Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009898.1 Kokia drynarioides strain JFW-HI SEQ_124636, 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: 107345
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:33 original size:4 final size:4
Alignment explanation
Indices: 13--98 Score: 77
Period size: 4 Copynumber: 21.2 Consensus size: 4
3 AACACATTAC
* * * *
13 CTTT CTTT CCTT C-TT CTTT CTTT CCTCT CCTT C-TT CTTT CTTT CCTCT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT -CTTT
* *
61 CCTT CTTC CTTT CTTT CTTT CTTT ACTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT C
99 CCGTTTATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
3 6 0.09
4 51 0.76
5 10 0.15
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (4 bp):
CTTT
Found at i:74 original size:25 final size:20
Alignment explanation
Indices: 20--99 Score: 108
Period size: 20 Copynumber: 3.9 Consensus size: 20
10 TACCTTTCTT
20 TCCTTCTTCTTTCTTTCCTC
1 TCCTTCTTCTTTCTTTCCTC
40 TCCTTCTTCTTTCTTTCCTC
1 TCCTTCTTCTTTCTTTCCTC
*
60 TCCTTCTTCCTTTCTTT-CTT
1 TCCTTCTT-CTTTCTTTCCTC
*
80 TCTTTACTTTCTTTCTTTCC
1 TCCTT-C-TTCTTTCTTTCC
100 CGTTTATTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
20 34 0.63
21 17 0.31
22 3 0.06
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.62
Consensus pattern (20 bp):
TCCTTCTTCTTTCTTTCCTC
Found at i:89 original size:17 final size:16
Alignment explanation
Indices: 13--98 Score: 77
Period size: 17 Copynumber: 5.3 Consensus size: 16
3 AACACATTAC
*
13 CTTTCTTTCCTTC-TT
1 CTTTCTTTCTTTCTTT
* *
28 CTTTCTTTCCTCTCCTT
1 CTTTCTTT-CTTTCTTT
*
45 C-TTCTTTCTTTCCTCT
1 CTTTCTTTCTTT-CTTT
* *
61 CCTTCTTCCTTTCTTT
1 CTTTCTTTCTTTCTTT
77 CTTTCTTTACTTTCTTT
1 CTTTCTTT-CTTTCTTT
94 CTTTC
1 CTTTC
99 CCGTTTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
15 11 0.19
16 21 0.37
17 25 0.44
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTTCTTTCTTTCTTT
Found at i:662 original size:24 final size:25
Alignment explanation
Indices: 635--701 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
625 AATATAAATT
635 TTAAATATTTTTAAGTATTTA-ATA
1 TTAAATATTTTTAAGTATTTATATA
* *
659 TTAATTATTTTTAA--AATTATATA
1 TTAAATATTTTTAAGTATTTATATA
*
682 TAAAATATATTTTAAGTATT
1 TTAAATAT-TTTTAAGTATT
702 AAAATATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 4 0.12
23 9 0.26
24 19 0.56
26 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (25 bp):
TTAAATATTTTTAAGTATTTATATA
Found at i:27631 original size:12 final size:12
Alignment explanation
Indices: 27614--27638 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27604 TAACTTTTAG
27614 TACATTTTCAAA
1 TACATTTTCAAA
27626 TACATTTTCAAA
1 TACATTTTCAAA
27638 T
1 T
27639 TAAAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TACATTTTCAAA
Found at i:30281 original size:18 final size:19
Alignment explanation
Indices: 30258--30294 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30248 TTTAATGATT
30258 ATAATAAT-AAAACATATA
1 ATAATAATAAAAACATATA
*
30276 ATAATAGTAAAAACATATA
1 ATAATAATAAAAACATATA
30295 TGCATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (19 bp):
ATAATAATAAAAACATATA
Found at i:36222 original size:105 final size:105
Alignment explanation
Indices: 36088--36293 Score: 335
Period size: 105 Copynumber: 2.0 Consensus size: 105
36078 TTTACTGAAT
36088 ATAATTTAACATAATTATAATTATTAATTATAA-TGATTTCGTTAAATATT-AAAACATGGAAGT
1 ATAATTTAACATAATTATAATTATTAATTATAACT-ATTTCGTTAAATATTAAAAACATGGAAGT
* *
36151 TAATATCCTTTTAGAAATGATATAATGTTTTAATAAACATCC
65 TAATATCCTTTTAGAAAGGAT-TAATATTTTAATAAACATCC
* *
36193 ATAATTTAACGTAATTATAATTATTAATTATAACTATTTCGTTAGATATTAAAAACATGGAAGTT
1 ATAATTTAACATAATTATAATTATTAATTATAACTATTTCGTTAAATATTAAAAACATGGAAGTT
*
36258 AATATCCTTTTGGAAAGGATTAATATTTTAATAAAC
66 AATATCCTTTTAGAAAGGATTAATATTTTAATAAAC
36294 CTTCCATATA
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
105 61 0.65
106 33 0.35
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (105 bp):
ATAATTTAACATAATTATAATTATTAATTATAACTATTTCGTTAAATATTAAAAACATGGAAGTT
AATATCCTTTTAGAAAGGATTAATATTTTAATAAACATCC
Found at i:36414 original size:102 final size:105
Alignment explanation
Indices: 36294--36495 Score: 311
Period size: 102 Copynumber: 2.0 Consensus size: 105
36284 TTTAATAAAC
* * * *
36294 CTTCCATATATTTCTTTAAAGGAATATTTCCAATTTAATATGAGATA-T-TATATAAAAGGAAAT
1 CTTCCACATATTTATTTAAAGAAATATTTCCAATTTAATATGAGATAGTATATATAAAAGAAAAT
36357 TGAATATT-AAAAACATGAAAATTAATATCCTTTTGTGAA
66 TGAATATTAAAAAACATGAAAATTAATATCCTTTTGTGAA
* *
36396 CTTCCACATATTTATTTAAAGAAATATTTTCATTTTAATATGAGATAGTATATATAAAAGAAAAT
1 CTTCCACATATTTATTTAAAGAAATATTTCCAATTTAATATGAGATAGTATATATAAAAGAAAAT
* *
36461 TTAATATTAAAAAACATGAAAGTTAATATCCTTTT
66 TGAATATTAAAAAACATGAAAATTAATATCCTTTT
36496 AGAAAGGATC
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 42 0.47
103 1 0.01
104 21 0.24
105 25 0.28
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (105 bp):
CTTCCACATATTTATTTAAAGAAATATTTCCAATTTAATATGAGATAGTATATATAAAAGAAAAT
TGAATATTAAAAAACATGAAAATTAATATCCTTTTGTGAA
Found at i:42307 original size:20 final size:19
Alignment explanation
Indices: 42274--42320 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
42264 ATATTTTTTT
42274 TATTTTTTTCTTTTTCTCG
1 TATTTTTTTCTTTTTCTCG
*
42293 TATTTTTCTTTTTTTTCTC-
1 TATTTTT-TTCTTTTTCTCG
42312 TACTTTTTT
1 TA-TTTTTT
42321 ATCACCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (19 bp):
TATTTTTTTCTTTTTCTCG
Found at i:50788 original size:24 final size:24
Alignment explanation
