 TGCAGCATAACTCAAGGC
66 TGCAGCATAGCTCAAGGC
* * * *
4100622 GAGAAGGGCTATATACCAACAAAAAACCTTCAAGTTCGATTACACTCAGCTCAAAGGCATATCAT
1 AAGAAGGGCTATAT-CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
*
4100687 TTACAGCATAGCTCAAGGC
65 TTGCAGCATAGCTCAAGGC
* * * * * * * *
4100706 GAGAAGGGATATCTGCCATA-AAAAGACCTTCGAGTTTGATTACATTCAAG-TTAGAGGCAAATC
1 AAGAAGGGCTATAT-CCA-ACAAAAGACCTTCGAGTTCGATTACACTC-AGCTCAAAGGCACATC
* *
4100769 AAATTTACAGCATAGCTTAAGGC
63 --ATTTGCAGCATAGCTCAAGGC
4100792 AAGAAGGGCT
1 AAGAAGGGCT
4100802 GTCTGTCAAC
Statistics
Matches: 289, Mismatches: 40, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
80 135 0.47
81 3 0.01
82 4 0.01
83 3 0.01
84 113 0.39
85 3 0.01
86 28 0.10
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (83 bp):
AAGAAGGGCTATATCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATT
TGCAGCATAGCTCAAGGC
Found at i:4100688 original size:164 final size:160
Alignment explanation
Indices: 4100403--4100723 Score: 435
Period size: 164 Copynumber: 2.0 Consensus size: 160
4100393 CCAATAAAAG
* * * *
4100403 ACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGTAAGAAG
1 ACCTTCGAGTTCAATTACACTCAGCTCAAAAGCACATCATTTGCAGCATAACTCAAGGCAAGAAG
** * * * * *
4100468 GGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAATATA
66 GGTTATCAACAAAAAACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATA
* *
4100533 GCTCAAAGCAAGAAGGGCTATGTGCCAAAT
131 GCTCAAAGCAAGAAGGGATATCTGCCAAAT
* *
4100563 ACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
1 ACCTTCGAGTTCAATTACACTCAGCTCAAAAGCACATCATTTGCAGCATAACTCAAGGCAAGAAG
* *
4100628 GGCTATATACCAACAAAAAACCTTCAAGTTCGATTACACTCAGCTCAAAGGCATATCATTTACAG
66 GG-T-TAT--CAACAAAAAACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAA
* *
4100693 CATAGCTCAAGGCGAGAAGGGATATCTGCCA
127 CATAGCTCAAAGCAAGAAGGGATATCTGCCA
4100724 TAAAAAGACC
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
160 61 0.44
161 1 0.01
162 3 0.02
164 73 0.53
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (160 bp):
ACCTTCGAGTTCAATTACACTCAGCTCAAAAGCACATCATTTGCAGCATAACTCAAGGCAAGAAG
GGTTATCAACAAAAAACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATA
GCTCAAAGCAAGAAGGGATATCTGCCAAAT
Found at i:4102780 original size:24 final size:23
Alignment explanation
Indices: 4102740--4102807 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
4102730 CTCCACGTTT
*
4102740 TTTTTACTTTTTTAACTATTT-AAC
1 TTTTT-CTTTTTCAACT-TTTCAAC
*
4102764 TTTTTCTTTATTCAACTTTTCAAT
1 TTTTTCTTT-TTCAACTTTTCAAC
*
4102788 TTTTTCTTTTTAAAACTTTT
1 TTTTTCTTTTT-CAACTTTT
4102808 TGTTTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 9 0.24
24 29 0.76
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTCTTTTTCAACTTTTCAAC
Found at i:4103123 original size:12 final size:12
Alignment explanation
Indices: 4103108--4103137 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4103098 TTTTTTTTTA
4103108 AATTTTAATTTC
1 AATTTTAATTTC
*
4103120 AATTTCAATTTC
1 AATTTTAATTTC
4103132 AATTTT
1 AATTTT
4103138 TCGTAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTTAATTTC
Found at i:4108994 original size:136 final size:131
Alignment explanation
Indices: 4108762--4109010 Score: 295
Period size: 137 Copynumber: 1.9 Consensus size: 131
4108752 TAACTTTAAG
* * ** *
4108762 AAAATATATTAATTTTATATTTATAAATAAGATATTTATTTTTTTTAAATACCAGAATAGGACAT
1 AAAATAGATTAATTATATATTTATAAATAAGATATTTATTTTTTAAAAATACCAGAAAAGGACAT
* * * **
4108827 CTAGTTGCTTTAAGACTATCCTTTTCTTAATATTAAAAATAAATAAATATTAAAACATTTTTCTA
66 CCAGTTACGTTAAGACTATCAATTTCTTAATATT-AAAATAAATAAATATTAAAACATTTTTCTA
4108892 AA
130 AA
* *
