Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 24 of 47
Found at i:3666264 original size:20 final size:20
Alignment explanation
Indices: 3666239--3666311 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3666229 CAACTTTTTT
3666239 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3666259 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
3666280 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3666300 ATGTATCGATAC
1 ATGTATCGATAC
3666312 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3666277 original size:41 final size:41
Alignment explanation
Indices: 3666218--3666311 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
3666208 CTGCCAAGAA
*
3666218 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
3666259 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
3666300 ATGTATCGATAC
1 ATGTATCGATAC
3666312 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:3666293 original size:21 final size:21
Alignment explanation
Indices: 3666218--3666293 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
3666208 CTGCCAAGAA
* *
3666218 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
3666239 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3666259 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3666280 ATGTATCGATACAT
1 ATGTATCGATACAT
3666294 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3671164 original size:20 final size:20
Alignment explanation
Indices: 3671135--3671187 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
3671125 AAATTCCAAG
*
3671135 ATGTACCGATACAAAGA-TCA
1 ATGTATCGATACAAAGAGT-A
**
3671155 ATGTATCGATACATTGAGTA
1 ATGTATCGATACAAAGAGTA
3671175 ATGTATCGATACA
1 ATGTATCGATACA
3671188 TTTCCTTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACAAAGAGTA
Found at i:3671277 original size:19 final size:20
Alignment explanation
Indices: 3671218--3671277 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
3671208 CAGCGATACA
* *
3671218 TTGTATCGATACAACACT-T
1 TTGTATCGATACAATATTGT
*
3671237 ATGTATCGATACAATTATTGT
1 TTGTATCGATACAA-TATTGT
3671258 TTGTATCGATACAA-ATTGT
1 TTGTATCGATACAATATTGT
3671277 T
1 T
3671278 GAAATTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 19 0.54
20 2 0.06
21 14 0.40
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACAATATTGT
Found at i:3671785 original size:30 final size:30
Alignment explanation
Indices: 3671749--3671855 Score: 103
Period size: 30 Copynumber: 3.5 Consensus size: 30
3671739 TACATTGAAA
3671749 AATGTATCGATACATCTGGGTAAAAGACTG
1 AATGTATCGATACATCTGGGTAAAAGACTG
* **
3671779 AATGTATCGATACAT-T--GAAAAATGTATCAAAA
1 AATGTATCGATACATCTGGGTAAAA-G-A-C--TG
* *
3671811 AATGCATCAATACATCTGGGTAAAAGACTG
1 AATGTATCGATACATCTGGGTAAAAGACTG
3671841 AATGTATCGATACAT
1 AATGTATCGATACAT
3671856 TGAAACATGT
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
27 5 0.08
28 1 0.02
29 2 0.03
30 29 0.49
32 14 0.24
33 2 0.03
34 1 0.02
35 5 0.08
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (30 bp):
AATGTATCGATACATCTGGGTAAAAGACTG
Found at i:3671795 original size:50 final size:50
Alignment explanation
Indices: 3671679--3671885 Score: 225
Period size: 50 Copynumber: 3.9 Consensus size: 50
3671669 TTTTAACTTG
* * * ***
3671679 ATGTATCGATACAATGAACAATGTATCGATACATTTGGGTAAAAAGAGAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT-AAAAGACTGA
3671730 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAGACTGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAGACTGA
3671780 ATGTATCGATACATTGAAAAATGTATCAAAAAATGCATCAATACATCTGGGTAAAAGACTGA
1 ATGTATCGATACATTGAAAAATGTATC-------G-----ATACATCTGGGTAAAAGACTGA
* *
3671842 ATGTATCGATACATTGAAACATGTATCGATACATCTAGGTAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAA
3671886 ATGTGCCTTT
Statistics
Matches: 136, Mismatches: 8, Indels: 25
0.80 0.05 0.15
Matches are distributed among these distances:
50 49 0.36
51 37 0.27
55 1 0.01
57 1 0.01
62 48 0.35
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAGACTGA
Found at i:3671843 original size:62 final size:62
Alignment explanation
Indices: 3671746--3671868 Score: 219
Period size: 62 Copynumber: 2.0 Consensus size: 62
3671736 CGATACATTG
* *
3671746 AAAAATGTATCGATACATCTGGGTAAAAGACTGAATGTATCGATACATTGAAAAATGTATCA
1 AAAAATGCATCAATACATCTGGGTAAAAGACTGAATGTATCGATACATTGAAAAATGTATCA
*
3671808 AAAAATGCATCAATACATCTGGGTAAAAGACTGAATGTATCGATACATTGAAACATGTATC
1 AAAAATGCATCAATACATCTGGGTAAAAGACTGAATGTATCGATACATTGAAAAATGTATC
3671869 GATACATCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (62 bp):
AAAAATGCATCAATACATCTGGGTAAAAGACTGAATGTATCGATACATTGAAAAATGTATCA
Found at i:3673988 original size:26 final size:26
Alignment explanation
Indices: 3673952--3674003 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3673942 AAGACTTTGC
*
3673952 TTGTAATCACCTCGGAATTGACCAAG
1 TTGTAATCACCTCAGAATTGACCAAG
*
3673978 TTGTAATCACCTTAGAATTGACCAAG
1 TTGTAATCACCTCAGAATTGACCAAG
3674004 CAATTTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (26 bp):
TTGTAATCACCTCAGAATTGACCAAG
Found at i:3682107 original size:13 final size:13
Alignment explanation
Indices: 3682089--3682124 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3682079 TTTTTCTTTC
3682089 TATCGATACAATG
1 TATCGATACAATG
*
3682102 TATCGATACACTG
1 TATCGATACAATG
3682115 TATCGATACA
1 TATCGATACA
3682125 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:3682598 original size:21 final size:20
Alignment explanation
Indices: 3682556--3682598 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3682546 GGCAGCACCA
* *
3682556 CCAGGTCACGATCGGCACTC
1 CCAGGTCACAACCGGCACTC
*
3682576 CCAGGTCACAACCAGGCAGTC
1 CCAGGTCACAACC-GGCACTC
3682597 CC
1 CC
3682599 CACACTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.23, C:0.42, G:0.23, T:0.12
Consensus pattern (20 bp):
CCAGGTCACAACCGGCACTC
Found at i:3684714 original size:13 final size:13
Alignment explanation
Indices: 3684696--3684721 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3684686 TACACAAAGT
3684696 ATGTATCGATACA
1 ATGTATCGATACA
3684709 ATGTATCGATACA
1 ATGTATCGATACA
3684722 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3684719 original size:32 final size:33
Alignment explanation
Indices: 3684678--3684741 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3684668 TAGCCAAACT
**
3684678 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
3684710 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3684742 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3687077 original size:20 final size:20
Alignment explanation
Indices: 3687038--3687080 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3687028 TTGAGGGCTT
** *
3687038 AGAAAAAAGGGGAAAGAGAG
1 AGAAAAAAGGAAAAAAAGAG
3687058 AGAAAAAAGGAAAAAAAGAG
1 AGAAAAAAGGAAAAAAAGAG
3687078 AGA
1 AGA
3687081 CTTCAGCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AGAAAAAAGGAAAAAAAGAG
Found at i:3692145 original size:20 final size:21
Alignment explanation
Indices: 3692120--3692170 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
3692110 TTGAGACATA
*
3692120 TATCGATACATTCACT-TATG
1 TATCGATACATTCACTAAATG
3692140 TATCGATACATTCACTAAATG
1 TATCGATACATTCACTAAATG
3692161 TATCGATACA
1 TATCGATACA
3692171 AATCATAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (21 bp):
TATCGATACATTCACTAAATG
Found at i:3700286 original size:17 final size:17
Alignment explanation
Indices: 3700250--3700289 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3700240 CCAAAGACAA
*
3700250 AAAAAATAAAAAATATT
1 AAAAAATAAAAAATAAT
3700267 AAAAAATAAAATAA-AAT
1 AAAAAATAAAA-AATAAT
3700284 AAAAAA
1 AAAAAA
3700290 GAGAAGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAAAATAAT
Found at i:3703633 original size:20 final size:20
Alignment explanation
Indices: 3703608--3703651 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3703598 CAGATGTATT
3703608 GATACAAAG-ATCAATATATC
1 GATAC-AAGTATCAATATATC
*
3703628 GATACAAGTATCAATGTATC
1 GATACAAGTATCAATATATC
3703648 GATA
1 GATA
3703652 TAATGTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (20 bp):
GATACAAGTATCAATATATC
Found at i:3703676 original size:20 final size:20
Alignment explanation
Indices: 3703651--3703688 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3703641 ATGTATCGAT
*
3703651 ATAATGTATGGATACATTGA
1 ATAATGTATCGATACATTGA
3703671 ATAATGTATCGATACATT
1 ATAATGTATCGATACATT
3703689 TCCTTGGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (20 bp):
ATAATGTATCGATACATTGA
Found at i:3704852 original size:67 final size:66
Alignment explanation
Indices: 3704754--3704959 Score: 218
Period size: 67 Copynumber: 3.1 Consensus size: 66
3704744 ATAGTAAGAC
* * * *
3704754 GCTTACCTATCTCAAAGCCTACATAACCTGGTGGCACCTATCCACTTTAGTCCTCAAAGACTAGG
1 GCTTACCCATCTCAAAGCC-ACACAAGCTGGTGGCACCTATCCACTTCAGTCCTCAAAGACTAGG
3704819 AT
65 AT
* * *
3704821 GCTTACCCATCTCAAAGTCCACACAAGCTGGTTGCACCTA-CCTATCCTCAGTCCTCAAATAGC-
1 GCTTACCCATCTCAAAG-CCACACAAGCTGGTGGCACCTATCC-A-CTTCAGTCCTCAAAGA-CT
*
3704884 AAGAT
62 AGGAT
* * * * * *
3704889 GTTTACCCATTTCAAAGCCCACACAAGTTGGTGACACCTATCCACTTCAGTTCTCAAAGAATAGG
1 GCTTACCCATCTCAAAG-CCACACAAGCTGGTGGCACCTATCCACTTCAGTCCTCAAAGACTAGG
3704954 AT
65 AT
3704956 GCTT
1 GCTT
3704960 TGCTTGCCTA
Statistics
Matches: 113, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
66 2 0.02
67 54 0.48
68 54 0.48
69 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (66 bp):
GCTTACCCATCTCAAAGCCACACAAGCTGGTGGCACCTATCCACTTCAGTCCTCAAAGACTAGGA
T
Found at i:3705134 original size:177 final size:177
Alignment explanation
Indices: 3704802--3705136 Score: 408
Period size: 177 Copynumber: 1.9 Consensus size: 177
3704792 TATCCACTTT
* * * * * *
3704802 AGTCCTCAAAGACTAGGATGCTTACCCATCTCAAAGTCCACACAAGCTGGTTGCACCTACCTATC
1 AGTCCTCAAAGACCAAGATGCTTACACAACTCAAAGCCCACACAAGCTGGTGGCACCTACCTATC
* * *** * * *
3704867 CTCAGTCCTCAAATAGCAAGATGTTTACCCATTTCAAAGCCCACACAAGTTGGTGACACCTATCC
66 CTCAATCCTCAAAGAGCAAGACACTTACCCATCTCAAAGCCCACACAAGCTAGTGACACCTATCC
* * *
3704932 ACTTCAGTTCTCAAAGAATAGGATGCTTTGCTTGCCTACCTACCCTC
131 ACTTCAGTCCTCAAAAAACAGGATGCTTTGCTTGCCTACCTACCCTC
3704979 AGTCCTCAAAGACCAAGATGCTTACACAACTCAAAGCCCACACAAGCTGGTGGCACCTACCTA-C
1 AGTCCTCAAAGACCAAGATGCTTACACAACTCAAAGCCCACACAAGCTGGTGGCACCTACCTATC
* * * *
3705043 CTTTAATCTTCAAAGAGTAAGACACTTGCCCATCTC-AAGCCCACACAAGCTAGTGACACCTA-C
66 C-TCAATCCTCAAAGAGCAAGACACTTACCCATCTCAAAGCCCACACAAGCTAGTGACACCTATC
*
3705106 CTGCCTTCAGTCCT-AAAAAAGCAGGATGCTT
130 C--ACTTCAGTCCTCAAAAAA-CAGGATGCTT
3705137 ACCAATCTCA
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
175 2 0.02
176 31 0.23
177 99 0.75
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.23
Consensus pattern (177 bp):
AGTCCTCAAAGACCAAGATGCTTACACAACTCAAAGCCCACACAAGCTGGTGGCACCTACCTATC
CTCAATCCTCAAAGAGCAAGACACTTACCCATCTCAAAGCCCACACAAGCTAGTGACACCTATCC
ACTTCAGTCCTCAAAAAACAGGATGCTTTGCTTGCCTACCTACCCTC
Found at i:3705145 original size:67 final size:67
Alignment explanation
Indices: 3704966--3705611 Score: 291
Period size: 67 Copynumber: 9.4 Consensus size: 67
3704956 GCTTTGCTTG
* * *
3704966 CCTACCTACCCTCAGTCCTCAAAGACCAAGATGCTTACACAA-CTCAAAGCCCACACAAGCTGGT
1 CCTACCTACCTTCAGTCCTCAAAGAGCAAGATGCTTAC-CAATCTC-AAGCCCACACAAGCTAGT
*
3705030 GGCA
64 GACA
* * * * ** * *
3705034 CCTACCTACCTTTAATCTTCAAAGAGTAAGACACTTGCCCATCTCAAGCCCACACAAGCTAGTGA
1 CCTACCTACCTTCAGTCCTCAAAGAGCAAGATGCTTACCAATCTCAAGCCCACACAAGCTAGTGA
3705099 CA
66 CA
* * * * * * * * *
3705101 CCTACCTGCCTTCAGTCCTAAAAAAGCAGGATGCTTACCAATCTCAAAACACATATAAGCTGGTG
1 CCTACCTACCTTCAGTCCTCAAAGAGCAAGATGCTTACCAATCTC-AAGCCCACACAAGCTAGTG
*
3705166 GCA
65 ACA
* * * * * *