Indices: 50767--50821 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
50757 TGTTAAAAGA
*
50767 TGATTGTAAACACCATGGAAAAAT
1 TGATTCTAAACACCATGGAAAAAT
*
50791 TGATTCTTAACACCATGGAAAAAT
1 TGATTCTAAACACCATGGAAAAAT
50815 TGATTCT
1 TGATTCT
50822 TAATTCTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (24 bp):
TGATTCTAAACACCATGGAAAAAT
Found at i:50822 original size:24 final size:24
Alignment explanation
Indices: 50775--50824 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
50765 GATGATTGTA
50775 AACACCATGGAAAAATTGATTCTT
1 AACACCATGGAAAAATTGATTCTT
50799 AACACCATGGAAAAATTGATTCTT
1 AACACCATGGAAAAATTGATTCTT
50823 AA
1 AA
50825 TTCTTGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (24 bp):
AACACCATGGAAAAATTGATTCTT
Found at i:50849 original size:44 final size:44
Alignment explanation
Indices: 50799--50887 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
50789 ATTGATTCTT
50799 AACACCATGGAAAAATTGATTCTTAATTCTTGAAATAGCATGTA
1 AACACCATGGAAAAATTGATTCTTAATTCTTGAAATAGCATGTA
50843 AACACCATGGAAAAATTGATTCTTAATTCTTGAAATAGCATGTA
1 AACACCATGGAAAAATTGATTCTTAATTCTTGAAATAGCATGTA
50887 A
1 A
50888 GGTTATGGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (44 bp):
AACACCATGGAAAAATTGATTCTTAATTCTTGAAATAGCATGTA
Found at i:53570 original size:23 final size:24
Alignment explanation
Indices: 53516--53574 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
53506 ATTTACACAT
53516 TAATCACATTAACATTTAAGCATA
1 TAATCACATTAACATTTAAGCATA
*
53540 T-ATCACATTAACATTTAGGCATA
1 TAATCACATTAACATTTAAGCATA
53563 TAAT-ACA-TAACA
1 TAATCACATTAACA
53575 CATTTGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 5 0.15
23 25 0.76
24 3 0.09
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (24 bp):
TAATCACATTAACATTTAAGCATA
Found at i:55958 original size:215 final size:215
Alignment explanation
Indices: 55570--59550 Score: 3784
Period size: 215 Copynumber: 18.7 Consensus size: 215
55560 TGGGCTTGGA
*
55570 CATTTTGTAAACAAC-TTTGGTCTTAT-AATTAAAAACTTATTTACATGAGAATTGATTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * * * * * *
55633 TGTTATTGGACGAACTTCCGAACTTATCAAATTTTTACTAGCTCTTTTATAACTTCGGTTCCTGA
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTA
* * * *
55698 AAGTATTCAATACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCTAGAAATCGAAT
131 AAGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCGAACATTCCATGCTCTGGAAATCGCAT
*
55763 CATTTGGTCTAAATAATTTGT
195 CATTTGGTCTAAATAGTTTGT
55784 CATTTTGTAAACAACTTTTGGTCTTAT-AATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * *
55848 TGTTCTTGCACGAACTTTCAAACTTCTCACACTTTTACGAGTTCTTTTATTACTTCGATTCCTTA
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTA
* * * *
55913 AAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTCCAAACATTCCATGCACGGGAAATCGCGA
131 AAGTATTCAAGATGATCCATTCCTTCGAGCAATTTT-CGAACATTCCATG--C------TC-TG-
* * *
55978 GAAATCGCATAATTTGATCTAAATAGTTTGC
185 GAAATCGCATCATTTGGTCTAAATAGTTTGT
* * * * * *
56009 CATTTTGTAAACAACTTTTTGTCATTA--AATCAATAACTTATTTACGTTAGAA---TTTATCT-
1 CATTTTGTAAACAACTTTTGGTC-TTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTC
* * * * * * *
56068 TGGTT-TTGGACGAA------AACTTTTCAAACATTTACGAGTTCTTTTATAACTTTGGTTCCTG
65 TTGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTT
* * * * *** *
56126 AGAGTATTCAAGATGATCCATTCCTTTGA-CAAATTTTATGAATATTCCATGCTCAATAAATCAC
130 AAAGTATTCAAGATGATCCATTCCTTCGAGC-AATTTT-CGAACATTCCATGCTCTGGAAATCGC
* *
56190 ATCA-TTGAGTCTGAATAGTCTGT
193 ATCATTTG-GTCTAAATAGTTTGT
* * *
56213 CATTTTGTAAATAACTTTT-GTCTT-TGAATTAAAAACTTATTTACGTGAGAATTGATTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * *
56276 TGGTCCTTAGC-CTAAC-TTCTTAATTTGTCAAACTTTTACGAGTTCTTTTACAACTTC-AGTT-
66 T-GTTCTT-GCACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGA-TTC
* * * * * * *
56337 CTTATAAGTATTCAAGAAGAACTATTCCTTCAAGCAACCTTTCAAACATTCCATGCTCGGGAAAT
127 CTTA-AAGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCGAACATTCCATGCTCTGGAAAT
* * *
56402 TGCATTATTTGGTCTAAATAGTATGT
190 CGCATCATTTGGTCTAAATAGTTTGT
* *
56428 CATTTTGTAAACAACTTTTCGTCTT-TGAATTAAAAACTTATTTACATGAGAGTTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * * *
56492 TGGTCTTCGGC-CTAA-TTTCTTAACTTGTCAAACTTTTACGAGTTCTTTTACAACTTTGATT-T
66 TGTTCTT--GCACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCC
* * * * *
56554 TTCAAAGTATTCAAGACGATCCA-TCATTTGAGCAAATTTTCAAACTTTCCATGCT-TGGGAAAT
128 TT-AAAGTATTCAAGATGATCCATTCCTTCGAGC-AATTTTCGAACATTCCATGCTCT-GGAAAT
56617 CGCATCATTTGGTCTAAATAGTTTGT
190 CGCATCATTTGGTCTAAATAGTTTGT
* * * ***
56643 TACTTTGTAAACAACTTTTGGT-GTATGAATTAAAAAAACA-TTA-AGTGAGAATTGTTTCTCTC
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACA-TGAGAATTGTTTCTCTC
* * * * * * *
56705 TTGGTACTTGGC-CAAACTTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATTACTTTGGTTTC
65 TT-GTTCTT-GCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCC
* * * * *
56769 TTAAAGTAATCAAGATGGTCCATTCCTTTGAGCAATTTTCCGAACATTCCATGCTCGGGAAATCA
128 TTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTT-CGAACATTCCATGCTCTGGAAATCG
* * *
56834 TATCATTTGGTCTAAATTGTTAGT
192 CATCATTTGGTCTAAATAGTTTGT
* * *
56858 CATTTTGTAAACAACTTTTGGT-TTTTGAATTAAAAACTTATTTACATAATAATTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
** * * * * * *
56922 TGTTCTTGGTCAAACTTCCGAACTTGTCAAAATTTTACTAGTTCTTTTATAACTTTGATTCATTA
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTA
* * * *
56987 AAGTATTCAAGACGATCCATTTCTTCGAGCAAATTTTCGAACATTCCTTACTCTGGAAATCGCAT
131 AAGTATTCAAGATGATCCATTCCTTCGAGC-AATTTTCGAACATTCCATGCTCTGGAAATCGCAT
