Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3522
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: 33136
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Found at i:7909 original size:40 final size:40
Alignment explanation
Indices: 7872--8017 Score: 206
Period size: 40 Copynumber: 3.6 Consensus size: 40
7862 GCTACTCGTT
* *
7872 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
7912 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
7952 CAAATGCCTTCGGGACTTAACCCGGATTTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
7993 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
8018 CATCATTCAA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
40 88 0.90
41 10 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:11598 original size:27 final size:29
Alignment explanation
Indices: 11568--11635 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 29
11558 TAATGTTACC
*
11568 TATATACATACGTAT-ATA-TATTATAAA-
1 TATATACATA-GTATAATAGTATTAGAAAG
*
11595 TATAAACAT-G-ATAATAGTATTAGAAAG
1 TATATACATAGTATAATAGTATTAGAAAG
11622 TATATACATAGTAT
1 TATATACATAGTAT
11636 GATGTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 8 0.24
27 16 0.48
28 1 0.03
29 2 0.06
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (29 bp):
TATATACATAGTATAATAGTATTAGAAAG
Found at i:12024 original size:26 final size:25
Alignment explanation
Indices: 11964--12026 Score: 63
Period size: 28 Copynumber: 2.4 Consensus size: 25
11954 AAATAGTATA
* * *
11964 AAAAAATATATATATAACTAATAAT
1 AAAATATATATATATAAATAACAAT
11989 ATACATATATATATATATGAAATAACAAT
1 A-A-A-ATATATATATAT-AAATAACAAT
12018 AAAATATAT
1 AAAATATAT
12027 GAATAGTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 2 0.06
28 12 0.39
29 9 0.29
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATATATATATATAAATAACAAT
Found at i:12101 original size:52 final size:50
Alignment explanation
Indices: 12045--12152 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 50
12035 TGATACTTAC
* * *
12045 AAATATATACATAATATAATTATTTAAGAAAAATACAT-ATATAT-AAACAATA
1 AAATATACAAATAATATAA-TATAT-A-AAAAATACATAATATATGAAA-AATA
12097 AAATATACAAATAATATAATATATAAAAAATACATAATATATGAAAAATA
1 AAATATACAAATAATATAATATATAAAAAATACATAATATATGAAAAATA
*
12147 TAATAT
1 AAATAT
12153 TTTTTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
49 10 0.20
50 16 0.32
51 7 0.14
52 17 0.34
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (50 bp):
AAATATACAAATAATATAATATATAAAAAATACATAATATATGAAAAATA
Found at i:12119 original size:34 final size:34
Alignment explanation
Indices: 12073--12152 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 34
12063 ATTATTTAAG
* *
12073 AAAAATACATATATATAAACAATA-A-AATATA-C
1 AAAAATATA-ATATATAAAAAATACATAATATATC
*
12105 AAATAATATAATATATAAAAAATACATAATATATG
1 AAA-AATATAATATATAAAAAATACATAATATATC
12140 AAAAATATAATAT
1 AAAAATATAATAT
12153 TTTTTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 16 0.39
33 6 0.15
34 16 0.39
35 3 0.07
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (34 bp):
AAAAATATAATATATAAAAAATACATAATATATC
Found at i:12128 original size:16 final size:16
Alignment explanation
Indices: 12046--12152 Score: 81
Period size: 18 Copynumber: 6.3 Consensus size: 16
12036 GATACTTACA
* *
12046 AATATATACATAATAT
1 AATATATAAAAAATAT
*
12062 AATTATTTAAGAAAA-AT
1 AA-TATATAA-AAAATAT
*
12079 ACATATATATAAACAATAA
1 A-ATATATA-AAA-AATAT
* *
12098 AATATACAAATAATAT
1 AATATATAAAAAATAT
12114 AATATATAAAAAATACAT
1 AATATATAAAAAAT--AT
*
12132 AATATATGAAAAATAT
1 AATATATAAAAAATAT
12148 AATAT
1 AATAT
12153 TTTTTTAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