3705169 CCGATCC-A-CTTCAGTCCTTAAAGAGTATGATGTTTTTCCTTACCTACCTCAAAGCCCACACAA
1 CCTA-CCTACCTTCAGTCCTCAAAGAGCAAGATG------CTTACCAATCTC-AAGCCCACACAA
* *
3705232 GCTGGTGGCA
58 GCTAGTGACA
* * * * * * * * * * *
3705242 GCTACATACC-TCAGTCCTCAAAGAGTAGGAAGCTTACCTACCTCAAAGCCTATATAAGCTGGTG
1 CCTACCTACCTTCAGTCCTCAAAGAGCAAGATGCTTACCAATCTC-AAGCCCACACAAGCTAGTG
*
3705306 GCA
65 ACA
* * * * * * *
3705309 CCTATCC-A-CTTTAGTCCTAAAAAAGCATGATGTTTTCCTTACCTACCTCAAAGCCCATACAAG
1 CCTA-CCTACCTTCAGTCCTCAAAGAGCAAGATG-----CTTACCAATCTC-AAGCCCACACAAG
* * *
3705372 GTGGTGGCA
59 CTAGTGACA
* * * * ** * * * *
3705381 CTTACCTACCCTCAGTCCTCAAAGAGTAAAATGCTTACTTACCTCAAAGCCTATACAAGCTAATG
1 CCTACCTACCTTCAGTCCTCAAAGAGCAAGATGCTTACCAATCTC-AAGCCCACACAAGCTAGTG
*
3705446 GCA
65 ACA
* * * * * * * * *
3705449 CCTATCTATCC-TCAATCTTTAAAGAGCAAGATGTTTATCTATCTCAAAGCCTACACAAGCTGGT
1 CCTACCTA-CCTTCAGTCCTCAAAGAGCAAGATGCTTACCAATCTC-AAGCCCACACAAGCTAGT
*
3705513 GCCA
64 GACA
* * * * *
3705517 CCTACCTACC-TCAATCCTCAAAGAGTAGGATGCTTACCTACCTCAAAGCCCACACAAGCTAGTG
1 CCTACCTACCTTCAGTCCTCAAAGAGCAAGATGCTTACCAATCTC-AAGCCCACACAAGCTAGTG
*
3705581 GCA
65 ACA
* * *
3705584 CTTATCTACCCTCAGTCCTCAAAGAGCA
1 CCTACCTACCTTCAGTCCTCAAAGAGCA
3705612 GGACGTTTTT
Statistics
Matches: 451, Mismatches: 105, Indels: 44
0.75 0.17 0.07
Matches are distributed among these distances:
66 1 0.00
67 184 0.41
68 154 0.34
69 4 0.01
71 2 0.00
72 37 0.08
73 68 0.15
74 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (67 bp):
CCTACCTACCTTCAGTCCTCAAAGAGCAAGATGCTTACCAATCTCAAGCCCACACAAGCTAGTGA
CA
Found at i:3705279 original size:140 final size:141
Alignment explanation
Indices: 3705079--3705687 Score: 603
Period size: 140 Copynumber: 4.4 Consensus size: 141
3705069 TGCCCATCTC
* * * * * * * * *
3705079 AAGCCCACACAAGCTAGTGACACCTACCTGCCTTCAGTCCTAAAAAAGCAGGATGCTTACCAATC
1 AAGCCCACACAAGCTGGTGGCACCTACCTACC-TCAGTCCTCAAAGAGTAGGAAGCTTACCTACC
* * * * * *
3705144 TCAAAACAC-ATATAAGCTGGTGGCACCGATCCA-CTTCAGTCCTTAAAGAGTATGATGTTTTTC
65 TCAAAGC-CTATACAAGCTAGTGGCACCTATCCACCCTCAGTCCTTAAAGAGCATGATGTTTTTC
3705207 CTTACCTACCTCA
129 CTTACCTACCTCA
* *
3705220 AAGCCCACACAAGCTGGTGGCAGCTACATACCTCAGTCCTCAAAGAGTAGGAAGCTTACCTACCT
1 AAGCCCACACAAGCTGGTGGCACCTACCTACCTCAGTCCTCAAAGAGTAGGAAGCTTACCTACCT
* * * * * *
3705285 CAAAGCCTATATAAGCTGGTGGCACCTATCCA-CTTTAGTCCTAAAAAAGCATGATG-TTTTCCT
66 CAAAGCCTATACAAGCTAGTGGCACCTATCCACCCTCAGTCCTTAAAGAGCATGATGTTTTTCCT
3705348 TACCTACCTCA
131 TACCTACCTCA
* * * * *
3705359 AAGCCCATACAAGGTGGTGGCACTTACCTACCCTCAGTCCTCAAAGAGTA-AAATGCTTACTTAC
1 AAGCCCACACAAGCTGGTGGCACCTACCTA-CCTCAGTCCTCAAAGAGTAGGAA-GCTTACCTAC
* * * * * * *
3705423 CTCAAAGCCTATACAAGCTAATGGCACCTATCTATCCTCAATCTTTAAAGAGCAAGATGTTTAT-
64 CTCAAAGCCTATACAAGCTAGTGGCACCTATCCACCCTCAGTCCTTAAAGAGCATGATGTTTTTC
3705487 C-TA--T--CTCA
129 CTTACCTACCTCA
* * * *
3705495 AAGCCTACACAAGCTGGTGCCACCTACCTACCTCAATCCTCAAAGAGTAGGATGCTTACCTACCT
1 AAGCCCACACAAGCTGGTGGCACCTACCTACCTCAGTCCTCAAAGAGTAGGAAGCTTACCTACCT
* * * * * * * *
3705560 CAAAGCCCACACAAGCTAGTGGCACTTATCTACCCTCAGTCCTCAAAGAGCAGGACGTTTTTCCA
66 CAAAGCCTATACAAGCTAGTGGCACCTATCCACCCTCAGTCCTTAAAGAGCATGATGTTTTTCCT
*
3705625 TACCTACCTCG
131 TACCTACCTCA
* * * * * *
3705636 AAGCCTATACAAGCTAGTGGCACCTATCC-ACTTTAGTCCTGAAAGAGTAGGA
1 AAGCCCACACAAGCTGGTGGCACCTA-CCTACCTCAGTCCTCAAAGAGTAGGA
3705688 TGTTTTTCCT
Statistics
Matches: 391, Mismatches: 64, Indels: 26
0.81 0.13 0.05
Matches are distributed among these distances:
135 80 0.20
136 31 0.08
137 2 0.01
138 1 0.00
139 47 0.12
140 135 0.35
141 90 0.23
142 5 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (141 bp):
AAGCCCACACAAGCTGGTGGCACCTACCTACCTCAGTCCTCAAAGAGTAGGAAGCTTACCTACCT
CAAAGCCTATACAAGCTAGTGGCACCTATCCACCCTCAGTCCTTAAAGAGCATGATGTTTTTCCT
TACCTACCTCA
Found at i:3708933 original size:88 final size:87
Alignment explanation
Indices: 3708810--3709179 Score: 321
Period size: 88 Copynumber: 4.2 Consensus size: 87
3708800 TTTTTCAATT
* * * * * * *
3708810 TTGGCGAAACTCCATCCCCACTATTCCAAAGGGATACTCCAACCTTGTTCTAACCAAAATTCAAA
1 TTGGGGAAACTCCATCCTCA-TTTTTCAAGGGGATACTCCAACCCTGTTCTAACAAAAATTCAAA
* *
3708875 TTTTCCGTCATAAAATTTTATCC
65 TCTTCCATCATAAAATTTTATCC
* * * * *
3708898 TTGGGGAAACTCGATCCTCTTTTTTCTAAGGGGATACTCCAACCCCGTTCTTACAAAAACTCAAA
1 TTGGGGAAACTCCATCCTCATTTTTC-AAGGGGATACTCCAACCCTGTTCTAACAAAAATTCAAA
* *
3708963 TCTTCCATCGTATAATTTTATCC
65 TCTTCCATCATAAAATTTTATCC
** * *** ** *
3708986 TT-AAGAACACTCCATCCCCATTCCGCCAAGGGGATACTTTAACCCTGTTCTCACAAAAATTCAA
1 TTGGGGAA-ACTCCATCCTCATT-TTTCAAGGGGATACTCCAACCCTGTTCTAACAAAAATTC-A
*
3709050 AATCTTCCATCATATAATTTTATCC
63 AATCTTCCATCATAAAATTTTATCC
* * * * * * * *
3709075 TTGGTGAAACTCTATCCTCACTATTTCGAGTGGATACTTCAATCCTGTTCTACAAAAAAATTCAA
1 TTGGGGAAACTCCATCCTCA-TTTTTCAAGGGGATACTCCAACCCTGTTCTA-ACAAAAATTCAA
*
3709140 ATTTTCC-TCCATAAAATTTTATCC
64 ATCTTCCAT-CATAAAATTTTATCC
3709164 TTAGAGGGAAACTCCA
1 TT-G-GGGAAACTCCA
3709180 AGCCCACTAC
Statistics
Matches: 224, Mismatches: 48, Indels: 17
0.78 0.17 0.06
Matches are distributed among these distances:
87 7 0.03
88 111 0.50
89 83 0.37
90 14 0.06
91 9 0.04
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (87 bp):
TTGGGGAAACTCCATCCTCATTTTTCAAGGGGATACTCCAACCCTGTTCTAACAAAAATTCAAAT
CTTCCATCATAAAATTTTATCC
Found at i:3711049 original size:119 final size:119
Alignment explanation
Indices: 3710838--3711071 Score: 450
Period size: 119 Copynumber: 2.0 Consensus size: 119
3710828 TTTATTAGAC
3710838 CAAATATATCATACACTCTAAGTGTCACGAGCAAATACCAAAGCAACTCTACTGATAGTCACTAG
1 CAAATATATCATACACTCTAAGTGTCACGAGCAAATACCAAAGCAACTCTACTGATAGTCACTAG
* *
3710903 ATTGTTGTGAAGCATATTATTAAATACTAACAAAGGACTAAAGATATCTTGGAG
66 ATTGTTGTGAAGCATATCATTAAATACTAACAAAGAACTAAAGATATCTTGGAG
3710957 CAAATATATCATACACTCTAAGTGTCACGAGCAAATACCAAAGCAACTCTACTGATAGTCACTAG
1 CAAATATATCATACACTCTAAGTGTCACGAGCAAATACCAAAGCAACTCTACTGATAGTCACTAG
3711022 ATTGTTGTGAAGCATATCATTAAATACTAACAAAGAACTAAAGATATCTT
66 ATTGTTGTGAAGCATATCATTAAATACTAACAAAGAACTAAAGATATCTT
3711072 TCTGGTTTTT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 113 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (119 bp):
CAAATATATCATACACTCTAAGTGTCACGAGCAAATACCAAAGCAACTCTACTGATAGTCACTAG
ATTGTTGTGAAGCATATCATTAAATACTAACAAAGAACTAAAGATATCTTGGAG
Found at i:3716177 original size:11 final size:11
Alignment explanation
Indices: 3716161--3716194 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
3716151 ATAATATATC
3716161 TTATTTTATAA
1 TTATTTTATAA
3716172 TTATTTTATAA
1 TTATTTTATAA
3716183 TTATATTTATAA
1 TTAT-TTTATAA
3716195 GATAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTTATAA
Found at i:3717666 original size:13 final size:13
Alignment explanation
Indices: 3717648--3717672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3717638 CATGGGACAT
3717648 TGTATCGATACAA
1 TGTATCGATACAA
3717661 TGTATCGATACA
1 TGTATCGATACA
3717673 TAATAAAATG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3719774 original size:15 final size:16
Alignment explanation
Indices: 3719740--3719781 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
3719730 AAATAAATCA
3719740 AAAATTGTTGAAAATG
1 AAAATTGTTGAAAATG
*
3719756 -AAATTCTTGAAAA-G
1 AAAATTGTTGAAAATG
3719770 AAAATTGTTGAA
1 AAAATTGTTGAA
3719782 CTAAAAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (16 bp):
AAAATTGTTGAAAATG
Found at i:3723725 original size:84 final size:85
Alignment explanation
Indices: 3723637--3723885 Score: 256
Period size: 85 Copynumber: 2.9 Consensus size: 85
3723627 GTTGGGCTAG
* * * * *
3723637 CAAAGGGTAAAAGAG-GTTACCTGGGACTAAGTTCACAAGTAAACAAAGGATACAAAAGTTGACC
1 CAAAGGATAAAAGAGATTTACCTGGGACTAAGCTGACAAGTAAACAAAGGATAAAAAAGTTGACC
3723701 AGATTGAACCAACAAGTCAA
66 AGATTGAACCAACAAGTCAA
* * *
3723721 CAAAGGTTAAAAG-GATTTACCTAGGACTAAGCTGAC-AGTTAAACAAAGGATAAAAAAATTGAC
1 CAAAGGATAAAAGAGATTTACCTGGGACTAAGCTGACAAG-TAAACAAAGGATAAAAAAGTTGAC
* * * *
3723784 CGGGATTGAACTGAA-AAGTTAG
65 C-AGATTGAAC-CAACAAGTCAA
* * * * * *
3723806 CAAAAGATAAAA-AGATTTACCCGAGACTAAGCTGATAGGTAAACAAAGGATAAAAAAGTTGACA
1 CAAAGGATAAAAGAGATTTACCTGGGACTAAGCTGACAAGTAAACAAAGGATAAAAAAGTTGACC
*
3723870 AGGGTTGAACCAACAA
66 A-GATTGAACCAACAA
3723886 ACAAAGGATA
Statistics
Matches: 134, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
83 3 0.02
84 54 0.40
85 74 0.55
86 3 0.02
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (85 bp):
CAAAGGATAAAAGAGATTTACCTGGGACTAAGCTGACAAGTAAACAAAGGATAAAAAAGTTGACC
AGATTGAACCAACAAGTCAA
Found at i:3724022 original size:123 final size:120
Alignment explanation
Indices: 3723761--3723999 Score: 297
Period size: 123 Copynumber: 2.0 Consensus size: 120
3723751 GCTGACAGTT
* * *
3723761 AAACAAAGGATAAAAAAATTGACCGGGATTGAACTGAAAAGTTAGCAAAAGATAAAAAGATTTAC
1 AAACAAAGGATAAAAAAATTGACCGAGATTGAACCGAAAAGTCAGCAAAAGAT--AAAGATTTAC
* * * *
3723826 CCGAGACTAAGCTGATAGGTAAACAAAGGATAAAAAAGTTGACAAGGGTTGAACCAAC
64 CAGAGACTAAGCCGATAGGTAAACAAAAGATAAAAAAGCTGAC-AGGGTTGAACCAAC
* * *
3723884 AAACAAAGGATAAAAAAGTTGACCGATATTGAACCGAAAAGTCAGCAAAAGAT-AGGATTTACTC
1 AAACAAAGGATAAAAAAATTGACCGAGATTGAACCGAAAAGTCAGCAAAAGATAAAGATTTAC-C
*
3723948 AG-GACTAAGCCGACT-GGTAAACAAAAGATAAAGAAGCTGAC-GCGGTTGAACC
65 AGAGACTAAGCCGA-TAGGTAAACAAAAGATAAAAAAGCTGACAG-GGTTGAACC
3724000 GATAAGTCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
118 1 0.01
119 9 0.09
120 41 0.40
121 3 0.03
123 48 0.47
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (120 bp):
AAACAAAGGATAAAAAAATTGACCGAGATTGAACCGAAAAGTCAGCAAAAGATAAAGATTTACCA
GAGACTAAGCCGATAGGTAAACAAAAGATAAAAAAGCTGACAGGGTTGAACCAAC
Found at i:3724082 original size:204 final size:205
Alignment explanation
Indices: 3723677--3724072 Score: 489
Period size: 204 Copynumber: 1.9 Consensus size: 205
3723667 GTTCACAAGT
* *
3723677 AAACAAAGGATACAAAAGTTGACCAGATTGAACCAACAAGTCAACAAAGGTTAAAAGGATTTACC
1 AAACAAAGGATAAAAAAGTTGACCAGATTGAACCAACAAGTCAACAAAAG-T-AAAGGATTTACC
* * * * * * *
3723742 TAGGACTAAGCTGACAGTTAAACAAAGGATAAAAAAATTGACCGGGATTGAACTGAAAAGTTAGC
64 TAGGACTAAGCCGACAGGTAAACAAAAGATAAAAAAACTGACCGGGATTGAACCGAAAAGTCAAC
3723807 AAAAGATAAAAAGATTTACCCGAGACTAAGCTGATAGGTAAACAAAGGATAAAAAAGTTGACAAG
129 AAAAGATAAAAAGATTTACCCGAGACTAAGCTGATAGGTAAACAAAGGATAAAAAAGTTGACAAG
3723872 GGTTGAACCAAC
194 GGTTGAACCAAC
* * *
3723884 AAACAAAGGATAAAAAAGTTGACCGATATTGAACCGAA-AAGTCAGCAAAAG-ATAGGATTTA-C
1 AAACAAAGGATAAAAAAGTTGACC-AGATTGAACC-AACAAGTCAACAAAAGTAAAGGATTTACC
* * * *
3723946 TCAGGACTAAGCCGACTGGTAAACAAAAGATAAAGAAGCTGA-CGCGG-TTGAACCGATAAGTCA
64 T-AGGACTAAGCCGACAGGTAAACAAAAGATAAAAAAACTGACCG-GGATTGAACCGAAAAGTCA
* * * * * *
3724009 ACAAAGGATAAAAAGATTTATCTGAGACTAAG-TCGATAGGTACACGAAGGATAAAGAAGTTGAC
127 ACAAAAGATAAAAAGATTTACCCGAGACTAAGCT-GATAGGTAAACAAAGGATAAAAAAGTTGAC
3724073 CGAGGTTGAA
Statistics
Matches: 162, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
203 1 0.01
204 72 0.44
205 44 0.27
207 23 0.14
208 20 0.12
209 2 0.01
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.18
Consensus pattern (205 bp):
AAACAAAGGATAAAAAAGTTGACCAGATTGAACCAACAAGTCAACAAAAGTAAAGGATTTACCTA
GGACTAAGCCGACAGGTAAACAAAAGATAAAAAAACTGACCGGGATTGAACCGAAAAGTCAACAA
AAGATAAAAAGATTTACCCGAGACTAAGCTGATAGGTAAACAAAGGATAAAAAAGTTGACAAGGG
TTGAACCAAC
Found at i:3724103 original size:85 final size:85
Alignment explanation
Indices: 3723884--3724108 Score: 246
Period size: 84 Copynumber: 2.7 Consensus size: 85
3723874 TTGAACCAAC
* ** * * *
3723884 AAACAAAGGATAAAAAAGTTGACCGATATTGAACCGAAAAGTCAGCAAAAGAT---AGGATTTAC
1 AAACAAAGGATAAAGAAGTTGACCGAGGTTGAACCGAAAAGTCAACAAAGGATAAAAAGATTTAC
3723946 TCAGGACTAAGCCGACTGGT
66 TCAGGACTAAGCCGACTGGT
* * * *
3723966 AAACAAAAGATAAAGAAGCTGA-CGCGGTTGAACCGATAAGTCAACAAAGGATAAAAAGATTTA-
