Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005520.1 Hibiscus syriacus cultivar Beakdansim tig00012753_pilon, 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: 60650
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Found at i:181 original size:19 final size:19
Alignment explanation
Indices: 142--177 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
132 CAATTTAGTC
142 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
161 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
178 TAATATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:186 original size:19 final size:19
Alignment explanation
Indices: 145--186 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
135 TTTAGTCATT
*
145 TATTTTATATGTTTTAATT
1 TATTTTATATGTTTTAATA
164 TATTTTAT-TGTTTTTAATA
1 TATTTTATATG-TTTTAATA
183 TATT
1 TATT
187 GTTTTAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TATTTTATATGTTTTAATA
Found at i:11434 original size:1 final size:1
Alignment explanation
Indices: 11428--11462 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
11418 ATTATGCTTG
*
11428 AAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11463 GGGTCAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:12469 original size:52 final size:52
Alignment explanation
Indices: 12398--12861 Score: 871
Period size: 52 Copynumber: 8.9 Consensus size: 52
12388 TGCTCAATAA
12398 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
12450 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAG
12502 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAG
12554 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAG
12606 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
12658 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
12710 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
12762 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
*
12814 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
12862 CAATCATTAA
Statistics
Matches: 409, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
51 2 0.00
52 405 0.99
53 2 0.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (52 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAG
Found at i:13848 original size:113 final size:113
Alignment explanation
Indices: 13680--14655 Score: 1305
Period size: 113 Copynumber: 8.6 Consensus size: 113
13670 TTCCAGTTCG
13680 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * * *
13745 AACCTTTTACCTGAATCCATCATTTGGTGGATAATCTTTTCCAGAAAA
66 AACCTTTTACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
* *
13793 AGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
13858 AACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAA
66 AACCTTTTACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
*
13906 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
13971 AACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAA
66 AACCTTTTACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
*
14019 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * ** *
14084 AACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAG
66 AACCTTTTACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
*
14132 AGTTCATAATGAGAAGAACTCATTTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * ** *
14196 AACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAG
66 AACCTTTTACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
*
14244 AGTTCATAATGAGAAGAACTCATTTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * ****
14308 AA-CTTTTCACTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTCG
66 AACCTTTT-ACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
* ** *
14356 AGTTCATAATGAGAAGAACTTATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
14421 AA-CTTTTCACTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
66 AACCTTTT-ACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
* *
14469 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* ** * **
14534 AACTTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCA-AAGAA
66 AAC-CTTTTACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAA-AA
**
14583 AGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
14648 CAACCTTT
65 CAACCTTT
14656 GTTTGATATC
Statistics
Matches: 794, Mismatches: 63, Indels: 11
0.91 0.07 0.01
Matches are distributed among these distances:
111 4 0.01
112 208 0.26
113 479 0.60
114 40 0.05
115 63 0.08
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTACTTAAATTCATCATTTGATGGATCAGCATTTCCAGAAAA
Found at i:14622 original size:450 final size:451
Alignment explanation
Indices: 13680--14655 Score: 1420
Period size: 450 Copynumber: 2.2 Consensus size: 451
13670 TTCCAGTTCG
13680 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
13745 AACCTTTTACCTGAATCCATCATTTGGTGGATAATCTTTTCCAGAAAAAGTTCATAATGAGAAGA
65 AACCTTTTACCTAAATCCATCATTTGATGGATAATCATTACCAGAAAAAGTTCATAATGAGAAGA
*
13810 ACACATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
130 ACACATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTCAAATC
* * *
13875 CATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
195 CATCATCTGATGGATCAGCATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
* *
13940 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCA
260 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACTCAAATCCATCATTCGATGGATCA
*
14005 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
325 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *** *
14070 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAG
390 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCAACATGACCAAAGAA
* *
14132 AGTTCATAATGAGAAGAACTCATTTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * * * ** *
14197 ACTTTTTGCTTAAATTCATCATTTGATGGATCATCATTACCAGTTAGAGTTCATAATGAGAAGAA
66 ACCTTTTACCTAAATCCATCATTTGATGGATAATCATTACCAGAAAAAGTTCATAATGAGAAGAA
* * * ** *
14262 CTCATTTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCACTTGAATT
131 CACATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-ACTCAAATC
**** * *
14325 CATCAT-TCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTTATCTGAAGAATA
195 CATCATCT-GATGGATCAGCATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
* ** *
14389 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCACTTGAATTCATCATTCGATGGAT
259 AAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTT-ACTCAAATCCATCATTCGATGGAT
* *
14453 CAACTTTTCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
323 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* *
14518 TGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAA
388 TGAGAAGAACTTGTTCAAC-TTTTTGCTTAAATTCATCATTTGATGGATCAACATGACCAAAGAA
**
14583 AGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAATTTGTT
14648 CAACCTTT
64 CAACCTTT
14656 GTTTGATATC
Statistics
Matches: 466, Mismatches: 52, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
449 11 0.02
450 225 0.48
451 140 0.30
452 55 0.12
453 35 0.08
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (451 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTACCTAAATCCATCATTTGATGGATAATCATTACCAGAAAAAGTTCATAATGAGAAGAA
CACATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTCAAATCC
ATCATCTGATGGATCAGCATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
GAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTACTCAAATCCATCATTCGATGGATCAA
CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCAACATGACCAAAGAA
Found at i:14954 original size:3 final size:3
Alignment explanation
Indices: 14946--15073 Score: 220
Period size: 3 Copynumber: 42.7 Consensus size: 3
14936 TTTTTATCCA
14946 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
14994 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
15042 TAT TAA TAT TAT TAT TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15074 AATATATTAA
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 117 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:16468 original size:19 final size:19
Alignment explanation
Indices: 16430--16465 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16420 CAATTTAGTC
16430 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
16449 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
16466 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:19330 original size:17 final size:18
Alignment explanation
Indices: 19290--19330 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
19280 TTTAAACATC
*
19290 AATTTATTTTGTTTCAAT
1 AATTTATTTTGTTTAAAT
19308 AATTTATTTT-TTTAAAT
1 AATTTATTTTGTTTAAAT
*
19325 AGTTTA
1 AATTTA
19331 GAGTGATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (18 bp):
AATTTATTTTGTTTAAAT
Found at i:23468 original size:3 final size:3
Alignment explanation
Indices: 23462--23487 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23452 AATTATTATT
23462 TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TA
23488 ATAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:23492 original size:3 final size:3
Alignment explanation
Indices: 23486--23511 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23476 CTACTACTAC
23486 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
23512 TATGTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:24224 original size:130 final size:131
Alignment explanation
Indices: 23994--24346 Score: 484
Period size: 130 Copynumber: 2.7 Consensus size: 131
23984 TCTAAATTTT
* * * * * * *
23994 TTTTGATTCATTTC-CTTGCTCTTCAGGGACGCTTGAATCAAACTCGACTTGCTTCACTGCTATT
1 TTTTGATTCACTTCAC-TACTCTTCAGGGAAGGTTGAATCAAAGTCGATTTGCTTCACTGCTCTT
* *
24058 CAGGAAGAACCAAATCT-AATAG-AG--GTAAAATCCACCCCATTTTTTGGGTAATCAGATCTTG
65 CAGGAAG-ACCAAATATGAA-AGAAGAAG-AAAATCCACCCCACTTTTTGGGTAATCAGATCTTG
24119 ACAAA
127 ACAAA
* * *
24124 TTTTGATTCACTTCACTACTTTTCAGGGAAGGTTGAATCGAAGTCGATTTGCTTCACTGCGCTTC
1 TTTTGATTCACTTCACTACTCTTCAGGGAAGGTTGAATCAAAGTCGATTTGCTTCACTGCTCTTC
24189 AGGAAGACCAAATATGAAAGAAGAAGAAAAT-CACCCCACTTTTTGGGTAATCAGATCTTGACAA
66 AGGAAGACCAAATATGAAAGAAGAAGAAAATCCACCCCACTTTTTGGGTAATCAGATCTTGACAA
24253 A
131 A
* * *
24254 TTTTGATTCACTTCACTTCTCTTCAGGGAAAGTTGAATCAAAGTCGATTTGCTTCACTGCTCTTT
1 TTTTGATTCACTTCACTACTCTTCAGGGAAGGTTGAATCAAAGTCGATTTGCTTCACTGCTCTTC
*
24319 AGGAAGACAAAATATGAAAGAAGAAGAA
66 AGGAAGACCAAATATGAAAGAAGAAGAA
24347 TCTTCTCCAC
Statistics
Matches: 199, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
129 10 0.05
130 182 0.91
131 6 0.03
132 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (131 bp):
TTTTGATTCACTTCACTACTCTTCAGGGAAGGTTGAATCAAAGTCGATTTGCTTCACTGCTCTTC
AGGAAGACCAAATATGAAAGAAGAAGAAAATCCACCCCACTTTTTGGGTAATCAGATCTTGACAA
A
Found at i:25171 original size:45 final size:44
Alignment explanation
Indices: 25072--25725 Score: 486
Period size: 45 Copynumber: 14.8 Consensus size: 44
25062 ATAACACCAT
* ** *
25072 TAAAAGGTTGAC-TCTTCTTCGTGAGAAAGTCAAAAAAGGACAACAC
1 TAAAAGATTGACTTC-TCTTCACGAGAAAGTC-AAGAA-GACAACAC
* * *
25118 TAAAAGATGGACTCCTCTTCACGAGAAAGTCAAGAAGGATAACAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
* * *
25163 TAAAAGATGGA-ATCTTCTTCATGAGAAAGTCAAGGAAGACAACAC
1 TAAAAGATTGACTTC-TCTTCACGAGAAAGTCAA-GAAGACAACAC
* *
25208 TGAAAGATTGACTTCTCTTCACGAGAAATTCAAGAATGACAACAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
