Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014916.1 Kokia drynarioides strain JFW-HI SEQ_129959, 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: 44133
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Found at i:3688 original size:16 final size:18
Alignment explanation
Indices: 3649--3682 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3639 TAAATTTATA
3649 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
3666 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
3683 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:6231 original size:23 final size:23
Alignment explanation
Indices: 6201--6250 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
6191 TTTAAGTTTG
*
6201 ATATATTTTTTAATATGGTATAT
1 ATATATTTTTCAATATGGTATAT
* *
6224 ATATATTTTTCAATTTGGTATTT
1 ATATATTTTTCAATATGGTATAT
6247 ATAT
1 ATAT
6251 TTGATAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (23 bp):
ATATATTTTTCAATATGGTATAT
Found at i:20403 original size:21 final size:21
Alignment explanation
Indices: 20352--20403 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
20342 GGTTTTATGT
* *
20352 TTTG-GGTTTAAGGTTAGGGA
1 TTTGAGGTTTAAGATTAAGGA
* * *
20372 TTTTAGATTTAAGATTAAGGG
1 TTTGAGGTTTAAGATTAAGGA
20393 TTTGAGGTTTA
1 TTTGAGGTTTA
20404 GGGTAAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TTTGAGGTTTAAGATTAAGGA
Found at i:22034 original size:25 final size:25
Alignment explanation
Indices: 21988--22036 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21978 TCTGAAGGTA
* * **
21988 TATTCATTTTTTATATTTATATATT
1 TATTCATTATATATATAAATATATT
22013 TATTCATTATATATATAAATATAT
1 TATTCATTATATATATAAATATAT
22037 ATATATTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTCATTATATATATAAATATATT
Found at i:27732 original size:23 final size:22
Alignment explanation
Indices: 27704--27852 Score: 136
Period size: 23 Copynumber: 6.5 Consensus size: 22
27694 ACATTAGTGC
*
27704 GCTTACTGTTCAGCACTGTGTGT
1 GCTTACTGTT-TGCACTGTGTGT
* * * *
27727 GCTTACTAATTCGCACTATATGT
1 GCTTACT-GTTTGCACTGTGTGT
* *
27750 GCTTACTGATTTGTACTATGTGT
1 GCTTACTG-TTTGCACTGTGTGT
*
27773 GTTTACTGATTTGCACTGTGTGT
1 GCTTACTG-TTTGCACTGTGTGT
*
27796 GCTTACTGTTTTGCATTGTGTGT
1 GCTTACTG-TTTGCACTGTGTGT
* *
27819 GCCTATTGATTTGCACTGTGTGT
1 GCTTACTG-TTTGCACTGTGTGT
*
27842 GCTTATTGTTT
1 GCTTACTGTTT
27853 CCCCAACACT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
22 3 0.03
23 100 0.95
24 2 0.02
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (22 bp):
GCTTACTGTTTGCACTGTGTGT
Found at i:27818 original size:46 final size:46
Alignment explanation
Indices: 27704--27852 Score: 172
Period size: 46 Copynumber: 3.2 Consensus size: 46
27694 ACATTAGTGC
** * * * *
27704 GCTTACTGTTCAGCACTGTGTGTGCTTACTAATTCGCACTATATGT
1 GCTTACTGTTTTGCACTGTGTGTGCTTACTGATTTGCACTGTGTGT
* * * *
27750 GCTTACTGATTTGTACTATGTGTGTTTACTGATTTGCACTGTGTGT
1 GCTTACTGTTTTGCACTGTGTGTGCTTACTGATTTGCACTGTGTGT
* * *
27796 GCTTACTGTTTTGCATTGTGTGTGCCTATTGATTTGCACTGTGTGT
1 GCTTACTGTTTTGCACTGTGTGTGCTTACTGATTTGCACTGTGTGT
*
27842 GCTTATTGTTT
1 GCTTACTGTTT
27853 CCCCAACACT
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (46 bp):
GCTTACTGTTTTGCACTGTGTGTGCTTACTGATTTGCACTGTGTGT
Found at i:30501 original size:29 final size:29
Alignment explanation
Indices: 30460--30741 Score: 208
Period size: 29 Copynumber: 9.6 Consensus size: 29
30450 CATCCGAGGG
* **
30460 TAAAATGATAATTTTTAAAAGTTTTGGGGT
1 TAAAATG-GAATTTTTGGAAGTTTTGGGGT
* * **
30490 TAAAATGGAATTTTTAGAAGCTTCAGGGT
1 TAAAATGGAATTTTTGGAAGTTTTGGGGT
* **
30519 TAAAAATAGAATTTTTGGAAGTTCGGGGGT
1 T-AAAATGGAATTTTTGGAAGTTTTGGGGT
* * *
30549 GAAAATGAAATTTTTGGAAGTTTTGAGGT
1 TAAAATGGAATTTTTGGAAGTTTTGGGGT
* * * *
30578 CAAAAATAGAATTTTTTGGGAGTTTAGGGG-
1 -TAAAATGGAA-TTTTTGGAAGTTTTGGGGT
**
30608 TAAAATGGAATTTTTGGAAGTTTTATGGT
1 TAAAATGGAATTTTTGGAAGTTTTGGGGT
* * **
30637 CAAAAATGAAATTTTTGGAAGTTCGGGGGT
1 -TAAAATGGAATTTTTGGAAGTTTTGGGGT
* * *
30667 GAAAATGGAATTTTTGGAAGTTTCGAGGT
1 TAAAATGGAATTTTTGGAAGTTTTGGGGT
* * *
30696 CGAAAATGGAGTTTTTGGAAG-TTCGAGGGT
1 -TAAAATGGAATTTTTGGAAGTTTTG-GGGT
* *
30726 AAAAATGTAATTTTTG
1 TAAAATGGAATTTTTG
30742 AATAGTTTAG
Statistics
Matches: 200, Mismatches: 45, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
28 14 0.07
29 90 0.45
30 81 0.41
31 15 0.08
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
TAAAATGGAATTTTTGGAAGTTTTGGGGT
Found at i:30532 original size:59 final size:58
Alignment explanation
Indices: 30485--30753 Score: 299
Period size: 59 Copynumber: 4.6 Consensus size: 58
30475 TAAAAGTTTT
* * * *
