Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1736
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: 45589
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:3804 original size:16 final size:16
Alignment explanation
Indices: 3783--3815 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3773 AAAAATGTAA
3783 TATGTTCCTATAAATT
1 TATGTTCCTATAAATT
3799 TATGTTCCTATAAATT
1 TATGTTCCTATAAATT
3815 T
1 T
3816 TGAATCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (16 bp):
TATGTTCCTATAAATT
Found at i:10602 original size:16 final size:16
Alignment explanation
Indices: 10572--10605 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10562 TTTTCTCTTA
**
10572 TTTGTTGATGGAACTT
1 TTTGTTGATCCAACTT
10588 TTTGTTGATCCAACTT
1 TTTGTTGATCCAACTT
10604 TT
1 TT
10606 CATTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTGTTGATCCAACTT
Found at i:12177 original size:24 final size:24
Alignment explanation
Indices: 12145--12193 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12135 AGGTACATTT
12145 TTGGGAAGTCATTAACTGAAACAA
1 TTGGGAAGTCATTAACTGAAACAA
12169 TTGGGAAGTCATTAACTGAAACAA
1 TTGGGAAGTCATTAACTGAAACAA
12193 T
1 T
12194 GGAATGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (24 bp):
TTGGGAAGTCATTAACTGAAACAA
Found at i:13792 original size:14 final size:14
Alignment explanation
Indices: 13773--13803 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13763 GAAAAGAGCA
*
13773 CACAATTGTCAACG
1 CACAATTATCAACG
13787 CACAATTATCAACG
1 CACAATTATCAACG
13801 CAC
1 CAC
13804 CTTTTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (14 bp):
CACAATTATCAACG
Found at i:15978 original size:17 final size:17
Alignment explanation
Indices: 15956--15989 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15946 TAGTTTTTTA
15956 TTTTTAATCAAATATAT
1 TTTTTAATCAAATATAT
*
15973 TTTTTAATCAATTATAT
1 TTTTTAATCAAATATAT
15990 ACTTTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTAATCAAATATAT
Found at i:15995 original size:19 final size:17
Alignment explanation
Indices: 15956--15996 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
15946 TAGTTTTTTA
*
15956 TTTTTAATCAAATATAT
1 TTTTTAATCAAATATAC
15973 TTTTTAATCAATTATATAC
1 TTTTTAATCAA--ATATAC
15992 TTTTT
1 TTTTT
15997 TGGTGTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
19 10 0.48
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:27759 original size:69 final size:68
Alignment explanation
Indices: 27680--27817 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 68
27670 GAGAATAAAT
27680 AAAATTGGGTGACTAATTAAAATTTTAAATTTTTTTTGAGATTAATGAGAATTTTAAAAAAAAAT
1 AAAATTGGGTGACTAATTAAAATTTTAAATTTTTTTTGAGATTAATGAGAA-TTTAAAAAAAAAT
27745 TAAG
65 TAAG
27749 AAAATTGGGTGACTAATTAAAATTTTAAATTTTTTTTGAGATTAATGAGAATTTAAAAAAAAATT
1 AAAATTGGGTGACTAATTAAAATTTTAAATTTTTTTTGAGATTAATGAGAATTTAAAAAAAAATT
27814 AAG
66 AAG
27817 A
1 A
27818 GAGTTTAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 18 0.26
69 51 0.74
ACGTcount: A:0.47, C:0.01, G:0.13, T:0.38
Consensus pattern (68 bp):
AAAATTGGGTGACTAATTAAAATTTTAAATTTTTTTTGAGATTAATGAGAATTTAAAAAAAAATT
AAG
Found at i:27988 original size:17 final size:18
Alignment explanation
Indices: 27956--27998 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27946 TGAATTCTGC
27956 TATTTATATTCTTAAA-TCT
1 TATTTATA-TCTTAAACT-T
27975 TATTTATA-CTTAAACTT
1 TATTTATATCTTAAACTT
27992 TATTTAT
1 TATTTAT
27999 TATGTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 14 0.61
18 1 0.04
19 8 0.35
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTATATCTTAAACTT
Found at i:30503 original size:23 final size:22
Alignment explanation
