Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009623.1 Kokia drynarioides strain JFW-HI SEQ_124339, 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: 17315
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:640 original size:6 final size:6
Alignment explanation
Indices: 606--667 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
596 TAATAGGGAT
* * * *
606 TTTCAA TTTACAA -TTC-A TATCAC TTTCAA TTTCAA TTTCAC TTTCAC
1 TTTCAA TTT-CAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
*
653 TTTCAC TTTCAA TTT
1 TTTCAA TTTCAA TTT
668 TGATCACAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.02
5 3 0.06
6 40 0.85
7 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTCAA
Found at i:5619 original size:23 final size:23
Alignment explanation
Indices: 5575--5622 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
5565 ATTGTTTTTC
* * *
5575 TTTTTTAAATTTTACTCATTTAT
1 TTTTTTAAAATTAAATCATTTAT
*
5598 TTTTTTAAAATTAAATCCTTTAT
1 TTTTTTAAAATTAAATCATTTAT
5621 TT
1 TT
5623 GTATTTTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTTAAAATTAAATCATTTAT
Found at i:5639 original size:54 final size:54
Alignment explanation
Indices: 5537--5655 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 54
5527 TTATTTAAAT
* * * * * *
5537 TTTATTTTAATTTAAATTTAATCCTTTTATTGTTTTTCTTTTTTAAATTTTACTCA
1 TTTATTTT--TTTAAATTAAATCCTTTTATTGTATTTCTTGTTAAAATTTAACCCA
*
5593 TTTATTTTTTTAAAATTAAATCC-TTTATTTGTATTT-TTGTTAAAATTTAACCCT
1 TTTATTTTTTT-AAATTAAATCCTTTTA-TTGTATTTCTTGTTAAAATTTAACCCA
5647 TTTATTTTT
1 TTTATTTTT
5656 ATTTCTTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
54 29 0.54
55 17 0.31
56 8 0.15
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (54 bp):
TTTATTTTTTTAAATTAAATCCTTTTATTGTATTTCTTGTTAAAATTTAACCCA
Found at i:5659 original size:31 final size:30
Alignment explanation
Indices: 5593--5684 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
5583 ATTTTACTCA
*
5593 TTTATTTTTTTAAAATTAAATCC-TTTATT
1 TTTATTTTTTTAAAATTTAATCCTTTTATT
* *
5622 TGTATTTTTGTTAAAATTTAACCCTTTTATT
1 TTTATTTTT-TTAAAATTTAATCCTTTTATT
*
5653 TTTATTTCTTTTAAAAATT-ATCCTTTTATT
1 TTTATTT-TTTTAAAATTTAATCCTTTTATT
5683 TT
1 TT
5685 GTTTTGTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 8 0.15
30 24 0.44
31 20 0.37
32 2 0.04
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTATTTTTTTAAAATTTAATCCTTTTATT
Found at i:5680 original size:30 final size:30
Alignment explanation
Indices: 5593--5684 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 30
5583 ATTTTACTCA
5593 TTTATTTTTTT-AAAATTAAATCC-TTTATT
1 TTTATTTTTTTAAAAATT-AATCCTTTTATT
* * *
5622 TGTATTTTTGTTAAAATTTAACCCTTTTATT
1 TTTATTTTT-TTAAAAATTAATCCTTTTATT
5653 TTTATTTCTTTTAAAAATT-ATCCTTTTATT
1 TTTATTT-TTTTAAAAATTAATCCTTTTATT
5683 TT
1 TT
5685 GTTTTGTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 8 0.15
30 18 0.34
31 25 0.47
32 2 0.04
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTATTTTTTTAAAAATTAATCCTTTTATT
Found at i:10740 original size:17 final size:19
Alignment explanation
Indices: 10704--10746 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
10694 GAAAAAAAAG
* *
10704 AAAGAAAAAGAATATGG-A
1 AAAGAAAAAGAAGAAGGAA
10722 AAAGAAAAA-AAGAAGGAA
1 AAAGAAAAAGAAGAAGGAA
10740 AAAGAAA
1 AAAGAAA
10747 GGGAGAGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAGAAAAAGAAGAAGGAA
Found at i:11193 original size:112 final size:112
Alignment explanation
Indices: 11060--11265 Score: 333
Period size: 112 Copynumber: 1.8 Consensus size: 112
11050 AATGTTCGTT
*
11060 ATTTTTAATCTTTTCATTCATGCGAGTTTTGCCTCCAATAAAACTCAATTTTATCCACCTTACA-
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAACTCAATTTTATCCACCTTACAT
*
11124 ACCTTATTCAATCATTTTTGCATTGAAATAACGGTTAGTGGACCAATG
66 ACC-TATTCAAACATTTTTGCATTGAAATAACGGTTAGTGGACCAATG
* * *
11172 ATTTTTAATCTTTTCATTCATGCGAGCTTTGTCTCTAATAAAACTCAATTTTATCCATCTTACAT
1 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAACTCAATTTTATCCACCTTACAT
* *
11237 TCCTGTTCAAACATTTTTGCATTGAAATA
66 ACCTATTCAAACATTTTTGCATTGAAATA
11266 GAAATTAGTG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
112 84 0.98
113 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (112 bp):
ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAACTCAATTTTATCCACCTTACAT
ACCTATTCAAACATTTTTGCATTGAAATAACGGTTAGTGGACCAATG
Found at i:12185 original size:146 final size:146
Alignment explanation
Indices: 11977--12359 Score: 437
Period size: 146 Copynumber: 2.6 Consensus size: 146
11967 CTTAGAAATG
* * * * * * * *
11977 TGAAGGTAAAGATTGAGGCCACAACAACAAATCTTGTACCTTAGAGATGTGAAGGGAAAGGTTAA
1 TGAAGGGAAAGATCGAGGCCGCAACAGCGAACCTTATACCTTAGAGATGTGAAGGGAAAGGTTGA
** * *
12042 GGCCGCAATGGCGAACCTTATACCCTAGAAATAAGAGGGCTAGATTGAAGTCATAACGACGAATC
66 GGCCAAAATGGCGAACCTTATACCCTAGAAATAAGAGGGCTAGATTGAAGCCACAACGACGAATC
*
12107 TTAAACCTTAA-AGACA
131 TTAAACCCTAATA-ACA
** * *
12123 TGAAGGGAGCGATCGATGCCGCAACGGCGAACCTTATAACC-TAGAGATGTGAAGGGAAAGGTTG
1 TGAAGGGAAAGATCGAGGCCGCAACAGCGAACCTTAT-ACCTTAGAGATGTGAAGGGAAAGGTTG
** * * * * * * *
12187 AGGCCAAAACAGTGAACCTTATAACTTAGAAATAATAGGGTTAGATTGAAGCCGCAATGACGAAT
65 AGGCCAAAATGGCGAACCTTATACCCTAGAAATAAGAGGGCTAGATTGAAGCCACAACGACGAAT
* **
12252 CTTGAACCCTAATAATG
130 CTTAAACCCTAATAACA
* *
12269 TGAAGGGAAAGGTCGAGGCCGCAACAGCGAACCTTATACCTTAGAGATGTGAAGGGAAAGATTGA
1 TGAAGGGAAAGATCGAGGCCGCAACAGCGAACCTTATACCTTAGAGATGTGAAGGGAAAGGTTGA