30485 GGGGTTAAAATGGAATTTTTAGAAGCTTCAGGGTTAAAAATAGAATTTTTGGAAGTTCG
1 GGGGTGAAAATGGAATTTTTGGAAG-TTTAGGGTCAAAAATAGAATTTTTGGAAGTTCG
* * * **
30544 GGGGTGAAAATGAAATTTTTGGAAGTTTTGAGGTCAAAAATAGAATTTTTTGGGAGTTTA
1 GGGGTGAAAATGGAATTTTTGGAAGTTTAG-GGTCAAAAATAGAA-TTTTTGGAAGTTCG
*
30604 GGGGT-AAAATGGAATTTTTGGAAGTTTTATGGTCAAAAAT-GAAATTTTTGGAAGTTCG
1 GGGGTGAAAATGGAATTTTTGGAAG-TTTAGGGTCAAAAATAG-AATTTTTGGAAGTTCG
* * * *
30662 GGGGTGAAAATGGAATTTTTGGAAGTTTCGAGGTCGAAAATGGAGTTTTTGGAAGTTCG
1 GGGGTGAAAATGGAATTTTTGGAAGTTTAG-GGTCAAAAATAGAATTTTTGGAAGTTCG
* * * *
30721 AGGGTAAAAATGTAATTTTTGAATAGTTTAGGG
1 GGGGTGAAAATGGAATTTTTGGA-AGTTTAGGG
30754 ACCTCCAGGG
Statistics
Matches: 178, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
58 23 0.13
59 129 0.72
60 26 0.15
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (58 bp):
GGGGTGAAAATGGAATTTTTGGAAGTTTAGGGTCAAAAATAGAATTTTTGGAAGTTCG
Found at i:30670 original size:118 final size:117
Alignment explanation
Indices: 30478--30741 Score: 343
Period size: 118 Copynumber: 2.2 Consensus size: 117
30468 TAATTTTTAA
* * *
30478 AAGTTTTGGGGTTAAAATGGAATTTTTAGAAGCTTCAGGGTTAAAAATAGAATTTTTGGAAGTTC
1 AAGTTTAGGGG-TAAAATGGAATTTTTGGAAGCTTCAGGGTCAAAAATAGAATTTTTGGAAGTTC
* *
30543 GGGGGTGAAAATGAAATTTTTGGAAGTTTTGAGGTCAAAAATAGAATTTTTTGG
65 GGGGGTGAAAATGAAATTTTTGGAAGTTTCGAGGTCAAAAAT-GAAGTTTTTGG
* * * *
30597 GAGTTTAGGGGTAAAATGGAATTTTTGGAAGTTTTATGGTCAAAAAT-GAAATTTTTGGAAGTTC
1 AAGTTTAGGGGTAAAATGGAATTTTTGGAAGCTTCAGGGTCAAAAATAG-AATTTTTGGAAGTTC
* * *
30661 GGGGGTGAAAATGGAATTTTTGGAAGTTTCGAGGTCGAAAATGGAGTTTTTGG
65 GGGGGTGAAAATGAAATTTTTGGAAGTTTCGAGGTCAAAAATGAAGTTTTTGG
* *
30714 AAG-TTCGAGGGTAAAAATGTAATTTTTG
1 AAGTTTAG-GGGT-AAAATGGAATTTTTG
30742 AATAGTTTAG
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
116 3 0.02
117 16 0.13
118 99 0.78
119 9 0.07
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (117 bp):
AAGTTTAGGGGTAAAATGGAATTTTTGGAAGCTTCAGGGTCAAAAATAGAATTTTTGGAAGTTCG
GGGGTGAAAATGAAATTTTTGGAAGTTTCGAGGTCAAAAATGAAGTTTTTGG
Found at i:31861 original size:27 final size:26
Alignment explanation
Indices: 31812--31862 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
31802 CGATTTTTAT
*
31812 TTATTTATTAATATCTATTATTATTA
1 TTATTTATTAATATATATTATTATTA
31838 TTATATTATTAATA-ATATTAATTAT
1 TTAT-TTATTAATATATATT-ATTAT
31863 AGTTGCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATTTATTAATATATATTATTATTA
Found at i:31916 original size:9 final size:9
Alignment explanation
Indices: 31904--31933 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31894 ATTATTAAAT
31904 TAATATTAA
1 TAATATTAA
31913 TAATATTAA
1 TAATATTAA
*
31922 TAATAATAA
1 TAATATTAA
31931 TAA
1 TAA
31934 CTTTCATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TAATATTAA
Found at i:35052 original size:49 final size:49
Alignment explanation
Indices: 34999--36311 Score: 424
Period size: 49 Copynumber: 26.8 Consensus size: 49
34989 AACTCGCTAT
* *
34999 CATGAAAATTGGAAGGGAAAGGTTGAGGCCGCAATGACGAACCCGGTAC
1 CATGAAAATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
35048 CATGAAGATAT-AAAGGAAAAGGTTGAGGCTGCAACGGGGAACCCGGTAC
1 CATGAAAAT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * ** * * * ** *
35097 CTTAAAAGATAT-GATGGGAAAAATTAAGGCTGCAACGGTGAATTCGATAC
1 CATGAAA-AT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
35147 CATG-AAA-TGCGATGAGAAAGGTTGAGGCCGTAACGACGAACCCGATAC
1 CATGAAAATTG-GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* ** * *
35195 CATGAAGATTTAAAGGGAAAGGTTGAGGCTGCAATGGCGAACCCGGTAC
1 CATGAAAATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
35244 CATGAAGATAT-AAAGGGAAAGGTTGAGGTCGCAACGGCGAACCCGGTAC
1 CATGAAAAT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * *
35293 CATGAAGATAT-GAGGGGAAAGGTTAAGGCCGCAATGACGAACCCGATAC
1 CATGAAAAT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * ** * * ** * * *
35342 CTTAGAAGATTTTATGGGAAAGATTGAGGTTGCAACGGTGAATCTGGTAC
1 CAT-GAAAATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
35392 CATG-AAA-TGCGATA-GGAAAGGTTGAGGCCGCAAAGGTGAATCCGATAC
1 CATGAAAATTG-GA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
35440 CAT-AAAGATAT-GAAGGGAAACGTTGAGACCGCAACGGCGAACTCGGTAC
1 CATGAAA-AT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * ** * * **
35489 CTTAGAAGA-TGTGATGGGAAAGATTAAGGCCATAACGACGAATCTAGTAC
1 CAT-GAAAATTG-GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
** * * * * *
35539 CAT-AAAA-TGCGATA-TAAAAGGTTAAGGTCACAACGACAAACCCGGTAC
1 CATGAAAATTG-GA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * *
35587 CATGAAGA-TGTGATGAGAAAGGTTGAGGCCGCAACGGTGAATCCAGTAC
