Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001543.1 Kokia drynarioides strain JFW-HI SEQ_113118, 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: 90596
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3415 original size:50 final size:50
Alignment explanation
Indices: 3332--3487 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 50
3322 TGACATCCAT
* *
3332 TAACTCTCATGATTAGTTAAGTTTGCATCATAAATAATGACATGCATTAAG
1 TAACTCACATG-TTAGTTAAGTTTGCATTATAAATAATGACATGCATTAAG
* * * ** *
3383 TAACTTACATGTTAGTTAAATATGCATTATAAATCCT-ATCATGCATTATG
1 TAACTCACATGTTAGTTAAGTTTGCATTATAAATAATGA-CATGCATTAAG
* * *
3433 TAACTCCCATGTTAGTTGAAGTTTGCATTATTAAATCAA-GTCATGCATTTAG
1 TAACTCACATGTTAGTT-AAGTTTGCATTA-TAAAT-AATGACATGCATTAAG
3485 TAA
1 TAA
3488 TCCATTAGTT
Statistics
Matches: 83, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
49 1 0.01
50 46 0.55
51 19 0.23
52 17 0.20
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (50 bp):
TAACTCACATGTTAGTTAAGTTTGCATTATAAATAATGACATGCATTAAG
Found at i:22907 original size:30 final size:30
Alignment explanation
Indices: 22873--22929 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
22863 CACTGGAGCT
* *
22873 ACGAACACTCATGTTACGAACACTCACAAC
1 ACGAACACTCATGCTACAAACACTCACAAC
* *
22903 ACGAACACTGATGCTGCAAACACTCAC
1 ACGAACACTCATGCTACAAACACTCAC
22930 GTTACGAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.16
Consensus pattern (30 bp):
ACGAACACTCATGCTACAAACACTCACAAC
Found at i:24299 original size:20 final size:20
Alignment explanation
Indices: 24266--24309 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24256 TCATTGGAAA
24266 TTTTATTTATATTT-TTTGCC
1 TTTTATTTATATTTATTT-CC
24286 TTTTATTT-TCATTTATTTCC
1 TTTTATTTAT-ATTTATTTCC
24306 TTTT
1 TTTT
24310 TAGTGTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTATTTATATTTATTTCC
Found at i:27116 original size:63 final size:63
Alignment explanation
Indices: 27016--27142 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
27006 CTATCATATG
27016 AATGCAATTTATACATCAGGATTCCAAAAAACATAAGTTGCTAGAATGATAATTGCGGTGACA
1 AATGCAATTTATACATCAGGATTCCAAAAAACATAAGTTGCTAGAATGATAATTGCGGTGACA
* *
27079 AATGCAATTTATACATCAGGATTCCAGAAAACTTAAGTTGCTAGAATGATAATTGCGGTGACA
1 AATGCAATTTATACATCAGGATTCCAAAAAACATAAGTTGCTAGAATGATAATTGCGGTGACA
27142 A
1 A
27143 TTTTGACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (63 bp):
AATGCAATTTATACATCAGGATTCCAAAAAACATAAGTTGCTAGAATGATAATTGCGGTGACA
Found at i:32878 original size:62 final size:62
Alignment explanation
Indices: 32781--32907 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
32771 CTAGCAAATC
32781 CATCTTGTGTTCAGTCAAGATTATACACACGCAAAACAAGAGCTTATTCCTAAGATTGCCAT
1 CATCTTGTGTTCAGTCAAGATTATACACACGCAAAACAAGAGCTTATTCCTAAGATTGCCAT
32843 CATCTTGTGTTCAGTCAAGATTATACACACGCAAAACAAGAGCTTATTCCTAAGATTGCCAT
1 CATCTTGTGTTCAGTCAAGATTATACACACGCAAAACAAGAGCTTATTCCTAAGATTGCCAT
32905 CAT
1 CAT
32908 GTAGAATTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (62 bp):
CATCTTGTGTTCAGTCAAGATTATACACACGCAAAACAAGAGCTTATTCCTAAGATTGCCAT
Found at i:41055 original size:17 final size:17
Alignment explanation
Indices: 41035--41092 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
41025 ATTGTCATCA
*
41035 CATTTCTTTTGTCCCTG
1 CATTTCTTTTGTCACTG
41052 CATTT-TTATTGTCACTG
1 CATTTCTT-TTGTCACTG
* * *
41069 TATTTGCATTTGTCATTG
1 CATTT-CTTTTGTCACTG
41087 CATTTC
1 CATTTC
41093 CATATATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.06
17 18 0.55
18 12 0.36
19 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (17 bp):
CATTTCTTTTGTCACTG
Found at i:41996 original size:13 final size:13
Alignment explanation
Indices: 41978--42002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41968 ACCATTTTAT
41978 CATTTTTAGCATG
1 CATTTTTAGCATG
41991 CATTTTTAGCAT
1 CATTTTTAGCAT
42003 TTTTAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:63934 original size:15 final size:17
Alignment explanation
Indices: 63903--63940 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
63893 TAAGTTTTAA
63903 CTTTTTCTGATT-TGTTT
1 CTTTTTCTGATTGT-TTT
63920 CTTTTTCTG-TTGTTTT
1 CTTTTTCTGATTGTTTT
63936 CTTTT
1 CTTTT
63941 CTAGCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.03, C:0.13, G:0.11, T:0.74
Consensus pattern (17 bp):
CTTTTTCTGATTGTTTT
Found at i:63936 original size:16 final size:17
Alignment explanation
Indices: 63903--63940 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
63893 TAAGTTTTAA
63903 CTTTTTCTGATTTGTTT
1 CTTTTTCTGATTTGTTT
63920 CTTTTTCTG--TTGTTTT
1 CTTTTTCTGATTTG-TTT
63936 CTTTT
1 CTTTT
63941 CTAGCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 8 0.40
17 9 0.45
ACGTcount: A:0.03, C:0.13, G:0.11, T:0.74
Consensus pattern (17 bp):
CTTTTTCTGATTTGTTT
Found at i:77306 original size:18 final size:19
Alignment explanation
Indices: 77283--77327 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
77273 GTATTGAGGT
77283 AGAAGAAGAAGAAAG-AAA
1 AGAAGAAGAAGAAAGAAAA
*
77301 AGAAG-AGAAGGAAGAAAA
1 AGAAGAAGAAGAAAGAAAA
77319 AGAAGAAGA
1 AGAAGAAGA
77328 CGTTGCCCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 13 0.54
19 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AGAAGAAGAAGAAAGAAAA
Found at i:77316 original size:21 final size:20
Alignment explanation
Indices: 77286--77327 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
77276 TTGAGGTAGA
77286 AGAAGAAGAAAGAA-AAGAAG
1 AGAAGAAGAAA-AAGAAGAAG
77306 AGAAGGAAGAAAAAGAAGAAG
1 AGAA-GAAGAAAAAGAAGAAG
77327 A
1 A
77328 CGTTGCCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAAAAAGAAGAAG
Found at i:77745 original size:17 final size:17
Alignment explanation
Indices: 77720--77758 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
77710 CATGCATTTC
77720 TTTTAATTGTCAT-TGCA
1 TTTTAATTGTC-TCTGCA
*
77737 TTTTTATTGTCTCTGCA
1 TTTTAATTGTCTCTGCA
77754 TTTTA
1 TTTTA
77759 TTTGCTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (17 bp):
TTTTAATTGTCTCTGCA
Found at i:79991 original size:24 final size:23
Alignment explanation
Indices: 79943--79991 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
79933 ACAATCAATC
* * *
79943 CATTTTTTATTAATTTACTCTGA
1 CATTTTATATTAATTTACACCGA
79966 CATTTTATATTACATTTACACCGA
1 CATTTTATATTA-ATTTACACCGA
79990 CA
1 CA
79992 AGATTTAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (23 bp):
CATTTTATATTAATTTACACCGA
Found at i:85092 original size:216 final size:216
Alignment explanation
Indices: 84665--87894 Score: 2821
Period size: 216 Copynumber: 15.2 Consensus size: 216
84655 ACATTTCATT
* * *
84665 CTCGGGAAATCGCATCTTTTGGTCTAAATAGTTTGTCTTTTTGTAAACAAGTTTTGGTCTTTGAA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* ** * * * * *
84730 TTAAAAAATTATTTACGTGGGAACAGTTTCTCTCTAGTTTCATGGAAGAACATCCGAACTTGTCA
66 TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCA
** * ** *
84795 AACTTTTACGAGTTCTTTTATAACTTCAATTTCATAGGGTATTCAAGACGATCCATTCCTTCGAG
131 AACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCGAG
* *
84860 CAATTTTCCTAACATTCCACG
196 CAATTTTTCGAACATTCCACG
* * * * * * * * *
84881 CCCGTGAAACCACATCATTAGGTCTGAAA-AGTTTGTCATTCTGTAAATAAGTTTCGGTCTATGA
1 CTCGAGAAATCGCATCATTTGGTCT-AAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGA
* * * *
84945 ATTAAAAAATTATTTACGTGAGAATTGTTTCTCCCTTGGTTCATGGATGAACTTCCAAACTTGTC
65 ATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTC
* * *
85010 AAACTATTACGAGTTCTTTTATAACATCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCTA
130 AAACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCGA
* *
85075 GAAATTTTGCGAACATTCCACG
195 GCAATTTTTCGAACATTCCACG
*
85097 CT-GAAGAAATTGCATCATTTGGTCTAAATAG--T-TCATTTTGTAAACAAGTTTTGGTCTTTGA
1 CTCG-AGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGA
*
85158 A-TAAAAAACTTATTTACATGAGAATTGTTTCTCAT-TTGGTTCGTGGACGAACTTCCGAACTTG
65 ATTAAAAAA-TTATTTACGTGAGAATTGTTTCTC-TCTTGGTTCGTGGACGAACTTCCGAACTTG
* * * * * *
85221 TCAAACCTTTACTAGTTCTTTTATAACTTTTGTTCCTTAAAGTTTTCAAGATGATCCAATCCTTC
128 TCAAACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTC
* *
85286 GAACAATTTTTC-AACCATTCCATG
193 GAGCAATTTTTCGAA-CATTCCACG
* * * *
85310 CTCGGAAAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTCTGAACAAGTTTTGGTCCTTGA
1 CTC-GAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGA
* * * * * ** *
85375 AATAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTTCTTGGATGAACTTCTTAACTTATC
65 ATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTC
* * * * ** * *
85440 AAAATTTTAGGAGTTCTTTTATAACTTCGGCTCGTTAAACTATTCAAGACGATCCATTCCTTC-A
130 AAACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCGA
* * **
85504 TGCAATTTCTT-AAACATTTCATT
195 -GCAATTT-TTCGAACATTCCACG
* * *
85527 CTCGAGAAATCGCATCTTTTGGTCTAAATAGTTTATCTTTTTGTAAACAAGTTTTGGTCTTTGAA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* * * * *
85592 TTAAAAAATTATTTACGTGGGAATAGTTTCTCTCTAGTTTCGTGGACGAACATCCGAACTTGTCA
66 TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCA
** * * * * *
85657 AACTTTTACGAGTTCTTTTATAACTTCAATTTCATAAAGTATTCAAGATGATCTATTCCTTCAAG
131 AACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCGAG
*
85722 CAATTTTTTGAACATTCCACG
196 CAATTTTTCGAACATTCCACG
* * * * * *
85743 CCCGTGAAACCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAATAAGTTTTGGTCATTGAA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* * * * *
85808 TTAAAAAATTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACATCCAAACTTGTCA
66 TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCA
* * * * ** *
85873 AACTATTACGAGTTCTTGTAAAACATT-GGTTCCATAAAGTATTCAAGACGATCCAATTATTCTA
131 AACTTTTACGAGTTCTTTTATAAC-TTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCGA
* **
85937 GAAATTTTTCGAACATTCCTTG
195 GCAATTTTTCGAACATTCCACG
* * *
85959 CTCAAGAAATCGCATCATTTGGTCTAAATTGTACT-TCATTTTGTAAACAAGTTTTGGTCTTTGA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGT-TTGTCATTTTGTAAACAAGTTTTGGTCTTTGA
* * * * *
86023 ATTAAAAACTTATTTATGTGAGAATTATTTCTCTCTTGGTTCGTGGATGAACTTTCGAACTTGTC
65 ATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTC
* * * ** * * * *
86088 AAACTTTTACTAGTTCTTTCATAACTTCCGTTCGTTACAA-TATTGAAGATGATCTAATCATTCG
130 AAACTTTTACGAGTTCTTTTATAACTTCTGTTCCATA-AAGTATTCAAGACGATCCAATCCTTCG
* * * * *
86152 AGCAATTTTCCAAATATCCCAAG
194 AGCAATTTTTCGAACATTCCACG
* * *
86175 CTCGAG-AATCGCATCATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTTGTCTTTGAA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* * * * *
86239 TTAAAAACTTATTTATGTGAGAATCGTTTCTCTCTTGGTGCGTGGACGAACTTCAGAACTTGTCA
66 TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCA
* * ** * *
86304 AACTTTTATGAGTTATTTCT-TAACTT-TGGTTCGTTTAAGTATTCAAGACGATCCAAAT-ATTC
131 AACTTTTACGAGTTCTTT-TATAACTTCT-GTTCCATAAAGTATTCAAGACGATCC-AATCCTTC
86366 GAGCAA-TTTTCTGAACATTCCACG
193 GAGCAATTTTTC-GAACATTCCACG
* * *
86390 CTTGAGAAATCGCATCATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* ** * * * *
86455 ATAAAATCTTATTTACATGAGAATTGTTTCTGTCTTGGTT-ATAGGACGAACTTTCGAACTTGTC
66 TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGT-GGACGAACTTCCGAACTTGTC
* *
86519 AAACTTTTACGAGTTCTTTTATAAC-T-TG-T-C--AAACT-TGTCAA-AC-ATTCC-ATTC-TC