* *
12334 GGCCATAATGGCGAATCTTATACCCT
66 GGCCAAAATGGCGAACCTTATACCCT
12360 GAAGATGAAG
Statistics
Matches: 192, Mismatches: 42, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
145 3 0.02
146 185 0.96
147 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (146 bp):
TGAAGGGAAAGATCGAGGCCGCAACAGCGAACCTTATACCTTAGAGATGTGAAGGGAAAGGTTGA
GGCCAAAATGGCGAACCTTATACCCTAGAAATAAGAGGGCTAGATTGAAGCCACAACGACGAATC
TTAAACCCTAATAACA
Found at i:12235 original size:243 final size:243
Alignment explanation
Indices: 11737--12313 Score: 741
Period size: 243 Copynumber: 2.4 Consensus size: 243
11727 AAAGATGTGA
* *
11737 AAGG-AAAGATTGAGGCCGCAACGACAAATCTTATACCCTAGAGATGTAAAGGGAAAGGTTGAGG
1 AAGGTAAAGATTGAGGCCGCAACGACAAATCTTGTACCCTAGAGATGTGAAGGGAAAGGTTGAGG
* * * * * * *
11801 TCGAAACGGTGAACCTTATACCTTAAAAATAAGAGGGCTAGATTGAAGCTGTAATGGCGAATCTT
66 CCGCAACGGCGAACCTTATACCTTAGAAATAAGAGGGCTAGATTGAAGCTATAACGACGAATCTT
* * * * *
11866 GAACCTAAAGACGTGAAGGGAAAGGTCGAGGCCGTAACGGCGAACCTTATACCCTAGAGATGTGA
131 AAACCTAAAGACATGAAGGGAAAGATCGAGGCCGCAACGGCGAACCTTATAACCTAGAGATGTGA
* * ** * *
11931 AGGGAAAGGTTGAGGCTACAATGGTGAACCTTATACCTTAGAAATGTG
196 AGGGAAAGGTTGAGGCCAAAACAGTGAACCTTATAACTTAGAAATATG
* * * *
11979 AAGGTAAAGATTGAGGCCACAACAACAAATCTTGTACCTTAGAGATGTGAAGGGAAAGGTTAAGG
1 AAGGTAAAGATTGAGGCCGCAACGACAAATCTTGTACCCTAGAGATGTGAAGGGAAAGGTTGAGG
* *
12044 CCGCAATGGCGAACCTTATACCCTAGAAATAAGAGGGCTAGATTGAAG-TCATAACGACGAATCT
66 CCGCAACGGCGAACCTTATACCTTAGAAATAAGAGGGCTAGATTGAAGCT-ATAACGACGAATCT
** *
12108 TAAACCTTAAAGACATGAAGGGAGCGATCGATGCCGCAACGGCGAACCTTATAACCTAGAGATGT
130 TAAACC-TAAAGACATGAAGGGAAAGATCGAGGCCGCAACGGCGAACCTTATAACCTAGAGATGT
12173 GAAGGGAAAGGTTGAGGCCAAAACAGTGAACCTTATAACTTAGAAATAAT-
194 GAAGGGAAAGGTTGAGGCCAAAACAGTGAACCTTATAACTTAGAAAT-ATG
* * * * * * * *
12223 AGGGT-TAGATTGAAGCCGCAATGACGAATCTTGAACCCTA-ATAATGTGAAGGGAAAGGTCGAG
1 AAGGTAAAGATTGAGGCCGCAACGACAAATCTTGTACCCTAGA-GATGTGAAGGGAAAGGTTGAG
*
12286 GCCGCAACAGCGAACCTTATACCTTAGA
65 GCCGCAACGGCGAACCTTATACCTTAGA
12314 GATGTGAAGG
Statistics
Matches: 286, Mismatches: 44, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
242 6 0.02
243 182 0.64
244 97 0.34
245 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (243 bp):
AAGGTAAAGATTGAGGCCGCAACGACAAATCTTGTACCCTAGAGATGTGAAGGGAAAGGTTGAGG
CCGCAACGGCGAACCTTATACCTTAGAAATAAGAGGGCTAGATTGAAGCTATAACGACGAATCTT
AAACCTAAAGACATGAAGGGAAAGATCGAGGCCGCAACGGCGAACCTTATAACCTAGAGATGTGA
AGGGAAAGGTTGAGGCCAAAACAGTGAACCTTATAACTTAGAAATATG
Found at i:12366 original size:49 final size:48
Alignment explanation
Indices: 11719--12366 Score: 318
Period size: 49 Copynumber: 13.3 Consensus size: 48
11709 TGTCAAATAC
* * * * *
11719 TATACCTTAAAGATGTGAAAGGAAAGATTGAGGCCGCAACGACAAATCT
1 TATACCCT-AAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * * * *
11768 TATACCCTAGAGATGTAAAGGGAAAGGTTGAGGTCGAAACGGTGAACCT
1 TATACCCTA-AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* ** * ** * * * * *
11817 TATACCTTAA-AAATAAGAGGGCTAGATTGAAGCTGTAATGGCGAATCT
1 TATACCCTAAGATGTGA-AGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * * *
11865 TGA-A-CCTAAAGACGTGAAGGGAAAGGTCGAGGCCGTAACGGCGAACCT
1 T-ATACCCT-AAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* ** * *
11913 TATACCCTAGAGATGTGAAGGGAAAGGTTGAGGCTACAATGGTGAACCT
1 TATACCCTA-AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * * * ** * *
11962 TATACCTTAGAAATGTGAAGGTAAAGATTGAGGCCACAACAACAAATCT
1 TATACCCTA-AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * * * *
12011 TGTACCTTAGAGATGTGAAGGGAAAGGTTAAGGCCGCAATGGCGAACCT
1 TATACCCTA-AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
** * ** * * ** * *
12060 TATACCCT-AGAAATAAGAGGGCTAGATTGAAGTCATAACGACGAATCT
1 TATACCCTAAGATGTGA-AGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * ** ** * *
12108 TAAACCTTAAAGACATGAAGGGAGCGATCGATGCCGCAACGGCGAACCT
1 TATACCCT-AAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * ** * *
12157 TATAACCTAGAGATGTGAAGGGAAAGGTTGAGGCCAAAACAGTGAACCT
1 TATACCCTA-AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * ** * ** * * * *
12206 TATA-ACTTAGAAATAATAGGGTTAGATTGAAGCCGCAATGACGAATCT
1 TATACCCTAAGATGTGA-AGGGAAAGATTGAGGCCGCAACGGCGAACCT
* * * *
12254 TGA-ACCCTAATAATGTGAAGGGAAAGGTCGAGGCCGCAACAGCGAACCT
1 T-ATACCCTAA-GATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
* ** * *
12303 TATACCTTAGAGATGTGAAGGGAAAGATTGAGGCCATAATGGCGAATCT
1 TATACCCTA-AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
12352 TATACCCTGAAGATG
1 TATACCCT-AAGATG
12367 AAGCAAATTG
Statistics
Matches: 431, Mismatches: 149, Indels: 38
0.70 0.24 0.06
Matches are distributed among these distances:
47 17 0.04
48 105 0.24
49 298 0.69
50 11 0.03
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (48 bp):
TATACCCTAAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT
Found at i:12620 original size:40 final size:40
Alignment explanation
Indices: 12525--12634 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 40
12515 ACTCACCAAA
*** * * *
12525 TCTTACCCCGACCATAATGCAGATTAAAGATACACCAATG
1 TCTTACCCCGACCATGGGGCAGATTGAAGACACACCAATC
* *
12565 TCTTACCCCGACCATGGGGCAGATTGAAGACGCTCCAATC
1 TCTTACCCCGACCATGGGGCAGATTGAAGACACACCAATC
* *
12605 TCTTACCCCGACCATGGGACAGACTGAAGA
1 TCTTACCCCGACCATGGGGCAGATTGAAGA
12635 AGCACCTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (40 bp):
