Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012720.1 Kokia drynarioides strain JFW-HI SEQ_127731, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115899
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2 characters in sequence are not A, C, G, or T
Found at i:2158 original size:18 final size:17
Alignment explanation
Indices: 2137--2179 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2127 AGGTTTTAGC
2137 GTTTTTTATGAGTTAAGG
1 GTTTTTTATG-GTTAAGG
* *
2155 GTTTTTAATGGTTTAGG
1 GTTTTTTATGGTTAAGG
2172 GTTTTTTA
1 GTTTTTTA
2180 CTACTTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.56
Consensus pattern (17 bp):
GTTTTTTATGGTTAAGG
Found at i:5702 original size:30 final size:30
Alignment explanation
Indices: 5627--5856 Score: 172
Period size: 30 Copynumber: 7.8 Consensus size: 30
5617 TTTGGAAACT
* *
5627 TTTAGGGGTTAAAATGAAATTTTTCAAAAAG
1 TTTAGAGGTCAAAATGAAATTTTT-AAAAAG
* * * *
5658 TTT-GGGGCTTAAAATGTAATTTTTAAAAAA
1 TTTAGAGG-TCAAAATGAAATTTTTAAAAAG
* *
5688 TTTAGAGGTAAAAATGGAATTTTTAAAAAG
1 TTTAGAGGTCAAAATGAAATTTTTAAAAAG
* *
5718 -TTCGATGGTCAAAATGAAATTTTTAGAAAG
1 TTTAGA-GGTCAAAATGAAATTTTTAAAAAG
5748 TTTAG-GGTCAAAATGAAATTTTTAAAAAG
1 TTTAGAGGTCAAAATGAAATTTTTAAAAAG
** *
5777 TTT-GAGGGTC--AAT-AAATTTCCAGAAAG
1 TTTAGA-GGTCAAAATGAAATTTTTAAAAAG
* * *
5804 -ATCGAGGGTCAAAATGAAA-TTTTAGAAAG
1 TTTAGA-GGTCAAAATGAAATTTTTAAAAAG
* * *
5833 TTCAGGGGTTAAAAATGAAATTTT
1 TTTAGAGG-TCAAAATGAAATTTT
5857 AGAAATCTTA
Statistics
Matches: 163, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
26 1 0.01
27 18 0.11
28 4 0.02
29 43 0.26
30 70 0.43
31 27 0.17
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (30 bp):
TTTAGAGGTCAAAATGAAATTTTTAAAAAG
Found at i:5803 original size:27 final size:28
Alignment explanation
Indices: 5730--5834 Score: 81
Period size: 29 Copynumber: 3.7 Consensus size: 28
5720 CGATGGTCAA
**
5730 AATGAAATTTTTAGAAAGTTT-AGGGTC
1 AATGAAATTTCCAGAAAGTTTGAGGGTC
** *
5757 AAAATGAAATTTTTAAAAAGTTTGAGGGTC
1 --AATGAAATTTCCAGAAAGTTTGAGGGTC
* *
5787 AAT-AAATTTCCAGAAAGATCGAGGGTC
1 AATGAAATTTCCAGAAAGTTTGAGGGTC
*
5814 AAAATGAAATTT-TAGAAAGTT
1 --AATGAAATTTCCAGAAAGTT
5835 CAGGGGTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 19 0.30
28 3 0.05
29 30 0.47
30 12 0.19
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (28 bp):
AATGAAATTTCCAGAAAGTTTGAGGGTC
Found at i:5857 original size:30 final size:29
Alignment explanation
Indices: 5628--5906 Score: 121
Period size: 30 Copynumber: 9.4 Consensus size: 29
5618 TTGGAAACTT
*
5628 TTAGGGGTT-AAAATGAAATTTTTCAAAAAG
1 TTAGGGGTTAAAAATGAAA-TTTT-AGAAAG
* * * *
5658 TTTGGGGCTT-AAAATGTAATTTTTAAAAAAT
1 TTAGGGG-TTAAAAATG-AAATTTT-AGAAAG
* * *
5689 TTAGAGG-TAAAAATGGAATTTTTAAAAAG
1 TTAGGGGTTAAAAAT-GAAATTTTAGAAAG
* * *
5718 TTCGATGG-TCAAAATGAAATTTTTAGAAAG
1 TTAG-GGGTTAAAAATGAAA-TTTTAGAAAG
* *
5748 TTTA-GGG-TCAAAATGAAATTTTTAAAAAG
1 -TTAGGGGTTAAAAATGAAA-TTTTAGAAAG
* * *
5777 TTTGAGGG-T--CAAT-AAATTTCCAGAAAG
1 TTAG-GGGTTAAAAATGAAATTT-TAGAAAG
* * *
5804 ATCGAGGG-TCAAAATGAAATTTTAGAAAG
1 TTAG-GGGTTAAAAATGAAATTTTAGAAAG
*
5833 TTCAGGGGTTAAAAATGAAATTTTAGAAATC
1 TT-AGGGGTTAAAAATGAAATTTTAGAAA-G
** *
5864 TTAGGGGTTAAATTTGAATTTTTAGGAAAG
1 TTAGGGGTTAAAAATGAAATTTTA-GAAAG
*
5894 TTTGGGGTTAAAA
1 TTAGGGGTTAAAA
5907 TATAACTTTT
Statistics
Matches: 199, Mismatches: 33, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
26 3 0.02
27 15 0.08
28 5 0.03
29 48 0.24
30 95 0.48
31 31 0.16
32 2 0.01
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
TTAGGGGTTAAAAATGAAATTTTAGAAAG
Found at i:5917 original size:30 final size:30
Alignment explanation
Indices: 5817--5917 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 30
5807 GAGGGTCAAA
*
5817 ATGAAATTTTAGAAAGTTCAGGGGTTAAAA-
1 ATGAAATTTTAGAAAGTT-TGGGGTTAAAAT
5847 ATGAAATTTTAGAAA-TCTTAGGGGTT-AAAT
1 ATGAAATTTTAGAAAGT-TT-GGGGTTAAAAT
* *
5877 TTGAATTTTTAGGAAAGTTTGGGGTTAAAAT
1 ATGAAATTTTA-GAAAGTTTGGGGTTAAAAT
*
5908 AT-AACTTTTA
1 ATGAAATTTTA
5918 AACAAAACAG
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
29 4 0.07
30 44 0.73
31 11 0.18
32 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
ATGAAATTTTAGAAAGTTTGGGGTTAAAAT
Found at i:7005 original size:38 final size:37
Alignment explanation
Indices: 6961--7090 Score: 93
Period size: 38 Copynumber: 3.4 Consensus size: 37
6951 TCTCACGGTC
6961 AAGGTAAGAGATTGGTTATTTCAATTTACCCTATGATT
1 AAGGTAAGAGATTGGTT-TTTCAATTTACCCTATGATT
* * * * * *
6999 AAGGTAAGAAATTGCATGTCTTCAATTTGCCCTCTAATT
1 AAGGTAAGAGATTG-GT-TTTTCAATTTACCCTATGATT
* * * *
7038 AGGGTAAAAGATTGAGTTCTTCAATCTACTCC-ATGA-T
1 AAGGTAAGAGATTG-GTTTTTCAATTTAC-CCTATGATT
*
7075 CAGAGTAAGAGATTGG
1 AAG-GTAAGAGATTGG
7091 ATTGTCTTTA
Statistics
Matches: 70, Mismatches: 18, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
37 3 0.04
38 35 0.50
39 31 0.44
40 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (37 bp):
AAGGTAAGAGATTGGTTTTTCAATTTACCCTATGATT
Found at i:7183 original size:42 final size:41
Alignment explanation
Indices: 7039--8051 Score: 828
Period size: 42 Copynumber: 24.5 Consensus size: 41
7029 CCTCTAATTA
* * * *
7039 GGGTAAAAGATTGA-G-T-TCTTCAATCTACTCCATGATCA
1 GGGTAAGAGATTGATGATGTCTTCAATCTGCCCCATGATCG
* * * *
7077 GAGTAAGAGATTG--GATTGTCTTTAATCTACCACATGATCG
1 GGGTAAGAGATTGATGA-TGTCTTCAATCTGCCCCATGATCG
** *
7117 GTATAAGAGATTGA--ATGTCTTCAATCTGCCCCATGATTG
1 GGGTAAGAGATTGATGATGTCTTCAATCTGCCCCATGATCG
* * *
7156 GGGTAAAAGATTAGATGATGTCTTCAATTTGTCCCATGATCG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
*
7198 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* *
7240 GGGTAAGAGATTGAATGAT-T-TT-AATCTGACCTATGATCG
1 GGGTAAGAGATTG-ATGATGTCTTCAATCTGCCCCATGATCG
* * * *
7279 GGGTAAAAGATTAGATGATGCCTTCAATCTGCCTCATGATCA
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* * * * *
7321 AGGTAAGAGATTGA--ATGGCATCAATTTGTCCCATGATCG
1 GGGTAAGAGATTGATGATGTCTTCAATCTGCCCCATGATCG
** * * * * * *
7360 GATTAAGAGATT-A-AACGGCTGCAAATTTGCCCCATGATCA
1 GGGTAAGAGATTGATGATGTCTTC-AATCTGCCCCATGATCG
* * *
7400 GGGTAAGAGATTGAATGATGGCTTCAATCTACCCCATGATCA
1 GGGTAAGAGATTG-ATGATGTCTTCAATCTGCCCCATGATCG
* * *
7442 GGGTAAAAGATTGGATGATGTCTTCAATCTACCACATGATCG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* * * *
7484 GGGTAAGAGATCGGATAATGTCTTCAATCTACCTCATGATCG
1 GGGTAAGAGAT-TGATGATGTCTTCAATCTGCCCCATGATCG
* * * * *
7526 AGGTAAAATATTAGATGATGTCTTCAATATGTCCCATGATCG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* **
7568 GGATAAGAGATTGGATGATGTCTTCAATCTATCCCATGATCG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* *
7610 GGGTAAGAGATTG--GATGACTTCAATCTGTCCCATGATCG
1 GGGTAAGAGATTGATGATGTCTTCAATCTGCCCCATGATCG
* * *
7649 GGGTAAGAGATTAGATAATGTTTTCAATCTGCCCTATGATCG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* * *
7691 GGGTAAGAGATTG--GATGGCTTTAATCTGCCCCATGATTG
1 GGGTAAGAGATTGATGATGTCTTCAATCTGCCCCATGATCG
*
7730 GGGTAAGAGATTAGATGATGTCTTTAATCTGCCCCATGATCG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* * *
7772 GGGTAAAAGATTGA--ATGACTTCAATCTGCCCCATGATCA
1 GGGTAAGAGATTGATGATGTCTTCAATCTGCCCCATGATCG
* * * * * *
7811 AGGTAAGAGATTG--GACGACTGTAAATTTGCCACATGATCG
1 GGGTAAGAGATTGATGATGTCT-TCAATCTGCCCCATGATCG
* * **
7851 GGGTAAGAGATTGGATGATGGCTTCAATCTGCCCTATGATTA
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* * * * * **
7893 TGGTAAGAAATTGGATGATGTCTTTAATTTGCCCTATGATTA
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
* * * *
7935 GGGTAAGAGATTGACTTATGTCTTCAATCTGCTTCAATCTGCCCCATAAACA
1 GGGTAAGAGATTG----ATG------ATGT-CTTCAATCTGCCCCATGATCG
*
7987 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTG
1 GGGTAAGAGATT-GATGATGTCTTCAATCTGCCCCATGATCG
*
8029 GGGTAAGAGATTGGATTATGTCT
1 GGGTAAGAGATT-GATGATGTCT
8052 GAGATTGGAT