4108894 AAAATAGATTAATATATATAATTTATAAAAATATGATATTTATTTATTTAAAAATATCAGAAAAG
1 AAAATAGATTAAT-TATAT-ATTTAT--AAATAAGATATTTATTT-TTTAAAAATACCAGAAAAG
* *
4108959 GACATCCAGTTACGTTAAGA-T-TGCAATTTCTTAATATTGAAATAAGTAAATA
61 GACATCCAGTTACGTTAAGACTAT-CAATTTCTTAATATTAAAATAAATAAATA
4109011 CTATTATTAA
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
132 12 0.12
133 4 0.04
134 6 0.06
135 13 0.13
136 30 0.31
137 32 0.33
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (131 bp):
AAAATAGATTAATTATATATTTATAAATAAGATATTTATTTTTTAAAAATACCAGAAAAGGACAT
CCAGTTACGTTAAGACTATCAATTTCTTAATATTAAAATAAATAAATATTAAAACATTTTTCTAA
A
Found at i:4110690 original size:3 final size:3
Alignment explanation
Indices: 4110682--4110722 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
4110672 ATTTTTTATT
*
4110682 TAA TAA TAA T-A TATA TAA TAT TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
4110723 TGATGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:4111145 original size:74 final size:74
Alignment explanation
Indices: 4111009--4111266 Score: 408
Period size: 74 Copynumber: 3.5 Consensus size: 74
4110999 GAGGTCTTAT
* * * *
4111009 CATCTTGCACTATAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAATCTCCCGAAGGCT
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
4111074 TTTTGAAAA
66 TTTTGAAAA
* * *
4111083 CATCATGCACTGTAGGTCTTACAGATGACTCGGAGGCTTAAAATATCAAAAAGCTCCTGAAGGCT
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
4111148 TTTTGAAAA
66 TTTTGAAAA
4111157 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
4111222 TTTTGAAAA
66 TTTTGAAAA
* * * * *
4111231 CATCCTGCACTGCAGGTCTTACGGATGGCCCTGAGG
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGG
4111267 TCTTATCATC
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 169 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (74 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTGAAAA
Found at i:4111373 original size:116 final size:116
Alignment explanation
Indices: 4111157--4111413 Score: 372
Period size: 116 Copynumber: 2.2 Consensus size: 116
4111147 TTTTTGAAAA
4111157 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
* * *
4111222 TTTTGAAAACATCCTGCACTGCAGGTCTTACGGATGGCCCTGAGGTCTTAT
66 TTTTAAAAACATCCTGCACTGCAGGTCTTACGGATGACCCAGAGGTCTTAT
* * * * *
4111273 CATCTTGCATTGTAGGTCTTACAGATGACCCTGAGGCTTTAAATATCAAATAGCTCTCGAAGGCT
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
* * *
4111338 TTTTAAAAACATCCTGCACTGTAGGTCTTATGGATGACCCAGAGG-CTTTAAAAA
66 TTTTAAAAACATCCTGCACTGCAGGTCTTACGGATGACCCAGAGGTC-TT---AT
4111392 CATCATGCACTGTAGGTCTTAC
1 CATCATGCACTGTAGGTCTTAC
4111414 TAATGTGGGA
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
115 1 0.01
116 102 0.82
119 21 0.17
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (116 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTAAAAACATCCTGCACTGCAGGTCTTACGGATGACCCAGAGGTCTTAT
Found at i:4111385 original size:264 final size:265
Alignment explanation
Indices: 4110892--4111390 Score: 770
Period size: 264 Copynumber: 1.9 Consensus size: 265
4110882 GAGGTCTTAT
* * *
4110892 CATCTTGCACTGTAGGTCTTAGAGATGACCCAGAGGCTTTGAAAATATCAAAAAGCTCCTGAAGG
1 CATCATGCACTGTAGGTCTTACAGATGACCCAGAGGCTTT-AAAATATCAAAAAGCTCCCGAAGG
* ** *
4110957 TTTTTTTGAACATCCTGCACTGTGGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTAT
65 TCTTTTTGAACATCCTGCACTGCAGGTCTTACGGATGGCCCTGAGGTCTTATCATCTTGCACTAT
* *
4111022 AGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAATCTCCCGAAGGCTTTTTGAAAACATC
130 AGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATC
* *
4111087 ATGCACTGTAGGTCTTACAGATGACTCGGAGGC-TTAAAATATCAAAAAGCTCCTGAAGGCTTTT