1 CATGAAAATTG-GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
** * * * * * * ** *
35636 CATG-AAATAAGATGGGAAATGTTAAGGTCGTAATGATGAACCCGATAC
1 CATGAAAATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
35684 CATGAAAATTTGAAGGCAAAGGTTGA-GCCTACAACGGTGAACCCAGTAC
1 CATGAAAATTGGAAGGGAAAGGTTGAGGCC-GCAACGGCGAACCCGGTAC
* * ** * * * *
35733 CATGAAGATAT-AAAGAAAAAGGTTGAGCCCGTAACGGTGAACCCGCTAC
1 CATGAAAAT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * * * *
35782 C-TTAAAAGATGTGATGAGAAAGATTGAGGCCACAACGGTGAATCCGATAT
1 CATGAAAA-TTG-GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* ** * * * *** * *
35832 CATG-AAA-TGCGATGAAAAATGTTGACGCTGCAACGATAAACCTGATAC
1 CATGAAAATTG-GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* ** * * *
35880 CAT-AAAGA-TGTGATA-TGAAAGGTTGAGATCGTAACGGTGAACCCAGTAC
1 CATGAAA-ATTG-GA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
35929 CAT-AAAGATTTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACTCGATAC
1 CATGAAA-ATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * ** * * * * * *
35978 CTTAGAAGATACGATGGG-AAGGATTAAAGCCGTAACGGCGAATCTGGTAC
1 CAT-GAAAATTGGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * **
36028 CATGAAGATAT-GAAAGGAAAGGTTGAGTCCGCAACGACAAACCAAGTAC
1 CATGAAAAT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
36077 CACGAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGACGAACCCGGTAC
1 CATGAAAATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * ** *
36126 CTTAAAAGATAT-GATGGAAAAGATTGAGGCCACAACGACGAATTCGATAC
1 CATGAAA-AT-TGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* ** * * * *
36176 CATGAAGATACGAAGGGAAAGGTTGAGGTCGCAATGGTGAACCCGATAC
1 CATGAAAATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * ** * * ** * *
36225 C-TTAAAAGATGTGATA-GGAAATATTAAGGCCACAACTACAAATCCGGTAC
1 CATGAAAA-TTG-GA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
*
36275 CATGAGAATAT-G-AGAGGAAAGGTTGAGGCCGCAACGG
1 CATGAAAAT-TGGAAG-GGAAAGGTTGAGGCCGCAACGG
36312 TGAGCTTGGT
Statistics
Matches: 917, Mismatches: 294, Indels: 106
0.70 0.22 0.08
Matches are distributed among these distances:
46 1 0.00
47 2 0.00
48 187 0.20
49 485 0.53
50 229 0.25
51 13 0.01
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (49 bp):
CATGAAAATTGGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:35267 original size:196 final size:195
Alignment explanation
Indices: 34951--35641 Score: 640
Period size: 196 Copynumber: 3.5 Consensus size: 195
34941 AATCTGGTAT
* * * * * * * * *
34951 CATGAAATGCGATGAGAAAGGTTGAGGCTATAA-TAGTGAACTCGCTATCATGAAAATTGGAAGG
1 CATGAAATGCGATGAGAAAGGTTGAGGCCACAACGA-CGAACCCGGTACCATGAAGATTGAAAGG
* *
35015 GAAAGGTTGAGGCCGCAATGACGAACCCGGTACCATGAAGATATAAAGGAAAAGGTTGAGGCTGC
65 GAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCATGAAGATATAAAGGGAAAGGTTGAGGCTGC
* * * * **
35080 AACGGGGAACCCGGTACCTTAAAAGATATGATGGGAAAAATTAAGGCTGCAACGGTGAATTCGAT
130 AACGGCGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTAAGGCCGCAACGACGAA-TCGAT
35145 AC
194 AC
** * *
35147 CATGAAATGCGATGAGAAAGGTTGAGGCCGTAACGACGAACCCGATACCATGAAGATTTAAAGGG
1 CATGAAATGCGATGAGAAAGGTTGAGGCCACAACGACGAACCCGGTACCATGAAGATTGAAAGGG
*
35212 AAAGGTTGAGGCTGCAATGGCGAACCCGGTACCATGAAGATATAAAGGGAAAGGTTGAGG-TCGC
66 AAAGGTTGAGGCCGCAATGGCGAACCCGGTACCATGAAGATATAAAGGGAAAGGTTGAGGCT-GC
* * * * *
35276 AACGGCGAACCCGGTACCAT-GAAGATATGAGGGGAAAGGTTAAGGCCGCAATGACGAACCCGAT
130 AACGGCGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTAAGGCCGCAACGACGAA-TCGAT
35340 AC
194 AC
* *** * * *** ** * * * *
35342 CTTAGAAGATTTTATGGGAAAGATTGAGGTTGCAACGGTGAATCTGGTACCATGAA-ATGCGATA
1 CAT-GAA-ATGCGATGAGAAAGGTTGAGGCCACAACGACGAACCCGGTACCATGAAGAT-TGAAA
* * * * * * * * *
35406 -GGAAAGGTTGAGGCCGCAAAGGTGAATCCGATACCATAAAGATATGAAGGGAAACGTTGAGACC
63 GGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCATGAAGATATAAAGGGAAAGGTTGAGGCT
* * ** *
35470 GCAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGATTAAGGCCATAACGACGAATCTA
128 GCAACGGCGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTAAGGCCGCAACGACGAATCGA
35535 GTAC
193 -TAC
* * * * * *
35539 CATAAAATGCGAT-ATAAAAGGTTAAGGTCACAACGACAAACCCGGTACCATGAAGATGTG-ATG
1 CATGAAATGCGATGA-GAAAGGTTGAGGCCACAACGACGAACCCGGTACCATGAAGAT-TGAAAG
* * * * *
35602 AGAAAGGTTGAGGCCGCAACGGTGAATCCAGTACCATGAA
64 GGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCATGAA
35642 ATAAGATGGG
Statistics
Matches: 398, Mismatches: 86, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
195 72 0.18
196 251 0.63
197 75 0.19
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (195 bp):