*
57052 CATTTGGTCTAAATAGTTAGT
195 CATTTGGTCTAAATAGTTTGT
* * * * * * **
57073 CATTTTGCAAACAAATTTTGGACTTAT-AGTTAAAAAATTATTTACGTGAGAATCATTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * * * *
57137 TGGTTCTTCGC-TGAACTTCCGAACTTGCCAAACTTTTATGAGTTCTTTTATAACTTTGCTTCCA
66 T-GTTCTT-GCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCT
* * *
57201 TAAAATATTCAAGACGATCCATTCCTTCGAGCAA--TT-G--C-TT--A------GAAAATCGCA
129 TAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCGAACATTCCATGCTCTGGAAATCGCA
* *
57252 TCATTTGATCTAAATAGTTAGT
194 TCATTTGGTCTAAATAGTTTGT
* *
57274 CATTTTGTAAACAAC-TTTGGTCTTAT-TATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * * * * *
57337 TGTTCTTGGAAGAACTTTCGAACATATCAAACTTTTACTAGCTCTTTTATAACTTC-AGTTACTG
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGA-TTCCTT
* * *
57401 AAAGTATTCAAGATGATCCATTCCTTCTAGCAATTTTCGAACATTCCATGCTTTGAAAATCGCAT
130 AAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCGAACATTCCATGCTCTGGAAATCGCAT
57466 CATTTGGTCTAAATAGTTTGT
195 CATTTGGTCTAAATAGTTTGT
* * *
57487 CATTTTCTAAACAACTTTTGGTCTTAT-AATTAAAAACTTATTTACGTGAGAATTATTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * *
57551 TGTTCTTGCACGAACTTTCGAACTTCTCACACTTTTACGAGTTCTTTTATAACTTTGAATCCTTA
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTA
* ** * * * *
57616 AAGTTTTCAAGACAATTCAGTCCTTCGAGCAATTTTCCAGACATTCCATGCAT-GGGAAATCGCA
131 AAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCGA-ACATTCCATGC-TCTGGAAATCGCA
* * * *
57680 TAATTTGATCAAAATAGTTTGC
194 TCATTTGGTCTAAATAGTTTGT
* * * * **
57702 CATTTTATAAACAACTTTTTGTCTT-TAAATTAATAACTTATTTATGTGAGAA---TTTCTCT-T
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * * *
57762 GGTT-TTGGACGAACTTGCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGGTTCCTGA
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTA
* * * *
57826 GAGTATTCAAGATGATCCATTCCTTTG-GCAAATTTTATGAACATTCCATGCTC-GAGAAATCAC
131 AAGTATTCAAGATGATCCATTCCTTCGAGC-AATTTT-CGAACATTCCATGCTCTG-GAAATCGC
57889 ATCA-TTGAGTCTAAATAGTTTGT
193 ATCATTTG-GTCTAAATAGTTTGT
* * * * *
57912 CATTTTTTAAATAACTTTTGGTCTT-TAAATTAAAAACTTATTTACGTGAGAATTGTTTCTGTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * *
57976 TGGTCCTTG-ACGTAAC-TTCTTAACTTGTCAAACTTTTACGAGTTCTTTTAGAACTTCGATTCT
66 T-GTTCTTGCACG-AACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCC
* * * * * * * * *
58039 TTTAAGT-TTCCAAGATGATCAATTCCTTCAAGCAACCTTCCAAACATTTCGTGCTCGGGAAATC
128 TTAAAGTATT-CAAGATGATCCATTCCTTCGAGCAA-TTTTCGAACATTCCATGCTCTGGAAATC
* *
58103 GCATCATTTGTTCTAAATAGTATGT
191 GCATCATTTGGTCTAAATAGTTTGT
* * * *
58128 CATTTTGTAAAGAACTTTTCGTCTT-TGAATTAAAAGCTTATTTACGTGAGAATTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * * * *
58192 TGGTCCTTGGC-CTAAC-TTCTTAACTTGTCAAACTTTTACGAATTCTTTTACAACTTCGGTT-T
66 T-GTTCTT-GCACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCC
* * * *
58254 TTCTAAGTATTCAAGATGATCCATTCATTTGAGCAATTTTTCGAACTTTCCATGCT-TGGGAAAT
128 TT-AAAGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCGAACATTCCATGCTCT-GGAAAT
58318 CGCATCATTTGGTCTAAATAGTTTGT
190 CGCATCATTTGGTCTAAATAGTTTGT
*
58344 TATTTTGTAAACAACTTTTGGTC-TATGAATTAAAAACTTA-TTA-AGTGAGAATTGTTTCTCTC
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACA-TGAGAATTGTTTCTCTC
* * * *
58406 TTGGTTTTTGGC-CGAACTTTCGAACTTGTCGAACTTTTACGAGTTCTTTTATAACTTTGGTTCC
65 TT-GTTCTT-GCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCC
* * * *
58470 TTAAAGAAATCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCT-TGGGAAATC
128 TTAAAGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCGAACATTCCATGCTCT-GGAAATC
* * *
58534 GTATCATTTGGTCTAAATTGTTAGT
191 GCATCATTTGGTCTAAATAGTTTGT
* * *
58559 CATTTTGTAAACAACTTTTGGT-TTTTGAATTAAAAACTTATTTACATAATAATTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * * *
58623 TGTTCTTGGACAAACTTCCGAACTTGTCAAAATTTTACTG-GTTCTTTTATAACTTC-AGCTCAT
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTAC-GAGTTCTTTTATAACTTCGA-TTCCT
* * * * *
58686 TAAAGTATTCAAGATGATCCATTTCTTCGAGGAAATTTTTGAACATTCCTTACTCTGGAAATCGC
129 TAAAGTATTCAAGATGATCCATTCCTTCGA-GCAATTTTCGAACATTCCATGCTCTGGAAATCGC
* *
58751 ATCATTTGGTTTAAATGGTTTGT
193 ATCATTTGGTCTAAATAGTTTGT
* ** * **
58774 CATTTTGCAAA-AAAATTTGGTCTCAT-AATTAAAAACTTATTTACATGAGAATCATTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTC-
* * * *
58837 TTGTTCTTCGC-CGAACTTTCGATA-TTGTCAAACTTTTATGAGTTCTTTTAGAACTTTGGTTCC
65 TTGTTCTT-GCACGAACTTTCGA-ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCC
* * * *
58900 TTAAAATATTTAAGATGATCCATTCCTTCGTGCAATTTTTTGAACATTCCATG-TCTGTGAAATC
128 TTAAAGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCGAACATTCCATGCTCTG-GAAATC
*
58964 GCATCATTTGGTCTAAATTGTTAT-T
191 GCATCATTTGGTCTAAATAGTT-TGT
* * * *
58989 CATTTTGTAAATAACTTTTGGT-TTTTGAATTAAAAACTTATTTACATAATAATTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * * ** *
59053 TGTTCTTGGACGAACTTCCGAACATGTCAAACTTTTACTACCTCTTTTTTAACTTCGATTCC-T-
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTA
* ** *
59116 --G-----AA-A-G-T--A--CCTTCGAGTAATTTTTTAAACATTCCATGCTCTGTAAATCGCAT
131 AAGTATTCAAGATGATCCATTCCTTCGAGCAA-TTTTCGAACATTCCATGCTCTGGAAATCGCAT
*
59167 TATTTGGTCTAAATAGTTTGT
195 CATTTGGTCTAAATAGTTTGT
* *
59188 CATTTTGTAAACAAATTTTGGTCTTAT-AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * *
59252 TGTTCTTGCCCTAACTTTCGAACTTCTCACACTTTTACGAGTTCTTTTTATAACTTCGATTCCTT
66 TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTC-TTTTATAACTTCGATTCCTT
* * * *