1 AAACAAAGGATAAAGAAGTTGACCGAGGTTGAACCGAAAAGTCAACAAAGGATAAAAAGATTTAC
* *
3724029 TCTGAGACTAAGTCGA-TAGGT
66 TCAG-GACTAAGCCGACT-GGT
* * * *
3724050 ACACGAAGGATAAAGAAGTTGACCGAGGTTGAATCGACAAGTCAACAAAGGATAAAAAG
1 AAACAAAGGATAAAGAAGTTGACCGAGGTTGAACCGAAAAGTCAACAAAGGATAAAAAG
3724109 CTATACCCGA
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
81 24 0.20
82 19 0.16
83 4 0.03
84 38 0.32
85 33 0.28
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.17
Consensus pattern (85 bp):
AAACAAAGGATAAAGAAGTTGACCGAGGTTGAACCGAAAAGTCAACAAAGGATAAAAAGATTTAC
TCAGGACTAAGCCGACTGGT
Found at i:3724105 original size:42 final size:42
Alignment explanation
Indices: 3723967--3724105 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 42
3723957 CCGACTGGTA
* * * *
3723967 AACAAAAGATAAAGAAGCTGA-CGCGGTTGAACCGATAAGTC
1 AACAAAGGATAAAGAAGTTGACCGAGGTTGAATCGATAAGTC
* * ** *
3724008 AACAAAGGATAAA-AAGATTTATCTGAGACT-AAGTCGATAGGT-
1 AACAAAGGATAAAGAAG-TTGA-CCGAGGTTGAA-TCGATAAGTC
* *
3724050 ACACGAAGGATAAAGAAGTTGACCGAGGTTGAATCGACAAGTC
1 A-ACAAAGGATAAAGAAGTTGACCGAGGTTGAATCGATAAGTC
3724093 AACAAAGGATAAA
1 AACAAAGGATAAA
3724106 AAGCTATACC
Statistics
Matches: 73, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
40 3 0.04
41 14 0.19
42 26 0.36
43 27 0.37
44 3 0.04
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (42 bp):
AACAAAGGATAAAGAAGTTGACCGAGGTTGAATCGATAAGTC
Found at i:3728591 original size:52 final size:52
Alignment explanation
Indices: 3728521--3728641 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
3728511 GAAAATTTAT
*
3728521 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
3728573 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
3728625 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3728642 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:3728654 original size:52 final size:51
Alignment explanation
Indices: 3728521--3728661 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
3728511 GAAAATTTAT
3728521 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
3728573 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
3728625 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3728662 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3728668 original size:13 final size:13
Alignment explanation
Indices: 3728650--3728674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3728640 CAAAGATCAG
3728650 TGTATCGATACAA
1 TGTATCGATACAA
3728663 TGTATCGATACA
1 TGTATCGATACA
3728675 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3728758 original size:13 final size:13
Alignment explanation
Indices: 3728740--3728764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3728730 CAAAAAAATA
3728740 TGTATCGATACAT
1 TGTATCGATACAT
3728753 TGTATCGATACA
1 TGTATCGATACA
3728765 ACATTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3728760 original size:33 final size:33
Alignment explanation
Indices: 3728718--3728784 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3728708 AGTAGCTTAA
3728718 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3728751 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3728784 A
1 A
3728785 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3728863 original size:21 final size:21
Alignment explanation
Indices: 3728822--3728863 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3728812 GTTAGGACCT
*
3728822 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
3728843 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
3728864 AAATGTAATT
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:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:3735939 original size:3 final size:3
Alignment explanation
Indices: 3735931--3735967 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
3735921 CAAGTCAACT
* *
3735931 TCA TCA TCA TCA TCA TCA TCA TCA TCT TTA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
3735968 TGATGGTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (3 bp):
TCA
Found at i:3737814 original size:22 final size:22
Alignment explanation
Indices: 3737784--3737826 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
3737774 ACTTTGAATC
3737784 ATTTTTACTTG-AAAACATTTG
1 ATTTTTACTTGAAAAACATTTG
3737805 ATTTATTACTTGAAAAACATTT
1 ATTT-TTACTTGAAAAACATTT
3737827 ATACTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTTTTACTTGAAAAACATTTG
Found at i:3738127 original size:44 final size:43
Alignment explanation
Indices: 3738079--3738284 Score: 161
Period size: 44 Copynumber: 4.7 Consensus size: 43
3738069 AGTGTGCAGT
*
3738079 GTTTGACCAAGGTAGAACCATCATGTCAAACATATTGGAAAAGG
1 GTTTGACCAAGGTAGAACCATCATGTCAAACATA-TGGAAAAGA
* * * * *
3738123 GTTTGACCAAGGCAGAACTATCATATCAATCAATAGTGCAAAA-A
1 GTTTGACCAAGGTAGAACCATCATGTCAAAC-ATA-TGGAAAAGA
* * * * * *
3738167 GTTCGACTAGGGTAGAACCATCATGTTAAACAGGGAT-GCAAAGA
1 GTTTGACCAAGGTAGAACCATCATGTCAAACA--TATGGAAAAGA
* * *
3738211 GTTTGA-CAAGGCAGAACCATC-TCGTTAAACCATA-GAAAAAGAA
1 GTTTGACCAAGGTAGAACCATCAT-GTCAAA-CATATGGAAAAG-A
*
3738254 GTTTGACCAAGGTAGAACCATCACGTCAAAC
1 GTTTGACCAAGGTAGAACCATCATGTCAAAC
3738285 GAGGACGAAG
Statistics
Matches: 124, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
42 6 0.05
43 30 0.24
44 78 0.63
45 10 0.08
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (43 bp):
GTTTGACCAAGGTAGAACCATCATGTCAAACATATGGAAAAGA
Found at i:3738351 original size:44 final size:43
Alignment explanation
Indices: 3738182--3738352 Score: 123
Period size: 44 Copynumber: 3.9 Consensus size: 43
3738172 ACTAGGGTAG
* * * * * * *
3738182 AACCATCATGTTAAACAGGGATGCAAAGAGTTTGACAAGGCAG
1 AACCATCACGTCAAACAAGGACGAAAAGAGTTTGACCAGGCAA
* * * *
3738225 AACCATCTCGTTAAACCATA-GA--AAAAGAAGTTTGACCAAGGTAG
1 AACCATCACGTCAAA-CA-AGGACGAAAAG-AGTTTGACC-AGGCAA
* * *
3738269 AACCATCACGTCAAACGAGGACGAAGAGAGTTAGACCAGTGCAA
1 AACCATCACGTCAAACAAGGACGAAAAGAGTTTGACCAG-GCAA
* * *
3738313 AACCATCATGTCAAGCAAGGATGAAAAGAGTTTGACCAGG
1 AACCATCACGTCAAACAAGGACGAAAAGAGTTTGACCAGG
3738353 GCTAAATTAT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 5 0.05
43 27 0.27
44 65 0.64
45 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (43 bp):
AACCATCACGTCAAACAAGGACGAAAAGAGTTTGACCAGGCAA
Found at i:3738572 original size:70 final size:70
Alignment explanation
Indices: 3738473--3738863 Score: 283
Period size: 70 Copynumber: 5.7 Consensus size: 70
3738463 ACGAGGGTAA
* * * * *
3738473 AAAGAGTTTTATTAGATATAGTCAAATGATGATGAAAATAGTTTGACTAAATACAATCAAACGAT
1 AAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGAGTTTGACCAAATACAATCAAACGAT
3738538 GATGG
66 GATGG
* * * * * * * * *
3738543 AAAGAGTTTGACCAAATAGAGTCAAATGATGGTGGAAAGAGTTT-AACAAGATATAGTCAAACAA
1 AAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGAGTTTGACCAA-ATACAATCAAACGA
**
3738607 TGATTA
65 TGATGG
* * * * * * *
3738613 AAAGTGTTTGACTAGAAACAGTGAAACGATGAAGGAAAA-AGCTTGACCAAATACAATCAAAAGA
1 AAAGAGTTTGACTAGATACAGTCAAATGATG-ATGAAAAGAGTTTGACCAAATACAATCAAACGA
*
3738677 TGATAG
65 TGATGG
* * * * * * *
3738683 AAGGGGTTTAACTAGATACAGTC-AA--AT--TGCAAAGAGTTTCACCAAATATAATCAAATGAT
1 AAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGAGTTTGACCAAATACAATCAAACGAT
*
3738743 GGTGG
66 GATGG
* * * * * * * *
3738748 CAAGAGTTTGAGTAGATGCAGTTAAATGATGGTGGAAAGAGTTTGACCAGATACAGTCAAACGAT
1 AAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGAGTTTGACCAAATACAATCAAACGAT
*
3738813 GGTGG
66 GATGG
* * * * * **
3738818 AAAAAGTTTAACCAGATACAGTTACATGATGATGGGAAGAGTTTGA
1 AAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGAGTTTGA
3738864 TCAGATTCAG
Statistics
Matches: 244, Mismatches: 68, Indels: 18
0.74 0.21 0.05
Matches are distributed among these distances:
64 4 0.02
65 41 0.17
66 2 0.01
67 2 0.01
68 2 0.01
69 5 0.02
70 180 0.74
71 8 0.03
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (70 bp):
AAAGAGTTTGACTAGATACAGTCAAATGATGATGAAAAGAGTTTGACCAAATACAATCAAACGAT
GATGG
Found at i:3738832 original size:35 final size:35
Alignment explanation
Indices: 3738486--3738874 Score: 248
Period size: 35 Copynumber: 11.3 Consensus size: 35
3738476 GAGTTTTATT
* * * * *
3738486 AGATATAGTCAAATGATGATGAAAATAGTTTGACT
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* *
3738521 AAATACAATCAAACGATGATGGAAAGAGTTTGACC
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * * * * *
3738556 AAATAGAGTCAAATGATGGTGGAAAGAGTTTAACA
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * ** * *
3738591 AGATATAGTCAAACAATGATTAAAAGTGTTTGACT
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * * * *
3738626 AGAAACAGTGAAACGATGAAGGAAAAAGCTTGACC
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * * * * * * *
3738661 AAATACAATCAAAAGATGATAGAAGGGGTTTAACT
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* *
3738696 AGATACAGTC-AA--AT--TGCAAAGAGTTTCACC
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * * * * * **
3738726 AAATATAATCAAATGATGGTGGCAAGAGTTTGAGT
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * * *
3738761 AGATGCAGTTAAATGATGGTGGAAAGAGTTTGACC
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * *
3738796 AGATACAGTCAAACGATGGTGGAAAAAGTTTAACC
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
* * * * *
3738831 AGATACAGTTACATGATGATGGGAAGAGTTTGATC
1 AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
*
3738866 AGATTCAGT
1 AGATACAGT
3738875 TAAAAAATGA
Statistics
Matches: 264, Mismatches: 85, Indels: 10
0.74 0.24 0.03
Matches are distributed among these distances:
30 17 0.06
31 2 0.01
32 2 0.01
33 2 0.01
34 2 0.01
35 239 0.91
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.24
Consensus pattern (35 bp):
AGATACAGTCAAACGATGATGGAAAGAGTTTGACC
Found at i:3739226 original size:90 final size:90
Alignment explanation
Indices: 3739152--3739581 Score: 520
Period size: 90 Copynumber: 4.8 Consensus size: 90
3739142 AAAAAATCCG
*
3739152 GCTTTGTGATGCATCAATGCCATCTAGTGGTTAAATGAAGAGGATATGATT-GGGAATGTATGGG
1 GCTTTGTGATGCATCAATACCATCTAGTGGTTAAATGAAGAGGATATGATTGGGGAATGTATGGG
* ** *
3739216 CCGCACCCTTGCCCTAAAAAAATTAA
66 CTGCA-CCTTGCCCTAAGGAAATCAA
* *
3739242 GCTTTGTGATGCATCAATACCATCTAGTGGTTGAATGAAGGGGATATGATTGGGGAATGTA--GG
1 GCTTTGTGATGCATCAATACCATCTAGTGGTTAAATGAAGAGGATATGATTGGGGAATGTATGGG
*
3739305 -TGCACCTTACCCTAAGGAAATCAA
66 CTGCACCTTGCCCTAAGGAAATCAA
* * * * *
3739329 GCTTTATGATGCATCAATACCATCAAGTGGTT-GA-GAAAGAGGGATATGATTGGGGAATGTGTA
1 GCTTTGTGATGCATCAATACCATCTAGTGGTTAAATG-AAGA-GGATATGATTGGGGAATGTATG
*
3739392 GGCTGCACCTTACCCTAAGGAAATCAA
64 GGCTGCACCTTGCCCTAAGGAAATCAA
* *
3739419 GCTTTGTGATGCATGAATACTATCTAGTGGTTAGGAA--ATA-AGGATATGATTGGGGAATGTAT
1 GCTTTGTGATGCATCAATACCATCTAGTGGTTA--AATGA-AGAGGATATGATTGGGGAATGTAT
* * *
3739481 GGGCTGCACCTTGCCCCAAGGAAATTAG
63 GGGCTGCACCTTGCCCTAAGGAAATCAA
* * * *
3739509 GCTTTATGATGCATCAATACCATCTAGTGGTTAGATGAAGGGGATATGATT-GGGAATGTGTGGG
1 GCTTTGTGATGCATCAATACCATCTAGTGGTTAAATGAAGAGGATATGATTGGGGAATGTATGGG
*
3739573 CTACACCTT
66 CTGCACCTT
3739582 TTCCCTTTAT
Statistics
Matches: 296, Mismatches: 31, Indels: 27
0.84 0.09 0.08
Matches are distributed among these distances:
85 1 0.00
86 4 0.01
87 65 0.22
88 4 0.01
89 25 0.08
90 184 0.62
91 11 0.04
92 1 0.00
93 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (90 bp):
GCTTTGTGATGCATCAATACCATCTAGTGGTTAAATGAAGAGGATATGATTGGGGAATGTATGGG
CTGCACCTTGCCCTAAGGAAATCAA
Found at i:3739378 original size:177 final size:176
Alignment explanation
Indices: 3739152--3739573 Score: 541
Period size: 177 Copynumber: 2.4 Consensus size: 176
3739142 AAAAAATCCG
* * * *
3739152 GCTTTGTGATGCATCAATGCCATCTAGTGGTTA-AATGAAGAGGATATGATTGGGAATGTATGGG
1 GCTTTATGATGCATCAATACCATCTAGTGGTTAGAAAG-AG-GGATATGATTGGGAATGTGTGGG