CATGAAATGCGATGAGAAAGGTTGAGGCCACAACGACGAACCCGGTACCATGAAGATTGAAAGGG
AAAGGTTGAGGCCGCAATGGCGAACCCGGTACCATGAAGATATAAAGGGAAAGGTTGAGGCTGCA
ACGGCGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTAAGGCCGCAACGACGAATCGATAC
Found at i:35396 original size:245 final size:245
Alignment explanation
Indices: 35011--36112 Score: 812
Period size: 245 Copynumber: 4.5 Consensus size: 245
35001 TGAAAATTGG
* * *
35011 AAGGGAAAGGTTGAGGCCGCAATGACGAACCCGGTACCATGAAGATATAAAGGAAAAGGTTGAGG
1 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATGAAGGAAAAGGTTAAGG
* ** * * *
35076 CTGCAACGGGGAACCCGGTACCTTAAAAGATATGATGGGAAAAATTAAGGCTGCAACGGTGAAT-
66 CCGCAACGACGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCTGCAACGGTGAATC
* * *
35140 TCGATACCATGAAATGCGATGAGAAAGGTTGAGGCCGTAACGACGAACCCGATACCATGAAGATT
131 T-GGTACCATGAAATGCGATGAGAAAGGTTGAGGCCGTAAAGATGAACCCGATACCATGAAGATT
* * *
35205 TAAAGGGAAAGGTTGAGGCTGCAATGGCGAACCCGGTACCATGAAGATATA
195 TGAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGTACCATGAAGATATA
* * * *
35256 AAGGGAAAGGTTGAGGTCGCAACGGCGAACCCGGTACCATGAAGATATGAGGGGAAAGGTTAAGG
1 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATGAAGGAAAAGGTTAAGG
* * * * *
35321 CCGCAATGACGAACCCGATACCTTAGAAGATTTTATGGGAAAGATTGAGGTTGCAACGGTGAATC
66 CCGCAACGACGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCTGCAACGGTGAATC
* * * * *
35386 TGGTACCATGAAATGCGAT-AGGAAAGGTTGAGGCCGCAAAGGTGAATCCGATACCATAAAGATA
131 TGGTACCATGAAATGCGATGA-GAAAGGTTGAGGCCGTAAAGATGAACCCGATACCATGAAGATT
* * * * * *
35450 TGAAGGGAAACGTTGAGACCGCAACGGCGAACTCGGTACCTTAGAAGATGTG
195 TGAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGTACCAT-GAAGATATA
* * * ** * ** * ** *
35502 ATGGGAAAGATTAAGGCCATAACGACGAATCTAGTACCAT-AAAATGCGATA-TAAAAGGTTAAG
1 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATGA-AGGAAAAGGTTAAG
* * * * * * * *
35565 GTCACAACGACAAACCCGGTACCAT-GAAGATGTGATGAGAAAGGTTGAGGCCGCAACGGTGAAT
65 GCCGCAACGACGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCTGCAACGGTGAAT
** ** * * * * * *
35629 CCAGTACCATGAAATAAGATGGGAAATGTTAAGGTCGTAATGATGAACCCGATACCATGAAAATT
130 CTGGTACCATGAAATGCGATGAGAAAGGTTGAGGCCGTAAAGATGAACCCGATACCATGAAGATT
* * * * *
35694 TGAAGGCAAAGGTTGAGCCTACAACGGTGAACCCAGTACCATGAAGATATA
195 TGAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGTACCATGAAGATATA
** * * ** * * * * * * *
35745 AAGAAAAAGGTTGAGCCCGTAACGGTGAACCCGCTACCTTAAAAGATGTG-ATGAGAAAGATTGA
1 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCAT-GAAGATATGAAGGA-AAAGGTTAA
* ** * * * * ** ** * * *
35809 GGCCACAACGGTGAATCCGATATCAT-GAA-ATGCGATGAAAAATG-TTGACGCTGCAACGATAA
64 GGCCGCAACGACGAACCCGGTACCTTAGAAGATATGATGGGAAA-GATTGAGGCTGCAACGGTGA
* * * * ** * * *
35871 ACCTGATACCATAAAGATGTGAT-ATGAAAGGTTGAGATCGTAACGGTGAACCC-AGTACCATAA
128 ATCTGGTACCATGAA-ATGCGATGA-GAAAGGTTGAGGCCGTAAAGATGAACCCGA-TACCATGA
* * * * * * **
35934 AGATTTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACTCGATACCTTAGAAGATACG
190 AGATTTGAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGTACCAT-GAAGATATA
* * * * * * * *
35991 ATGGG-AAGGATTAAAGCCGTAACGGCGAATCTGGTACCATGAAGATATGAAAGG-AAAGGTTGA
1 AAGGGAAAGG-TTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATG-AAGGAAAAGGTTAA
* * ** * * *
36054 GTCCGCAACGACAAACCAAGTACC--ACGAAGATTTGAAGGGAAAGGTTGAGGCTGCAACG
64 GGCCGCAACGACGAACCCGGTACCTTA-GAAGATATGATGGGAAAGATTGAGGCTGCAACG
36113 ACGAACCCGG
Statistics
Matches: 657, Mismatches: 179, Indels: 41
0.75 0.20 0.05
Matches are distributed among these distances:
243 34 0.05
244 153 0.23
245 378 0.58
246 90 0.14
247 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (245 bp):
AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATATGAAGGAAAAGGTTAAGG
CCGCAACGACGAACCCGGTACCTTAGAAGATATGATGGGAAAGATTGAGGCTGCAACGGTGAATC
TGGTACCATGAAATGCGATGAGAAAGGTTGAGGCCGTAAAGATGAACCCGATACCATGAAGATTT
GAAGGGAAAGGTTGAGACTGCAACGGCGAACCCGGTACCATGAAGATATA
Found at i:35413 original size:147 final size:145
Alignment explanation
Indices: 34912--36225 Score: 621
Period size: 147 Copynumber: 8.9 Consensus size: 145
34902 CATGAGAACA
* * ** *
34912 TAAATGGAAAGGTTGAGGCCGCAACGGTAAATCTGGTATCATGAAATGCGAT-GAGAAAGGTTGA
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCATGAAATGCGATAG-GAAAGGTTGA
** ** * * * * *
34976 GGCTATAATAGTGAACTCGCTATCATGAAAAT-TGGAAGGGAAAGGTTGAGGCCGCAATGACGAA
65 GGC-GCAACGGTGAACCCGATACCATGAAGATAT-GAAGGGAAAGGTTGAGGCCGCAACGACGAA
* *
35040 CCCGGTACCATGAAGATA
128 CCCGATACCATGAAGATT
* * * * * * ** * ** *
35058 TAAAGGAAAAGGTTGAGGCTGCAACGGGGAACCCGGTACCTTAAAAGATATGATGGGAAAAATTA