TCTTACCCCGACCATGGGGCAGATTGAAGACACACCAATC
Found at i:12844 original size:46 final size:46
Alignment explanation
Indices: 12783--12958 Score: 125
Period size: 46 Copynumber: 3.9 Consensus size: 46
12773 CATCGTTCAA
* * *
12783 TCTTTTACCCCTAAGTCAAG-AGAGACATATTGAAGCCATCATCCAG
1 TCTTTTACCACTAAGTCAAGAAG-GACAGATTGAAGACATCATCCAG
* * *
12829 TCTTTTACCATTAAGTCAAGAAGGGCAGATTGAAGACATCATCCAA
1 TCTTTTACCACTAAGTCAAGAAGGACAGATTGAAGACATCATCCAG
* * * * * *
12875 TCTCTTAACC-C-AA-CCATG--GGGCAGATTGAAG-CTATCATCTAA
1 TCT-TTTACCACTAAGTCAAGAAGGACAGATTGAAGAC-ATCATCCAG
* * *
12917 TCTCTTACC-CTTAAGTCAAGAAGGGCAAATTGAAGACATCAT
1 TCTTTTACCAC-TAAGTCAAGAAGGACAGATTGAAGACATCAT
12959 TCAATCTCTT
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
41 6 0.06
42 24 0.23
43 2 0.02
44 6 0.06
45 2 0.02
46 57 0.54
47 8 0.08
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (46 bp):
TCTTTTACCACTAAGTCAAGAAGGACAGATTGAAGACATCATCCAG
Found at i:13073 original size:84 final size:84
Alignment explanation
Indices: 12851--15571 Score: 2222
Period size: 84 Copynumber: 32.4 Consensus size: 84
12841 AAGTCAAGAA
* * * *
12851 GGGCAGATTGAAGACATCATCCAATCTCTTAACCCAACCATGGGGCAGATTGAAG-CTATCATCT
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCC
** * *
12915 AATCTCTTACCCTTAAGTCAAG
65 AATCTCTTACCC-CGA-CCATG
* * * * *
12937 AAGGGCAAATTGAAGACATCATTCAATCTCTTACCCCAACCATGGGGTAGATTGAAG-CTATCAT
1 --GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCAT
* * *
13001 CTAATCTATTACCCCGACCATA
63 CCAATCTCTTACCCCGACCATG
* * ** * *
13023 AGGCAGATTGAAGACATCATTCAATCTCTTACTTCGACCATGGGGCAGATTGAGGACATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * *
13088 ACCTCTTACCACGATCATG
66 ATCTCTTACCCCGACCATG
* * ** * * * *
13107 GGGCAGATTTAAGACACCATATAATCTCTTACCCCGATCATGAGGTAAATTAAAGACATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * *
13172 ATCTCTTATCCTGATCAT-
66 ATCTCTTACCCCGACCATG
* * * **
13190 GGGCAGATTGAAGGCATCATCTACTCTCTTACCATGATCATGGGGCAGATTGAAG--ATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
13253 ATCTCTTACCCCGACCATG
66 ATCTCTTACCCCGACCATG
* * * * * *
13272 AGGCAGATTAAAG-CTACCATCAAATCTCTTACCCCGATCATGGGACAGATTGAAAACATCATCC
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCC
*
13336 AATCTCTTACCCTGACCATG
65 AATCTCTTACCCCGACCATG
* * *
13356 AGGCAGATTG-AGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAG-CTATCATCC
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCC
*
13419 AATCTCTTACCCCGACCATA
65 AATCTCTTACCCCGACCATG
* * * *
13439 AGGCAGATTGAAGACATCATCCAATCTCTTACCTCAATCATGGGGCAGATTGAGGACATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * **
13504 ACCTCTTACCACGATTATG
66 ATCTCTTACCCCGACCATG
* * ** * * *
13523 AGGCATG-TTGAAGACACCATTTAATCTCTTATCCCGATCATGGGGCAGATTGAAGACATTATTC
1 GGGCA-GATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCC
* * *
13587 AATCTTTTATCCCGATCAT-
65 AATCTCTTACCCCGACCATG
* * * * * * *
13606 GAGTAGATTGAAGATATCATCCAATCTTTTACTCCGATCATGGGGCAGATT-AA-AGATCATTCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
13669 ATCTCTTACCCCGACCATG
66 ATCTCTTACCCCGACCATG
* *** * * * * * *
13688 AGGCAGATTGAAGTTGTCATCAAATCTTTTACCCTGATCATGAGGCAGTTTGAAGACATCATTCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
*
13753 ATCTCTTACTCCGACCATG
66 ATCTCTTACCCCGACCATG
** * * * *
13772 GGGCAGATTGAAG-CTATCATCCAATCTCTTACCCTTAAGTTAAGAAGGACTGATTGAAGACATC
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCC-CGA-TCATG--GGGCAGATTGAAGACATC
* * * * *
13836 ATTCAATCTTTTACCACGACTATA
61 ATCCAATCTCTTACCCCGACCATG
* * * * * *
13860 GGGTAGATTGAAG--ATCATCCAATCTCTTATCCCAACCATAGGGTAGATTGAAGACATCATCC-
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * *
13922 ATCTCTTATCTCGATCATG
66 ATCTCTTACCCCGACCATG
* * * * * **
13941 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCATGGGGCATATTGAAGACACCATTTA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* *
14006 ATCTCTTACCTCGATCAT-
66 ATCTCTTACCCCGACCATG
* * * * * * *
14024 -----NATTAAAGGCATCA-CTCAATATTTTATCCCGATCAT-GGGCAGATTGAAGATATCATCC
1 GGGCAGATTGAAGACATCATC-CAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCC
* ** *
14082 AATTTCTTACCTTGATCATG
65 AATCTCTTACCCCGACCATG
* * * * *
14102 GGGTAGATTGAAG--ATCATCCAATCTCTTACCTCGACCATGGGGCAGATT-AAAATTATCATCC
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGA-CATCATCC
* ** **
14164 AATCTCTTACCCTTAAGTTAAGAAA
65 AATCTCTTACCC---CG--ACCATG
*
14189 GGG-AGATTGAAGACATCATCCAATCTCTTACCCTGA-C-TAGAGGGCAGATTGAAG--ATCATC
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT-G-GGGCAGATTGAAGACATCATC
14249 CAATCTCTTACCCCGACCATG
64 CAATCTCTTACCCCGACCATG
* * * * *
14270 AGGCAGATTGAAG-CTACCATCAAATCTCTTACCCCGATCATGGGGCAGATTGAAGATATCATCT
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCC
*
14334 AATCTCTTACCTCGACCATG
65 AATCTCTTACCCCGACCATG
* ** * * *
14354 GGGCAGATTGAAG-CTATCATCCAGTCTCTTACCCTTAAGTCAAGAAAGGTAGATTGAAGACATC
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCC-CGA-TCATG--GGGCAGATTGAAGACATC
*
14418 ATCCAATCTCTTACCCCGATCATG
61 ATCCAATCTCTTACCCCGACCATG
** * *
14442 GGGCAGATTGAAG-CTATCATCCAATCTCTTACCCTTAAGTTAAGAAGGGCAGATTGAAGACATC
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCC-CGA-TCATG--GGGCAGATTGAAGACATC
* * *
14506 ATCCAATCTTTTACCCCGACTATA
61 ATCCAATCTCTTACCCCGACCATG
* * * * **