195 ATGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAAATATCAAAAAGCTCCTGAAGGCTTTT
4111151 TGAAAA
260 TGAAAA
*
4111157 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTT-AAATATCAAAAAGCTCCCGAAGG-
1 CATCATGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAAATATCAAAAAGCTCCCGAAGGT
* *
4111220 CTTTTTGAAAACATCCTGCACTGCAGGTCTTACGGATGGCCCTGAGGTCTTATCATCTTGCATTG
66 CTTTTTG--AACATCCTGCACTGCAGGTCTTACGGATGGCCCTGAGGTCTTATCATCTTGCACTA
* * *
4111285 TAGGTCTTACAGATGACCCTGAGGCTTTAAATATCAAATAGCTCTCGAAGGCTTTTTAAAAACAT
129 TAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTAAAAACAT
* **
4111350 CCTGCACTGTAGGTCTTATGGATGACCCAGAGGCTTTAAAA
194 CATGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAAA
4111391 ACATCATGCA
Statistics
Matches: 211, Mismatches: 20, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
262 6 0.03
263 22 0.10
264 140 0.66
265 43 0.20
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (265 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAAATATCAAAAAGCTCCCGAAGGT
CTTTTTGAACATCCTGCACTGCAGGTCTTACGGATGGCCCTGAGGTCTTATCATCTTGCACTATA
GGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCA
TGCACTGTAGGTCTTACAGATGACCCAGAGGCTTTAAAATATCAAAAAGCTCCTGAAGGCTTTTT
GAAAA
Found at i:4112138 original size:22 final size:22
Alignment explanation
Indices: 4112083--4112139 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
4112073 AATAAAGCTT
*
4112083 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAGAGAGAATATA
*
4112105 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATATA
*
4112127 TCTTCTTTGAAGA
1 TCATCTTTGAAGA
4112140 ATGTAGATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATATA
Found at i:4112598 original size:54 final size:54
Alignment explanation
Indices: 4112498--4112608 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
4112488 AGAATAACTG
* *** * *
4112498 GTTCGTAAAACATTTGACAACACATTCACCATTTCATGTGGTTTCTGCCCTGAT
1 GTTCGTAAAACATTTAACAACACATTCACCATTTCATGTAACTTCTGCACAGAT
* *
4112552 GTTCGTAAAGCATTTAACAACACATTCATCC-TTTCCTGTAACTTCTGCACAGAT
1 GTTCGTAAAACATTTAACAACACATTCA-CCATTTCATGTAACTTCTGCACAGAT
4112606 GTT
1 GTT
4112609 TTGGTCAGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 46 0.96
55 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (54 bp):
GTTCGTAAAACATTTAACAACACATTCACCATTTCATGTAACTTCTGCACAGAT
Found at i:4113603 original size:75 final size:74
Alignment explanation
Indices: 4113444--4113767 Score: 292
Period size: 75 Copynumber: 4.4 Consensus size: 74
4113434 CATAATGATG
* * * * * * *
4113444 TGGGCCTTCAGCATGCCCCAACATTTACTGATATGAACGTTCAAAAT--G---TTATTTCAATTT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCT-ATACGAACATTCAAAATGCGCCAATATTCCAATTT
4113504 CTGATTGAAA
65 CTGATTGAAA
*
4113514 TGGGCTTTCAGCATGCCCCAGCATTTGCTAATAC-AGACGTTCAAAATGCGCCAATATTCCAATT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCT-ATACGA-ACATTCAAAATGCGCCAATATTCCAATT
*
4113578 TCTGGTTGAAA
64 TCTGATTGAAA
* **
4113589 TGGGCTTTCAGCATGCCCCAGCATTTG-T-TGACGTGAACATTCAAAATGCGTCAATATTCCTGT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCTAT-AC--GAACATTCAAAATGCGCCAATATTCCAAT
*
4113652 TTATGATTGAAA
63 TTCTGATTGAAA
* * * *
4113664 TGGGCTTTCAGCATACCCCAACATTTACTGATACGAACATTCAAAATGCGTCC-ACATT-C-ATG
1 TGGGCTTTCAGCATGCCCCAGCATTTGCT-ATACGAACATTCAAAATGCG-CCAATATTCCAAT-
**
4113726 ATTCTGATTGTTA
63 -TTCTGATTGAAA
* *
4113739 TGAGCTTTCAGTATGCCCCAGCATTTGCT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCT
4113768 TTTTGTTGAC
Statistics
Matches: 210, Mismatches: 28, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
69 1 0.00