Statistics
Matches: 797, Mismatches: 135, Indels: 82
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.00
38 12 0.02
39 199 0.25
40 88 0.11
41 12 0.02
42 433 0.54
43 15 0.02
45 3 0.00
49 3 0.00
51 3 0.00
52 27 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (41 bp):
GGGTAAGAGATTGATGATGTCTTCAATCTGCCCCATGATCG
Found at i:7207 original size:81 final size:80
Alignment explanation
Indices: 7039--8051 Score: 771
Period size: 81 Copynumber: 12.3 Consensus size: 80
7029 CCTCTAATTA
* * * * * * *
7039 GGGTAAAAGATTGA-GT-TCTTCAATCTACTCCATGATCAGAGTAAGAGATTG--GATTGTCTTT
1 GGGTAAGAGATTGATATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGATGA-TGTCTTC
*
7100 AATCTACCACATGATCG
65 AATCTGCC-CATGATCG
** * *
7117 GTATAAGAGATTGA-ATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGATTAGATGATGTCTTC
1 GGGTAAGAGATTGATATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT-GATGATGTCTTC
*
7181 AATTTGTCCCATGATCG
65 AATCTG-CCCATGATCG
*
7198 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAGAGATTGAATGAT-T-T
1 GGGTAAGAGATT-GAT-ATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG-ATGATGTCT
*
7261 T-AATCTGACCTATGATCG
63 TCAATCTG-CCCATGATCG
* * * ** * *
7279 GGGTAAAAGATTAGATGATGCCTTCAATCTGCCTCATGATCAAGGTAAGAGATTGA--ATGGCAT
1 GGGTAAGAGATT-GAT-ATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGATGATGTCTT
*
7342 CAATTTGTCCCATGATCG
64 CAATCTG-CCCATGATCG
** * * * * * * *
7360 GATTAAGAGATT-AAACGGCTGCAAATTTGCCCCATGATCAGGGTAAGAGATTGAATGATGGCTT
1 GGGTAAGAGATTGATATGTCTTC-AATCTGCCCCATGATCGGGGTAAGAGATTG-ATGATGTCTT
* *
7424 CAATCTACCCCATGATCA
64 CAATCT-GCCCATGATCG
* * * * *
7442 GGGTAAAAGATTGGATGATGTCTTCAATCTACCACATGATCGGGGTAAGAGATCGGATAATGTCT
1 GGGTAAGAGATT-GAT-ATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGAT-TGATGATGTCT
*
7507 TCAATCTACCTCATGATCG
63 TCAATCTGCC-CATGATCG
* * * * * *
7526 AGGTAAAATATTAGATGATGTCTTCAATATGTCCCATGATCGGGATAAGAGATTGGATGATGTCT
1 GGGTAAGAGATT-GAT-ATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT-GATGATGTCT
*
7591 TCAATCTATCCCATGATCG
63 TCAATCT-GCCCATGATCG
* * * * *
7610 GGGTAAGAGATTG-GATGACTTCAATCTGTCCCATGATCGGGGTAAGAGATTAGATAATGTTTTC
1 GGGTAAGAGATTGATATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT-GATGATGTCTTC
7674 AATCTGCCCTATGATCG
65 AATCTGCCC-ATGATCG
* * * * *
7691 GGGTAAGAGATTG-GATGGCTTTAATCTGCCCCATGATTGGGGTAAGAGATTAGATGATGTCTTT
1 GGGTAAGAGATTGATATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT-GATGATGTCTTC
7755 AATCTGCCCCATGATCG
65 AATCTG-CCCATGATCG
* * ** * * *
7772 GGGTAAAAGATTGA-ATGACTTCAATCTGCCCCATGATCAAGGTAAGAGATTG--GACGACTGTA
1 GGGTAAGAGATTGATATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGATGATGTCT-TC
*
7834 AATTTGCCACATGATCG
65 AATCTGCC-CATGATCG
* * *** *
7851 GGGTAAGAGATTGGATGATGGCTTCAATCTGCCCTATGATTATGGTAAGAAATTGGATGATGTCT
1 GGGTAAGAGATT-GAT-ATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT-GATGATGTCT
* * **
7916 TTAATTTGCCCTATGATTA
63 TCAATCTGCCC-ATGATCG
* * *
7935 GGGTAAGAGATTGACTTATGTCTTCAATCTGCTTCAATCTGCCCCATAAACAGGGTAAGAGATTG
1 GGGTAAGAGATTGA--TATG---------T-CTTCAATCTGCCCCATGATCGGGGTAAGAGATT-
*
8000 GATGATGTCTTCAATCTGCCCCATGATTG
53 GATGATGTCTTCAATCTG-CCCATGATCG
8029 GGGTAAGAGATTGGATTATGTCT
1 GGGTAAGAGATT-GA-TATGTCT
8052 GAGATTGGAT
Statistics
Matches: 764, Mismatches: 121, Indels: 94
0.78 0.12 0.10
Matches are distributed among these distances:
78 26 0.03
79 81 0.11
80 10 0.01
81 283 0.37
82 72 0.09
83 9 0.01
84 196 0.26
85 15 0.02
94 67 0.09
95 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (80 bp):
GGGTAAGAGATTGATATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGATGATGTCTTCA
ATCTGCCCATGATCG
Found at i:7958 original size:451 final size:445
Alignment explanation
Indices: 6980--7964 Score: 1186
Period size: 451 Copynumber: 2.2 Consensus size: 445
6970 GATTGGTTAT
* * * *
6980 TTCAATTTACCCTATGATTAAGGTAAGAAATT-G--CATGTCTTCAATTTGCCCTCTAATTAGGG
1 TTCAATCTACCCTATGATTAAGGTAAGAAATTGGATGATGTCTTCAATTTGCCCTATGATTAGGG
* * * * * *
7042 TAAAAGATTGA-GT-TCTTCAATCTACTCCATGATCAGAGTAAGAGATTGGATTGTCTTTAATCT
66 TAAGAGATTGATATGTCTTCAATCTACTCCATGATCAGAGTAAAAGATTAGATTGTCTTCAATAT
* * *
7105 ACCACATGATCGGTATAAGAGATTGAATGTCTTCAATCTGCCCCATGATTGGGGTAAAAGATTAG
131 ACCACATGATCGGGATAAGAGATTGAATGTCTTCAATCTACCCCATGATCGGGGTAAAAGATTAG
* * * *
7170 ATGATGTCTTCAATTTGTCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCAT
196 A-GATGACTTCAATCTGTCCCATGATCGGGGTAAGAGATTAGATAATGTCTTCAATCTGCCCCAT
* * *
7235 GATTGGGGTAAGAGATTGAATGATTTTAATCTGACCTATGATCGGGGTAAAAGATTAGATGATGC
260 GATCGGGGTAAGAGATTGAATGACTTTAATCTGACCCATGATCGGGGTAAAAGATTAGATGATGC
* * * * *
7300 CTTCAATCTGCCTCATGATCAAGGTAAGAGATTGAATGGCATCAATTTGTCCCATGATCGGATTA
325 CTTCAATCTGCCCCATGATCAAGGTAAAAGATTGAATGACATCAATCTGCCCCATGATCGGA-TA
* *
7365 AGAGATTAAACGGCTGCAAATTTGCCCCATGATCAGGGTAAGAGATTGAATGATGGC
389 AGAGATTAAACGACTGCAAATTTGCCACATGATCAGGGTAAGAGATTGAATGATGGC
* * * * * **
7422 TTCAATCTACCCCATGATCAGGGTAA-AAGATTGGATGATGTCTTCAATCTACCAC-ATGATCGG
1 TTCAATCTACCCTATGATTAAGGTAAGAA-ATTGGATGATGTCTTCAATTTGCC-CTATGATTAG
* *
7485 GGTAAGAGATCGGATAATGTCTTCAATCTAC-CTCATGATC-GAGGTAAAATATTAGATGATGTC
64 GGTAAGAGAT-TGAT-ATGTCTTCAATCTACTC-CATGATCAGA-GTAAAAGATTAGAT--TGTC
* *
7548 TTCAATATGTCC-CATGATCGGGATAAGAGATTGGATGATGTCTTCAATCTATCCCATGATCGGG
123 TTCAATAT-ACCACATGATCGGGATAAGAGATT-GA--ATGTCTTCAATCTACCCCATGATCGGG
* *
7612 GTAAGAGATT-G-GATGACTTCAATCTGTCCCATGATCGGGGTAAGAGATTAGATAATGTTTTCA
184 GTAAAAGATTAGAGATGACTTCAATCTGTCCCATGATCGGGGTAAGAGATTAGATAATGTCTTCA
* * * * * *
7675 ATCTGCCCTATGATCGGGGTAAGAGATTGGATGGCTTTAATCTGCCCCATGATTGGGGTAAGAGA
249 ATCTGCCCCATGATCGGGGTAAGAGATTGAATGACTTTAATCTGACCCATGATCGGGGTAAAAGA
* * ** *
7740 TTAGATGATGTCTTTAATCTGCCCCATGATCGGGGTAAAAGATTGAATGACTTCAATCTGCCCCA
314 TTAGATGATGCCTTCAATCTGCCCCATGATCAAGGTAAAAGATTGAATGACATCAATCTGCCCCA
** * * *
7805 TGATCAAGG-TAAGAGATTGGACGACTGTAAATTTGCCACATGATCGGGGTAAGAGATTGGATGA
379 TGATC--GGATAAGAGATTAAACGACTGCAAATTTGCCACATGATCAGGGTAAGAGATTGAATGA
7869 TGGC
442 TGGC
* * *
7873 TTCAATCTGCCCTATGATTATGGTAAGAAATTGGATGATGTCTTTAATTTGCCCTATGATTAGGG
1 TTCAATCTACCCTATGATTAAGGTAAGAAATTGGATGATGTCTTCAATTTGCCCTATGATTAGGG
7938 TAAGAGATTGACTTATGTCTTCAATCT
66 TAAGAGATTGA--TATGTCTTCAATCT
7965 GCTTCAATCT
Statistics
Matches: 454, Mismatches: 66, Indels: 37
0.82 0.12 0.07
Matches are distributed among these distances:
441 2 0.00
442 25 0.06
443 1 0.00
445 27 0.06
446 3 0.01
448 4 0.01
449 30 0.07
450 3 0.01
451 316 0.70
452 7 0.02
453 3 0.01
454 33 0.07
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (445 bp):
TTCAATCTACCCTATGATTAAGGTAAGAAATTGGATGATGTCTTCAATTTGCCCTATGATTAGGG
TAAGAGATTGATATGTCTTCAATCTACTCCATGATCAGAGTAAAAGATTAGATTGTCTTCAATAT
ACCACATGATCGGGATAAGAGATTGAATGTCTTCAATCTACCCCATGATCGGGGTAAAAGATTAG
AGATGACTTCAATCTGTCCCATGATCGGGGTAAGAGATTAGATAATGTCTTCAATCTGCCCCATG
ATCGGGGTAAGAGATTGAATGACTTTAATCTGACCCATGATCGGGGTAAAAGATTAGATGATGCC
TTCAATCTGCCCCATGATCAAGGTAAAAGATTGAATGACATCAATCTGCCCCATGATCGGATAAG
AGATTAAACGACTGCAAATTTGCCACATGATCAGGGTAAGAGATTGAATGATGGC
Found at i:8033 original size:94 final size:94
Alignment explanation
Indices: 7871--8051 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 94
7861 TTGGATGATG
* * ** * * * *
7871 GCTTCAATCTGCCCTATGATTATGGTAAGAAATTGGATGATGTCTTTAATTTGCCCTATGATTAG
1 GCTTCAATCTGCCCCATAAACAGGGTAAGAAATTGGATGATGTCTTCAATCTGCCCCATGATTAG
7936 GGTAAGAGATT-GACTTATGTCTTCAATCT
66 GGTAAGAGATTGGA-TTATGTCTTCAATCT
* *
7965 GCTTCAATCTGCCCCATAAACAGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATTGG
1 GCTTCAATCTGCCCCATAAACAGGGTAAGAAATTGGATGATGTCTTCAATCTGCCCCATGATTAG
8030 GGTAAGAGATTGGATTATGTCT
66 GGTAAGAGATTGGATTATGTCT
8052 GAGATTGGAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 74 0.97