14530 GGGTAGATTGAAG--ATCATCCAATCTCTTATCCCAACCATAAGGCAGATTGAAGACATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * * *
14593 ATCTCTTATCTCGATCATA
66 ATCTCTTACCCCGACCATG
* * * * * * **
14612 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCATGGGGCATATTAAAGACACCATTTA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* *
14677 ATCTCTTATCCCGATCAT-
66 ATCTCTTACCCCGACCATG
* * * * *
14695 GAGCAAATTGAAGATATCATCCAATTTCTTACCTCGATCATGGGGCAGATTGAAG--ATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
14758 ATCTCTTACCCCGACCATG
66 ATCTCTTACCCCGACCATG
* * ** * *
14777 AGGCAGGTTGAAG-CTATCATCCAATCTCTTACCCTTAAGTTAAGAAAGGG-AGATTGAAGACAT
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCC-CGA-TCATG---GGGCAGATTGAAGACAT
* * *
14840 CATCCAATCTCTTACCCTGACTATA
60 CATCCAATCTCTTACCCCGACCATG
* * *
14865 GGGCAGATTGAAG--ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-CTACCATCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCC
*
14927 AATCTCTTACCCCGATCATG
65 AATCTCTTACCCCGACCATG
* * * * * ** *
14947 GGGCAAATTAAAGATATCATCTAATCTCTTACCCCGACCATTAGGCAAATTGAAG-CTATCATCC
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCC
** ** *
15011 AATCTCTTACCCTTAAGTTAAG
65 AATCTCTTACCC-CGA-CCATG
* ** * * *
15033 AAAGATAGATTGAAGACATCATCAAATCTCTTACCCCGATCATGGTGCAAATTGAAG-CTATCAT
1 --GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCAT
* *
15097 CCAATCTCTTACCCTGACCATA
63 CCAATCTCTTACCCCGACCATG
* * ** * *
15119 GGGCAGATTAAAGACATTATCCAATCTCTTACATCGACCATGGGGCAGATTGAGGACATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* ** *
15184 ATCTCTTACCCCAATAATT
66 ATCTCTTACCCCGACCATG
* * * * * *
15203 GGGCAAATTGAAGACACCGTCTAATCTCTTACCCCGACCATGAGGCAGATTGAAGACATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* *
15268 ATCTCTTATCCCGATCAT-
66 ATCTCTTACCCCGACCATG
* * * * * * *
15286 AGGAAAATTTAAGATATCATCCAATCTCTTACCCCGATCATAGGGCAGATT-AA-AGATCATCCA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
15349 ATCTCTTACCCCGACCATG
66 ATCTCTTACCCCGACCATG
* * * * *
15368 GGGCAGATTAAAG-CTACCATCAAATCTCTTACCTCGATCATGGGGCAGATTAAAGACATCATCC
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCC
*
15432 AATCTCTTACCTCGACCATG
65 AATCTCTTACCCCGACCATG
* ** * *
15452 GGGCAGATTGAAG-CTATCATTCAATCTCTTACCCTTAAGTCAAGAAGGACAG-TTGAAGACATC
1 GGGCAGATTGAAGAC-ATCATCCAATCTCTTACCC-CGA-TCATG--GGGCAGATTGAAGACATC
* * * * * *
15515 GTTCAATCTTTTAGCCCAACTATG
61 ATCCAATCTCTTACCCCGACCATG
* *
15539 GGGCAGATTGAAGAC--CATCCAGTCTTTTACCCC
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCC
15572 TAATCCAGAT
Statistics
Matches: 2142, Mismatches: 410, Indels: 166
0.79 0.15 0.06
Matches are distributed among these distances:
77 35 0.02
78 25 0.01
81 148 0.07
82 333 0.16
83 293 0.14
84 735 0.34
85 29 0.01
86 110 0.05
87 53 0.02
88 379 0.18
89 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (84 bp):
GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
ATCTCTTACCCCGACCATG
Found at i:13303 original size:207 final size:207
Alignment explanation
Indices: 12851--15485 Score: 2205
Period size: 207 Copynumber: 12.6 Consensus size: 207
12841 AAGTCAAGAA
* * * *
12851 GGGCAGATTGAAGACATCATCCAATCTCTTAACCCAACCATGGGGCAGATTGAAG-CTATCATCT
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCC
** * * * * *
12915 AATCTCTTACCCTTAAGTCAAGAAGGGCAAATTGAAGACATCATTCAATCTCTTACCCCAACCAT
64 AATCTCTTACCC-CGA-TCATG-A-GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT
* * * * * *
12980 GGGGTAGATTGAA-GCTATCATCTAATCTATTACCCCGACCATAAGGCAGATTGAAGACATCATT
125 -GGGCAGATTGAAGGC-ATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATC
**
13044 CAATCTCTTACTTCGACCATG
187 CAATCTCTTACCCCGACCATG
* * * * * **
13065 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCATGGGGCAGATTTAAGACACCATATA
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * * * *
13130 ATCTCTTACCCCGATCATGAGGTAAATTAAAGACATCATCCAATCTCTTATCCTGATCATGGGCA
65 ATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGCA
* * ** *
13195 GATTGAAGGCATCATCTACTCTCTTACCATGATCATGGGGCAGATTGAAG-ATCATCCAATCTCT
130 GATTGAAGGCATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAATCATCCAATCTCT
13259 TACCCCGACCATG
195 TACCCCGACCATG
* * * * * *
13272 AGGCAGATTAAAGCTACCATCAAATCTCTTACCCCGATCATGGGACAGATTGAAAACATCATCCA
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * *
13337 ATCTCTTACCCTGACCATGAGGCAGATTG-AGACATCATCCAATCTCTTACCCCGACCATGGGGC
65 ATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT-GGGC
* * *
13401 AGATT-AAAGCTATCATCCAATCTCTTACCCCGACCATAAGGCAGATTGAAGACATCATCCAATC
129 AGATTGAAGGC-ATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATCCAATC
* * *
13465 TCTTACCTCAATCATG
192 TCTTACCCCGACCATG
* * * * * * **
13481 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATTATGAGGCATG-TTGAAGACACCATTT
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCA-GATTGAAGACATCATCC
* * * * * * * *
13545 AATCTCTTATCCCGATCATGGGGCAGATTGAAGACATTATTCAATCTTTTATCCCGATCATGAGT
64 AATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGC
** * * * * *
13610 AGATTGAAGATATCATCCAATCTTTTACTCCGATCATGGGGCAGATTAAAG-ATCATTCAATCTC
129 AGATTGAAGGCATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAATCATCCAATCTC
13674 TTACCCCGACCATG
194 TTACCCCGACCATG
* ** * * * * * *
13688 AGGCAGATTGAAGTTGTCATCAAATCTTTTACCCTGATCATGAGGCAGTTTGAAGACATCATTCA
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * * ** * *
