Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 312 of 313
Found at i:95899271 original size:85 final size:84
Alignment explanation
Indices: 95899124--95899285 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 84
95899114 NNNNNNNNNN
* ** *
95899124 CGAGGCTCCCGCACGACCAGGGGCCTAGGTTGCCGAGGGTGCAGGAGGCTCTCGCACATCCAAGC
1 CGAGGCTCCCGCACGACAAACGGCCTAGGTTGCCGAGGGTCCA-GAGGCTCTCGCACATCCAAGC
95899189 ACCAAGGTGCCGGTGGTGCC
65 ACCAAGGTGCCGGTGGTGCC
* *
95899209 CGAGGCTCCCGCACGACAAACGTCCTAGGTTGCCGATGGCGTCCA-AGGCTC-CAGCACGTCCAA
1 CGAGGCTCCCGCACGACAAACGGCCTAGGTTGCCGA-GG-GTCCAGAGGCTCTC-GCACATCCAA
* *
95899272 GCAGCAATGTGCCG
63 GCACCAAGGTGCCG
95899286 ATGCTCCCGC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.02
85 59 0.89
86 2 0.03
87 4 0.06
ACGTcount: A:0.20, C:0.34, G:0.33, T:0.14
Consensus pattern (84 bp):
CGAGGCTCCCGCACGACAAACGGCCTAGGTTGCCGAGGGTCCAGAGGCTCTCGCACATCCAAGCA
CCAAGGTGCCGGTGGTGCC
Found at i:95899422 original size:13 final size:13
Alignment explanation
Indices: 95899404--95899428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95899394 ATGATTCAAA
95899404 AGGGGAGGGACCT
1 AGGGGAGGGACCT
95899417 AGGGGAGGGACC
1 AGGGGAGGGACC
95899429 GGGACGACTT
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:0.16, G:0.56, T:0.04
Consensus pattern (13 bp):
AGGGGAGGGACCT
Found at i:95899486 original size:23 final size:24
Alignment explanation
Indices: 95899460--95899532 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
95899450 TTCGATATTT
*
95899460 CGGGATGGCTCGTC-GAGCACCGC
1 CGGGATGGCTCGCCGGAGCACCGC
* *
95899483 CGGGATGGCTCACCGGAGCACCAC
1 CGGGATGGCTCGCCGGAGCACCGC
*
95899507 CGGGATGGATCGCCGGAGCACCGC
1 CGGGATGGCTCGCCGGAGCACCGC
95899531 CG
1 CG
95899533 AAAACCTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 12 0.28
24 31 0.72
ACGTcount: A:0.16, C:0.36, G:0.38, T:0.10
Consensus pattern (24 bp):
CGGGATGGCTCGCCGGAGCACCGC
Found at i:95905660 original size:58 final size:59
Alignment explanation
Indices: 95905569--95905689 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
95905559 GGGAGGGACA
* * *
95905569 GGGACGATTCATTCATTGTTGGGTACAGGACATGCAACGGTATCCGAATCCTACC-TTT
1 GGGACGATTCATTCATTATTGGGTACAGAACATGCAACGATATCCGAATCCTACCTTTT
* * *
95905627 GGGACGATTCATTCATTATTGGGTACCGAACATGTAACGATATCCGAATTCTACCTTTT
1 GGGACGATTCATTCATTATTGGGTACAGAACATGCAACGATATCCGAATCCTACCTTTT
95905686 GGGA
1 GGGA
95905690 TTGGGGAGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 49 0.88
59 7 0.12
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (59 bp):
GGGACGATTCATTCATTATTGGGTACAGAACATGCAACGATATCCGAATCCTACCTTTT
Found at i:95907849 original size:36 final size:36
Alignment explanation
Indices: 95907767--95907850 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 36
95907757 AAACCTTCCT
*
95907767 CCTTCTTTCAAACACCCAAACTTAACGATACAGCTT
1 CCTTCTTTCAAACACCCAAACTTAACGATACAGCTA
** *
95907803 CGATCCTTCAAACACCCAAACTTAACGAT-CACGAC-A
1 CCTTCTTTCAAACACCCAAACTTAACGATACA-G-CTA
95907839 CCTTCTTTCAAA
1 CCTTCTTTCAAA
95907851 GCAACAAAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 2 0.05
36 36 0.92
37 1 0.03
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.25
Consensus pattern (36 bp):
CCTTCTTTCAAACACCCAAACTTAACGATACAGCTA
Found at i:95909074 original size:11 final size:10
Alignment explanation
Indices: 95909058--95909107 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 10
95909048 CGCTTGCTTA
*
95909058 CTACCAGACTG
1 CTACCAGGC-G
95909069 CTACCAGGCG
1 CTACCAGGCG
95909079 ACTACCAGGCG
1 -CTACCAGGCG
95909090 CTACCA-G-G
1 CTACCAGGCG
95909098 CTACCAGGCG
1 CTACCAGGCG
95909108 ACATTCATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
8 7 0.20
9 2 0.06
10 8 0.23
11 18 0.51
ACGTcount: A:0.24, C:0.38, G:0.26, T:0.12
Consensus pattern (10 bp):
CTACCAGGCG
Found at i:95909094 original size:21 final size:22
Alignment explanation
Indices: 95909057--95909098 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
95909047 ACGCTTGCTT
95909057 ACTACCAGACTGCTACCAGGCG
1 ACTACCAGACTGCTACCAGGCG
*
95909079 ACTACCAGGC-GCTACCAGGC
1 ACTACCAGACTGCTACCAGGC
95909099 TACCAGGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.26, C:0.38, G:0.24, T:0.12
Consensus pattern (22 bp):
ACTACCAGACTGCTACCAGGCG
Found at i:95909459 original size:58 final size:59
Alignment explanation
Indices: 95909368--95909488 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 59
95909358 GGGAGGGACA
* *
95909368 GGGACGATTCATTCATTGTTGGGTACCGGACATGCAACGGTATCCGAATCCTACC-TTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCCGAATCCTACCTTTT
* *
95909426 GGGACGATTCATTCATTATTGGGTACCGAACATGTAACGGTATCCGAATTCTACCTTTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCCGAATCCTACCTTTT
95909485 GGGA
1 GGGA
95909489 TTGGGGAGGG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 51 0.88
59 7 0.12
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (59 bp):
GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATCCGAATCCTACCTTTT
Found at i:95909563 original size:24 final size:24
Alignment explanation
Indices: 95909522--95909572 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
95909512 TTTGTGTATC
* * *
95909522 CCGGGATGGCTCACCGGATCATCA
1 CCGGGATGGATCACCGGAGCACCA
**
95909546 CCGGGATGGATCGTCGGAGCACCA
1 CCGGGATGGATCACCGGAGCACCA
95909570 CCG
1 CCG
95909573 AGAACCTAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.14
Consensus pattern (24 bp):
CCGGGATGGATCACCGGAGCACCA
Found at i:95911914 original size:31 final size:29
Alignment explanation
Indices: 95911876--95911945 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
95911866 TATTTTATAC
* **
95911876 ATATAATTTCTTTTTTAAAATCTATTTGTAT
1 ATATAATTT-GTTTTTAAAATCTA-TTACAT
*
95911907 ATATAATTGTGTTTTTAAAATTTATTACAT
1 ATATAATT-TGTTTTTAAAATCTATTACAT
95911937 ATATAATTT
1 ATATAATTT
95911946 ATGATAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 12 0.35
31 20 0.59
32 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (29 bp):
ATATAATTTGTTTTTAAAATCTATTACAT
Found at i:95911941 original size:30 final size:31
Alignment explanation
Indices: 95911887--95911944 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
95911877 TATAATTTCT
**
95911887 TTTTTAAAATCTATTTGTATATATAATTGTG
1 TTTTTAAAATCTATTTACATATATAATTGTG
*
95911918 TTTTTAAAATTTA-TTACATATATAATT
1 TTTTTAAAATCTATTTACATATATAATT
95911945 TATGATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (31 bp):
TTTTTAAAATCTATTTACATATATAATTGTG
Found at i:95920951 original size:44 final size:45
Alignment explanation
Indices: 95920869--95921139 Score: 119
Period size: 44 Copynumber: 5.9 Consensus size: 45
95920859 TATTGTGGCA
* * * * * * * *
95920869 AATCTTATCTCCCTAAAGTTACAATGGAGTATATTGAAGCCA-CG
1 AATCTTATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGACAGCG
* *
95920913 AGTCTTATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGACAGCG
* ** *
95920958 AATCTTATTTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGCTACAAATTATGGCG
1 AATCTTATCTCCCTGAAGTTGCA-ACGAAGCAGACTGAAG--AC-----A--GCG
* * *
95921012 AATCTTATCTCCCTGAAGTTGC-A-GTAGAGCAAATTGAAGCCA-C-
1 AATCTTATCTCCCTGAAGTTGCAACG-A-AGCAGACTGAAGACAGCG
* * *
95921055 AAGTCTTATCTCCCTGAAGTTGCAGCAGAA-CAGAATAAAGACAGCG
1 AA-TCTTATCTCCCTGAAGTTGCAAC-GAAGCAGACTGAAGACAGCG
* * * *
95921101 AATCTCATTTCCCT-AATGTCGCAACGGAA-CAGATTGAAG
1 AATCTTATCTCCCTGAA-GTTGCAAC-GAAGCAGACTGAAG
95921140 CCACAAATAC
Statistics
Matches: 174, Mismatches: 32, Indels: 41
0.70 0.13 0.17
Matches are distributed among these distances:
43 2 0.01
44 64 0.37
45 61 0.35
46 6 0.03
47 3 0.02
51 1 0.01
52 3 0.02
53 1 0.01
54 33 0.19
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAACGAAGCAGACTGAAGACAGCG
Found at i:95920996 original size:45 final size:45
Alignment explanation
Indices: 95920901--95921139 Score: 164
Period size: 45 Copynumber: 5.2 Consensus size: 45
95920891 AATGGAGTAT
* * *
95920901 ATTGAAGCCA-CGAGTCTTATCTCCCTGAAGTTGCAAC-GAAGCAG
1 ATTGAAGACAGCGAATCTTATCTCCCTGAAGTTGCAGCAGAA-CAG
* * * **
95920945 ACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAG
1 ATTGAAGACAGCGAATCTTATCTCCCTGAAGTTGCAGCAGAACAG
* * *
95920990 ATTGAAGCTACAAATTATGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAA
1 ATTGAAG--AC-----A--GCGAATCTTATCTCCCTGAAGTTGCAGCAGAACAG
*
95921044 ATTGAAGCCA-C-AAGTCTTATCTCCCTGAAGTTGCAGCAGAACAG
1 ATTGAAGACAGCGAA-TCTTATCTCCCTGAAGTTGCAGCAGAACAG
* * * * * * *
95921088 AATAAAGACAGCGAATCTCATTTCCCT-AATGTCGCAACGGAACAG
1 ATTGAAGACAGCGAATCTTATCTCCCTGAA-GTTGCAGCAGAACAG
95921133 ATTGAAG
1 ATTGAAG
95921140 CCACAAATAC
Statistics
Matches: 153, Mismatches: 27, Indels: 29
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 44 0.29
45 60 0.39
46 5 0.03
47 2 0.01
52 2 0.01
54 38 0.25
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (45 bp):
ATTGAAGACAGCGAATCTTATCTCCCTGAAGTTGCAGCAGAACAG
Found at i:95921068 original size:143 final size:143
Alignment explanation
Indices: 95920864--95921147 Score: 383
Period size: 143 Copynumber: 2.0 Consensus size: 143
95920854 TAAGTTATTG
* * * *
95920864 TGGCAAATCTTATCTCCCTAAAGTTACAATGGAGTATATTGAAGCCACGAGTCTTATCTCCCTGA
1 TGGCAAATCTTATCTCCCTAAAGTTACAATAGAGCAAATTGAAGCCACAAGTCTTATCTCCCTGA
* * * * * **
95920929 AGTTGCAAC-GAAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAA-GTTGCAGTGGAACAGAT
66 AGTTGCAACAGAA-CAGAATAAAGACAGCGAATCTCATTTCCCT-AATGTCGCAACGGAACAGAT
*
95920992 TGAAGCTACAAATTA
129 TGAAGCCACAAATTA
* * * *
95921007 TGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCCACAAGTCTTATCTCCCTGA
1 TGGCAAATCTTATCTCCCTAAAGTTACAATAGAGCAAATTGAAGCCACAAGTCTTATCTCCCTGA
*
95921072 AGTTGCAGCAGAACAGAATAAAGACAGCGAATCTCATTTCCCTAATGTCGCAACGGAACAGATTG
66 AGTTGCAACAGAACAGAATAAAGACAGCGAATCTCATTTCCCTAATGTCGCAACGGAACAGATTG
95921137 AAGCCACAAAT
131 AAGCCACAAAT
95921148 ACACAAACCT
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
142 2 0.02
143 117 0.96