95 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (94 bp):
GCTTCAATCTGCCCCATAAACAGGGTAAGAAATTGGATGATGTCTTCAATCTGCCCCATGATTAG
GGTAAGAGATTGGATTATGTCTTCAATCT
Found at i:8057 original size:17 final size:17
Alignment explanation
Indices: 8035--8073 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
8025 ATTGGGGTAA
*
8035 GAGATTGGATTATGTCT
1 GAGATTGGATGATGTCT
8052 GAGATTGGATGATGTCT
1 GAGATTGGATGATGTCT
8069 GAGAT
1 GAGAT
8074 CTGCCCTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.36
Consensus pattern (17 bp):
GAGATTGGATGATGTCT
Found at i:8091 original size:59 final size:59
Alignment explanation
Indices: 7993--8110 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 59
7983 AACAGGGTAA
* * * * *
7993 GAGATTGGATGATGTCTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGATTATGTCT
1 GAGATTGGATGATGTCTTCAATCTGCCCCATAATCGGGGTAAAAGATTGAATGATGTCT
* *
8052 GAGATTGGATGATGTC-TGAGATCTGCCCTATAATCGGGGTAAAAGATTGAATGATGTCT
1 GAGATTGGATGATGTCTTCA-ATCTGCCCCATAATCGGGGTAAAAGATTGAATGATGTCT
8111 TCAATTTACC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 2 0.04
59 49 0.96
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (59 bp):
GAGATTGGATGATGTCTTCAATCTGCCCCATAATCGGGGTAAAAGATTGAATGATGTCT
Found at i:8135 original size:42 final size:42
Alignment explanation
Indices: 8084--8198 Score: 146
Period size: 39 Copynumber: 2.8 Consensus size: 42
8074 CTGCCCTATA
* * * *
8084 ATCGGGGTAAAAGATTGAATGATGTCTTCAATTTACCCCATT
1 ATCGAGGTAAGAGATTGAATGATGACTTCAATTTACCCCATG
*
8126 ATCGAGGTAAGAGATTG---GATGACTTCAATCTACCCCATG
1 ATCGAGGTAAGAGATTGAATGATGACTTCAATTTACCCCATG
* *
8165 ATCGAGGTAAGAGATTGAATTATGCCTTCAATTT
1 ATCGAGGTAAGAGATTGAATGATGACTTCAATTT
8199 GCTCTACTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
39 36 0.58
42 26 0.42
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (42 bp):
ATCGAGGTAAGAGATTGAATGATGACTTCAATTTACCCCATG
Found at i:8365 original size:21 final size:21
Alignment explanation
Indices: 8339--8389 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8329 TCGCCTTTGT
8339 AGCTTTAATA-TAGCCTTTTAC
1 AGCTTTAATATTAGCC-TTTAC
* *
8360 AGCTTTAAGATTCGCCTTTAC
1 AGCTTTAATATTAGCCTTTAC
*
8381 GGCTTTAAT
1 AGCTTTAAT
8390 TTACTTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (21 bp):
AGCTTTAATATTAGCCTTTAC
Found at i:8550 original size:99 final size:100
Alignment explanation
Indices: 8424--8871 Score: 252
Period size: 99 Copynumber: 4.5 Consensus size: 100
8414 TGAGATCCAC
* ** * *
8424 CGTTGCGGCCTCAATATTTCTTATCACAACTTCTAAGGTATTGGGGTCACCGTTACGGCCTCCAC
1 CGTTGCGGCCTCAATACTTCCCATCACAACTTCTAAGGTATCGGGGTCACCGTTACGGCCTCAAC
* **
8489 CTTTCCCTTCATATCTT-TTTGGTACC-GAATTCGT
66 CTTTCCCTTCACATCTTCTAAGGTACCAG-ATTCGT
* * ** * * *
8523 CTTTGCGGCCTCAATCCTTCCCATCACATTTTCTAAGGTATCGGGTTTACTGTTACGGCCTCAAC
1 CGTTGCGGCCTCAATACTTCCCATCACAACTTCTAAGGTATCGGGGTCACCGTTACGGCCTCAAC
*
8588 CTTTCCCTTTACATCTTCTAAGGTACCAGATTCGT
66 CTTTCCCTTCACATCTTCTAAGGTACCAGATTCGT
* * * * * * *** * * *
8623 CGTTGCAGCCTCAACT-TTTCCCTTCATATCTTC-ATGGTATCGAATTCGCCATTGCGGCCTCAA
1 CGTTGCGGCCTCAA-TACTTCCCATCACAACTTCTAAGGTATCGGGGTCACCGTTACGGCCTCAA
** * *
8686 TCC-TTCCAATCACATCTTCTAAGGTATC-GTGTTCG-
65 -CCTTTCCCTTCACATCTTCTAAGGTACCAG-ATTCGT
* ** * * ** * * * ** * *
8721 CTATTATGGCCTCAA-CCTTCCCTTCTTATCTTC-ATGGTATCAGATTCGCCGTTGCGGCCTCAA
1 C-GTTGCGGCCTCAATACTTCCCATCACAACTTCTAAGGTATCGGGGTCACCGTTACGGCCTCAA
* * * **
8784 TCC-TTCCCATCACATATTTTAAGGTACCA-AGTTCCC
65 -CCTTTCCCTTCACATCTTCTAAGGTACCAGA-TTCGT
* * * * *
8820 CGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAAGTACCGGGTTCACCG
1 CGTTGCGGCCTCAATACTTCCCATCACAACTTCTAAGGTATCGGGGTCACCG
8872 CTTTCCCTTC
Statistics
Matches: 275, Mismatches: 62, Indels: 23
0.76 0.17 0.06
Matches are distributed among these distances:
98 81 0.29
99 140 0.51
100 52 0.19
101 2 0.01
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.34
Consensus pattern (100 bp):
CGTTGCGGCCTCAATACTTCCCATCACAACTTCTAAGGTATCGGGGTCACCGTTACGGCCTCAAC
CTTTCCCTTCACATCTTCTAAGGTACCAGATTCGT
Found at i:8634 original size:50 final size:50
Alignment explanation
Indices: 8525--8861 Score: 267
Period size: 50 Copynumber: 6.8 Consensus size: 50
8515 GAATTCGTCT
* * * * ** *
8525 TTGCGGCCTCAATCCTTCCCATCACATTTTCTAAGGTATCGGGTTTACTG
1 TTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGATTCGCCG
* * * *
8575 TTACGGCCTCAA-CCTTTCCCTTTACATCTTCTAAGGTACCAGATTCGTCG
1 TTGCGGCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCAGATTCGCCG
* * * * * * *
8625 TTGCAGCCTCAA-CTTTTCCCTTCATATCTTC-ATGGTATC-GAATTCGCCA
1 TTGCGGCCTCAATC-CTTCCCATCACATCTTCTAAGGTACCAG-ATTCGCCG
* * * **
8674 TTGCGGCCTCAATCCTTCCAATCACATCTTCTAAGGTATC-GTGTTCGCTA
1 TTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCAG-ATTCGCCG
** * ** * *
8724 TTATGGCCTCAA-CCTTCCCTTCTTATCTTC-ATGGTATCAGATTCGCCG
1 TTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGATTCGCCG
* * *
8772 TTGCGGCCTCAATCCTTCCCATCACATATTTTAAGGTACCA-AGTTCCCCG
1 TTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGA-TTCGCCG
*
8822 TTGCGGCCTCAATCCTTCCCATCACATCTTCTAAAGTACC
1 TTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACC
8862 GGGTTCACCG
Statistics
Matches: 226, Mismatches: 52, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
48 23 0.10
49 67 0.30
50 136 0.60
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (50 bp):
TTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGATTCGCCG
Found at i:8680 original size:149 final size:146
Alignment explanation
Indices: 8481--8869 Score: 442
Period size: 149 Copynumber: 2.6 Consensus size: 146
8471 CACCGTTACG
* * * * *
8481 GCCTCCACCTTTCCCTTCATATCTTTTTGGTACCGAATTCGTCTTTGCGGCCTCAATCCTTCCCA
1 GCCTCAACTTTTCCCTTCATATCTTTATGGTA-CGAATTCGCCATTGCGGCCTCAATCCTTCCCA
* * *
8546 TCACATTTTCTAAGGTATCGGGTTTACTGTTACGGCCTCAACCTTTCCCTT-TACATCTTCTAAG
65 TCACATCTTCTAAGGTATCGGGTTCACTATTACGGCCTCAACC-TTCCCTTCT-CATCTTC-AAG
*
8610 GTACCAGATTCGTCGTTGCA
127 GTACCAGATTCGCCGTTGCA
* *
8630 GCCTCAACTTTTCCCTTCATATCTTCATGGTATCGAATTCGCCATTGCGGCCTCAATCCTTCCAA
1 GCCTCAACTTTTCCCTTCATATCTTTATGGTA-CGAATTCGCCATTGCGGCCTCAATCCTTCCCA
* * * * *
8695 TCACATCTTCTAAGGTATCGTGTTCGCTATTATGGCCTCAACCTTCCCTTCTTATCTTCATGGTA
65 TCACATCTTCTAAGGTATCGGGTTCACTATTACGGCCTCAACCTTCCCTTCTCATCTTCAAGGTA
* *
8760 TCAGATTCGCCGTTGCG
130 CCAGATTCGCCGTTGCA
* * * * * *
8777 GCCTCAA-TCCTTCCCATCACATAT-TTTAAGGTACCAAGTTCCCCGTTGCGGCCTCAATCCTTC
1 GCCTCAACT-TTTCCC-T-TCATATCTTTATGGTACGAA-TTCGCCATTGCGGCCTCAATCCTTC
* *
8840 CCATCACATCTTCTAAAGTACCGGGTTCAC
62 CCATCACATCTTCTAAGGTATCGGGTTCAC
8870 CGCTTTCCCT
Statistics
Matches: 204, Mismatches: 31, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
146 1 0.00
147 34 0.17
148 69 0.34
149 100 0.49
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (146 bp):
GCCTCAACTTTTCCCTTCATATCTTTATGGTACGAATTCGCCATTGCGGCCTCAATCCTTCCCAT
CACATCTTCTAAGGTATCGGGTTCACTATTACGGCCTCAACCTTCCCTTCTCATCTTCAAGGTAC
CAGATTCGCCGTTGCA
Found at i:8830 original size:98 final size:97
Alignment explanation
Indices: 8578--8852 Score: 302
Period size: 98 Copynumber: 2.8 Consensus size: 97
8568 TTTACTGTTA
* * * * *
8578 CGGCCTCAA-CCTTTCCCTTTACATCTTCTAAGGTACCAGATTCGTCGTTGCAGCCTCAACTTTT
1 CGGCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCAG-TTCGCCGTTGCGGCCTCAAC-CTT
8642 CCCTTCATATCTTCATGGTATCGAATTCGCCATTG
63 CCCTTCATATCTTCATGGTATCGAATTCGCCATTG
* ** ** **
8677 CGGCCTCAATCCTTCCAATCACATCTTCTAAGGTATCGTGTTCGCTATTATGGCCTCAACCTTCC
1 CGGCCTCAATCCTTCCCATCACATCTTCTAAGGTA-CCAGTTCGCCGTTGCGGCCTCAACCTTCC
* *
8742 CTTCTTATCTTCATGGTATC-AGATTCGCCGTTG
65 CTTCATATCTTCATGGTATCGA-ATTCGCCATTG
* * *
8775 CGGCCTCAATCCTTCCCATCACATATTTTAAGGTACCAAGTTCCCCGTTGCGGCCTCAATCCTTC
1 CGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACC-AGTTCGCCGTTGCGGCCTCAA-CCTTC