130 AAACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTAT-TCAAGACGA-TCCAATCCTTC
* * *
86573 GAG-AA---ATCGCATCATT---TG
193 GAGCAATTTTTCG-AACATTCCACG
* * * ** * * *
86591 GTC--TAAATAGTTTGCA-TT--TCATAAA-A-------AGTTT-T-----------GGTATATG
1 CTCGAGAAATCGCAT-CATTTGGTC-TAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTG
* * * * * * * * *
86631 AATTAAAAACTAATTTACGTGAGAATTTTTTTTCTCTTCGTTCGTTGATGAATTTTCGAACTTGT
64 AATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGT
* * *** * * **
86696 CAAACTTTTACAAGTTCTTTCATAACTTC-GATTTGTTACAGTATTCACA-TCGATCCAATGATT
129 CAAACTTTTACGAGTTCTTTTATAACTTCTG-TTCCATAAAGTATTCA-AGACGATCCAATCCTT
* **
86759 CGAGCAATTTTTTGAACATTCCGTG
192 CGAGCAATTTTTCGAACATTCCACG
* ** * * *
86784 CTCGAGAAATCGCATCACTTGGTGAAAATAGTTTTTCATTTTGTAAACAAGTTTGGGTTTTTGAA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* ** * * * * * * *
86849 TTAACATCTTATTTAAGTGATAATTGTTTCTCACTTGGTT-ATAGGACAAACTTTCAAACTTGTC
66 TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGT-GGACGAACTTCCGAACTTGTC
* * * *
86913 AAACTTTTACGAGTTCATTTATAACTT-TGGCTCCTTAAAGTATTCAAGACGATCTAATCCTTCG
130 AAACTTTTACGAGTTCTTTTATAACTTCT-GTTCCATAAAGTATTCAAGACGATCCAATCCTTCG
* **
86977 AGCAATTTTTTGAACATTCCTTG
194 AGCAATTTTTCGAACATTCCACG
* * * * * * **
87000 CTCGGGAAATTGCATCATTTGGTCTAAATAGTTTTTCATTTTTTAAGCAATTTTTTTTC-TT-AA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* * * * ** * *
87063 ATAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTACTTGGATAAACTACTGAACTTGTCA
66 TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCA
* * * * ** * * * * *
87128 AACTTTTTCAAGTTATTTTATAACTTCAGTTCGTTAAAGTATACAAGATGATCCAATCATTCCAA
131 AACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCGAG
* * *
87193 CAATTTTTCAAACATTCTATG
196 CAATTTTTCGAACATTCCACG
* * * ** * *
87214 ATCGGGAAATCAG-ATCATTTGCTAAAAATAGTTT-TCCTTTTTGTAAACAAGTTTCGGTCTTTG
1 CTCGAGAAATC-GCATCATTTGGTCTAAATAGTTTGT-CATTTTGTAAACAAGTTTTGGTCTTTG
* * ** *
87277 AATTAAAAACTTATTTACGTGAAAATTGTTTCTCTCTTGGTTATTGGACGAAGCTT-TGAACTTG
64 AATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAA-CTTCCGAACTTG
* * * * *
87341 TCAAACTTTTTCAAGTCCTTTTATAACTTC-GATTCCA-ATAAGTATTCATGACGATGCAATCCT
128 TCAAACTTTTACGAGTTCTTTTATAACTTCTG-TTCCATA-AAGTATTCAAGACGATCCAATCCT
* *
87404 TCGAGCAA-TTTTCTAAACATTCCATG
191 TCGAGCAATTTTTC-GAACATTCCACG
* * * * * *
87430 CTTGGGAAATCGTATCATTTGGTCTAAATAGTTTTTCATCTTG-AAACAAGTTTTGGTATTTGAA
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* ** * * * *
87494 TTAAAAACTTATTTACAAGAGAATTGCTTT-TGTCTTGGTTCTTGGACGAACTTCTGAACTTTTC
66 TTAAAAAATTATTTACGTGAGAATTG-TTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTC
* * *
87558 TAAA-TTTTATGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGATC-ATCCAATCCTTC
130 -AAACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGA-CGATCCAATCCTTC
* * *
87621 AAACAA-TTTTCTGAACATTCCATG
193 GAGCAATTTTTC-GAACATTCCACG
* * * *
87645 CACGAGAAATCACATCATTTGGTCTAAATAATTT-TACAGTTTGTAAACAAGTTTTGGTAC-TTG
1 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGT-CATTTTGTAAACAAGTTTTGGT-CTTTG
* * * * * *
87708 AATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCTGAACTTAT
64 AATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGT
* * * *
87773 CAAACTTTTACGAGTTCTTTTATGACTTCGGTT-AATTAAAGTATTCAAGATGATCCAATCCTTC
129 CAAACTTTTACGAGTTCTTTTATAACTTCTGTTCCA-TAAAGTATTCAAGACGATCCAATCCTTC
* * *
87837 GAGCAA-TTTTCAAAACGTTCCATG
193 GAGCAATTTTTC-GAACATTCCACG
* * *
87861 CAC-AGGAAATCGCATCATTTGGTATAACTAGTTT
1 CTCGA-GAAATCGCATCATTTGGTCTAAATAGTTT
87895 CTTGGACGAA
Statistics
Matches: 2465, Mismatches: 437, Indels: 224
0.79 0.14 0.07
Matches are distributed among these distances:
178 81 0.03
179 3 0.00
181 1 0.00
184 6 0.00
185 6 0.00
186 3 0.00
187 5 0.00
188 2 0.00
189 1 0.00
190 9 0.00
191 2 0.00
193 4 0.00
194 2 0.00
195 8 0.00
196 3 0.00
197 5 0.00
198 3 0.00
199 8 0.00
200 2 0.00
201 2 0.00
203 1 0.00
204 11 0.00
205 1 0.00
206 2 0.00
207 7 0.00
208 1 0.00
209 6 0.00
210 7 0.00
212 9 0.00
213 151 0.06
214 201 0.08
215 379 0.15
216 1369 0.56
217 154 0.06
218 10 0.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (216 bp):
CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
TTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCGTGGACGAACTTCCGAACTTGTCA
AACTTTTACGAGTTCTTTTATAACTTCTGTTCCATAAAGTATTCAAGACGATCCAATCCTTCGAG
CAATTTTTCGAACATTCCACG
Found at i:86704 original size:178 final size:180
Alignment explanation
Indices: 86379--86723 Score: 453
Period size: 178 Copynumber: 1.9 Consensus size: 180
86369 CAATTTTCTG
* * **
86379 AACATTCCACGCTTGAGAAATCGCATCATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTT
1 AACATTCCACGCTCGAGAAATCGCATCATTTGGTCAAAATAGTTTTGCATTTCATAAACAAGTTT
* * * * * *
86444 TGGTCTTTGAAATAAAATCTTATTTACATGAGAATTGTTTCTGTCTTGGTTATAGGACGAACTTT
66 TGGTATATGAAATAAAAACTAATTTACATGAGAATTGTTTCTCTCTTCGTTATAGGACGAACTTT
* *
86509 CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTGTCAAACTTGTCA
131 CGAACTTGTCAAACTTTTACAAGTTCTTTCATAACTTGTCAAACTTGTCA
** *
86559 AACATTCCATTCTCGAGAAATCGCATCATTTGGTCTAAATAG-TTTGCATTTCATAAA-AAGTTT
1 AACATTCCACGCTCGAGAAATCGCATCATTTGGTCAAAATAGTTTTGCATTTCATAAACAAGTTT
* * * * * * * *
86622 TGGTATATGAATTAAAAACTAATTTACGTGAGAATTTTTTTTCTCTTCGTTCGT-TGATGAATTT
66 TGGTATATGAAATAAAAACTAATTTACATGAGAATTGTTTCTCTCTTCGTT-ATAGGACGAACTT
86686 TCGAACTTGTCAAACTTTTACAAGTTCTTTCATAACTT
130 TCGAACTTGTCAAACTTTTACAAGTTCTTTCATAACTT
86724 CGATTTGTTA
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
178 90 0.64
179 13 0.09
180 38 0.27
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (180 bp):