144 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (143 bp):
TGGCAAATCTTATCTCCCTAAAGTTACAATAGAGCAAATTGAAGCCACAAGTCTTATCTCCCTGA
AGTTGCAACAGAACAGAATAAAGACAGCGAATCTCATTTCCCTAATGTCGCAACGGAACAGATTG
AAGCCACAAATTA
Found at i:95935189 original size:24 final size:25
Alignment explanation
Indices: 95935157--95935222 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
95935147 ATATGATTCG
*
95935157 TTAACTCGACTTGAATTTT-TTTAC
1 TTAATTCGACTTGAATTTTGTTTAC
*
95935181 TTAATTCGATTTGAAATTTTGTTTAC
1 TTAATTCGACTTG-AATTTTGTTTAC
* *
95935207 TTGATTCGACTCGAAT
1 TTAATTCGACTTGAAT
95935223 CGATCGAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 11 0.31
25 9 0.26
26 15 0.43
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (25 bp):
TTAATTCGACTTGAATTTTGTTTAC
Found at i:95935723 original size:10 final size:11
Alignment explanation
Indices: 95935698--95935722 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
95935688 AAAATTATTT
95935698 AAAATCATAAA
1 AAAATCATAAA
95935709 AAAATCATAAA
1 AAAATCATAAA
95935720 AAA
1 AAA
95935723 TTTAAATAAC
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATCATAAA
Found at i:95941626 original size:26 final size:26
Alignment explanation
Indices: 95941595--95941650 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
95941585 TGAAATGCCC
95941595 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
95941621 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
95941647 ATCA
1 ATCA
95941651 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:95942084 original size:25 final size:25
Alignment explanation
Indices: 95942050--95942102 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
95942040 CTCACCACAA
*
95942050 CTCATATGAGCTTACTG-ATTTGCAG
1 CTCATATGAGCTTACCGTATTT-CAG
95942075 CTCATATGAGCTTACCGTATTTCAG
1 CTCATATGAGCTTACCGTATTTCAG
95942100 CTC
1 CTC
95942103 GGAGGAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (25 bp):
CTCATATGAGCTTACCGTATTTCAG
Found at i:95945359 original size:13 final size:13
Alignment explanation
Indices: 95945343--95945375 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
95945333 TTTAATTTAA
*
95945343 TTAGTTAATTAGT
1 TTAGATAATTAGT
95945356 TTAGATAATTAGT
1 TTAGATAATTAGT
95945369 TTA-ATAA
1 TTAGATAA
95945376 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:95956329 original size:15 final size:16
Alignment explanation
Indices: 95956309--95956341 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
95956299 TTAGAAATCA
95956309 TTTCAAATTTCAA-AT
1 TTTCAAATTTCAACAT
*
95956324 TTTCAATTTTCAACAT
1 TTTCAAATTTCAACAT
95956340 TT
1 TT
95956342 AGACATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTCAAATTTCAACAT
Found at i:95958109 original size:40 final size:39
Alignment explanation
Indices: 95958033--95958109 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
95958023 ATACTATGTG
95958033 GGGATAAAATCAACCCACCCAACCTTACACAGCAAGTATA
1 GGGATAAAATCAACCCACCCAACCTTACACA-CAAGTATA
* *
95958073 GGGATAGAATCAACCCATCCAACTCTATACAC-CAAGT
1 GGGATAAAATCAACCCACCCAAC-CT-TACACACAAGT
95958110 GGTACCGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 26 0.79
41 2 0.06
42 5 0.15
ACGTcount: A:0.40, C:0.30, G:0.13, T:0.17
Consensus pattern (39 bp):
GGGATAAAATCAACCCACCCAACCTTACACACAAGTATA
Found at i:95964487 original size:63 final size:64
Alignment explanation
Indices: 95964415--95964540 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 64
95964405 GCAAGAACCT
95964415 ACCTAACCCATAAATTTAGATTCAGTCAAAAAGTTTTCCAAAAAT-AAAA-AAAAGAAGAAGAAG
1 ACCTAACCCATAAATTTAGATTCAGTCAAAAAGTTTTCCAAAAATGAAAAGAAAAGAA-AAGAAG
95964478 ACCTAACCCATAAATTTAGATTCAGTCAAAAAGTTTTCCAAAAATGAAAAGAAAAGAAAAGAA
1 ACCTAACCCATAAATTTAGATTCAGTCAAAAAGTTTTCCAAAAATGAAAAGAAAAGAAAAGAA
95964541 AAGAAAAGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
63 45 0.74
64 9 0.15
65 7 0.11
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (64 bp):
ACCTAACCCATAAATTTAGATTCAGTCAAAAAGTTTTCCAAAAATGAAAAGAAAAGAAAAGAAG
Found at i:95964533 original size:5 final size:5
Alignment explanation
Indices: 95964518--95964567 Score: 91
Period size: 5 Copynumber: 9.8 Consensus size: 5
95964508 AAGTTTTCCA
95964518 AAAATG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
95964568 CGGAGAGGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:95964974 original size:53 final size:53
Alignment explanation
Indices: 95964894--95964997 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
95964884 GGTCCCAATC
95964894 AATTTCCTTCTTATTACATTTGTTATCTTTGATTAACTTATTCACTTCGAGTT
1 AATTTCCTTCTTATTACATTTGTTATCTTTGATTAACTTATTCACTTCGAGTT
* * *
95964947 AATTTCCTTCTTATTGCATTT-TCTATCTTTGATTAATTTATTCATTTCGAG
1 AATTTCCTTCTTATTACATTTGT-TATCTTTGATTAACTTATTCACTTCGAG
95964998 CTATGCTCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (53 bp):
AATTTCCTTCTTATTACATTTGTTATCTTTGATTAACTTATTCACTTCGAGTT
Found at i:95967298 original size:28 final size:29
Alignment explanation
Indices: 95967238--95967298 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
95967228 AACTGTTTTG
* * *
95967238 TTATTATTTATTTTAAGTTTGTTTTCTTA
1 TTATTATTTATTTTAAGATCGTTTTATTA
95967267 -TATTATTTATTTTAA-ATCGTTTTATTA
1 TTATTATTTATTTTAAGATCGTTTTATTA
95967294 TTATT
1 TTATT
95967299 TAATTTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (29 bp):
TTATTATTTATTTTAAGATCGTTTTATTA
Found at i:95985510 original size:49 final size:48
Alignment explanation
Indices: 95985404--95985534 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 48
95985394 AGCACATCAA
* *
95985404 AGTCGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATTG
1 AGTCGATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATATATCG
* ** * *
95985452 AGGCTGATGCTGTGTCCCAGACAAGTCTTACACTGGCTCTCATCTATCG
1 AGTC-GATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATATATCG
* *
95985501 ATGTCGATGCCATGTCCCAAACAGGTCTTACACT
1 A-GTCGATGCCATGTCCCAGACAAGTCTTACACT
95985535 AACACACATC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.04
49 64 0.93
50 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
AGTCGATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATATATCG
Found at i:95986408 original size:20 final size:19
Alignment explanation
Indices: 95986372--95986421 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
95986362 TTTAGCAACT
*
95986372 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
95986391 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
95986411 CA-ACTTTACAA
1 CACA-TTTACAA
95986422 AATAGCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:95987432 original size:48 final size:48
Alignment explanation
Indices: 95987361--95987456 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
95987351 TAAAGTTAAC
*
95987361 ACTAACCTGTATTTTTTCAGCCCACCATTCTTTGGTAGCATCAACCGT
1 ACTAACCTGTATTTTTTCAGCCCACCATTCTTCGGTAGCATCAACCGT
95987409 ACTAACCTGTATTTTTTCAGCCCACCATTCTTCGGTAGCATCAACCGT
1 ACTAACCTGTATTTTTTCAGCCCACCATTCTTCGGTAGCATCAACCGT
95987457 CTTTTTAGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.34
Consensus pattern (48 bp):
ACTAACCTGTATTTTTTCAGCCCACCATTCTTCGGTAGCATCAACCGT
Found at i:95989307 original size:33 final size:33
Alignment explanation
Indices: 95989240--95989307 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
95989230 CAATAATCAC
* * **
95989240 TGTTTTAGTTCTCAAATCTGAAAAACAAGTGGT
1 TGTTTTAGTTCCCAAATCTGAAAAAAAAAAGGT
95989273 TGTTTT-GTTCCCAAATCTGAAAACAAAAAAGGT
1 TGTTTTAGTTCCCAAATCTGAAAA-AAAAAAGGT
95989306 TG
1 TG
95989308 GGAAAGATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTTTTAGTTCCCAAATCTGAAAAAAAAAAGGT
Found at i:95990750 original size:22 final size:23
Alignment explanation
Indices: 95990725--95990780 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
95990715 TAGCTCATAT
95990725 GAGCTTACTGTTT-AGC-AAGATA
1 GAGCTTACTGTTTCAGCTAA-ATA
* *
95990747 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTAAATA
95990770 GAGCTTACTGT
1 GAGCTTACTGT
95990781 CCATCAGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.41
23 16 0.55
24 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTAAATA
Found at i:95997093 original size:3 final size:3
Alignment explanation
Indices: 95997085--95997110 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
95997075 TGTTCTTTAA
95997085 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
95997111 TACTTACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:96000832 original size:46 final size:46
Alignment explanation
Indices: 96000717--96000835 Score: 177
Period size: 46 Copynumber: 2.6 Consensus size: 46
96000707 GCCCATAAGC
* * * * *
96000717 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAAT
96000763 GAACTCAGG-CTCAACTCAACGAGTTCGAACATTCGCATCCATAAAT
1 GAACTC-GGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAAT
96000809 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
96000836 GATGCTCAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.03
46 62 0.94
47 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAAT
Found at i:96002084 original size:42 final size:42
Alignment explanation
Indices: 96002019--96002178 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
96002009 GGTCTTACAT
* * * *
96002019 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATTAAATACG
1 ATGCCAATATCCCAGACAGGGTCTTACACGAAATTAAATACG
* * *
96002061 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-TG
1 ATGCCAATATCCCAGACAGGGTCTTACACG-AAAT-T-AAATACG
* * * * *
96002105 ATGACAACATCCCAGA-TGTGGTCTTACACGAAATCATATATCG
1 ATGCCAATATCCCAGACAG-GGTCTTACACGAAATTAAATA-CG
* *
96002148 ATACCACTATCCCAGACAGGGTCTTACACGA
1 ATGCCAATATCCCAGACAGGGTCTTACACGA
96002179 TATCTCACAT
Statistics
Matches: 93, Mismatches: 18, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.03
42 26 0.28
43 33 0.35
44 27 0.29
45 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATATCCCAGACAGGGTCTTACACGAAATTAAATACG