* *
8840 CCATCACATCTTC
64 CCTTCATATCTTC
8853 TAAAGTACCG
Statistics
Matches: 144, Mismatches: 27, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
97 2 0.01
98 80 0.56
99 58 0.40
100 4 0.03
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.34
Consensus pattern (97 bp):
CGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGTTCGCCGTTGCGGCCTCAACCTTCCC
TTCATATCTTCATGGTATCGAATTCGCCATTG
Found at i:9487 original size:112 final size:115
Alignment explanation
Indices: 9309--9519 Score: 302
Period size: 112 Copynumber: 1.9 Consensus size: 115
9299 CCTTATATCG
* * *
9309 TTAGACCACTAACTATTATTTCAAATGCAAAAAATGCTTGAATCAAGGTTGTAAGGTGGATGAAA
1 TTAGACCACTAACCATTATTTCAAATGCAAAAAATGCTTGAATCAAGATTGTAAGGTGGATAAAA
* *
9374 TTGAATTTGATTGGAGGCAAAGCTTACATGAATGAAAAGACTAAAAATCA
66 TTAAATTTGATTGGAGGCAAAGCTCACATGAATGAAAAGACTAAAAATCA
* * * *
9424 TTAGTCCACTAACCCTTATTTC-AATGC-AAAAATGCTTGAA-CATGATTGTGAGGTGGATAAAA
1 TTAGACCACTAACCATTATTTCAAATGCAAAAAATGCTTGAATCAAGATTGTAAGGTGGATAAAA
* *
9486 TTAAATTTTATTGGAGGCAAAGCTCGCATGAATG
66 TTAAATTTGATTGGAGGCAAAGCTCACATGAATG
9520 CAAACATTGA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
112 48 0.56
113 13 0.15
114 5 0.06
115 19 0.22
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (115 bp):
TTAGACCACTAACCATTATTTCAAATGCAAAAAATGCTTGAATCAAGATTGTAAGGTGGATAAAA
TTAAATTTGATTGGAGGCAAAGCTCACATGAATGAAAAGACTAAAAATCA
Found at i:9872 original size:19 final size:18
Alignment explanation
Indices: 9829--9881 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
9819 CGACCTCTCA
*
9829 TTTTCTTTTTCC-TTCTTT
1 TTTTC-TTTTCCTTTTTTT
9847 TTTTCTTTTCCTTTTTTT
1 TTTTCTTTTCCTTTTTTT
9865 TCTTTCTTTTCCTTTTT
1 T-TTTCTTTTCCTTTTT
9882 CTCTTCCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 6 0.19
18 11 0.34
19 15 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTCCTTTTTTT
Found at i:9879 original size:10 final size:10
Alignment explanation
Indices: 9830--9879 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
9820 GACCTCTCAT
9830 TTTCTTTTTCC
1 TTTC-TTTTCC
9841 -TTCTTTT--
1 TTTCTTTTCC
9848 TTTCTTTTCC
1 TTTCTTTTCC
*
9858 TTT-TTTTTC
1 TTTCTTTTCC
9867 TTTCTTTTCC
1 TTTCTTTTCC
9877 TTT
1 TTT
9880 TTCTCTTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
8 7 0.21
9 12 0.36
10 14 0.42
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTCTTTTCC
Found at i:9880 original size:18 final size:18
Alignment explanation
Indices: 9830--9892 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
9820 GACCTCTCAT
*
9830 TTTCTTTTTCCTTCTTTT-
1 TTTC-TTTTCCTTTTTTTC
9848 TTTCTTTTCCTTTTTTTTC
1 TTTCTTTTCC-TTTTTTTC
*
9867 TTTCTTTTCCTTTTTCTC
1 TTTCTTTTCCTTTTTTTC
*
9885 TTCCTTTT
1 TTTCTTTT
9893 TTTATTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.15
18 24 0.60
19 10 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTCCTTTTTTTC
Found at i:10428 original size:81 final size:81
Alignment explanation
Indices: 10334--10497 Score: 283
Period size: 81 Copynumber: 2.0 Consensus size: 81
10324 CAACAAAATA
*
10334 TTGATTGATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTTTAGGTCTC
1 TTGATTGATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAGGTCTC
*
10399 GATCTTCTTGATATTC
66 AATCTTCTTGATATTC
* * *
10415 TTGATTGATGTTCAATAAGTGTAGAGAGCAATTGATAACTTCTCATGCGAATCTTTGTAGGTCTC
1 TTGATTGATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAGGTCTC
10480 AATCTTCTTGATATTC
66 AATCTTCTTGATATTC
10496 TT
1 TT
10498 ATTAACTTCC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (81 bp):
TTGATTGATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAGGTCTC
AATCTTCTTGATATTC
Found at i:10812 original size:15 final size:15
Alignment explanation
Indices: 10794--10830 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10784 TTTTTCCTTA
10794 TTTTCTT-TTCTTTTT
1 TTTTCTTCTT-TTTTT
10809 TTTTCTTCTTTTTTT
1 TTTTCTTCTTTTTTT
10824 TTTTCTT
1 TTTTCTT
10831 GGGTTTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTCTTCTTTTTTT
Found at i:10817 original size:13 final size:12
Alignment explanation
Indices: 10783--10830 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
10773 TTCATCTTGA
*
10783 TTTTTTCCTTATT
1 TTTTTTTCTT-TT
*
10796 TTCTTTTCTTTT
1 TTTTTTTCTTTT
10808 TTTTTCTTCTTTT
1 TTTTT-TTCTTTT
10821 TTTTTTTCTT
1 TTTTTTTCTT
10831 GGGTTTTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:12307 original size:22 final size:22
Alignment explanation
Indices: 12279--12323 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
12269 TGGCTAAGAT
12279 TGTTAGAACATGAGCGATTCTC
1 TGTTAGAACATGAGCGATTCTC
12301 TGTTAGAACATGAGCGATTCTC
1 TGTTAGAACATGAGCGATTCTC
12323 T
1 T
12324 AGTCAAGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (22 bp):
TGTTAGAACATGAGCGATTCTC
Found at i:15194 original size:30 final size:29
Alignment explanation
Indices: 15090--15334 Score: 118
Period size: 30 Copynumber: 8.2 Consensus size: 29
15080 AAAATGGGGG
* *
15090 TAAAATCAAAATTTTGGAAAGTTTTAAGGGT
1 TAAAAT-AAATTTTTAGAAAG-TTTAAGGGT
* * * ** *
15121 TAAAATGTAA-TTTCAAAAACCTTAGGGGT
1 TAAAAT-AAATTTTTAGAAAGTTTAAGGGT
* *
15150 CAAAATATAGTTTTTAGAAAGTTTAAGGGT
1 TAAAATA-AATTTTTAGAAAGTTTAAGGGT
**
15180 TAAAATGAAATTTTTAGAAAGTTTGGGGGT
1 TAAAAT-AAATTTTTAGAAAGTTTAAGGGT
* ** * * * *
15210 CAAAATGAAATTTCCAAAAAGATCAA-AGT
1 TAAAAT-AAATTTTTAGAAAGTTTAAGGGT
* * * **
15239 CAAAAATAAAATTTTAGAAAATTCGAGGGT
1 -TAAAATAAATTTTTAGAAAGTTTAAGGGT
* * **
15269 TAAAATAAAATTTTAGAAAATTTGGGGGT
1 TAAAATAAATTTTTAGAAAGTTTAAGGGT
* *
15298 TAAATTTAAATTTTTAGGGAAGTTTAA-GGT
1 TAAA-ATAAATTTTTA-GAAAGTTTAAGGGT
15328 TAAAATA
1 TAAAATA
15335 TTACTTTTAA
Statistics
Matches: 159, Mismatches: 48, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
29 59 0.37
30 85 0.53
31 15 0.09
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.33
Consensus pattern (29 bp):
TAAAATAAATTTTTAGAAAGTTTAAGGGT
Found at i:15275 original size:29 final size:29
Alignment explanation
Indices: 15241--15311 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
15231 ATCAAAGTCA
15241 AAAATAAAATTTTAGAAAATTCGAGGGTT
1 AAAATAAAATTTTAGAAAATTCGAGGGTT
* *
15270 AAAATAAAATTTTAGAAAATTTGGGGGTT
1 AAAATAAAATTTTAGAAAATTCGAGGGTT
* *
15299 AAATTTAAATTTT
1 AAAATAAAATTTT
15312 TAGGGAAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.46, C:0.01, G:0.15, T:0.37
Consensus pattern (29 bp):
AAAATAAAATTTTAGAAAATTCGAGGGTT
Found at i:20108 original size:9 final size:9
Alignment explanation
Indices: 20094--20194 Score: 55
Period size: 10 Copynumber: 10.7 Consensus size: 9
20084 CTGTTTTTAT
20094 TAAAAATTA
1 TAAAAATTA
20103 TAAAAATATA
1 TAAAAAT-TA
20113 TAAAAATTGTA
1 TAAAAA-T-TA
* *
20124 AAAAAAATA
1 TAAAAATTA
*
20133 TAAAAAATTG
1 T-AAAAATTA
*
20143 TAAAATTTAA
1 TAAAAATT-A
20153 TAAAAATCGTA
1 TAAAAAT--TA
*
20164 -AAAAATCA
1 TAAAAATTA
*
20172 T-AAAGTGTA
1 TAAAAAT-TA
20181 TAAAAA-TA
1 TAAAAATTA
20189 TAAAAA
1 TAAAAA
20195 ATTTATAACA
Statistics
Matches: 70, Mismatches: 13, Indels: 19
0.69 0.13 0.19
Matches are distributed among these distances:
8 13 0.19
9 17 0.24
10 30 0.43
11 9 0.13
12 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (9 bp):
TAAAAATTA
Found at i:20118 original size:19 final size:19
Alignment explanation
Indices: 20094--20202 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 19
20084 CTGTTTTTAT
20094 TAAAAATTATAAAAATATA
1 TAAAAATTATAAAAATATA
* *
20113 TAAAAATTGTAAAAAAAATA
1 TAAAAATTAT-AAAAATATA
* *
20133 TAAAAAATTGT-AAAATTTAA
1 T-AAAAATTATAAAAATAT-A
**
20153 TAAAAATCGTAAAAA-ATCA
1 TAAAAATTATAAAAATAT-A
*
20172 T-AAAGTGTATAAAAATATA
1 TAAAAAT-TATAAAAATATA
20191 -AAAAATTTATAA
1 TAAAAA-TTATAA
20203 CATTTTATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
18 4 0.06
19 40 0.56
