Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 124 of 150
Found at i:37716904 original size:25 final size:24
Alignment explanation
Indices: 37716876--37716941 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
37716866 TATTTTTTTA
*
37716876 TTTTTTTCTTTCTCTT-TTTTTTCCT
1 TTTTTTTCTTTCT-TTCTTCTTT-CT
37716901 TTTTTTTCTCTTCTTTCTTCTTTCT
1 TTTTTTTCT-TTCTTTCTTCTTTCT
*
37716926 TCTTTTTCTTT-TTTCT
1 TTTTTTTCTTTCTTTCT
37716942 CTTCTCCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 5 0.14
24 2 0.05
25 21 0.57
26 9 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTTTCTTTCTTTCTTCTTTCT
Found at i:37716919 original size:7 final size:7
Alignment explanation
Indices: 37716909--37716946 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
37716899 CTTTTTTTTC
37716909 TCTTCTT
1 TCTTCTT
37716916 TCTTCTT
1 TCTTCTT
37716923 TCTTCTT
1 TCTTCTT
37716930 T-TTCTT
1 TCTTCTT
*
37716936 TTTTCTCT
1 TCTTCT-T
37716944 TCT
1 TCT
37716947 CCTTCGGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 6 0.21
7 19 0.68
8 3 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TCTTCTT
Found at i:37716947 original size:37 final size:34
Alignment explanation
Indices: 37716880--37716946 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 34
37716870 TTTTTATTTT
*
37716880 TTTCTTTCTCTTTTTTTTCCTTTTTTTTCTCTTC
1 TTTCTTTCTCTTCTTTTTCCTTTTTTTTCTCTTC
*
37716914 TTTCTTCTTTCTTCTTTTT-C--TTTTTTCTCTTC
1 TTTCTT-TCTCTTCTTTTTCCTTTTTTTTCTCTTC
37716946 T
1 T
37716947 CCTTCGGCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 13 0.43
34 7 0.23
35 10 0.33
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTCTTTCTCTTCTTTTTCCTTTTTTTTCTCTTC
Found at i:37717483 original size:29 final size:31
Alignment explanation
Indices: 37717432--37717494 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
37717422 TAGATGTAGT
* *
37717432 AAAACTTTTGGGGCCAAAGTGTAAATTTGGG
1 AAAACTTTTGGGGCCAAAATGTAAATTTGAG
* *
37717463 AAAA-TTTT-GGGTCAAAATGTAATTTTGAG
1 AAAACTTTTGGGGCCAAAATGTAAATTTGAG
37717492 AAA
1 AAA
37717495 GATAAGTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.71
30 4 0.14
31 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (31 bp):
AAAACTTTTGGGGCCAAAATGTAAATTTGAG
Found at i:37717541 original size:30 final size:30
Alignment explanation
Indices: 37717462--37717554 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
37717452 GTAAATTTGG
* * *
37717462 GAAAATTT-TGGGTCAAAATGTAATTTTGA
1 GAAAATTTAAGGGTCAAAATGCAATTTTAA
* *
37717491 GAAAGA--TAAGTGTTAAAATGCAATTTTAA
1 GAAA-ATTTAAGGGTCAAAATGCAATTTTAA
*
37717520 GAAAATTTAGGGGTCAAAATGCAATTTTAA
1 GAAAATTTAAGGGTCAAAATGCAATTTTAA
*
37717550 AAAAA
1 GAAAA
37717555 ATGAAATTCG
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
28 2 0.04
29 24 0.47
30 25 0.49
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.31
Consensus pattern (30 bp):
GAAAATTTAAGGGTCAAAATGCAATTTTAA
Found at i:37719911 original size:25 final size:25
Alignment explanation
Indices: 37719872--37719964 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 25
37719862 ACAGGTATAC
* * *
37719872 ATATACTACATAAAAAGATGCATAT
1 ATATATTATATAAAAACATGCATAT
* *
37719897 ATATATTATAAAAAAAACCATGC-GA-
1 ATATATTAT-ATAAAAA-CATGCATAT
*
37719922 GTATATTATATAAAAACATGCATAT
1 ATATATTATATAAAAACATGCATAT
37719947 ATATATTATATAAAAACA
1 ATATATTATATAAAAACA
37719965 ATGCGTGTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
23 5 0.09
24 7 0.13
25 32 0.58
26 7 0.13
27 4 0.07
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (25 bp):
ATATATTATATAAAAACATGCATAT
Found at i:37719981 original size:25 final size:23
Alignment explanation
Indices: 37719909--37719981 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
37719899 ATATTATAAA
* *
37719909 AAAAACCATGCGAGTATATTATAT
1 AAAAA-CATGCGTGTATAATATAT
* *
37719933 AAAAACATGCATATATATATTATAT
1 AAAAACATGCGTGTATA-A-TATAT
37719958 AAAAACAATGCGTGTATGAATATA
1 AAAAAC-ATGCGTGTAT-AATATA
37719982 GAAATAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 9 0.23
24 5 0.13
25 15 0.38
26 9 0.23
27 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (23 bp):
AAAAACATGCGTGTATAATATAT
Found at i:37729901 original size:13 final size:14
Alignment explanation
Indices: 37729877--37729913 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
37729867 CTTTATTTTT
37729877 TTTCTTTCTTTCGA
1 TTTCTTTCTTTCGA
37729891 TTTCTTT-TTTCGA
1 TTTCTTTCTTTCGA
37729904 TTT-TTTCTTT
1 TTTCTTTCTTT
37729914 TTCTTTACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 12 0.55
14 7 0.32
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.73
Consensus pattern (14 bp):
TTTCTTTCTTTCGA
Found at i:37730751 original size:2 final size:2
Alignment explanation
Indices: 37730742--37730783 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
37730732 TTCTATATTT
* * *
37730742 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TG CA TA TA TA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37730783 T
1 T
37730784 TGATATACAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:37733665 original size:21 final size:19
Alignment explanation
Indices: 37733628--37733702 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
37733618 AATCATATAT
37733628 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
37733647 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
37733668 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
37733687 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
37733703 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:37734281 original size:131 final size:132
Alignment explanation
Indices: 37734045--37734411 Score: 483
Period size: 131 Copynumber: 2.8 Consensus size: 132
37734035 ATAAGACTTG
* * *
37734045 TATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTATTTCATG
1 TATCTTCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG
* * * ** *
37734110 CCGATACATGAGGACAAGATCTGCTTTCTTCGATCTACTT-CGTCAATACATGAAGACAAGATCT
66 CCAATACATGAAGACAAGATCTGCTATCTTTAATCTACTTACGCCAATACATGAAGACAAGATCT
37734174 AC
131 AC
* *
37734176 TTTCTTCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
1 TATCTTCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG
37734241 CCAATACATGAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATC
66 CCAATACATGAAGACAAGATCTGCTATCTTTAATCTACTT-ACGCCAATACATGAAGACAAGATC
*
37734306 TGC
130 TAC
* * * *
37734309 TATCTTTGATCTTCTTCACGCCAAT-A-CAT--GAAGACAAGATCTGCTTTCTTTGATCTACTTC
1 TATCTTCGATCTACTT--CGCC-ATCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTC
* * * *
37734370 ACGCCAGTACATGAAGACAAGATCCGCTATCTTTAACCTACT
63 ATGCCAATACATGAAGACAAGATCTGCTATCTTTAATCTACT
37734412 CCACTATGAC
Statistics
Matches: 209, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
131 95 0.45
132 68 0.33
133 37 0.18
134 2 0.01
135 5 0.02
136 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (132 bp):
TATCTTCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG
CCAATACATGAAGACAAGATCTGCTATCTTTAATCTACTTACGCCAATACATGAAGACAAGATCT
AC
Found at i:37734411 original size:44 final size:44
Alignment explanation
Indices: 37734075--37734403 Score: 416
Period size: 44 Copynumber: 7.5 Consensus size: 44
37734065 ACCAGTATGG
* * * *
37734075 GAAGACAAGATCTGCTACCTTTGATCTATTTCATGCCGATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * * *
37734119 GAGGACAAGATCTGCTTTCTTCGATCTACTT--CGTCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * * *
37734161 GAAGACAAGATCTACTTTCTTCGATCTACTT--CGCC-ATCAGTAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAAT-A-CAT
* *
37734204 GGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
1 --GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
*
37734250 GAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
*
37734294 GAAGACAAGATCTGCTATCTTTGATCTTCTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* *
37734338 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
*
37734382 GAAGACAAGATCCGCTATCTTT
1 GAAGACAAGATCTGCTATCTTT
37734404 AACCTACTCC
Statistics
Matches: 252, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.01
42 41 0.16
43 2 0.01
44 170 0.67
45 29 0.12
46 2 0.01
47 4 0.02
48 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
Found at i:37734477 original size:44 final size:44
Alignment explanation
Indices: 37734423--37734566 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
37734413 CACTATGACC
*
37734423 CAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTTGATG
1 CAGGAAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTTGATG
* * * * * * *
37734467 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ATGACT-
1 CAGGAAGGCAAGGT-TGGTATCTTCGATCTGCTTCGCTGTTGA-TG
** * * *
37734511 CAAGG-AGGCAAGGCCGGTATTTTCGATCTGCTTCGCTGTCGACG
1 C-AGGAAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTTGATG
37734555 CAGGAAGGCAAG
1 CAGGAAGGCAAG
37734567 ATCTGTTATT
Statistics
Matches: 74, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
43 19 0.26
44 33 0.45
45 22 0.30
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTTGATG
Found at i:37734479 original size:88 final size:88
Alignment explanation
Indices: 37734382--37734612 Score: 302
Period size: 88 Copynumber: 2.6 Consensus size: 88
37734372 GCCAGTACAT
* * * **
37734382 GAAGACAAGATCCGCTATCTTTAACCTACTCCACTATGACCCAGGGAGGCAAGGTTGGTATCTTC
1 GAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTATGACCCAGGGAGGCAAGGCCGGTATCTTC
* *
37734447 GATCTGCTTCGCTGTTGATGCAG
66 GATCTGCTTCGCTGTCGACGCAG
* * * *
37734470 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTATGACTCAAGGAGGCAAGGCCGGTATTTTC
1 GAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTATGACCCAGGGAGGCAAGGCCGGTATCTTC