Found at i:96002184 original size:86 final size:86
Alignment explanation
Indices: 96002028--96002185 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 86
96002018 TATGCCACTG
* * * * *
96002028 TCCCAGATAGGGTCTTACATGAAATTAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 TCCCAGATAGGGTCTTACACGAAATCAAATACGATACCAATATCCCAGACAGGGTCTTACACGTA
96002093 AATCTCAAATTGATGACAACA
66 AATCTCAAATTGATGACAACA
* *
96002114 TCCCAGAT-GTGGTCTTACACGAAATCATATATCGATACCACTATCCCAGACAGGGTCTTACACG
1 TCCCAGATAG-GGTCTTACACGAAATCAAATA-CGATACCAATATCCCAGACAGGGTCTTACACG
*
96002178 -ATATCTCA
64 TAAATCTCA
96002186 CATCTCAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.02
86 33 0.53
87 28 0.45
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (86 bp):
TCCCAGATAGGGTCTTACACGAAATCAAATACGATACCAATATCCCAGACAGGGTCTTACACGTA
AATCTCAAATTGATGACAACA
Found at i:96004526 original size:12 final size:12
Alignment explanation
Indices: 96004509--96004533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96004499 TAATTAAATG
96004509 AATTAAAAGCCA
1 AATTAAAAGCCA
96004521 AATTAAAAGCCA
1 AATTAAAAGCCA
96004533 A
1 A
96004534 TTTTTGTCCA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:96028492 original size:44 final size:43
Alignment explanation
Indices: 96028381--96028538 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
96028371 GTGAGATATT
* * * * *
96028381 GTGTAAGACCCTGTCTGAGATAGTGGCATCGATATATGATTTC
1 GTGTAAGACCATGTCTGAGACATTGGCATCGATTTAAGATTTC
** * * *
96028424 GTGTAAGACCACCTCTGGGGCATTGTCATCGATTTAAGATTTAC
1 GTGTAAGACCATGTCTGAGACATTGGCATCGATTTAAGATTT-C
* *
96028468 GTGTAAGACCATGTCTGAGACATTGGCATCGTATTT-A-CTTTT
1 GTGTAAGACCATGTCTGAGACATTGGCATCG-ATTTAAGATTTC
* * *
96028510 GTGTAAGACCCTGTCTGGGACAGTGGCAT
1 GTGTAAGACCATGTCTGAGACATTGGCAT
96028539 GTGTAAGACC
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 26 0.28
43 35 0.38
44 28 0.30
45 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGAGACATTGGCATCGATTTAAGATTTC
Found at i:96028567 original size:29 final size:29
Alignment explanation
Indices: 96028509--96028571 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
96028499 TATTTACTTT
* *
96028509 TGTGTAAGACCCTGTCTGGGACAGTGGCA
1 TGTGTAAGACCATGTCTGGGACAGTAGCA
*
96028538 TGTGTAAGACCATGTTTGGGAC-GTTAGCA
1 TGTGTAAGACCATGTCTGGGACAG-TAGCA
96028567 T-TGTA
1 TGTGTA
96028572 CGAGTTTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (29 bp):
TGTGTAAGACCATGTCTGGGACAGTAGCA
Found at i:96054719 original size:12 final size:12
Alignment explanation
Indices: 96054702--96054726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96054692 GGAAAAAAAA
96054702 TTGGCTTTTAAT
1 TTGGCTTTTAAT
96054714 TTGGCTTTTAAT
1 TTGGCTTTTAAT
96054726 T
1 T
96054727 CATTTAATTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:96061639 original size:37 final size:37
Alignment explanation
Indices: 96061578--96061656 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
96061568 TTATTACGAA
* * *
96061578 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
*
96061615 GTCTTACCCGAACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCT-CCACACGAAGTCATCGG
96061652 GTCTT
1 GTCTT
96061657 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
Found at i:96061853 original size:47 final size:47
Alignment explanation
Indices: 96061775--96062062 Score: 450
Period size: 47 Copynumber: 6.1 Consensus size: 47
96061765 CCCTTCGGGA
* * * * * * *
96061775 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
96061822 CCCGTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96061869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96061916 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96061963 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96062012 CTTATCACATATATCCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96062059 CTTA
1 CTTA
96062063 CTATCATTTC
Statistics
Matches: 223, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 176 0.79
49 47 0.21
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96069303 original size:13 final size:13
Alignment explanation
Indices: 96069285--96069309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96069275 AATTTTTTTA
96069285 TTTTTAATTAATG
1 TTTTTAATTAATG
96069298 TTTTTAATTAAT
1 TTTTTAATTAAT
96069310 AAATATATTA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:96073655 original size:21 final size:21
Alignment explanation
Indices: 96073629--96073670 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
96073619 CTTTACACCA
*
96073629 CATTGTGGATAAACCACTCAT
1 CATTGTGGACAAACCACTCAT
*
96073650 CATTGTGGACGAACCACTCAT
1 CATTGTGGACAAACCACTCAT
96073671 GGACAAACCA
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:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (21 bp):
CATTGTGGACAAACCACTCAT
Found at i:96076056 original size:28 final size:27
Alignment explanation
Indices: 96076013--96076073 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
96076003 CTATTTAGTG
*
96076013 ACAGTACAGTGTGGGCCTTAGCCAAAT
1 ACAGTACAGTGTGGGCCCTAGCCAAAT
* *
96076040 TCAGTATCAGTGTGGGCCCTAGCCCAAT
1 ACAGTA-CAGTGTGGGCCCTAGCCAAAT
96076068 ACAGTA
1 ACAGTA
96076074 ACATTACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCCTAGCCAAAT
Found at i:96076480 original size:27 final size:27
Alignment explanation
Indices: 96076450--96076523 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
96076440 TAAAAATTAG
*
96076450 TTTACCCTATAGGGGTATTTCAGTCAT
1 TTTACCCTATAGGGGTATTTCAATCAT
*
96076477 TTTACCCTTTAGGGGTATTTCAATCAT
1 TTTACCCTATAGGGGTATTTCAATCAT
*
96076504 TTTACCTTAT-GGGGCTATTT
1 TTTACCCTATAGGGG-TATTT
96076524 TGGTAATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTTCAATCAT
Found at i:96077684 original size:50 final size:50
Alignment explanation
Indices: 96077609--96077708 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
96077599 TGTGTGGGGT
*
96077609 TCGAGCCTATACCTAGTAGATTCAGACCGGTGGGTTAAATTTTGTTATAC
1 TCGAGCCTATACCTAGTAGATTCAGACCGGTGGGTTAAATTGTGTTATAC
96077659 TCGAGCCTATACCTAGTAGATTCAGACCGGTGGGTTAAATTGTGTTATAC
1 TCGAGCCTATACCTAGTAGATTCAGACCGGTGGGTTAAATTGTGTTATAC
96077709 CTATGTGCGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (50 bp):
TCGAGCCTATACCTAGTAGATTCAGACCGGTGGGTTAAATTGTGTTATAC
Found at i:96079062 original size:75 final size:75
Alignment explanation
Indices: 96078973--96079197 Score: 441
Period size: 75 Copynumber: 3.0 Consensus size: 75
96078963 TAAATGGTAC
*
96078973 ATAGTTAAATGAAGATGGAAGCTTGATAAGATTTTATTTAGAATGGAAGTAGGAGAAATGTGTAT
1 ATAGTTAAATGAAGATGGAAGCTTGATAAAATTTTATTTAGAATGGAAGTAGGAGAAATGTGTAT
96079038 TCGGCCATGT
66 TCGGCCATGT
96079048 ATAGTTAAATGAAGATGGAAGCTTGATAAAATTTTATTTAGAATGGAAGTAGGAGAAATGTGTAT
1 ATAGTTAAATGAAGATGGAAGCTTGATAAAATTTTATTTAGAATGGAAGTAGGAGAAATGTGTAT
96079113 TCGGCCATGT
66 TCGGCCATGT
96079123 ATAGTTAAATGAAGATGGAAGCTTGATAAAATTTTATTTAGAATGGAAGTAGGAGAAATGTGTAT
1 ATAGTTAAATGAAGATGGAAGCTTGATAAAATTTTATTTAGAATGGAAGTAGGAGAAATGTGTAT
96079188 TCGGCCATGT
66 TCGGCCATGT
96079198 TGTGATGAGT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 149 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (75 bp):
ATAGTTAAATGAAGATGGAAGCTTGATAAAATTTTATTTAGAATGGAAGTAGGAGAAATGTGTAT
TCGGCCATGT
Found at i:96081490 original size:14 final size:14
Alignment explanation
Indices: 96081471--96081498 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96081461 TCAACCTTAA
96081471 ATTCAAAGACTAAG
1 ATTCAAAGACTAAG
96081485 ATTCAAAGACTAAG
1 ATTCAAAGACTAAG
96081499 CTTGCCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
ATTCAAAGACTAAG
Found at i:96088948 original size:22 final size:22
Alignment explanation
Indices: 96088923--96088969 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
96088913 TGCCAACAGA
96088923 GTTTTGAAAAGTTAAAAGCACT
1 GTTTTGAAAAGTTAAAAGCACT
*
96088945 GTTTTGAAAATTTAAAAGCACT
1 GTTTTGAAAAGTTAAAAGCACT
96088967 GTT
1 GTT
96088970 AACTGAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (22 bp):
GTTTTGAAAAGTTAAAAGCACT
Found at i:96092324 original size:36 final size:36
Alignment explanation
Indices: 96092248--96092324 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
96092238 ATTGTTTTAT
* * * * *
96092248 ATATATTTTTCCTTTTAAATCTATCTATCTATCTAT
1 ATATATATTTCCTTTCAAACCTATCTATCTATATAC
*
96092284 ATATATATTTCCTTTCAAACCTAT-TATGTATATCAC
1 ATATATATTTCCTTTCAAACCTATCTATCTATAT-AC
96092320 ATATA
1 ATATA
96092325 CTTTAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.49
Consensus pattern (36 bp):
ATATATATTTCCTTTCAAACCTATCTATCTATATAC
Found at i:96104158 original size:19 final size:20
Alignment explanation
Indices: 96104136--96104182 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
96104126 TGATGGGCTT
* *
96104136 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
96104155 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
96104175 -AATGCAAA
1 TAATGCAAA
96104183 GAAAGCGTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:96113376 original size:40 final size:40
Alignment explanation
Indices: 96113332--96113595 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
96113322 GCTCCTCGTT
* *
96113332 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
96113372 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
96113412 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
96113452 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
96113492 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
96113531 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
96113572 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96113596 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:96122230 original size:40 final size:40
Alignment explanation
Indices: 96122186--96122447 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
96122176 GCTCCTCGTT
* *
96122186 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
96122226 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