13753 ATCTCTTACTCCGACCATGGGGCAGATTGAAG-CTATCATCCAATCTCTTACCCTTAAGTTAAGA
65 ATCTCTTACCCCGATCATGAGGCAGATTGAAGAC-ATCATCCAATCTCTTACCC-CGA-TCATG-
* * * * * *
13817 AGGACTGATTGAAGACATCATTCAATCTTTTACCACGA-CTATAGGGTAGATTGAAG-ATCATCC
126 -GG-CAGATTGAAGGCATCATCCAATCTCTTACCCCGATC-ATAGGGCAGATTGAAGAATCATCC
* * *
13880 AATCTCTTATCCCAACCATA
188 AATCTCTTACCCCGACCATG
* * * *
13900 GGGTAGATTGAAGACATCATCC-ATCTCTTATCTCGATCATGGGGCAGATTGAGGACATCATCCA
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * * * * ** *
13964 ACCTCTTACCACGATCATGGGGCATATTGAAGACACCATTTAATCTCTTACCTCGATCAT-----
65 ATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGCA
* * * * * *
14024 NATTAAAGGCATCA-CTCAATATTTTATCCCGATCAT-GGGCAGATTGAAGATATCATCCAATTT
130 GATTGAAGGCATCATC-CAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATCCAATCT
** *
14087 CTTACCTTGATCATG
193 CTTACCCCGACCATG
* * * * *
14102 GGGTAGATTGAAG-ATCATCCAATCTCTTACCTCGACCATGGGGCAGATT-AAAATTATCATCCA
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGA-CATCATCCA
** * * * *
14165 ATCTCTTACCCTTAAGTTAAGAAAGGGAGATTGAAGACATCATCCAATCTCTTACCCTGA-CTAG
65 ATCTCTTACCC-CGA-TCATG--AGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC-A-
* * * *
14229 AGGGCAGATTGAA-G-ATCATCCAATCTCTTACCCCGACCAT-GAGGCAGATTGAAGCTACCATC
124 TGGGCAGATTGAAGGCATCATCCAATCTCTTACCCCGATCATAG-GGCAGATTGAAG-AATCATC
* *
14291 AAATCTCTTACCCCGATCATG
187 CAATCTCTTACCCCGACCATG
* * * *
14312 GGGCAGATTGAAGATATCATCTAATCTCTTACCTCGACCATGGGGCAGATTGAAG-CTATCATCC
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCC
* ** * *
14376 AGTCTCTTACCCTTAAGTCAAGAAAGGTAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT
64 AATCTCTTACCC-CGA-TCATG--AGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT
* * * *
14441 GGGGCAGATTGAA-GCTATCATCCAATCTCTTACCCTTAAGTTAAGAAGGGCAGATTGAAGACAT
125 -GGGCAGATTGAAGGC-ATCATCCAATCTCTTACCC---CGATCA-TAGGGCAGATTGAAGA-AT
* * *
14505 CATCCAATCTTTTACCCCGACTATA
183 CATCCAATCTCTTACCCCGACCATG
* * * * **
14530 GGGTAGATTGAAG-ATCATCCAATCTCTTATCCCAACCATAAGGCAGATTGAAGACATCATCCAA
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAA
* * * * *
14594 TCTCTTATCTCGATCAT-AGGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCATGGGGC
66 TCTCTTACCCCGATCATGA-GGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT-GGGC
* * * * ** * * * *
14658 ATATTAAAGACACCATTTAATCTCTTATCCCGATCAT-GAGCAAATTGAAGATATCATCCAATTT
129 AGATTGAAGGCATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATCCAATCT
* *
14722 CTTACCTCGATCATG
193 CTTACCCCGACCATG
* * *
14737 GGGCAGATTGAAG-ATCATCCAATCTCTTACCCCGACCATGAGGCAGGTTGAAG-CTATCATCCA
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCCA
** * * * *
14800 ATCTCTTACCCTTAAGTTAAGAAAGGGAGATTGAAGACATCATCCAATCTCTTACCCTGA-CTAT
65 ATCTCTTACCC-CGA-TCATG--AGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC-AT
* * * * *
14864 AGGGCAGATTGAA-G-ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCTACCATCA
125 -GGGCAGATTGAAGGCATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAG-AATCATCC
*
14927 AATCTCTTACCCCGATCATG
188 AATCTCTTACCCCGACCATG
* * * * * ** *
14947 GGGCAAATTAAAGATATCATCTAATCTCTTACCCCGACCATTAGGCAAATTGAAG-CTATCATCC
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCATCC
** * * ** *
15011 AATCTCTTACCCTTAAGTTAAGAAAGATAGATTGAAGACATCATCAAATCTCTTACCCCGATCAT
64 AATCTCTTACCC-CGA-TCATG--AGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCAT
* * * * *
15076 GGTGCAAATTGAA-GCTATCATCCAATCTCTTACCCTGACCATAGGGCAGATTAAAGACATTATC
125 GG-GCAGATTGAAGGC-ATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGA-ATCATC
**
15140 CAATCTCTTACATCGACCATG
187 CAATCTCTTACCCCGACCATG
* * * * * * * *
15161 GGGCAGATTGAGGACATCATCCAATCTCTTACCCCAATAATTGGGCAAATTGAAGACACCGTCTA
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * * *
15226 ATCTCTTACCCCGACCATGAGGCAGATTGAAGACATCATCCAATCTCTTATCCCGATCATAGGAA
65 ATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGCA
* * ** *
15291 AATTTAAGATATCATCCAATCTCTTACCCCGATCATAGGGCAGATTAAAG-ATCATCCAATCTCT
130 GATTGAAGGCATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAATCATCCAATCTCT
15355 TACCCCGACCATG
195 TACCCCGACCATG
* * * * *
15368 GGGCAGATTAAAGCTACCATCAAATCTCTTACCTCGATCATGGGGCAGATTAAAGACATCATCCA
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCA
* * * *
15433 ATCTCTTACCTCGACCATGGGGCAGATTGAAG-CTATCATTCAATCTCTTACCC
65 ATCTCTTACCCCGATCATGAGGCAGATTGAAGAC-ATCATCCAATCTCTTACCC
15486 TTAAGTCAAG
Statistics
Matches: 1973, Mismatches: 371, Indels: 161
0.79 0.15 0.06
Matches are distributed among these distances:
200 21 0.01
201 69 0.03
202 35 0.02
203 3 0.00
204 1 0.00
205 30 0.02
206 37 0.02
207 476 0.24
208 2 0.00
209 279 0.14
210 197 0.10
211 130 0.07
212 377 0.19
213 7 0.00
214 207 0.10
215 3 0.00
216 50 0.03
217 3 0.00
218 45 0.02
219 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (207 bp):
GGGCAGATTGAAGCATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAA
TCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGGGCAG
ATTGAAGGCATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGAATCATCCAATCTCTT
ACCCCGACCATG
Found at i:15483 original size:42 final size:41
Alignment explanation
Indices: 12851--15484 Score: 1881
Period size: 42 Copynumber: 62.8 Consensus size: 41
12841 AAGTCAAGAA
* *
12851 GGGCAGATTGAAGACATCATCCAATCTCTTAACC-CAACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTT-ACCTCGATCATG