37734535 GATCTGCTTCGCTGTCGACGCAG
66 GATCTGCTTCGCTGTCGACGCAG
* * * * *
37734558 GAAGGCAAGATCTGTTAT-TTTCAAACTGCTCCACTGTAAACCAGGGAGGCAAGGC
1 GAAGGCAAGATCTGCTATCTTT-AACCTGCTCCACTATGACCCAGGGAGGCAAGGC
37734613 TTTGTGCTTT
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
87 2 0.02
88 121 0.98
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (88 bp):
GAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTATGACCCAGGGAGGCAAGGCCGGTATCTTC
GATCTGCTTCGCTGTCGACGCAG
Found at i:37734479 original size:132 final size:132
Alignment explanation
Indices: 37734074--37734491 Score: 342
Period size: 132 Copynumber: 3.2 Consensus size: 132
37734064 CACCAGTATG
* * * * * * * *
37734074 GGAAGACAAGATCTGCTACCTTTGATCTATTTCATGCCGATACATGAGGACAAGATCTGCTTTCT
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTATCT
** * * * * * * * *
37734139 TCGATCTACT--TCGTCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTT--CGCCATCA
66 TTAACCTACTCCACGACAACACAGGAAGACAAGATCTGCTATCTTCGATCTGCTTCACGCCA--A
**
37734200 GTATG
129 -TACA
* *
37734205 GGAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCT
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTATCT
* * * * * * *
37734270 TTAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTTCTTCACGCCAATA
66 TTAACCTACTCCACGACAACACAGGAAGACAAGATCTGCTATCTTCGATCTGCTTCACGCCAATA
37734335 CA
131 CA
* * * *
37734337 TGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTATCT
1 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTATCT
* ** * * * * * * ***
37734402 TTAACCTACTCCACTATGACCCAGGGAGGCAAGGT-TGGTATCTTCGATCTGCTTCGCTGTTGAT
66 TTAACCTACTCCACGACAACACAGGAAGACAAGATCTGCTATCTTCGATCTGCTTCAC-GCCAAT
*
37734466 GCA
130 ACA
*
37734469 GGAAGGCAAGATCTGCTATCTTC
1 GGAAGACAAGATCTGCTATCTTC
37734492 AACCTGCTCC
Statistics
Matches: 236, Mismatches: 46, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
131 85 0.36
132 108 0.46
133 38 0.16
135 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTATCT
TTAACCTACTCCACGACAACACAGGAAGACAAGATCTGCTATCTTCGATCTGCTTCACGCCAATA
CA
Found at i:37734587 original size:45 final size:44
Alignment explanation
Indices: 37734450--37734587 Score: 118
Period size: 45 Copynumber: 3.1 Consensus size: 44
37734440 TATCTTCGAT
* * *
37734450 CTGCTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCGCTG-TGACGCAGGAAGGCAAGATCTGCTATTTTCAAA
* * * * * * * * *
37734495 CTGCTCCACTATGACTCAAGG-AGGCAAG-GCCGGTATTTTCGAT
1 CTGCTTCGCTGTGACGC-AGGAAGGCAAGATCTGCTATTTTCAAA
*
37734538 CTGCTTCGCTGTCGACGCAGGAAGGCAAGATCTGTTATTTTCAAA
1 CTGCTTCGCTGT-GACGCAGGAAGGCAAGATCTGCTATTTTCAAA
37734583 CTGCT
1 CTGCT
37734588 CCACTGTAAA
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 21 0.30
44 22 0.32
45 26 0.38
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (44 bp):
CTGCTTCGCTGTGACGCAGGAAGGCAAGATCTGCTATTTTCAAA
Found at i:37734609 original size:44 final size:44
Alignment explanation
Indices: 37734382--37734594 Score: 119
Period size: 44 Copynumber: 4.8 Consensus size: 44
37734372 GCCAGTACAT
* * * * * *
37734382 GAAGACAAGATCCGCTATCTTT-AACCTACTCCACTATGACCCAG
1 GAAGGCAAGATCTGCTAT-TTTCAAACTGCTCCACTGTGACGCAG
* * * * * * * * *
37734426 GGAGGCAAGGT-TGGTATCTTCGATCTGCTTCGCTGTTGATGCAG
1 GAAGGCAAGATCTGCTATTTTCAAACTGCTCCACTG-TGACGCAG
* * * *
37734470 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTATGACTCAAG
1 GAAGGCAAGATCTGCTATTTTCAAACTGCTCCACTGTGACGC-AG
* * * * * * *
37734515 G-AGGCAAG-GCCGGTATTTTCGATCTGCTTCGCTGTCGACGCAG
1 GAAGGCAAGATCTGCTATTTTCAAACTGCTCCACTGT-GACGCAG
*
37734558 GAAGGCAAGATCTGTTATTTTCAAACTGCTCCACTGT
1 GAAGGCAAGATCTGCTATTTTCAAACTGCTCCACTGT
37734595 AAACCAGGGA
Statistics
Matches: 121, Mismatches: 41, Indels: 13
0.69 0.23 0.07
Matches are distributed among these distances:
42 2 0.02
43 33 0.27
44 45 0.37
45 41 0.34
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (44 bp):
GAAGGCAAGATCTGCTATTTTCAAACTGCTCCACTGTGACGCAG
Found at i:37743024 original size:21 final size:19
Alignment explanation
Indices: 37742987--37743061 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
37742977 AATCATATCT
37742987 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
37743006 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
37743027 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
37743046 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
37743062 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:37744707 original size:19 final size:19
Alignment explanation
Indices: 37744664--37744735 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 19
37744654 ACTCTCAACA
37744664 AAAATTACAAAATAATTTTT
1 AAAATT-CAAAATAATTTTT
37744684 AAAAATTCAAAATAATTTTT
1 -AAAATTCAAAATAATTTTT
* *
37744704 AAAACTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TT
37744723 AAAATTCTAAAAT
1 AAAATTC-AAAAT
37744736 TTATATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.09
19 18 0.39
20 18 0.39
21 6 0.13
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:37744761 original size:28 final size:27
Alignment explanation
Indices: 37744697--37744761 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 27
37744687 AATTCAAAAT
37744697 AATTTTTAAAACTCAAAATATTTATAA
1 AATTTTTAAAACTCAAAATATTTATAA
* * * * * *
37744724 AAATTCTAAAATTTATATATATTTTTAA
1 AATTTTTAAAACTCA-AAATATTTATAA
37744752 AATTTTTAAA
1 AATTTTTAAA
37744762 TAATCTAAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTTTTAAAACTCAAAATATTTATAA
Found at i:37746265 original size:20 final size:21
Alignment explanation
Indices: 37746223--37746267 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
37746213 TTTTTGGTAT
*
37746223 TTTTAAAAATAAATTTAATAA
1 TTTTAAAAATAAATTTAAGAA
37746244 TTTTATAAAA-AAA-TTAAGAA
1 TTTTA-AAAATAAATTTAAGAA
37746264 TTTT
1 TTTT
37746268 CCAATTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTTAAAAATAAATTTAAGAA
Found at i:37746428 original size:19 final size:19
Alignment explanation
Indices: 37746400--37746444 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
37746390 TTTTCAAAGT
37746400 TTTTAGATTTTTTTTTGACA
1 TTTTA-ATTTTTTTTTGACA
*
37746420 TTTTAA-TTTTTTTTGATA
1 TTTTAATTTTTTTTTGACA
37746438 TTTTAAT
1 TTTTAAT
37746445 CAAATATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 17 0.74
19 1 0.04
20 5 0.22
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTTAATTTTTTTTTGACA
Found at i:37748991 original size:20 final size:20
Alignment explanation
Indices: 37748966--37749013 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
37748956 TTGCATTTAA
37748966 GATATTTTCTCTAATATCAT
1 GATATTTTCTCTAATATCAT
37748986 GATATTTTCTCTAATATCAT
1 GATATTTTCTCTAATATCAT
37749006 GATATTTT
1 GATATTTT
37749014 GCATTTTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
GATATTTTCTCTAATATCAT
Found at i:37754529 original size:45 final size:44
Alignment explanation
Indices: 37754480--37754566 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 44
37754470 TTTTTGGCTA
* *
37754480 AATATAAATAATTAATAATCAATACTATGTAATTTAGTTTAAATT
1 AATATAAATAATTAATAATAAATACTATATAATTTA-TTTAAATT
* *
37754525 AATATAAATAATTTATAATAAATATTATATAATTTATTTAAA
1 AATATAAATAATTAATAATAAATACTATATAATTTATTTAAA
37754567 AATTTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 6 0.16
45 32 0.84
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (44 bp):
AATATAAATAATTAATAATAAATACTATATAATTTATTTAAATT
Found at i:37757556 original size:32 final size:32
Alignment explanation
Indices: 37757515--37757577 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
37757505 TGGGCCATCT
37757515 ACTTAGCATTTGTTGTTTGTTGATGATAGCTG
1 ACTTAGCATTTGTTGTTTGTTGATGATAGCTG
37757547 ACTTAGCATTTGTTGTTTGTTGATGATAGCT
1 ACTTAGCATTTGTTGTTTGTTGATGATAGCT
37757578 TCTTCCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.48
Consensus pattern (32 bp):
ACTTAGCATTTGTTGTTTGTTGATGATAGCTG
Found at i:37759935 original size:131 final size:131
Alignment explanation
Indices: 37759701--37759963 Score: 517
Period size: 131 Copynumber: 2.0 Consensus size: 131
37759691 ACTCTATTCC
37759701 TCTGCCAGGTATGTTAGATATGAAACCAATGGCACTTCTGAGCACTGATGGTTGGGCGTGGGATA
1 TCTGCCAGGTATGTTAGATATGAAACCAATGGCACTTCTGAGCACTGATGGTTGGGCGTGGGATA
37759766 GGGACTTGATCGAGGGATTAATGGCGCCCTACGATGTTCACCGTATCCTCCTGCTGATGGCATTA
66 GGGACTTGATCGAGGGATTAATGGCGCCCTACGATGTTCACCGTATCCTCCTGCTGATGGCATTA
37759831 T
131 T
37759832 TCTGCCAGGTATGTTAGATATGAAACCAATGGCACTTCTGAGCACTGATGGTTGGGCGTGGGATA
1 TCTGCCAGGTATGTTAGATATGAAACCAATGGCACTTCTGAGCACTGATGGTTGGGCGTGGGATA
*
37759897 GGGACTTGATCGAGGGATTAATGGCGCCCTACGATGTTCACCGTATCCTCCTGCTGATGGTATTA
66 GGGACTTGATCGAGGGATTAATGGCGCCCTACGATGTTCACCGTATCCTCCTGCTGATGGCATTA
37759962 T
131 T
37759963 T
1 T
37759964 TGGCATTACA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (131 bp):
TCTGCCAGGTATGTTAGATATGAAACCAATGGCACTTCTGAGCACTGATGGTTGGGCGTGGGATA
GGGACTTGATCGAGGGATTAATGGCGCCCTACGATGTTCACCGTATCCTCCTGCTGATGGCATTA
T
Found at i:37761721 original size:33 final size:34
Alignment explanation
Indices: 37761669--37761741 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 34
37761659 ATGAGACTTT
* *
37761669 AAAAAAACACGAGAATTTTGAAGCAC-AAATTTA
1 AAAAAAAAACGAGAATTTTGAAACACAAAATTTA
*
37761702 AAAAAAAAACGA-AATTTTTGAAACACGAAAATTTT
1 AAAAAAAAACGAGAA-TTTTGAAACAC-AAAATTTA
37761737 AAAAA
1 AAAAA
37761742 CATGAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.06
33 21 0.62
35 11 0.32
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (34 bp):
AAAAAAAAACGAGAATTTTGAAACACAAAATTTA
Found at i:37761924 original size:58 final size:58
Alignment explanation
Indices: 37761855--37761966 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
37761845 TTGAAAAAAC