96122266 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
96122305 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
96122344 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
96122383 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
96122424 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96122448 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:96127149 original size:40 final size:40
Alignment explanation
Indices: 96127072--96127333 Score: 411
Period size: 40 Copynumber: 6.6 Consensus size: 40
96127062 AAACCAAGTA
* * * *
96127072 CCTTCGGAATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
96127111 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
96127151 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
96127191 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
96127231 CCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
96127271 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
96127311 CCTTAGGGACTTAGCCGGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
96127334 CATTCGAATA
Statistics
Matches: 211, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
39 13 0.06
40 198 0.94
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:96136356 original size:21 final size:21
Alignment explanation
Indices: 96136301--96136356 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
96136291 GTGTAAAGAG
*
96136301 AGGCACATGGCCATGTGACTA
1 AGGCACATGGCCGTGTGACTA
* *
96136322 AGGCACACGCCCGTGTGGACT-
1 AGGCACATGGCCGTGT-GACTA
*
96136343 AGGGACATGGCCGT
1 AGGCACATGGCCGT
96136357 AGGAACAGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.23, C:0.27, G:0.34, T:0.16
Consensus pattern (21 bp):
AGGCACATGGCCGTGTGACTA
Found at i:96140474 original size:25 final size:27
Alignment explanation
Indices: 96140435--96140484 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
96140425 TTCCAAAAAG
*
96140435 AAAAGAGAAGAAGCCAAAAAGAAAACC
1 AAAAGAGAAGAAGCCAAAAACAAAACC
96140462 AAAAGA-AA-AAGCCAAAAACAAAA
1 AAAAGAGAAGAAGCCAAAAACAAAA
96140485 AGAATACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 2 0.09
27 6 0.27
ACGTcount: A:0.72, C:0.14, G:0.14, T:0.00
Consensus pattern (27 bp):
AAAAGAGAAGAAGCCAAAAACAAAACC
Found at i:96140834 original size:22 final size:22
Alignment explanation
Indices: 96140804--96140850 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
96140794 AAAATTTACA
96140804 AAAGAAGAAGATAGAAAG-AAAG
1 AAAGAAGAAGA-AGAAAGAAAAG
*
96140826 AAAGGAGAAGAAGAAAGAAAAG
1 AAAGAAGAAGAAGAAAGAAAAG
96140848 AAA
1 AAA
96140851 AGAAAAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (22 bp):
AAAGAAGAAGAAGAAAGAAAAG
Found at i:96140844 original size:25 final size:27
Alignment explanation
Indices: 96140806--96140855 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
96140796 AATTTACAAA
*
96140806 AGAAGAAGATAG-AAAG-AAAGAAAGG
1 AGAAGAAGAAAGAAAAGAAAAGAAAGG
96140831 AGAAGAAGAAAGAAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAAAGAAA
96140856 AGGTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 4 0.18
27 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (27 bp):
AGAAGAAGAAAGAAAAGAAAAGAAAGG
Found at i:96140853 original size:17 final size:17
Alignment explanation
Indices: 96140819--96140854 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
96140809 AGAAGATAGA
* *
96140819 AAGAAAGAAAGGAGAAG
1 AAGAAAGAAAAGAAAAG
96140836 AAGAAAGAAAAGAAAAG
1 AAGAAAGAAAAGAAAAG
96140853 AA
1 AA
96140855 AAGGTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAAGAAAAG
Found at i:96143815 original size:131 final size:132
Alignment explanation
Indices: 96143532--96143929 Score: 460
Period size: 131 Copynumber: 3.0 Consensus size: 132
96143522 TTGCCTCGCC
* * * * *
96143532 TTAGAAAATATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAAAAAATGGGAGATTGCAAC
1 TTAGAAAACATGAGTGAAATTTCGAAGGGATATTCGATTATTTTGAACAAATGAGAAATTGCAAC
* * * *
96143597 CCAGCACGATAAGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCCCTCGTTTTAAAGAGT
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGT
96143662 TT
131 TT
* * * * * * **
96143664 TTAGAAAACATGAGTAAAATTTCGAAGGAATCTTCAATTGTTTTGAACAAATGAAAAAGCGCAAC
1 TTAGAAAACATGAGTGAAATTTCGAAGGGATATTCGATTATTTTGAACAAATGAGAAATTGCAAC
* * *
96143729 CCAGCACGATAGGGCACGATT-CTCAAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGT
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGT
96143793 TT
131 TT
* * * * * *
96143795 TTAGGAACCATGAGTGAAA-TTCTAAAGGGATGTTCGATTATTTTGAGCAAACGAGAAATTGCAA
1 TTAGAAAACATGAGTGAAATTTC-GAAGGGATATTCGATTATTTTGAACAAATGAGAAATTGCAA
* * * * * * *
96143859 TCCAGCACGATAGGACACGATTCCGCGGATTGCCAAACATCGAACATTGCCTTTGTTTTGAAAG-
65 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCG-TTTCAAAGA
96143923 GTTT
129 GTTT
96143927 TTA
1 TTA
96143930 AATGAATAAT
Statistics
Matches: 221, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
130 3 0.01
131 107 0.48
132 104 0.47
133 7 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (132 bp):
TTAGAAAACATGAGTGAAATTTCGAAGGGATATTCGATTATTTTGAACAAATGAGAAATTGCAAC
CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGT
TT
Found at i:96144285 original size:14 final size:14
Alignment explanation
Indices: 96144266--96144295 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96144256 AACACGACAC
96144266 AAAAATAATGGACT
1 AAAAATAATGGACT
*
96144280 AAAAATGATGGACT
1 AAAAATAATGGACT
96144294 AA
1 AA
96144296 CAGTCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAATAATGGACT
Found at i:96150691 original size:149 final size:145
Alignment explanation
Indices: 96150533--96151219 Score: 1071
Period size: 146 Copynumber: 4.7 Consensus size: 145
96150523 TATTTTGGTA
* * *
96150533 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTATAATTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
96150598 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTAGTAAAAAACTA
66 TTTAGTACATAATGTTTCAAATGTATTA--TTT-TAGTTTTTTATATTAATTTAGTAAAAAACTA
96150663 TGATTTTGGCCATTTGTTT
128 TGATTTTGGCCATTT-TTT
* *
96150682 TTTATTTTATTTTCGGATTTTACTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
96150747 TTTAGTACATAATATTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTTTGA
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTATGA
*
96150812 TTTTGGCCATTTATT
131 TTTTGGCCATTTTTT
*
96150827 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
* *
96150892 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGAAAAAAAAACTC
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAG--TAAAAAACTA
*
96150957 TGATTTTGGCCCTTTTTT
128 TGATTTTGGCCATTTTTT
* *
96150975 ATT-TTTT-TTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
* *
96151038 TTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAATCTGTG
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTATG
*
96151101 ATTTTGGCC--GTTTT
130 ATTTTGGCCATTTTTT
* *
96151115 TTGATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
96151180 TTTAGTACATAATTTTTCAAATGTATTATTTTAGTTTTTT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTT
96151220 NNNNNNNNNN
Statistics
Matches: 502, Mismatches: 29, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
140 5 0.01
141 34 0.07
142 59 0.12
143 20 0.04
144 32 0.06
145 51 0.10
146 181 0.36
147 7 0.01
148 26 0.05
149 87 0.17
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.59
Consensus pattern (145 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTATGA
TTTTGGCCATTTTTT
Found at i:96153885 original size:64 final size:63
Alignment explanation
Indices: 96153764--96153920 Score: 287
Period size: 64 Copynumber: 2.5 Consensus size: 63
96153754 AATTGAGCTT
*
96153764 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCTAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
96153827 ATGTTGTAATGTATTTAATTTATATAAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATAT-AAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
*
96153891 ATGTTGTAATGTATTTAATTTATATTAAAA
1 ATGTTGTAATGTATTTAATTTATATAAAAA
96153921 GACTAAATTT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
63 29 0.32
64 62 0.68
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (63 bp):
ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
Found at i:96154502 original size:72 final size:72
Alignment explanation
Indices: 96154416--96154555 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 72
96154406 ATCCGCCCCC
* * *
96154416 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCTAAATGATAATAAGTATCAGCTGAATGTG
1 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
96154481 AATGCGA
66 AATGCGA
** * * * **
96154488 TGACGAGCCCGAGAAATTTTCATTGCTCTGTAAATCCGGATGATAAGAAGTATCAGCCGAATGTG
1 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
96154553 AAT
66 AAT
96154556 ATGATCGCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (72 bp):
TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
AATGCGA
Found at i:96156858 original size:146 final size:143
Alignment explanation
Indices: 96156492--96157387 Score: 1341
Period size: 146 Copynumber: 6.1 Consensus size: 143
96156482 TATTTTGGTA
* * *
96156492 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTATAATTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
96156557 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTAGTAAAAAACTA
66 TTTAGTACATAATGTTTCAAATGTATTA--TTT-TAGTTTTTTATATTAATTTAGTAAAAAACTC
96156622 TGATTTTGGCCATTTGTTT
128 TGATTTTGGCC--TT-TTT
* *
96156641 TTTATTTTATTTTCGGATTTTACTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
96156706 TTTAGTACATAATATTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTTTGA
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTGA
96156771 TTTTGGCCATTTATT
131 TTTTGGCC-TTT-TT
*
96156786 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
*
96156851 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGAAAAAAAAACTC
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAG--TAAAAAACTC
96156916 TGATTTTGGCCCTTTTT
128 TGATTTTGG-CCTTTTT
*
96156933 TATT-TTTT-TTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATT
1 T-TTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* *
96156996 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAATCTGT
64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCT
*
96157061 GATTTTGGCCGTTTT
129 GATTTTGGCCTTTTT
* *
96157076 TTGATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
96157141 TTTAGTACATAATTTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAACTCTG
*
96157205 CTTTTGGCCGTTTGTTTT
130 ATTTTGGCC---T-TTTT
* * *
96157223 TTTATTTTATTTTCAGATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTTTATAATA
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
* *
96157288 TTTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTCT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTATATTAATTTAGTAAAAAACTCT
*
96157353 GATTTTGGTC-TTTT
129 GATTTTGGCCTTTTT
*
96157367 TTTATTTTATTTTCAGATTTT
1 TTTATTTTATTTTCGGATTTT
96157388 TTAAAATATA
Statistics
Matches: 694, Mismatches: 37, Indels: 37
0.90 0.05 0.05
Matches are distributed among these distances:
142 1 0.00
143 73 0.11
144 102 0.15
145 53 0.08
146 211 0.30
147 65 0.09
148 83 0.12
149 106 0.15
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (143 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTGA
TTTTGGCCTTTTT
Found at i:96157315 original size:291 final size:288
Alignment explanation
Indices: 96156492--96157387 Score: 1372
Period size: 291 Copynumber: 3.1 Consensus size: 288
96156482 TATTTTGGTA
** * *
96156492 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTATAATTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
96156557 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTAGTAAAAAACTA
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAG--TTTTTTTATATTAATTTAGT-AAAAACTC
*
96156622 TGATTTTGGCCATTTG-TTTTTTATTTTATTTTCGGATTTTACTTTTTAAAATATACTATTTTTG
128 TGATTTTGGCC-TTTGTTTTTTTATTTTATTTTCGGATTTTA-TTTTTAAAATATACTATTTTCG
*
96156686 TATTTTA-TTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTTTTTTATAT
191 TATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATAT
*
96156750 TAATTTAGTAAAAAACTTTGATTTTGGCCATTTATT
256 TAATTTAGTAAAAAACTCTGATTTTGGCC--TT-TT
* *
96156786 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTA
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
*
96156851 TTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGAAAAAAAAACT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG---TAAAAACT
* * *
96156915 CTGATTTTGGCCCTT-TTTTATT-TTTT-TTTTCGGATTTTATTTTTTAAAATATATTATTTTCG
127 CTGATTTTGGCCTTTGTTTTTTTATTTTATTTTCGGATTTTA-TTTTTAAAATATACTATTTTCG
96156977 TATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATAT
191 TATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATAT
* *
96157042 TAATTTAGTAAAAATCTGTGATTTTGGCCGTTTT
256 TAATTTAGTAAAAAACTCTGATTTTGGCC-TTTT
*
96157076 TTGATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
96157141 TTTAGTACATAATTTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAACTCTGC
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAACTCTGA
*
96157206 TTTTGGCCGTTTGTTTTTTTATTTTATTTTCAGATTTTATTTTTCAAAATATACTATTTTCGTAT
131 TTTTGGCC-TTTGTTTTTTTATTTTATTTTCGGATTTTATTTTT-AAAATATACTATTTTCGTAT
* * *
96157271 TTTATTTTTTTATAATATTTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTA
194 TTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTATATTA
*
96157336 ATTTAGTAAAAAACTCTGATTTTGGTCTTTT
258 ATTTAGTAAAAAACTCTGATTTTGGCCTTTT
96157367 TTTATTTTATTTTCAGATTTT
1 TTTATTTTATTTTCAGATTTT
96157388 TTAAAATATA
Statistics
Matches: 556, Mismatches: 33, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
287 18 0.03
288 2 0.00
289 52 0.09
290 78 0.14
291 148 0.27
292 139 0.25
293 7 0.01
294 67 0.12
295 45 0.08
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (288 bp):
TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAACTCTGA
TTTTGGCCTTTGTTTTTTTATTTTATTTTCGGATTTTATTTTTAAAATATACTATTTTCGTATTT
TATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATT
TAGTAAAAAACTCTGATTTTGGCCTTTT
Found at i:96157400 original size:14 final size:14
Alignment explanation
Indices: 96157383--96157411 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
96157373 TTATTTTCAG
96157383 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
96157397 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
96157411 A
1 A
96157412 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:96157567 original size:5 final size:5
Alignment explanation
Indices: 96157553--96157581 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
96157543 CACACTTACC
96157553 AAAT- AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA
96157582 TTTTTTGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:96157884 original size:12 final size:12
Alignment explanation
Indices: 96157869--96157908 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
96157859 CTTCTTCTCC
96157869 TTCTCTTTTTCT
1 TTCTCTTTTTCT
96157881 TTCTCTTTTTCT
1 TTCTCTTTTTCT
*
96157893 TTTTCTTTTTTCT
1 TTCTC-TTTTTCT
96157906 TTC
1 TTC
96157909 CTCAGCAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (12 bp):
TTCTCTTTTTCT
Found at i:96157884 original size:18 final size:18
Alignment explanation
Indices: 96157863--96157900 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
96157853 CTTCTTCTTC
96157863 TTCTCCTTCTCTTTTTCT
1 TTCTCCTTCTCTTTTTCT
* *
96157881 TTCTCTTTTTCTTTTTCT
1 TTCTCCTTCTCTTTTTCT
96157899 TT
1 TT
96157901 TTTCTTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTCCTTCTCTTTTTCT
Found at i:96157900 original size:6 final size:6
Alignment explanation
Indices: 96157872--96157907 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
96157862 CTTCTCCTTC
*
96157872 TCTTTT TCTTTC TCTTTT TCTTTT TCTTTTT TCTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT TCTTT
96157908 CCTCAGCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:96158086 original size:22 final size:22
Alignment explanation
Indices: 96158058--96158102 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
96158048 CAAAAGAAAA
96158058 GGCAGTGAGCAGTCCCGTCGGT
1 GGCAGTGAGCAGTCCCGTCGGT
96158080 GGCAGTGAGCAGTCCCGTCGGT
1 GGCAGTGAGCAGTCCCGTCGGT
96158102 G
1 G
96158103 CAGAGCAATG
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:0.13, C:0.27, G:0.42, T:0.18
Consensus pattern (22 bp):
GGCAGTGAGCAGTCCCGTCGGT
Found at i:96159651 original size:88 final size:88
Alignment explanation
Indices: 96159548--96159723 Score: 289
Period size: 88 Copynumber: 2.0 Consensus size: 88
96159538 GGTCATTAAA
*
96159548 GCATGAATACATTGTTTTATCTTCATGAATTATTGTTAAATGAACTATATATATACGAGTAGAGT
1 GCATGAATACATTGTTTTATCTTCATGAATTATCGTTAAATGAACTATATATATACGAGTAGAGT
96159613 GTAATTGCATGTGAGAGTATATG
66 GTAATTGCATGTGAGAGTATATG
* * ** *
96159636 GCATGAATACGTTGTTTTATCTTGATGAATTATCGTTAAATGAGTTATATATATACGAGTTGAGT
1 GCATGAATACATTGTTTTATCTTCATGAATTATCGTTAAATGAACTATATATATACGAGTAGAGT
*
96159701 GTAATTGTATGTGAGAGTATATG
66 GTAATTGCATGTGAGAGTATATG
96159724 TTAGCTTTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (88 bp):
GCATGAATACATTGTTTTATCTTCATGAATTATCGTTAAATGAACTATATATATACGAGTAGAGT
GTAATTGCATGTGAGAGTATATG
Found at i:96161934 original size:22 final size:22
Alignment explanation
Indices: 96161906--96161949 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
96161896 AAGCACTTTT
96161906 ACTAAATTTATAATGTTGAGGG
1 ACTAAATTTATAATGTTGAGGG
*
96161928 ACTAAATTTTTAATGTTGAGGG
1 ACTAAATTTATAATGTTGAGGG
96161950 TCAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (22 bp):
ACTAAATTTATAATGTTGAGGG
Found at i:96161956 original size:22 final size:22
Alignment explanation
Indices: 96161909--96161957 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
96161899 CACTTTTACT
*
96161909 AAATTTATAATGTTGAGGGACT
1 AAATTTATAATGTTGAGGGACA
* *
96161931 AAATTTTTAATGTTGAGGGTCA
1 AAATTTATAATGTTGAGGGACA
96161953 AAATT
1 AAATT
96161958 ATCCTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (22 bp):
AAATTTATAATGTTGAGGGACA
Found at i:96164934 original size:22 final size:22
Alignment explanation
Indices: 96164906--96164949 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
96164896 GTGGANTTTT
96164906 ACTAAATTTATAATGTTGAGGG
1 ACTAAATTTATAATGTTGAGGG
*
96164928 ACTAAATTTTTAATGTTGAGGG
1 ACTAAATTTATAATGTTGAGGG
96164950 TCAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (22 bp):
ACTAAATTTATAATGTTGAGGG
Found at i:96164956 original size:22 final size:22
Alignment explanation
Indices: 96164909--96164957 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
96164899 GANTTTTACT
*
96164909 AAATTTATAATGTTGAGGGACT
1 AAATTTATAATGTTGAGGGACA
* *
96164931 AAATTTTTAATGTTGAGGGTCA
1 AAATTTATAATGTTGAGGGACA
96164953 AAATT
1 AAATT
96164958 ATCCTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (22 bp):
AAATTTATAATGTTGAGGGACA
Found at i:96170081 original size:14 final size:14
Alignment explanation
Indices: 96170052--96170080 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
96170042 AATCTTTGTG
96170052 TTATTTATTTTATT
1 TTATTTATTTTATT
96170066 TTATTT-TTTTATT
1 TTATTTATTTTATT
96170079 TT
1 TT
96170081 TCACATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTATTTATTTTATT
Found at i:96171704 original size:21 final size:19
Alignment explanation
Indices: 96171610--96171705 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 19
96171600 TATTTCTAAG
*
96171610 TAATTA-ATATTAATTATT
1 TAATTATATATTAAATATT
* *
96171628 TAATAAATTTGATTAGAATATT
1 TAAT-TATAT-ATTA-AATATT
*
96171650 TAATTATATTTTAAATATT
1 TAATTATATATTAAATATT
*
96171669 TAAATATAATAATTAAATATTT
1 TAATTAT-AT-ATTAAATA-TT
96171691 GTAATTATATATTAA
1 -TAATTATATATTAA
96171706 CACAGTTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