* ** *
12893 GGGCAGATTGAAGCTATCATCTAATCTCTTACCCTTAAGTCAAG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTA-CCTCGA-TCATG
* * * * *
12937 AAGGGCAAATTGAAGACATCATTCAATCTCTTACCCCAACCATG
1 --GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * * * *
12981 GGGTAGATTGAAGCTATCATCTAATCTATTACCCCGACCATA
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCTCGATCATG
* * * *
13023 AGGCAGATTGAAGACATCATTCAATCTCTTACTTCGACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * *
13065 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * ** *
13107 GGGCAGATTTAAGACACCATATAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * *
13149 AGGTAAATTAAAGACATCATCCAATCTCTTATCCT-GATCAT-
1 GGGCAGATTGAAG-CATCATCCAATCTCTTA-CCTCGATCATG
* *
13190 GGGCAGATTGAAGGCATCATCTACTCTCTTACCAT-GATCATG
1 GGGCAGATTGAA-GCATCATCCAATCTCTTACC-TCGATCATG
* *
13232 GGGCAGATTGAAG-ATCATCCAATCTCTTACCCCGACCATG
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
* * * * *
13272 AGGCAGATTAAAGCTACCATCAAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCTCGATCATG
* * *
13314 GGACAGATTGAAAACATCATCCAATCTCTTACC-CTGACCATG
1 GGGCAGATTG-AAGCATCATCCAATCTCTTACCTC-GATCATG
* * *
13356 AGGCAGATTG-AGACATCATCCAATCTCTTACCCCGACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * *
13397 GGGCAGATTAAAGCTATCATCCAATCTCTTACCCCGACCATA
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCTCGATCATG
* *
13439 AGGCAGATTGAAGACATCATCCAATCTCTTACCTCAATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * *
13481 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATTATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * **
13523 AGGCATG-TTGAAGACACCATTTAATCTCTTATCC-CGATCATG
1 GGGCA-GATTGAAG-CATCATCCAATCTCTTA-CCTCGATCATG
* * *
13565 GGGCAGATTGAAGACATTATTCAATCTTTTATCC-CGATCAT-
1 GGGCAGATTGAAG-CATCATCCAATCTCTTA-CCTCGATCATG
* * * *
13606 GAGTAGATTGAAGATATCATCCAATCTTTTA-CTCCGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCT-CGATCATG
* * * *
13648 GGGCAGATTAAAG-ATCATTCAATCTCTTACCCCGACCATG
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
* ** * *
13688 AGGCAGATTGAAGTTGTCATCAAATCTTTTACC-CTGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTC-GATCATG
* * * *
13730 AGGCAGTTTGAAGACATCATTCAATCTCTTA-CTCCGACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCT-CGATCATG
** * *
13772 GGGCAGATTGAAGCTATCATCCAATCTCTTACCCTTAAGTTAAG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTA-CCTCGA-TCATG
* * * * * *
13816 AAGGACTGATTGAAGACATCATTCAATCTTTTACCACGA-CTATA
1 --GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATC-ATG
* * * *
13860 GGGTAGATTGAAG-ATCATCCAATCTCTTATCC-CAACCATA
1 GGGCAGATTGAAGCATCATCCAATCTCTTA-CCTCGATCATG
* *
13900 GGGTAGATTGAAGACATCATCC-ATCTCTTATCTCGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * *
13941 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * **
13983 GGGCATATTGAAGACACCATTTAATCTCTTACCTCGATCAT-
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * *
14024 -----NATTAAAGGCATCA-CTCAATATTTTATCC-CGATCAT-
1 GGGCAGATTGAA-GCATCATC-CAATCTCTTA-CCTCGATCATG
* * *
14060 GGGCAGATTGAAGATATCATCCAATTTCTTACCTTGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* *
14102 GGGTAGATTGAAG-ATCATCCAATCTCTTACCTCGACCATG
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
* ** ** * *
14142 GGGCAGATTAAAATTATCATCCAATCTCTTACCCTTAAGTTAAG
1 GGGCAGATT-GAAGCATCATCCAATCTCTTA-CCTCGA-TCATG
14186 AAAGGG-AGATTGAAGACATCATCCAATCTCTTACC-CTGA-C-TAG
1 ---GGGCAGATTGAAG-CATCATCCAATCTCTTACCTC-GATCAT-G
* *
14229 AGGGCAGATTGAAG-ATCATCCAATCTCTTACCCCGACCATG
1 -GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
* * * *
14270 AGGCAGATTGAAGCTACCATCAAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCTCGATCATG
* * *
14312 GGGCAGATTGAAGATATCATCTAATCTCTTACCTCGACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* ** *
14354 GGGCAGATTGAAGCTATCATCCAGTCTCTTACCCTTAAGTCAAG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTA-CCTCGA-TCATG
* * *
14398 AAAGGTAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
1 --GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
** * *
14442 GGGCAGATTGAAGCTATCATCCAATCTCTTACCCTTAAGTTAAG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTA-CCTCGA-TCATG
* * *
14486 AAGGGCAGATTGAAGACATCATCCAATCTTTTACCCCGA-CTATA
1 --GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATC-ATG
* * * *
14530 GGGTAGATTGAAG-ATCATCCAATCTCTTATCC-CAACCATA
1 GGGCAGATTGAAGCATCATCCAATCTCTTA-CCTCGATCATG
* * *
14570 AGGCAGATTGAAGACATCATCCAATCTCTTATCTCGATCATA
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * *
14612 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * **
14654 GGGCATATTAAAGACACCATTTAATCTCTTATCC-CGATCAT-
1 GGGCAGATTGAAG-CATCATCCAATCTCTTA-CCTCGATCATG
* * * *
14695 GAGCAAATTGAAGATATCATCCAATTTCTTACCTCGATCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* *
14737 GGGCAGATTGAAG-ATCATCCAATCTCTTACCCCGACCATG
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
* * ** * *
14777 AGGCAGGTTGAAGCTATCATCCAATCTCTTACCCTTAAGTTAAG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTA-CCTCGA-TCATG
*
14821 AAAGGG-AGATTGAAGACATCATCCAATCTCTTACC-CTGA-CTATA
1 ---GGGCAGATTGAAG-CATCATCCAATCTCTTACCTC-GATC-ATG
* *
14865 GGGCAGATTGAAG-ATCATCCAATCTCTTACCCCGACCATG
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
* * *