16 25 0.35
17 17 0.24
18 28 0.39
19 2 0.03
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (16 bp):
AATATATAAAAAATAT
Found at i:12133 original size:18 final size:17
Alignment explanation
Indices: 12073--12152 Score: 78
Period size: 16 Copynumber: 4.8 Consensus size: 17
12063 ATTATTTAAG
12073 AAAAATACAT-ATATATA
1 AAAAATA-ATAATATATA
* *
12090 AACAATAA-AATATACA
1 AAAAATAATAATATATA
*
12106 AATAAT-ATAATATATA
1 AAAAATAATAATATATA
*
12122 AAAAATACATAATATATG
1 AAAAATA-ATAATATATA
12140 AAAAAT-ATAATAT
1 AAAAATAATAATAT
12153 TTTTTTAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
15 1 0.02
16 31 0.58
17 6 0.11
18 15 0.28
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (17 bp):
AAAAATAATAATATATA
Found at i:12193 original size:7 final size:7
Alignment explanation
Indices: 12181--12221 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
12171 TAAGAGTATT
12181 AAAATAA
1 AAAATAA
12188 AAAATAA
1 AAAATAA
12195 AAAAT-A
1 AAAATAA
12201 AAAATAA
1 AAAATAA
12208 AAAATAA
1 AAAATAA
12215 AAAATAA
1 AAAATAA
12222 TGAAGAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:12197 original size:13 final size:13
Alignment explanation
Indices: 12181--12217 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
12171 TAAGAGTATT
12181 AAAATAAAAAATAA
1 AAAAT-AAAAATAA
12195 AAAATAAAAATAA
1 AAAATAAAAATAA
12208 AAAATAAAAA
1 AAAATAAAAA
12218 ATAATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:12206 original size:20 final size:20
Alignment explanation
Indices: 12181--12221 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12171 TAAGAGTATT
12181 AAAATAAAAAATAAAAAATA
1 AAAATAAAAAATAAAAAATA
12201 AAAATAAAAAATAAAAAATA
1 AAAATAAAAAATAAAAAATA
12221 A
1 A
12222 TGAAGAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAATAAAAAATAAAAAATA
Found at i:12438 original size:25 final size:23
Alignment explanation
Indices: 12410--12466 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
12400 CGAGACATTT
12410 TAAAATAAATATACAT-ATATATA
1 TAAAATAAATATA-ATAATATATA
*
12433 TCTAAATATAATATAATAATATATA
1 T-AAAATA-AATATAATAATATATA
12458 TAATAATAA
1 TAA-AATAA
12467 TATTATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 1 0.04
24 9 0.32
25 18 0.64
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAATAAATATAATAATATATA
Found at i:12456 original size:15 final size:15
Alignment explanation
Indices: 12437--12469 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12427 TATATATCTA
12437 AATATA-AT-ATAAT
1 AATATATATAATAAT
12450 AATATATATAATAAT
1 AATATATATAATAAT
12465 AATAT
1 AATAT
12470 TATTAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 2 0.11
15 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATATATAATAAT
Found at i:12466 original size:23 final size:25
Alignment explanation
Indices: 12412--12469 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
12402 AGACATTTTA
*
12412 AAATA-AATATACATATATATATCT
1 AAATATAATATACATATATATATAT
12436 AAATATAATATA-ATA-ATATATAT
1 AAATATAATATACATATATATATAT
12459 -AATAATAATAT
1 AAAT-ATAATAT
12470 TATTAGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 3 0.10
23 14 0.45
24 8 0.26
25 6 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATATAATATACATATATATATAT
Found at i:12698 original size:3 final size:3
Alignment explanation
Indices: 12690--12793 Score: 61
Period size: 3 Copynumber: 34.0 Consensus size: 3
12680 AATATTATAT
* *
12690 ATA ATA ATA ATA CTA GA-A ATA ATA ATA CATTA A-A ATA ATA ATA TTTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA -A-TA ATA ATA ATA ATA -ATA
** * * *
12737 ATA ACC AGA ATA TTA ATA ATA ACA ATA ATA ATA ATA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* *