18 4 0.07
19 13 0.21
20 6 0.10
21 19 0.31
22 13 0.21
23 6 0.10
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TAATTATATATTAAATATT
Found at i:96173655 original size:46 final size:46
Alignment explanation
Indices: 96173574--96173688 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
96173564 CGAGTGCTAG
96173574 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-CGTAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATCGTAA-CCAA
* * * * ** *
96173620 TGTAAGACATGTCTGGGACATTCGTTGG-CTACGAGATGGTAATTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATCGTAACCAA
96173666 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
96173689 GCTTCAACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.03
46 38 0.66
47 18 0.31
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATCGTAACCAA
Found at i:96176038 original size:27 final size:27
Alignment explanation
Indices: 96176007--96176184 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
96175997 TAAATTGTAC
96176007 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
96176034 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96176060 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
96176088 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
96176116 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96176143 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
96176170 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
96176185 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:96176121 original size:82 final size:81
Alignment explanation
Indices: 96176008--96176163 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
96175998 AAATTGTACA
* *
96176008 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
96176072 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
96176089 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
96176154 TGCGAGTTGA
65 TGCGAATTGA
96176164 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:96176175 original size:82 final size:81
Alignment explanation
Indices: 96176004--96176184 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
96175994 GATTAAATTG
* *
96176004 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
96176069 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
96176085 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
96176149 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
96176167 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
96176185 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:96176195 original size:27 final size:27
Alignment explanation
Indices: 96176089--96176195 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
96176079 TGACCATGCG
* * * *
96176089 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
96176117 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
96176144 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
96176171 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
96176196 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:96184102 original size:27 final size:27
Alignment explanation
Indices: 96184068--96184244 Score: 180
Period size: 27 Copynumber: 6.5 Consensus size: 27
96184058 TAAACTGTAC
96184068 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
96184095 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
96184121 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGATA-TGACTATGT
* *
96184149 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
96184177 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* *
96184204 AGCACTAAGTGTGCGAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
96184231 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
96184245 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 104 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:96184183 original size:82 final size:81
Alignment explanation
Indices: 96184069--96184224 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
96184059 AAACTGTACA
* *
96184069 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
96184133 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
96184150 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
96184215 TGCGAGTTGA
65 TGCGAATTGA
96184225 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:96184236 original size:82 final size:81
Alignment explanation
Indices: 96184065--96184244 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 81
96184055 GATTAAACTG
* *
96184065 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
96184130 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
96184146 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
96184210 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
96184228 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
96184245 NNNNNNNNNN
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:96185973 original size:324 final size:324
Alignment explanation
Indices: 96185384--96186042 Score: 1273
Period size: 324 Copynumber: 2.0 Consensus size: 324
96185374 CAGCCAGCAC
*
96185384 CATGGGCGTGTTGTCCAGCTGTGTCTCCCCTGTACATAAAAATTTCAAGTCATTATGCATGATAG
1 CATGGGCGTGTTGTCCAGCTGTGTCTCCCCTGTACATAAAAATTTCAAGTCATTATGCATAATAG
96185449 TAAACACACGGGCAGAGAAACAACCGTTTGTCTTTGCCGTGTGAAGAGCACGGTCTAGCACACGG
66 TAAACACACGGGCAGAGAAACAACCGTTTGTCTTTGCCGTGTGAAGAGCACGGTCTAGCACACGG
*
96185514 GCATGTGCCTTGGCCATGTAACCCTTATGAAATGCTGACGTTAGAAAAAGAATGTCCAGTTTTTT
131 GCATGTGCCTTGGCCATGTAACCCTTATGAAATGCTGACGTCAGAAAAAGAATGTCCAGTTTTTT
*
96185579 GCACATGGGCTAGGACACGAGCGTGTCATGGCCATGTGAAGGACACGGGCCAGAAACACGGGCGT
196 GCACACGGGCTAGGACACGAGCGTGTCATGGCCATGTGAAGGACACGGGCCAGAAACACGGGCGT
96185644 GTGCCAGGCAGTGTGAAAACCCCTGTAGGTGTGCATTTACAATTAATTCCACACAGGTGGAGAA
261 GTGCCAGGCAGTGTGAAAACCCCTGTAGGTGTGCATTTACAATTAATTCCACACAGGTGGAGAA
96185708 CATGGGCGTGTTGTCCAGCTGTGTCTCCCCTGTACATAAAAATTTCAAGTCATTATGCATAATAG
1 CATGGGCGTGTTGTCCAGCTGTGTCTCCCCTGTACATAAAAATTTCAAGTCATTATGCATAATAG
*
96185773 TAAACACACGGGCAGAGACACAACCGTTTGTCTTTGCCGTGTGAAGAGCACGGTCTAGCACACGG
66 TAAACACACGGGCAGAGAAACAACCGTTTGTCTTTGCCGTGTGAAGAGCACGGTCTAGCACACGG
96185838 GCATGTGCCTTGGCCATGTAACCCTTATGAAATGCTGACGTCAGAAAAAGAATGTCCAGTTTTTT
131 GCATGTGCCTTGGCCATGTAACCCTTATGAAATGCTGACGTCAGAAAAAGAATGTCCAGTTTTTT
96185903 GCACACGGGCTAGGACACGAGCGTGTCATGGCCATGTGAAGGACACGGGCCAGAAACACGGGCGT
196 GCACACGGGCTAGGACACGAGCGTGTCATGGCCATGTGAAGGACACGGGCCAGAAACACGGGCGT
*
96185968 GTGCCAGGCAGTGTGAAAACCCCTGTAGGTGTGCATTTACAATTAATTCCACATAGGTGGAGAA
261 GTGCCAGGCAGTGTGAAAACCCCTGTAGGTGTGCATTTACAATTAATTCCACACAGGTGGAGAA
96186032 CATGGGCGTGT
1 CATGGGCGTGT
96186043 CCCTGTCTTG
Statistics
Matches: 330, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
324 330 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (324 bp):
CATGGGCGTGTTGTCCAGCTGTGTCTCCCCTGTACATAAAAATTTCAAGTCATTATGCATAATAG
TAAACACACGGGCAGAGAAACAACCGTTTGTCTTTGCCGTGTGAAGAGCACGGTCTAGCACACGG
GCATGTGCCTTGGCCATGTAACCCTTATGAAATGCTGACGTCAGAAAAAGAATGTCCAGTTTTTT
GCACACGGGCTAGGACACGAGCGTGTCATGGCCATGTGAAGGACACGGGCCAGAAACACGGGCGT
GTGCCAGGCAGTGTGAAAACCCCTGTAGGTGTGCATTTACAATTAATTCCACACAGGTGGAGAA
Found at i:96186143 original size:21 final size:22
Alignment explanation
Indices: 96186104--96186144 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
96186094 TTGGAATGCT
*
96186104 CACACGGGTGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
96186126 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
96186145 GTGTCATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:96190887 original size:172 final size:176
Alignment explanation
Indices: 96190468--96191155 Score: 630
Period size: 177 Copynumber: 3.9 Consensus size: 176
96190458 TTTAATCTTT
* * * * * * *
96190468 AGTCTACTTCTTTGCTACCTCAAGAAGATAAGACTTCAAT-TGCCAACATGCTCTCTTGCTACCT
1 AGTCTGCTTCCTTCCTACATCACGAAGATAAGAC-TCAATCT-TCAACCTGCTCTCTTGCTACCT
* * * * * * * *
96190532 CAAAGAGATAAAGTTAGTGACTAAAATCTGCTTCATCGCCGATACATGGAGATAAGATTCGCC-T
64 CAGAGAGATAAGGCTGGTG-GTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAT
* * * * * * * *
96190596 CCTC-CA-ATCTGCTCCGC--CAGTACTTAGGGAAATAAGATATTTAA-TCTTC
128 -CTCGAAGATCTACTCCACTGCAAT-CTCAGGGAGATAA-A-CTTCAATTC-TC
* * ** * * ** * * *
96190645 AATCTACTTTTTTTCTACTTCAAAAAGATAAGACTCAATCTTCAACCCGTTCTGTTGCTACCTCA
1 AGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCA
* * *
96190710 GAGAGATAAGACTGGTGGTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTAACCAT-T-
66 GAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTC
**** * *
96190773 TTTTATCTGCTCTACTGCAA-CTTCAGGGAGAT-AA-TTCAATTCTC
131 GAAGATCTACTCCACTGCAATC-TCAGGGAGATAAACTTCAATTCTC
* * * * *
96190817 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCATGCTACCTCA
1 AGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCA
* *
96190882 GAGAGATAAGGTTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGACTCACCATCTG
66 GAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCT-
*
96190947 CGAAGATCTACTCCGCTGCAATCTCAGGGAGATAAAATCTTCAATTCTC
130 CGAAGATCTACTCCACTGCAATCTCAGGGAGAT-AAA-CTTCAATTCTC
* * **
96190996 AGTCTGCTTCCTTCCTACATCACGAAGATCAGACTCACTCTTCAGTCTGCTCTCTTGCTACCTCA
1 AGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCA
* *
96191061 -A-AGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTG
66 GAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCT-
* *
96191124 TGAAGATCTGCTCCACTGCAATCTCAGGGAGA
130 CGAAGATCTACTCCACTGCAATCTCAGGGAGA
96191156 CAAAATCTTC
Statistics
Matches: 426, Mismatches: 69, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
172 115 0.27
173 3 0.01
174 2 0.00
175 71 0.17
176 46 0.11
177 121 0.28
178 1 0.00
179 67 0.16
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (176 bp):
AGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCA
GAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTC
GAAGATCTACTCCACTGCAATCTCAGGGAGATAAACTTCAATTCTC