AACATTCCACGCTCGAGAAATCGCATCATTTGGTCAAAATAGTTTTGCATTTCATAAACAAGTTT
TGGTATATGAAATAAAAACTAATTTACATGAGAATTGTTTCTCTCTTCGTTATAGGACGAACTTT
CGAACTTGTCAAACTTTTACAAGTTCTTTCATAACTTGTCAAACTTGTCA
Found at i:87712 original size:431 final size:426
Alignment explanation
Indices: 86558--87894 Score: 1471
Period size: 430 Copynumber: 3.1 Consensus size: 426
86548 CAAACTTGTC
* * * *
86558 AAACATTCCATTCTCGAGAAATCGCATCATTTGGTCTAAATAG-TTTGCATTTCATAAAAAGTTT
1 AAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTTTCATTTCA-AACAAGTTT
* * * *
86622 TGGTATATGAATTAAAAACTAATTTACGTGAGAATTTTTTTTCTCTTCGTTCGTT-GATGAA-TT
65 TGGTATTTGAATTAAAAACTTATTTACGTGAGAA-TTGTTTTCTCTTGGTTC-TTGGATGAACTT
* * * * * *
86685 TTCGAACTTGTCAAACTTTTACAAGTTCTTTCATAACTTC-GATTTGTTACAGTATTC-ACATCG
128 CT-GAACTTGTCAAACTTTTATAAGTTCTTTTATAACTTCAG-TTCGTTAAAGTATTCAAGATC-
* * * * * * * *
86748 ATCCAATGATTCGAGCAATTTTTTGAACATTCCGTGCTCGAGAAATCGCATCACTTGGTGAAAAT
190 ATCCAATCATTCAAACAA-TTTTTGAACATTCCATGCACGAGAAATCACATCATTTGGTAAAAAT
* * * * * *
86813 AGTTTTTCATTTTGTAAACAAGTTTGGGTTTTTGAATTAACATCTTATTTAAGTGATAATTGTTT
254 AGTTTTACATTTTGTAAACAAGTTTCGG-TCTTGAATTAAAAACTTATTTAAGTGAAAATTGTTT
* * * * * *
86878 CTCACTTGGTTATAGGACAAACTTTCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTTGG
318 CTCTCTTGGTTATTGGACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
* * *
86943 CTCC-TTAAAGTATTCAAGACGATCTAATCCTTCGAGCAATTTTTT
382 TTCCAATAAAGTATTCAAGACGATC-AATCCTTCGAGCAATTTTCT
* * * * *
86988 GAACATTCCTTGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTTTCATTTTTTAAGCAA-TT
1 AAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTTTCA--TTTCAAACAAGTT
* * * * *
87052 TT--TTTTCTTAAATAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTACTTGGATAAACT
64 TTGGTATT-TGAATTAAAAACTTATTTACGTGAGAATTGTTT-TCTCTTGGTTCTTGGATGAACT
* * * *
87115 ACTGAACTTGTCAAACTTTT-TCAAGTTATTTTATAACTTCAGTTCGTTAAAGTATACAAGATGA
127 TCTGAACTTGTCAAACTTTTAT-AAGTTCTTTTATAACTTCAGTTCGTTAAAGTATTCAAGATCA
* * * * * *
87179 TCCAATCATTCCAACAATTTTTCAAACATTCTATG-ATCGGGAAATCAGATCATTTGCTAAAAAT
191 TCCAATCATTCAAACAATTTTT-GAACATTCCATGCA-CGAGAAATCACATCATTTGGTAAAAAT
* * *
87243 AGTTTTCCTTTTTGTAAACAAGTTTCGGTCTTTGAATTAAAAACTTATTTACGTGAAAATTGTTT
254 AGTTTTACATTTTGTAAACAAGTTTCGGTC-TTGAATTAAAAACTTATTTAAGTGAAAATTGTTT
* * * *
87308 CTCTCTTGGTTATTGGACGAAGCTTTGAACTTGTCAAACTTTTTCAAGTCCTTTTATAACTTCGA
318 CTCTCTTGGTTATTGGACGAA-CTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
*
87373 TTCCAAT-AAGTATTCATGACGATGCAATCCTTCGAGCAATTTTCT
382 TTCCAATAAAGTATTCAAGACGAT-CAATCCTTCGAGCAATTTTCT
* * *
87418 AAACATTCCATGCTTGGGAAATCGTATCATTTGGTCTAAATAGTTTTTCATCTTGAAACAAGTTT
1 AAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTTTCAT-TTCAAACAAGTTT
** * *
87483 TGGTATTTGAATTAAAAACTTATTTACAAGAGAATTGCTTTTGTCTTGGTTCTTGGACGAACTTC
65 TGGTATTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTTCTCTTGGTTCTTGGATGAACTTC
* * *
87548 TGAACTTTTCTAAA-TTTTATGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGATCATC
129 TGAACTTGTC-AAACTTTTATAAGTTCTTTTATAACTTCAGTTCGTTAAAGTATTCAAGATCATC
* ** *
87612 CAATCCTTCAAACAATTTTCTGAACATTCCATGCACGAGAAATCACATCATTTGGTCTAAATAAT
193 CAATCATTCAAACAATTTT-TGAACATTCCATGCACGAGAAATCACATCATTTGGTAAAAATAGT
* * * *
87677 TTTACAGTTTGTAAACAAGTTTTGGTACTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTC
257 TTTACATTTTGTAAACAAGTTTCGGT-CTTGAATTAAAAACTTATTTAAGTGAAAATTGTTTCTC
* * * *
87742 TCTTGGTTCTTGGATGAACTTCTGAACTTATCAAACTTTTACGAGTTCTTTTATGACTTCGGTT-
321 TCTTGGTTATTGGACGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTC
* *
87806 -AATTAAAGTATTCAAGATGATCCAATCCTTCGAGCAATTTTCA
385 CAA-TAAAGTATTCAAGACGAT-CAATCCTTCGAGCAATTTTCT
* * * * *
87849 AAACGTTCCATGCACAGGAAATCGCATCATTTGGTATAACTAGTTT
1 AAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
87895 CTTGGACGAA
Statistics
Matches: 757, Mismatches: 121, Indels: 57
0.81 0.13 0.06
Matches are distributed among these distances:
428 1 0.00
429 24 0.03
430 361 0.48
431 351 0.46
432 16 0.02
433 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (426 bp):
AAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTTTCATTTCAAACAAGTTTT
GGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTCTTGGTTCTTGGATGAACTTCTG
AACTTGTCAAACTTTTATAAGTTCTTTTATAACTTCAGTTCGTTAAAGTATTCAAGATCATCCAA
TCATTCAAACAATTTTTGAACATTCCATGCACGAGAAATCACATCATTTGGTAAAAATAGTTTTA
CATTTTGTAAACAAGTTTCGGTCTTGAATTAAAAACTTATTTAAGTGAAAATTGTTTCTCTCTTG
GTTATTGGACGAACTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCAATAA
AGTATTCAAGACGATCAATCCTTCGAGCAATTTTCT
Found at i:88015 original size:145 final size:144
Alignment explanation
Indices: 87748--88039 Score: 365
Period size: 145 Copynumber: 2.0 Consensus size: 144
87738 TCTCTCTTGG
* * * * *
87748 TTCTTGGATGAACTTCTGAACTTATCAAACTTTTACGAGTTCTTTTATGACTTCGGTTAATTAAA
1 TTCTTGGACGAACGTCTGAACTTATCAAACTGTTACGAGTTCTTTTATAACATCGGTTAATTAAA
* *
87813 GTATTCAAGATGATCCAATCCTTCGAGCAATTTTCAAAACGTTCCATGCACAGGAAATCGCATCA
66 GTATTCAAGATGATCCAATCCTTCGAGCAATTTTCAAAAC-TTCCATGCACAAGAAATCGAATCA
*
87878 TTTGGTATAACTAGT
130 TTTGGTATAAATAGT
* * *
87893 TTCTTGGACGAACGTCTGAACTTGTCAAACTGTTACGAGTTCTTTTATAACATCGTTTCCA-TAA
1 TTCTTGGACGAACGTCTGAACTTATCAAACTGTTACGAGTTCTTTTATAACATCGGTT-AATTAA
* * * * *
87957 AGTATTCAAGACT-ATCGAATCCTTCGAGCAATTTTTCGAATA-TTTCATTCTCAAGAAATCGAA
65 AGTATTCAAGA-TGATCCAATCCTTCGAGCAA-TTTTC-AAAACTTCCATGCACAAGAAATCGAA
*
88020 TCATTTGGTCTAAATAGT
127 TCATTTGGTATAAATAGT
88038 TT
1 TT
88040 TTCATTTTGT
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
145 116 0.92
146 7 0.06