Indices: 30468--30510 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
30458 TATTATTTCA
30468 ATTTAAAAAAAATC-ATTTATT
1 ATTTAAAAAAAATCAATTTATT
30489 ATTTCAAAAATAAATCAATTTA
1 ATTT-AAAAA-AAATCAATTTA
30511 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 5 0.26
24 5 0.26
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAAAAAAAATCAATTTATT
Found at i:32715 original size:6 final size:6
Alignment explanation
Indices: 32704--32739 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
32694 TAGATCACCT
32704 CGCTTC CGCTTC CGCTTC CGCTTC CGCTTC CGCTTC
1 CGCTTC CGCTTC CGCTTC CGCTTC CGCTTC CGCTTC
32740 TGCCTCAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
CGCTTC
Found at i:35255 original size:13 final size:13
Alignment explanation
Indices: 35239--35264 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35229 ATTTATTCCT
35239 TATTATATTATTA
1 TATTATATTATTA
35252 TATTATATTATTA
1 TATTATATTATTA
35265 GCTTTGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:35336 original size:29 final size:29
Alignment explanation
Indices: 35301--35367 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
35291 TCTATATTTA
35301 TATTTGTTTTATTATATGTTATCATTATG
1 TATTTGTTTTATTATATGTTATCATTATG
35330 TATTTGTTTTATTATATGTTATCATTATG
1 TATTTGTTTTATTATATGTTATCATTATG
35359 TATTTGTTT
1 TATTTGTTT
35368 ATATCTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.64
Consensus pattern (29 bp):
TATTTGTTTTATTATATGTTATCATTATG
Found at i:35357 original size:16 final size:16
Alignment explanation
Indices: 35309--35357 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
35299 TATATTTGTT
35309 TTATTATATGTTATCA
1 TTATTATATGTTATCA
*
35325 TTATGTATTTG-T-T--
1 TTAT-TATATGTTATCA
35338 TTATTATATGTTATCA
1 TTATTATATGTTATCA
35354 TTAT
1 TTAT
35358 GTATTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 1 0.04
15 1 0.04
16 9 0.35
17 5 0.19
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (16 bp):
TTATTATATGTTATCA
Found at i:37479 original size:19 final size:19
Alignment explanation
Indices: 37455--37499 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37445 CGTCTCTTTT
* *
37455 TGCATT-CATTTCATGCATG
1 TGCATTACATTGCAT-CATA
37474 TGCATTACATTGCATCATA
1 TGCATTACATTGCATCATA
37493 TGCATTA
1 TGCATTA
37500 GATTTTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (19 bp):
TGCATTACATTGCATCATA
Found at i:40139 original size:8 final size:8
Alignment explanation
Indices: 40126--40172 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
40116 TTCAAGCTAA
40126 AAAAAATC
1 AAAAAATC
40134 AAAAAATC
1 AAAAAATC
40142 --AAAA--
1 AAAAAATC
40146 AAAAAATC
1 AAAAAATC
40154 -AAAAATC
1 AAAAAATC
40161 AAAAAAATC
1 -AAAAAATC
40170 AAA
1 AAA
40173 GTCAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
6 8 0.24
7 7 0.21
8 11 0.33
9 7 0.21
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:40145 original size:7 final size:7
Alignment explanation
Indices: 40127--40165 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
40117 TCAAGCTAAA
40127 AAAAATC
1 AAAAATC
40134 AAAAAATC
1 -AAAAATC
40142 AAAAA--
1 AAAAATC
40147 AAAAATC
1 AAAAATC
40154 AAAAATC
1 AAAAATC
40161 AAAAA
1 AAAAA
40166 AATCAAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
7 17 0.59
8 7 0.24
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAAATC
Found at i:40149 original size:12 final size:12
Alignment explanation
Indices: 40134--40158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40124 AAAAAAAATC
40134 AAAAAATCAAAA
1 AAAAAATCAAAA
40146 AAAAAATCAAAA
1 AAAAAATCAAAA
40158 A
1 A
40159 TCAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAATCAAAA
Found at i:40149 original size:20 final size:19