Found at i:96190932 original size:86 final size:84
Alignment explanation
Indices: 96190670--96190939 Score: 194
Period size: 86 Copynumber: 3.1 Consensus size: 84
96190660 TACTTCAAAA
* * * * *
96190670 AGATAAGACTCAATCTTCAACCCGTTCTGTTGCTACCTCAGAGAGATAAGACTGGTGGTAAAATC
1 AGATAAGACTCATTCTTCAACCTGCTCT-ATGCTACCTCAGAGAGATAAG-TTGGTGGTAAAATC
*
96190735 TACTCCATTGCCGATACATGG
64 TGCTCCATTGCCGATACATGG
* ** * * * * ** ** *
96190756 AGATAAGATTAACCATT-TTTTATCTGCTCTACTGCAACTTCAGGGAGATAA-TTCAATTCT-CA
1 AGATAAGACT---CATTCTTCAACCTGCTCTA-TGCTACCTCAGAGAGATAAGTT-GGTGGTAAA
* *
96190818 GTCTGCTTCC-TTG-C--TACCTCAGG
61 ATCTGC-TCCATTGCCGATACAT--GG
96190841 AAGATAAGACTCATTCTTCAACCTGCTCTCATGCTACCTCAGAGAGATAAGGTTGGTGGTAAAAT
1 -AGATAAGACTCATTCTTCAACCTGCTCT-ATGCTACCTCAGAGAGATAA-GTTGGTGGTAAAAT
96190906 CTGCTCCATTGCCGATACATGG
63 CTGCTCCATTGCCGATACATGG
96190928 AGATAAGACTCA
1 AGATAAGACTCA
96190940 CCATCTGCGA
Statistics
Matches: 132, Mismatches: 34, Indels: 36
0.65 0.17 0.18
Matches are distributed among these distances:
83 8 0.06
84 26 0.20
85 9 0.07
86 50 0.38
87 8 0.06
88 24 0.18
89 7 0.05
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (84 bp):
AGATAAGACTCATTCTTCAACCTGCTCTATGCTACCTCAGAGAGATAAGTTGGTGGTAAAATCTG
CTCCATTGCCGATACATGG
Found at i:96191120 original size:177 final size:178
Alignment explanation
Indices: 96190511--96191168 Score: 671
Period size: 172 Copynumber: 3.7 Consensus size: 178
96190501 CTTCAATTGC
* * * * * * * *
96190511 CAACATGCTCTCTTGCTACCTCAAAGAGATAAAGTTAGTGACTAAAATCTGCTTCATCGCCGATA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG-GTAAAATCTGCTCCATTGCCGATA
* ** * * * * * *
96190576 CATGGAGATAAGATTCGCC-TCCT-CCA-ATCTGCTCCGC--CAGTACTTAGGGAAATAAGATAT
65 CATGGAGATAAGATTCACCAT-CTGGAAGATCTGCTCCACTGCAAT-CTCAGGGAGATAAAATCT
* * * ** * * ** *
96190636 TTAA-TCTTCAATCTACTTTTTTTCTACTTCAAAAAGATAAGACTCAATCTT
128 TCAATTC-TCAGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCACTCTT
* * * * *
96190687 CAACCCGTTCTGTTGCTACCTCAGAGAGATAAGACTGGTGGTAAAATCTACTCCATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* **** *
96190752 ATGGAGATAAGATTAACCAT-T-TTTTATCTGCTCTACTGCAA-CTTCAGGGAGAT--AA--TTC
66 ATGGAGATAAGATTCACCATCTGGAAGATCTGCTCCACTGCAATC-TCAGGGAGATAAAATCTTC
* * * *
96190810 AATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTT
130 AATTCTCAGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCACTCTT
* *
96190859 CAACCTGCTCTCATGCTACCTCAGAGAGATAAGGTTGGTGGTAAAATCTGCTCCATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* * *
96190924 ATGGAGATAAGACTCACCATCTGCGAAGATCTACTCCGCTGCAATCTCAGGGAGATAAAATCTTC
66 ATGGAGATAAGATTCACCATCTG-GAAGATCTGCTCCACTGCAATCTCAGGGAGATAAAATCTTC
*
96190989 AATTCTCAGTCTGCTTCCTTCCTACATCACGAAGATCAGACTCACTCTT
130 AATTCTCAGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCACTCTT
** * *
96191038 CAGTCTGCTCTCTTGCTACCTCA-A-AGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
*
96191101 ATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCACTGCAATCTCAGGGAGACAAAATCTTC
66 ATGGAGATAAGATTCACCATCTG-GAAGATCTGCTCCACTGCAATCTCAGGGAGATAAAATCTTC
96191166 AAT
130 AAT
96191169 CTTTACCAAT
Statistics
Matches: 402, Mismatches: 66, Indels: 27
0.81 0.13 0.05
Matches are distributed among these distances:
172 115 0.29
173 3 0.01
174 2 0.00
175 70 0.17
176 41 0.10
177 103 0.26
178 1 0.00
179 67 0.17
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (178 bp):
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
ATGGAGATAAGATTCACCATCTGGAAGATCTGCTCCACTGCAATCTCAGGGAGATAAAATCTTCA
ATTCTCAGTCTGCTTCCTTCCTACATCACGAAGATAAGACTCACTCTT
Found at i:96192417 original size:54 final size:53
Alignment explanation
Indices: 96192285--96192428 Score: 186
Period size: 54 Copynumber: 2.7 Consensus size: 53
96192275 GATTATTATT
*
96192285 AAGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCCCTTTCCATTTTTATTTG
1 AAGTCTCAAAGCGCCCTTTGTAGGTTTTCACTTTGGCCC--TCCATTTTTATTTG
* * * *
96192340 --GTCTTAAAGCGCCCTTTGCAGGTTTTCACTTTGGACCC-CCCTTTTTTTTTG
1 AAGTCTCAAAGCGCCCTTTGTAGGTTTTCACTTTGG-CCCTCCATTTTTATTTG
96192391 AAAGTCTCAAAGCGCCCTTTGTAGGTTTTCACTTTGGC
1 -AAGTCTCAAAGCGCCCTTTGTAGGTTTTCACTTTGGC
96192429 TTCCCTCCCC
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
51 11 0.14
53 32 0.41
54 35 0.45
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (53 bp):
AAGTCTCAAAGCGCCCTTTGTAGGTTTTCACTTTGGCCCTCCATTTTTATTTG
Found at i:96204614 original size:177 final size:179
Alignment explanation
Indices: 96204171--96204670 Score: 680
Period size: 177 Copynumber: 2.8 Consensus size: 179
96204161 CTACTTCAAA
* *
96204171 AAGATAAGACTCAATCTTCAGCCCGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAAT
1 AAGATAAGACTCAATCTTCAGCCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAAT
* **** *
96204236 CTAG-TCCATTGCCGATACATGGAGATAAGATTAACCAT-T--TTTTATCTGCTCCACTACAA-C
66 CT-GCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCACTGCAATC
*
96204296 TTCAGGGAGAT--AA--TTCAATTCTCAATCTGCTTCCTTGCTACCTCAGG
130 -TCAGGGAGATAAAATCTTCAATTCTCAATCTGCTTCCTTGCTACATCAGG
* * * * * *
96204343 AAGATAAGACTCATTCTTCAACCTACTCTCATGTTACCTCAGAGAGATGAGGTTGGTGGTAAAAT
1 AAGATAAGACTCAATCTTCAGCCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAAT
* * * *
96204408 CTGCTCCATTGCCGATACATGGAGATAAGACTCACCATCTGCGAAGATCTACTCCGCTGTAATCT
66 CTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCACTGCAATCT
* *
96204473 CAGGGAGATAAAATCTTCAATTCTTAGTCTGCTTCCTTGCTACATCAGG
131 CAGGGAGATAAAATCTTCAATTCTCAATCTGCTTCCTTGCTACATCAGG
* *
96204522 AAGATAAGACTCACTCTTCAGTCTGCTCTCTTGCTACCTCA-A-AGATGAGGCTGGTGGTAAAAT
1 AAGATAAGACTCAATCTTCAGCCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAAT
*
96204585 CTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATTTGCTCCACTGCAATCT
66 CTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCACTGCAATCT
*
96204650 CAGGGAGACAAAATCTTCAAT
131 CAGGGAGATAAAATCTTCAAT
96204671 CTTTACCAAT
Statistics
Matches: 285, Mismatches: 34, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
171 1 0.00
172 91 0.32
173 1 0.00
175 22 0.08
176 1 0.00
177 102 0.36
178 1 0.00
179 66 0.23
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (179 bp):
AAGATAAGACTCAATCTTCAGCCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAAT
CTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCACTGCAATCT
CAGGGAGATAAAATCTTCAATTCTCAATCTGCTTCCTTGCTACATCAGG
Found at i:96208967 original size:21 final size:21
Alignment explanation
Indices: 96208943--96209009 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
96208933 ATCCCTTGGA
* **
96208943 CACACAGGCGTGTGTTATCTT
1 CACACAGGCGTATGCCATCTT
*
96208964 CACACGGGCGTATGCCATCTT
1 CACACAGGCGTATGCCATCTT
*
96208985 CACACAGGTGTATGCC-TCTTT
1 CACACAGGCGTATGCCATC-TT
96209006 CACA
1 CACA
96209010 TGGGCATGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (21 bp):
CACACAGGCGTATGCCATCTT
Found at i:96216098 original size:40 final size:39
Alignment explanation
Indices: 96216054--96216192 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 39
96216044 CATATCCGGA
* * *
96216054 CTAAGATCCGAAGACATTTTTGCGAGATACTAATTCCGAG
1 CTAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGAG
* * *
96216094 CTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAG
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGAG
* *
96216133 TTAAGTCCCGAAGGCATTTGTGCGAG-TCACTATAA-CCGGG
1 CTAAGT-CCGAAGGCATTTGTGCGAGAT-ACTA-AATCCGAG
*
96216173 CTATGTCCCGAAGGCATTTG
1 CTAAGT-CCGAAGGCATTTG
96216193 AACGAGTAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 33 0.39
40 49 0.58
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGAG
Found at i:96216117 original size:39 final size:40
Alignment explanation
Indices: 96216074--96216190 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 40
96216064 AAGACATTTT
*
96216074 TGCGAGATACTAATTCCGAGCTAAG-CCCGAAGGCATTGG
1 TGCGAGATACTAAATCCGAGCTAAGTCCCGAAGGCATTGG
* * *
96216113 TGCGAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTG
1 TGCGAGATACTAAATCCGAGCTAAGTCCCGAAGGCATTGG
* *
96216153 TGCGAG-TCACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TGCGAGAT-ACTA-AATCCGAGCTAAGTCCCGAAGGCATT
96216191 TGAACGAGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 23 0.34
40 43 0.63
41 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TGCGAGATACTAAATCCGAGCTAAGTCCCGAAGGCATTGG
Found at i:96216414 original size:13 final size:13
Alignment explanation
Indices: 96216396--96216420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96216386 TGGCCCAACC
96216396 AAAAATTATAGAA
1 AAAAATTATAGAA
96216409 AAAAATTATAGA
1 AAAAATTATAGA
96216421 TGCATATATG
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAATTATAGAA
Found at i:96221164 original size:31 final size:31
Alignment explanation
Indices: 96221123--96221186 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
96221113 CCTTTTCATA
*
96221123 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
96221154 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
96221185 TT
1 TT
96221187 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:96221455 original size:23 final size:23
Alignment explanation
Indices: 96221401--96221542 Score: 239
Period size: 23 Copynumber: 6.1 Consensus size: 23
96221391 CCTAGCCTCT
* * *
96221401 TTTAATAACTGGGGTAAAAGACCT
1 TTTAATAACTGGGGCATAAG-CCC
96221425 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96221448 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
96221471 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96221494 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96221517 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
96221540 TTT
1 TTT
96221543 TTCACTTCCT
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
23 95 0.84
24 18 0.16
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:96221618 original size:20 final size:20
Alignment explanation