59317 AAAGTATTCAAGGTGATCCAATCCTTCGAGCAATTTTCAAGACATTCCATGCAC-GGAAAATCGC
130 AAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCGA-ACATTCCATGCTCTGG-AAATCGC
* * * *
59381 ATAATTTGGTTTAAATAATTTGC
193 ATCATTTGGTCTAAATAGTTTGT
* * *
59404 CATTTTGTAAACAAC-TTT-GTCTT-TAAATTAATAACTTATTTATATGAGAA---TTTCTCT-T
1 CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
* * * *
59462 GGTTCTTAG-ATGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGGTT-CTT
66 TGTTCTT-GCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTT
* *
59525 GAGAGTATTCAAGATGATTCATTCCT
130 -AAAGTATTCAAGATGATCCATTCCT
59551 ATGACTAATT
Statistics
Matches: 3138, Mismatches: 478, Indels: 307
0.80 0.12 0.08
Matches are distributed among these distances:
198 2 0.00
199 216 0.07
200 67 0.02
201 47 0.01
202 3 0.00
203 29 0.01
204 41 0.01
205 3 0.00
206 9 0.00
207 2 0.00
208 5 0.00
209 52 0.02
210 195 0.06
211 14 0.00
212 10 0.00
213 55 0.02
214 401 0.13
215 1199 0.38
216 678 0.22
217 18 0.01
220 8 0.00
221 4 0.00
222 6 0.00
223 2 0.00
225 69 0.02
226 3 0.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (215 bp):
CATTTTGTAAACAACTTTTGGTCTTATGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
TGTTCTTGCACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTA
AAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCGAACATTCCATGCTCTGGAAATCGCATC
ATTTGGTCTAAATAGTTTGT
Found at i:57421 original size:199 final size:201
Alignment explanation
Indices: 57043--57435 Score: 528
Period size: 199 Copynumber: 2.0 Consensus size: 201
57033 CTTACTCTGG
* *
57043 AAATCGCATCATTTGGTCTAAATAGTTAGTCATTTTGCAAACAAATTTTGGACTTATAGTTAAAA
1 AAATCGCATCATTTGATCTAAATAGTTAGTCATTTTGCAAACAAACTTTGGACTTATAGTTAAAA
** * *
57108 AATTATTTACGTGAGAATCATTTCTCTCTTGGTTCTTCGCTGAACTTCCGAACTTGCCAAACTTT
66 AATTATTTACGTGAGAATCATTTCTCTCTTGGTTCTTCGAAGAACTTCCGAACATACCAAACTTT
* * *
57173 TATGAGTTCTTTTATAACTTTGCTTCCATAAAATATTCAAGACGATCCATTCCTTCGAGCAATTG
131 TATGAGCTCTTTTATAACTTAGCTTACATAAAATATTCAAGACGATCCATTCCTTCGAGCAATTG
57238 CTTAGA
196 CTTAGA
* *
57244 AAATCGCATCATTTGATCTAAATAGTTAGTCATTTTGTAAAC-AACTTTGGTCTTATTA-TTAAA
1 AAATCGCATCATTTGATCTAAATAGTTAGTCATTTTGCAAACAAACTTTGGACTTA-TAGTTAAA
* ** * * *
57307 AACTTATTTACGTGAGAATTGTTTCTCTCTT-GTTCTTGGAAGAACTTTCGAACATATCAAACTT
65 AAATTATTTACGTGAGAATCATTTCTCTCTTGGTTCTTCGAAGAACTTCCGAACATACCAAACTT
* * *
57371 TTACT-AGCTCTTTTATAACTTCAG-TTAC-TGAAAGTATTCAAGATGATCCATTCCTTCTAGCA
130 TTA-TGAGCTCTTTTATAACTT-AGCTTACAT-AAAATATTCAAGACGATCCATTCCTTCGAGCA
57433 ATT
192 ATT
57436 TTCGAACATT
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
198 1 0.01
199 79 0.47
200 46 0.27
201 42 0.25
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (201 bp):
AAATCGCATCATTTGATCTAAATAGTTAGTCATTTTGCAAACAAACTTTGGACTTATAGTTAAAA
AATTATTTACGTGAGAATCATTTCTCTCTTGGTTCTTCGAAGAACTTCCGAACATACCAAACTTT
TATGAGCTCTTTTATAACTTAGCTTACATAAAATATTCAAGACGATCCATTCCTTCGAGCAATTG
CTTAGA
Found at i:59288 original size:199 final size:200
Alignment explanation
Indices: 58924--59322 Score: 545
Period size: 199 Copynumber: 2.0 Consensus size: 200
58914 ATGATCCATT
* * *
58924 CCTTCGTGCAATTTTTTGAACATTCCATGTCTGTGAAATCGCATCATTTGGTCTAAATTGTTATT
1 CCTTCGAGCAATTTTTTAAACATTCCATGTCTGTGAAATCGCATCATTTGGTCTAAATAGTTATT
* * * *
58989 CATTTTGTAAATAACTTTTGGTTTTTGAATTAAAAACTTATTTACATAATAATTGTTTCTCTCTT
66 CATTTTGTAAACAAATTTTGGTTTATGAATTAAAAACTTATTTACATAAGAATTGTTTCTCTCTT
* * *
59054 GTTCTTGGACGAACTTCCGAACATGTCAAACTTTTACTACCTCTTTTT-TAACTTCGATTCCTGA
131 GTTCTTGCACGAACTTCCGAACATCTCAAACTTTTACGACCTCTTTTTATAACTTCGATTCCTGA
59118 AAGTA
196 AAGTA
* *
59123 CCTTCGAGTAATTTTTTAAACATTCCATGCTCTGT-AAATCGCATTATTTGGTCTAAATAGTT-T
1 CCTTCGAGCAATTTTTTAAACATTCCATG-TCTGTGAAATCGCATCATTTGGTCTAAATAGTTAT
* *
59186 GTCATTTTGTAAACAAATTTTGGTCTTAT-AATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
65 -TCATTTTGTAAACAAATTTTGGT-TTATGAATTAAAAACTTATTTACATAAGAATTGTTTCTCT
* * * * * **
59250 CTTGTTCTTGCCCTAACTTTCGAACTTCTCACACTTTTACGAGTTCTTTTTATAACTTCGATTCC
128 CTTGTTCTTGCACGAACTTCCGAACATCTCAAACTTTTACGACCTCTTTTTATAACTTCGATTCC
*
59315 TTAAAGTA
193 TGAAAGTA
59323 TTCAAGGTGA
Statistics
Matches: 174, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
198 1 0.01
199 145 0.83
200 28 0.16
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.44
Consensus pattern (200 bp):
CCTTCGAGCAATTTTTTAAACATTCCATGTCTGTGAAATCGCATCATTTGGTCTAAATAGTTATT
CATTTTGTAAACAAATTTTGGTTTATGAATTAAAAACTTATTTACATAAGAATTGTTTCTCTCTT
GTTCTTGCACGAACTTCCGAACATCTCAAACTTTTACGACCTCTTTTTATAACTTCGATTCCTGA
AAGTA
Found at i:60007 original size:216 final size:216
Alignment explanation
Indices: 59623--62771 Score: 3214
Period size: 216 Copynumber: 14.6 Consensus size: 216
59613 TTAAAATCTT
* * *
59623 AACTTGTCAAACTTTTACAAGTTATTTTATAACTTCAATTCCTTAAAGTATTCAAGATGATCCAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * * * * *
59688 T-CTATCGAACAATTTTTTGAACATTCCTTTCTCGAGAAATCTCATAATTTGGTCTAAATAGTTT
66 TCCT-TCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* * * * *
59752 GTAATTTTGCAAACAACTTTTGGACTTTGAATTAAAAACTTATATATC-TGAAAATTGTTTCTCT
130 GTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA-CGTGAGAATTGTTTCTCT
* ** *
59816 CTTGGTTCTTGGCCAAAAATCCG
194 CTTGGTTCTTGGCCGAACTTCTG
* * * *
59839 AACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTACAGTATTTAAGATGATCTAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * *
59904 TCCTTCGAACAATTTTTTGAACATTCCATGTTCGGGAAATCGCATCATTTGGTATAAATAG-TTG
66 TCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
* * *