* *
37761855 GTGAAAAGTCGAGAA-ATTTGTAAACACGATAAATTTGGAAAACACGAATTTTGAGAAA
1 GTGAAAAGTCGA-AATATTTGTAAACACGAGAAATTTGGAAAACACGAAATTTGAGAAA
* * * * *
37761913 GTGAAAGGTCGAAATTTTTTTTAACACGAGAAATTTTGAAAACACGAAATTTGA
1 GTGAAAAGTCGAAATATTTGTAAACACGAGAAATTTGGAAAACACGAAATTTGA
37761967 ATACGGAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
57 2 0.04
58 44 0.96
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.28
Consensus pattern (58 bp):
GTGAAAAGTCGAAATATTTGTAAACACGAGAAATTTGGAAAACACGAAATTTGAGAAA
Found at i:37762131 original size:18 final size:17
Alignment explanation
Indices: 37762110--37762187 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 17
37762100 GAAATGCGAG
37762110 AATTTTTGAAAACATAGA
1 AATTTTTGAAAACA-AGA
*
37762128 AATTTTTG-AAACACGA
1 AATTTTTGAAAACAAGA
* *
37762144 AAATTTTGAAAACACGA
1 AATTTTTGAAAACAAGA
* *
37762161 CAATTTTCGAAATACGAGA
1 -AATTTTTGAAA-ACAAGA
37762180 AGATTTTT
1 A-ATTTTT
37762188 TTAACACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.18
17 13 0.27
18 18 0.37
19 9 0.18
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
AATTTTTGAAAACAAGA
Found at i:37762139 original size:17 final size:16
Alignment explanation
Indices: 37762110--37762154 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
37762100 GAAATGCGAG
37762110 AATTTTTGAAAACATAGA
1 AATTTTTG-AAACA-AGA
*
37762128 AATTTTTGAAACACGA
1 AATTTTTGAAACAAGA
*
37762144 AAATTTTGAAA
1 AATTTTTGAAA
37762155 ACACGACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.48
17 5 0.20
18 8 0.32
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (16 bp):
AATTTTTGAAACAAGA
Found at i:37762156 original size:17 final size:17
Alignment explanation
Indices: 37762113--37762242 Score: 79
Period size: 17 Copynumber: 7.5 Consensus size: 17
37762103 ATGCGAGAAT
* *
37762113 TTTTGAAAACATAGAAAT
1 TTTTGAAAACA-CGAAAA
37762131 TTTTG-AAACACGAAAA
1 TTTTGAAAACACGAAAA
*
37762147 TTTTGAAAACACGACAA
1 TTTTGAAAACACGAAAA
*
37762164 TTTTCGAAATACGA-GAAGA
1 TTTT-GAAA-AC-ACGAAAA
*** *
37762183 TTTTTTTAACACAAAAA
1 TTTTGAAAACACGAAAA
* *
37762200 TTTT-AAAACACTAACA
1 TTTTGAAAACACGAAAA
37762216 -TTTGTAAAACACGAAAA
1 TTTTG-AAAACACGAAAA
*
37762233 CTCTTGAAAA
1 -TTTTGAAAA
37762243 TGCTAAAAGT
Statistics
Matches: 86, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
15 3 0.03
16 18 0.21
17 38 0.44
18 14 0.16
19 12 0.14
20 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:37762166 original size:34 final size:35
Alignment explanation
Indices: 37762095--37762186 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 35
37762085 TTACTATAAT
* *
37762095 TTTTTGAAATGCGAGAATTTTTGAAAACATAGAAA
1 TTTTTGAAATACGAGAAATTTTGAAAACATAGAAA
* *
37762130 TTTTTGAAACACGA-AAATTTTGAAAACA-CGACAA
1 TTTTTGAAATACGAGAAATTTTGAAAACATAGA-AA
*
37762164 TTTTCGAAATACGAGAAGATTTT
1 TTTTTGAAATACGAGAA-ATTTT
37762187 TTTAACACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
33 2 0.04
34 27 0.56
35 14 0.29
36 5 0.10
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (35 bp):
TTTTTGAAATACGAGAAATTTTGAAAACATAGAAA
Found at i:37762469 original size:17 final size:19
Alignment explanation
Indices: 37762428--37762469 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
37762418 GATTCTAATA
* *
37762428 AAACACGAGAATTTTTATT
1 AAACACGAGAAATTTTATG
37762447 AAACACGA-AAATTTT-TG
1 AAACACGAGAAATTTTATG
37762464 AAACAC
1 AAACAC
37762470 AATTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 6 0.29
19 8 0.38
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (19 bp):
AAACACGAGAAATTTTATG
Found at i:37762559 original size:163 final size:164
Alignment explanation
Indices: 37762287--37762600 Score: 445
Period size: 163 Copynumber: 1.9 Consensus size: 164
37762277 ATTTGAAAAT
* *
37762287 ACGAAAATTTGGAACACGAATTTTTTTTTTAAAAACGTACCGTATTTAACACGAAACTATGATAT
1 ACGAAAATTTGAAACACGAATTTTTTTTTTAAAAACGTACCGTATTTAACACGAAACAATGATAT
** * * *
37762352 TCACCCCTACATGGCGATGAAATCATCGAATTAGTGTTAAATCGATCCAATTTGATATTTAATCG
66 TCACCCCTACATGGCGATGAAATCATCGAATTAGTGCCAAATCGATCCAACTTAATATGTAATCG
37762417 GGATTCTAATAAAACACGAGAATTTTTATTAAAC
131 GGATTCTAATAAAACACGAGAATTTTTATTAAAC
* *
37762451 ACGAAAATTTTTGAAACAC-AA-TTTTTTTTTAAGAA-GTACCGTATTTAACACGAATCAATGAT
1 ACGAAAA--TTTGAAACACGAATTTTTTTTTTAAAAACGTACCGTATTTAACACGAAACAATGAT
* * *
37762513 ATTCATCCTTACATGGCGATGAAATCATCGAATTAGTGCCAAATCGATTCAACTTAATATGTAAT
64 ATTCACCCCTACATGGCGATGAAATCATCGAATTAGTGCCAAATCGATCCAACTTAATATGTAAT
* * * *
37762578 CGTGATTTTATTAAAACATGAGA
129 CGGGATTCTAATAAAACACGAGA
37762601 GTTAAAAAAA
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
163 101 0.77
164 20 0.15
165 2 0.02
166 9 0.07
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (164 bp):
ACGAAAATTTGAAACACGAATTTTTTTTTTAAAAACGTACCGTATTTAACACGAAACAATGATAT
TCACCCCTACATGGCGATGAAATCATCGAATTAGTGCCAAATCGATCCAACTTAATATGTAATCG
GGATTCTAATAAAACACGAGAATTTTTATTAAAC
Found at i:37762951 original size:21 final size:23
Alignment explanation
Indices: 37762926--37762969 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
37762916 AATTGAACCA
37762926 TTTTTCC-TTCT-TTTTTTTTCT
1 TTTTTCCTTTCTCTTTTTTTTCT
37762947 TTTTTCCTTTCTCTTTTTTTTCT
1 TTTTTCCTTTCTCTTTTTTTTCT
37762970 GCTGGGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.33
22 4 0.19
23 10 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCCTTTCTCTTTTTTTTCT
Found at i:37763138 original size:17 final size:17
Alignment explanation
Indices: 37763116--37763148 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37763106 GCCTGCTTTC
*
37763116 TTTTTTTTCTGTTTTTG
1 TTTTTTTTCTCTTTTTG
37763133 TTTTTTTTCTCTTTTT
1 TTTTTTTTCTCTTTTT
37763149 TTGGGTTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTTCTCTTTTTG
Found at i:37763306 original size:15 final size:15
Alignment explanation
Indices: 37763286--37763347 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 15
37763276 TTTTATTTAT
*
37763286 TTTTTCTTTTTTCTC
1 TTTTTCTTTCTTCTC
37763301 TTTTTCTTTCTTCTTC
1 TTTTTCTTTCTTC-TC
*
37763317 TTCTTCGTTTCCTTCTC
1 TTTTTC-TTT-CTTCTC
37763334 TTTTT-TCTTCTTCT
1 TTTTTCT-TTCTTCT
37763348 TCTCCGTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 18 0.45
16 9 0.22
17 9 0.22
18 4 0.10
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTTCTTTCTTCTC
Found at i:37763997 original size:30 final size:29
Alignment explanation
Indices: 37763847--37763994 Score: 179
Period size: 30 Copynumber: 5.0 Consensus size: 29
37763837 GGCCAAAACA
37763847 TAATTTTAAGAAAGTTTAGGGGTCAAAATG
1 TAATTTTAA-AAAGTTTAGGGGTCAAAATG
*
37763877 TAATTTTAAAAAGTTTAGGGGTCAAAAGG
1 TAATTTTAAAAAGTTTAGGGGTCAAAATG
* * ** * *
37763906 TAATTTAAAAAATTTTAGGGGTTGAACTA
1 TAATTTTAAAAAGTTTAGGGGTCAAAATG
*
37763935 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
1 TAATTTT-AAAAAGTTTAGGGGTCAAAATG
* *
37763965 CAATTTTAGAAAAGTTTAGAGGTCAAAATG
1 TAATTTTA-AAAAGTTTAGGGGTCAAAATG
37763995 CAAAAAAATT
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
29 48 0.49
30 50 0.51
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (29 bp):
TAATTTTAAAAAGTTTAGGGGTCAAAATG
Found at i:37764677 original size:76 final size:77
Alignment explanation
Indices: 37764158--37764679 Score: 582
Period size: 76 Copynumber: 6.8 Consensus size: 77
37764148 AAATTTTTCT
* * * * ** * *
37764158 TTTTATTTGAAAAGCAGAAATCGAGAATAGCTCAGCG-TGAAACCCGAGGCCCAACTCACCTCTA
1 TTTT-TTTGAAAAACAGAAATTGAAAATACCTCAG-GATGCGACCCGAGGCTCAACTCACCTCTC
37764222 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* * * * *
37764236 TTTTTTTGAAAAGCA-AGAATTGAAAAATACCTC--GACGTGACTCGAGGCTCAACTCATCTCTC
1 TTTTTTTGAAAAACAGA-AATTG-AAAATACCTCAGGATGCGACCCGAGGCTCAACTCACCTCTC
37764298 GCAATATGAGTTGA
64 GCAATATGAGTTGA
* * * * * * *
37764312 --TTTTGGAAAAATAGAAATTGAAAAACACCTC--GACGTGACTCGAGGCTCAACTCACCTTTCG
1 TTTTTTTGAAAAACAGAAATTG-AAAATACCTCAGGATGCGACCCGAGGCTCAACTCACCTCTCG
37764373 CAATATGAGTTGA
65 CAATATGAGTTGA
* *
37764386 --TTTTTGAAAAACAGAAATTTAAAATACCTCAGCGA-GCGACCCGAGGCTCAACTCACCTCTCA
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAG-GATGCGACCCGAGGCTCAACTCACCTCTCG
*
37764448 CATTATGAGTTGA
65 CAATATGAGTTGA
* * *
37764461 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGAATGCGACCCGAGGCTCAACTCACTTCTCAC
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGCGACCCGAGGCTCAACTCACCTCTCGC
*
37764526 ATTATGAGTTGA
66 AATATGAGTTGA
* *
37764538 TTTTTTTTGAAAAACAGGAATTGAAAATACCTCAGGATGCGACCCGAGTCTCAACTCACCTCTCG
1 -TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGCGACCCGAGGCTCAACTCACCTCTCG
* *
37764603 CATTATCAGTTGA
65 CAATATGAGTTGA
* * * *
37764616 -TTTTTTGAAAAACAAAAATTGAAGATACCTCAGGGTGTGACCCGAGGCTCAACTCACCTCTCGC
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGCGACCCGAGGCTCAACTCACCTCTCGC
37764680 TATAGCGACC
Statistics
Matches: 393, Mismatches: 40, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
73 9 0.02
74 83 0.21
75 37 0.09
76 96 0.24
77 85 0.22
78 83 0.21
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (77 bp):
TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGGATGCGACCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGA
Found at i:37765257 original size:19 final size:17
Alignment explanation
Indices: 37765229--37765304 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 17
37765219 AAAACGAAAA
37765229 TTTAGAAACACGAGATTT
1 TTTAGAAACACGA-ATTT
37765247 TTTAGGAAACACGAATTTTCT
1 TTTA-GAAACACGAA--TT-T
* *
37765268 TTTTGAAACACGAAAATT
1 TTTAGAAACACG-AATTT
*
37765286 TTTA-AAACACAAATTT
1 TTTAGAAACACGAATTT
37765302 TTT
1 TTT
37765305 TTTGAAAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
16 7 0.15
17 6 0.12
18 9 0.19
19 10 0.21
20 10 0.21
21 6 0.12
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (17 bp):