14905 GGGCAGATTGAAGCTACCATCAAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCTCGATCATG
* * * * * * *
14947 GGGCAAATTAAAGATATCATCTAATCTCTTACCCCGACCATT
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * ** * *
14989 AGGCAAATTGAAGCTATCATCCAATCTCTTACCCTTAAGTTAAG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTA-CCTCGA-TCATG
* ** * *
15033 AAAGATAGATTGAAGACATCATCAAATCTCTTACCCCGATCATG
1 --GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * *
15077 GTGCAAATTGAAGCTATCATCCAATCTCTTACC-CTGACCATA
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCTC-GATCATG
* * * *
15119 GGGCAGATTAAAGACATTATCCAATCTCTTACATCGACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * * *
15161 GGGCAGATTGAGGACATCATCCAATCTCTTACCCCAATAATT
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * * * * *
15203 GGGCAAATTGAAGACACCGTCTAATCTCTTACCCCGACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
*
15245 AGGCAGATTGAAGACATCATCCAATCTCTTATCC-CGATCAT-
1 GGGCAGATTGAAG-CATCATCCAATCTCTTA-CCTCGATCATG
* * * * * * *
15286 AGGAAAATTTAAGATATCATCCAATCTCTTACCCCGATCATA
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
* * *
15328 GGGCAGATTAAAG-ATCATCCAATCTCTTACCCCGACCATG
1 GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
* * *
15368 GGGCAGATTAAAGCTACCATCAAATCTCTTACCTCGATCATG
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACCTCGATCATG
* *
15410 GGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCATG
1 GGGCAGATTGAAG-CATCATCCAATCTCTTACCTCGATCATG
*
15452 GGGCAGATTGAAGCTATCATTCAATCTCTTACC
1 GGGCAGATTGAAGC-ATCATCCAATCTCTTACC
15485 CTTAAGTCAA
Statistics
Matches: 2086, Mismatches: 374, Indels: 264
0.77 0.14 0.10
Matches are distributed among these distances:
36 23 0.01
37 3 0.00
39 1 0.00
40 311 0.15
41 253 0.12
42 1215 0.58
43 39 0.02
44 31 0.01
45 24 0.01
46 175 0.08
47 11 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
GGGCAGATTGAAGCATCATCCAATCTCTTACCTCGATCATG
Found at i:15594 original size:635 final size:629
Alignment explanation
Indices: 12851--15571 Score: 2462
Period size: 635 Copynumber: 4.3 Consensus size: 629
12841 AAGTCAAGAA
* * *
12851 GGGCAGATTGAAGACATCATCCAATCTCTTAACC-CAACCATGGGGCAGATTGAAG-CTATCATC
1 GGGCAGATTGAAG--ATCATCCAATCTCTT-ACCTCGACCATGAGGCAGATTAAAGAC-ATCATC
* * * * * **
12914 TAATCTCTTACCCTTAAGTCAA-GAAGGGCAAATTGAAGACATCATTCAATCTCTTACCC-CAAC
62 CAATCTCTTACCCTTAAGT-AACAAAGGG-AGATTGAAGACATCATCCAATCTCTTACCCTGAGT
* ** * * ** *
12977 CATG-GGGTAGATTGAAGCTATCATCTAATCTATTACCCCGACCATAAGGCAGATTGAAGACATC
125 CAAGAGGACAGATTGAAG--ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-CACC
** * * * * * * * *
13041 ATTC-AATCTCTTACTTCGACCATGGGGCAGATTGAGGACATCATCCAACCTCTTACCACGATCA
187 A-TCAAATCTCTTACCCCGATCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGACCA
* * * ** ** * * *
13105 TGGGGCAGATTTAAGAC-ACCATATAATCTCTTACCC-CGA-TCATG--AGGTAAATTAAAGACA
251 TGAGGCAGATTGAAG-CTATCATCCAATCTCTTACCCTTAAGTCAAGAAAGGTAGATTGAAGACA
* * * * * *
13165 TCATCCAATCTCTTATCCTGATCATGGGCAGATTGAAGGCATCATCTACTCTCTTACCATGATCA
315 TCATCCAATCTCTTACCCCGATCATGGGCAGATTGAA-GCATCATCCAATCTCTTACCCTGACCA
* * *
13230 TGGGGCAGATTGAAGATCATCCAATCTCTTACCCCGACCAT-GAGGCAGATTAAAG-CTACCATC
379 TAGGGCAGATTGAAGATCATCCAATCTCTTACCCCGACCATAG-GGCAGATTGAAGAC-ATCATC
* * * *
13293 AAATCTCTTACCCCGATCA-TGGGACAGATTGAAAACATCATCCAATCTCTTACCCTGACCATGA
442 CAATCTCTTACCCCAATCATTGGG-CAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGA
* * *
13357 GGCAGATTG-AGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAG-CTATCATCCA
506 GGCAGATTGAAGACATCATCCAATCTCTTACCACGATCATGGGGCAAATTAAAGAC-ATCATCCA
* * * *
13420 ATCTCTTACCCCGACCATAAGGCAGATTGAAGACATCATCCAATCTCTTACCTCAATCATG
570 ATCTCTTACCCCGATCAT-GGGCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATG
* * * ** * * **
13481 GGGCAGATTGAGGACATCATCCAACCTCTTACCACGATTATGAGGCATG-TTGAAGACACCATTT
1 GGGCAGATTGA--AGATCATCCAATCTCTTACCTCGACCATGAGGCA-GATTAAAGACATCATCC
* ** * * *
13545 AATCTCTTATCCC----G-ATCATGGGGCAGATTGAAGACATTATTCAATCTTTTATCCC-GA-T
63 AATCTCTTA-CCCTTAAGTAACAAAGGG-AGATTGAAGACATCATCCAATCTCTTA-CCCTGAGT
* * * * * * *
13603 CATGA-G-TAGATTGAAGATATCATCCAATCTTTTACTCCGATCATGGGGCAGATTAAAG-ATCA
125 CAAGAGGACAGATTGAAG--ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCACCA
* * * * * * * * *
13665 TTC-AATCTCTTACCCCGACCATGAGGCAGATTGAAGTTGTCATCAAATCTTTTACCCTGATCAT
188 -TCAAATCTCTTACCCCGATCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGACCAT
* * * * * * *
13729 GAGGCAGTTTGAAGAC-ATCATTCAATCTCTTACTCC--GA-CCATG--GGGCAGATTGAAG-CT
252 GAGGCAGATTGAAG-CTATCATCCAATCTCTTAC-CCTTAAGTCAAGAAAGGTAGATTGAAGAC-
** * * * * *
13787 ATCATCCAATCTCTTACCCTTAAGTTAAGAAGGACTGATTGAAGACATCATTCAATCTTTTACCA
314 ATCATCCAATCTCTTACCC-CGA-TCATG--GG-CAGATTGAAG-CATCATCCAATCTCTTACC-
* * * * *
13852 C-GACTATAGGGTAGATTGAAGATCATCCAATCTCTTATCCCAACCATAGGGTAGATTGAAGACA
372 CTGACCATAGGGCAGATTGAAGATCATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAGACA
* * * * * * * *
13916 TCATCC-ATCTCTTATCTCGATCATGGGGCAGATTGAGGACATCATCCAACCTCTTACCACGATC
437 TCATCCAATCTCTTACCCCAATCATTGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACC
* * * ** * * *
13980 ATGGGGCATATTGAAGACACCATTTAATCTCTTACCTCGATCAT------NATTAAAGGCATCA-
502 ATGAGGCAGATTGAAGACATCATCCAATCTCTTACCACGATCATGGGGCAAATTAAAGACATCAT
* * * * *
14038 CTCAATATTTTATCCCGATCATGGGCAGATTGAAGATATCATCCAATTTCTTACCTTGATCATG