12782 GTA TTA ATA ATA
1 ATA ATA ATA ATA
12794 TTAGGAATGA
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
2 4 0.05
3 66 0.86
4 5 0.06
5 2 0.03
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13467 original size:19 final size:17
Alignment explanation
Indices: 13410--13469 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 17
13400 AAAAGGTAAA
*
13410 TTTTTAT-T-TTTTTAT
1 TTTTTATATATTTATAT
*
13425 TTTTT-TGTA-TTATAT
1 TTTTTATATATTTATAT
13440 TTTTTATATATTTATAT
1 TTTTTATATATTTATAT
13457 GTTTTTGATATAT
1 -TTTTT-ATATAT
13470 ATATGTGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 1 0.03
15 16 0.43
16 3 0.08
17 6 0.16
18 5 0.14
19 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTATATATTTATAT
Found at i:13471 original size:32 final size:30
Alignment explanation
Indices: 13410--13473 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 30
13400 AAAAGGTAAA
* *
13410 TTTTTATTTTTTTATTTTTTTGTATTATAT
1 TTTTTATTTTTATATGTTTTTGTATTATAT
13440 TTTTTATATATTTATATGTTTTTGATATATATAT
1 TTTTTAT-T-TTTATATGTTTTTG-TAT-TATAT
13474 GTGGAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 7 0.25
31 1 0.04
32 12 0.43
33 3 0.11
34 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (30 bp):
TTTTTATTTTTATATGTTTTTGTATTATAT
Found at i:13472 original size:17 final size:17
Alignment explanation
Indices: 13426--13475 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
13416 TTTTTTTATT
13426 TTTTTG-TAT-TATAT-
1 TTTTTGATATATATATG
13440 TTTTT-ATATATTTATATG
1 TTTTTGATATA--TATATG
13458 TTTTTGATATATATATG
1 TTTTTGATATATATATG
13475 T
1 T
13476 GGAAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.27
17 12 0.40
18 5 0.17
19 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (17 bp):
TTTTTGATATATATATG
Found at i:13516 original size:23 final size:22
Alignment explanation
Indices: 13479--13521 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13469 TATATGTGGA
* *
13479 AAAATGAAACCAAAACAGAATTT
1 AAAATGAAA-AAAAAAAGAATTT
13502 AAAATGAAAAAAAAAAGAAT
1 AAAATGAAAAAAAAAAGAAT
13522 AATCACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAATGAAAAAAAAAAGAATTT
Found at i:14106 original size:25 final size:25
Alignment explanation
Indices: 14068--14115 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
14058 TCTTTACTCA
*
14068 TTGTCGTATAACGATAACAGAGTTG
1 TTGTCGTATAACGAGAACAGAGTTG
* * *
14093 TTGTCGTGTGACGAGAATAGAGT
1 TTGTCGTATAACGAGAACAGAGT
14116 AAAGACTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (25 bp):
TTGTCGTATAACGAGAACAGAGTTG
Found at i:14467 original size:21 final size:21
Alignment explanation
Indices: 14434--14488 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
14424 TCTGATACCC
* *
14434 TCGATCGGTTCCACTGCAACT
1 TCGATCAGCTCCACTGCAACT
*
14455 TCGATTAGCTCCACTGCAACT
1 TCGATCAGCTCCACTGCAACT
14476 TCGATCAGCTCCA
1 TCGATCAGCTCCA
14489 ATCTTTATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.27
Consensus pattern (21 bp):
TCGATCAGCTCCACTGCAACT
Found at i:14707 original size:88 final size:86
Alignment explanation
Indices: 14571--14909 Score: 317
Period size: 88 Copynumber: 3.8 Consensus size: 86
14561 AACAGACAGT
* * * **
14571 AAAAACAGAAATTGAAAAATAGCTTAGCACGTGAGCCAAGGCTCAACTCATTTCTCGCAATATGA
1 AAAAACAGAAATTG-AAAATACCTCAG--CGTGACCCAAGGCTCAACTCACCTCTCGCAATATGA
* *
14636 GTTGCTTTTTTGAAACTTAATTTG
63 GTTGATTTTTTGAAACTTAAATTG
** * *
14660 AAAAGA-AGATTTTGAAAATACCTC-GACATGTGACCCAAGGCTCAACTCACATCTCGCAATAGG
1 AAAA-ACAGAAATTGAAAATACCTCAG-C--GTGACCCAAGGCTCAACTCACCTCTCGCAATATG
* ** *
14723 AGTTGAGTTTTAAAAAATATAAATTG
62 AGTTGATTTTTTGAAACT-TAAATTG