70 40 0.19
72 2 0.01
73 3 0.01
74 2 0.01
75 156 0.74
76 3 0.01
77 2 0.01
78 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (74 bp):
TGGGCTTTCAGCATGCCCCAGCATTTGCTATACGAACATTCAAAATGCGCCAATATTCCAATTTC
TGATTGAAA
Found at i:4116870 original size:73 final size:72
Alignment explanation
Indices: 4116704--4116910 Score: 333
Period size: 73 Copynumber: 2.9 Consensus size: 72
4116694 TATAATAGGT
* * *
4116704 TAGCTAAATATTATCTATAAAGTTGGGGCTATTAACAAATTGCTTTAGGGGGACAACTCAAGCAT
1 TAGCTAAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAACTCAAGCAT
4116769 AAAAAAC
66 AAAAAAC
*
4116776 TAGCTGAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAAACTCAAGCA
1 TAGCTAAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGAC-AACTCAAGCA
*
4116841 TAACAAAC
65 TAAAAAAC
* * *
4116849 TAGCTTAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTATGGGGATAACTCAAG
1 TAGCTAAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAACTCAAG
4116911 GATTATTATA
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
72 58 0.46
73 68 0.54
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (72 bp):
TAGCTAAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAACTCAAGCAT
AAAAAAC
Found at i:4121854 original size:31 final size:30
Alignment explanation
Indices: 4121805--4121864 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
4121795 TTATATAATC
*
4121805 TATGTGATACAATGATGGAACATGATATGTT
1 TATGTGATACAAGGATGGAA-ATGATATGTT
*
4121836 TATGTGATA-AAGGTATGGAAATTATATGT
1 TATGTGATACAAGG-ATGGAAATGATATGT
4121865 CTATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
TATGTGATACAAGGATGGAAATGATATGTT
Found at i:4128766 original size:31 final size:30
Alignment explanation
Indices: 4128717--4128776 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
4128707 TTATATAAGC
*
4128717 TATGTGATACAATGATGGAACATGATATGTT
1 TATGTGATACAAGGATGGAA-ATGATATGTT
*
4128748 TATGTGATA-AAGGTATGGAAATTATATGT
1 TATGTGATACAAGG-ATGGAAATGATATGT
4128777 CTATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
TATGTGATACAAGGATGGAAATGATATGTT
Found at i:4131229 original size:22 final size:22
Alignment explanation
Indices: 4131204--4131246 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
4131194 ATAGATTAAT
4131204 ATATATAATTTA-TAAAAATAGG
1 ATAT-TAATTTATTAAAAATAGG
*
4131226 ATATTTATTTATTTAAAAATA
1 ATATTAATTTA-TTAAAAATA
4131247 TCAGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
ATATTAATTTATTAAAAATAGG
Found at i:4131245 original size:137 final size:138
Alignment explanation
Indices: 4131054--4131307 Score: 318
Period size: 137 Copynumber: 1.8 Consensus size: 138
4131044 TAACTTTAAG
* * * * * *
4131054 AAAATATATTAATTTTTATATTTTATAAATAAGATATTTATTTATTTTTTAAAATACCAGAATAG
1 AAAATAGATTAATATATATATTTTAAAAATAAGATATTTATTTA-TTTTAAAAATACCAGAAAAG
* * * * *
4131119 GACATCTAGTTGCTTTAAGACTATCCTTTTCTTAATATT-AAA-AA-TAAATAAGTATTAAAACA
65 GACATCCAGTTACGTTAAGACT-GCCCTTTCTTAATATTGAAATAAGTAAATAAGTATTAAAACA
4131181 TTTTTCTAAA
129 TTTTTCTAAA
* *
4131191 AAAATAGATTAATATATATAATTTATAAAAATAGGATATTTATTTA-TTTAAAAATATCAGAAAA
1 AAAATAGATTAATATATAT-ATTT-TAAAAATAAGATATTTATTTATTTTAAAAATACCAGAAAA
*
4131255 TGACATCCAGTTACGTTAAGACTGCCCTTTCTTAATATTGAAATAAGTAAATA
64 GGACATCCAGTTACGTTAAGACTGCCCTTTCTTAATATTGAAATAAGTAAATA
4131308 CTATTATTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
136 14 0.14
137 53 0.54
138 6 0.06
139 25 0.26
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (138 bp):
AAAATAGATTAATATATATATTTTAAAAATAAGATATTTATTTATTTTAAAAATACCAGAAAAGG
ACATCCAGTTACGTTAAGACTGCCCTTTCTTAATATTGAAATAAGTAAATAAGTATTAAAACATT
TTTCTAAA
Found at i:4133104 original size:3 final size:3