567 C-CAATCTCTTACCCCGATCATGGGCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATG
* * *
14102 GGGTAGATTGAAGATCATCCAATCTCTTACCTCGACCATGGGGCAGATTAAA-ATTATCATCCAA
1 GGGCAGATTGAAGATCATCCAATCTCTTACCTCGACCATGAGGCAGATTAAAGA-CATCATCCAA
* *
14166 TCTCTTACCCTTAAGTTAAGAAAGGGAGATTGAAGACATCATCCAATCTCTTACCCTGA--CTAG
65 TCTCTTACCCTTAAG-TAACAAAGGGAGATTGAAGACATCATCCAATCTCTTACCCTGAGTCAAG
* *
14229 AGGGCAGATTGAAGATCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGCTACCATCAAA
129 AGGACAGATTGAAGATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGC-ACCATCAAA
* * *
14294 TCTCTTACCCCGATCATGGGGCAGATTGAAGATATCATCTAATCTCTTACCTCGACCATGGGGCA
193 TCTCTTACCCCGATCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGACCATGAGGCA
*
14359 GATTGAAGCTATCATCCAGTCTCTTACCCTTAAGTCAAGAAAGGTAGATTGAAGACATCATCCAA
258 GATTGAAGCTATCATCCAATCTCTTACCCTTAAGTCAAGAAAGGTAGATTGAAGACATCATCCAA
**
14424 TCTCTTACCCCGATCATGGGGCAGATTGAAGCTATCATCCAATCTCTTACCCTTAAGTTAAGA-A
323 TCTCTTACCCCGATCAT-GGGCAGATTGAAGC-ATCATCCAATCTCTTACCC-T--G--ACCATA
* * *
14488 GGGCAGATTGAAGACATCATCCAATCTTTTACCCCGACTATAGGGTAGATTGAAG--ATCATCCA
381 GGGCAGATTGAAG--ATCATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAGACATCATCCA
* * ** * * *
14551 ATCTCTTATCCCAACCATAAGGCAGATTGAAGACATCATCCAATCTCTTATCTCGATCAT-AGGG
444 ATCTCTTACCCCAATCATTGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGA-GG
* * * * **
14615 CAGATTGAGGACATCATCCAACCTCTTACCACGATCATGGGGCATATTAAAGACACCATTTAATC
508 CAGATTGAAGACATCATCCAATCTCTTACCACGATCATGGGGCAAATTAAAGACATCATCCAATC
* * * *
14680 TCTTATCCCGATCATGAGCAAATTGAAGATATCATCCAATTTCTTACCTCGATCATG
573 TCTTACCCCGATCATGGGCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATG
* * *
14737 GGGCAGATTGAAGATCATCCAATCTCTTACCCCGACCATGAGGCAGGTTGAAG-CTATCATCCAA
1 GGGCAGATTGAAGATCATCCAATCTCTTACCTCGACCATGAGGCAGATTAAAGAC-ATCATCCAA
* *
14801 TCTCTTACCCTTAAGTTAAGAAAGGGAGATTGAAGACATCATCCAATCTCTTACCCTGACT-ATA
65 TCTCTTACCCTTAAG-TAACAAAGGGAGATTGAAGACATCATCCAATCTCTTACCCTGAGTCA-A
14865 G-GG-CAGATTGAAGATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCTACCATCAA
128 GAGGACAGATTGAAGATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGC-ACCATCAA
* *
14928 ATCTCTTACCCCGATCATGGGGCAAATTAAAGATATCATCTAATCTCTTACCCCGACCATTAGGC
192 ATCTCTTACCCCGATCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGACCATGAGGC
* * * *
14993 AAATTGAAGCTATCATCCAATCTCTTACCCTTAAGTTAAGAAAGATAGATTGAAGACATCATCAA
257 AGATTGAAGCTATCATCCAATCTCTTACCCTTAAGTCAAGAAAGGTAGATTGAAGACATCATCCA
*
15058 ATCTCTTACCCCGATCATGGTGCAAATTGAAGCTATCATCCAATCTCTTACCCTGACCATAGGGC
322 ATCTCTTACCCCGATCATGG-GCAGATTGAAGC-ATCATCCAATCTCTTACCCTGACCATAGGGC
* * ** * *
15123 AGATTAAAGACATTATCCAATCTCTTACATCGACCATGGGGCAGATTGAGGACATCATCCAATCT
385 AGATTGAAG--ATCATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAGACATCATCCAATCT
* * * * *
15188 CTTACCCCAATAATTGGGCAAATTGAAGACACCGTCTAATCTCTTACCCCGACCATGAGGCAGAT
448 CTTACCCCAATCATTGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGAGGCAGAT
* * * *
15253 TGAAGACATCATCCAATCTCTTATCC-CGATCAT-AGGAAAATTTAAGATATCATCCAATCTCTT
513 TGAAGACATCATCCAATCTCTTA-CCACGATCATGGGGCAAATTAAAGACATCATCCAATCTCTT
* * *
15316 ACCCCGATCATAGGGCAGATT-AA-AGATCATCCAATCTCTTACCCCGACCATG
577 ACCCCGATCAT-GGGCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATG
* * * * *
15368 GGGCAGATTAAAGCTACCATCAAATCTCTTACCTCGATCATGGGGCAGATTAAAGACATCATCCA
1 GGGCAGATTGAAG--ATCATCCAATCTCTTACCTCGACCATGAGGCAGATTAAAGACATCATCCA
* * ** * *
15433 ATCTCTTA-CC-T-CG-ACCATGGGGCAGATTGAAG-CTATCATTCAATCTCTTACCCTTAAGTC
64 ATCTCTTACCCTTAAGTAACAAAGGG-AGATTGAAGAC-ATCATCCAATCTCTTACCC-TGAGTC
* * * *
15493 AAGAAGGACAG-TTGAAGA-CATCGTTCAATCTTTTAGCCCAACTATGGGGCAGATTGAAG-ACC
126 AAG-AGGACAGATTGAAGATCATC---CAATCTCTTACCCCGACCATGGGGCAGATTGAAGCACC
* * *
15555 ATCCAGTCTTTTACCCC
187 ATCAAATCTCTTACCCC
15572 TAATCCAGAT
Statistics
Matches: 1739, Mismatches: 263, Indels: 176
0.80 0.12 0.08
Matches are distributed among these distances:
618 5 0.00
619 45 0.03
621 48 0.03
622 70 0.04
623 151 0.09
624 125 0.07
625 51 0.03
626 38 0.02
627 67 0.04
628 162 0.09
629 119 0.07
630 98 0.06
631 95 0.05
632 64 0.04
633 150 0.09
634 37 0.02
635 410 0.24
636 2 0.00
637 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (629 bp):
GGGCAGATTGAAGATCATCCAATCTCTTACCTCGACCATGAGGCAGATTAAAGACATCATCCAAT
CTCTTACCCTTAAGTAACAAAGGGAGATTGAAGACATCATCCAATCTCTTACCCTGAGTCAAGAG
GACAGATTGAAGATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCACCATCAAATCT
CTTACCCCGATCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGACCATGAGGCAGAT
TGAAGCTATCATCCAATCTCTTACCCTTAAGTCAAGAAAGGTAGATTGAAGACATCATCCAATCT
CTTACCCCGATCATGGGCAGATTGAAGCATCATCCAATCTCTTACCCTGACCATAGGGCAGATTG
AAGATCATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAGACATCATCCAATCTCTTACCCC
AATCATTGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGAGGCAGATTGAAGACA
TCATCCAATCTCTTACCACGATCATGGGGCAAATTAAAGACATCATCCAATCTCTTACCCCGATC
ATGGGCAGATTGAAGATATCATCCAATCTCTTACCTCGATCATG
Found at i:17067 original size:24 final size:23
Alignment explanation
Indices: 17040--17085 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17030 TCAGCCCGAC
*
17040 TAGTTAATAGGGACTTTCAATTTA
1 TAGTTAATA-GCACTTTCAATTTA
* *
17064 TAGTTCATATCACTTTCAATTT
1 TAGTTAATAGCACTTTCAATTT
17086 CAATTTCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (23 bp):
TAGTTAATAGCACTTTCAATTTA
Done.