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCAT-GAA-ATGCGATAGGAAAGGTTG
** ** * * *
35123 AGGCTGCAACGGTGAATTCGATACCATGAA-ATGCGATGAGAAAGGTTGAGGCCGTAACGACGAA
64 AGGC-GCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAA
35187 CCCGATACCATGAAGATT
128 CCCGATACCATGAAGATT
* * * ** *
35205 TAAAGGGAAAGGTTGAGGCTGCAATGGCGAACCCGGTACCATGAAGAT-ATAAAGGGAAAGGTTG
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCATGAA-ATGCGATA-GGAAAGGTTG
* * * * *
35269 AGGTCGCAACGGCGAACCCGGTACCATGAAGATATGAGGGGAAAGGTTAAGGCCGCAATGACGAA
64 AGG-CGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAA
*
35334 CCCGATACCTTAGAAGATT
128 CCCGATACCAT-GAAGATT
* * * * *
35353 TTATGGGAAAGATTGAGGTTGCAACGGTGAATCTGGTACCATGAAATGCGATAGGAAAGGTTGAG
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCATGAAATGCGATAGGAAAGGTTGAG
* * * * * * *
35418 GCCGCAAAGGTGAATCCGATACCATAAAGATATGAAGGGAAACGTTGAGACCGCAACGGCGAACT
66 G-CGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACC
* * *
35483 CGGTACCTTAGAAGATG
130 CGATACCAT-GAAGATT
* * * * *** * * * ** *
35500 TGATGGGAAAGATTAAGGCCATAACGACGAATCTAGTACCATAAAATGCGATATAAAAGGTTAAG
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCATGAAATGCGATAGGAAAGGTTGAG
* *** * * * * ** *
35565 GTCACAACGACAAACCCGGTACCATGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGGTGAATC
66 G-CGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACC
35630 C-AGTACCATGAA-A--
130 CGA-TACCATGAAGATT
* * * * ** * * * **
35643 TAAGATGGGAAATGTTAAGG-TCGTAATGATGAACCCGATACCATGAAAATTTGA-AGGCAAAGG
1 TAA-A-GGGAAAGGTTGAGGCT-GCAACGGCGAATCTGGTACCATG-AAATGCGATAGG-AAAGG
* * * ** * * *
35706 TTGAGCCTACAACGGTGAACCC-AGTACCATGAAGATATAAAGAAAAAGGTTGAGCCCGTAACGG
61 TTGAGGC-GCAACGGTGAACCCGA-TACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGA
* * * * *
35770 TGAACCCGCTACCTTAAAAGATG
124 CGAACCCGATACCAT-GAAGATT
* * * * ** * * * * * *
35793 TGATGAGAAAGATTGAGGCCACAACGGTGAATCCGATATCATGAAATGCGAT-GAAAAATGTTGA
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCATGAAATGCGATAG-GAAAGGTTGA
* * * * * * * ** * **
35857 CGCTGCAACGATAAACCTGATACCATAAAGATGTGATA-TGAAAGGTTGAGATCGTAACGGTGAA
65 GGC-GCAACGGTGAACCCGATACCATGAAGATATGA-AGGGAAAGGTTGAGGCCGCAACGACGAA
*
35921 CCC-AGTACCATAAAGATT
128 CCCGA-TACCATGAAGATT
* * * * * * *
35939 TGAAGGGAAAGGTTGAGGCCGCAACAGCGAA-CTCGATACCTTAGAAGATACGAT-GGGAAGGAT
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCT-GGTACCAT-GAA-ATGCGATAGGAAAGG-T
* * * * * * * * *
36002 TAAAGCCGTAACGGCGAATCTGGTACCATGAAGATATGAAAGGAAAGGTTGAGTCCGCAACGAC-
62 T-GAGGCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACG
* * *
36066 AAACCAAGTACCACGAAGATT
126 AACCCGA-TACCATGAAGATT
* * * * * * ** *
36087 TGAAGGGAAAGGTTGAGGCTGCAACGACGAACCCGGTACC-TTAAAAGATATGATGGAAAAGATT
1 TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCATGAAATGCGAT-A-GG-AAAGGTT
* ** ** * * * **
36151 GAGGCCACAACGACGAATTCGATACCATGAAGATACGAAGGGAAAGGTTGAGGTCGCAATGGTGA
63 GAGG-CGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGA
36216 ACCCGATACC
127 ACCCGATACC
36226 TTAAAAGATG
Statistics
Matches: 887, Mismatches: 239, Indels: 82
0.73 0.20 0.07
Matches are distributed among these distances:
143 2 0.00
145 35 0.04
146 182 0.21
147 395 0.45
148 259 0.29
149 12 0.01
150 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.19
Consensus pattern (145 bp):
TAAAGGGAAAGGTTGAGGCTGCAACGGCGAATCTGGTACCATGAAATGCGATAGGAAAGGTTGAG
GCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCC
GATACCATGAAGATT
Found at i:36162 original size:50 final size:49
Alignment explanation
Indices: 36092--36260 Score: 133
Period size: 50 Copynumber: 3.4 Consensus size: 49
36082 AGATTTGAAG
* ** *
36092 GGAAAGGTTGAGGCTGCAACGACGAACCCGGTACCTTAAAAGATATGAT
1 GGAAAGATTGAGGCCACAACGACGAACCCGATACCTTAAAAGATATGAT
** * * * *
36141 GGAAAAGATTGAGGCCACAACGACGAATTCGATACCAT-GAAGATACGAAG
1 GG-AAAGATTGAGGCCACAACGACGAACCCGATACCTTAAAAGATATG-AT
* * * * ** *
36191 GGAAAGGTTGAGGTCGCAATGGTGAACCCGATACCTTAAAAGATGTGAT
1 GGAAAGATTGAGGCCACAACGACGAACCCGATACCTTAAAAGATATGAT
* *
36240 AGGAAATATTAAGGCCACAAC
1 -GGAAAGATTGAGGCCACAAC
36261 TACAAATCCG
Statistics
Matches: 87, Mismatches: 29, Indels: 7
0.71 0.24 0.06
Matches are distributed among these distances:
49 36 0.41
50 51 0.59
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (49 bp):
GGAAAGATTGAGGCCACAACGACGAACCCGATACCTTAAAAGATATGAT
Found at i:36209 original size:148 final size:148
Alignment explanation
Indices: 35873--36209 Score: 374
Period size: 148 Copynumber: 2.3 Consensus size: 148
35863 AACGATAAAC
* ** * * * * *** * *
35873 CTGATACCATAAAGATGTGATATGAAAGGTTGAGATCGTAACGGTGAACCCAGTACCATAAAGAT