* * * * ** * * **
25253 CAATATATTGACTCCTCTTTGCAAGAAAGTCAAGAATAACGTCAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
** * * * * *
25298 TAAAAGGGTAATTTCTCTTCCCGAGAAAGTTAAG-A-TCAACAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGACAACAC
* * *
25340 TGAAAGATTGAC-TCTTCTTCACGAG-AAGTCAAG-A-ATAACAT
1 TAAAAGATTGACTTC-TCTTCACGAGAAAGTCAAGAAGACAACAC
* * ** * *
25381 TGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATA-AA-AT
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGACAACAC
* * * ** *
25423 TGAAAGATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTAT
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
* * * * *
25468 TGAAAGATTGACTTCTCTTCATGAGAAAGTCAGGAATGGCAATAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
* *
25513 TGAAAGATTGACTTCTCTTCACGAGAAAGTCAAG-A-ATAACAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGACAACAC
* * * * * *
25555 TGAAATATTGACTACTCTTCATGAGGAAGTCAAGAATGACAATAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
* * ** *
25600 TAAAAGATTGAATTCTCTTCACGAGAAAGTCAAGAATAACATTAT
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
* * * *
25645 TGAAAGATTGACTTCTCTTCACAAGAAAGTCAGGAATGACAATAC
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GACAACAC
* *
25690 TGAAAGATTGACTTCTTTTCACGAGAAAGTCAAGAA
1 TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA
25726 TAATATTGAA
Statistics
Matches: 494, Mismatches: 98, Indels: 33
0.79 0.16 0.05
Matches are distributed among these distances:
41 36 0.07
42 96 0.19
43 5 0.01
44 8 0.02
45 319 0.65
46 29 0.06
47 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (44 bp):
TAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGACAACAC
Found at i:25241 original size:90 final size:89
Alignment explanation
Indices: 25074--25752 Score: 593
Period size: 90 Copynumber: 7.7 Consensus size: 89
25064 AACACCATTA
* ** * * * * *
25074 AAAGGTTGACTCTTCTTCGTGAGAAAGTCAAAAAAGGACAACACTAAAAGATGGACTCCTCTTCA
1 AAAGATTGACTCTTCTTCACGAGAAAGTC-AAGAA-TACAACACTGAAAGATTGACTTCTCTTCA
* * *
25139 CGAGAAAGTCAAGAAGGATAACACTA
64 CGAGAAAGTCAAGAATGACAACACTG
* * * *
25165 AAAGATGGAATCTTCTTCATGAGAAAGTCAAGGAAGACAACACTGAAAGATTGACTTCTCTTCAC
1 AAAGATTGACTCTTCTTCACGAGAAAGTCAA-GAATACAACACTGAAAGATTGACTTCTCTTCAC
* *
25230 GAGAAATTCAAGAATGACAACAC-C
65 GAGAAAGTCAAGAATGACAACACTG
* * ** * ** * ** * * *
25254 AATATATTGACTCCTCTTTGCAAGAAAGTCAAGAATAACGTCACTAAAAGGGTAATTTCTCTTCC
1 AA-AGATTGACTCTTCTTCACGAGAAAGTCAAGAAT-ACAACACTGAAAGATTGACTTCTCTTCA
*
25319 CGAGAAAGTTAAG-AT--CAACACTG
64 CGAGAAAGTCAAGAATGACAACACTG
* *
25342 AAAGATTGACTCTTCTTCACGAG-AAGTCAAGAAT--AACATTGAAAGATTGACTCCTCTTCACG
1 AAAGATTGACTCTTCTTCACGAGAAAGTCAAGAATACAACACTGAAAGATTGACTTCTCTTCACG
** *
25404 AGGGAGTCAAGAAT-A-AA-ATTG
66 AGAAAGTCAAGAATGACAACACTG
* ** *
25425 AAAGATTGACT-TCTCTTCACAAGAAAGTCAAGAATAACATTATTGAAAGATTGACTTCTCTTCA
1 AAAGATTGACTCT-TCTTCACGAGAAAGTCAAGAAT-ACAACACTGAAAGATTGACTTCTCTTCA
* * * *
25489 TGAGAAAGTCAGGAATGGCAATACTG
64 CGAGAAAGTCAAGAATGACAACACTG
* * *
25515 AAAGATTGACT-TCTCTTCACGAGAAAGTCAAGAAT--AACACTGAAATATTGACTACTCTTCAT
1 AAAGATTGACTCT-TCTTCACGAGAAAGTCAAGAATACAACACTGAAAGATTGACTTCTCTTCAC
* * *
25577 GAGGAAGTCAAGAATGACAATACTA
65 GAGAAAGTCAAGAATGACAACACTG
* ** *
25602 AAAGATTGAAT-TCTCTTCACGAGAAAGTCAAGAATAACATTATTGAAAGATTGACTTCTCTTCA
1 AAAGATTGACTCT-TCTTCACGAGAAAGTCAAGAAT-ACAACACTGAAAGATTGACTTCTCTTCA
* * *
25666 CAAGAAAGTCAGGAATGACAATACTG
64 CGAGAAAGTCAAGAATGACAACACTG
* * *
25692 AAAGATTGACTTCTT-TTCACGAGAAAGTCAAGAAT--AATATTGAAAGATTGACTCCTCTTCA
1 AAAGATTGAC-TCTTCTTCACGAGAAAGTCAAGAATACAACACTGAAAGATTGACTTCTCTTCA
25753 TGTGGAAGTC
Statistics
Matches: 484, Mismatches: 85, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
82 1 0.00
83 49 0.10
84 15 0.03
86 11 0.02
87 158 0.33
88 2 0.00
89 9 0.02
90 209 0.43
91 29 0.06
92 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (89 bp):
AAAGATTGACTCTTCTTCACGAGAAAGTCAAGAATACAACACTGAAAGATTGACTTCTCTTCACG
AGAAAGTCAAGAATGACAACACTG
Found at i:25765 original size:132 final size:129
Alignment explanation
Indices: 25120--25752 Score: 533
Period size: 132 Copynumber: 4.8 Consensus size: 129
25110 GACAACACTA
* * * * * *
25120 AAAGATGGACTCCTCTTCACGAGAAAGTCAAGAAGGATAACACTAAAAGATGGA-ATCTTCTTCA
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAG-A--ATAAAACTGAAAGATTGACTTC-TCTTCA
* * * * * * *
25184 TGAGAAAGTCAAGGAAGACAACACTGAAAGATTGACTTCTCTTCACGAGAAATTCAAGAATGACA
62 CGAGAAAGTCAA-GAATA-AATATTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACA
***
25249 -ACACC
125 TA-TTG
* * ** * * * ** * * *
25254 AATATATTGACTCCTCTTTGCAAGAAAGTCAAGAATAACGTCACTAAAAGGGTAATTTCTCTTCC
1 AA-AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAA---AACTGAAAGATTGACTTCTCTTCA
* * * * *
25319 CGAGAAAGTTAAG-ATCAACACTGAAAGATTGACTCTTCTTCACGAG-AAGTCAAGAATAAC--A
62 CGAGAAAGTCAAGAATAAATATTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACATA
25380 TTG
127 TTG
* ** * *
25383 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAAAATTGAAAGATTGACTTCTCTTCACAAG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAAAACTGAAAGATTGACTTCTCTTCACGAG
* * * ** *
25448 AAAGTCAAGAATAACATTATTGAAAGATTGACTTCTCTTCATGAGAAAGTCAGGAATGGCAATAC
66 AAAGTCAAGAATAA-A-TATTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAAC-ATAT
25513 TG
128 TG
* * * *
25515 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACACTGAAATATTGACTACTCTTCATGAG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAAAACTGAAAGATTGACTTCTCTTCACGAG
* * * * *
25580 GAAGTCAAGAATGACAATACTAAAAGATTGAATTCTCTTCACGAGAAAGTCAAGAATAACATTAT
66 AAAGTCAAGAAT-A-AATATTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACA-TAT