* *
3739216 CCGCACCCTTGCCCTAAAAAAATTAAGCTTTGTGATGCATCAATACCATCTAGTGGTT-G-AATG
64 CCGCA-CCTTACCCTAAAAAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTAGAAAT-
*
3739279 AAGGGGATATGATTGGGGAATGTA-GG-TGCACCTTACCCTAAGGAAATCAA
127 AA--GGATATGATTGGGGAATGTAGGGCTGCACCTTACCCCAAGGAAATCAA
* *
3739329 GCTTTATGATGCATCAATACCATCAAGTGGTTGAGAAAGAGGGATATGATTGGGGAATGTGTAGG
1 GCTTTATGATGCATCAATACCATCTAGTGGTT-AGAAAGAGGGATATGATT-GGGAATGTGTGGG
* ** * *
3739394 CTGCACCTTACCCTAAGGAAATCAAGCTTTGTGATGCATGAATACTATCTAGTGGTTAGGAAATA
64 CCGCACCTTACCCTAAAAAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTA-GAAATA
* * *
3739459 AGGATATGATTGGGGAATGTATGGGCTGCACCTTGCCCCAAGGAAATTAG
128 AGGATATGATTGGGGAATGTA-GGGCTGCACCTTACCCCAAGGAAATCAA
3739509 GCTTTATGATGCATCAATACCATCTAGTGGTTAGATGAAG-GGGATATGATTGGGAATGTGTGGG
1 GCTTTATGATGCATCAATACCATCTAGTGGTTAGA--AAGAGGGATATGATTGGGAATGTGTGGG
3739573 C
64 C
3739574 TACACCTTTT
Statistics
Matches: 215, Mismatches: 19, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
177 105 0.49
178 18 0.08
179 24 0.11
180 65 0.30
181 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (176 bp):
GCTTTATGATGCATCAATACCATCTAGTGGTTAGAAAGAGGGATATGATTGGGAATGTGTGGGCC
GCACCTTACCCTAAAAAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTAGAAATAAGG
ATATGATTGGGGAATGTAGGGCTGCACCTTACCCCAAGGAAATCAA
Found at i:3745191 original size:155 final size:153
Alignment explanation
Indices: 3744603--3745191 Score: 514
Period size: 155 Copynumber: 3.8 Consensus size: 153
3744593 CACCAAGTTC
* * * *
3744603 GCTTCTATGCC-AAAGGTGAGTATTTAGGATAGGTTCATCCCATCTAT-ATCCTTTTCAAGTCCT
1 GCTTTTATGCCGAAA-GTGGGTATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTAAGTCCT
* * * ** *
3744666 TTAAGGGTACCAGGTACTTTCACGTCGAAGGTATCCCCTAG-GAGCATTTTGGTAATCTTCTAGA
65 TTAGGGGTA-TA-GTACTTTTACGTCGAAGGTATCCCCTAGAG-GCATTTTCATAAT-TTTTAGA
* * * *
3744730 A-CCAACTCCTAGATCATCA-TCGAGTCC
126 ATCTAACTCCTAGGTCGTCACT-GAGTCT
* ** *
3744757 GCTTTAATGCCGAAAGTGGGTATTTAGGATAGGTTCATCTTATTTTATAATCCTTTTTAAGTCTT
1 GCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCCA-TTTATAATCCTTTTTAAGTCCT
* * * ** * **
3744822 TTAGGGGTATTGAACATTTCTACGTCGAAGATATTTCCTAAAGGCATTTTGGTAATTTTTAGAAT
65 TTAGGGGTATAGTAC-TTT-TACGTCGAAGGTATCCCCTAGAGGCATTTTCATAATTTTTAGAAT
* * *
3744887 -TGAGTCCTAGGTTGTCACTGAGTCT
128 CTAACTCCTAGGTCGTCACTGAGTCT
* * * *
3744912 GCTTTTATGTCGAATGTGGGTATTTAGGATAAGTTCATCCCATTTAAAATCCTTTTTAAGTCCTT
1 GCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTAAGTCCTT
* * * * **
3744977 TAAGGGTATTAAGTACTTTTATGTC-ATAAGTAACCTTTAGAGGCATTTTCATAATTTTTTA-AA
66 TAGGGGTA-T-AGTACTTTTACGTCGA-AGGTATCCCCTAGAGGCATTTTCATAA-TTTTTAGAA
*
3745040 TCTAACTCCTAGGTCGCCACT-AGGTCT
127 TCTAACTCCTAGGTCGTCACTGA-GTCT
* * * * *
3745067 GCTTTTATGCCGAAAGTGGATATTTAAGATAGGTTCACCCCATTTATAATTCGTTTTATA-TCAC
1 GCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTA-AGTC-C
* * *
3745131 TTTAGGGGTATCGCGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTT
64 TTTAGGGGTAT--AGTACTTTTACGTCGAAGGTATCCCCTAGAGGCATTTTCATAATTTTT
3745192 TGTGAACCTT
Statistics
Matches: 347, Mismatches: 70, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
153 1 0.00
154 90 0.26
155 155 0.45
156 99 0.29
157 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (153 bp):
GCTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTAAGTCCTT
TAGGGGTATAGTACTTTTACGTCGAAGGTATCCCCTAGAGGCATTTTCATAATTTTTAGAATCTA
ACTCCTAGGTCGTCACTGAGTCT
Found at i:3745308 original size:61 final size:61
Alignment explanation
Indices: 3745213--3745368 Score: 258
Period size: 61 Copynumber: 2.6 Consensus size: 61
3745203 CCCTTTAGAG
* *
3745213 TTATCAGGTGCCTTAGTGTCAATGGTAAGCTTTAGGGATAATTCGATCGAGTCCTAAGCCA
1 TTATCAAGTACCTTAGTGTCAATGGTAAGCTTTAGGGATAATTCGATCGAGTCCTAAGCCA
*
3745274 TTATCAAGTACCTTAGTGTCAATGGTAAGTTTTAGGGATAATTCGATCGAGTCCTAAGCCA
1 TTATCAAGTACCTTAGTGTCAATGGTAAGCTTTAGGGATAATTCGATCGAGTCCTAAGCCA
* * *
3745335 TTATCAAGTACCTTAATGTCAATGATAAACTTTA
1 TTATCAAGTACCTTAGTGTCAATGGTAAGCTTTA
3745369 AGAACATTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 88 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (61 bp):
TTATCAAGTACCTTAGTGTCAATGGTAAGCTTTAGGGATAATTCGATCGAGTCCTAAGCCA
Found at i:3747264 original size:69 final size:69
Alignment explanation
Indices: 3747153--3747294 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
3747143 TATTTCATTT
3747153 GTTTAATTTTCAAAGAAACCTATAAGCATTGAAAAGTTTATCCTATGGCTCTTTACCAAAGGAAT
1 GTTTAATTTTCAAAGAAACCTATAAGCATTGAAAAGTTTATCCTATGGCTCTTTACCAAAGGAAT
3747218 CATG
66 CATG
3747222 GTTTAATTTTCAAAGAAACCTATAAGCATTGAAAAGTTTATCCTATGGCTCTTTACCAAAGGAAT
1 GTTTAATTTTCAAAGAAACCTATAAGCATTGAAAAGTTTATCCTATGGCTCTTTACCAAAGGAAT
3747287 CATG
66 CATG
3747291 GTTT
1 GTTT
3747295 GGGGAAATTC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (69 bp):
GTTTAATTTTCAAAGAAACCTATAAGCATTGAAAAGTTTATCCTATGGCTCTTTACCAAAGGAAT
CATG
Found at i:3750371 original size:153 final size:153
Alignment explanation
Indices: 3750093--3750371 Score: 423
Period size: 153 Copynumber: 1.8 Consensus size: 153
3750083 TACCTTCTAC
* ** * * *
3750093 GATACCTATAAAGGACTTAAAAAGGATTATAGATGGGATTAACTTATCATAAATACCTACCTTCG
1 GATACCTATAAAAGACCAAAAAAGGATTATAGATGGGATGAACATATCATAAATACCCACCTTCG
* * *
3750158 GCATAAAAGCGGACTCGGTGATAACTTAGGACTCAATTCTAAAAAAATTACAAAAATACCCTTAG
66 GCATAAAAGCAGACCCGGTGATAACCTAGGACTCAATTCTAAAAAAATTACAAAAATACCCTTAG
3750223 GAGCCTTCGACGTAAAAGTGCAT
131 GAGCCTTCGACGTAAAAGTGCAT
* * *
3750246 GATACCTTTAAAAGACCAAAAAAGGATTATAGATGGGATGAACATATCCTATATACCCACCTTCG
1 GATACCTATAAAAGACCAAAAAAGGATTATAGATGGGATGAACATATCATAAATACCCACCTTCG
* * *
3750311 GCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAGAAAAATTATAAAAATACCC
66 GCATAAAAGCAGACCCGGTGATAACCTAGGACTCAATTCTAAAAAAATTACAAAAATACCC
3750372 CTAAAAGATA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 111 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (153 bp):
GATACCTATAAAAGACCAAAAAAGGATTATAGATGGGATGAACATATCATAAATACCCACCTTCG
GCATAAAAGCAGACCCGGTGATAACCTAGGACTCAATTCTAAAAAAATTACAAAAATACCCTTAG
GAGCCTTCGACGTAAAAGTGCAT
Found at i:3753693 original size:20 final size:20
Alignment explanation
Indices: 3753670--3753720 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3753660 ACACCCAAAT
*
3753670 GTATCGATACATATTGC-TAA
1 GTATCGATACAAATTGCAT-A
*
3753690 GTATCGATACAAATTGCATT
1 GTATCGATACAAATTGCATA
3753710 GTATCGATACA
1 GTATCGATACA
3753721 CCATAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACAAATTGCATA
Found at i:3753745 original size:17 final size:19
Alignment explanation
Indices: 3753709--3753746 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3753699 CAAATTGCAT
3753709 TGTATCGATACACCATAAAA
1 TGTATCGATACA-CATAAAA
3753729 TGTATCGATA-A-ATAAAA
1 TGTATCGATACACATAAAA
3753746 T
1 T
3753747 TGGCAGTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACATAAAA
Found at i:3754909 original size:33 final size:32
Alignment explanation
Indices: 3754854--3754918 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
3754844 TTTGGGACAA
3754854 TGTATCGATACAATTCTTCATGTATCAATACAT
1 TGTATCGATACAATTC-TCATGTATCAATACAT
*
3754887 TGTATCGATACAATGTGC-CATGTATCGATACA
1 TGTATCGATACAAT-T-CTCATGTATCAATACA
3754919 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCTCATGTATCAATACAT
Found at i:3754971 original size:19 final size:19
Alignment explanation
Indices: 3754947--3754983 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3754937 ACTGCCAGTT
3754947 TCATGTATCGATACAATGA
1 TCATGTATCGATACAATGA
3754966 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
3754984 TATCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:3754986 original size:13 final size:13
Alignment explanation
Indices: 3754968--3754994 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3754958 TACAATGATC
3754968 ATGTATCGATACA
1 ATGTATCGATACA
3754981 ATGTATCGATACA
1 ATGTATCGATACA
3754994 A
1 A
3754995 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3755010 original size:33 final size:32
Alignment explanation
Indices: 3754949--3755013 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
3754939 TGCCAGTTTC
* *
3754949 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
3754981 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
3755014 TCTAGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:3763627 original size:13 final size:13
Alignment explanation
Indices: 3763609--3763633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3763599 CAATTCTTCA
3763609 TGTATCGATACAT
1 TGTATCGATACAT
3763622 TGTATCGATACA
1 TGTATCGATACA
3763634 ATGTGCCATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3763631 original size:33 final size:33
Alignment explanation
Indices: 3763589--3763652 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
3763579 TTTAGGATAA
3763589 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
3763622 TGTATCGATACAATGTGCCATGTATCGATAC
1 TGTATCGATACAATGTGCCATGTATCGATAC
3763653 GAACAGTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:3764878 original size:488 final size:488
Alignment explanation
Indices: 3763962--3764942 Score: 1953
Period size: 488 Copynumber: 2.0 Consensus size: 488
3763952 CTTTGTTATA
*
3763962 TCAAAACGAAGATCCTAACACTTACCTATTTAGAGGCATTTCGAGTTTGTAAAAGTCCATTTGTA
1 TCAAAACCAAGATCCTAACACTTACCTATTTAGAGGCATTTCGAGTTTGTAAAAGTCCATTTGTA
3764027 TTGTATAAGGTTGTGTTCAACCTTGGGAACAATCACTCAAGAATTTGGGGTATACTTCTCGAAGT
66 TTGTATAAGGTTGTGTTCAACCTTGGGAACAATCACTCAAGAATTTGGGGTATACTTCTCGAAGT
3764092 GATTGAGAGGTTCTATGTTAGCCTTGAAAGATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGT
131 GATTGAGAGGTTCTATGTTAGCCTTGAAAGATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGT
3764157 AACAATTCAAGTAGTGAATTGTGGTAATCACTTGGTAAGGAAGTGCCAAGGAGAGAGGACGTAGG
196 AACAATTCAAGTAGTGAATTGTGGTAATCACTTGGTAAGGAAGTGCCAAGGAGAGAGGACGTAGG
3764222 TGCTGAGTTAAGGACCGAACCTCAATAAATTTTCGTGTTTGTTTTCTCTTACCTTTACTCTCTTT
261 TGCTGAGTTAAGGACCGAACCTCAATAAATTTTCGTGTTTGTTTTCTCTTACCTTTACTCTCTTT
3764287 ATCTTTTGATTTGTCTTTATCACTCTTACTTCAAAGTTTTAATTTTCAATAAAAACCAATTCACC
326 ATCTTTTGATTTGTCTTTATCACTCTTACTTCAAAGTTTTAATTTTCAATAAAAACCAATTCACC
3764352 CCACCTCTTGGTTCATTCTCTATTTTGGGCTTACAATTGGTATCAAAGCCTAATTTCCTTTATCG
391 CCACCTCTTGGTTCATTCTCTATTTTGGGCTTACAATTGGTATCAAAGCCTAATTTCCTTTATCG
3764417 GATTAACACCTGGGAGGAACGATATTTTCTAGC
456 GATTAACACCTGGGAGGAACGATATTTTCTAGC
3764450 TCAAAACCAAGATCCTAACACTTACCTATTTAGAGGCATTTCGAGTTTGTAAAAGTCCATTTGTA
1 TCAAAACCAAGATCCTAACACTTACCTATTTAGAGGCATTTCGAGTTTGTAAAAGTCCATTTGTA
3764515 TTGTATAAGGTTGTGTTCAACCTTGGGAACAATCACTCAAGAATTTGGGGTATACTTCTCGAAGT
66 TTGTATAAGGTTGTGTTCAACCTTGGGAACAATCACTCAAGAATTTGGGGTATACTTCTCGAAGT
3764580 GATTGAGAGGTTCTATGTTAGCCTTGAAAGATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGT
131 GATTGAGAGGTTCTATGTTAGCCTTGAAAGATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGT
3764645 AACAATTCAAGTAGTGAATTGTGGTAATCACTTGGTAAGGAAGTGCCAAGGAGAGAGGACGTAGG
196 AACAATTCAAGTAGTGAATTGTGGTAATCACTTGGTAAGGAAGTGCCAAGGAGAGAGGACGTAGG
3764710 TGCTGAGTTAAGGACCGAACCTCAATAAATTTTCGTGTTTGTTTTCTCTTACCTTTACTCTCTTT
261 TGCTGAGTTAAGGACCGAACCTCAATAAATTTTCGTGTTTGTTTTCTCTTACCTTTACTCTCTTT
3764775 ATCTTTTGATTTGTCTTTATCACTCTTACTTCAAAGTTTTAATTTTCAATAAAAACCAATTCACC
326 ATCTTTTGATTTGTCTTTATCACTCTTACTTCAAAGTTTTAATTTTCAATAAAAACCAATTCACC
3764840 CCACCTCTTGGTTCATTCTCTATTTTGGGCTTACAATTGGTATCAAAGCCTAATTTCCTTTATCG
391 CCACCTCTTGGTTCATTCTCTATTTTGGGCTTACAATTGGTATCAAAGCCTAATTTCCTTTATCG
3764905 GATTAACACCTGGGAGGAACGATATTTTCTAGC
456 GATTAACACCTGGGAGGAACGATATTTTCTAGC
3764938 TCAAA
1 TCAAA
3764943 TAGAAAACGT
Statistics
Matches: 492, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