1 CTGATACCATGAAGATACGAAAGGAAAGGTTGAGGTCGCAACGACAAACCAAGTACCACAAAGAT
* * * *
35938 TTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACTCGATACCTTAGAAGATACGATGGGAAGGATT
66 TTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAAAAGATACGATGGAAAAGATT
** *
36003 AAAGCCGTAACGGCGAAT
131 AAAGCCACAACGACGAAT
* * *
36021 CTGGTACCATGAAGATATGAAAGGAAAGGTTGA-GTCCGCAACGACAAACCAAGTACCACGAAGA
1 CTGATACCATGAAGATACGAAAGGAAAGGTTGAGGT-CGCAACGACAAACCAAGTACCACAAAGA
* * *
36085 TTTGAAGGGAAAGGTTGAGGCTGCAAC-GACGAACCCGGTACCTTAAAAGATATGATGGAAAAGA
65 TTTGAAGGGAAAGGTTGAGGCCGCAACAG-CGAACCCGATACCTTAAAAGATACGATGGAAAAGA
* *
36149 TTGAGGCCACAACGACGAAT
129 TTAAAGCCACAACGACGAAT
*
36169 -TCGATACCATGAAGATACGAAGGGAAAGGTTGAGGTCGCAA
1 CT-GATACCATGAAGATACGAAAGGAAAGGTTGAGGTCGCAA
36210 TGGTGAACCC
Statistics
Matches: 157, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
147 3 0.02
148 152 0.97
149 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (148 bp):
CTGATACCATGAAGATACGAAAGGAAAGGTTGAGGTCGCAACGACAAACCAAGTACCACAAAGAT
TTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAAAAGATACGATGGAAAAGATT
AAAGCCACAACGACGAAT
Found at i:36325 original size:99 final size:99
Alignment explanation
Indices: 36059--36330 Score: 291
Period size: 99 Copynumber: 2.7 Consensus size: 99
36049 GTTGAGTCCG
* * ** * **
36059 CAACGACAAA-CCAAGTACCACGAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGACGAACCCGG
1 CAACGACAAATCCGA-TACCATGAAGATACGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGG
*
36123 TACCTTAAAAGATATGATGGAAAAGATTGAGGCCA
65 TACCTTAAAAGATATGATGGAAAAGATTAAGGCCA
* * * * *
36158 CAACGACGAATTCGATACCATGAAGATACGAAGGGAAAGGTTGAGGTCGCAATGGTGAACCCGAT
1 CAACGACAAATCCGATACCATGAAGATACGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGT
* *
36223 ACCTTAAAAGATGTGATAGG-AAATATTAAGGCCA
66 ACCTTAAAAGATATGAT-GGAAAAGATTAAGGCCA
* * * * **
36257 CAACTACAAATCCGGTACCATG-AGAATATG-AGAGGAAAGGTTGAGGCCGCAACGGTGAGCTTG
1 CAACGACAAATCCGATACCATGAAG-ATACGAAG-GGAAAGGTTGAGGCCGCAACGGTGAACCCG
36320 GTACCTTAAAA
64 GTACCTTAAAA
36331 ACATAACAAG
Statistics
Matches: 143, Mismatches: 26, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
98 4 0.03
99 135 0.94
100 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (99 bp):
CAACGACAAATCCGATACCATGAAGATACGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGT
ACCTTAAAAGATATGATGGAAAAGATTAAGGCCA
Found at i:36991 original size:209 final size:207
Alignment explanation
Indices: 36461--37721 Score: 1556
Period size: 209 Copynumber: 6.0 Consensus size: 207
36451 AGCTTCGACA
* *
36461 TCAAACCCCCATCTTCTTGATGAGTTATAGAGAAGTGGGTCGAAGCAATAAAGTGGTCATCTTCC
1 TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGT-GGTCGAAGCAATAAAGTGGTCATCTTCC
* * * * * * * * *
36526 TGACGAGATGTAAAGAAGTGAACTAAATTCATCTTCCTAATGAGATGCAGAGAAATGAATCAAAA
65 TGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* * * * *
36591 TAATGAAGC-AGTTATCTTCCTAATGAGATAAAGAGAAGTAGACCAATTTAATGAAGCGGAGCTC
130 CAATGAAGCGA-TCATCTTCCTGATGAGATAAAGAGAAGTAGA-CAATTCAATGAAGCGAAGCTC
*
36655 AATGTGAGTAAAAACT
193 AATGTGAGT-GAAACT
*** * * * *
36671 TCAAACTTTCATCATCCTGATGAGATACAGAGAAGTGGTTCGAAGCAATAAAATGATCATCTTCC
1 TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGG-TCGAAGCAATAAAGTGGTCATCTTCC
* * * * *
36736 TAACGAGATGCAGAGAAGTGAACTAAATCCGTCTTCCTAATGAGATATAGAGAAGTGTATCAAAA
65 TGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* * * * *
36801 CAATAAAGTGGTCATCTTCCTGATGAGATATAGAGAAGTAGATCAATTCGATGAAGCGAAGCTCA
130 CAATGAAGCGATCATCTTCCTGATGAGATAAAGAGAAGTAGA-CAATTCAATGAAGCGAAGCTCA
36866 ATGTGAGTGAAACT
194 ATGTGAGTGAAACT
* * * *
36880 TTAAACCCCTATCTTCTTAATGAGATACAAAGAAGTAGGTCGAAGCAATAAAGTGGTCATCTTCC
1 TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGT-GGTCGAAGCAATAAAGTGGTCATCTTCC
* * * *
36945 AGACGAGATGTAGAGAAGTGAACCAAATACGTCTTTCTGATGAGATACAGAGAAGTGGATCAAAA
65 TGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* * * *
37010 CAATGAAGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACTAATTCAATAAAACG-AGCTCA
130 CAATGAAGCGATCATCTTCCTGATGAGATAAAGAGAAGTAGAC-AATTCAATGAAGCGAAGCTCA
*
37074 ATGTGAGTAAAAACT
194 ATGTGAGT-GAAACT
37089 TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTCATCTTCC
1 TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGT-GGTCGAAGCAATAAAGTGGTCATCTTCC
* * * *
37154 TGATGAGATGCAGAGAAGTGAACCAAATCCATCTTTCTGATGAGATACAGAGAAGTGAATCAAAA
65 TGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* * * *
37219 TAATGAAGCGGTCATCTTCTTGATAAGATATAA-AGAAGTAGATCAATTCAATGAAGCGAAGCTC
130 CAATGAAGCGATCATCTTCCTGATGAGATA-AAGAGAAGTAGA-CAATTCAATGAAGCGAAGCTC