147 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (144 bp):
TTCTTGGACGAACGTCTGAACTTATCAAACTGTTACGAGTTCTTTTATAACATCGGTTAATTAAA
GTATTCAAGATGATCCAATCCTTCGAGCAATTTTCAAAACTTCCATGCACAAGAAATCGAATCAT
TTGGTATAAATAGT
Found at i:88201 original size:361 final size:360
Alignment explanation
Indices: 87532--88243 Score: 882
Period size: 361 Copynumber: 2.0 Consensus size: 360
87522 TTTGTCTTGG
* * * * * *
87532 TTCTTGGACGAACTTCTGAACTTTTCTAAATTTTATGAGTTCTTTTATAACTTCAGTTCCTTAAA
1 TTCTTGGACGAACGTCTGAACTTGTCTAAATGTTACGAGTTCTTTTATAACATCAGTTCCATAAA
*
87597 GTATTCAAGATCATCCAATCCTTCAAACAATTTTCTGAACATTCCATGCACGAGAAATCACATCA
66 GTATTCAAGATCATCCAATCCTTCAAACAATTTTCTGAACATTCCATGCACAAGAAATCACATCA
* * **
87662 TTTGGTCTAAATAATTTTACAGTTTGTAAACAAGTTTTGGTACTTGAATTAAAAACTTATTTATG
131 TTTGGTCTAAATAATTTTACAGTTTGTAAAAAAGTTTTGGTACTTCAATTAAAAACTTATTTACA
* * * * * *
87727 TGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCTGAACTTATCAAACTTTTACGAGTTCTT
196 TGAGAATTGTTTCTCTCTTCGTTCGTAGACGAACTTCCGAACTTATAAAACTTTTACGAGTTCTT
* * * * * * *
87792 TTATGACTTCGGTTAATTAAAGTATTCAAGATGATCCAATCCTTCGAGC-AATTTTCAAAACGTT
261 TCATAACTTCGGCTAATTAAACTATTCAAGACGATCCAATCATTCGAGCAAATTTTC-AAACATT
*
87856 CCATGCACAGGAAATCGCATCATTTGGTATAACTAGT
325 CCAAGCAC-GGAAATCGCATCATTTGGTATAACTAGT
87893 TTCTTGGACGAACGTCTGAACTTGTC-AAACTGTTACGAGTTCTTTTATAACATC-GTTTCCATA
1 TTCTTGGACGAACGTCTGAACTTGTCTAAA-TGTTACGAGTTCTTTTATAACATCAG-TTCCATA
* * * * * * *
87956 AAGTATTCAAGA-CTATCGAATCCTTCGAGCAATTTT-TCGAATATTTCATTCTCAAGAAATCGA
64 AAGTATTCAAGATC-ATCCAATCCTTCAAACAATTTTCT-GAACATTCCATGCACAAGAAATC-A
* * *
88019 -ATCATTTGGTCTAAATAGTTTTTCATTTTGTAAAAAAGTTTTGGT-CTTTCAATTAAAAACTTA
126 CATCATTTGGTCTAAATAATTTTACAGTTTGTAAAAAAGTTTTGGTAC-TTCAATTAAAAACTTA
* *
88082 TTTACATGAGAATTTTTTCTCTCTTCGTTCGTAGACGAACTTCCGAGC-TAGTAAAACTTTTACG
190 TTTACATGAGAATTGTTTCTCTCTTCGTTCGTAGACGAACTTCCGAACTTA-TAAAACTTTTACG
** * * * *
88146 AGTTCTTTCATAACTTCGGCTCCTTAATCTATTTAGGACGATCTAATCATTCGAGCAAATTTTCA
254 AGTTCTTTCATAACTTCGGCTAATTAAACTATTCAAGACGATCCAATCATTCGAGCAAATTTTCA
* *
88211 AACATTCCAAGCTCGGAAATCGCTTCATTTGGT
319 AACATTCCAAGCACGGAAATCGCATCATTTGGT
88244 CAAAATAGTT
Statistics
Matches: 298, Mismatches: 45, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
360 27 0.09
361 263 0.88
362 8 0.03
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (360 bp):
TTCTTGGACGAACGTCTGAACTTGTCTAAATGTTACGAGTTCTTTTATAACATCAGTTCCATAAA
GTATTCAAGATCATCCAATCCTTCAAACAATTTTCTGAACATTCCATGCACAAGAAATCACATCA
TTTGGTCTAAATAATTTTACAGTTTGTAAAAAAGTTTTGGTACTTCAATTAAAAACTTATTTACA
TGAGAATTGTTTCTCTCTTCGTTCGTAGACGAACTTCCGAACTTATAAAACTTTTACGAGTTCTT
TCATAACTTCGGCTAATTAAACTATTCAAGACGATCCAATCATTCGAGCAAATTTTCAAACATTC
CAAGCACGGAAATCGCATCATTTGGTATAACTAGT
Found at i:88416 original size:576 final size:576
Alignment explanation
Indices: 87320--88421 Score: 1341
Period size: 576 Copynumber: 1.9 Consensus size: 576
87310 CTCTTGGTTA
* * * *
87320 TTGGACGAAGCTTTGAACTTGTCAAACTTTTTCAAGTCCTTTTATAACTTCGATTCCAATAAGTA
1 TTGGACGAAGCTCTGAACTTGTCAAACTGTTACAAGTCCTTTTATAACATCGATTCCAATAAGTA
* *** *
87385 TTCATGACGATGCAATCCTTCGAGCAATTTTCTAAACATTCCATGCTTGGGAAATCGTATCATTT
66 TTCAAGACGATGCAATCCTTCGAGCAATTTTCTAAACATTCCATGCTCAAGAAATCGAATCATTT
* *
87450 GGTCTAAATAGTTTTTCATCTTGAAACAAGTTTTGGTATTTGAATTAAAAACTTATTTACAAGAG
131 GGTCTAAATAGTTTTTCATCTTGAAAAAAGTTTTGGTATTTCAATTAAAAACTTATTTACAAGAG
* * * * * ** * * *
87515 AATTGCTTTTGTCTTGGTTCTTGGACGAACTTCTGAACTTTTCTAAATTTTATGAGTTCTTTTAT
196 AATTGCTTTTCTCTTCGTTCGTAGACGAACTTCCGAACTAGTCAAAATTTTACGAGTTCTTTCAT
* * * * *
87580 AACTTCAGTTCCTTAAAGTATTCAAGATCATCCAATCCTTCAAACAATTTTCTGAACATTCCATG
261 AACTTCAGCTCCTTAAACTATTCAAGATCATCCAATCATTCAAACAATTTTCTAAACATTCCAAG
* *
87645 CACGAGAAATCACATCATTTGGTCTAAATAATTTTACAGTTTGTAAACAAGTTTTGGTACTTGAA
326 CACGAGAAATCACATCATTTGGTCAAAATAATTTTACAGTTTATAAACAAGTTTTGGTACTTGAA
* ** ** *
87710 TTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCTGAACTTATCA
391 TTAAAAACTTATTTAGGTGAGAATCATTTCTCTCTTGGTTCTTGGACAAACTTCTAAACTTATCA
* * * *
87775 AACTTTTACGAGTTCTTTTATGACTTCGGTTAATTAAAGTATTCAAGATGATCCAATCCTTCGAG
456 AACTTTTACGAGTTCTTTTATAACTTCAGTTAATTAAAGTATTCAAGACGATCCAATCATTCGAG
87840 CAATTTTCAAAACGTTCCATGCACAGGAAATCGCATCATTTGGTATAACTAGTTTC
521 CAATTTTCAAAACGTTCCATGCACAGGAAATCGCATCATTTGGTATAACTAGTTTC
* * *
87896 TTGGACGAA-CGTCTGAACTTGTCAAACTGTTACGAGTTCTTTTATAACATCGTTTCC-ATAAAG
1 TTGGACGAAGC-TCTGAACTTGTCAAACTGTTACAAGTCCTTTTATAACATCGATTCCAAT-AAG
* * * * *
87959 TATTCAAGACTAT-CGAATCCTTCGAGCAATTTT-TCGAATATTTCATTCTCAAGAAATCGAATC
64 TATTCAAGACGATGC-AATCCTTCGAGCAATTTTCT-AAACATTCCATGCTCAAGAAATCGAATC
* *
88022 ATTTGGTCTAAATAGTTTTTCATTTTGTAAAAAAGTTTTGGTCTTTCAATTAAAAACTTATTTAC
127 ATTTGGTCTAAATAGTTTTTCATCTTG-AAAAAAGTTTTGGTATTTCAATTAAAAACTTATTTAC
* * *
88087 ATGAGAATT-TTTTCTCTCTTCGTTCGTAGACGAACTTCCGAGCTAGT-AAAACTTTTACGAGTT
191 AAGAGAATTGCTTT-TCTCTTCGTTCGTAGACGAACTTCCGAACTAGTCAAAA-TTTTACGAGTT
* * * * * * *
88150 CTTTCATAACTTCGGCTCCTTAATCTATTTAGGA-CGATCTAATCATTCGAGCAAATTTTC-AAA
254 CTTTCATAACTTCAGCTCCTTAAACTATTCAAGATC-ATCCAATCATTCAAAC-AATTTTCTAAA
* * * * * * *
88213 CATTCCAAGCTCG-GAAATCGCTTCATTTGGTCAAAATAGTTTTTCATTTTATAAACAAGTTTTT
317 CATTCCAAGCACGAGAAATCACATCATTTGGTCAAAATAATTTTACAGTTTATAAACAAGTTTTG
*
88277 GTA-TTCGAATTAAAAACTTATTTAGGTTAGAATCATTTCTCTCTTGGTT-TGTGGACAAACTT-
382 GTACTT-GAATTAAAAACTTATTTAGGTGAGAATCATTTCTCTCTTGGTTCT-TGGACAAACTTC
* * ** *
88339 TCAAACTTGTTAAACTTTTACGAGTTCTTTCT-TAACTTCAGTTTGTTAAAGTATTCATGACGAT
445 T-AAACTTATCAAACTTTTACGAGTTCTTT-TATAACTTCAGTTAATTAAAGTATTCAAGACGAT
88403 CCAAAT-ATTCGAGCAATTT
508 CC-AATCATTCGAGCAATTT
88422 CTCGAACAGT
Statistics