TTTAGAAACACGAATTT
Found at i:37765304 original size:16 final size:17
Alignment explanation
Indices: 37765267--37765303 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
37765257 ACGAATTTTC
*
37765267 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
37765284 TTTTTAAAACAC--AAA
1 TTTTTAAAACACGAAAA
37765299 TTTTT
1 TTTTT
37765304 TTTTGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
17 11 0.58
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:37765312 original size:20 final size:20
Alignment explanation
Indices: 37765284--37765324 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
37765274 AACACGAAAA
37765284 TTTTTAAAACACAA-ATTTT
1 TTTTTAAAACACAATATTTT
*
37765303 TTTTTGAAAACATAATATTTT
1 TTTTT-AAAACACAATATTTT
37765324 T
1 T
37765325 GATAAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTTAAAACACAATATTTT
Found at i:37765314 original size:37 final size:38
Alignment explanation
Indices: 37765233--37765311 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 38
37765223 CGAAAATTTA
* * *
37765233 GAAACACGAGATTTTTTAGGAAACACGAATTTTCTTTTT
1 GAAACACGAAAATTTTTA-GAAACACAAATTTTCTTTTT
37765272 GAAACACGAAAATTTTTA-AAACACAAATTTT-TTTTT
1 GAAACACGAAAATTTTTAGAAACACAAATTTTCTTTTT
37765308 GAAA
1 GAAA
37765312 ACATAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 9 0.24
37 12 0.32
39 16 0.43
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (38 bp):
GAAACACGAAAATTTTTAGAAACACAAATTTTCTTTTT
Found at i:37765412 original size:18 final size:18
Alignment explanation
Indices: 37765389--37765487 Score: 67
Period size: 18 Copynumber: 5.5 Consensus size: 18
37765379 AAGGTCAATT
37765389 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
37765407 TTTTTG-AAAGACGAGATT
1 TTTTTGAAAACACGA-AAA
* *
37765425 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* **
37765443 TTTATG-AAACACGGAATT
1 TTTTTGAAAACAC-GAAAA
* *
37765461 TTTTTGAAGACAAGAAAA
1 TTTTTGAAAACACGAAAA
*
37765479 TTTTCGAAA
1 TTTTTGAAA
37765488 TACGGGACTT
Statistics
Matches: 57, Mismatches: 20, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
17 12 0.21
18 36 0.63
19 9 0.16
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:37765426 original size:36 final size:36
Alignment explanation
Indices: 37765350--37765517 Score: 139
Period size: 36 Copynumber: 4.7 Consensus size: 36
37765340 AGGAGGATTT
* *
37765350 TTTTTTTG-AAACACA-AAAATTTATGAAACAAGGTCAA
1 TTTTTTTGAAAACA-AGAAAATTTTTGAAACACGG--AA
* *
37765387 TTTTTTTGAAAACACGAAAATTTTTGAAAGAC-GAGA
1 TTTTTTTGAAAACAAGAAAATTTTTGAAACACGGA-A
* * *
37765423 TTTTTTTGAAAACATGGAAATTTATGAAACACGGAA
1 TTTTTTTGAAAACAAGAAAATTTTTGAAACACGGAA
* * * *
37765459 TTTTTTTGAAGACAAGAAAATTTTCGAAATACGGGA
1 TTTTTTTGAAAACAAGAAAATTTTTGAAACACGGAA
* * *
37765495 --CTTTTGGAAACAAGGAAATTTTT
1 TTTTTTTGAAAACAAGAAAATTTTT
37765518 TTTTGAAACC
Statistics
Matches: 107, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
34 18 0.17
35 1 0.01
36 59 0.55
37 11 0.10
38 18 0.17
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (36 bp):
TTTTTTTGAAAACAAGAAAATTTTTGAAACACGGAA
Found at i:37765763 original size:18 final size:18
Alignment explanation
Indices: 37765714--37765766 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
37765704 TTGAAAACAC
*
37765714 GAAAACACGAACATTTTT
1 GAAAACACGAAAATTTTT
* * **
37765732 -CAAACAAGGGAATTTTT
1 GAAAACACGAAAATTTTT
37765749 GAAAACACGAAAATTTTT
1 GAAAACACGAAAATTTTT
37765767 TTTTGAAAAG
Statistics
Matches: 25, Mismatches: 9, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
GAAAACACGAAAATTTTT
Found at i:37765780 original size:26 final size:26
Alignment explanation
Indices: 37765751--37765800 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
37765741 GAATTTTTGA
* *
37765751 AAACACGAAAATTTTTTTTTGAAAAG
1 AAACACGAAAATATATTTTTGAAAAG
*
37765777 AAACACGAATATATATTTTTGAAA
1 AAACACGAAAATATATTTTTGAAA
37765801 CACGAGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (26 bp):
AAACACGAAAATATATTTTTGAAAAG
Found at i:37765815 original size:17 final size:17
Alignment explanation
Indices: 37765791--37765839 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
37765781 ACGAATATAT
37765791 ATTTTTGAAACACGAGAA
1 ATTTTTGAAACACGA-AA
* *
37765809 A-TTTTGAAGAAATGAAA
1 ATTTTTGAA-ACACGAAA
37765826 ATTTTTGAAACACG
1 ATTTTTGAAACACG
37765840 GTTTTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (17 bp):
ATTTTTGAAACACGAAA
Found at i:37766406 original size:15 final size:15
Alignment explanation
Indices: 37766388--37766416 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37766378 GGCGTTGGGC
37766388 TGGGCAGTGGCCTGT
1 TGGGCAGTGGCCTGT
37766403 TGGGCAGTGGCCTG
1 TGGGCAGTGGCCTG
37766417 CTGCTGTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.48, T:0.24
Consensus pattern (15 bp):
TGGGCAGTGGCCTGT
Found at i:37766532 original size:14 final size:14
Alignment explanation
Indices: 37766513--37766556 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
37766503 GAGTTGCACG
*
37766513 GGTGGGCTACTGCT
1 GGTGGGCTGCTGCT
37766527 GGTGGGCTGCTGCT
1 GGTGGGCTGCTGCT
*
37766541 GGTGGACTGCTGCT
1 GGTGGGCTGCTGCT
37766555 GG
1 GG
37766557 ACTGCCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.05, C:0.20, G:0.48, T:0.27
Consensus pattern (14 bp):
GGTGGGCTGCTGCT
Found at i:37767289 original size:29 final size:29
Alignment explanation
Indices: 37767225--37767322 Score: 119
Period size: 29 Copynumber: 3.3 Consensus size: 29
37767215 ATGGGGCTAC
* * *
37767225 AATGTAATTTTTAGAAAGTTTAGGGGTCA
1 AATGTAATTTTGAGAAAGTTTAGGGTTGA
37767254 AAGTGTAATTTTGAGAAAG-TTAGAGGTTGA
1 AA-TGTAATTTTGAGAAAGTTTAG-GGTTGA
*
37767284 AATGTAATTTAGA-AAAGTTTAGGGGTTGA
1 AATGTAATTTTGAGAAAGTTTA-GGGTTGA
37767313 AATGTAATTT
1 AATGTAATTT
37767323 ATATTTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.07
29 35 0.57
30 22 0.36
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.37
Consensus pattern (29 bp):
AATGTAATTTTGAGAAAGTTTAGGGTTGA
Found at i:37767932 original size:75 final size:77
Alignment explanation
Indices: 37767646--37768220 Score: 701
Period size: 76 Copynumber: 7.6 Consensus size: 77
37767636 CTCAGCGTGC
* * *
37767646 GACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA---TTTTTGAAAAACAGAAATTTAAAA
37767711 G----ACCTCAGG-AT
63 GAAATACCTC-GGCAT
* *
37767722 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAAACAGAAA-TT--G
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA----TTTTTGAAAAACAGAAATTTAAA
37767784 A-AAATACCTCAGG-AT
62 AGAAATACCTC-GGCAT
* * **
37767799 GACCCGAGCCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAATGGAAATTTAAAAGAA
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAA
37767863 ATACCTCGGCAT
66 ATACCTCGGCAT
* *
37767875 GA-CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACGGAAGTTT-AAAGAA
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAA
*
37767937 ATACATCGGCAT
66 ATACCTCGGCAT
*
37767949 GACCCGAGGCTCAACTCACCTCT-GTTTTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAA
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAA
37768013 ATACCTCGGCAT
66 ATACCTCGGCAT
* *
37768025 GACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAAC-GAAAATT-GAA-AA
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAA
37768086 ATACCTCAGG-AT
66 ATACCTC-GGCAT
* * * * * **
37768098 TACCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAATGGAAATTTAAAAGAA
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAA
37768162 ATACCTCGGCAT
66 ATACCTCGGCAT
37768174 GA-CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAA
37768221 AACAGAGATT
Statistics
Matches: 446, Mismatches: 33, Indels: 41
0.86 0.06 0.08
Matches are distributed among these distances:
72 8 0.02
73 43 0.10
74 85 0.19
75 116 0.26
76 128 0.29
77 66 0.15
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (77 bp):
GACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAA
ATACCTCGGCAT
Found at i:37768152 original size:299 final size:298
Alignment explanation
Indices: 37767646--37768220 Score: 910
Period size: 299 Copynumber: 1.9 Consensus size: 298
37767636 CTCAGCGTGC
*
37767646 GACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAAA
37767711 GACCTCAGGATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAAAC
64 GACCTCAGGATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA---TTTTTTGAAAAAC
* *
37767776 AGAAATTGAAAATACCTCAGGATGACCCGAGCCTCAACTCACCTCTCGCATTATGAGTTGATTTT
126 AGAAATTGAAAATACCTCAGGATGACCCAAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTT
37767841 TGAAAATGGAAATTTAAAAGAAATACCTCGGCATGACCGAGGCTCAACTCACCTCTGTATTATGA
191 TGAAAATGGAAATTTAAAAGAAATACCTCGGCATGACCGAGGCTCAACTCACCTCTGTATTATGA
37767906 GTTGATTTTTGAAAAACGGAAGTTTAAAGAAATACATCGGCAT
256 GTTGATTTTTGAAAAACGGAAGTTTAAAGAAATACATCGGCAT
** *
37767949 GACCCGAGGCTCAACTCACCTCT-GTTTTATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAG-
*
37768012 AATACCTC-GGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTTTGAAAAAC
65 ---ACCTCAGG-ATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAAC
* * *
37768074 -GAAAATTGAAAAATACCTCAGGATTACCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
126 AG-AAATTG-AAAATACCTCAGGATGACCCAAGCCTCAACTCACCTCTCGCAATATGAGTTGATT
37768138 TTTGAAAATGGAAATTTAAAAGAAATACCTCGGCATGACCGAGGCTCAACTCACCTCTGTATTAT
189 TTTGAAAATGGAAATTTAAAAGAAATACCTCGGCATGACCGAGGCTCAACTCACCTCTGTATTAT
37768203 GAGTTGATTTTTGAAAAA
254 GAGTTGATTTTTGAAAAA
37768221 AACAGAGATT
Statistics
Matches: 255, Mismatches: 10, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
297 1 0.00
298 18 0.07
299 156 0.61
302 27 0.11
303 53 0.21
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (298 bp):
GACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGA
CCTCAGGATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAA
TTGAAAATACCTCAGGATGACCCAAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
ATGGAAATTTAAAAGAAATACCTCGGCATGACCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
TTTTTGAAAAACGGAAGTTTAAAGAAATACATCGGCAT
Found at i:37769118 original size:12 final size:11
Alignment explanation
Indices: 37769103--37769166 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 11
37769093 TTCATCTTGA
*
37769103 TTTTTATTCTT
1 TTTTTTTTCTT
37769114 TTTTTTTTACTT
1 TTTTTTTT-CTT
37769126 TTTTGTTTT-TT
1 TTTT-TTTTCTT
*
37769137 TTGTTGTTTTTTT
1 TT-TT-TTTTCTT
37769150 TGTTTTTTTCTT
1 T-TTTTTTTCTT
37769162 TTTTT
1 TTTTT
37769167 AGGCATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
11 15 0.33
12 21 0.46
13 9 0.20
14 1 0.02
ACGTcount: A:0.03, C:0.05, G:0.06, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:37769136 original size:9 final size:9
Alignment explanation
Indices: 37769124--37769166 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
37769114 TTTTTTTTAC
37769124 TTTTTTGTT
1 TTTTTTGTT
37769133 TTTTTTGTT
1 TTTTTTGTT
*
37769142 GTTTTTTTTGT
1 -TTTTTTGT-T
*
37769153 TTTTTTCTT
1 TTTTTTGTT
37769162 TTTTT
1 TTTTT
37769167 AGGCATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 15 0.50
10 14 0.47
11 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:37773265 original size:5 final size:5
Alignment explanation
Indices: 37773255--37773301 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
37773245 GAACAAATAT
* *
37773255 ATTCG ATTCG ATTCG ATTCG AATTCC ATCTC- ACTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG -ATTCG AT-TCG ATTCG ATTCG ATTCG A
37773302 GAAAACTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (5 bp):
ATTCG
Found at i:37780931 original size:18 final size:17
Alignment explanation
Indices: 37780905--37780991 Score: 52
Period size: 18 Copynumber: 4.9 Consensus size: 17
37780895 CGATCAGATC
*
37780905 AAAATACGAGAATTTTT
1 AAAACACGAGAATTTTT
37780922 AAAAACACGA-AGATTTTT
1 -AAAACACGAGA-ATTTTT
* ** *
37780940 GAAACAATTAG-TTTTTT
1 AAAAC-ACGAGAATTTTT
* *
37780957 GAAAACGCGAAAAATTTTT
1 -AAAACACG-AGAATTTTT
37780976 AAAACACGAGAATTTT
1 AAAACACGAGAATTTT
37780992 AGAGACACGA
Statistics
Matches: 50, Mismatches: 13, Indels: 13
0.66 0.17 0.17
Matches are distributed among these distances:
17 17 0.34
18 28 0.56
19 5 0.10
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (17 bp):
AAAACACGAGAATTTTT
Found at i:37783363 original size:15 final size:15
Alignment explanation
Indices: 37783345--37783373 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37783335 GGCGTTGGGC
37783345 TGGGCAGTGGCCTGT
1 TGGGCAGTGGCCTGT
37783360 TGGGCAGTGGCCTG
1 TGGGCAGTGGCCTG
37783374 CTGCTGTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.48, T:0.24
Consensus pattern (15 bp):
TGGGCAGTGGCCTGT
Found at i:37783489 original size:14 final size:14
Alignment explanation
Indices: 37783470--37783513 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
37783460 GAGCTGCACG
*
37783470 GGTGGGCTACTGCT
1 GGTGGGCTGCTGCT
37783484 GGTGGGCTGCTGCT
1 GGTGGGCTGCTGCT
*
37783498 GGTGGACTGCTGCT
1 GGTGGGCTGCTGCT
37783512 GG
1 GG
37783514 ACTGCCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.05, C:0.20, G:0.48, T:0.27
Consensus pattern (14 bp):
GGTGGGCTGCTGCT
Found at i:37783557 original size:13 final size:12
Alignment explanation
Indices: 37783535--37783564 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
37783525 TGGGCTGCTG
37783535 TTTTTTTATTTA
1 TTTTTTTATTTA
37783547 TTTTATTTATTTA
1 TTTT-TTTATTTA
37783560 TTTTT
1 TTTTT
37783565 CCTTTTCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:37784294 original size:30 final size:29
Alignment explanation
Indices: 37784256--37784353 Score: 112
Period size: 29 Copynumber: 3.3 Consensus size: 29
37784246 ATGGGGCTAC
*
37784256 AATGTAATTTTTAGAAAGTTTAGGGGTCA
1 AATGTAATTTTTAGAAAGTTTAGGGGTGA
*
37784285 AAGTGTAATTTTGAGAAAG-TTAGGGGTGGA
1 AA-TGTAATTTTTAGAAAGTTTAGGGGT-GA
*
37784315 AATGTAA--TTTAGAAAAGTTCAGGGGTTGA
1 AATGTAATTTTTAG-AAAGTTTAGGGG-TGA
37784344 AATGTAATTT
1 AATGTAATTT
37784354 ATATTTTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
27 4 0.07
28 4 0.07
29 30 0.52
30 19 0.33
31 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.35
Consensus pattern (29 bp):
AATGTAATTTTTAGAAAGTTTAGGGGTGA
Found at i:37784722 original size:84 final size:77
Alignment explanation
Indices: 37784554--37784818 Score: 313
Period size: 75 Copynumber: 3.4 Consensus size: 77
37784544 GATTACACTC
**** * *
37784554 GCAATATGAGTTGATTTTTTTTTCAAAAG-CAGAAATTGAAAATACCTCAGGATGTGACCCGAGG
1 GCAATATGAGTTGATTTTTTGAAAAAAAGACATAAATTGAAAATACCTCA-G-CGTGACCCGAGG
37784618 CTCAACTCACCTCT
64 CTCAACTCACCTCT
* *
37784632 CGCAATATGAGTTGATTTTTTGAAAAAAAGAAATTAACATAAATTGAAAATGCCTCAGCGTAACC
1 -GCAATATGAGTTGATTTTTTGAAAAAAAG------ACATAAATTGAAAATACCTCAGCGTGACC
37784697 CGAGGCTCAACTCACCTCT
59 CGAGGCTCAACTCACCTCT
*
37784716 AGCAATATGAGTTGA--TTTT-AAAAAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGC
1 -GCAATATGAGTTGATTTTTTGAAAAAAAGACATAAATTGAAAATACCTCAGCGTGACCCGAGGC
37784778 TCAACTCACCTCT
65 TCAACTCACCTCT
* *
37784791 GTATTATGAGTTGATTTTTTGAAAAAAA
1 GCAATATGAGTTGATTTTTTGAAAAAAA
37784819 ACACAATTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
74 12 0.07
75 45 0.28
76 4 0.02
77 7 0.04
79 25 0.15
81 8 0.05
82 4 0.02
84 38 0.23
85 1 0.01
86 18 0.11
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (77 bp):
GCAATATGAGTTGATTTTTTGAAAAAAAGACATAAATTGAAAATACCTCAGCGTGACCCGAGGCT
CAACTCACCTCT
Found at i:37785714 original size:9 final size:9
Alignment explanation
Indices: 37785696--37785743 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
37785686 TTGATTTTTC
*
37785696 TTTTTCTTT
1 TTTTTGTTT
37785705 TTTTTG-TT
1 TTTTTGTTT
*
37785713 TTTTT-TTG
1 TTTTTGTTT
37785721 TTTTTGTTT
1 TTTTTGTTT
37785730 TTTTTGTTT
1 TTTTTGTTT
37785739 TTTTT
1 TTTTT
37785744 TGTCCCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 13 0.38
9 21 0.62
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:37785714 original size:15 final size:14
Alignment explanation
Indices: 37785690--37785744 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 14
37785680 TTCATCTTGA
*
37785690 TTTTTCTTTTTCTTTT
1 TTTTT-TTTTT-TTTG
37785706 TTTTGTTTTTTTTTG
1 TTTT-TTTTTTTTTG
37785721 TTTTTGTTTTTTTTG
1 TTTTT-TTTTTTTTG
37785736 TTTTTTTTT
1 TTTTTTTTT
37785745 GTCCCTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 5 0.14
15 21 0.58
16 9 0.25
17 1 0.03
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:37785745 original size:25 final size:25
Alignment explanation
Indices: 37785690--37785746 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
37785680 TTCATCTTGA
*
37785690 TTTTTCTTTTTCTTTTTTTTGTTTT
1 TTTTTGTTTTTCTTTTTTTTGTTTT
*
37785715 TTTTTGTTTTTGTTTTTTTTGTTTT
1 TTTTTGTTTTTCTTTTTTTTGTTTT
37785740 TTTTTGT
1 TTTTTGT
37785747 CCCTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.88
Consensus pattern (25 bp):
TTTTTGTTTTTCTTTTTTTTGTTTT
Found at i:37785755 original size:25 final size:25
Alignment explanation
Indices: 37785702--37785757 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
37785692 TTTCTTTTTC
**
37785702 TTTTTTTTGTTTTTTTTTGTTTTTG
1 TTTTTTTTGTTTTTTTTTGTCCTTG
*
37785727 TTTTTTTTGTTTTTTTTTGTCCCT-
1 TTTTTTTTGTTTTTTTTTGTCCTTG
37785751 TTTTTTT
1 TTTTTTT
37785758 AAGCATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (25 bp):
TTTTTTTTGTTTTTTTTTGTCCTTG
Found at i:37785757 original size:1 final size:1
Alignment explanation
Indices: 37785690--37785744 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
37785680 TTCATCTTGA
* * * * * *
37785690 TTTTTCTTTTTCTTTTTTTTGTTTTTTTTTGTTTTTGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
37785745 GTCCCTTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:37789572 original size:4 final size:4
Alignment explanation
Indices: 37789565--37789589 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
37789555 ATGTACATAC
37789565 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
37789590 CCAATGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:37791335 original size:33 final size:34
Alignment explanation
Indices: 37791283--37791355 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 34
37791273 ATGAGACTTT
* *
37791283 AAAAAAACACGAGAATTTTGAAGCAC-AAATTTA
1 AAAAAAAAACGAGAATTTTGAAACACAAAATTTA
*
37791316 AAAAAAAAACGA-AATTTTTGAAACACGAAAATTTT
1 AAAAAAAAACGAGAA-TTTTGAAACAC-AAAATTTA
37791351 AAAAA
1 AAAAA
37791356 CATGAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.06
33 21 0.62
35 11 0.32
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (34 bp):
AAAAAAAAACGAGAATTTTGAAACACAAAATTTA
Found at i:37791754 original size:18 final size:17
Alignment explanation
Indices: 37791733--37791810 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 17
37791723 GAAATGCGAG
37791733 AATTTTTGAAAACATAGA
1 AATTTTTGAAAACA-AGA
*
37791751 AATTTTTG-AAACACGA
1 AATTTTTGAAAACAAGA
* *
37791767 AAATTTTGAAAACACGA
1 AATTTTTGAAAACAAGA
* *
37791784 CAATTTTCGAAATACGAGA
1 -AATTTTTGAAA-ACAAGA
37791803 AGATTTTT
1 A-ATTTTT
37791811 TTAACACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.18
17 13 0.27
18 18 0.37
19 9 0.18
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
AATTTTTGAAAACAAGA
Found at i:37791762 original size:17 final size:16
Alignment explanation
Indices: 37791733--37791777 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
37791723 GAAATGCGAG
37791733 AATTTTTGAAAACATAGA
1 AATTTTTG-AAACA-AGA
*