59968 TCATTATGTAAACAAATTTTGGTCTTTGGATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTC
131 TCATTTTGTAAACAACTTTTGGTCTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTC
* * * * *
60033 ATGGTCCTTTGCCTAACTTCTT
195 TTGGTTCTTGGCCGAACTTCTG
* * * *
60055 AACTTGTCAAACTTTTACGAGTTCTTTTACAACTTCGGTTCTTCTAAA-TATTCAAGATAATCCA
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCT-TAAAGTATTCAAGATGATCCA
* * * *
60119 TTCCTTCGAGCAACTTTTCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTAT
65 TTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* *
60184 GTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGATTT-TCT
130 GTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTCTCT
* * *
60248 CTTGGTCCTTGGCCTAACTTCTT
194 CTTGGTTCTTGGCCGAACTTCTG
* * * *
60271 AACTTTTCAAACTTTTTACGAGTTCTTTTACAACTTCGATT-TTTCTAAGTATTCAAGATGATCC
1 AACTTGTCAAAC-TTTTACGAGTTCTTTTATAACTTCGATTCCTT-AAAGTATTCAAGATGATCC
* * * * * *
60335 ATTCATT-TAAGTAATTTTTCAAACTTTCCATGCTCGGGAAATCGCATCATTTTGTCTAAATAGT
64 ATTCCTTCGAA-CAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGT
* * *
60399 TTGTCATTTTGTAAACAACTTTTGGCCTTTGAATTAAAAACTTA-TTAAGTGAGAATTGTTTCTT
128 TTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC
* * *** *
60463 TCTTGGTACATGGTAAAACTTCCG
193 TCTTGGTTCTTGGCCGAACTTCTG
* * * * * *
60487 AACTCGTCAAACTTTTACAAGTTCTTTTATAACTTTGGTTCCTTAAAGTAATCAAGAAGATCCAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
** * *
60552 TTGTTTGAGCAATTTTT-GAACATTCCATGC-CTGGGAAATCGCATCATTTGGTCTAAATTA-TT
66 TCCTTCGAACAATTTTTCGAACATTCCATGCTC-GGGAAATCGCATCATTTGGTCTAAA-TAGTT
* * * * * * *
60614 AGTCTTTTTGTAAACAACTTTT-GTTTTCTGAATTCAAAACTTGTTTATGTAAGAATTGTTTCTC
129 TGTCATTTTGTAAACAACTTTTGGTCTT-TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC
* ** **
60678 TCTT-GTTCATGGATGAACTTCCA
193 TCTTGGTTCTTGGCCGAACTTCTG
* * * * *
60701 AACTTGTCAATA-TTTTACTAGTTCTATTATAGCTTCGGTTCATTAAAGTATTCAAGATGATCCA
1 AACTTGTCAA-ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCA
* * **
60765 TTCCTTCGAGCAATTTTTCGAACATTCCATGCTCTGGAAATTTCATCATTTGGTCTAAATAGTTT
65 TTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* *
60830 GCCATTTTGTAAACAAATTTTGGTCTTAT-AATTAAAAACTTATTTACGTGAGAATTGTTTC-CT
130 GTCATTTTGTAAACAACTTTTGGTCTT-TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
* *
60893 CTT-GTTCCT-GCACGAACTTATG
194 CTTGGTTCTTGGC-CGAACTTCTG
* * * * *
60915 AACTTCTCACACTTTTACGAGTTCTTTTGTAACTTCGATTCCTTAAAGTAATCAAGACGATCC-T
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * ** * * *
60979 GTCCTTCGAGA-AA-TTTTCTAGACATTCCATGCACGAAAAATCACATAATTTGATCTAAATAGT
66 -TCCTTCGA-ACAATTTTTCGA-ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGT
** * * * **
61042 TTACCATTTTGTAAATAACTTTTTGTCTTTAAATTATTAACTTATTTACGTGAGAA----TT-TC
128 TTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC
** *
61102 TCTTGGTTCTTGGATGAACTTCCG
193 TCTTGGTTCTTGGCCGAACTTCTG
* * *
61126 AACTTGTCAAACATTTACGAGTTCTTTTATAACTTTGATTCC-TAAGAGTATTCAAGATGATTCA
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAA-AGTATTCAAGATGATCCA
*
61190 TTCCTTCG-AC-------C--A-ATTCCATGCTCGGGAAATCACATCA-TTGAGTCTAAATAGTT
65 TTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTG-GTCTAAATAGTT
* * * * * * *****
61243 TTTAACTTGGTAAACAACTTTTTGTCTTTGAATTAAAAACTT-TTTACTTGAGAATT-AAAAACT
129 TGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
*** * *
61306 -TT-G---TAAACCTAACTTCTT
194 CTTGGTTCTTGGCCGAACTTCTG
**
61324 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAATCCAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * * * * *
61389 TCCTTCGAGCAATTTTTCGAACATTCCTTGCTTGAGAAATCGCATAATTTGGTCTATATAGTTTG
66 TCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
* *
61454 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAATTATTTACATGAGAATTG--TCTCTCT
131 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* * *** * *
61517 TTGTCCTCAACCTAACTTCTT
196 TGGTTCTTGGCCGAACTTCTG
* * * * * * * * **
61538 AACTTGTCAAAGTTTGACAAGTTCTTTTATGACTTTGGTTCCTTAAAGTTTTCAATACAATCCAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * *
61603 TCCTTC-AAGCAA-TTTTCTGAACATTCCATGCTCGGGTAATCGCATAATTTGGTTTAAATAGTT
66 TCCTTCGAA-CAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* *
61666 TGTCATTTTGTAAACAACTTTTGGACTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTCTCC
129 TGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
** ** *
61730 CTTGGTTCTTGGCTAAAAATCCG
194 CTTGGTTCTTGGCCGAACTTCTG
* * * *
61753 AACTTGTCAAACTTTTATGAGTTCTTTTATTACTTCGGTTCCTTAAAGTATTCAATATGATCCAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * ** * * **
61818 TCATTCGAGA-AATTTTTCGAACATTCCATGATCGAAAAATTGCATTATTTGACCTAAATAGTTT
66 TCCTTCGA-ACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* *
61882 GTCATTTTGTAAACAACTTTTGGTCTATGAATTAAAAACTTATTTTCGTGA-ATATTGTTTCTCT
130 GTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA-ATTGTTTCTCT
* *
61946 CTTGGTTATCGGCCGAACTTCTG
194 CTTGGTTCTTGGCCGAACTTCTG
* *
61969 AACTTGTCAAACTTTTACGAGTTCTTTTATTACTTCGGTTCCTTAAAGTATTCAAGATGATCCAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * *
62034 TCCTTTGAACAATTTTTCGAACATTCCATGCTTGGGAAATCGCATCATTTGATCTAAATAGTTTG
66 TCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
* * *
62099 TCATTTTGTAAACAACTTTAGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCT
131 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* * *
62164 TGGTCCTTGGCCTAACTTCTT
196 TGGTTCTTGGCCGAACTTCTG
* * * * *
62185 AACTTGTCAAACTTTTACGAGTTCCTTTACAACTTC-AGTTCTTTTAAGTATTCAAGACGATCCA