** *
14749 AAAAAACAGAAATTGAAAATACCTCAGCGT-ACCTTGAGGCTCAACTCACCTCTCACAATATGAG
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGACC-CAAGGCTCAACTCACCTCTCGCAATATGAG
* *
14813 TTGA-TTTTTGAAAAGCATAACTTG
64 TTGATTTTTTG-AAA-CTTAAATTG
* * ** *
14837 AAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
14902 GATTTTTT
66 GATTTTTT
14910 TTGAAAAGCA
Statistics
Matches: 208, Mismatches: 30, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
86 2 0.01
87 68 0.33
88 98 0.47
89 17 0.08
90 22 0.11
91 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (86 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAACTTAAATTG
Found at i:14955 original size:14 final size:14
Alignment explanation
Indices: 14909--14958 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
14899 GTTGATTTTT
14909 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
*
14923 TTTAAAAAGCAGAA
1 TTTGAAAAGCAGAA
14937 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
*
14951 ATTGAAAA
1 TTTGAAAA
14959 TACCTCAGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.54, C:0.06, G:0.18, T:0.22
Consensus pattern (14 bp):
TTTGAAAAGCAGAA
Found at i:15003 original size:104 final size:103
Alignment explanation
Indices: 14823--15025 Score: 316
Period size: 104 Copynumber: 2.0 Consensus size: 103
14813 TTGATTTTTG
* * * *
14823 AAAAGCATAACTTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTC
1 AAAAGCAGAACTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCC
* *
14888 TCGCAATATGAGTTGATTTTTTTTGAAAAGCAGAATTTA
66 TCACAATATGAGTTGA-TTTTTTTGAAAAACAGAATTTA
* * *
14927 AAAAGCAGAATTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCCC
1 AAAAGCAGAACTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCC
14992 TCACAATATGAGTTGATTTTTTTGAAAAACAGAA
66 TCACAATATGAGTTGATTTTTTTGAAAAACAGAA
15026 ATTGAAAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
103 17 0.19
104 73 0.81
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (103 bp):
AAAAGCAGAACTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCCC
TCACAATATGAGTTGATTTTTTTGAAAAACAGAATTTA
Found at i:15060 original size:75 final size:75
Alignment explanation
Indices: 14937--15102 Score: 278
Period size: 75 Copynumber: 2.2 Consensus size: 75
14927 AAAAGCAGAA
* **
14937 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCCCTCACAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCACAATATG
15002 AGTTGATTTT
66 AGTTGATTTT
* *
15012 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCACAATATG
15077 AGTTGATTTT
66 AGTTGATTTT
*
15087 TTTGAAAAATAGAAAT
1 TTTGAAAAACAGAAAT
15103 AAAAACATTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 85 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (75 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCCCTCACAATATG
AGTTGATTTT
Found at i:28136 original size:42 final size:39
Alignment explanation
Indices: 27984--28169 Score: 216
Period size: 39 Copynumber: 4.7 Consensus size: 39
27974 TATTCGATTG
* *
27984 ATAACC-GGCTAAGTCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT
* * *
28022 A-ATTCCGGGCTAAGCCCGAAGGCATTTGTGCGACTTTACT
1 ATA-ACCGGGCTAAGTCCGAAGGCATTTGTGCGA-GTTACT
*
28062 ATATCCGGGCTAAGTCCG-AGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT
*
28100 ATAACCGGGCTGAAGTCCCGAAAGGCATTTGTGCGAGTAACT
1 ATAACCGGGCT-AAGT-CCG-AAGGCATTTGTGCGAGTTACT
*
28142 ATAACCCGGGGCTAAGTCCAAAGGCATT
1 ATAA-CC-GGGCTAAGTCCGAAGGCATT
28170 GAGCTAGTAG
Statistics
Matches: 128, Mismatches: 10, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
37 1 0.01
38 18 0.14
39 42 0.33
40 22 0.17
41 9 0.07
42 25 0.20
43 6 0.05
44 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT
Done.