37791751 AATTTTTGAAACACGA
1 AATTTTTGAAACAAGA
*
37791767 AAATTTTGAAA
1 AATTTTTGAAA
37791778 ACACGACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.48
17 5 0.20
18 8 0.32
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (16 bp):
AATTTTTGAAACAAGA
Found at i:37791779 original size:17 final size:17
Alignment explanation
Indices: 37791736--37791865 Score: 79
Period size: 17 Copynumber: 7.5 Consensus size: 17
37791726 ATGCGAGAAT
* *
37791736 TTTTGAAAACATAGAAAT
1 TTTTGAAAACA-CGAAAA
37791754 TTTTG-AAACACGAAAA
1 TTTTGAAAACACGAAAA
*
37791770 TTTTGAAAACACGACAA
1 TTTTGAAAACACGAAAA
*
37791787 TTTTCGAAATACGA-GAAGA
1 TTTT-GAAA-AC-ACGAAAA
*** *
37791806 TTTTTTTAACACAAAAA
1 TTTTGAAAACACGAAAA
* *
37791823 TTTT-AAAACACTAACA
1 TTTTGAAAACACGAAAA
37791839 -TTTGTAAAACACGAAAA
1 TTTTG-AAAACACGAAAA
*
37791856 CTCTTGAAAA
1 -TTTTGAAAA
37791866 TGCTAAAAGT
Statistics
Matches: 86, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
15 3 0.03
16 18 0.21
17 38 0.44
18 14 0.16
19 12 0.14
20 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:37791789 original size:34 final size:35
Alignment explanation
Indices: 37791718--37791809 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 35
37791708 TTACTATAAT
* *
37791718 TTTTTGAAATGCGAGAATTTTTGAAAACATAGAAA
1 TTTTTGAAATACGAGAAATTTTGAAAACATAGAAA
* *
37791753 TTTTTGAAACACGA-AAATTTTGAAAACA-CGACAA
1 TTTTTGAAATACGAGAAATTTTGAAAACATAGA-AA
*
37791787 TTTTCGAAATACGAGAAGATTTT
1 TTTTTGAAATACGAGAA-ATTTT
37791810 TTTAACACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
33 2 0.04
34 27 0.56
35 14 0.29
36 5 0.10
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (35 bp):
TTTTTGAAATACGAGAAATTTTGAAAACATAGAAA
Found at i:37792138 original size:17 final size:19
Alignment explanation
Indices: 37792099--37792140 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
37792089 NNNNNTAATA
*
37792099 AAACACGAGAATTTTTATT
1 AAACACGAGAAATTTTATT
37792118 AAACACGA-AAATTTT-TT
1 AAACACGAGAAATTTTATT
37792135 AAACAC
1 AAACAC
37792141 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 6 0.27
19 8 0.36
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (19 bp):
AAACACGAGAAATTTTATT
Found at i:37792631 original size:22 final size:24
Alignment explanation
Indices: 37792604--37792649 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37792594 AATTGAACCA
37792604 TTTTTCC-TTCT-TTTTTTTTTCT
1 TTTTTCCTTTCTCTTTTTTTTTCT
37792626 TTTTTCCTTTCTCTTTTTTTTTCT
1 TTTTTCCTTTCTCTTTTTTTTTCT
37792650 GCTGCGCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 11 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTCCTTTCTCTTTTTTTTTCT
Found at i:37792640 original size:14 final size:11
Alignment explanation
Indices: 37792611--37792649 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
37792601 CCATTTTTCC
37792611 TTCTTTTTTTT
1 TTCTTTTTTTT
*
37792622 TTCTTTTTTCCT
1 TTCTTTTTT-TT
37792634 TTCTCTTTTTTT
1 TTCT-TTTTTTT
37792646 TTCT
1 TTCT
37792650 GCTGCGCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:37792818 original size:17 final size:17
Alignment explanation
Indices: 37792796--37792828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37792786 GCCTGCTTTC
*
37792796 TTTTTTTTCTGTTTTTG
1 TTTTTTTTCTCTTTTTG
37792813 TTTTTTTTCTCTTTTT
1 TTTTTTTTCTCTTTTT
37792829 TTGGGTTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTTCTCTTTTTG
Found at i:37793046 original size:36 final size:36
Alignment explanation
Indices: 37792974--37793043 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
37792964 ATTCTCTTTA
* **
37792974 TTCTCTTTTTCTTTCTTCTTCTTCTTCTTCCTTTCC
1 TTCTCTTTTTCTTTCTTCTTCTCCTTCGGCCTTTCC
37793010 TTCTCTTTTT-TCTTCTTCTTCTCCGTTCGGCCTT
1 TTCTCTTTTTCT-TTCTTCTTCTCC-TTCGGCCTT
37793044 CCTCTTCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 1 0.03
36 21 0.72
37 7 0.24
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.63
Consensus pattern (36 bp):
TTCTCTTTTTCTTTCTTCTTCTCCTTCGGCCTTTCC
Found at i:37793634 original size:30 final size:30
Alignment explanation
Indices: 37793513--37793672 Score: 173
Period size: 30 Copynumber: 5.4 Consensus size: 30
37793503 CAAAACTTTT
* *
37793513 GGGGCCAAAACGTAATTTTAAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTAAGAAAGTTTA
* *
37793543 GGGGTCAAAATGTAAATTTGA-AAAGTTTA
1 GGGGTCAAAATGTAATTTTAAGAAAGTTTA
* *
37793572 GGGGTCAAATTGTAA-TTTAAGAAATTTTA
1 GGGGTCAAAATGTAATTTTAAGAAAGTTTA
** * * *
37793601 GGGGTTGAACTGTAATTTTGAGAAAGTTAA
1 GGGGTCAAAATGTAATTTTAAGAAAGTTTA
*
37793631 GGGGTCAAAATGCAATTTT-AGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTAAG-AAAGTTTA
*
37793661 GGGGTTAAAATG
1 GGGGTCAAAATG
37793673 CAAAAAAATT
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.04
29 43 0.40
30 61 0.56
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTAAGAAAGTTTA
Found at i:37793635 original size:59 final size:58
Alignment explanation
Indices: 37793513--37793672 Score: 194
Period size: 59 Copynumber: 2.7 Consensus size: 58
37793503 CAAAACTTTT
* * * *
37793513 GGGGCCAAAACGTAATTTTAAGAAAGTTTAGGGGTCAAAATGTAAATTTGAAAAGTTTA
1 GGGGTCAAAATGTAA-TTTAAGAAAGTTTAGGGGTTAAAATGTAAATTTGAAAAGTTAA
* * * * *
37793572 GGGGTCAAATTGTAATTTAAGAAATTTTAGGGGTTGAACTGTAATTTTGAGAAAGTTAA
1 GGGGTCAAAATGTAATTTAAGAAAGTTTAGGGGTTAAAATGTAAATTTGA-AAAGTTAA
* *
37793631 GGGGTCAAAATGCAATTTTAGAAAAGTTTAGGGGTTAAAATG
1 GGGGTCAAAATGTAATTTAAG-AAAGTTTAGGGGTTAAAATG
37793673 CAAAAAAATT
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
58 30 0.36
59 37 0.44
60 17 0.20
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (58 bp):
GGGGTCAAAATGTAATTTAAGAAAGTTTAGGGGTTAAAATGTAAATTTGAAAAGTTAA
Found at i:37794185 original size:2 final size:2
Alignment explanation
Indices: 37794178--37794214 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37794168 TATATGGATT
37794178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37794215 GAATTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37794320 original size:3 final size:3
Alignment explanation
Indices: 37794306--37794398 Score: 53
Period size: 3 Copynumber: 31.0 Consensus size: 3
37794296 AAATGGAAAT
* * * * * * *
37794306 ATA ATA ACA ATA ATA TTG ATA ATA ATA CTA ATA CTA ATA CTA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
37794354 ATA AT- ATA TTA GTT TTA ATA ATA ATA TATG ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
37794399 GCCCATATTA
Statistics
Matches: 64, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
2 2 0.03
3 60 0.94
4 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:37795715 original size:12 final size:12
Alignment explanation
Indices: 37795698--37795722 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37795688 AGACCTGATA
37795698 AAATAAGAAAAC
1 AAATAAGAAAAC
37795710 AAATAAGAAAAC
1 AAATAAGAAAAC
37795722 A
1 A
37795723 TCTCCTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAATAAGAAAAC
Found at i:37798752 original size:29 final size:30
Alignment explanation
Indices: 37798720--37798784 Score: 123
Period size: 29 Copynumber: 2.2 Consensus size: 30
37798710 TGATTCAATC
37798720 AAAATTTCTCCAACCCAAATAA-TTTTTTT
1 AAAATTTCTCCAACCCAAATAATTTTTTTT
37798749 AAAATTTCTCCAACCCAAATAATTTTTTTT
1 AAAATTTCTCCAACCCAAATAATTTTTTTT
37798779 AAAATT
1 AAAATT
37798785 ATTATCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAATTTCTCCAACCCAAATAATTTTTTTT
Found at i:37799032 original size:5 final size:5
Alignment explanation
Indices: 37799022--37799046 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37799012 ATTAAAAAAT
37799022 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
37799047 GATAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:37805439 original size:21 final size:21
Alignment explanation
Indices: 37805412--37805485 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
37805402 ACCGTTGTTT
*
37805412 CTAATCTCACCGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
37805433 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
37805454 CTAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
37805475 CTAATCTCACC
1 CTAATCTCACC
37805486 ACCACCGCTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.31, C:0.36, G:0.08, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:37805812 original size:9 final size:10
Alignment explanation
Indices: 37805794--37805829 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
37805784 TCTTCTCCCC
37805794 TTTTCTTTTT
1 TTTTCTTTTT
37805804 TTTTCTTTTT
1 TTTTCTTTTT
37805814 TTTTGCTTTATT
1 TTTT-CTTT-TT
37805826 TTTT
1 TTTT
37805830 TGTGTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 4 0.17
12 6 0.25
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:37811323 original size:20 final size:20
Alignment explanation
Indices: 37811298--37811337 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
37811288 CAGAAAATGA
*
37811298 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
37811318 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
37811338 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:37811413 original size:32 final size:32
Alignment explanation
Indices: 37811330--37811414 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
37811320 TCTGAAAAAT
*
37811330 GATTTACTGAAAATATTTTCTGGTGTTTGGATA
1 GATTT-CTGAAAATATTTTCTGGTGTTTGGACA
* * * *
37811363 AATTTGTGTAAAATATTTTTTGTTGTTTGG-CA
1 GATTTCTG-AAAATATTTTCTGGTGTTTGGACA
37811395 GATTTCCTGAAAATATTTTC
1 GATTT-CTGAAAATATTTTC
37811415 CGGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 17 0.40
33 25 0.60
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (32 bp):
GATTTCTGAAAATATTTTCTGGTGTTTGGACA
Found at i:37812821 original size:35 final size:36
Alignment explanation