20 18 0.25
21 9 0.13
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
TAAAAATTATAAAAATATA
Found at i:20138 original size:21 final size:22
Alignment explanation
Indices: 20104--20147 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
20094 TAAAAATTAT
20104 AAAAATATATAAAAATTGTAAA
1 AAAAATATATAAAAATTGTAAA
20126 AAAAATATA-AAAAATTGTAAA
1 AAAAATATATAAAAATTGTAAA
20147 A
1 A
20148 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAAATATATAAAAATTGTAAA
Found at i:20147 original size:29 final size:29
Alignment explanation
Indices: 20144--20202 Score: 52
Period size: 28 Copynumber: 2.1 Consensus size: 29
20134 AAAAAATTGT
* *
20144 AAAATT-TAATAAAAATCGTAAAAAATCAT
1 AAAATTGTAATAAAAAT-ATAAAAAATTAT
*
20173 -AAAGTGT-ATAAAAATATAAAAAATTTAT
1 AAAATTGTAATAAAAATATAAAAAA-TTAT
20201 AA
1 AA
20203 CATTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
27 7 0.29
28 15 0.62
29 2 0.08
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (29 bp):
AAAATTGTAATAAAAATATAAAAAATTAT
Found at i:20489 original size:19 final size:19
Alignment explanation
Indices: 20454--20530 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
20444 TGTTAAAGGG
20454 ATTTTTTGATGCA-TTTTATA
1 ATTTTTT-ATG-ATTTTTATA
20474 ATTTTTTATGATTTTTATA
1 ATTTTTTATGATTTTTATA
** ** *
20493 AAATTTTACAATTTTT-TT
1 ATTTTTTATGATTTTTATA
20511 ATTTTTTACT-ATTTTTATA
1 ATTTTTTA-TGATTTTTATA
20530 A
1 A
20531 AAAAATTCTA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 14 0.31
19 24 0.53
20 7 0.16
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTTATGATTTTTATA
Found at i:20797 original size:87 final size:86
Alignment explanation
Indices: 20647--20820 Score: 197
Period size: 87 Copynumber: 2.0 Consensus size: 86
20637 TTTTAATAAG
* * * * * * *
20647 AGTAAGGGCTTAATTGCTTTTTCAAAAAATTTTGAGGTTTTTTTTATGCATTTTGAAAGTTCAAT
1 AGTAAGGGCTTAATTGCTTTTTCAAAAAAGTTTGAGATCTTTTTGATGCATTTTAAAAATTCAAG
*
20712 TATCTAATTGAGTG-AAAAAA
66 TATCTAATTAAGTGCAAAAAA
* * * *
20732 AGTAGGGGCTTATTTGCTTTTTCTGAAGAAGTTTGAGATACTTTTTGATGCATTTTAAAAATTCA
1 AGTAAGGGCTTAATTGCTTTTTC-AAAAAAGTTTGAGAT-CTTTTTGATGCATTTTAAAAATTCA
* *
20797 AGTGTTTAATTAAGTGCAAAAAA
64 AGTATCTAATTAAGTGCAAAAAA
20820 A
1 A
20821 AGAGACTCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
85 21 0.29
86 11 0.15
87 33 0.46
88 7 0.10
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (86 bp):
AGTAAGGGCTTAATTGCTTTTTCAAAAAAGTTTGAGATCTTTTTGATGCATTTTAAAAATTCAAG
TATCTAATTAAGTGCAAAAAA
Found at i:21104 original size:25 final size:22
Alignment explanation
Indices: 21063--21111 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
21053 CAAATGTTTA
*
21063 TTATTTTTTTTTCATTTTGATC
1 TTATTTTTTTTTCATTTTAATC
21085 TTATTTTTTTTTAGCTATTTTAATC
1 TTATTTTTTTTT--C-ATTTTAATC
21110 TT
1 TT
21112 TAATCTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
24 1 0.04
25 10 0.43
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.71
Consensus pattern (22 bp):
TTATTTTTTTTTCATTTTAATC
Found at i:33512 original size:21 final size:21
Alignment explanation
Indices: 33458--33515 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
33448 TAGTACATAT
*
33458 TTCTACTGATACAAGTGACAG
1 TTCTACTGATACAAGTGACAC
* * * *
33479 TTTTACCGGTACAAGTGACTC
1 TTCTACTGATACAAGTGACAC
33500 TTCTACTGATACAAGT
1 TTCTACTGATACAAGT
33516 CTTACCTCTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
TTCTACTGATACAAGTGACAC
Found at i:40707 original size:21 final size:21
Alignment explanation
Indices: 40683--40734 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
40673 AGATTTCTAT
*
40683 CGATACAAGTGACAGTTTTAC
1 CGATACAAGTGACACTTTTAC
*
40704 CGATACAAGTGACTCTTTTAC
1 CGATACAAGTGACACTTTTAC
**
40725 AAATACAAGT
1 CGATACAAGT
40735 CTTATTTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (21 bp):
CGATACAAGTGACACTTTTAC
Found at i:46819 original size:16 final size:17
Alignment explanation
Indices: 46778--46817 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
46768 TTTTCACTTC
46778 ATTTTATTTATTTATCT
1 ATTTTATTTATTTATCT
46795 A-TTTATTTATTT-T-T
1 ATTTTATTTATTTATCT
46809 ATTTTATTT
1 ATTTTATTT
46818 TACTAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 8 0.36
16 11 0.50
17 1 0.05
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTATTTATTTATCT
Found at i:47855 original size:30 final size:30
Alignment explanation
Indices: 47763--47856 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
47753 TTTGGTCTCC
*
47763 AAATTTCA-TAAAATTCCAATTTAGTCCTT
1 AAATTTCACAAAAATTCCAATTTAGTCCTT
* * * * * **
47792 AAAATCCACCAAACTTACAATTTAAACAC-T
1 AAATTTCACAAAAATTCCAATTTAGTC-CTT
47822 AAATTTCACAAAAATTCCAATTTAGTCCTT
1 AAATTTCACAAAAATTCCAATTTAGTCCTT
47852 AAATT
1 AAATT
47857 AAATATAGGG
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
29 7 0.15
30 40 0.83
31 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (30 bp):
AAATTTCACAAAAATTCCAATTTAGTCCTT
Found at i:50531 original size:30 final size:30
Alignment explanation
Indices: 50492--50589 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
50482 TTCAATTTGG
*
50492 TCCTCAAAATTCACTAAAATTCCAATTTAA
1 TCCTTAAAATTCACTAAAATTCCAATTTAA
* * * *
50522 TCCTTAAAATCCA-TCGAACTTACAATTTAA
1 TCCTTAAAATTCACT-AAAATTCCAATTTAA
* * * * *
50552 ACCTTAAATTTCACAAAAATTCTAATTTAG
1 TCCTTAAAATTCACTAAAATTCCAATTTAA
*
50582 TCCCTAAA
1 TCCTTAAA
50590 TTAAATTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (30 bp):
TCCTTAAAATTCACTAAAATTCCAATTTAA
Found at i:57111 original size:13 final size:13
Alignment explanation
Indices: 57093--57117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57083 GCAACTCCTG
57093 TGCTGAAGGAGTT
1 TGCTGAAGGAGTT
57106 TGCTGAAGGAGT
1 TGCTGAAGGAGT
57118 CGAGGATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.40, T:0.28
Consensus pattern (13 bp):
TGCTGAAGGAGTT
Found at i:67607 original size:50 final size:50
Alignment explanation
Indices: 67542--67648 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
67532 TTAAATTATT
* *
67542 TTTAGATTTGATGTTTTAAATAAATATAAATATTTATTTAAT-TTGTTTTG
1 TTTAGATCTGATGTTTTAAATAAAGATAAATATTTATTT-ATGTTGTTTTG
* **
67592 TTTAGATCTGGTGTTTTGTATAAAGATAAATATTTATTTATGTTGTTTTG
1 TTTAGATCTGATGTTTTAAATAAAGATAAATATTTATTTATGTTGTTTTG
*
67642 TTCAGAT
1 TTTAGAT
67649 ATTGTGTAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
49 2 0.04
50 48 0.96
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (50 bp):
TTTAGATCTGATGTTTTAAATAAAGATAAATATTTATTTATGTTGTTTTG
Found at i:69185 original size:32 final size:32
Alignment explanation
Indices: 69134--69288 Score: 145
Period size: 32 Copynumber: 4.9 Consensus size: 32
69124 TATGAAACAA
* * * *
69134 TGTTCACAAATTGACAGCTCTTGTG-GACTTAT
1 TGTTCATAGATTGATAGCTCTTGCGAG-CTTAT
* * * *
69166 TGTTCATAGACTAATAGCTCTTACGAGCTTAC
1 TGTTCATAGATTGATAGCTCTTGCGAGCTTAT
*
69198 TGTTCATAGATTGACAGCTCTTGCGAGCTTAT
1 TGTTCATAGATTGATAGCTCTTGCGAGCTTAT
** *
69230 TG-TCATAGATTGATAGCTCTTATGAG-TATAC
1 TGTTCATAGATTGATAGCTCTTGCGAGCT-TAT
* *
69261 TGTTCACAGATTGATAGCTCTTACGAGC
1 TGTTCATAGATTGATAGCTCTTGCGAGC
69289 ATACTGATTA
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.01
31 25 0.25
32 73 0.73
33 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTTCATAGATTGATAGCTCTTGCGAGCTTAT
Found at i:69272 original size:63 final size:64
Alignment explanation
Indices: 69134--69288 Score: 199
Period size: 63 Copynumber: 2.4 Consensus size: 64
69124 TATGAAACAA
* *
69134 TGTTCACAAATTGACAGCTCTTGTG-GACTTATTGTTCATAGACTAATAGCTCTTACGAGCTTAC
1 TGTTCACAGATTGACAGCTCTTGCGAG-CTTATTGTTCATAGACTAATAGCTCTTACGAGCTTAC
* * * *
69198 TGTTCATAGATTGACAGCTCTTGCGAGCTTATTG-TCATAGATTGATAGCTCTTATGAG-TATAC
1 TGTTCACAGATTGACAGCTCTTGCGAGCTTATTGTTCATAGACTAATAGCTCTTACGAGCT-TAC
* *
69261 TGTTCACAGATTGATAGCTCTTACGAGC