Matches: 441, Mismatches: 71, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
575 9 0.02
576 292 0.66
577 133 0.30
578 7 0.02
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (576 bp):
TTGGACGAAGCTCTGAACTTGTCAAACTGTTACAAGTCCTTTTATAACATCGATTCCAATAAGTA
TTCAAGACGATGCAATCCTTCGAGCAATTTTCTAAACATTCCATGCTCAAGAAATCGAATCATTT
GGTCTAAATAGTTTTTCATCTTGAAAAAAGTTTTGGTATTTCAATTAAAAACTTATTTACAAGAG
AATTGCTTTTCTCTTCGTTCGTAGACGAACTTCCGAACTAGTCAAAATTTTACGAGTTCTTTCAT
AACTTCAGCTCCTTAAACTATTCAAGATCATCCAATCATTCAAACAATTTTCTAAACATTCCAAG
CACGAGAAATCACATCATTTGGTCAAAATAATTTTACAGTTTATAAACAAGTTTTGGTACTTGAA
TTAAAAACTTATTTAGGTGAGAATCATTTCTCTCTTGGTTCTTGGACAAACTTCTAAACTTATCA
AACTTTTACGAGTTCTTTTATAACTTCAGTTAATTAAAGTATTCAAGACGATCCAATCATTCGAG
CAATTTTCAAAACGTTCCATGCACAGGAAATCGCATCATTTGGTATAACTAGTTTC
Found at i:89028 original size:216 final size:216
Alignment explanation
Indices: 87893--90579 Score: 2787
Period size: 216 Copynumber: 12.5 Consensus size: 216
87883 TATAACTAGT
* * * * *
87893 TTCTTGGACGAACGTCTGAACTTGTCAAACTGTTACGAGTTCTTTTATAACATCGTTTCCATAAA
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * * *
87958 GTATTCAAGACTATCGAATCCTTCGAGCAATTTT-TCGAATATTTCATTCTCAAGAAATCGA-AT
66 GTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATC-ACAT
* * *
88021 CATTTGGTCTAAATAGTTTTTCATTTTGTAAAAAAGTTTTGGTCTTTCAATTAAAAACTTATTTA
130 CATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTC-TTGAATTAAAAACTTATTTA
* * *
88086 CATGAGAATTTTTTCTCTCTTCG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * * * * * * *
88109 TTCGTAGACGAACTTCCGAGCTAGTAAAACTTTTACGAGTTCTTTCATAACTTCGGCTCCTTAAT
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * * * * *
88174 CTATTTAGGACGATCTAATCATTCGAGCAAATTT-TCAAACATTCCAAGCTCG-GAAATCGCTTC
66 GTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACATC
* * * *
88237 ATTTGGTCAAAATAGTTTTTCATTTTATAAACAAGTTTTTGTATTCGAATTAAAAACTTATTTAG
131 ATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTT-GAATTAAAAACTTATTTAC
* **
88302 GTTAGAATCATTTCTCTCTTGG
195 GTGAGAATTGTTTCTCTCTTGG
* * * * **
88324 TT-TGTGGACAAACTT-TCAAACTTGTTAAACTTTTACGAGTTCTTTCT-TAACTTCAGTTTGTT
1 TTCT-TGGACGAACTTCT-GAACTTGTCAAACTTTTACGAGTTCTTT-TATAACTTCGGTTCCTT
* * * * * *
88386 AAAGTATTCATGACGATCCAAAT-ATTCGAGCAA-TTTCTCGAACAGTCCACGCTCGAGAAATCC
63 AAAGTATTCAAGACGATCC-AATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCA
* * * *
88449 CATCATTTGGTCAAAATATTTTTTTTTCATTTTGTAAACAAGGTTTGGTCTTCGAAATAAAATCT
127 CATCATTTGGTCAAAATA---GTTTTTCATTTTGTAAACAAGTTTTGGTCTT-GAATTAAAAACT
88514 TATTTACGTGAGAATTGTTTCTCTCTTGG
188 TATTTACGTGAGAATTGTTTCTCTCTTGG
* * * ** * *
88543 TTATAGGACAAACTT-TCGAACTTCCCAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAA
1 TTCTTGGACGAACTTCT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAA
* * * * * *
88607 AATATTCAAGAGGATCAAATCCTTCGAGCAATTTT-TCAAACATTCCATTCACGAGAAATCTCAT
65 AGTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACAT
* * * ** * *
88671 TATTTAGTCAAAATAG-TTTGCATTTCATAAA-AGGTTTTGGTATTTGAATTAAAAACTTATTTA
130 CATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGT-CTTGAATTAAAAACTTATTTA
** *
88734 CAAGAAAATTGTTTCTCTCTTGG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * * *
88757 TTCTTGGACGAACTGCCGAACTTTTCTAAA-TTTTATGAGTTCCTTTATAACTTCGGTTCCTTAA
1 TTCTTGGACGAACTTCTGAACTTGTC-AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAA
* * *
88821 AGTATTCAAGATC-ATCCAATCCTTCGAACAATTTTCT-GAACATTCCATGCACGAGAAATCACA
65 AGTATTCAAGA-CGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACA
* *
88884 TCATTTGGTCTAAATAATTTTTCATTTTGTAAACAAGTTTTGGTACTTGAATTAAAAACTTATTT
129 TCATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGT-CTTGAATTAAAAACTTATTT
*
88949 ATGTGAGAATTGTTTCTCTCTTGG
193 ACGTGAGAATTGTTTCTCTCTTGG
* * * **
88973 TTCTTGGATGAACTTCTAAACTTGTCAAACTTTTACGAGTTCTTTTATGACTTCGGTTAATTAAA
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * *
89038 GTATTCAAGATGATTCATTCCTTCGAGCAATTTTC-AAAACATTCCATGCTC-AGGAAAACGCAT
66 GTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGA-GAAATCACAT
* * * * *
89101 CATTTGGTCTAAGTAGTTTGTCTTTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAA-ATATTTA
130 CATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTC-TTGAATTAAAAACTTATTTA
* * *
89165 TGTGAGAATTATTTCTCTCTAGG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * * * *
89188 TTCTTGGACGAACGTCTTAACTTGTCAAACTATTACGAGTTCTTTTATAACATCGTTTCCATAAA
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * * *
89253 GTATTCAAGACTATCGAATCCTTTGAGCAATTTT-TCGAACATTTCATTCTCAAGAAATCGA-AT
66 GTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATC-ACAT
* * * * * * *
89316 CATTTGGTCTAAATAGTTTTCCAATTTGCAAAAAAGTTTTGGTCTTTCAATTATAAACTTATTTA
130 CATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTC-TTGAATTAAAAACTTATTTA
* * *
89381 TGTGAGAATTTTTTCTCTCTTCG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * * * **
89404 TT-TGTGGATGAAATTCTGAACTAGTAAAACTTTTACGAGTTCTTTCATAACTTCGACTCCTTAA
1 TTCT-TGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAA
** * * * * * * *
89468 TCTATTCAAGATGATCCAATCATTCGAGCAATTTT-TCGAACATTCCAAGCTCG-GGAATCGCTT
65 AGTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACAT
* * *
89531 CATTTGGTCAAAATAGTTTTTCATTTTATAAACAAGTTTTTGTATTTGAATTAAAAACTTATTTA
130 CATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGT-CTTGAATTAAAAACTTATTTA
* * *
89596 TGTGAGAATCGTTTCTCTCGTGG
194 CGTGAGAATTGTTTCTCTCTTGG
* * ** * * *
89619 TT-TGTGGACGAACTTCCGAACTCGTCAAACTTTTATAAGTTCTTTCT-TATCTTCGATTCGTTA
1 TTCT-TGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTT-TATAACTTCGGTTCCTTA