25645 TG
128 TG
* * *
25647 AAAGATTGACTTCTCTTCACAAGAAAGTCAGGAATGACAATACTGAAAGATTGACTTCTTTTCAC
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAT-A-AA-ACTGAAAGATTGACTTCTCTTCAC
25712 GAGAAAGTCAAGAAT-AATATTGAAAGATTGACTCCTCTTCA
63 GAGAAAGTCAAGAATAAATATTGAAAGATTGACTCCTCTTCA
25753 TGTGGAAGTC
Statistics
Matches: 403, Mismatches: 78, Indels: 38
0.78 0.15 0.07
Matches are distributed among these distances:
125 27 0.07
126 3 0.01
127 1 0.00
128 52 0.13
129 13 0.03
130 1 0.00
131 13 0.03
132 197 0.49
133 4 0.01
134 6 0.01
135 84 0.21
136 2 0.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (129 bp):
AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATAAAACTGAAAGATTGACTTCTCTTCACGAG
AAAGTCAAGAATAAATATTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACATATTG
Found at i:28301 original size:3 final size:3
Alignment explanation
Indices: 28295--28329 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
28285 TATATAATCT
*
28295 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
28330 TTATTAACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:29377 original size:42 final size:42
Alignment explanation
Indices: 29227--29704 Score: 356
Period size: 45 Copynumber: 10.9 Consensus size: 42
29217 CAATAAAGTC
* **
29227 ATTCATGACTTTCTCGTGAAGAGAAAACAATCTTTCAATAATGTT
1 ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTC---AATGTT
* * * * *
29272 ATTCTTGTCTTTCTCATGAAGATAAATCAATCTTTCATTATTGTC
1 ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA--A-TGTT
* * * *
29317 GTTCTTGACTTCCTCATGAAGAGGAGTCAATCTTTCAATGTT
1 ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTT
* * *
29359 ATTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTTAGTATTGTC
1 ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA--A-TGTT
29404 ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTCAGTAATGTTATT
1 ATTCTTGACTTTCTCGTGAAGAGAAGTCAATC-TTTC---AATG---TT
* * *
29453 ATTATTGACTTTTTCATGAAGAGAAGTCAATCTTTCAATGTT
1 ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTT
* * *
29495 ATTCTTGAC-TCCATTGTGAAGAGGAGTCAATCTTTCAATGTT
1 ATTCTTGACTTTC-TCGTGAAGAGAAGTCAATCTTTCAATGTT
* *
29537 ATTCTTGAC-TTCTCGTGAA-AAAGAGTCAATCTTTCAGTGTT
1 ATTCTTGACTTTCTCGTGAAGAGA-AGTCAATCTTTCAATGTT
* * * * * *
29578 GA-TCTTGACTTTCTCGGGAGGAGAGGTTAACCTTTTAGTGATGTT
1 -ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA---ATGTT
* ** * **
29623 ATTCTTGACTTTTTTATGAAGACG-AGTCAATATATT-GGTGTTTT
1 ATTCTTGACTTTCTCGTGAAGA-GAAGTCAATCT-TTCAATG--TT
29667 CATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA
1 -ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA
29705 GTATTGTGTT
Statistics
Matches: 345, Mismatches: 59, Indels: 58
0.75 0.13 0.13
Matches are distributed among these distances:
40 1 0.00
41 31 0.09
42 104 0.30
43 3 0.01
44 8 0.02
45 154 0.45
46 8 0.02
47 1 0.00
48 4 0.01
49 31 0.09
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (42 bp):
ATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAATGTT
Found at i:29389 original size:87 final size:86
Alignment explanation
Indices: 29224--29704 Score: 388
Period size: 87 Copynumber: 5.5 Consensus size: 86
29214 ATGCAATAAA
* * * ** *
29224 GTCATTCATGACTTTCTCGTGAAGAGAAAACAATCTTTCAATAATGTTATTCTTGTCTTTCTCAT
1 GTCATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTC---AATGTTATTCTTGACTTTCTCAT
* *
29289 GAAGATAAATCAATCTTTCATTATT
63 GAAGAGAAGTCAATCTTTCA-TATT
* *
29314 GTCGTTCTTGACTTCCTCATGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTTCTCATGAA
1 GTCATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTTCTCATGAA
*
29379 GAGAAGTCAATCTTTTAGTATT
66 GAGAAGTCAATCTTTCA-TATT
* * * *
29401 GTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTTCAGTAATGTTATTATTATTGACTTTT
1 GTCATTCTTGACTTCCTCGTGAAGAGGAGTCAATC-TTTC---AATG---TTATTCTTGACTTTC
29466 TCATGAAGAGAAGTCAATCTTTCA-A-T
59 TCATGAAGAGAAGTCAATCTTTCATATT
* * *
29492 GTTATTCTTGAC-TCCATTGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGAC-TTCTCGTGA
1 GTCATTCTTGACTTCC-TCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTTCTCATGA
* *
29555 A-AAAGAGTCAATCTTTCAGTGTT
65 AGAGA-AGTCAATCTTTCA-TATT
* * * * * * * *
29578 G--A-TCTTGACTTTCTCGGGAGGA-GAGGTTAACCTTTTAGTGATGTTATTCTTGACTTTTTTA
1 GTCATTCTTGACTTCCTCGTGAAGAGGA-GTCAATCTTTCA---ATGTTATTCTTGACTTTCTCA
* ** *
29639 TGAAGACG-AGTCAATATATTGGTGTT
62 TGAAGA-GAAGTCAATCT-TTCATATT
* * *
29665 TTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA
1 GTCATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCA
29705 GTATTGTGTT
Statistics
Matches: 317, Mismatches: 49, Indels: 50
0.76 0.12 0.12
Matches are distributed among these distances:
82 4 0.01
83 43 0.14
84 13 0.04
86 16 0.05
87 97 0.31
88 7 0.02
89 1 0.00
90 65 0.21
91 34 0.11
92 1 0.00
94 36 0.11
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (86 bp):
GTCATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTTCTCATGAA
GAGAAGTCAATCTTTCATATT
Found at i:30174 original size:14 final size:14
Alignment explanation
Indices: 30157--30206 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
30147 AATATAAATA
30157 ACATAAATTAAAGG
1 ACATAAATTAAAGG
*
30171 ACATAAATGTAAATG
1 ACATAAAT-TAAAGG
* *
30186 ACAAAAAATAAAGG
1 ACATAAATTAAAGG
*
30200 CCATAAA
1 ACATAAA
30207 AATAAAATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.18
Consensus pattern (14 bp):
ACATAAATTAAAGG
Found at i:30183 original size:29 final size:29
Alignment explanation
Indices: 30123--30212 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
30113 ACTGAAATTA
*
30123 AAATAACAGAAATTAAAGGGA-A-AGAATAT
1 AAATAACAAAAATTAAA-GGACATA-AATAT
* *