Alignment explanation
Indices: 4133096--4133136 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
4133086 ATTTTTTATT
*
4133096 TAA TAA TAA T-A TATA TAA TAT TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
4133137 TGATGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:4135861 original size:21 final size:21
Alignment explanation
Indices: 4135835--4135880 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4135825 GGCATCGCCA
*
4135835 TCTGTTGTTGTGTGTTCATAC
1 TCTGTTGTTGTATGTTCATAC
*
4135856 TCTGTTGTTGTATGTTCATGC
1 TCTGTTGTTGTATGTTCATAC
4135877 TCTG
1 TCTG
4135881 AATCATGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.15, G:0.24, T:0.52
Consensus pattern (21 bp):
TCTGTTGTTGTATGTTCATAC
Found at i:4146818 original size:29 final size:28
Alignment explanation
Indices: 4146768--4146822 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
4146758 CTTTTAACTT
** *
4146768 GTTTTAATTTAATTTTCGAATTGAATATA
1 GTTTTAATTTAATCATCAAATT-AATATA
*
4146797 GTTTTAATTTAGTCATCAAATTAATA
1 GTTTTAATTTAATCATCAAATTAATA
4146823 AATATGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.18
29 18 0.82
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.49
Consensus pattern (28 bp):
GTTTTAATTTAATCATCAAATTAATATA
Found at i:4147298 original size:17 final size:16
Alignment explanation
Indices: 4147278--4147318 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
4147268 ATAAATATCC
4147278 TATTTTTATATATATAT
1 TATTTTTATATATA-AT
*
4147295 TA-TTTTAT-TTTAAT
1 TATTTTTATATATAAT
4147309 TATTTTTATA
1 TATTTTTATA
4147319 GAAATGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 6 0.29
17 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTATATATAAT
Found at i:4147316 original size:142 final size:143
Alignment explanation
Indices: 4147168--4147438 Score: 354
Period size: 144 Copynumber: 1.9 Consensus size: 143
4147158 ATATATATTA
* * * *
4147168 ATTTTTA-AGAAA-CATTT-TTAATATTTATTTTATTTATTAATATAGAAGAAAAGAGTTGTCTT
1 ATTTTTATAGAAAGCATTTATTAATATTTA-TTTACTT-TTAACATAGAAGAAAAGAGCTATCTT
* *
4147230 AAAGCACCTAGAAGTC-CTTTTCTAATA-TTCTTAAATAAATAAATATCCTATTTTTATATATAT
64 AAAGCACCTAGAAGTCTC-TTTCTAATATTTC-TAAATAAATAAATATCCTATTTATAAATATAT
4147293 ATTATTTTATTTTAATT
127 ATTATTTTATTTTAATT
** *
4147310 ATTTTTATAGAAATGTTTTTATTAATATTTATTTACTTTTAACATCGAAGAAAAGAGCTATCTTA
1 ATTTTTATAGAAA-GCATTTATTAATATTTATTTACTTTTAACATAGAAGAAAAGAGCTATCTTA
* * *
4147375 AAGCACCTAGAAGTCTCTTTCTGATATTTCTAAGTAAATAAATATCTTATTTATAAATATATAT
65 AAGCACCTAGAAGTCTCTTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAATATATAT
4147439 ATATATATAT
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
142 7 0.06
143 5 0.05
144 76 0.68
145 13 0.12
146 10 0.09
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (143 bp):
ATTTTTATAGAAAGCATTTATTAATATTTATTTACTTTTAACATAGAAGAAAAGAGCTATCTTAA
AGCACCTAGAAGTCTCTTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAATATATATTA
TTTTATTTTAATT
Found at i:4147438 original size:2 final size:2
Alignment explanation
Indices: 4147426--4147472 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
4147416 ATATCTTATT
*
4147426 TA TA AA 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
4147468 TA TA T
1 TA TA T
4147473 TCTTAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4147488 original size:144 final size:143
Alignment explanation
Indices: 4147212--4147488 Score: 303
Period size: 144 Copynumber: 1.9 Consensus size: 143
4147202 TATTAATATA
* *
4147212 GAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATATC
1 GAAGAAAAGAGCTATCTTAAAGCACCTAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATATC
* * * * * * * * **
4147277 CTATTTTTATATATATATTATTTTATTTTAATTATTTTTATAGAAATGTTTTTATTAATATTTAT
66 CTATTTATAAATATATATTATTATATTATAATTATATATATAGAAATATTCTTA-TAATATAAAT
4147342 TTACTTTTAACATC
130 TTACTTTTAACATC
* *
4147356 GAAGAAAAGAGCTATCTTAAAGCACCTAGAAGT-CTCTTTCTGATATT-TCTAAGTAAATAAATA
1 GAAGAAAAGAGCTATCTTAAAGCACCTAGAAGTCCT-TTTCTAATATTCT-TAAATAAATAAATA
* * *
4147419 TCTTATTTATAAATATATA-TATATATATATATATATATATATATATATATATATTCTTA-AA-A
64 TCCTATTTATAAATATATATTAT-TATAT-TATA-AT-TATATATATAGAAATATTCTTATAATA
4147481 TAAATTTA
125 TAAATTTA
4147489 AAATAACATG
Statistics
Matches: 110, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
143 6 0.05
144 81 0.74
145 5 0.05
146 2 0.02
147 16 0.15
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (143 bp):
GAAGAAAAGAGCTATCTTAAAGCACCTAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATATC
CTATTTATAAATATATATTATTATATTATAATTATATATATAGAAATATTCTTATAATATAAATT
TACTTTTAACATC
Found at i:4149534 original size:13 final size:13
Alignment explanation
Indices: 4149518--4149550 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4149508 GTCAACGGGT
*
4149518 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
4149531 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
4149544 CGGGTCG
1 CGGGTCG
4149551 TGTCGTGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.15
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:4149580 original size:10 final size:10
Alignment explanation
Indices: 4149558--4149593 Score: 56
Period size: 11 Copynumber: 3.6 Consensus size: 10
4149548 TCGTGTCGTG
4149558 ACCGGTC-AA
1 ACCGGTCAAA
4149567 ACCGGTCAAA
1 ACCGGTCAAA
4149577 ACCGGTTCAAA
1 ACCGG-TCAAA
4149588 ACCGGT
1 ACCGGT
4149594 TTCCAGCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.28
10 8 0.32
11 10 0.40
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:4159549 original size:54 final size:54
Alignment explanation
Indices: 4159463--4159566 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
4159453 TTTGATTGAG
* * *
4159463 AACATCTGGGCAGAAGCCACAGGAAATAATGAATGTATTGTTAAATGTTTATGA
1 AACATCTGGGCAGAAACCACAAGAAATAATGAATGTATTGTCAAATGTTTATGA
* * * *
4159517 AACATCTGTGCAGAAATCACAAGAAATGATGAATGTGTTGTCAAATGTTT
1 AACATCTGGGCAGAAACCACAAGAAATAATGAATGTATTGTCAAATGTTT
4159567 TACAACAAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (54 bp):
AACATCTGGGCAGAAACCACAAGAAATAATGAATGTATTGTCAAATGTTTATGA
Found at i:4159782 original size:22 final size:22
Alignment explanation
Indices: 4159757--4159833 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
4159747 ATCTACACTT
4159757 TTCAAAGATGATAGATTCTTTC
1 TTCAAAGATGATAGATTCTTTC
4159779 TTCAAAGATGATAGCATATC--TC
1 TTCAAAGATGATAG-AT-TCTTTC
* *
4159801 TTTAAAGATGATAGGTTCTCTT-
1 TTCAAAGATGATAGATTCT-TTC
4159823 TTCAAAGATGA
1 TTCAAAGATGA
4159834 AAGCTTTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.04
21 1 0.02
22 39 0.83
23 3 0.06
24 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTTTC
Found at i:4160428 original size:124 final size:122
Alignment explanation
Indices: 4160208--4160916 Score: 781
Period size: 124 Copynumber: 5.9 Consensus size: 122
4160198 CACTTGATGG
* *
4160208 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAAAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
4160273 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAA-GAGATAGATCAGC
*
4160332 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
*
4160397 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
65 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAA-GAGATAGATCAGC
* *