488 492 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (488 bp):
TCAAAACCAAGATCCTAACACTTACCTATTTAGAGGCATTTCGAGTTTGTAAAAGTCCATTTGTA
TTGTATAAGGTTGTGTTCAACCTTGGGAACAATCACTCAAGAATTTGGGGTATACTTCTCGAAGT
GATTGAGAGGTTCTATGTTAGCCTTGAAAGATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGT
AACAATTCAAGTAGTGAATTGTGGTAATCACTTGGTAAGGAAGTGCCAAGGAGAGAGGACGTAGG
TGCTGAGTTAAGGACCGAACCTCAATAAATTTTCGTGTTTGTTTTCTCTTACCTTTACTCTCTTT
ATCTTTTGATTTGTCTTTATCACTCTTACTTCAAAGTTTTAATTTTCAATAAAAACCAATTCACC
CCACCTCTTGGTTCATTCTCTATTTTGGGCTTACAATTGGTATCAAAGCCTAATTTCCTTTATCG
GATTAACACCTGGGAGGAACGATATTTTCTAGC
Found at i:3773347 original size:20 final size:20
Alignment explanation
Indices: 3773303--3773360 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
3773293 ATTTCAACGA
***
3773303 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
3773323 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
3773343 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
3773361 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:3777475 original size:140 final size:140
Alignment explanation
Indices: 3777223--3777501 Score: 477
Period size: 140 Copynumber: 2.0 Consensus size: 140
3777213 GAGAAGCTTC
* *
3777223 TTGGGGAGATTAAACTACATTTCTAGGTTCATATCCTAGCTCACTAACAAATGCGATCCCATCTT
1 TTGGGGAGATTAAACTACATTTCTAGGTTCATATCCCAGCTCACTAACAAATGCAATCCCATCTT
** * *
3777288 CTGGCTCTTTCGAAAACAAAATCCAAAAGAGTGGAACGAGGGATGTCAAGAAGCCTTTGATAAAG
66 CCAGCTCTTTCGAAAACAAAATCCAAAAGAGTGGAACGAGGCATGTCAAGAAGCCTTTAATAAAG
3777353 TCAAGCATTG
131 TCAAGCATTG
3777363 TTGGGGAGATTAAACTACATTTCTAGGTTCATATCCCAGCTCACTAACAAATGCAATCCCATCTT
1 TTGGGGAGATTAAACTACATTTCTAGGTTCATATCCCAGCTCACTAACAAATGCAATCCCATCTT
** *
3777428 CCAGCTCTTTCGAAAACAAAATCCAGGAGAGTGGAACGAGGCATGTCAAGAAGCCTTTAATGAAG
66 CCAGCTCTTTCGAAAACAAAATCCAAAAGAGTGGAACGAGGCATGTCAAGAAGCCTTTAATAAAG
3777493 TCAAGCATT
131 TCAAGCATT
3777502 ATTTGTTAAG
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 130 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (140 bp):
TTGGGGAGATTAAACTACATTTCTAGGTTCATATCCCAGCTCACTAACAAATGCAATCCCATCTT
CCAGCTCTTTCGAAAACAAAATCCAAAAGAGTGGAACGAGGCATGTCAAGAAGCCTTTAATAAAG
TCAAGCATTG
Found at i:3779785 original size:16 final size:15
Alignment explanation
Indices: 3779766--3779799 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3779756 TGTCCTTCTC
*
3779766 AAAAAGCAAAAAAGAA
1 AAAAAACAAAAAA-AA
3779782 AAAAAACAAAAAAAA
1 AAAAAACAAAAAAAA
3779797 AAA
1 AAA
3779800 CAAAAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAA
Found at i:3779797 original size:12 final size:12
Alignment explanation
Indices: 3779780--3779806 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3779770 AGCAAAAAAG
3779780 AAAAAAAACAAA
1 AAAAAAAACAAA
3779792 AAAAAAAACAAA
1 AAAAAAAACAAA
3779804 AAA
1 AAA
3779807 CCAACACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:3781168 original size:28 final size:27
Alignment explanation
Indices: 3781127--3781705 Score: 545
Period size: 28 Copynumber: 20.6 Consensus size: 27
3781117 AATACGACCT
* *
3781127 CTTTTCAAAGCCCACAAGTTAGTGACA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA
3781154 CATTTTCAAAGCCCACAAGTCAGTGGCA
1 C-TTTTCAAAGCCCACAAGTCAGTGGCA
*
3781182 CATTTTCAAATCCCACAAGTCAGTGGCA
1 C-TTTTCAAAGCCCACAAGTCAGTGGCA
3781210 CCTTTTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
*
3781238 TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3781266 CCTTTTCAAATCCCATAAGTCAGTGGCTT
1 -CTTTTCAAAGCCCACAAGTCAGTGGC-A
*
3781295 CTTTCCAAAGCCCACAAGTCAGTGGCA
1 CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
3781322 TCTTTTCAAAGCCCACAACTTAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3781350 GCTTCTCAAAGCACACATGTTAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3781378 TATTTTTAAAGCACACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
3781406 CCTTTTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3781434 CCTTCTCAAAGCCCATAAGTTAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3781462 CCATTTCAAA-CACCATAAGTTAGTGGTA
1 -CTTTTCAAAGC-CCACAAGTCAGTGGCA
*
3781490 CCTTCTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
3781518 TCCTCTCAAGGCCCACAAGTTAATGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3781546 TATTTTCAAAG-CCATAAGTCAGTGACA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
*
3781573 CCTTCTT-AAAGCCCAGAAGTCAGTGGCA
1 -CTT-TTCAAAGCCCACAAGTCAGTGGCA
*
3781601 TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
* *
3781629 TCTTTTCAAAGCCCACAGGTCAATGGCA
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA
*
3781657 TCCTTTT-AAAGCCCGCACAAGTCAATGGCAA
1 --CTTTTCAAAG-CC-CACAAGTCAGTGGC-A
3781688 CTTTCTCTAAAGCCCACA
1 CTTT-TC-AAAGCCCACA
3781706 CAAGTTGGTG
Statistics
Matches: 467, Mismatches: 69, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
27 22 0.05
28 407 0.87
29 13 0.03
30 18 0.04
31 3 0.01
32 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (27 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3781197 original size:56 final size:56
Alignment explanation
Indices: 3781126--3781705 Score: 623
Period size: 56 Copynumber: 10.3 Consensus size: 56
3781116 CAATACGACC
* * *
3781126 TCTTTTCAAAGCCCACAAGTTAGTGACACATTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
*
3781182 -CATTTTCAAATCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
1 TC-TTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3781238 TCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAATCCCATAAGTCAGTGGCT
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3781294 TCTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAACTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * ** * *
3781350 GCTTCTCAAAGCACACATGTTAGTGGCATATTTTTAAAGCACACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3781406 CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCATAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
3781462 CCATTTCAAA-CACCATAAGTTAGTGGTACCTTCTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGC-CCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * ** * *
3781518 TCCTCTCAAGGCCCACAAGTTAATGGCATATTTTCAAAG-CCATAAGTCAGTGACA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
3781573 CCTTCTT-AAAGCCCAGAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCA
1 TCTT-TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3781629 TCTTTTCAAAGCCCACAGGTCAATGGCATCCTTTT-AAAGCCCGCACAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAG-CC-CACAAGTCAGTGGCA
*
3781687 ACTTTCTCTAAAGCCCACA
1 TCTTT-TC-AAAGCCCACA
3781706 CAAGTTGGTG
Statistics
Matches: 436, Mismatches: 75, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
55 45 0.10
56 354 0.81
57 7 0.02
58 18 0.04
59 2 0.00
60 10 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (56 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3781272 original size:84 final size:83
Alignment explanation
Indices: 3781126--3781705 Score: 619
Period size: 84 Copynumber: 6.9 Consensus size: 83
3781116 CAATACGACC
* * * *
3781126 TCTTTTCAAAGCCCACAAGTTAGTGACACATTTTCAAAGCCCACAAGTCAGTGGCACATTTTCAA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
*
3781191 ATCCCACAAGTCAGTGGCA
65 AGCCCACAAGTCAGTGGCA
*
3781210 CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * *
3781275 ATCCCATAAGTCAGTGGCT
65 AGCCCACAAGTCAGTGGCA
* * * * * *
3781294 TCTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAACTTAGTGGCAGCTTCTCAA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* * *
3781359 AGCACACATGTTAGTGGCA
65 AGCCCACAAGTCAGTGGCA
* * * *
3781378 TATTTTTAAAGCACACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCAA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* *
3781443 AGCCCATAAGTTAGTGGCA
65 AGCCCACAAGTCAGTGGCA
* * * * * *
3781462 CCATTTCAAA-CACCATAAGTTAGTGGTACCTTCTCAAAGCCCACAAGTCAGTGGCATCC-TCTC
1 TCTTTTCAAAGC-CCACAAGTCAGTGGCACCTT-TCAAAGCCCACAAGTCAGTGGCA-CCTTTTC
* * *
3781525 AAGGCCCACAAGTTAATGGCA
63 AAAGCCCACAAGTCAGTGGCA
* * * * *
3781546 TATTTTCAAAG-CCATAAGTCAGTGACACCTTCTTAAAGCCCAGAAGTCAGTGGCATCC-TTTCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTT-TCAAAGCCCACAAGTCAGTGGCA-CCTTTTCA
3781609 AAGCCCACAAGTCAGTGGCA
64 AAGCCCACAAGTCAGTGGCA
* * * * *
3781629 TCTTTTCAAAGCCCACAGGTCAATGGCATCCTTTTAAAGCCCGCACAAGTCAATGGCAACTTTCT
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAG-CC-CACAAGTCAGTGGCACCTTT-T
3781694 CTAAAGCCCACA
62 C-AAAGCCCACA
3781706 CAAGTTGGTG
Statistics
Matches: 421, Mismatches: 62, Indels: 22
0.83 0.12 0.04
Matches are distributed among these distances:
83 77 0.18
84 307 0.73
85 10 0.02
86 15 0.04
87 2 0.00
88 10 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (83 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
GCCCACAAGTCAGTGGCA
Found at i:3782823 original size:30 final size:29
Alignment explanation
Indices: 3782787--3782875 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 29
3782777 TAGTACATGA
3782787 ATCGATACATTCTTTTTTTTACCCAGATGT
1 ATCGATACATTC-TTTTTTTACCCAGATGT
3782817 ATCGATACA-----TTTTT---CA-ATGT
1 ATCGATACATTCTTTTTTTACCCAGATGT
3782837 ATCGATACATTCTGTTTTTTACCCAGATGT
1 ATCGATACATTCT-TTTTTTACCCAGATGT
*
3782867 ATGGATACA
1 ATCGATACA
3782876 CTGAAAAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 20
0.70 0.01 0.29
Matches are distributed among these distances:
20 13 0.27
21 2 0.04
24 5 0.10
26 5 0.10
29 2 0.04
30 21 0.44
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (29 bp):
ATCGATACATTCTTTTTTTACCCAGATGT
Found at i:3782886 original size:50 final size:50
Alignment explanation
Indices: 3782787--3782896 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
3782777 TAGTACATGA
* * ****
3782787 ATCGATACATTCTTTTTTTTACCCAGATGTATCGATACATTTTTCAATGT
1 ATCGATACATTCTGTTTTTTACCCAGATGTATCGATACACTGAAAAATGT
*
3782837 ATCGATACATTCTGTTTTTTACCCAGATGTATGGATACACTGAAAAATGT
1 ATCGATACATTCTGTTTTTTACCCAGATGTATCGATACACTGAAAAATGT
3782887 ATCGATACAT
1 ATCGATACAT
3782897 CTAGTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (50 bp):
ATCGATACATTCTGTTTTTTACCCAGATGTATCGATACACTGAAAAATGT
Found at i:3794841 original size:10 final size:10
Alignment explanation
Indices: 3794827--3794880 Score: 72
Period size: 10 Copynumber: 5.2 Consensus size: 10
3794817 TCAAAAAGTA
3794827 AAAAAAAAACC
1 AAAAAAAAA-C
*
3794838 AAAAAAAAAA
1 AAAAAAAAAC
3794848 AAACAAAAAAC
1 AAA-AAAAAAC
*
3794859 AAGAAAAAAC
1 AAAAAAAAAC
3794869 AAAAAAAAAC
1 AAAAAAAAAC
3794879 AA
1 AA
3794881 CACAAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 21 0.55
11 17 0.45
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:3794848 original size:17 final size:16
Alignment explanation
Indices: 3794826--3794877 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
3794816 CTCAAAAAGT
*
3794826 AAAAAAAAAAC-CAAA
1 AAAAAAAAAACAAAAA
3794841 AAAAAAAAAACAAAAA
1 AAAAAAAAAACAAAAA
*
3794857 ACAAGAAAAAACAAAAA
1 A-AAAAAAAAACAAAAA
3794874 AAAA
1 AAAA
3794878 CAACACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 11 0.34
16 6 0.19
17 15 0.47
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:3794887 original size:10 final size:10
Alignment explanation
Indices: 3794842--3794888 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
3794832 AAAACCAAAA
*
3794842 AAAAAAAAAC
1 AAAAAACAAC
*
3794852 AAAAAACAAG
1 AAAAAACAAC
*
3794862 AAAAAACAAA
1 AAAAAACAAC
3794872 AAAAAACAAC
1 AAAAAACAAC
3794882 ACAAAAA
1 A-AAAAA
3794889 AGGGAGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 27 0.84
11 5 0.16
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAACAAC
Found at i:3794889 original size:1 final size:1
Alignment explanation