Indices: 37812775--37812843 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
37812765 TGTCAATCAT
37812775 TTCAACATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAACATCCAACAAGCTTAAAACATAATCAATAAA
*
37812810 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAACATCCAACAAGCTTAAAACATAATCAATA
37812844 TCTAACAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.20, G:0.03, T:0.25
Consensus pattern (36 bp):
TTCAACATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:37814895 original size:36 final size:36
Alignment explanation
Indices: 37814854--37814935 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
37814844 TATTTAACAT
* *
37814854 ATTATTTATAAAAAAATATGCATTAATAGAAATTTG
1 ATTATTTATAAAAAAATATACATTAACAGAAATTTG
* *
37814890 TTTATTTATAAAAAAATATACATTAGCAGAAATTTG
1 ATTATTTATAAAAAAATATACATTAACAGAAATTTG
*
37814926 ATTATATATA
1 ATTATTTATA
37814936 TGAGTTAGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (36 bp):
ATTATTTATAAAAAAATATACATTAACAGAAATTTG
Found at i:37818208 original size:5 final size:5
Alignment explanation
Indices: 37818198--37818231 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
37818188 GTTGATAGAG
37818198 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
37818232 ATAGAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:37819956 original size:51 final size:51
Alignment explanation
Indices: 37819880--37820015 Score: 227
Period size: 51 Copynumber: 2.7 Consensus size: 51
37819870 TGAGATAGTA
* *
37819880 TAAGACCATGTGAGTGAGGCTCCATGATATCCATAGATATGATATGAGGTG
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
* *
37819931 TAAGACCATGTGAGTGAGGTTCCATGGCATCCATAAATATGATATGAGGTG
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
*
37819982 TAAGACCATGTGAGTGAGGCTCCATGGCATCCAT
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCAT
37820016 TGTGTTAGTC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (51 bp):
TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
Found at i:37822174 original size:36 final size:38
Alignment explanation
Indices: 37822136--37822214 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 38
37822126 ATATTGACTT
* *
37822136 GAAAATGGAAAAGT-AAATTTGAATTGAATTGTG-A-TT
1 GAAAATGAAAAAGTGAAA-TTGAATTGAAATGTGAATTT
*
37822172 GAAAGTGAAAAAGTGAAATTGAATTGAAATGTGAATTT
1 GAAAATGAAAAAGTGAAATTGAATTGAAATGTGAATTT
37822210 GAAAA
1 GAAAA
37822215 GTATGTGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 26 0.72
37 4 0.11
38 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (38 bp):
GAAAATGAAAAAGTGAAATTGAATTGAAATGTGAATTT
Found at i:37822434 original size:21 final size:21
Alignment explanation
Indices: 37822406--37822490 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
37822396 GGCTTTGCCA
* *
37822406 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
37822427 ACCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
37822448 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * *
37822469 TTCAAGCA-CTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
37822489 AT
1 AT
37822491 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 11 0.20
21 43 0.80
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:37826575 original size:21 final size:21
Alignment explanation
Indices: 37826549--37826590 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
37826539 TAATATAAAC
37826549 TATATATTAATAGATAAAATT
1 TATATATTAATAGATAAAATT
* *
37826570 TATATATTAATTGATAGAATT
1 TATATATTAATAGATAAAATT
37826591 GTACGAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
TATATATTAATAGATAAAATT
Found at i:37827206 original size:58 final size:56
Alignment explanation
Indices: 37827085--37827288 Score: 227
Period size: 58 Copynumber: 3.6 Consensus size: 56
37827075 GCTACGTAAT
* * * *
37827085 AATCGAGTTAAATATATAAACAATCAATTC--AAAAGAAGCGGTATTCCAACATAAC
1 AATCGATTTAAACATATAAACAATCGATTCAAAAAAGAAGC-GTATTCCACCATAAC
*
37827140 AACCGATTTAAACATATAAACAATCGATTCAAAAGAAGAAGCAGTATTCCACCATAAC
1 AATCGATTTAAACATATAAACAATCGATTCAAAA-AAGAAGC-GTATTCCACCATAAC
* ** *
37827198 AATTGATTTAAACATATAAACAATCGATTCAAAAAA-AA-CGATATTATACAATATGAC
1 AATCGATTTAAACATATAAACAATCGATTCAAAAAAGAAGCG-TATTCCACCATA--AC
* *
37827255 AATCGATTTAAACATACAAACAATTGATTCAAAA
1 AATCGATTTAAACATATAAACAATCGATTCAAAA
37827289 GAAGTAGTAT
Statistics
Matches: 129, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.01
55 36 0.28
56 2 0.02
57 37 0.29
58 53 0.41
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (56 bp):
AATCGATTTAAACATATAAACAATCGATTCAAAAAAGAAGCGTATTCCACCATAAC
Found at i:37827219 original size:21 final size:20
Alignment explanation
Indices: 37827195--37827283 Score: 53
Period size: 21 Copynumber: 4.5 Consensus size: 20
37827185 ATTCCACCAT
37827195 AACAATTGATTTAAACATATA
1 AACAATTGATTTAAACA-ATA
* *
37827216 AACAATCGATTCAAA-AA-A
1 AACAATTGATTTAAACAATA
* *
37827234 AACGA-T-A-TTATACAATA
1 AACAATTGATTTAAACAATA
* * *
37827251 TGACAATCGATTTAAACATACA
1 -AACAATTGATTTAAACA-ATA
37827273 AACAATTGATT
1 AACAATTGATT
37827284 CAAAAGAAGT
Statistics
Matches: 48, Mismatches: 13, Indels: 14
0.64 0.17 0.19
Matches are distributed among these distances:
15 3 0.06
16 3 0.06
17 1 0.02
18 8 0.17
19 1 0.02
20 2 0.04
21 28 0.58
22 2 0.04
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (20 bp):
AACAATTGATTTAAACAATA
Found at i:37830164 original size:26 final size:26
Alignment explanation
Indices: 37830117--37830175 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
37830107 TCACTTTGAG
37830117 TTAATAAAATTCTCTTTAAGTTTTCTTT
1 TTAA-AAAATTCTCTTTAAGTTTTC-TT
*
37830145 TTAAAAAATTCTC-TTGAGTTTTCTT
1 TTAAAAAATTCTCTTTAAGTTTTCTT
37830170 TTAAAA
1 TTAAAA
37830176 GAGTTTTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 8 0.27
26 9 0.30
27 9 0.30
28 4 0.13
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (26 bp):
TTAAAAAATTCTCTTTAAGTTTTCTT
Found at i:37832215 original size:23 final size:22
Alignment explanation
Indices: 37832188--37832236 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
37832178 ACTTTAGTCC
37832188 TTAGT-TTTGAATTGATTGTAAAT
1 TTAGTCTTTGAA-TG-TTGTAAAT
*
37832211 TTAGTCCTTTGAATGTTGTAATT
1 TTAGT-CTTTGAATGTTGTAAAT
37832234 TTA
1 TTA
37832237 ATGCGATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 2 0.09
25 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (22 bp):
TTAGTCTTTGAATGTTGTAAAT
Found at i:37832500 original size:13 final size:13
Alignment explanation
Indices: 37832484--37832508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37832474 TTAAGATATA
37832484 TTATTATTTTTAG
1 TTATTATTTTTAG
37832497 TTATTATTTTTA
1 TTATTATTTTTA
37832509 ATTTATCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTATTTTTAG
Found at i:37837339 original size:9 final size:8
Alignment explanation
Indices: 37837309--37837335 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
37837299 CTTTTACTAA
37837309 TTTAAAAT
1 TTTAAAAT
37837317 TTTAAAAT
1 TTTAAAAT
37837325 TTTAAAAT
1 TTTAAAAT
37837333 TTT
1 TTT
37837336 TAAAGGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:37855960 original size:28 final size:27
Alignment explanation
Indices: 37855928--37855998 Score: 106
Period size: 28 Copynumber: 2.6 Consensus size: 27
37855918 TTAATAAGTA
* *
37855928 CGCACACTTAGTGCTTTACCATTATACT
1 CGCACACTTAGTGCTTT-CAATTAAACT
37855956 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTTCAATTAAACT
37855984 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37855999 AATCTCATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.03
28 36 0.90
29 3 0.08
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (27 bp):
CGCACACTTAGTGCTTTCAATTAAACT
Found at i:37860731 original size:21 final size:20
Alignment explanation
Indices: 37860671--37860731 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
37860661 TTAAATGGAG
*
37860671 TGCTATTAAAT-GAATTAATT
1 TGCTATTTAATAG-ATTAATT
* *
37860691 TACTATTTAAAAGATATAATT
1 TGCTATTTAATAGAT-TAATT
37860712 TGCTATTTAATAGAGTTAAT
1 TGCTATTTAATAGA-TTAAT
37860732 ATTTTTAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 10 0.30
21 22 0.67
22 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TGCTATTTAATAGATTAATT
Found at i:37862614 original size:21 final size:22
Alignment explanation
Indices: 37862574--37862615 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37862564 AAAGTATAAG
*
37862574 TTTTTAAAAATAGTATTTAAAA
1 TTTTTAAAAATAGTAATTAAAA
*
37862596 TTTTTAAAAAT-TTAATTAAA
1 TTTTTAAAAATAGTAATTAAA
37862616 TACTAACATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAAAAATAGTAATTAAAA
Found at i:37878507 original size:3 final size:3
Alignment explanation
Indices: 37878499--37878536 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37878489 AAATTAGATT
37878499 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37878537 GGTTTCTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37880513 original size:14 final size:13
Alignment explanation
Indices: 37880488--37880545 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
37880478 AGAAAAAAAA
37880488 AAGAGAGAAAGGAG
1 AAGAGAG-AAGGAG
37880502 AAGAGGAGAAGGAG
1 AAGA-GAGAAGGAG
37880516 AAGA-AGAAGAAGAG
1 AAGAGAGAAG--GAG
*
37880530 AAGA-AGAAGAAG
1 AAGAGAGAAGGAG
37880542 AAGA
1 AAGA
37880546 AAGTTTATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 11 0.28
14 26 0.65
15 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGAGAGAAGGAG
Found at i:37880522 original size:3 final size:3
Alignment explanation
Indices: 37880508--37880546 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
37880498 GGAGAAGAGG
*
37880508 AGA AGG AGA AGA AGA AGA AG- AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