* * * *
89682 AAGCATTCAAGACGATCCAAATAC-TCGAGCAATTTT-TCAAACATTCCATGCTCAAGAAATCGC
64 AAGTATTCAAGACGATCC-AATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCAC
* *
89745 ATCATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAATCTTATT
128 ATCATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTC-TTGAATTAAAAACTTATT
* *
89810 TACGTGAAAATTGTTTCTCTATTGG
192 TACGTGAGAATTGTTTCTCTCTTGG
* * * *
89835 TTATCGGACGAACTTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAA
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * * *
89900 ATATTCAAGACTATCAAATCCTTCGAGAAAATTT-TCAAACATTCCATGCTCGAGAAATCGCATT
66 GTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACATC
* * *
89964 ATTTTGTCAAAATAG-TTTGCATTTTGTAAA-AAGTTTTGGTATTTGAATTAAAAACTTATTTAC
131 ATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGT-CTTGAATTAAAAACTTATTTAC
** *
90027 AAGAGAATTGATTCTCTCTTGG
195 GTGAGAATTGTTTCTCTCTTGG
* * * *
90049 TTCTTGGACGAACTTCAGAACTTTTCAAAATTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAA
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * *
90114 GTATTCAAGATC-ATCCAATCCTTCGAACAATTTTC-CGAACATTCCATGCACGAGAAATCATAT
66 GTATTCAAGA-CGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACAT
* *
90177 CATTTGGTCTAAATAATTTTTCATTTTGTAAACAAGTTTTGGTGCTTGAATTAAAAACTTATTTA
130 CATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGT-CTTGAATTAAAAACTTATTTA
* * *
90242 TGTGAGAATTGTTTTTCTCTTAG
194 CGTGAGAATTGTTTCTCTCTTGG
* * * ** **
90265 TTCTTGGATGAACTTCTGAACTTGTCAAACTTTTACGAATTCTTTTATGACTTCATTTAATTAAA
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * *
90330 GTATTCAAGACGATTCATTCCTTCGAGCAATTTTC-AAAACATTCCATGCTCGGGAAATCACATC
66 GTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACATC
* * * * * * *
90394 ATTTGGTCTAAGTAGTTTGTCTTTTTGTAAATAAGTTTTGTTCTTTGAATTAAAAAATTATTTAC
131 ATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTC-TTGAATTAAAAACTTATTTAC
* *
90459 GTGAGAATTATTTCTCTCTAGG
195 GTGAGAATTGTTTCTCTCTTGG
* * * * * * *
90481 TTCTTGGATGAACGTCTAAACTTGTCAAACTATTACGAGTTCTTTTATAACATCGTTTCCATAAA
1 TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* *
90546 GTATTCAAGACTATCGAATCCTTCGAGCAATTTT
66 GTATTCAAGACGATCCAATCCTTCGAGCAATTTT
90580 TCGAATATTT
Statistics
Matches: 2046, Mismatches: 377, Indels: 96
0.81 0.15 0.04
Matches are distributed among these distances:
214 329 0.16
215 585 0.29
216 953 0.47
217 1 0.00
218 4 0.00
219 170 0.08
220 4 0.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (216 bp):
TTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
GTATTCAAGACGATCCAATCCTTCGAGCAATTTTCTCAAACATTCCATGCTCGAGAAATCACATC
ATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTGAATTAAAAACTTATTTACG
TGAGAATTGTTTCTCTCTTGG
Found at i:89355 original size:431 final size:430
Alignment explanation
Indices: 87888--90584 Score: 2986
Period size: 431 Copynumber: 6.3 Consensus size: 430
87878 TTTGGTATAA
* * *
87888 CTAGTTTCTTGGACGAACGTCTGAACTTGTCAAACTGTTACGAGTTCTTTTATAACATCGTTTCC
1 CTAGGTTCTTGGACGAACGTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGTTTCC
* * * *
87953 ATAAAGTATTCAAGACTATCGAATCCTTCGAGCAATTTTTCGAATATTTCATTCTCAAGAAATCG
66 TTAAAGTATTCAAGACTATCGAATCCTTCGAGCAATTTTTCGAACATTCCATGCTCAAGAAATCG
* *
88018 AATCATTTGGTCTAAATAGTTTTTCATTTTGTAAAAAAGTTTTGGTCTTTCAATTAAAAACTTAT
131 AATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTAT
* * * * * * * * *
88083 TTACATGAGAATTTTTTCTCTCTTCGTTCGTAGACGAACTTCCGAGCTAGTAAAACTTTTACGAG
196 TTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAG
* * ** * * * * *
88148 TTCTTTCATAACTTCGGCTCCTTAATCTATTTAGGACGATCTAATCATTCGAGCAAATTTTCAAA
261 TTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGATGATCAAATCCTTCGAGC-AATTTTCAAA
* * * *
88213 CATTCCAAGCTCGGAAATCGCTTCATTTGGTCAAAATAGTTTTTCATTTTATAAACAAGTTTTTG
325 CATTCCATGCTCGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTATAAACAAGTTTTGG
* * * *
88278 TATTCGAATTAAAAACTTATTTAGGTTAGAATCATTTCTCT
390 TATTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCT
* * * * *
88319 CTTGGTT-TGTGGACAAAC-TTTCAAACTTGTTAAACTTTTACGAGTTCTTTCT-TAACTTCAGT
1 CTAGGTTCT-TGGACGAACGTCT-GAACTTGTCAAACTTTTACGAGTTCTTT-TATAACTTC-GT
* * * * * * * * *
88381 TT-GTTAAAGTATTCATGACGATCCAAAT-ATTCGAGCAATTTCTCGAACAGTCCACGCTCGAGA
62 TTCCTTAAAGTATTCAAGACTAT-CGAATCCTTCGAGCAATTTTTCGAACATTCCATGCTCAAGA
** * * * * *
88444 AATCCCATCATTTGGTCAAAATATTTTTTTTTCATTTTGTAAACAAGGTTTGGTCTTCGAAATAA
126 AATCGAATCATTTGGTCTAAATA---GTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
* * * * **
88509 AATCTTATTTACGTGAGAATTGTTTCTCTCTTGGTTATAGGACAAACTT-TCGAACTTCCCAAAC
188 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCT-GAACTTGTCAAAC
* * *
88573 TTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCAAGAGGATCAAATCCTTCGAGCAA
252 TTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGATGATCAAATCCTTCGAGCAA
* * * * * *
88638 TTTTTCAAACATTCCATTCACGAGAAATCTCATTATTTAGTCAAAATAGTTTG-CATTTCATAAA
317 -TTTTCAAACATTCCATGCTCG-GAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTATAAA
* ** * *
88702 -AGGTTTTGGTATTTGAATTAAAAACTTATTTACAAGAAAATTGTTTCTCT
380 CAAGTTTTGGTATTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCT
* * * * * *
88752 CTTGGTTCTTGGACGAAC-TGCCGAACTTTTCTAAA-TTTTATGAGTTCCTTTATAACTTCGGTT
1 CTAGGTTCTTGGACGAACGT-CTGAACTTGTC-AAACTTTTACGAGTTCTTTTATAACTTCGTTT
* * * *
88815 CCTTAAAGTATTCAAGA-TCATCCAATCCTTCGAACAA-TTTTCTGAACATTCCATGCACGAGAA
64 CCTTAAAGTATTCAAGACT-ATCGAATCCTTCGAGCAATTTTTC-GAACATTCCATGCTCAAGAA
*
88878 ATC-ACATCATTTGGTCTAAATAATTTTTCATTTTGTAAACAAGTTTTGGTAC-TTGAATTAAAA