1 TGTTCACAGATTGACAGCTCTTGCGAGC
69289 ATACTGATTA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
62 1 0.01
63 49 0.61
64 29 0.36
65 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (64 bp):
TGTTCACAGATTGACAGCTCTTGCGAGCTTATTGTTCATAGACTAATAGCTCTTACGAGCTTAC
Found at i:69293 original size:32 final size:31
Alignment explanation
Indices: 69179--69633 Score: 446
Period size: 32 Copynumber: 14.4 Consensus size: 31
69169 TCATAGACTA
* *
69179 ATAGCTCTTACGAGCTTACTGTTCATAGATTG
1 ATAGCTCTTACGAGCATACTGTT-ACAGATTG
* * * * * *
69211 ACAGCTCTTGCGAGCTTATTGTCATAGATTG
1 ATAGCTCTTACGAGCATACTGTTACAGATTG
* *
69242 ATAGCTCTTATGAGTATACTGTTCACAGATTG
1 ATAGCTCTTACGAGCATACTGTT-ACAGATTG
*
69274 ATAGCTCTTACGAGCATACTGATTACAAATTG
1 ATAGCTCTTACGAGCATACTG-TTACAGATTG
* * * * *
69306 ATATCTTTTACGAGCATACTGGTTATAAACTG
1 ATAGCTCTTACGAGCATACT-GTTACAGATTG
* * ** *
69338 GTAGTTCTTATAAGCATACTGCTACAGATTG
1 ATAGCTCTTACGAGCATACTGTTACAGATTG
**
69369 ATAAATCTTACGAGCATACTGTTTACAGATTG
1 ATAGCTCTTACGAGCATACTG-TTACAGATTG
* * * *
69401 ATAACTCTTATGAGCATACTATTTACAAATTG
1 ATAGCTCTTACGAGCATACT-GTTACAGATTG
* *
69433 ATAGCTTTTACGAGTATACTGGTTACA-ATCTG
1 ATAGCTCTTACGAGCATACT-GTTACAGAT-TG
69465 ATAGCTCTTACGAGCATACTGTTACAGATTG
1 ATAGCTCTTACGAGCATACTGTTACAGATTG
* * *
69496 ATAGCTTTTACGAGCATACTATTTACAAATTG
1 ATAGCTCTTACGAGCATACT-GTTACAGATTG
** *
69528 ATTTCTCTTACGAGCATACTATTTACAGATTG
1 ATAGCTCTTACGAGCATACT-GTTACAGATTG
* *
69560 ATAGCTCTTACGAGCATATTGGCTACA-ATCTG
1 ATAGCTCTTACGAGCATACT-GTTACAGAT-TG
*
69592 ATAGCTCTTATGAGCATACTGTTACAGATTG
1 ATAGCTCTTACGAGCATACTGTTACAGATTG
69623 ATAGCTCTTAC
1 ATAGCTCTTAC
69634 ATAGCTCTTA
Statistics
Matches: 349, Mismatches: 64, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
31 95 0.27
32 251 0.72
33 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (31 bp):
ATAGCTCTTACGAGCATACTGTTACAGATTG
Found at i:69367 original size:127 final size:127
Alignment explanation
Indices: 69179--69845 Score: 701
Period size: 127 Copynumber: 5.2 Consensus size: 127
69169 TCATAGACTA
* * * * * * * *
69179 ATAGCTCTTACGAGCTTACT-GTT-CATAGATTGACAGCTCTTGCGAGCTTATTGTCATAGATTG
1 ATAGCTCTTACGAGCATACTGGTTACA-A-ACTGATAGCTCTTACGAGCATACTGTTACAGATTG
* * *
69242 ATAGCTCTTATGAGTATACTGTTCACAGATTGATAGCTCTTACGAGCATACTGA-TTACAAATTG
64 ATAGCTCTTATGAGCATACTGTTTACAGATTGATAGCTCTTACGAGCATACT-ATTTACAGATTG
* * * * * ** *
69306 ATATCTTTTACGAGCATACTGGTTATAAACTGGTAGTTCTTATAAGCATACTGCTACAGATTGAT
1 ATAGCTCTTACGAGCATACTGGTTACAAACTGATAGCTCTTACGAGCATACTGTTACAGATTGAT
** * * * *
69371 AAATCTTACGAGCATACTGTTTACAGATTGATAACTCTTATGAGCATACTATTTACAAATTG
66 AGCTCTTATGAGCATACTGTTTACAGATTGATAGCTCTTACGAGCATACTATTTACAGATTG
* * *
69433 ATAGCTTTTACGAGTATACTGGTTACAATCTGATAGCTCTTACGAGCATACTGTTACAGATTGAT
1 ATAGCTCTTACGAGCATACTGGTTACAAACTGATAGCTCTTACGAGCATACTGTTACAGATTGAT
* * * * **
69498 AGCTTTTACGAGCATACTATTTACAAATTGATTTCTCTTACGAGCATACTATTTACAGATTG
66 AGCTCTTATGAGCATACTGTTTACAGATTGATAGCTCTTACGAGCATACTATTTACAGATTG
* * * *
69560 ATAGCTCTTACGAGCATATTGGCTACAATCTGATAGCTCTTATGAGCATACTGTTACAGATTGAT
1 ATAGCTCTTACGAGCATACTGGTTACAAACTGATAGCTCTTACGAGCATACTGTTACAGATTGAT
* * * *
69625 AGCTCTTACATAGCTCTTACGAGCATACTATTTACAGATTAATAGTTCTTACGAGCATATTATTT
66 AGCTC-T---TA-----T--GAGCATACTGTTTACAGATTGATAGCTCTTACGAGCATACTATTT
* *
69690 ATAGATTA
120 ACAGATTG
* * * * *
69698 ATAGCTCTTACGAGCATATTGGTTACAGATTGGTAGCTCTTACGAGCATACTGTTTACATATTGA
1 ATAGCTCTTACGAGCATACTGGTTACAAACTGATAGCTCTTACGAGCATACTG-TTACAGATTGA
* * *
69763 TAGCTCTTATGAGCATACTGTTTACAGATTGATAGCTCCTACGAGCATACTAGTTATAGATTG
65 TAGCTCTTATGAGCATACTGTTTACAGATTGATAGCTCTTACGAGCATACTATTTACAGATTG
*
69826 ATAGCTCTCACGAGCATACT
1 ATAGCTCTTACGAGCATACT
69846 ATTTACTGAT
Statistics
Matches: 453, Mismatches: 72, Indels: 29
0.82 0.13 0.05
Matches are distributed among these distances:
126 1 0.00
127 268 0.59
128 69 0.15
129 1 0.00
130 1 0.00
131 2 0.00
135 2 0.00
138 93 0.21
139 16 0.04
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (127 bp):
ATAGCTCTTACGAGCATACTGGTTACAAACTGATAGCTCTTACGAGCATACTGTTACAGATTGAT
AGCTCTTATGAGCATACTGTTTACAGATTGATAGCTCTTACGAGCATACTATTTACAGATTG
Found at i:69651 original size:42 final size:43
Alignment explanation
Indices: 69592--69676 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
69582 CTACAATCTG
* *
69592 ATAGCTCTTATGAGCATACT-GTTACAGATTGATAGCTCTTAC
1 ATAGCTCTTACGAGCATACTAGTTACAGATTAATAGCTCTTAC
* *
69634 ATAGCTCTTACGAGCATACTATTTACAGATTAATAGTTCTTAC
1 ATAGCTCTTACGAGCATACTAGTTACAGATTAATAGCTCTTAC
69677 GAGCATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 19 0.50
43 19 0.50
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (43 bp):
ATAGCTCTTACGAGCATACTAGTTACAGATTAATAGCTCTTAC
Found at i:69680 original size:32 final size:32
Alignment explanation
Indices: 69634--69944 Score: 289
Period size: 32 Copynumber: 9.6 Consensus size: 32
69624 TAGCTCTTAC
*
69634 ATAGCTCTTACGAGCATACTATTTACAGATTA
1 ATAGCTCTTACGAGCATACTATTTACAGATTG
* * * *
69666 ATAGTTCTTACGAGCATATTATTTATAGATTA
1 ATAGCTCTTACGAGCATACTATTTACAGATTG
* **
69698 ATAGCTCTTACGAGCATATTGGTTACAGATTG
1 ATAGCTCTTACGAGCATACTATTTACAGATTG
* * *
69730 GTAGCTCTTACGAGCATACTGTTTACATATTG
1 ATAGCTCTTACGAGCATACTATTTACAGATTG
* *
69762 ATAGCTCTTATGAGCATACTGTTTACAGATTG
1 ATAGCTCTTACGAGCATACTATTTACAGATTG
* * *
69794 ATAGCTCCTACGAGCATACTAGTTATAGATTG
1 ATAGCTCTTACGAGCATACTATTTACAGATTG
* * *
69826 ATAGCTCTCACGAGCATACTATTTACTGATTT
1 ATAGCTCTTACGAGCATACTATTTACAGATTG
* * * * * * *
69858 ATTAGCTCATACAAGCTTAGTGTATACTGATTG
1 A-TAGCTCTTACGAGCATACTATTTACAGATTG
* * ** * **
69891 ATTAACTCATACGAGCATACTAGATACTGACAG
1 A-TAGCTCTTACGAGCATACTATTTACAGATTG
*
69924 ATTAGCTCTTATGAGCATACT
1 A-TAGCTCTTACGAGCATACT
69945 GTGAAATTAC
Statistics
Matches: 233, Mismatches: 45, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
32 167 0.72
33 66 0.28
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (32 bp):
ATAGCTCTTACGAGCATACTATTTACAGATTG
Found at i:69745 original size:138 final size:139
Alignment explanation
Indices: 69496--69771 Score: 414
Period size: 138 Copynumber: 2.0 Consensus size: 139
69486 TTACAGATTG
* * * *
69496 ATAGCTTTTACGAGCATACTATTTACAAATTGATTTCTCTTACGAGCATACTATTTACAGATTGA
1 ATAGCTCTTACGAGCATACTATTTACAAATTAATGTCTCTTACGAGCATACTATTTACAGATTAA
*
69561 TAGCTCTTACGAGCATATTGGCTACAATCTGATAGCTCTTATGAGCATACTG-TTACAGATTGAT
66 TAGCTCTTACGAGCATATTGGCTACAATCTGATAGCTCTTACGAGCATACTGTTTACAGATTGAT
69625 AGCTCTTAC
131 AGCTCTTAC
* * *
69634 ATAGCTCTTACGAGCATACTATTTACAGATTAATAGT-TCTTACGAGCATATTATTTATAGATTA
1 ATAGCTCTTACGAGCATACTATTTACAAATTAAT-GTCTCTTACGAGCATACTATTTACAGATTA
* * *
69698 ATAGCTCTTACGAGCATATTGGTTACAGAT-TGGTAGCTCTTACGAGCATACTGTTTACATATTG
65 ATAGCTCTTACGAGCATATTGGCTACA-ATCTGATAGCTCTTACGAGCATACTGTTTACAGATTG
69762 ATAGCTCTTA
129 ATAGCTCTTA
69772 TGAGCATACT
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
138 102 0.82
139 22 0.18
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (139 bp):
ATAGCTCTTACGAGCATACTATTTACAAATTAATGTCTCTTACGAGCATACTATTTACAGATTAA
TAGCTCTTACGAGCATATTGGCTACAATCTGATAGCTCTTACGAGCATACTGTTTACAGATTGAT
AGCTCTTAC
Found at i:69746 original size:170 final size:170
Alignment explanation
Indices: 69465--69800 Score: 489
Period size: 170 Copynumber: 2.0 Consensus size: 170
69455 TTACAATCTG
* *
69465 ATAGCTCTTACGAGCATACTGTTACAGATTGATAGCTTTTACGAGCATACTATTTACAAATTGAT
1 ATAGCTCTTACGAGCATACTGTTACAGATTAATAGCTTTTACGAGCATACTATTTACAAATTAAT
** * *
69530 TTCTCTTACGAGCATACTATTTACAGATTGATAGCTCTTACGAGCATATTGGCTACA-ATCTGAT
66 AGCTCTTACGAGCATACTAGTTACAGATTGATAGCTCTTACGAGCATACTGGCTACATAT-TGAT
69594 AGCTCTTATGAGCATACTG-TTACAGATTGATAGCTCTTAC
130 AGCTCTTATGAGCATACTGTTTACAGATTGATAGCTCTTAC
* * * *
69634 ATAGCTCTTACGAGCATACTATTTACAGATTAATAG-TTCTTACGAGCATATTATTTATAGATTA