Indices: 96221593--96221659 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
96221583 TTATGATTAC
96221593 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
96221613 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
96221633 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
96221653 ACCATGT
1 ATCATGT
96221660 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:96221624 original size:11 final size:11
Alignment explanation
Indices: 96221593--96221648 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
96221583 TTATGATTAC
96221593 ATCATGTGCAT
1 ATCATGTGCAT
*
96221604 ATCA--TACAT
1 ATCATGTGCAT
96221613 ATCATGTGCAT
1 ATCATGTGCAT
*
96221624 ATCA--TACAT
1 ATCATGTGCAT
*
96221633 GTCATGTGCAT
1 ATCATGTGCAT
96221644 ATCAT
1 ATCAT
96221649 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:96231711 original size:22 final size:22
Alignment explanation
Indices: 96231684--96231727 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
96231674 GAAAATGATA
96231684 AAAATTAAACAAAATTAATTAT
1 AAAATTAAACAAAATTAATTAT
** *
96231706 AAAATTAATTAAAATTCATTAT
1 AAAATTAAACAAAATTAATTAT
96231728 TTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTAAACAAAATTAATTAT
Found at i:96234290 original size:3 final size:3
Alignment explanation
Indices: 96234282--96234306 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96234272 ATATATTTAC
96234282 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
96234307 ATTTTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96234521 original size:14 final size:14
Alignment explanation
Indices: 96234470--96234560 Score: 52
Period size: 15 Copynumber: 6.6 Consensus size: 14
96234460 AATAAAGAAT
96234470 AAATA-AAAGAAAG
1 AAATAGAAAGAAAG
* * *
96234483 AAAAACAAGAAAAAG
1 AAATAGAA-AGAAAG
96234498 AAACT-GAGAAGAAACG
1 AAA-TAGA-AAGAAA-G
96234514 AAATAGAAAGAAAG
1 AAATAGAAAGAAAG
96234528 -AA-AGAAAG-AAG
1 AAATAGAAAGAAAG
96234539 AAA-AGAAAAGAAA-
1 AAATAG-AAAGAAAG
*
96234552 AAAGAGAAA
1 AAATAGAAA
96234561 TTAGGGTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
11 3 0.05
12 10 0.16
13 16 0.25
14 7 0.11
15 20 0.32
16 7 0.11
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (14 bp):
AAATAGAAAGAAAG
Found at i:96234528 original size:30 final size:28
Alignment explanation
Indices: 96234475--96234556 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 28
96234465 AGAATAAATA
*
96234475 AAAGAAAGAAAA-ACAAG-AAAAAGAAAC
1 AAAG-AAGAAAAGAAAAGAAAAAAGAAAC
** * *
96234502 TGAGAAGAAACGAAATAGAAAGAAAGAAAG
1 AAAGAAGAAAAGAAA-AGAAA-AAAGAAAC
96234532 AAAGAAGAAAAGAAAAGAAAAAAGA
1 AAAGAAGAAAAGAAAAGAAAAAAGA
96234557 GAAATTAGGG
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.14
27 4 0.09
28 7 0.16
29 7 0.16
30 19 0.44
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.02
Consensus pattern (28 bp):
AAAGAAGAAAAGAAAAGAAAAAAGAAAC
Found at i:96234560 original size:30 final size:30
Alignment explanation
Indices: 96234504--96234560 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
96234494 AAAGAAACTG
* *
96234504 AGAAGAAACGAAATAGAAAGAAAGAAAGAA
1 AGAAGAAAAGAAATAGAAAAAAAGAAAGAA
96234534 AGAAGAAAAGAAA-AGAAAAAAGAGAAA
1 AGAAGAAAAGAAATAGAAAAAA-AGAAA
96234561 TTAGGGTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (30 bp):
AGAAGAAAAGAAATAGAAAAAAAGAAAGAA
Found at i:96234811 original size:13 final size:13
Alignment explanation
Indices: 96234793--96234820 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
96234783 CAAGGTCATA
96234793 AGTTTTGTGTTAT
1 AGTTTTGTGTTAT
96234806 AGTTTTGTGTTAT
1 AGTTTTGTGTTAT
96234819 AG
1 AG
96234821 GGATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (13 bp):
AGTTTTGTGTTAT
Found at i:96240142 original size:18 final size:17
Alignment explanation
Indices: 96240115--96240151 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
96240105 ATTCTTTATT
*
96240115 TTATTAATATATTATAA
1 TTATTAATATAATATAA
96240132 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
96240150 TT
1 TT
96240152 TACTTTATAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:96244340 original size:17 final size:18
Alignment explanation
Indices: 96244314--96244360 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
96244304 TAGCAGTTCT
* *
96244314 AGGACGTTTTCTAGTT-A
1 AGGACATTTTCCAGTTGA
96244331 AGGACATTTTCCAGTTGA
1 AGGACATTTTCCAGTTGA
*
96244349 ACGGACAGTTTC
1 A-GGACATTTTC
96244361 AGACTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.56
18 2 0.08
19 9 0.36
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (18 bp):
AGGACATTTTCCAGTTGA
Found at i:96245938 original size:45 final size:45
Alignment explanation
Indices: 96245832--96246051 Score: 295
Period size: 45 Copynumber: 5.0 Consensus size: 45
96245822 CCGAATTCAT
* * *
96245832 TCACTGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
96245874 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* * * *
96245919 TCACCAGCACTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* *
96245964 TCACCGGCATCATAGCCTGCTAGGCTCGAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* * *
96246009 TCACCGGCATTATAGCCTGCTAGCCTCAAAGGCTCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTA
96246052 CTGTACTATA
Statistics
Matches: 156, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 10 0.06
43 17 0.11
44 5 0.03
45 123 0.79
46 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
Found at i:96254587 original size:25 final size:25
Alignment explanation
Indices: 96254559--96254614 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
96254549 TCTACTAAGC
96254559 CTTTGTGGTGTATTATGTATGTTGA
1 CTTTGTGGTGTATTATGTATGTTGA
* *
96254584 CTTTGTGTTGTATTATGTATGTTGC
1 CTTTGTGGTGTATTATGTATGTTGA
96254609 CTTTGT
1 CTTTGT
96254615 AGTGAGTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.12, C:0.07, G:0.25, T:0.55
Consensus pattern (25 bp):
CTTTGTGGTGTATTATGTATGTTGA
Found at i:96258498 original size:21 final size:21
Alignment explanation
Indices: 96258457--96258515 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
96258447 ATTTTGTATC
*
96258457 AAAGAAAGTGAAAGGAAAAGAGA
1 AAAG-AAG-GAAAGCAAAAGAGA
*
96258480 AAAGAAGGAATGCAAAAGAGA
1 AAAGAAGGAAAGCAAAAGAGA
96258501 AAAGAAGGAAAGCAA
1 AAAGAAGGAAAGCAA
96258516 GTGTTACTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 26 0.79
22 3 0.09
23 4 0.12
ACGTcount: A:0.64, C:0.03, G:0.29, T:0.03
Consensus pattern (21 bp):
AAAGAAGGAAAGCAAAAGAGA
Found at i:96273923 original size:9 final size:9
Alignment explanation
Indices: 96273911--96273942 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
96273901 TTTTAAATTG
96273911 TTTAATAAT
1 TTTAATAAT
96273920 TTTAATAAT
1 TTTAATAAT
96273929 TTTAATAAT
1 TTTAATAAT
96273938 TTTAA
1 TTTAA
96273943 ATACAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAATAAT
Found at i:96273924 original size:18 final size:17
Alignment explanation
Indices: 96273901--96273944 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
96273891 TTTGTTTTTC
96273901 TTTTAAATTGTTTAATAA
1 TTTTAAATT-TTTAATAA
*
96273919 TTTTAATAATTTTAATAA
1 TTTTAA-ATTTTTAATAA
96273937 TTTTAAAT
1 TTTTAAAT
96273945 ACAAATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTTAAATTTTTAATAA
Found at i:96280859 original size:21 final size:23
Alignment explanation
Indices: 96280835--96280878 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
96280825 TTTTTTTATC
96280835 TCAAAAGTA-CTT-TTGAAAAAT
1 TCAAAAGTATCTTATTGAAAAAT
*
96280856 TCAAAAGTATCTTATTTAAAAAT
1 TCAAAAGTATCTTATTGAAAAAT
96280879 ATTTTTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (23 bp):
TCAAAAGTATCTTATTGAAAAAT
Found at i:96281712 original size:13 final size:14
Alignment explanation
Indices: 96281694--96281723 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
96281684 ATTGTTTATA
96281694 TTTAAAGG-AATAT
1 TTTAAAGGAAATAT
96281707 TTTAAAGGAAATAT
1 TTTAAAGGAAATAT
96281721 TTT
1 TTT
96281724 CATTTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TTTAAAGGAAATAT
Found at i:96283315 original size:18 final size:17
Alignment explanation
Indices: 96283285--96283318 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96283275 CTGATTACCT
96283285 AATTAAATTTTAAATAA
1 AATTAAATTTTAAATAA
*
96283302 AATTTAATTATTAAATA
1 AATTAAATT-TTAAATA
96283319 TAACAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTTTAAATAA
Found at i:96285512 original size:39 final size:40
Alignment explanation
Indices: 96285460--96285548 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
96285450 AAAATTTATA
** *
96285460 TTTAATACCATAAAACATTTAGTATATTTAT-TTATAT-TT
1 TTTAATATAATAAAACATTTAGTATATTTATGGTA-ATGTT
* *
96285499 TTTAATATAATAAAACTTTTATTATATTTATGGTAATGTT
1 TTTAATATAATAAAACATTTAGTATATTTATGGTAATGTT
96285539 TTTAATATAA
1 TTTAATATAA
96285549 ATACTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 29 0.67
40 14 0.33
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTAGTATATTTATGGTAATGTT
Found at i:96291340 original size:4 final size:4
Alignment explanation
Indices: 96291331--96291357 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
96291321 TTCATCTTCT
96291331 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
96291358 TACCTTCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:96291657 original size:28 final size:28
Alignment explanation
Indices: 96291601--96291702 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 28
96291591 TTCTCTTGAA
*
96291601 TAAGGTTTAAAATTTTAAGATTTAGTGT
1 TAAGGTTTACAATTTTAAGATTTAGTGT
* *
96291629 TAAGGCTTACAATTTTATGATTTTA-TGT
1 TAAGGTTTACAATTTTAAGA-TTTAGTGT
** * ** *
96291657 TTGGGTTTACAATTTAAACCTTTTGTGTT
1 TAAGGTTTACAATTTTAAGATTTAGTG-T
*
96291686 TAATGTTTA-AATTTTAA
1 TAAGGTTTACAATTTTAA
96291703 AGTTTAAGAA
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
27 3 0.05
28 42 0.75
29 11 0.20
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (28 bp):
TAAGGTTTACAATTTTAAGATTTAGTGT
Done.