4160456 ATCAACTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA-GGAAGAAGAAGTTCAT
* * * * * ** *
4160521 AATGAGAAGAGCTTGTTCAACCTTTTTCTTCAAT-TCATCAC----TCGATGGATCAG-
65 AATGAGAAGAACTTGTTCAACCTTTTGCATGACTCT-ATCACAGAAGAGATAGATCAGC
* * *
4160574 --C-A--TTGCCAG-GTAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCA
1 ATCAACTTTTCCAGAG-A-AAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCA
* * * * * * *
4160633 TAATGAGAAGAATTTGTTCAACCTTTTGCTTGA--AT-TCAC----CA-CTCGAT--GG
64 TAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAGATAGATCAGC
* *
4160682 ATCAACTTTTCCAGAG--AGTTCATAATGAGAATAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
4160745 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATTACGGAAAGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAG-AAGAGATAGATCAGC
* * * *
4160803 ATCAACTTTTCCAGAGAAAGGTCATAATGAA-AAGAACTTATCTGAAGACGAAAAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAAT-AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
** * *
4160867 -CCGAGAAGAACTTGTTCAGCC-TTTGCATGATTAC-ATCACAGAATGAGATA
65 AATGAGAAGAACTTGTTCAACCTTTTGCATGACT-CTATCACAGAA-GAGATA
4160917 AATTATCATC
Statistics
Matches: 506, Mismatches: 51, Indels: 59
0.82 0.08 0.10
Matches are distributed among these distances:
107 1 0.00
109 4 0.01
110 79 0.16
111 1 0.00
112 2 0.00
113 59 0.12
114 32 0.06
115 1 0.00
116 1 0.00
118 1 0.00
119 12 0.02
120 2 0.00
121 37 0.07
122 19 0.04
123 40 0.08
124 215 0.42
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (122 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAGATAGATCAGC
Found at i:4160676 original size:113 final size:111
Alignment explanation
Indices: 4160473--4160771 Score: 474
Period size: 110 Copynumber: 2.7 Consensus size: 111
4160463 TTTCCAGATA
*
4160473 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGA-GGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
4160538 CAACCTTTTTCTTCAATTCATCACTCGATGGATCAGCATTGCCAGGTAG
65 CAACCTTTTGCTTCAATTCACCACTCGATGGATCAACATTGCCA-G-AG
* *
4160587 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
4160652 AACCTTTTGCTTGAATTCACCACTCGATGGATCAACTTTTCCAGAG
66 AACCTTTTGCTTCAATTCACCACTCGATGGATCAACATTGCCAGAG
*
4160698 -AGTTCATAATGAGAATAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
4160762 AACCTTTTGC
66 AACCTTTTGC
4160772 ATGACTCTAT
Statistics
Matches: 173, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
110 71 0.41
111 2 0.01
112 1 0.01
113 68 0.39
114 31 0.18
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (111 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTCAATTCACCACTCGATGGATCAACATTGCCAGAG
Found at i:4160760 original size:110 final size:111
Alignment explanation
Indices: 4160456--4160771 Score: 490
Period size: 113 Copynumber: 2.8 Consensus size: 111
4160446 ATAGATCAAC
*
4160456 ATCAACTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAG-TAGAGTTCATAATGAGAAGAACTCATCTGAAGA-GGAAGAAGAAGTTCAT
* * *
4160521 AATGAGAAGAGCTTGTTCAACCTTTTTCTTCAATTCATCACTCGATGG
64 AATGAGAAGAACTTGTTCAACCTTTTGCTTCAATTCACCACTCGATGG
* * * *
4160569 ATCAGCATTGCCAGGTAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCAT
1 ATCAACTTTTCCA-GTAG-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* *
4160634 AATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCACCACTCGATGG
64 AATGAGAAGAACTTGTTCAACCTTTTGCTTCAATTCACCACTCGATGG
*
4160682 ATCAACTTTTCCAG-AGAGTTCATAATGAGAATAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACTTTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
4160746 TGAGAAGAACTTGTTCAACCTTTTGC
66 TGAGAAGAACTTGTTCAACCTTTTGC
4160772 ATGACTCTAT
Statistics