37283 AATGTGAGTGAAACT
193 AATGTGAGTGAAACT
* * * * * * * *
37298 TCAAGCCCCTATCTTGTTGATGAGATACAAAGAAGTGAGTCAAAGCAATAATGTGATAATCTTCC
1 TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTG-GTCGAAGCAATAAAGTGGTCATCTTCC
** * * *
37363 TGACGAGACACAGAGAAGTAAATCAAATCCGTCTTCCTGATGAGATATAGAGAAGTGGATCAAAA
65 TGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* * * *
37428 CAATGAAGCGATCATCTTCTTGATGAGATACAGAGAAGTAGACTAATTCAATGAAACGGAGCTCA
130 CAATGAAGCGATCATCTTCCTGATGAGATAAAGAGAAGTAGAC-AATTCAATGAAGCGAAGCTCA
37493 ATGTGAGTGAAAACT
194 ATGTGAGTG-AAACT
* * *
37508 TCAAACCCCCATCTTCTTGATAAGATACAGAGAAGTGGATCGAAGTAATAAAGTGGTCATCTTCT
1 TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGG-TCGAAGCAATAAAGTGGTCATCTTCC
* * * **
37573 TGACGAGATGTAGAGAAGTAAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATCTGAA
65 TGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* * * * * *
37638 TAATGAAGCGATCATCTTCCTGATAAGATAAAGAGAAGTAGGCCAATTTAATCAAGCGAAGCTCC
130 CAATGAAGCGATCATCTTCCTGATGAGATAAAGAGAAGTA-GACAATTCAATGAAGCGAAGCTCA
* *
37703 ATGTGAGTAAAAGT
194 ATGTGAGTGAAACT
37717 TCAAA
1 TCAAA
37722 TTTCCATCTT
Statistics
Matches: 904, Mismatches: 133, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
208 18 0.02
209 522 0.58
210 362 0.40
211 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (207 bp):
TCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGGTCGAAGCAATAAAGTGGTCATCTTCCT
GACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAAC
AATGAAGCGATCATCTTCCTGATGAGATAAAGAGAAGTAGACAATTCAATGAAGCGAAGCTCAAT
GTGAGTGAAACT
Found at i:37196 original size:37 final size:37
Alignment explanation
Indices: 37146--37217 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
37136 ATAAAGTGGT
*
37146 CATCTTCCTGATGAGATGCAGAGAAGTGAACCAAATC
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATC
* *
37183 CATCTTTCTGATGAGATACAGAGAAGTGAATCAAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAA
37218 ATAATGAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (37 bp):
CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATC
Found at i:37250 original size:418 final size:418
Alignment explanation
Indices: 36461--37721 Score: 1741
Period size: 418 Copynumber: 3.0 Consensus size: 418
36451 AGCTTCGACA
* * * *
36461 TCAAACCCCCATCTTCTTGATGAGTTATAGAGAAGTGGGTCGAAGCAATAAAGTGGTCATCTTCC
1 TCAAACCCCTATCTTCTTGATGAGATACAAAGAAGT-GGTCGAAGCAATAAAGTGGTCATCTTCC
* * * * * * * *
36526 TGACGAGATGTAAAGAAGTGAACTAAATTCATCTTCCTAATGAGATGCAGAGAAATGAATCAAAA
65 TGACGAGATGTAGAGAAGTGAACCAAATACGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* * * * * * * *
36591 TAATGAAGCAGTTATCTTCCTAATGAGATAAAGAGAAGTAGACCAATTTAATGAAGCGGAGCTCA
130 CAATGAAGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACTAATTCAATGAAACGGAGCTCA
*** * * *
36656 ATGTGAGTAAAAACTTCAAACTTTCATCATCCTGATGAGATACAGAGAAGTGGTTCGAAGCAATA
195 ATGTGAGTAAAAACTTCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAATA
* * * * * *
36721 AAATGATCATCTTCCTAACGAGATGCAGAGAAGTGAACTAAATCCGTCTTCCTAATGAGATATAG
260 AAGTGGTCATCTTCCTGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAG
* * * * * *
36786 AGAAGTGTATCAAAACAATAAAGTGGTCATCTTCCTGATGAGATATAGAGAAGTAGATCAATTCG
325 AGAAGTGAATCAAAATAATGAAGCGGTCATCTTCCTGATAAGATATAGAGAAGTAGATCAATTCA
36851 ATGAAGCGAAGCTCAATGTGAGTGAAACT
390 ATGAAGCGAAGCTCAATGTGAGTGAAACT
* *
36880 TTAAACCCCTATCTTCTTAATGAGATACAAAGAAGTAGGTCGAAGCAATAAAGTGGTCATCTTCC
1 TCAAACCCCTATCTTCTTGATGAGATACAAAGAAGT-GGTCGAAGCAATAAAGTGGTCATCTTCC
* *
36945 AGACGAGATGTAGAGAAGTGAACCAAATACGTCTTTCTGATGAGATACAGAGAAGTGGATCAAAA
65 TGACGAGATGTAGAGAAGTGAACCAAATACGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
*
37010 CAATGAAGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACTAATTCAATAAAAC-GAGCTCA
130 CAATGAAGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACTAATTCAATGAAACGGAGCTCA
*
37074 ATGTGAGTAAAAACTTCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGGGTCGAAGCAATA
195 ATGTGAGTAAAAACTTCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAATA
* * *
37139 AAGTGGTCATCTTCCTGATGAGATGCAGAGAAGTGAACCAAATCCATCTTTCTGATGAGATACAG
260 AAGTGGTCATCTTCCTGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAG
* *
37204 AGAAGTGAATCAAAATAATGAAGCGGTCATCTTCTTGATAAGATATAAAGAAGTAGATCAATTCA
325 AGAAGTGAATCAAAATAATGAAGCGGTCATCTTCCTGATAAGATATAGAGAAGTAGATCAATTCA
37269 ATGAAGCGAAGCTCAATGTGAGTGAAACT
390 ATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * * *
37298 TCAAGCCCCTATCTTGTTGATGAGATACAAAGAAGTGAGTCAAAGCAATAATGTGATAATCTTCC