Indices: 3794826--3794877 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
3794816 CTCAAAAAGT
** * * * *
3794826 AAAAAAAAAACCAAAAAAAAAAAAACAAAAAACAAGAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3794878 CAACACAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:3796265 original size:13 final size:13
Alignment explanation
Indices: 3796232--3796266 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
3796222 GATGTGTATA
3796232 TTTGTCAAGAAAT
1 TTTGTCAAGAAAT
*
3796245 TATTGTCAAGAACT
1 T-TTGTCAAGAAAT
3796259 TTTGTCAA
1 TTTGTCAA
3796267 TTTGTCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (13 bp):
TTTGTCAAGAAAT
Found at i:3796355 original size:28 final size:28
Alignment explanation
Indices: 3796309--3796999 Score: 737
Period size: 28 Copynumber: 24.5 Consensus size: 28
3796299 ATTACGACCT
* * *
3796309 CTTTCCAAAGCCCATAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
3796337 ATTTTCAAAGCCCCCAAGTCATTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3796365 TTTTTTAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3796393 CTTCTCAAAGCCCACATGTCAGTAGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
3796422 C-TTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3796449 GTTTTCAAAGCTCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
3796477 CTTTTCAAAGCCCACATA-TCAGTTGCAC
1 CTTTTCAAAGCCCACA-AGTCAGTGGCAC
*
3796505 CTTCTT-AAAGCCCACAAGTAAGTGGCAC
1 CTT-TTCAAAGCCCACAAGTCAGTGGCAC
*
3796533 CTTTTCAAAGCCCATAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3796561 TTTTTCAAAGCCCACATGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* ** *
3796589 CTTCTCAAAGCCCACACTTCAATGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
3796618 C-TTTCAAAGTCCACGAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3796645 CTTTTCGAAGCCCACAAGTCAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3796673 ATTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3796701 ATTTTCAAAGCCCAAAAGTCAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3796729 CTTTTTAAAGCCCATAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
3796757 CTTTTTCAAAGCCCACAAATCAGTGGCAC
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3796786 CTTTTCAAACCCCACAAGTCAGTAGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3796814 CTTCTCAAAACCCACAAGTCAGTGGCATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
3796843 CTCTT-AAAACCCACAAGTAAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
3796870 CTTCTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
3796899 C-TTTCAAAGCCAATAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
3796926 CTTTTCAAAGCCCACAAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * * * *
3796955 CTTTTAAAACCCACACAAATCAATGGCAA
1 CTTTTCAAAGCC-CACAAGTCAGTGGCAC
3796984 CTTTCTCTAAAGCCCA
1 CTTT-TC-AAAGCCCA
3797000 TACAATTTGG
Statistics
Matches: 548, Mismatches: 98, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
27 10 0.02
28 467 0.85
29 51 0.09
30 15 0.03
31 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:3798180 original size:50 final size:50
Alignment explanation
Indices: 3798072--3798185 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
3798062 TGAACAGTAC
** * ****
3798072 ATGTATCGATACATTCATTTTTTTACTTAGATATATTGATACATTTTTTA
1 ATGTATCGATACATTCATTTTTTTACCCAGATATATCGATACATTGAAAA
* *
3798122 ATGCATCGATACATTC-TATTTTTTACCCAGATGTATCGATACATTGAAAA
1 ATGTATCGATACATTCAT-TTTTTTACCCAGATATATCGATACATTGAAAA
3798172 ATGTATCGATACAT
1 ATGTATCGATACAT
3798186 CCAGTTTATT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 52 0.98
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (50 bp):
ATGTATCGATACATTCATTTTTTTACCCAGATATATCGATACATTGAAAA
Found at i:3799113 original size:20 final size:20
Alignment explanation
Indices: 3799075--3799114 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3799065 TAGCCTTTGA
*
3799075 TCATGCATTTTCACTATGTT
1 TCATGCATTTTAACTATGTT
3799095 TCATGCATTTTTAAC-ATGTT
1 TCATGCA-TTTTAACTATGTT
3799115 CGGCATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (20 bp):
TCATGCATTTTAACTATGTT
Found at i:3807007 original size:13 final size:13
Alignment explanation
Indices: 3806989--3807013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3806979 CAATTCATCA
3806989 TGTATCGATACAT
1 TGTATCGATACAT
3807002 TGTATCGATACA
1 TGTATCGATACA
3807014 ATGTGCCATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3807011 original size:33 final size:33
Alignment explanation
Indices: 3806969--3807033 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3806959 TTACAAGCAA
3806969 TGTATCGATACAAT-T-CATCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
3807002 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
3807034 AACAGTAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:3807107 original size:19 final size:19
Alignment explanation
Indices: 3807063--3807118 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3807053 CTGCCTGTTT
* **
3807063 CATGTATCGATACAGTTGTG
1 CATGTATCGATACA-ATGAA
3807083 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
3807102 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3807119 TGTAATGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3807128 original size:20 final size:19
Alignment explanation
Indices: 3807064--3807135 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
3807054 TGCCTGTTTC
* *
3807064 ATGTATCGATACAGTTGTGC
1 ATGTATCGATACAATTGT-A
*
3807084 ATGTATCGATACAA-TGAA
1 ATGTATCGATACAATTGTA
3807102 CATGTATCGATACAATGTGTA
1 -ATGTATCGATACAAT-TGTA
*
3807123 ATGTATTGATACA
1 ATGTATCGATACA
3807136 TCTGGATGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 16 0.36
20 25 0.57
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATTGTA
Found at i:3807886 original size:20 final size:19
Alignment explanation
Indices: 3807863--3807936 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
3807853 CACACCCAGA
*
3807863 TGTATCGATACATGCTGCTT
1 TGTATCGATACATG-TGCAT
*
3807883 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTGCAT
*
3807902 TGTATCAATACATG-GCCAAAT
1 TGTATCGATACATGTG-C--AT
3807923 TGTATCGATACATG
1 TGTATCGATACATG
3807937 AAATTGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.37
20 14 0.30
21 15 0.33
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGTGCAT
Found at i:3809246 original size:33 final size:33
Alignment explanation
Indices: 3809173--3809249 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
3809163 TCCGTCGGTT
* * *
3809173 AAGTGAACTAAAGTGTTCATCCATGCGCTGCGA
1 AAGTGAAGTGAAGTGCTCATCCATGCGCTGCGA
* * * *
3809206 GAGTGAAGTGAAGTGCTCATTCATGTGTTGCGA
1 AAGTGAAGTGAAGTGCTCATCCATGCGCTGCGA
3809239 AAGTGAAGTGA
1 AAGTGAAGTGA
3809250 TCAACTCTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (33 bp):
AAGTGAAGTGAAGTGCTCATCCATGCGCTGCGA
Found at i:3810282 original size:20 final size:20
Alignment explanation
Indices: 3810254--3810304 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
3810244 AGCTGCCAGG
*
3810254 TTGCAACCTGGGTGTGCCGA
1 TTGCGACCTGGGTGTGCCGA
3810274 TTGCGACCTGGGTGTGCCGA
1 TTGCGACCTGGGTGTGCCGA
3810294 TTGCGACCTGG
1 TTGCGACCTGG
3810305 AGAGGCTACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.25, G:0.37, T:0.25
Consensus pattern (20 bp):
TTGCGACCTGGGTGTGCCGA
Found at i:3810768 original size:13 final size:13
Alignment explanation
Indices: 3810745--3810784 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3810735 ATAGTAACCC
*
3810745 ATGTATTGATACA
1 ATGTATCGATACA
*
3810758 TTGTATCGATACA
1 ATGTATCGATACA
*
3810771 ATGTATCAATACA
1 ATGTATCGATACA
3810784 A
1 A
3810785 AGAACATCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3814147 original size:13 final size:13
Alignment explanation
Indices: 3814129--3814153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3814119 ATTACTCAAA
3814129 TGTATCGATACAT
1 TGTATCGATACAT
3814142 TGTATCGATACA
1 TGTATCGATACA
3814154 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3814205 original size:52 final size:52
Alignment explanation
Indices: 3814162--3814290 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3814152 CACTGATCTT
* *
3814162 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3814214 TGTATCGATACATGCAGGAAAAATTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3814266 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3814291 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3820710 original size:19 final size:20
Alignment explanation
Indices: 3820667--3820739 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
3820657 CTACCAGTTT
*
3820667 CATGTATCGATACAATTATG
1 CATGTATCGATACAATGATG
3820687 CATGTATCGATACAATGA-G
1 CATGTATCGATACAATGATG
*
3820706 CATGTATC-ATTACAAAGCAT-
1 CATGTATCGA-TACAATG-ATG
*
3820726 AATGTATCGATACA
1 CATGTATCGATACA
3820740 TCTAGATGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.02
19 15 0.33
20 29 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATG
Found at i:3821779 original size:17 final size:17
Alignment explanation
Indices: 3821757--3821793 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3821747 AAATGGGTAC
3821757 CTTCTAACTATGTCTCA
1 CTTCTAACTATGTCTCA
3821774 CTTCTAACTATGTCTCA
1 CTTCTAACTATGTCTCA
3821791 CTT
1 CTT
3821794 AGATCTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.05, T:0.43
Consensus pattern (17 bp):
CTTCTAACTATGTCTCA
Found at i:3824436 original size:30 final size:31
Alignment explanation
Indices: 3824402--3824508 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 31
3824392 ATACATTTTC
3824402 AATGTATCGATACAT-TTGGATAAAACCCAG
1 AATGTATCGATACATCTTGGATAAAACCCAG
* * * * *** *
3824432 AATGTATCGATATAGTGTATCGATACAATGAAC
1 AATGTATCGATACA-TCT-TGGATAAAACCCAG
*
3824465 AATGTATCGATACATCTAGG-TAAAACCCAG
1 AATGTATCGATACATCTTGGATAAAACCCAG
3824495 AATGTATCGATACA
1 AATGTATCGATACA
3824509 ATGAACAATG
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
30 32 0.55
31 2 0.03
32 3 0.05
33 21 0.36
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (31 bp):
AATGTATCGATACATCTTGGATAAAACCCAG
Found at i:3825410 original size:59 final size:59
Alignment explanation
Indices: 3825315--3826037 Score: 801
Period size: 59 Copynumber: 12.2 Consensus size: 59
3825305 ATAAAGCGTG
* * ** *
3825315 TCCTGCTCTTTGGGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
* **
3825374 TCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCAGGCTTTGAAAGGAAAGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
*
3825433 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCA
* *
3825494 TCTTGCTCTTTGAGGACTA-ACAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCA
* *
3825555 TCTTGCTCTTTGAGGACTA-ATAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCA
1 TCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
* * *
3825614 TCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
* * *
3825673 TCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGATTTGAAAGGAAAGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
* * * * *
3825732 TCTTGTTGTTTGAGGACT-----G-G-----AACTTATGTGGGCTTTGAAAGGAAAACA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
* * **
3825780 TCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCA
* * * * * * *
3825841 TCCTGCTTTTTGAGGA-TTGACAAGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAAGCG
1 TCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGG--AAAGCA
* * * * *
3825902 TCGTGCTCTTTGAGGACTTGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AA-GCA
* * *
3825964 CCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGGAAAGGACA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA-G-CA
3826025 TCCTGCTCTTTGA