30152 AAATAACATAAATTAAAGGACATAAATGT
1 AAATAACAAAAATTAAAGGACATAAATAT
* * * *
30181 AAATGACAAAAAATAAAGGCCATAAAAAT
1 AAATAACAAAAATTAAAGGACATAAATAT
30210 AAA
1 AAA
30213 ATACTGAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 3 0.06
29 47 0.92
30 1 0.02
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.18
Consensus pattern (29 bp):
AAATAACAAAAATTAAAGGACATAAATAT
Found at i:31668 original size:188 final size:188
Alignment explanation
Indices: 31342--31720 Score: 695
Period size: 188 Copynumber: 2.0 Consensus size: 188
31332 TAAAGTTAGT
31342 TGGGTTAAGTAAATAAAAGTTTAATAGAATTGTTGGAGGTAAAATTAAGAGATTAGAGGGGGAAA
1 TGGGTTAAGTAAATAAAAGTTTAATAGAATTGTTGGAGGTAAAATTAAGAGATTAGAGGGGGAAA
31407 TTTAGTAAACATCGGGCTGAAAATGGCAAATATGGGTAAGGGTATCTGTACTGATAGAACAATAC
66 TTTAGTAAACATCGGGCTGAAAATGGCAAATATGGGTAAGGGTATCTGTACTGATAGAACAATAC
* * *
31472 CGATACTATAGGTGTAAATAGGTAGAAATGTGATGAACAATATCGATACCGATGCAAG
131 CAATACTATAGGTGTAAATAGGTAGAAATATGACGAACAATATCGATACCGATGCAAG
*
31530 TGGGTTAAGTAAATAAAAGTTTAATAGAATTGTTGGATGTAAAATTAAGAGATTAGAGGGGGAAA
1 TGGGTTAAGTAAATAAAAGTTTAATAGAATTGTTGGAGGTAAAATTAAGAGATTAGAGGGGGAAA
* *
31595 TTTAGTAAACATCGGGCTGAAAATGGCAAATATGGGTAAGGGTATCTGTACTGATAGAATAGTAC
66 TTTAGTAAACATCGGGCTGAAAATGGCAAATATGGGTAAGGGTATCTGTACTGATAGAACAATAC
*
31660 CAATACTATAGGTGTAAATAGGTAGAGATATGACGAACAATATCGATACCGATGCAAG
131 CAATACTATAGGTGTAAATAGGTAGAAATATGACGAACAATATCGATACCGATGCAAG
31718 TGG
1 TGG
31721 TATCGATACT
Statistics
Matches: 184, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (188 bp):
TGGGTTAAGTAAATAAAAGTTTAATAGAATTGTTGGAGGTAAAATTAAGAGATTAGAGGGGGAAA
TTTAGTAAACATCGGGCTGAAAATGGCAAATATGGGTAAGGGTATCTGTACTGATAGAACAATAC
CAATACTATAGGTGTAAATAGGTAGAAATATGACGAACAATATCGATACCGATGCAAG
Found at i:32374 original size:20 final size:20
Alignment explanation
Indices: 32349--32493 Score: 128
Period size: 20 Copynumber: 6.7 Consensus size: 20
32339 TAACTAAAAT
32349 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
32369 GCATGAAAGGATGCAATAAG
1 GCATGAAAGGATGCATTAAG
*
32389 GCATGAAAGGATGCATAACTAAAAT
1 GCATGAAAGGATGCAT---T--AAG
32414 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
32434 GCATGAAAGAATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
32460 GCATGAAATGATGCATTAAA
1 GCATGAAAGGATGCATTAAG
*
32480 GCTTGAAAGGATGC
1 GCATGAAAGGATGC
32494 CATAACTAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
20 62 0.60
21 3 0.03
22 2 0.02
23 1 0.01
24 1 0.01
25 21 0.20
26 13 0.13
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:32473 original size:26 final size:26
Alignment explanation
Indices: 32335--32976 Score: 580
Period size: 26 Copynumber: 27.1 Consensus size: 26
32325 CTAAAACGAA
32335 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
*
32361 G-CAT---T--AAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
*
32381 G-C--AA-T--AAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32401 G-CATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32426 G-CAT---T--AAGGCATGAAAGAAT
1 GCCATAACTAAAATGCATGAAAGGAT
*
32446 GCCATAACTAAAATGCATGAAATGAT
1 GCCATAACTAAAATGCATGAAAGGAT
*
32472 G-CAT---T-AAA-GCTTGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
*
32492 GCCATAACTAAAATTCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32518 ACCATAACTAAAATGCATGAAATGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32544 G-CAT---T--AA-GCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32563 TCCATAACTAAAATGAATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32589 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32615 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32641 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32667 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32693 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32719 G-CAT---T--AAGGAATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
*
32739 GCCATAACTAAAATGCATGAAGGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32765 G-CGT---T--AAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32785 GTCATAACTAAAATGCATGAAATGAT
1 GCCATAACTAAAATGCATGAAAGGAT
** * *
32811 G---T---TTTAAGGCAGGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32831 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
*
32857 G-CAT---T--AAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32877 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32903 G-CAT---T--AAGGTATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
* *
32923 TCCATAACTAAAATGCATGAAAGTAT
1 GCCATAACTAAAATGCATGAAAGGAT
* * *
32949 GCCATAACAAAAATACACGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGAT
32975 GC
1 GC
32977 ATTAGGGTTT
Statistics
Matches: 507, Mismatches: 53, Indels: 112
0.75 0.08 0.17
Matches are distributed among these distances:
19 11 0.02
20 134 0.26
21 20 0.04
22 10 0.02
23 4 0.01
24 6 0.01
25 43 0.08
26 279 0.55
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (26 bp):
GCCATAACTAAAATGCATGAAAGGAT
Found at i:32473 original size:46 final size:46
Alignment explanation
Indices: 32369--32950 Score: 667
Period size: 46 Copynumber: 12.3 Consensus size: 46
32359 ATGCATTAAG
*
32369 GCATGAAAGGATGCAATAAGGCATGAAAGGATG-CATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
32414 GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * *
32460 GCATGAAATGATGCATTAAAGCTTGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * * *
32506 TCATGAAAGGATACCATAACTAAAATGCATGAAATGATG-CAT---T--AA-
1 GCATGAAAGGAT-GCAT---T--AAGGCATGAAAGGATGCCATAACTAAAAT
* * *
32551 GCATGAAAGGATTCCATAACTAAAATGAATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGA-TGCAT---T--AAGGCATGAAAGGATGCCATAACTAAAAT