1 ATAGCTCTTACGAGCATACT-GTTACAGATTAATAGCTT-TTACGAGCATACTATTTACAAATTA
* * * **
69698 ATAGCTCTTACGAGCATATTGGTTACAGATTGGTAGCTCTTACGAGCATACTGTTTACATATTGA
64 ATAGCTCTTACGAGCATACTAGTTACAGATTGATAGCTCTTACGAGCATACTGGCTACATATTGA
69763 TAGCTCTTATGAGCATACTGTTTACAGATTGATAGCTC
129 TAGCTCTTATGAGCATACTGTTTACAGATTGATAGCTC
69801 CTACGAGCAT
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
169 22 0.15
170 107 0.72
171 19 0.13
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (170 bp):
ATAGCTCTTACGAGCATACTGTTACAGATTAATAGCTTTTACGAGCATACTATTTACAAATTAAT
AGCTCTTACGAGCATACTAGTTACAGATTGATAGCTCTTACGAGCATACTGGCTACATATTGATA
GCTCTTATGAGCATACTGTTTACAGATTGATAGCTCTTAC
Found at i:70605 original size:47 final size:47
Alignment explanation
Indices: 70551--70645 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
70541 TGGTTTTAGG
70551 TATGTTTAGGGCCTTGATATGGTATGTTATGAGATGGTACAATTACT
1 TATGTTTAGGGCCTTGATATGGTATGTTATGAGATGGTACAATTACT
70598 TATGTTTAGGGCCTTGATATGGTATGTTATGAGATGGTACAATTACT
1 TATGTTTAGGGCCTTGATATGGTATGTTATGAGATGGTACAATTACT
70645 T
1 T
70646 GTGAATTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (47 bp):
TATGTTTAGGGCCTTGATATGGTATGTTATGAGATGGTACAATTACT
Found at i:71570 original size:4 final size:4
Alignment explanation
Indices: 71561--71608 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
71551 AAAAGGAAAA
* * * *
71561 TTTC TTTC TTTC TTTC TTTC TTTC TTGC TTGC TTGC TTGC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
71609 AAGCTTTGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.00, C:0.25, G:0.08, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:72886 original size:3 final size:3
Alignment explanation
Indices: 72878--72905 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
72868 TGTGTAGACA
72878 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
72906 ATTATAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:74948 original size:49 final size:49
Alignment explanation
Indices: 74891--74989 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
74881 TAAATCAAAG
* *
74891 TAAACGAAATAGATAGTGAATTCAATAAATAGATTTGGAGAAATTAGGT
1 TAAACGAAATAGATAGTGAATTCAATAAACAAATTTGGAGAAATTAGGT
74940 TAAACGAAATAGATAGTGAATTCAATAAACAAATTTGGAGAAATTAGGT
1 TAAACGAAATAGATAGTGAATTCAATAAACAAATTTGGAGAAATTAGGT
74989 T
1 T
74990 GCTTCGGTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.28
Consensus pattern (49 bp):
TAAACGAAATAGATAGTGAATTCAATAAACAAATTTGGAGAAATTAGGT
Found at i:85398 original size:25 final size:25
Alignment explanation
Indices: 85342--85408 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
85332 TAATTATTAT
*
85342 TATTTTTAATAATTTTTTAAAATTT
1 TATTTTTAATAATTTTTTAAAATTC
* * *
85367 TAGTTTTAA-ATTTTTTTCAAAGTTC
1 TATTTTTAATAATTTTTT-AAAATTC
*
85392 TATTTTTTTATAATTTT
1 TA-TTTTTAATAATTTT
85409 ATAATTTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
24 7 0.22
25 15 0.47
26 5 0.16
27 5 0.16
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (25 bp):
TATTTTTAATAATTTTTTAAAATTC
Found at i:85435 original size:8 final size:8
Alignment explanation
Indices: 85397--85424 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
85387 AGTTCTATTT
85397 TTTTATAA
1 TTTTATAA
85405 TTTTATAA
1 TTTTATAA
85413 TTTTATAA
1 TTTTATAA
85421 TTTT
1 TTTT
85425 TTTATGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTATAA
Found at i:86465 original size:20 final size:19
Alignment explanation
Indices: 86440--86503 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
86430 AGCAATGAAT
*
86440 TTGTTCACCAAGAGATGCAA
1 TTGTTCA-CAAGAGATACAA
86460 TTGTTCA-AA-AGATACAA
1 TTGTTCACAAGAGATACAA
* *
86477 CTGTTCATCAAGAGATTCAA
1 TTGTTCA-CAAGAGATACAA
*
86497 TTATTCA
1 TTGTTCA
86504 ATTTGAGCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 13 0.36
18 2 0.06
19 2 0.06
20 19 0.53
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (19 bp):
TTGTTCACAAGAGATACAA
Found at i:91545 original size:82 final size:82
Alignment explanation
Indices: 91403--91566 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
91393 TTATCACCGT
*
91403 ATAAATTCGTCAATTCATGGCACCCGGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
1 ATAAATTCGTCAATTCATGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
91468 AGTTGGATTAACCAACG
66 AGTTGGATTAACCAACG
* * *
91485 ATAATTTCGTCAATTCTTGGCACCCAGTGTCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
1 ATAAATTCGTCAATTCATGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
91550 AGTTGGATTAACCAACG
66 AGTTGGATTAACCAACG
91567 GTTTTGCGCC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (82 bp):
ATAAATTCGTCAATTCATGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
AGTTGGATTAACCAACG
Found at i:91767 original size:181 final size:183
Alignment explanation
Indices: 91420--91786 Score: 560
Period size: 181 Copynumber: 2.0 Consensus size: 183
91410 CGTCAATTCA
*
91420 TGGCACCCGGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCTAGTTGGATTAACCAACG
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCTAGTTGGATTAACCAAC-
* * * * *
91485 ATAATTTCGTCAATTCTTGGCACCCAGTGTCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCT
65 A-AATTCCGTCAAATCTTGGCACCCAATGCCTAGCGGATAAACCGCAATAAATGAGCCCAGCTCT
* * * *
91550 AGTTGGATTAACCAACGGTTTTGCGCCTAGCGCTAGTCGGATAAACCGATGATCC
129 AGTTGGATTAACCAACAGTTTTGCGCCCAACGCTAGTCGGATAAACCGACGATCC
* *
91605 TGGCACCCAGTGCCTAGTGGATAAACCGTAA-AAGTGAGCCCAGCTCTAGTTGGATTAACCAAC-
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCTAGTTGGATTAACCAACA
91668 AATGTCCGTCAAATCTTGGCACCCAATGCCTAGCGGATAAACCGCAA-AAATGAGCCCAGCTCTA
66 AAT-TCCGTCAAATCTTGGCACCCAATGCCTAGCGGATAAACCGCAATAAATGAGCCCAGCTCTA
* *
91732 GTTGGATTAACCAACATTTTTGTGCCCAACGCTAGTCGGATAAACCGACGATCC
130 GTTGGATTAACCAACAGTTTTGCGCCCAACGCTAGTCGGATAAACCGACGATCC
91786 T
1 T
91787 TTAGTAATTC
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
181 68 0.41
182 39 0.23
184 32 0.19
185 28 0.17
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (183 bp):
TGGCACCCAGTGCCTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCTAGTTGGATTAACCAACA
AATTCCGTCAAATCTTGGCACCCAATGCCTAGCGGATAAACCGCAATAAATGAGCCCAGCTCTAG
TTGGATTAACCAACAGTTTTGCGCCCAACGCTAGTCGGATAAACCGACGATCC
Found at i:95139 original size:20 final size:18
Alignment explanation
Indices: 95098--95151 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
95088 AGTTCACCAT
95098 GAGATACAATTGTTCAAA
1 GAGATACAATTGTTCAAA
*
95116 -AGATACAACTGTTCATCAA
1 GAGATACAATTGTTCA--AA
*
95135 GAGATTCAATTGTTCAA
1 GAGATACAATTGTTCAA
95152 TTTGAGTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 2 0.07
20 13 0.43
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (18 bp):
GAGATACAATTGTTCAAA
Found at i:97037 original size:30 final size:29
Alignment explanation
Indices: 96988--97195 Score: 148
Period size: 30 Copynumber: 7.0 Consensus size: 29
96978 TTTATTCTAA
* **
96988 AAAAATTACGTTTGGCCCCTAAACTTTTT
1 AAAAATTACATTTTACCCCTAAACTTTTT
* ** *
97017 ATAAATTTTATTTTAACCCCTAAACTTTCT
1 AAAAATTACATTTT-ACCCCTAAACTTTTT
* ** * *
97047 AAAAATTATATTTTGGTCCCTTAACTTTAT
1 AAAAATTACATTTT-ACCCCTAAACTTTTT
* * *
97077 AAAAATTCCATTTTAGCCTTCAAA-TTGTTT
1 AAAAATTACATTTTACCCCT-AAACTT-TTT
* *
97107 AAAAATTACATTTTATCCCTCAAACTTTTA
1 AAAAATTACATTTTACCCCT-AAACTTTTT
** *
97137 AAAAATTGTATTTTGACCCTTAAACTTTTT
1 AAAAATTACATTTT-ACCCCTAAACTTTTT
* *
97167 GAAAATTACATTTTAACCCCCAAACTTTT
1 AAAAATTACATTTT-ACCCCTAAACTTTT
97196 CAAATTTTCA
Statistics
Matches: 138, Mismatches: 36, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
29 14 0.10
30 118 0.86
31 6 0.04
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (29 bp):
AAAAATTACATTTTACCCCTAAACTTTTT
Found at i:97073 original size:60 final size:59
Alignment explanation