127 ATCGA-ATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGT-CTTTGAATTAAAA
* * *
88941 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCTAAACTTGTCAAACTTT
190 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTT
* ** * *
89006 TACGAGTTCTTTTATGACTTCGGTTAATTAAAGTATTCAAGATGATTC-ATTCCTTCGAGCAATT
255 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGATGA-TCAAATCCTTCGAGCAATT
* * * * *
89070 TTCAAAACATTCCATGCTCAGGAAAACGCATCATTTGGTCTAAGTAGTTTGTCTTTTTGTAAACA
319 TTC-AAACATTCCATGCTC-GGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTATAAACA
* * *
89135 AGTTTTGGTCTTTGAATTAAAAA-ATATTTATGTGAGAATTATTTCTCT
382 AGTTTTGGTATTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCT
* * *
89183 CTAGGTTCTTGGACGAACGTCTTAACTTGTCAAACTATTACGAGTTCTTTTATAACATCGTTTCC
1 CTAGGTTCTTGGACGAACGTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGTTTCC
* * * *
89248 ATAAAGTATTCAAGACTATCGAATCCTTTGAGCAATTTTTCGAACATTTCATTCTCAAGAAATCG
66 TTAAAGTATTCAAGACTATCGAATCCTTCGAGCAATTTTTCGAACATTCCATGCTCAAGAAATCG
* * * * * *
89313 AATCATTTGGTCTAAATAGTTTTCCAATTTGCAAAAAAGTTTTGGTCTTTCAATTATAAACTTAT
131 AATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTAT
* * * * * * *
89378 TTATGTGAGAATTTTTTCTCTCTTCGTT-TGTGGATGAAATTCTGAACTAGTAAAACTTTTACGA
196 TTACGTGAGAATTGTTTCTCTCTTGGTTCT-TGGACGAACTTCTGAACTTGTCAAACTTTTACGA
* ** ** * * *
89442 GTTCTTTCATAACTTCGACTCCTTAATCTATTCAAGATGATCCAATCATTCGAGCAATTTTTCGA
260 GTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGATGATCAAATCCTTCGAGCAA-TTTTCAA
* * * * *
89507 ACATTCCAAGCTCGGGAATCGCTTCATTTGGTCAAAATAGTTTTTCATTTTATAAACAAGTTTTT
324 ACATTCCATGCTCGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTATAAACAAGTTTTG
* **
89572 GTATTTGAATTAAAAACTTATTTATGTGAGAATCGTTTCTCT
389 GTATTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCT
* * * ** * *
89614 CGT-GGTT-TGTGGACGAACTTCCGAACTCGTCAAACTTTTATAAGTTCTTTCT-TATCTTCGAT
1 C-TAGGTTCT-TGGACGAACGTCTGAACTTGTCAAACTTTTACGAGTTCTTT-TATAACTTCGTT
* * * * * *
89676 TCGTTAAAGCATTCAAGACGATCCAAATAC-TCGAGCAATTTTTCAAACATTCCATGCTCAAGAA
63 TCCTTAAAGTATTCAAGACTAT-CGAATCCTTCGAGCAATTTTTCGAACATTCCATGCTCAAGAA
* * * *
89740 ATCGCATCATTTGGTCAAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAATC
127 ATCGAATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAAC
* * * * *
89805 TTATTTACGTGAAAATTGTTTCTCTATTGGTTATCGGACGAACTTTTGAACTTGTCAAACTTTTA
192 TTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTA
* *
89870 CGAGTTCTTTTATAACTTCAGTTCCTTAAAATATTCAAGACT-ATCAAATCCTTCGAGAAAATTT
257 CGAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGA-TGATCAAATCCTTCGAG-CAATTT
* * *
89934 TCAAACATTCCATGCTCGAGAAATCGCATTATTTTGTCAAAATAGTTTG-CATTTTGTAAA-AAG
320 TCAAACATTCCATGCTCG-GAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTATAAACAAG
**
89997 TTTTGGTATTTGAATTAAAAACTTATTTACAAGAGAATTGA-TTCTCT
384 TTTTGGTATTTGAATTAAAAACTTATTTACGTGAGAATT-ATTTCTCT
* * * * * * *
90044 CTTGGTTCTTGGACGAACTTCAGAACTTTTCAAAATTTTATGAGTTCTTTTATAACTTCGGTTCC
1 CTAGGTTCTTGGACGAACGTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGTTTCC
* * * * *
90109 TTAAAGTATTCAAGA-TCATCCAATCCTTCGAACAATTTTCCGAACATTCCATGCACGAGAAATC
66 TTAAAGTATTCAAGACT-ATCGAATCCTTCGAGCAATTTTTCGAACATTCCATGCTCAAGAAATC
*
90173 -ATATCATTTGGTCTAAATAATTTTTCATTTTGTAAACAAGTTTTGGTGC-TTGAATTAAAAACT
130 GA-ATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGT-CTTTGAATTAAAAACT
* * * *
90236 TATTTATGTGAGAATTGTTTTTCTCTTAGTTCTTGGATGAACTTCTGAACTTGTCAAACTTTTAC
193 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTAC
* * ** ** * * *
90301 GAATTCTTTTATGACTTCATTTAATTAAAGTATTCAAGACGATTC-ATTCCTTCGAGCAATTTTC
258 GAGTTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGATGA-TCAAATCCTTCGAGCAATTTTC
* * * * * *
90365 AAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAGTAGTTTGTCTTTTTGTAAATAAGT
322 -AAACATTCCATGCTC-GGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTATAAACAAGT
* * *
90430 TTTGTTCTTTGAATTAAAAAATTATTTACGTGAGAATTATTTCTCT
385 TTTGGTATTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCT
* * * *
90476 CTAGGTTCTTGGATGAACGTCTAAACTTGTCAAACTATTACGAGTTCTTTTATAACATCGTTTCC
1 CTAGGTTCTTGGACGAACGTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGTTTCC
*
90541 ATAAAGTATTCAAGACTATCGAATCCTTCGAGCAATTTTTCGAA
66 TTAAAGTATTCAAGACTATCGAATCCTTCGAGCAATTTTTCGAA
90585 TATTTCATTC
Statistics
Matches: 1884, Mismatches: 321, Indels: 121
0.81 0.14 0.05
Matches are distributed among these distances:
429 19 0.01
430 583 0.31
431 720 0.38
432 227 0.12
433 145 0.08
434 165 0.09
435 25 0.01
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (430 bp):
CTAGGTTCTTGGACGAACGTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGTTTCC
TTAAAGTATTCAAGACTATCGAATCCTTCGAGCAATTTTTCGAACATTCCATGCTCAAGAAATCG
AATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTAT
TTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACGAG
TTCTTTTATAACTTCGGTTCCTTAAAATATTCAAGATGATCAAATCCTTCGAGCAATTTTCAAAC
ATTCCATGCTCGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTATAAACAAGTTTTGGT
ATTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCT
Found at i:90001 original size:19 final size:20
Alignment explanation
Indices: 89964--89999 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89954 AAATCGCATT
89964 ATTTTGTCAAAATAGTTTGC
1 ATTTTGTCAAAATAGTTTGC
89984 ATTTTGT-AAAA-AGTTT
1 ATTTTGTCAAAATAGTTT
90000 TGGTATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.31
19 4 0.25
20 7 0.44
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (20 bp):
ATTTTGTCAAAATAGTTTGC
Done.