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGA-TTCCTTAAAGTATTCAAGATGATCCA
* * * *
62249 TTCCTTTGAGA-AA-TTTCCGAACATTTCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTT
65 TTCCTTCGA-ACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* * * *
62312 TTTCATATTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATAGTTTCTCT
129 TGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
* *
62377 CTTGGTT-TGTCGCCGAACTTCCG
194 CTTGGTTCT-TGGCCGAACTTCTG
* * * * * *
62400 AACTTATCAAACTTTTATGAGTTCTTTTATAACTTTGGTTCCATAAAATATTCAAGATGATCCAT
1 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
* * * * * * * *
62465 TCCTTCGAGCCATTTTCCAAACATTTCATGCTTGGGAAATCGCATCATTTGGTCTAAATTGTTAG
66 TCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
* * *
62530 TCATTTTGTAAACAACTTTTGGTTTTTGAA-TAAAAACTTATTTACATAAGAATTGTTTCTCTCT
131 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
62594 T-GTTCTTGGATGAACTTCCGAACTTATCGAACTTCTG
196 TGGTTC-T---TG-------G--C----CGAACTTCTG
* ** * * ** *
62631 AACTTATCAATTTTTTACTAGATGTT-TTATATAACTTCAATTCCTTAAAGTATTCAAGACAATT
1 AACTTGTCAAACTTTTAC--GA-GTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATC
* * * *
62695 CATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCTGGAAATCGCATCATTTGGTTTAAATAGT
63 CATTCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGT
62760 TTGTCATTTTGT
128 TTGTCATTTTGT
62772 CTTTGAATTA
Statistics
Matches: 2460, Mismatches: 378, Indels: 173
0.82 0.13 0.06
Matches are distributed among these distances:
198 70 0.03
199 18 0.01
200 65 0.03
201 2 0.00
202 2 0.00
203 2 0.00
204 1 0.00
206 1 0.00
208 1 0.00
209 70 0.03
210 28 0.01
211 71 0.03
212 2 0.00
213 20 0.01
214 493 0.20
215 575 0.23
216 733 0.30
217 178 0.07
218 1 0.00
225 1 0.00
227 1 0.00
231 24 0.01
233 98 0.04
234 3 0.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (216 bp):
AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCAT
TCCTTCGAACAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
TGGTTCTTGGCCGAACTTCTG
Found at i:62133 original size:431 final size:430
Alignment explanation
Indices: 59614--62771 Score: 3009
Period size: 431 Copynumber: 7.3 Consensus size: 430
59604 GGTCTTTAAT
** * * **
59614 TAAAATCTTAACTTGTCAAACTTTTACAAGTTATTTTATAACTTCAATTCCTTAAAGTATTCAAG
1 TAAAATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
* * * * * *
59679 ATGATCCATT-CTATCGA-ACAATTTTTTGAACATTCCTTTCTCGAGAAATCTCATAATTTGGTC
66 ACGATCCATTCCT-TCGAGA-AATTTTTCGAACATTCCATGCTTGAGAAATCGCATAATTTGGTC
* * * * *
59742 TAAATAGTTTGTAATTTTGCAAACAACTTTTGGACTTTGAATTAAAAACTTATATATC-TGAAAA
129 TAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA-CGTGAGAA
* * * ** * *
59806 TTGTTTCTCTCTTGGTTCTTGGCCAAAAATCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAA
193 TTGTTTCTCTCTTGGTT-ATCGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAA
* * * * * * *
59871 CTTCGATTCCTTACAGTATTTAAGATGATCTATTCCTTCGAACAATTTTTTGAACATTCCATG-T
257 CTTTGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAACAATTTTTCGAACATTCCATGCT
* * * *
59935 TCGGGAAATCGCATCATTTGGTATAAATAG-TTGTCATTATGTAAACAAATTTTGGTCTTTGGAT
322 T-GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAAT
* * *
59999 TAAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTCCTTTGCC
386 T-AAAAACTTATTTACGTGAGAATTG-TTCTCTCTTGGTTCTTGGCC
** ** * *
60046 TAACTTCTTAACTTGTCAAACTTTTACGAGTTCTTTTACAACTTCGGTTCTTCTAAA-TATTCAA
1 TAAAATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCT-TAAAGTATTCAA
** * * * * * *
60110 GATAATCCATTCCTTCGAGCAACTTTTCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCT
65 GACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCTTGAGAAATCGCATAATTTGGTCT
* * *
60175 AAATAGTATGTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAAT
130 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
* * * * *
60240 GATTT-TCTCTTGGTCCT-TGGCCTAACTTCTTAACTTTTCAAACTTTTTACGAGTTCTTTTACA
195 G-TTTCTCTCTTGGT--TATCGCCGAACTTCTGAACTTGTCAAAC-TTTTACGAGTTCTTTTATA
* * * * * * * *
60303 ACTTCGATT-TTTCTAAGTATTCAAGATGATCCATTCATTT-AAGTAATTTTTCAAACTTTCCAT
256 ACTTTGGTTCCTT-AAAGTATTCAAGATGATCCATTCCTTTGAA-CAATTTTTCGAACATTCCAT
* * *
60366 GCTCGGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGCCTTTGA
319 GCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGA
* * * *
60431 ATTAAAAACTTA-TTAAGTGAGAATTGTTTCTTTCTTGGTACATGG--
384 ATTAAAAACTTATTTACGTGAGAATTG-TTCTCTCTTGGTTCTTGGCC
* * * *
60476 TAAAACTTCCGAACTCGTCAAACTTTTACAAGTTCTTTTATAACTTTGGTTCCTTAAAGTAATCA
1 TAAAA--TCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
* ** * * * * *
60541 AGAAGATCCATTTGTTTGAGCAATTTTT-GAACATTCCATGCCTGGGAAATCGCATCATTTGGTC
64 AGACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCTTGAGAAATCGCATAATTTGGTC
* * * * * * *
60605 TAAATTA-TTAGTCTTTTTGTAAACAACTTTT-GTTTTCTGAATTCAAAACTTGTTTATGTAAGA
129 TAAA-TAGTTTGTCATTTTGTAAACAACTTTTGGTCTT-TGAATTAAAAACTTATTTACGTGAGA
* ** ** * *
60668 ATTGTTTCTCTCTT-GTTCATGGATGAACTTCCAAACTTGTCAATA-TTTTACTAGTTCTATTAT
192 ATTGTTTCTCTCTTGGTT-ATCGCCGAACTTCTGAACTTGTCAA-ACTTTTACGAGTTCTTTTAT
* * * * *
60731 AGCTTCGGTTCATTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATG
255 AACTTTGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAACAATTTTTCGAACATTCCATG
** * *
60796 CTCT-GGAAATTTCATCATTTGGTCTAAATAGTTTGCCATTTTGTAAACAAATTTTGGTCTTAT-
320 CT-TGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT-TG
*
60859 AATTAAAAACTTATTTACGTGAGAATTGTT-TCCTCTT-GTTCCT-GCAC
383 AATTAAAAACTTATTTACGTGAGAATTGTTCT-CTCTTGGTTCTTGGC-C
* ** ** * * * * *
60906 GAACTTATGAACTTCTCACACTTTTACGAGTTCTTTTGTAACTTCGATTCCTTAAAGTAATCAAG