37880547 AGTTTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:37880525 original size:20 final size:20
Alignment explanation
Indices: 37880500--37880546 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
37880490 GAGAGAAAGG
* *
37880500 AGAAGAGGAGAAGGAGAAGA
1 AGAAGAAGAGAAGAAGAAGA
37880520 AGAAGAAGAGAAGAAGAAGA
1 AGAAGAAGAGAAGAAGAAGA
37880540 AGAAGAA
1 AGAAGAA
37880547 AGTTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAGAAGAAGAAGA
Found at i:37880732 original size:19 final size:19
Alignment explanation
Indices: 37880710--37880770 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
37880700 TATAGTTTAG
37880710 ATTAGAATTTTGTATGAAT
1 ATTAGAATTTTGTATGAAT
* *
37880729 ATTATAATGTTTTTATGAAT
1 ATTAGAAT-TTTGTATGAAT
*
37880749 ATT-GTAATGTTGTATGAAT
1 ATTAG-AATTTTGTATGAAT
37880768 ATT
1 ATT
37880771 GTAATTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (19 bp):
ATTAGAATTTTGTATGAAT
Found at i:37880771 original size:19 final size:20
Alignment explanation
Indices: 37880718--37880880 Score: 97
Period size: 20 Copynumber: 8.0 Consensus size: 20
37880708 AGATTAGAAT
*
37880718 TTTGTATGAATATTATAATG
1 TTTGTATGAATATTGTAATG
*
37880738 TTTTTATGAATATTGTAATG
1 TTTGTATGAATATTGTAATG
37880758 -TTGTATGAATATTGTAAT-
1 TTTGTATGAATATTGTAATG
*
37880776 TATTTTAT-AATTAAATTTGT-AT-
1 T-TTGTATGAA-T--A-TTGTAATG
* * * *
37880798 TTATAGTTTTGGAT-TAGTAATTT
1 TT-T-G-TATGAATATTGTAA-TG
37880821 TTTGTATGAATATTGTAAT-
1 TTTGTATGAATATTGTAATG
* *
37880840 TTTGTATGAATATTATAAATTT
1 TTTGTATGAATATTGT-AA-TG
37880862 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
37880881 AATATTATAG
Statistics
Matches: 113, Mismatches: 13, Indels: 34
0.71 0.08 0.21
Matches are distributed among these distances:
19 34 0.30
20 36 0.32
21 11 0.10
22 22 0.19
23 6 0.05
24 3 0.03
25 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
TTTGTATGAATATTGTAATG
Found at i:37880861 original size:41 final size:40
Alignment explanation
Indices: 37880715--37880880 Score: 162
Period size: 41 Copynumber: 4.1 Consensus size: 40
37880705 TTTAGATTAG
*
37880715 AATTTTGTATGAATATTATAATGTTTT-TATGAATATTGT
1 AATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* * * *
37880754 AATGTTGTATGAATATTGTAATTATTTTATAATTAA-ATTTGT
1 AATTTTGTATGAATATTATAATT-TTTTGT-ATGAATA-TTGT
* *
37880796 -ATTTATAGTTTTG--GATTAGTAATTTTTTGTATGAATATTGT
1 AATTT-T-G-TATGAATATTA-TAATTTTTTGTATGAATATTGT
37880837 AATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGT
37880878 AAT
1 AAT
37880881 AATATTATAG
Statistics
Matches: 102, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
39 23 0.23
40 6 0.06
41 42 0.41
42 22 0.22
43 6 0.06
44 3 0.03
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (40 bp):
AATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
Found at i:37880867 original size:22 final size:21
Alignment explanation
Indices: 37880717--37880880 Score: 98
Period size: 19 Copynumber: 8.0 Consensus size: 21
37880707 TAGATTAGAA
*
37880717 TTTTGTATGAATATTATAATG
1 TTTTGTATGAATATTATAATT
*
37880738 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTATAATT
* *
37880756 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTATAATT
*
37880777 ATTT-TAT--A-ATTA-AATT
1 TTTTGTATGAATATTATAATT
**
37880793 TGTATT-TATAGTTTTGGATTAGTAATT
1 T-T-TTGTAT-G-AAT--ATTA-TAATT
*
37880820 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTATAATT
37880839 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTAT-AATT
*
37880861 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
37880881 AATATTATAG
Statistics
Matches: 113, Mismatches: 12, Indels: 36
0.70 0.07 0.22
Matches are distributed among these distances:
16 4 0.04
17 4 0.04
18 9 0.08
19 30 0.27
20 18 0.16
21 12 0.11
22 19 0.17
24 1 0.01
25 7 0.06
26 4 0.04
27 5 0.04
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.54
Consensus pattern (21 bp):
TTTTGTATGAATATTATAATT
Found at i:37880963 original size:49 final size:49
Alignment explanation
Indices: 37880833--37881041 Score: 294
Period size: 49 Copynumber: 4.2 Consensus size: 49
37880823 TGTATGAATA
* *
37880833 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAAT
1 TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAAT--T
* * *
37880884 ATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATT
1 -TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
* * *
37880934 TTGTAATTTTGTATGAATATTA-TATTTTTTTGTATGAATGTTGTAATA
1 TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
* *
37880982 TTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
37881031 TTGTAATTTTG
1 TTGTAATTTTG
37881042 CAATTTTTAT
Statistics
Matches: 139, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
48 43 0.31
49 52 0.37
50 1 0.01
52 43 0.31
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (49 bp):
TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
Found at i:37881002 original size:19 final size:19
Alignment explanation
Indices: 37880978--37881035 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 19
37880968 TGAATGTTGT
37880978 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
37880997 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
*
37881019 AATATTGTAATTTTGTA
1 AATATTATAATTTTGTA
37881036 ATTTTGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 14 0.45
22 17 0.55
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:37881006 original size:97 final size:99
Alignment explanation
Indices: 37880833--37881041 Score: 359
Period size: 97 Copynumber: 2.1 Consensus size: 99
37880823 TGTATGAATA
*
37880833 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTTTGTA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTG--ATAATATTATAATTTTGTA
37880898 TGAATATTGCAATTTTTTTGTATGAATATTGTAATT
64 TGAATATTGCAATTTTTTTGTATGAATATTGTAATT
* *
37880934 TTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTG-TAATATTATAATTTTGTATG
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTGTATG
37880997 AATATTGCAATTTTTTTGTATGAATATTGTAATT
66 AATATTGCAATTTTTTTGTATGAATATTGTAATT
37881031 TTGTAATTTTG
1 TTGTAATTTTG
37881042 CAATTTTTAT
Statistics
Matches: 105, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
97 64 0.61
100 18 0.17
101 23 0.22
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (99 bp):
TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTGTATG
AATATTGCAATTTTTTTGTATGAATATTGTAATT
Found at i:37881043 original size:38 final size:40
Alignment explanation
Indices: 37880978--37881055 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 40
37880968 TGAATGTTGT
*
37880978 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATG
1 AATATTATAATTTTG-ATGAATATTGCAATTTTTATGTATG
* *
37881019 AATATTGTAATTTTG-T-AATTTTGCAATTTTTATGTAT
1 AATATTATAATTTTGATGAATATTGCAATTTTTATGTAT
37881056 TTTGTTTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 19 0.56
39 1 0.03
41 14 0.41
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.55
Consensus pattern (40 bp):
AATATTATAATTTTGATGAATATTGCAATTTTTATGTATG
Found at i:37884256 original size:6 final size:6
Alignment explanation
Indices: 37884242--37884295 Score: 90
Period size: 6 Copynumber: 9.0 Consensus size: 6
37884232 GTAGTTCTAC
* *
37884242 CTCTCG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CCCTGG CTCTGG
1 CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG
37884290 CTCTGG
1 CTCTGG
37884296 TGCATGATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.37, G:0.31, T:0.31
Consensus pattern (6 bp):
CTCTGG
Found at i:37886124 original size:38 final size:36
Alignment explanation
Indices: 37886070--37886141 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 36
37886060 TAAAAAACCC
37886070 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTT-A-TTTTTTATAATT
*
37886108 AAACTTTTAATGAAATGATTTTTATTTTTTATAA
1 AAACTTTTAATAAAATGATTTTTATTTTTTATAA
37886142 ACTTTATATG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 10 0.30
37 1 0.03
38 22 0.67
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (36 bp):
AAACTTTTAATAAAATGATTTTTATTTTTTATAATT
Found at i:37886361 original size:19 final size:19
Alignment explanation
Indices: 37886358--37886677 Score: 111
Period size: 19 Copynumber: 17.5 Consensus size: 19
37886348 CATGCAAAAT
37886358 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
37886377 TACAAAAAAATTACAATATTCA
1 TAC---AAAATTACAATATTCA
*
37886399 TACAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
37886415 TACAACATT-C-ATA---A
1 TACAAAATTACAATATTCA
** *
37886429 -A-AAAAAAATAATATTCA
1 TACAAAATTACAATATTCA
*
37886446 TACAAAATTACAA-AAT--
1 TACAAAATTACAATATTCA
*
37886462 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
37886477 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* *
37886495 TACAAAACTATAATATT-A
1 TACAAAATTACAATATTCA
*
37886513 TTACAATATT-C-ATA--CA
1 -TACAAAATTACAATATTCA
*
37886529 -A-AAAATTTATAATATTCA
1 TACAAAA-TTACAATATTCA
37886547 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
37886566 TACAAAAAATTACTA-ATCCAA
1 TAC--AAAATTACAATATTC-A
*
37886587 AACTATAAA-TACATATTTAATT-A
1 TAC-A-AAATTACA-A--T-ATTCA
* *
37886610 TAAAATAATTGCAATATTCA
1 TACAA-AATTACAATATTCA
*
37886630 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
37886649 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
37886669 TACAAAATT
1 TACAAAATT
37886678 CTAATCTAAA
Statistics
Matches: 220, Mismatches: 40, Indels: 82
0.64 0.12 0.24
Matches are distributed among these distances:
12 3 0.01
13 4 0.02
14 16 0.07
15 3 0.01
16 23 0.10
17 4 0.02
18 9 0.04
19 78 0.35
20 33 0.15
21 17 0.08
22 23 0.10
23 5 0.02
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Done.