Matches: 185, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
110 71 0.38
111 2 0.01
112 1 0.01
113 80 0.43
114 31 0.17
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (111 bp):
ATCAACTTTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTTCAATTCACCACTCGATGG
Found at i:4160915 original size:121 final size:121
Alignment explanation
Indices: 4160682--4160916 Score: 305
Period size: 123 Copynumber: 1.9 Consensus size: 121
4160672 CACTCGATGG
* * * * * *
4160682 ATCAACTTTTCCAGAGAGTTCATAATGAGAATAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
1 ATCAACTTTTCCAGAGAGGTCATAATGAAAAGAACTCATCTGAAGACGAAAAAGAAGTTCATAAC
* *
4160747 GAGAAGAACTTGTTCAACCTTTTGCATGACTCTATTACGGAAAGAGATAGATCAAC
66 GAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAAGAGATAGATCAAC
*
4160803 ATCAACTTTTCCAGAGAAAGGTCATAATGAAAAGAACTTATCTGAAGACGAAAAAGAAGTTCAT-
1 ATCAACTTTTCCAGAG--AGGTCATAATGAAAAGAACTCATCTGAAGACGAAAAAGAAGTTCATA
* * * *
4160867 CCGAGAAGAACTTGTTCAGCC-TTTGCATGATTAC-ATCACAGAATGAGATA
64 ACGAGAAGAACTTGTTCAACCTTTTGCATGACT-CTATCACAGAAAGAGATA
4160917 AATTATCATC
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
121 39 0.40
122 19 0.19
123 40 0.41
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (121 bp):
ATCAACTTTTCCAGAGAGGTCATAATGAAAAGAACTCATCTGAAGACGAAAAAGAAGTTCATAAC
GAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAAGAGATAGATCAAC
Found at i:4164507 original size:24 final size:23
Alignment explanation
Indices: 4164474--4164523 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 23
4164464 CTTCTAAGGC
4164474 GAATTGCCTTCGGAGTTGTTCGA
1 GAATTGCCTTCGGAGTTGTTCGA
4164497 GAATTCGCCTTCGGAGTTGTTCGA
1 GAATT-GCCTTCGGAGTTGTTCGA
4164521 GAA
1 GAA
4164524 GGAGTTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (23 bp):
GAATTGCCTTCGGAGTTGTTCGA
Found at i:4165325 original size:24 final size:24
Alignment explanation
Indices: 4165293--4165348 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
4165283 AGTTCGTTCA
4165293 CCACCACCTCCGGTTCACCATCCG
1 CCACCACCTCCGGTTCACCATCCG
*
4165317 CCACCACCTCCGGTTCACCCTCCG
1 CCACCACCTCCGGTTCACCATCCG
4165341 CCACCACC
1 CCACCACC
4165349 AATGCACTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.59, G:0.11, T:0.14
Consensus pattern (24 bp):
CCACCACCTCCGGTTCACCATCCG
Found at i:4165432 original size:45 final size:42
Alignment explanation
Indices: 4165317--4165432 Score: 115
Period size: 45 Copynumber: 2.7 Consensus size: 42
4165307 TCACCATCCG
* * * *
4165317 CCACCACCTCCGGTTCACCCTCCGCCACCACCAATGCACTCT
1 CCACCTCCTCCGGTTCACTCTCCGCCACCACCAATCCACCCT
* * * *
4165359 CCACCTCCTTCGGTTCAGTCACCACCACCACCACTAGTCCACCCT
1 CCACCTCCTCCGGTTCACTCTCCGCCACCACCA--A-TCCACCCT
* *
4165404 CCACCTCCTCCGGTGCATTCTCCGCCACC
1 CCACCTCCTCCGGTTCACTCTCCGCCACC
4165433 TGCCCCTCGA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 27 0.47
44 1 0.02
45 30 0.52
ACGTcount: A:0.17, C:0.53, G:0.10, T:0.19
Consensus pattern (42 bp):
CCACCTCCTCCGGTTCACTCTCCGCCACCACCAATCCACCCT
Found at i:4168421 original size:31 final size:32
Alignment explanation
Indices: 4168386--4168475 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
4168376 AAGTAAATTT
* *
4168386 TCCATATGTTCCTTAGAACATATGT-ATACTG
1 TCCATATGTTCCCTAGAACATAGGTAATACTG
* * *
4168417 TCCATATG-TCCCGAAAGACATAGGTAATTCTG
1 TCCATATGTTCCCTAGA-ACATAGGTAATACTG
* *
4168449 TTCATATGTTCCGTAGAACATAGGTAA
1 TCCATATGTTCCCTAGAACATAGGTAA
4168476 ACCCTCGACT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
30 5 0.11
31 15 0.32
32 22 0.47
33 5 0.11
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (32 bp):
TCCATATGTTCCCTAGAACATAGGTAATACTG
Done.