1 TAAAATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
* ** * * *
60971 ACGATCC-TGTCCTTCGAGAAA-TTTTCTAGACATTCCATGCACGAAAAATCACATAATTTGATC
66 ACGATCCAT-TCCTTCGAGAAATTTTTCGA-ACATTCCATGCTTGAGAAATCGCATAATTTGGTC
** * * * **
61034 TAAATAGTTTACCATTTTGTAAATAACTTTTTGTCTTTAAATTATTAACTTATTTACGTGAGAA-
129 TAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT
* * ** * *
61098 ---TT-TCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACATTTACGAGTTCTTTTATAAC
194 TGTTTCTCTCTTGGTT-ATCGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
* * *
61159 TTTGATTCC-TAAGAGTATTCAAGATGATTCATTCCTTCG-AC-------C--A-ATTCCATGCT
258 TTTGGTTCCTTAA-AGTATTCAAGATGATCCATTCCTTTGAACAATTTTTCGAACATTCCATGCT
* * * * * * *
61212 CGGGAAATCACATCA-TTGAGTCTAAATAGTTTTTAACTTGGTAAACAACTTTTTGTCTTTGAAT
322 TGGGAAATCGCATCATTTG-GTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAAT
* ***** ***
61276 TAAAAACTT-TTTACTTGAGAATTAAAAACT-TT-G---TAAACC
386 TAAAAACTTATTTACGTGAGAATTGTTCTCTCTTGGTTCTTGGCC
** ** *
61315 TAACTTCTTAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAG
1 TAAAATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
* * *
61380 ACAATCCATTCCTTCGAGCAATTTTTCGAACATTCCTTGCTTGAGAAATCGCATAATTTGGTCTA
66 ACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCTTGAGAAATCGCATAATTTGGTCTA
* * *
61445 TATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAATTATTTACATGAGAATTG
131 AATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG
* ** * * * * * * *
61510 --TCTCTCTTTGTCCTCAACCTAACTTCTTAACTTGTCAAAGTTTGACAAGTTCTTTTATGACTT
196 TTTCTCTCTTGGTTATC-GCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* * ** * *
61573 TGGTTCCTTAAAGTTTTCAATACAATCCATTCC-TTCAAGCAA-TTTTCTGAACATTCCATGCTC
260 TGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAA-CAATTTTTC-GAACATTCCATGCTT
* * * *
61636 GGGTAATCGCATAATTTGGTTTAAATAGTTTGTCATTTTGTAAACAACTTTTGGACTTTGAATTA
323 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
*
61701 AAAACTTATTTACGTGAGAATTGTTCTCCCTTGGTTCTTGG-C
388 AAAACTTATTTACGTGAGAATTGTTCTCTCTTGGTTCTTGGCC
* *
61743 TAAAAATCCGAACTTGTCAAACTTTTATGAGTTCTTTTATTACTTCGGTTCCTTAAAGTATTCAA
1 T-AAAATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * * * * * * * **
61808 TATGATCCATTCATTCGAGAAATTTTTCGAACATTCCATGATCGAAAAATTGCATTATTTGACCT
65 GACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCTTGAGAAATCGCATAATTTGGTCT
* *
61873 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTATGAATTAAAAACTTATTTTCGTGA-ATAT
130 AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA-AT
*
61937 TGTTTCTCTCTTGGTTATCGGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATTAC
194 TGTTTCTCTCTTGGTTATC-GCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
*
62002 TTCGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAACAATTTTTCGAACATTCCATGCTT
258 TTTGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAACAATTTTTCGAACATTCCATGCTT
* * *
62067 GGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAACTTTAGGTCTTTAAATTA
323 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* *
62132 AAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTCCTTGGCC
388 AAAACTTATTTACGTGAGAATT-GTTCTCTCTTGGTTCTTGGCC
** ** * * * * *
62176 TAACTTCTTAACTTGTCAAACTTTTACGAGTTCCTTTACAACTTCAGTTCTTTTAAGTATTCAAG
1 TAAAATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
* * * * *
62241 ACGATCCATTCCTTTGAGAAA-TTTCCGAACATTTCATGCTTGGGAAATCGCATCATTTGGTCTA
66 ACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCTTGAGAAATCGCATAATTTGGTCTA
* * * *
62305 AATAGTTTTTCATATTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATAG
131 AATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG
* * * *
62370 TTTCTCTCTTGGTTTGTCGCCGAACTTCCGAACTTATCAAACTTTTATGAGTTCTTTTATAACTT
196 TTTCTCTCTTGG-TTATCGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* * * * * * * *
62435 TGGTTCCATAAAATATTCAAGATGATCCATTCCTTCGAGCCATTTTCCAAACATTTCATGCTTGG
260 TGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAACAATTTTTCGAACATTCCATGCTTGG
* * *
62500 GAAATCGCATCATTTGGTCTAAATTGTTAGTCATTTTGTAAACAACTTTTGGTTTTTGAA-TAAA
325 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * *
62564 AACTTATTTACATAAGAATTGTTTCTCTCTT-GTTCTTGG-A
390 AACTTATTTACGTGAGAATTG-TTCTCTCTTGGTTCTTGGCC
** *
62604 TGAACTTCCGAACTTATCGAACTTCTGAACTTATCAATTTTTTACTAGATGTT-TTATATAACTT
1 T-AAAATCCGAAC-T-T-G----TC--AA---A-C----TTTTAC--GA-GTTCTTTTATAACTT
** * * * *
62668 CAATTCCTTAAAGTATTCAAGACAATTCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCTG
45 CGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCT-TG
* *
62733 -GAAATCGCATCATTTGGTTTAAATAGTTTGTCATTTTGT
109 AGAAATCGCATAATTTGGTCTAAATAGTTTGTCATTTTGT
62772 CTTTGAATTA
Statistics
Matches: 2242, Mismatches: 380, Indels: 191
0.80 0.14 0.07
Matches are distributed among these distances:
409 158 0.07
410 8 0.00
411 3 0.00
412 71 0.03
413 23 0.01
414 66 0.03
415 1 0.00
417 1 0.00
419 1 0.00
422 1 0.00
423 69 0.03
424 28 0.01
425 79 0.04
426 1 0.00
427 6 0.00
428 78 0.03
429 391 0.17
430 85 0.04
431 527 0.24
432 388 0.17
433 110 0.05
434 33 0.01
436 2 0.00
438 2 0.00
441 1 0.00
442 1 0.00
446 6 0.00
448 45 0.02
449 55 0.02
450 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (430 bp):
TAAAATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
ACGATCCATTCCTTCGAGAAATTTTTCGAACATTCCATGCTTGAGAAATCGCATAATTTGGTCTA
AATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG
TTTCTCTCTTGGTTATCGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTT
GGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAACAATTTTTCGAACATTCCATGCTTGGG
AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
ACTTATTTACGTGAGAATTGTTCTCTCTTGGTTCTTGGCC
Found at i:62627 original size:17 final size:17
Alignment explanation
Indices: 62605--62638 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62595 GTTCTTGGAT
62605 GAACTTCCGAACTTATC
1 GAACTTCCGAACTTATC
*
62622 GAACTTCTGAACTTATC
1 GAACTTCCGAACTTATC
62639 AATTTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (17 bp):
GAACTTCCGAACTTATC
Found at i:63169 original size:214 final size:216
Alignment explanation
Indices: 62800--63215 Score: 590
Period size: 214 Copynumber: 1.9 Consensus size: 216
62790 GTAAACCTAG
* *
62800 CTTCTTAACTTGTCAAAGTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTTAAGACG
1 CTTCTTAACTTGTCAAAGTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACG
* * *
62865 ATCCATTCCTTCGAGCAATTTTTTGAACATTCCTTGCTCGAGAAATCACATCATTTGTTCTAAAT
66 ATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCACATCATTTGCTCTAAAT
** * *
62930 AGTATGTTATTTTGTAAACAACTTTTCGTCTTTAAATTAAAAAC-T-TTTTACGTGAG-ATTTTT
131 AGTATGTTAACTTGTAAACAACTTTTAGTCTTTAAATTAAAAACATATTTT-CGTGAGAATTGTT
62992 TCTCTCTTAGTCCTTGTACTAA
195 TCTCTCTTAGTCCTTGTACTAA
* * * *
63014 CTTCTTAACTTGTTAAATTTTTACGAGTTTTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACG
1 CTTCTTAACTTGTCAAAGTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACG
* * * *
63079 ATCCATTCCTTTGAGTAATTTTCTGAACATTCCATGCTCGAGAAATCGCATGATTTGGCT-TAAA
66 ATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCACATCATTT-GCTCTAAA
* * *
63143 TAGTAT-TTAAACTTGTAAGCAACTTTTAGTCTTTGAATTAAAAACATATTTTTGTGAGAATTGT
130 TAGTATGTT-AACTTGTAAACAACTTTTAGTCTTTAAATTAAAAACATATTTTCGTGAGAATTGT
63207 TTCTCTCTT
194 TTCTCTCTT
63216 TGTTCTTAAG
Statistics
Matches: 177, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
213 2 0.01
214 150 0.85
215 8 0.05
216 17 0.10
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (216 bp):
CTTCTTAACTTGTCAAAGTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACG
ATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCACATCATTTGCTCTAAAT
AGTATGTTAACTTGTAAACAACTTTTAGTCTTTAAATTAAAAACATATTTTCGTGAGAATTGTTT
CTCTCTTAGTCCTTGTACTAA
Found at i:70137 original size:19 final size:18
Alignment explanation
Indices: 70113--70249 Score: 118
Period size: 19 Copynumber: 7.4 Consensus size: 18
70103 TCAAAGTAGT
70113 AAATATATACAAAGAATAA
1 AAATATATA-AAAGAATAA
* *
70132 AAATATA-ATAAGTAATAG
1 AAATATATAAAAG-AATAA
*
70150 AAATATATATAAAGAATGA
1 AAATATATA-AAAGAATAA
* *
70169 AAATATAT-TAAGTAATAG
1 AAATATATAAAAG-AATAA
*
70187 AAATATATATAAAGAATGA
1 AAATATATA-AAAGAATAA
* *
70206 AAATATAT-TAAGTAATAG
1 AAATATATAAAAG-AATAA
70224 AAATATATATAAAGAATAA
1 AAATATATA-AAAGAATAA
70243 AAATATA
1 AAATATA
70250 ATAAGTATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
17 9 0.10
18 34 0.37
19 41 0.44
20 9 0.10
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.28
Consensus pattern (18 bp):
AAATATATAAAAGAATAA
Found at i:70154 original size:37 final size:37
Alignment explanation
Indices: 70113--70271 Score: 246
Period size: 37 Copynumber: 4.3 Consensus size: 37
70103 TCAAAGTAGT
*
70113 AAATATATACAAAGAATAAAAATATAATAAGTAATAG
1 AAATATATATAAAGAATAAAAATATAATAAGTAATAG
* *
70150 AAATATATATAAAGAATGAAAATATATTAAGTAATAG
1 AAATATATATAAAGAATAAAAATATAATAAGTAATAG
* *
70187 AAATATATATAAAGAATGAAAATATATTAAGTAATAG
1 AAATATATATAAAGAATAAAAATATAATAAGTAATAG
* *
70224 AAATATATATAAAGAATAAAAATATAATAAGTATTAT
1 AAATATATATAAAGAATAAAAATATAATAAGTAATAG
*
70261 ATATATATATA
1 AAATATATATA
70272 TAGATGCTGG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 114 1.00
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (37 bp):
AAATATATATAAAGAATAAAAATATAATAAGTAATAG
Found at i:82686 original size:13 final size:14
Alignment explanation
Indices: 82662--82691 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
82652 TATTATCAGC
82662 TCTTATTATTTTAT
1 TCTTATTATTTTAT
82676 TCTTATT-TTTTAT
1 TCTTATTATTTTAT
82689 TCT
1 TCT
82692 GAATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (14 bp):
TCTTATTATTTTAT
Found at i:104146 original size:24 final size:25
Alignment explanation
Indices: 104118--104174 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 25
104108 TGTATGGGTA
104118 TCTTCTTGATTTTT-ATTTTCTTTT
1 TCTTCTTGATTTTTCATTTTCTTTT
104142 TCTTCTTG-TTTTTCATTTTCTTTT
1 TCTTCTTGATTTTTCATTTTCTTTT
*
104166 TCCTCTTGA
1 TCTTCTTGA
104175 GAACTCTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.07, C:0.18, G:0.05, T:0.70
Consensus pattern (25 bp):
TCTTCTTGATTTTTCATTTTCTTTT
Found at i:106571 original size:25 final size:25
Alignment explanation
Indices: 106543--106594 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
106533 TTAAAACAAC
106543 TTCTAAAAAAAAAACTC-AAGAGTAA
1 TTCTAAAAAAAAAACTCAAAGAG-AA
** *
106568 TTCTGGAAGAAAAACTCAAAGAGAA
1 TTCTAAAAAAAAAACTCAAAGAGAA
106593 TT
1 TT
106595 ATTATTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.54, C:0.12, G:0.13, T:0.21
Consensus pattern (25 bp):
TTCTAAAAAAAAAACTCAAAGAGAA
Found at i:107243 original size:21 final size:21
Alignment explanation
Indices: 107219--107269 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
107209 AATTCACAAC
*
107219 TCCCTTCAATGGCTCTAATTT
1 TCCCTCCAATGGCTCTAATTT
107240 TCCCTCCAATGGCTCTAATTT
1 TCCCTCCAATGGCTCTAATTT
107261 TCCCTCCAA
1 TCCCTCCAA
107270 GAAAGAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (21 bp):
TCCCTCCAATGGCTCTAATTT
Done.