1 TCCTGCTCTTTGA
3826038 AAACTGATAG
Statistics
Matches: 579, Mismatches: 60, Indels: 48
0.84 0.09 0.07
Matches are distributed among these distances:
48 39 0.07
53 2 0.00
54 2 0.00
59 247 0.43
60 44 0.08
61 190 0.33
62 54 0.09
63 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
Found at i:3825775 original size:48 final size:48
Alignment explanation
Indices: 3825704--3825801 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
3825694 AGGTGCCACC
* * * ** *
3825704 AACTTGTGTGGGATTTGAAAGGAAAGCATCTTGTTGTTTGAGGACTGG
1 AACTTATGTGGGATTTGAAAGGAAAACATCCTACTCTTTGAGGACTGG
*
3825752 AACTTATGTGGGCTTTGAAAGGAAAACATCCTACTCTTTGAGGACTGG
1 AACTTATGTGGGATTTGAAAGGAAAACATCCTACTCTTTGAGGACTGG
3825800 AA
1 AA
3825802 GGTGCCACCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (48 bp):
AACTTATGTGGGATTTGAAAGGAAAACATCCTACTCTTTGAGGACTGG
Found at i:3825939 original size:62 final size:61
Alignment explanation
Indices: 3825752--3826037 Score: 328
Period size: 61 Copynumber: 4.7 Consensus size: 61
3825742 TGAGGACTGG
* * * * * *
3825752 AACTTATGTGGGCTTTGAAAGGAAAA--CATCCTACTCTTTGAGGACTGGAAGGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
* * * * *
3825811 AACTTGTGTGGGCTTTGAAAGGAAAAGGTGTCCTGCTTTTTGAGGATTGACAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
* * * * *
3825872 AACTTGTATAGGCTTTAAAAGGAAAAAGCGTCGTGCTCTTTGAGGACTTGAAAAGTGCTACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGAC-TGAAAAGTGCCACC
* **
3825934 AACTTGTGTGGGCTTTAAAAGGAGAAGGCACCCTGCTCTTTGAGGACTG-AAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
* *
3825994 AACTTATGTGGGCTTTGAAAAGG-AAAGGACATCCTGCTCTTTGA
1 AACTTGTGTGGGCTTT-AAAAGGAAAAGG-CGTCCTGCTCTTTGA
3826038 AAACTGATAG
Statistics
Matches: 192, Mismatches: 30, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
59 25 0.13
60 29 0.15
61 86 0.45
62 52 0.27
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (61 bp):
AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
Found at i:3826032 original size:123 final size:121
Alignment explanation
Indices: 3825752--3826037 Score: 362
Period size: 123 Copynumber: 2.3 Consensus size: 121
3825742 TGAGGACTGG
* * *
3825752 AACTTATGTGGGCTTTG-AAAGGAAAACATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTT
1 AACTTATGTGGGCTTTGAAAAGGAAAACATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTT
* *** * *
3825816 GTGTGGGCTTTGAAAGGAAAAGGTGTCCTGCTTTTTGAGGATTGACAAGTGCCACC
66 GTGTGGGCTTTAAAAGGAAAAGGCACCCTGCTCTTTGAGGACTGACAAGTGCCACC
* * * * * *
3825872 AACTTGTATAGGCTTT-AAAAGGAAAAAGCGTCGTGCTCTTTGAGGACTTGAAAAGTGCTACCAA
1 AACTTATGTGGGCTTTGAAAAGG-AAAA-CATCCTGCTCTTTGAGGAC-TGAAAAGTGCCACCAA
*
3825936 CTTGTGTGGGCTTTAAAAGGAGAAGGCACCCTGCTCTTTGAGGACTGA-AAGTGCCACC
63 CTTGTGTGGGCTTTAAAAGGAAAAGGCACCCTGCTCTTTGAGGACTGACAAGTGCCACC
3825994 AACTTATGTGGGCTTTGAAAAGGAAAGGACATCCTGCTCTTTGA
1 AACTTATGTGGGCTTTGAAAAGGAAA--ACATCCTGCTCTTTGA
3826038 AAACTGATAG
Statistics
Matches: 138, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
120 18 0.13
121 4 0.03
122 42 0.30
123 73 0.53
124 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (121 bp):
AACTTATGTGGGCTTTGAAAAGGAAAACATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTT
GTGTGGGCTTTAAAAGGAAAAGGCACCCTGCTCTTTGAGGACTGACAAGTGCCACC
Found at i:3827033 original size:1 final size:1
Alignment explanation
Indices: 3827027--3827083 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
3827017 TTTTCTTACC
* * * * * * *
3827027 TTTTTTTTCTTTTTTCTCTTTTTTTATTTTTTATTTTTTATTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3827084 GTTTAGAAAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.05, C:0.05, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:3831052 original size:13 final size:13
Alignment explanation
Indices: 3831034--3831059 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3831024 TACACCAAGT
3831034 ATGTATCGATACA
1 ATGTATCGATACA
3831047 ATGTATCGATACA
1 ATGTATCGATACA
3831060 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3831057 original size:32 final size:33
Alignment explanation
Indices: 3831016--3831079 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3831006 TAGCCAAACT
* **
3831016 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
3831048 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3831080 TTGGCCTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3831580 original size:34 final size:35
Alignment explanation
Indices: 3831517--3831583 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3831507 CTAAGTGATT
3831517 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3831553 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3831584 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3832263 original size:20 final size:20
Alignment explanation
Indices: 3832208--3832263 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
3832198 CCTAAGGTGT
*
3832208 GCATTAACAGTACATAAATG
1 GCATTAACAGTACATCAATG
3832228 GCATTAACAGTACATCAATG
1 GCATTAACAGTACATCAATG
3832248 GCATTAACAGTACATC
1 GCATTAACAGTACATC
3832264 CTAAGGTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (20 bp):
GCATTAACAGTACATCAATG
Found at i:3835242 original size:4 final size:4
Alignment explanation
Indices: 3835233--3835279 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
3835223 AAACAAAACA
*
3835233 AAAT AAAT AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
3835280 CACCTCTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:3835848 original size:20 final size:20
Alignment explanation
Indices: 3835823--3835968 Score: 114
Period size: 20 Copynumber: 6.8 Consensus size: 20
3835813 TTTTATCCAG
*
3835823 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
3835843 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *
3835863 ATGTATCGATACATGTATGC-
1 ATGTATCGATACAT-TTTTCA
*
3835883 ATGTATCGATATATTTTATCTTTTTACCTA
1 ATGTATCG--ATA---CA--TTTTT--C-A
3835913 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* *
3835934 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
3835954 ATGTATCGATACATT
1 ATGTATCGATACATT
3835969 CTGTCTTTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
20 71 0.70
21 4 0.04
22 4 0.04
24 5 0.05
25 1 0.01
26 3 0.03
27 1 0.01
28 1 0.01
29 3 0.03
31 8 0.08
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3835959 original size:71 final size:71
Alignment explanation
Indices: 3835843--3836018 Score: 239
Period size: 71 Copynumber: 2.5 Consensus size: 71
3835833 ACATTTTTCA
* * *
3835843 ATGTATCAATACATTTTTCAATGTATCGATACATGTATGCATGTATCGATATATTTTATCTTTTT
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGCATGTATCGATACATTCTATCTTTTT
3835908 ACCTAG
66 ACCTAG
* * * *
3835914 ATGTATCGATACATTTTTCAATGTATTGATACAT-TCTTCAATGTATCGATACATTCTGTCTTTT
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGC-ATGTATCGATACATTCTATCTTTT
3835978 TACCTAG
65 TACCTAG
**
3835985 ATGTATCGATACATTGAAT-AATGTATCGATACAT
1 ATGTATCGATACATT-TTTCAATGTATCGATACAT
3836019 CTAGTTAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 3 0.03
71 89 0.96
72 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (71 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATGCATGTATCGATACATTCTATCTTTTT
ACCTAG
Found at i:3843763 original size:12 final size:11
Alignment explanation
Indices: 3843739--3843838 Score: 93
Period size: 11 Copynumber: 9.1 Consensus size: 11
3843729 TCCTTCATAC
3843739 AAAAAAAAC-A
1 AAAAAAAACAA
*
3843749 AAAAAAAGCAA
1 AAAAAAAACAA
3843760 AAAAAAAACCAA
1 AAAAAAAA-CAA
*
3843772 GAAAAAAAC--
1 AAAAAAAACAA
3843781 AAAAAAAAC--
1 AAAAAAAACAA
3843790 AAAAAAAACAA
1 AAAAAAAACAA
3843801 AAAAAAAACCAA
1 AAAAAAAA-CAA
3843813 AAACAAGCAAACAA
1 AAA-AA--AAACAA
*
3843827 ACAAAAAACAA
1 AAAAAAAACAA
3843838 A
1 A
3843839 CAAACAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 15
0.79 0.05 0.15
Matches are distributed among these distances:
9 17 0.22
10 8 0.10
11 24 0.31
12 16 0.21
13 4 0.05
14 5 0.06
15 3 0.04
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:3843802 original size:41 final size:40
Alignment explanation
Indices: 3843737--3843848 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 40
3843727 CGTCCTTCAT
3843737 ACAAAAAAAACAAAAAAAAGCAAAAAAAAAACCAAGAAAAAA
1 ACAAAAAAAACAAAAAAAA-CAAAAAAAAAACCAA-AAAAAA
*
3843779 ACAAAAAAAACAAAAAAAACAAAAAAAAAACCAAAAACAA
1 ACAAAAAAAACAAAAAAAACAAAAAAAAAACCAAAAAAAA
* * *
3843819 GCAAACAAACAA-AAAACAAACAAACAAAAA
1 ACAAA-AAA-AACAAAAAAAACAAAAAAAAA
3843849 GGGGTCCAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
40 9 0.14
41 34 0.53
42 21 0.33
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (40 bp):
ACAAAAAAAACAAAAAAAACAAAAAAAAAACCAAAAAAAA
Found at i:3843815 original size:1 final size:1
Alignment explanation
Indices: 3843739--3843808 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
3843729 TCCTTCATAC
* ** ** * * * *
3843739 AAAAAAAACAAAAAAAAGCAAAAAAAAAACCAAGAAAAAAACAAAAAAAACAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3843804 AAAAA
1 AAAAA
3843809 CCAAAAACAA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:3843827 original size:4 final size:4
Alignment explanation
Indices: 3843795--3843846 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
3843785 AAAACAAAAA
* * *
3843795 AAAC AAA- AAAA AAAC CAA- AAAC AAGC AAAC AAAC AAA- AAAC AAAC
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC
3843840 AAAC AAA
1 AAAC AAA
3843847 AAGGGGTCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 8 0.20
4 32 0.80
ACGTcount: A:0.79, C:0.19, G:0.02, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:3843839 original size:11 final size:10
Alignment explanation
Indices: 3843739--3843848 Score: 93
Period size: 9 Copynumber: 10.7 Consensus size: 10
3843729 TCCTTCATAC
3843739 AAAAAAAACA
1 AAAAAAAACA
*
3843749 AAAAAAAGCAA
1 AAAAAAAAC-A
3843760 AAAAAAAACCA
1 AAAAAAAA-CA
3843771 AGAAAAAAAC-
1 A-AAAAAAACA
3843781 AAAAAAAAC-
1 AAAAAAAACA
3843790 AAAAAAAAC-
1 AAAAAAAACA
3843799 AAAAAAAA-A
1 AAAAAAAACA
**
3843808 ACCAAAAACA
1 AAAAAAAACA
*
3843818 AGCAAACAAACA
1 A--AAAAAAACA
3843830 AAAAACAAACA
1 AAAAA-AAACA
3843841 AACAAAAA
1 AA-AAAAA
3843849 GGGGTCCAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
9 31 0.37
10 14 0.17
11 20 0.24
12 18 0.22
ACGTcount: A:0.83, C:0.15, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:3843848 original size:51 final size:50
Alignment explanation
Indices: 3843737--3843848 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 50
3843727 CGTCCTTCAT
3843737 ACAAAAAAAACAAAAAAAAGCAAAAAAAAAACCAAGAAAAAAACAAAAAAA
1 ACAAAAAAAACAAAAAAAA-CAAAAAAAAAACCAAGAAAAAAACAAAAAAA
** *
3843788 ACAAAAAAAAC-AAAAAAA-AAACCAAAAA-CAAGCAAACAAACAAAAAACAA
1 ACAAAAAAAACAAAAAAAACAAAAAAAAAACCAAG-AAAAAAAC-AAAAA-AA
3843838 ACAAACAAAAA
1 ACAAA-AAAAA
3843849 GGGGTCCAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
47 4 0.07
48 15 0.28
49 5 0.09
50 14 0.26
51 16 0.30
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (50 bp):
ACAAAAAAAACAAAAAAAACAAAAAAAAAACCAAGAAAAAAACAAAAAAA
Found at i:3845125 original size:28 final size:28
Alignment explanation
Indices: 3845093--3845573 Score: 532
Period size: 28 Copynumber: 16.8 Consensus size: 28
3845083 TCATCTCTTA
* *
3845093 AAAGCCCACAGGTCAATGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
3845121 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
3845149 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
3845177 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
3845205 AAAGCCCATAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
3845233 AAAGCCCACAAGTCAGTGGCAT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