Indices: 96988--97180 Score: 185
Period size: 60 Copynumber: 3.2 Consensus size: 59
96978 TTTATTCTAA
* * * * * *
96988 AAAAATTAC-GTTTGGCCCCTAAACTTTTTATAAATTTTATTTTAACCCCTAAACTTTCT
1 AAAAATTACATTTTGGTCCCTAAACTTTTTAAAAATTCTATTTT-ACCCTTAAACTTTTT
* * * * *
97047 AAAAATTATATTTTGGTCCCTTAACTTTATAAAAATTCCATTTTAGCCTTCAAA-TTGTTT
1 AAAAATTACATTTTGGTCCCTAAACTTTTTAAAAATTCTATTTTACCCTT-AAACTT-TTT
* * *
97107 AAAAATTACATTTT-ATCCCTCAAACTTTTAAAAAATTGTATTTTGACCCTTAAACTTTTT
1 AAAAATTACATTTTGGTCCCT-AAACTTTTTAAAAATTCTATTTT-ACCCTTAAACTTTTT
*
97167 GAAAATTACATTTT
1 AAAAATTACATTTT
97181 AACCCCCAAA
Statistics
Matches: 108, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
59 19 0.18
60 82 0.76
61 7 0.06
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.44
Consensus pattern (59 bp):
AAAAATTACATTTTGGTCCCTAAACTTTTTAAAAATTCTATTTTACCCTTAAACTTTTT
Found at i:106973 original size:128 final size:127
Alignment explanation
Indices: 106744--107000 Score: 496
Period size: 128 Copynumber: 2.0 Consensus size: 127
106734 ACGATGCAAC
106744 AATCGAGGAAGGAGCTCCGAAAGAACATCCGTGGAGGCTGAATTTTAACGGTGCCTCGAATGCCA
1 AATCGAGGAAGGAGCTCCGAAAGAACATCCGTGGAGGCTGAATTTTAACGGTGCCTCGAATGCCA
106809 TAGGTAATGGAATTGGGGCAGTTTTGGTATCCCTAGAAGGTGATCATTATCCTTTCACTAGT
66 TAGGTAATGGAATTGGGGCAGTTTTGGTATCCCTAGAAGGTGATCATTATCCTTTCACTAGT
*
106871 ANATCGAGGAAGGAGCTCCGAAAGAACATCCGTGGAGGCTGAATTTTAACGGTGCCTTGAATGCC
1 A-ATCGAGGAAGGAGCTCCGAAAGAACATCCGTGGAGGCTGAATTTTAACGGTGCCTCGAATGCC
106936 ATAGGTAATGGAATTGGGGCAGTTTTGGTATCCCTAGAAGGTGATCATTATCCTTTCACTAGT
65 ATAGGTAATGGAATTGGGGCAGTTTTGGTATCCCTAGAAGGTGATCATTATCCTTTCACTAGT
106999 AA
1 AA
107001 GCTCAACTTC
Statistics
Matches: 128, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
127 2 0.02
128 126 0.98
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (127 bp):
AATCGAGGAAGGAGCTCCGAAAGAACATCCGTGGAGGCTGAATTTTAACGGTGCCTCGAATGCCA
TAGGTAATGGAATTGGGGCAGTTTTGGTATCCCTAGAAGGTGATCATTATCCTTTCACTAGT
Found at i:109530 original size:38 final size:38
Alignment explanation
Indices: 109486--109923 Score: 333
Period size: 38 Copynumber: 11.3 Consensus size: 38
109476 AAGCAAAACT
109486 AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
* * * * *
109524 AATCTCTTACCTTAATCA-GAAGGTAGATTGAAGATAATCC
1 AATCTCTTACCCTAATCATG-GGGCAAATTGAAG--CATCC
* ** * *
109564 AATTTCTTACCCCGATCATGGGGTAGATTGAAGCATCC
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
* ** * *
109602 AATCTTTTACCCTAATCAAAGGGCAGATTGAAGACAAACC
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAG-C-ATCC
** * * *
109642 AATCTCTTACCCCGATAATAGGGTAAATTGAAGCATCC
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
* ** * *
109680 AATCTTTTACCCTAATCAAAGGGCAGATTGAAGACAAACC
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAG-C-ATCC
** *
109720 AATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCT
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
* *** *
109758 AATCTCTTACCTTAATCAAAAGGCAAATTGAAGACAATCT
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAG-C-ATCC
* *
109798 AATCTCTTACCCTGATCATGGGGTAAATTGAAGCATCC
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
* * * * *
109836 AATCTCTTACCTTAATCA-GAAGGTAAATTTAAGACA-CAA
1 AATCTCTTACCCTAATCATG-GGGCAAATTGAAG-CATC-C
* ** * * *
109875 AATTTCTTACCCCGATCATAGGGCAAATTGAAACACCC
1 AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
109913 AATCTCTTACC
1 AATCTCTTACC
109924 TTGACCATGG
Statistics
Matches: 313, Mismatches: 72, Indels: 30
0.75 0.17 0.07
Matches are distributed among these distances:
37 2 0.01
38 158 0.50
39 32 0.10
40 120 0.38
41 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (38 bp):
AATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCC
Found at i:109603 original size:78 final size:77
Alignment explanation
Indices: 109481--109925 Score: 561
Period size: 78 Copynumber: 5.7 Consensus size: 77
109471 CAGTGAAGCA
* **
109481 AAACTAATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATCAGAAG
1 AAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATCA-AAG
* *
109546 GTAGATTGAAGAT
65 GCAGATTGAAGAC
* * * * * *
109559 AATCCAATTTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCTAATCAAAGG
1 AAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATCAAA-G
109624 GCAGATTGAAGAC
65 GCAGATTGAAGAC
* * * * *
109637 AAACCAATCTCTTACCCCGATAATAGGGTAAATTGAAGCATCCAATCTTTTACCCTAATCAAAGG
1 AAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATCAAA-G
109702 GCAGATTGAAGAC
65 GCAGATTGAAGAC
*
109715 AAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCTAATCTCTTACCTTAATCAAAAG
1 AAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATC-AAAG
*
109780 GCAAATTGAAGAC
65 GCAGATTGAAGAC
* * * *
109793 AATCTAATCTCTTACCCTGATCATGGGGTAAATTGAAGCATCCAATCTCTTACCTTAATCAGAAG
1 AAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATCA-AAG
* * *
109858 GTAAATTTAAGAC
65 GCAGATTGAAGAC
* * * *
109871 ACAA--AATTTCTTACCCCGATCATAGGGCAAATTGAAACACCCAATCTCTTACCTT
1 A-AACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTT
109926 GACCATGGAG
Statistics
Matches: 326, Mismatches: 37, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
77 48 0.15
78 274 0.84
79 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (77 bp):
AAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATCAAAGG
CAGATTGAAGAC
Found at i:109762 original size:156 final size:156
Alignment explanation
Indices: 109481--109923 Score: 622
Period size: 156 Copynumber: 2.8 Consensus size: 156
109471 CAGTGAAGCA
* *
109481 AAACTAATCTCTTACCCTAATCATGGGGCAAATTGAAGCATCCAATCTCTTACCTTAATCAGAAG
1 AAACTAATCTCTTACCCTGATCATGGGGTAAATTGAAGCATCCAATCTCTTACCTTAATCAGAAG
* * * * *
109546 GTAGATTGAAGATAATCCAATTTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTA
66 GTAGATTGAAGACAAACCAATTTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTA
* *
109611 CCCTAATCAAAGGGCAGATTGAAGAC
131 CCCTAATCAAAAGGCAAATTGAAGAC
* * * * * *
109637 AAACCAATCTCTTACCCCGATAATAGGGTAAATTGAAGCATCCAATCTTTTACCCTAATCA-AAG
1 AAACTAATCTCTTACCCTGATCATGGGGTAAATTGAAGCATCCAATCTCTTACCTTAATCAGAA-
* * *
109701 GGCAGATTGAAGACAAACCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCTAATCTCTT
65 GGTAGATTGAAGACAAACCAATTTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTT
*
109766 ACCTTAATCAAAAGGCAAATTGAAGAC
130 ACCCTAATCAAAAGGCAAATTGAAGAC
*
109793 AATCTAATCTCTTACCCTGATCATGGGGTAAATTGAAGCATCCAATCTCTTACCTTAATCAGAAG
1 AAACTAATCTCTTACCCTGATCATGGGGTAAATTGAAGCATCCAATCTCTTACCTTAATCAGAAG
* * * * *
109858 GTAAATTTAAGACACAA--AATTTCTTACCCCGATCATAGGGCAAATTGAAACACCCAATCTCTT
66 GTAGATTGAAGACA-AACCAATTTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTT
109921 ACC
130 ACC
109924 TTGACCATGG
Statistics
Matches: 250, Mismatches: 34, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
155 46 0.18
156 200 0.80
157 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (156 bp):
AAACTAATCTCTTACCCTGATCATGGGGTAAATTGAAGCATCCAATCTCTTACCTTAATCAGAAG
GTAGATTGAAGACAAACCAATTTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTA
CCCTAATCAAAAGGCAAATTGAAGAC
Found at i:111798 original size:29 final size:30
Alignment explanation
Indices: 111756--111868 Score: 156
Period size: 30 Copynumber: 3.8 Consensus size: 30
111746 CCTTGTTTTA
*
111756 TTCTAAAAATTACA-TTTGGCCCCTAAACT
1 TTCTAAAAAATACATTTTGGCCCCTAAACT
* *
111785 TTCTAAAAAATACATTTTGACCCTTAAACT
1 TTCTAAAAAATACATTTTGGCCCCTAAACT
*
111815 TTCTAAAAAATACATTTTGGCACCCTTAACT
1 TTCTAAAAAATACATTTTGGC-CCCTAAACT
**
111846 TTCTAAAATTTACATTTTGGCCC
1 TTCTAAAAAATACATTTTGGCCC
111869 TGAATTATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
29 13 0.18
30 35 0.47
31 26 0.35
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (30 bp):
TTCTAAAAAATACATTTTGGCCCCTAAACT
Done.