1 TCAAACCCCTATCTTCTTGATGAGATACAAAGAAGTG-GTCGAAGCAATAAAGTGGTCATCTTCC
*** * * * *
37363 TGACGAGACACAGAGAAGTAAATCAAATCCGTCTTCCTGATGAGATATAGAGAAGTGGATCAAAA
65 TGACGAGATGTAGAGAAGTGAACCAAATACGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
* *
37428 CAATGAAGCGATCATCTTCTTGATGAGATACAGAGAAGTAGACTAATTCAATGAAACGGAGCTCA
130 CAATGAAGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACTAATTCAATGAAACGGAGCTCA
* * *
37493 ATGTGAGTGAAAACTTCAAACCCCCATCTTCTTGATAAGATACAGAGAAGTGGATCGAAGTAATA
195 ATGTGAGTAAAAACTTCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAATA
* * * *
37558 AAGTGGTCATCTTCTTGACGAGATGTAGAGAAGTAAACCAAATTCGTCTTCCTGATGAGATACAG
260 AAGTGGTCATCTTCCTGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAG
* ** * * ** *
37623 AGAAGTGGATCTGAATAATGAAGCGATCATCTTCCTGATAAGATAAAGAGAAGTAGGCCAATTTA
325 AGAAGTGAATCAAAATAATGAAGCGGTCATCTTCCTGATAAGATATAGAGAAGTAGATCAATTCA
* * * *
37688 ATCAAGCGAAGCTCCATGTGAGTAAAAGT
390 ATGAAGCGAAGCTCAATGTGAGTGAAACT
37717 TCAAA
1 TCAAA
37722 TTTCCATCTT
Statistics
Matches: 745, Mismatches: 95, Indels: 4
0.88 0.11 0.00
Matches are distributed among these distances:
417 1 0.00
418 373 0.50
419 371 0.50
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (418 bp):
TCAAACCCCTATCTTCTTGATGAGATACAAAGAAGTGGTCGAAGCAATAAAGTGGTCATCTTCCT
GACGAGATGTAGAGAAGTGAACCAAATACGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAAC
AATGAAGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACTAATTCAATGAAACGGAGCTCAA
TGTGAGTAAAAACTTCAAACCCCCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAATAA
AGTGGTCATCTTCCTGACGAGATGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGA
GAAGTGAATCAAAATAATGAAGCGGTCATCTTCCTGATAAGATATAGAGAAGTAGATCAATTCAA
TGAAGCGAAGCTCAATGTGAGTGAAACT
Found at i:37256 original size:85 final size:85
Alignment explanation
Indices: 37097--37257 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 85
37087 CTTCAAACCC
** * * * *
37097 CCATCTTCTTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTCATCTTCCTGATGAGA
1 CCATCTTCTTGATGAGATACAGAGAAGTGAATCAAAACAATAAAGCGGTCATCTTCCTGATAAGA
* *
37162 TGCAGAGAAGTGAACCAAAT
66 TACAAAGAAGTGAACCAAAT
* * *
37182 CCATCTT-TCTGATGAGATACAGAGAAGTGAATCAAAATAATGAAGCGGTCATCTTCTTGATAAG
1 CCATCTTCT-TGATGAGATACAGAGAAGTGAATCAAAACAATAAAGCGGTCATCTTCCTGATAAG
*
37246 ATATAAAGAAGT
65 ATACAAAGAAGT
37258 AGATCAATTC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
84 1 0.02
85 62 0.98
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (85 bp):
CCATCTTCTTGATGAGATACAGAGAAGTGAATCAAAACAATAAAGCGGTCATCTTCCTGATAAGA
TACAAAGAAGTGAACCAAAT
Found at i:37673 original size:85 final size:85
Alignment explanation
Indices: 37519--37677 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
37509 CAAACCCCCA
* * * * * **
37519 TCTTCTTGATAAGATACAGAGAAGTGGATCGAAGTAATAAAGTGGTCATCTTCTTGACGAGATGT
1 TCTTCCTGATAAGATACAGAGAAGTGGATCGAAGTAATAAAGCGATCATCTTCCTGACAAGATAA
37584 AGAGAAGTAAACCAAATTCG
66 AGAGAAGTAAACCAAATTCG
* * *
37604 TCTTCCTGATGAGATACAGAGAAGTGGATCTGAA-TAATGAAGCGATCATCTTCCTGATAAGATA
1 TCTTCCTGATAAGATACAGAGAAGTGGATC-GAAGTAATAAAGCGATCATCTTCCTGACAAGATA
37668 AAGAGAAGTA
65 AAGAGAAGTA
37678 GGCCAATTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
85 60 0.95
86 3 0.05
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.26
Consensus pattern (85 bp):
TCTTCCTGATAAGATACAGAGAAGTGGATCGAAGTAATAAAGCGATCATCTTCCTGACAAGATAA
AGAGAAGTAAACCAAATTCG
Found at i:37752 original size:32 final size:32
Alignment explanation
Indices: 37716--37779 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
37706 TGAGTAAAAG
37716 TTCAAATTTCCATCTTCCCAAAATGTAAAGAA
1 TTCAAATTTCCATCTTCCCAAAATGTAAAGAA
37748 TTCAAATTTCCATCTTCCCAAAATGTAAAGAA
1 TTCAAATTTCCATCTTCCCAAAATGTAAAGAA
37780 GCAAACACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (32 bp):
TTCAAATTTCCATCTTCCCAAAATGTAAAGAA
Found at i:38587 original size:25 final size:25
Alignment explanation
Indices: 38540--38588 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
38530 TCTGAAGGTA
* * *
38540 TATTCATTTTTTATATTTTTATATT
1 TATTCATTTTATATATATATATATT
*
38565 TATTCCTTTTATATATATATATAT
1 TATTCATTTTATATATATATATAT
38589 ATATATATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTCATTTTATATATATATATATT
Found at i:42054 original size:21 final size:21
Alignment explanation
Indices: 42029--42068 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42019 ACAAAAATCA
42029 ATGATGGAATGAAAT-TGAAAT
1 ATGATGG-ATGAAATGTGAAAT
*
42050 ATGATTGATGAAATGTGAA
1 ATGATGGATGAAATGTGAA
42069 TTTGCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (21 bp):
ATGATGGATGAAATGTGAAAT
Done.