*
32603 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAAT
*
32655 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAAT
*
32707 GCATGAAAGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * *
32753 GCATGAAGGGATGCGTTAAGGCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* ** *
32799 GCATGAAATGATGTTTTAAGGCAGGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
32845 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
32891 GCATGAAAGGATGCATTAAGGTATGAAAGGATTCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
32937 GCATGAAAGTATGC
1 GCATGAAAGGATGC
32951 CATAACAAAA
Statistics
Matches: 485, Mismatches: 36, Indels: 31
0.88 0.07 0.06
Matches are distributed among these distances:
45 65 0.13
46 278 0.57
47 3 0.01
48 2 0.00
49 1 0.00
50 1 0.00
51 9 0.02
52 126 0.26
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
Found at i:33015 original size:72 final size:72
Alignment explanation
Indices: 32434--33022 Score: 390
Period size: 72 Copynumber: 8.2 Consensus size: 72
32424 ATGCATTAAG
* * * * * *
32434 GCATGAAAGAATGCCATAACTAAAATGCATGAAATGATGCATTAAAGCT-TGAAAGGATGCCATA
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATT-AAGGTATGAAAGGATGCCATA
32498 ACTAAAAT
65 ACTAAAAT
* * * * * * * *
32506 TCATGAAAGGATACCATAACTAAAATGCATGAAATGATGCATTAA-GCATGAAAGGATTCCATAA
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAGGTATGAAAGGATGCCATAA
32570 CTAAAAT
66 CTAAAAT
* * * * * *
32577 GAATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATG-CAT---T--AAGGTATGAAAGGATG
32642 CCATAACTAAAAT
60 CCATAACTAAAAT
* * * * *
32655 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATG-CAT---T--AAGGTATGAAAGGATG
*
32720 -CAT---T--AAG
60 CCATAACTAAAAT
* * * * * * * *
32727 GAATGAAAGGATGCCATAACTAAAATGCATGAAGGGATGCGTTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAGGTATGAAAGGATGCCATAA
32792 CTAAAAT
66 CTAAAAT
* *** ** * * *
32799 GCATGAAATGATG---T---TTTAAGGCAGGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATG-CAT---T--AAGGTATGAAAGGATG
*
32858 -CAT---T--AAG
60 CCATAACTAAAAT
* * * *
32865 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGTATGAAAGGATTCCATAA
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAGGTATGAAAGGATGCCATAA
32930 CTAAAAT
66 CTAAAAT
* * *
32937 GCATGAAAGTATGCCATAACAAAAATACACGAAAGGATGCATTAGGGTTTGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAGGTATGAAAGGATGCCATAA
33002 CTAAAAT
66 CTAAAAT
* *
33009 GTATGAATGGATGC
1 GCATGAAAGGATGC
33023 ATTAAGGCAT
Statistics
Matches: 438, Mismatches: 47, Indels: 64
0.80 0.09 0.12
Matches are distributed among these distances:
66 56 0.13
67 8 0.02
68 3 0.01
69 2 0.00
70 3 0.01
71 67 0.15
72 203 0.46
74 1 0.00
75 1 0.00
77 5 0.01
78 89 0.20
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (72 bp):
GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAGGTATGAAAGGATGCCATAA
CTAAAAT
Found at i:33036 original size:46 final size:46
Alignment explanation
Indices: 32937--33041 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 46
32927 TAACTAAAAT
* *
32937 GCATGAAAGTATGCCATAACAAAAATACACGAAAGGATGCATTAGG
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAG
** * ** * *
32983 GTTTGAAAGGATGCCATAACTAAAATGTATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAG
*
33029 GCATGAAATGATG
1 GCATGAAAGGATG
33042 TCATGAATGA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAACAAAAATACACGAAAGGATGCATTAAG
Found at i:33061 original size:118 final size:118
Alignment explanation
Indices: 32373--33036 Score: 464
Period size: 118 Copynumber: 5.6 Consensus size: 118
32363 ATTAAGGCAT
*
32373 GAAAGGATGCAATAAGGCATGAAAGGATG-CATAACTAAAATGCATGAAAGGATGCATTAAGGCA
1 GAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCA
* * * * * * **
32437 TGAAAGAATGCCATAACTAAAATGCATGAAATGATG-CAT----TAAA-GCTT
66 TGAAAGGATTCCATAACTAAAATGAATGAAAGGATGCCATAACAAAAATACAC
** * *
32484 GAAAGGATGCCATAACTAAAATTCATGAAAGGATACCATAACTAAAATGCATGAAATGATGCATT
1 GAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATT
* * *
32549 AA-GCATGAAAGGATTCCATAACTAAAATGAATGAAAGGATGCCATAACTAAAATGCAT
60 AAGGCATGAAAGGATTCCATAACTAAAATGAATGAAAGGATGCCATAACAAAAATACAC
*
32607 GAAAGGATGCCATAACTAAAATGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCCAT
1 GAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT
* * * * **
32672 AACTAAAATGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CATTA-AGGAAT----
59 ---T--AAGGCATGAAAGGATTCCATAACTAAAATGAATGAAAGGATGCCATAACAAAAATACAC
* * * *
32731 GAAAGGATGCCATAACTAAAATGCATGAAGGGATG-CGT---T--AAGGCATGAAAGGATGTCAT
1 GAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT
* * * * * * * *
32790 AACTAAAATGCATGAAATGATGT---T---T-TAAGGCAGGAAAGGATGCCATAACTAAAATGCA
59 ---T--AAGGCATGAAAGGAT-TCCATAACTAAAATGAATGAAAGGATGCCATAACAAAAATACA
*
32848 T
118 C
*
32849 GAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGTA
1 GAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCA
* *
32914 TGAAAGGATTCCATAACTAAAATGCATGAAAGTATGCCATAACAAAAATACAC
66 TGAAAGGATTCCATAACTAAAATGAATGAAAGGATGCCATAACAAAAATACAC
* ** * *
32967 GAAAGGATGCATTAGGGTTTGAAAGGATGCCATAACTAAAATGTATGAATGGATGCATTAAGGCA
1 GAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCA
33032 TGAAA
66 TGAAA
33037 TGATGTCATG
Statistics
Matches: 460, Mismatches: 53, Indels: 73
0.78 0.09 0.12
Matches are distributed among these distances:
111 10 0.02
112 42 0.09
113 7 0.02
114 6 0.01
115 1 0.00
116 2 0.00
117 55 0.12
118 186 0.40
120 1 0.00
122 3 0.01
123 63 0.14
124 37 0.08
127 1 0.00
128 3 0.01
129 6 0.01
130 37 0.08
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (118 bp):
GAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCA
TGAAAGGATTCCATAACTAAAATGAATGAAAGGATGCCATAACAAAAATACAC
Found at i:44826 original size:44 final size:44
Alignment explanation
Indices: 44777--44893 Score: 164
Period size: 44 Copynumber: 2.7 Consensus size: 44
44767 TTGTGCTAAG
*
44777 TGCATCGATACACTATAAAAGTGTACCGATGCATTCATTGAATA
1 TGCATCGATACACTATGAAAGTGTACCGATGCATTCATTGAATA
* * ** *
44821 TGCATCGATACATTATGAAGGTACACCGATGCATTCCTTGAATA
1 TGCATCGATACACTATGAAAGTGTACCGATGCATTCATTGAATA
*
44865 TGCATCGATACACTATGCAA-TGTACCGAT
1 TGCATCGATACACTATGAAAGTGTACCGAT
44894 ACACTCGTCG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 7 0.11
44 55 0.89
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGTACCGATGCATTCATTGAATA
Found at i:44834 original size:23 final size:23
Alignment explanation
Indices: 44803--44876 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
44793 AAAAGTGTAC
*
44803 CGATGCATTCATTGAATATGCAT
1 CGATACATTCATTGAATATGCAT
** * *
44826 CGATACATT-A-TGAAGGTACAC
1 CGATACATTCATTGAATATGCAT
* *
44847 CGATGCATTCCTTGAATATGCAT
1 CGATACATTCATTGAATATGCAT
44870 CGATACA
1 CGATACA
44877 CTATGCAATG
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
21 15 0.41
22 1 0.03
23 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (23 bp):
CGATACATTCATTGAATATGCAT
Found at i:45386 original size:13 final size:13
Alignment explanation
Indices: 45363--45401 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
45353 AAAACTAAAT
*
45363 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAA
45377 ATTGTTTTCAAAA
1 ATTGTTTTCAAAA
*
45390 ATAGTTTTCAAA
1 ATTGTTTTCAAA
45402 TTTGCCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTGTTTTCAAAA
Found at i:47171 original size:13 final size:13
Alignment explanation
Indices: 47142--47174 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47132 GGGGAGTAAT
*
47142 TTTTCAAAATTGA
1 TTTTCAAAAATGA
47155 -TTTCAAAAATGA
1 TTTTCAAAAATGA
47167 TTTTCAAA
1 TTTTCAAA
47175 GAAAATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:49298 original size:46 final size:46
Alignment explanation
Indices: 49229--49770 Score: 638
Period size: 46 Copynumber: 12.2 Consensus size: 46
49219 CTAAAACGAA
* *
49229 GCCATAACTAAAATGCATGAAAGGATACATTAAGACATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
* * * *
49275 GTCATAACTAAAATACATGAAAGGATGCATTAAGGCTTGAAAAGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
* *
49321 GCCATAA-TTAAATGCATGAAATGATGCATTAAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
* *
49366 GCCATAACTAAAATGCATGAAAGGATGCATTAATGCATGACAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
*
49412 GCCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
* *
49458 GCCATAACTAAAATGCATAAAAGGATGCCTTAAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
* *
49504 G-CAT---T--AAGGCATGAAAGGATGCAATAAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
* * * * * * *
49544 G-CAT---T--AAGGCATGAATGTCAT-AACTAAAATGCATGAAATGAT
1 GCCATAACTAAAATGCATGAAAG-GATGCA-T-TAAGGCATGAAAGGAT
* *
49586 G-CAT---T--AAGGCATGAAAGGATACATTAAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
**
49626 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAATAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
* * *
49672 GTCATAACTAAAATTCATGAAAAGATGCATTAAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
*
49718 GCCATAACTAAAATGTATGAAAGGATGCATTAAGGCATGAAAGGAT
1 GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
*
49764 GTCATAA
1 GCCATAA
49771 ATGAAATTAA
Statistics
Matches: 432, Mismatches: 53, Indels: 22
0.85 0.10 0.04
Matches are distributed among these distances:
40 62 0.14
41 8 0.02
42 31 0.07
44 1 0.00
45 43 0.10
46 287 0.66
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (46 bp):
GCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
Found at i:49359 original size:20 final size:20
Alignment explanation
Indices: 49243--49764 Score: 299
Period size: 20 Copynumber: 23.6 Consensus size: 20
49233 TAACTAAAAT
*
49243 GCATGAAAGGATACATTAAG
1 GCATGAAAGGATGCATTAAG
* *
49263 ACATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
49289 ACATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * *
49309 GCTTGAAAAGATGCCATAATTAAAT
1 GCATGAAAGGATG-C---ATT-AAG
*
49334 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
49354 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
49380 GCATGAAAGGATGCATTAAT
1 GCATGAAAGGATGCATTAAG
* *
49400 GCATGACAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
49426 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
49446 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
49472 GCATAAAAGGATGCCTTAAG
1 GCATGAAAGGATGCATTAAG
49492 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
49512 GCATGAAAGGATGCAATAAG
1 GCATGAAAGGATGCATTAAG
49532 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * * * *
49552 GCATGAATGTCAT-AACTAAAAT
1 GCATGAAAG-GATGCA-T-TAAG
*
49574 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
49594 GCATGAAAGGATACATTAAG
1 GCATGAAAGGATGCATTAAG
*
49614 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
49640 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
** *
49660 GCATGAAAATATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
49686 TCATGAAAAGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
49706 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
49732 GTATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
49752 GCATGAAAGGATG
1 GCATGAAAGGATG
49765 TCATAAATGA
Statistics
Matches: 397, Mismatches: 54, Indels: 102
0.72 0.10 0.18
Matches are distributed among these distances:
20 205 0.52
21 31 0.08
22 17 0.04
24 11 0.03
25 33 0.08
26 100 0.25
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:49393 original size:26 final size:25
Alignment explanation
Indices: 49229--49302 Score: 68
Period size: 26 Copynumber: 3.1 Consensus size: 25
49219 CTAAAACGAA
49229 GCCATAACTAAAATGCATGAAAGGAT
1 GCCATAACTAAAAT-CATGAAAGGAT
* *
49255 -ACAT---TAAGA-CATGAAAGGAT
1 GCCATAACTAAAATCATGAAAGGAT
*
49275 GTCATAACTAAAATACATGAAAGGAT
1 GCCATAACTAAAAT-CATGAAAGGAT
49301 GC
1 GC
49303 ATTAAGGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 11 0.30
21 3 0.08
22 4 0.11
24 4 0.11
25 3 0.08
26 12 0.32
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (25 bp):
GCCATAACTAAAATCATGAAAGGAT
Found at i:49413 original size:66 final size:65
Alignment explanation
Indices: 49231--49667 Score: 325
Period size: 66 Copynumber: 6.6 Consensus size: 65
49221 AAAACGAAGC
* * **
49231 CATAACTAAAATGCATGAAAGGATACATTAAGACATGAAAGGATGTCATAACTAAAATACATGAA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG-CAT---T--AAGGCATGAA
49296 AGGATG
60 AGGATG
* * * * *
49302 CAT---T--AAGGCTTGAAAAGATGCCATAATTAAATGCATGAAATGATGCATTAAGGCATGAAA
1 CATAACTAAAATGCATGAAAGGATG-C---ATT-AAGGCATGAAAGGATGCATTAAGGCATGAAA
49362 GGATG
61 GGATG
* * *
49367 CCATAACTAAAATGCATGAAAGGATGCATTAATGCATGACAGGATGCCATAACTAAAATGCATGA
1 -CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG-CAT---T--AAGGCATGA
*
49432 AATGATG
59 AAGGATG
* * * *
49439 CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATAAAAGGATGCCTTAAGGCATGAA
1 CATAACTAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGCATTAAGGCATGAA
49499 AGGATG
60 AGGATG
* * *
49505 CAT---T--AAGGCATGAAAGGATGCAATAAGGCATGAAAGGATGCATTAAGGCATG-AATG-T-
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
49562 CATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATACATTAAGGCATGAAAGGATG
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATG
49627 CCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
1 -CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAA
49668 ATATGTCATA
Statistics
Matches: 301, Mismatches: 33, Indels: 69
0.75 0.08 0.17
Matches are distributed among these distances:
57 3 0.01
58 1 0.00
59 3 0.01
60 26 0.09
62 45 0.15
63 3 0.01
64 1 0.00
65 16 0.05
66 117 0.39
67 11 0.04
68 3 0.01
69 1 0.00
70 9 0.03
71 34 0.11
72 28 0.09
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (65 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:49438 original size:26 final size:26
Alignment explanation
Indices: 49397--49486 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
49387 AGGATGCATT
*
49397 AATGCATGACAGGATGCCATAACTAA
1 AATGCATGAAAGGATGCCATAACTAA
*
49423 AATGCATGAAATGATG-CAT---T--
1 AATGCATGAAAGGATGCCATAACTAA
*
49443 AAGGCATGAAAGGATGCCATAACTAA
1 AATGCATGAAAGGATGCCATAACTAA
*
49469 AATGCATAAAAGGATGCC
1 AATGCATGAAAGGATGCC
49487 TTAAGGCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
20 14 0.27
21 3 0.06
22 1 0.02
24 1 0.02
25 3 0.06
26 30 0.58
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (26 bp):
AATGCATGAAAGGATGCCATAACTAA
Found at i:49643 original size:26 final size:26
Alignment explanation
Indices: 49614--49745 Score: 108
Period size: 26 Copynumber: 5.5 Consensus size: 26
49604 ATACATTAAG
49614 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
*
49640 GCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
** *
49660 GCATGAAAATATGTCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
* * *
49686 TCATGAAAAGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
49706 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
*
49732 GTATGAAAGGATGC
1 GCATGAAAGGATGC
49746 ATTAAGGCAT
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
20 26 0.31
21 6 0.07
22 2 0.02
24 2 0.02
25 6 0.07
26 41 0.49
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAACTAAAAT
Found at i:51640 original size:3 final size:3
Alignment explanation
Indices: 51634--51682 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
51624 TTTTTTAAAA
51634 AAT AAT -AT AAAT AA- AAT -AT AAAT AAT AAT AAT AAT AAAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT
51679 AAT A
1 AAT A
51683 TTAACCCAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
2 6 0.15
3 27 0.68
4 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51653 original size:11 final size:12
Alignment explanation
Indices: 51629--51683 Score: 59
Period size: 11 Copynumber: 5.1 Consensus size: 12
51619 TATTTTTTTT
*
51629 TAAAAAATAATA
1 TAAATAATAATA
51641 TAAATAA-AATA
1 TAAATAATAATA
51652 TAAATAAT-A-A
1 TAAATAATAATA
51662 T-AATAATAA-A
1 TAAATAATAATA
51672 T-AATAATAATA
1 TAAATAATAATA
51683 T
1 T
51684 TAACCCAGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 6 0.15
10 13 0.33
11 14 0.36
12 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAATAATAATA
Found at i:51654 original size:16 final size:15
Alignment explanation
Indices: 51643--51683 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
51633 AAATAATATA
51643 AATAA-AATATAAAT
1 AATAATAATATAAAT
51657 AATAATAATAATAAAT
1 AATAATAAT-ATAAAT
51673 AATAATAATAT
1 AATAATAATAT
51684 TAACCCAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 15 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAATAATATAAAT
Found at i:51944 original size:15 final size:15
Alignment explanation
Indices: 51920--51949 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51910 GTCACCGGTC
*
51920 AAATTGAATTAGTCA
1 AAATTAAATTAGTCA
51935 AAATTAAATTAGTCA
1 AAATTAAATTAGTCA
51950 TATTTTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (15 bp):
AAATTAAATTAGTCA
Done.