* *
3845261 AAAAGACCACAAGTTAGTGGCATCCTTTC
1 -AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
3845290 AAAGCCCACAAGTCAATGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
3845318 AAAGCCCACAAATCAATGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
3845346 AAAGCCCACACAAATCAGTGGCACCCTTCC
1 AAAG-CC-CACAAGTCAGTGGCATCCTTTC
*
3845376 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
3845404 AAAGCCCACAAGTTAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
3845432 AAAGCCCACAAGTTAGTGGTACCCCTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
3845460 AAAGCCTACAAGTCAGTGGTACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
3845488 AAAGCCCACAAGACAATAGCATACCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT--CCTTTC
* ** *
3845518 AAAGCCTACACAACTTGGTGGCAACTCTTTTC
1 AAAGCC--CACAAGTCAGTGGC-A-TCCTTTC
*
3845550 AAAGCCCACACAAGTTAGTGGCAT
1 AAAG-CC-CACAAGTCAGTGGCAT
3845574 TTTTTAAAAA
Statistics
Matches: 399, Mismatches: 42, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.00
28 297 0.74
29 27 0.07
30 39 0.10
31 1 0.00
32 30 0.08
33 3 0.01
34 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:3853902 original size:28 final size:28
Alignment explanation
Indices: 3853868--3854328 Score: 486
Period size: 28 Copynumber: 16.5 Consensus size: 28
3853858 CATCCATCTC
*
3853868 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3853896 TTCAAAGCCCACAACTTAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* *
3853925 TT-AAAGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3853952 TTCAAAGTCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* ** *
3853980 TTCAAAACCTGCAAGTCAATGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
3854007 CTTCAATGCCCACAAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3854036 TTTAAAGCCCAAAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
3854064 TTCAAAGACAACAAGTCAGTGGTATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3854092 TTCCAAGCCCACAAGTCAGTGGCA-CTTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
3854120 TTCAAAGCCCACAAGTTAGTGGTAT-TT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
3854147 TGTCAAAGCCCACAAGTCAATGGCATCTT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* * *
3854176 TTCCAAGCTCACAAGTTAGTGGCA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* **
3854203 TTCCAAAGCCCACAAGTTAGTGGCATTTT
1 TT-CAAAGCCCACAAGTCAGTGGCATCCT
3854232 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
3854260 TTCAAAGCCTACAAGTTAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
3854288 TTCGAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
3854316 TTCAAAGCTCACA
1 TTCAAAGCCCACA
3854329 CAAATCGGTG
Statistics
Matches: 365, Mismatches: 56, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
27 14 0.04
28 337 0.92
29 14 0.04
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:3854009 original size:84 final size:83
Alignment explanation
Indices: 3853868--3854373 Score: 557
Period size: 84 Copynumber: 6.0 Consensus size: 83
3853858 CATCCATCTC
* *
3853868 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAACTTAGTGGCATCTCTTT-AAAGC
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGC
*
3853932 CCATAAGTTAGTGGCATCCT
65 CCACAAGTTAGTGGCA-CCT
* * * * ** * * *
3853952 TTCAAAGTCCACAAGTCAGTGGCACCCTTTCAAAACCTGCAAGTCAATGGCATCTCTTCAATGCC
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCC
*
3854017 CACAAGTCAGTGGCATCCT
66 CACAAGTTAGTGGCA-CCT
* * * * * * *
3854036 TTTAAAGCCCAAAAGTCAGTGGCATCCTTTCAAAGACAACAAGTCAGTGGTATCTTTTCCAAGCC
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCC
* *
3854101 CACAAGTCAGTGGCACTTT
66 CACAAGTTAGTGGCAC-CT
* * * *
3854120 TTCAAAGCCCACAAGTTAGTGGTAT-TTTGTCAAAGCCCACAAGTCAATGGCATCTTTTCCAAGC
1 TTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
*
3854184 TCACAAGTTAGTGGCACCT
65 CCACAAGTTAGTGGCACCT
** *
3854203 TTCCAAAGCCCACAAGTTAGTGGCATTTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
1 TT-CAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
*
3854268 CTACAAGTTAGTGGCACCAT
65 CCACAAGTTAGTGGCACC-T
* * * *
3854288 TTCGAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCTCACACAAATCGGTGGCAACTTTCTCTAA
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC-C-CACAAGTCAGTGGCATCTTT-TC-AA
*
3854353 AGCCCATACAAGTTGGTGGCA
62 AGCCC--ACAAGTTAGTGGCA
3854374 ACCCTTTTAA
Statistics
Matches: 357, Mismatches: 53, Indels: 18
0.83 0.12 0.04
Matches are distributed among these distances:
83 8 0.02
84 304 0.85
85 7 0.02
86 17 0.05
87 2 0.01
88 6 0.02
90 13 0.04
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (83 bp):
TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCC
CACAAGTTAGTGGCACCT
Found at i:3855664 original size:13 final size:13
Alignment explanation
Indices: 3855646--3855671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3855636 CAATTTTTTG
3855646 TGTATCGATACAT
1 TGTATCGATACAT
3855659 TGTATCGATACAT
1 TGTATCGATACAT
3855672 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3855736 original size:21 final size:21
Alignment explanation
Indices: 3855710--3855785 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
3855700 CTGCCAAGAA
*
3855710 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
3855731 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3855751 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3855772 ATGTATCGATACAT
1 ATGTATCGATACAT
3855786 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3855756 original size:20 final size:20
Alignment explanation
Indices: 3855731--3855803 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3855721 CATCTTTTTT
3855731 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3855751 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
3855772 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3855792 ATGTATCGATAC
1 ATGTATCGATAC
3855804 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3855767 original size:41 final size:41
Alignment explanation
Indices: 3855710--3855803 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
3855700 CTGCCAAGAA
*
3855710 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3855751 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3855792 ATGTATCGATAC
1 ATGTATCGATAC
3855804 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:3860574 original size:13 final size:13
Alignment explanation
Indices: 3860558--3860591 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3860548 GAATTAAAAA
*
3860558 TGCTGTTGTTGGT
1 TGCTGTTGTTGCT
3860571 TGCTGTTGTTGCT
1 TGCTGTTGTTGCT
*
3860584 TGGTGTTG
1 TGCTGTTG
3860592 CTTTTGCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.09, G:0.38, T:0.53
Consensus pattern (13 bp):
TGCTGTTGTTGCT
Found at i:3860675 original size:41 final size:38
Alignment explanation
Indices: 3860573--3860675 Score: 98
Period size: 41 Copynumber: 2.6 Consensus size: 38
3860563 TTGTTGGTTG
* *
3860573 CTGTTGTTGCTTGGTGTTGCTTTTGCTGCTATTAGCTA
1 CTGTTGTTGCTTGGTGTTGCTGTTGCTGCCATTAGCTA
* * *
3860611 CTATCGTTGCTTGGTGTTTTTGCTGTTGCTGCCATTGGGTGCTA
1 CTGTTGTTGCTTGGTG---TTGCTGTTGCTGCCATT---AGCTA
*
3860655 CTGTTGGTGCTTGGTGTTGCT
1 CTGTTGTTGCTTGGTGTTGCT
3860676 ACTGCTGGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
38 14 0.27
41 20 0.39
44 17 0.33
ACGTcount: A:0.06, C:0.17, G:0.30, T:0.48
Consensus pattern (38 bp):
CTGTTGTTGCTTGGTGTTGCTGTTGCTGCCATTAGCTA
Found at i:3862495 original size:42 final size:42
Alignment explanation
Indices: 3862449--3862822 Score: 287
Period size: 42 Copynumber: 8.9 Consensus size: 42
3862439 ACTGATAGGT
*
3862449 AGACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCTGACGGGC
1 AGACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCCGACGGGC
* * * **
3862491 AGACAAAAGGTAAAGAAGTCTTCCGAGTTAAAGCCGACAGAT
1 AGACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCCGACGGGC
* * *
3862533 AGACAAAAGGTTAAA-AAGTCTCCCGAGTCAAAGTCGATGGAC
1 AGACAAAAGG-TAAAGAAGTCTCCCGAGTCAAAGCCGACGGGC
* ** * ** *
3862575 AGACAAGAGGTTAAA-AAGTCTCTTGACTCAAAGCCGACAAGT
1 AGACAAAAGG-TAAAGAAGTCTCCCGAGTCAAAGCCGACGGGC
* * *
3862617 AGACAAAGGGTAAAGAAGTCTCCC-AGGTCAAAGTCGATGGGC
1 AGACAAAAGGTAAAGAAGTCTCCCGA-GTCAAAGCCGACGGGC
* * * * *
3862659 AGACAAAGGGTAAAGAAGCCTCTCGAGTTAAAGCCGACAGGC
1 AGACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCCGACGGGC
* * ** * *
3862701 AGACAAAGGGTAAAGAAGT-TTCTTAGGTCAAAGCC-ATGGGT
1 AGACAAAAGGTAAAGAAGTCTCCCGA-GTCAAAGCCGACGGGC
* * * * *
3862742 AGAC-AAAGAGTGAAGAAGTCTCTCGGGTTAAAGCCAACGGGC
1 AGACAAAAG-GTAAAGAAGTCTCCCGAGTCAAAGCCGACGGGC
* * *
3862784 AGA-AAAAGGGTGAAGAAGTCTCTCTG-GTCAAAGTCGACG
1 AGACAAAA-GGTAAAGAAGTCTC-CCGAGTCAAAGCCGACG
3862823 AGCAAAAGAA
Statistics
Matches: 259, Mismatches: 62, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
40 3 0.01
41 31 0.12
42 218 0.84
43 7 0.03
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.16
Consensus pattern (42 bp):
AGACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCCGACGGGC
Found at i:3862540 original size:84 final size:84
Alignment explanation
Indices: 3862382--3862820 Score: 364
Period size: 84 Copynumber: 5.2 Consensus size: 84
3862372 AAGAGAAGGG
* * * * * * * * * *
3862382 AGTCTCCCGGGTCTAAGCCGGTGGGTAGAC-AAAGGATAAA-ATGTCTCTCGGGTTAAAACTGAT
1 AGTCTCCCGAGTCAAAGTCGATGGGCAGACAAAAGG-TAAAGAAGTCTCTCGAGTTAAAGCCGAC
*
3862445 AGGTAGACAAAAGGTAAAGA
65 AGATAGACAAAAGGTAAAGA
*
3862465 AGTCTCCCGAGTCAAAG-CTGACGGGCAGACAAAAGGTAAAGAAGTCT-TCCGAGTTAAAGCCGA
1 AGTCTCCCGAGTCAAAGTC-GATGGGCAGACAAAAGGTAAAGAAGTCTCT-CGAGTTAAAGCCGA
3862528 CAGATAGACAAAAGGTTAAA-A
64 CAGATAGACAAAAGG-TAAAGA
* * * * *
3862549 AGTCTCCCGAGTCAAAGTCGATGGACAGACAAGAGGTTAAA-AAGTCTCTTGACTCAAAGCCGAC
1 AGTCTCCCGAGTCAAAGTCGATGGGCAGACAAAAGG-TAAAGAAGTCTCTCGAGTTAAAGCCGAC
*
3862613 A-AGTAGACAAAGGGTAAAGA
65 AGA-TAGACAAAAGGTAAAGA
* *
3862633 AGTCTCCC-AGGTCAAAGTCGATGGGCAGACAAAGGGTAAAGAAGCCTCTCGAGTTAAAGCCGAC
1 AGTCTCCCGA-GTCAAAGTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTCGAGTTAAAGCCGAC
** *
3862697 AGGCAGACAAAGGGTAAAGA
65 AGATAGACAAAAGGTAAAGA
* ** * * * * *
3862717 AGT-TTCTTAGGTCAAAG-CCATGGGTAGAC-AAAGAGTGAAGAAGTCTCTCGGGTTAAAGCCAA
1 AGTCTCCCGA-GTCAAAGTCGATGGGCAGACAAAAG-GTAAAGAAGTCTCTCGAGTTAAAGCCGA
* ** *
3862779 CGGGCAGA-AAAAGGGTGAAGA
64 CAGATAGACAAAA-GGTAAAGA
*
3862800 AGTCTCTCTG-GTCAAAGTCGA
1 AGTCTC-CCGAGTCAAAGTCGA
3862821 CGAGCAAAAG
Statistics
Matches: 295, Mismatches: 42, Indels: 37
0.79 0.11 0.10
Matches are distributed among these distances:
82 7 0.02
83 98 0.33
84 178 0.60
85 12 0.04
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (84 bp):
AGTCTCCCGAGTCAAAGTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTCGAGTTAAAGCCGACA
GATAGACAAAAGGTAAAGA
Found at i:3863185 original size:21 final size:20
Alignment explanation
Indices: 3863161--3863213 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
3863151 CAACAATTTA
3863161 TATCGATACAAACAGTAAATG
1 TATCGATACAAACAGT-AATG
* **
3863182 TATCGATACATA-AGTGTTG
1 TATCGATACAAACAGTAATG
3863201 TATCGATACAAAC
1 TATCGATACAAAC
3863214 CTACCCTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 13 0.48
20 3 0.11
21 11 0.41
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
TATCGATACAAACAGTAATG
Found at i:3877101 original size:18 final size:19
Alignment explanation
Indices: 3877078--3877123 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
3877068 GGCATCCTCC
*
3877078 CAAAAAGAGAC-AAAAAAA
1 CAAAAAGAAACGAAAAAAA
3877096 CAAAAA-AAACGAAAAAAA
1 CAAAAAGAAACGAAAAAAA
*
3877114 TAAAAAGAAA
1 CAAAAAGAAA
3877124 AAAAACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.02
Consensus pattern (19 bp):
CAAAAAGAAACGAAAAAAA
Done.