Alignment explanation
Indices: 40124--40181 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 19
40114 AGTTCAAGCT
40124 AAAAAAAATCAAAAAATCAA
1 AAAAAAAATC-AAAAATCAA
40144 AAAAAAAATCAAAAATCAA
1 AAAAAAAATCAAAAATCAA
40163 AAAAATCAAAGTCAAAAAT
1 AAAAA--AAA-TCAAAAAT
40182 AGGAGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.40
20 10 0.29
21 3 0.09
22 8 0.23
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAAAAAATCAAAAATCAA
Found at i:40180 original size:16 final size:17
Alignment explanation
Indices: 40124--40172 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
40114 AGTTCAAGCT
40124 AAAAAAAATCAAAAAATC
1 AAAAAAAATC-AAAAATC
40142 AAAAAAAAAATCAAAAATC
1 --AAAAAAAATCAAAAATC
40161 -AAAAAAATCAAA
1 AAAAAAAATCAAA
40173 GTCAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.41
19 7 0.24
20 10 0.34
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAAAATCAAAAATC
Found at i:41045 original size:6 final size:7
Alignment explanation
Indices: 41028--41052 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41018 AAAAAATTGA
41028 AAAAATG
1 AAAAATG
41035 AAAAATG
1 AAAAATG
41042 AAAAATG
1 AAAAATG
41049 AAAA
1 AAAA
41053 GGTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:42253 original size:45 final size:44
Alignment explanation
Indices: 42153--42463 Score: 288
Period size: 45 Copynumber: 7.1 Consensus size: 44
42143 CATATCAATG
* *
42153 GAAATAGCAGATCTTGTC-TCC-ATATTTGTAGCGGAGGAGATC
1 GAAATAGCAGATCTTGTCTTCCTGTATTTGCAGCGGAGGAGATC
* * *
42195 TCAAATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGGA-GAAATCC
1 -GAAATAGCAGATCTTGTCTTCCTGTATTT-GCAGCGGAGGAGAT-C
* * *
42241 AAAGATA-CAGATCTTGTTTCTCCTGTATTTGAAGCGGAGGAGATC
1 GAA-ATAGCAGATCTTGTCT-TCCTGTATTTGCAGCGGAGGAGATC
42286 GAAGATAGCAGTATCTTTGTCTTCCTTGTATTTGCAGCGGA-G-GATC
1 GAA-ATAGCAG-ATC-TTGTCTTCC-TGTATTTGCAGCGGAGGAGATC
42332 GAAATAGCAGATCTTGTCTT-C-GTA-TTGCAGCGGAGGAGATC
1 GAAATAGCAGATCTTGTCTTCCTGTATTTGCAGCGGAGGAGATC
* *
42373 -AAATAGCAGATCTTGTCTTCCTGTTATTGGCAGCGGAATGAGATC
1 GAAATAGCAGATCTTGTCTTCCTG-TATTTGCAGCGG-AGGAGATC
* * * *
42418 GAAGATAGCA-AT-TTATCGTCCTGTATTCTGCA-TGGAGTAGATC
1 GAA-ATAGCAGATCTTGTCTTCCTGTATT-TGCAGCGGAGGAGATC
42461 GAA
1 GAA
42464 GATGGTGAAT
Statistics
Matches: 226, Mismatches: 21, Indels: 42
0.78 0.07 0.15
Matches are distributed among these distances:
39 10 0.04
40 23 0.10
41 5 0.02
42 2 0.01
43 35 0.15
44 20 0.09
45 61 0.27
46 38 0.17
47 13 0.06
48 19 0.08
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
GAAATAGCAGATCTTGTCTTCCTGTATTTGCAGCGGAGGAGATC
Found at i:42279 original size:91 final size:86
Alignment explanation
Indices: 42154--42409 Score: 292
Period size: 91 Copynumber: 2.9 Consensus size: 86
42144 ATATCAATGG
* *
42154 AAATAGCAGATCTTGTCTCCATATTTGTAGCGGAGGAGATCTCAAATAGCAGATCTTGTCTTCCT
1 AAATAGCAGATCTTGTCTCCGTATTTGAAGCGGAGGAGATCTCAAATAGCAGATCTTGTCTTCCT
*
42219 GTATTTGGCAGTGGAGAAATCCA
66 GTATTTGGCAGCGGAG-AAT-CA
*
42242 AAGATA-CAGATCTTGTTTCTCCTGTATTTGAAGCGGAGGAGATC-GAAGATAGCAGTATCTTTG
1 AA-ATAGCAGATCTTG--TCTCC-GTATTTGAAGCGGAGGAGATCTCAA-ATAGCAG-ATC-TTG
* *
42305 TCTTCCTTGTATTT-GCAGCGGAGGATCG
59 TCTTCC-TGTATTTGGCAGCGGAGAATCA
* *
42333 AAATAGCAGATCTTGTCTTCGTA-TTGCAGCGGAGGAGA--TCAAATAGCAGATCTTGTCTTCCT
1 AAATAGCAGATCTTGTCTCCGTATTTGAAGCGGAGGAGATCTCAAATAGCAGATCTTGTCTTCCT
42395 GT-TATTGGCAGCGGA
66 GTAT-TTGGCAGCGGA
42410 ATGAGATCGA
Statistics
Matches: 147, Mismatches: 9, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
81 1 0.01
82 5 0.03
83 17 0.12
84 3 0.02
85 7 0.05
86 2 0.01
87 14 0.10
88 14 0.10
89 7 0.05
90 10 0.07
91 38 0.26
92 5 0.03
93 17 0.12
94 7 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (86 bp):
AAATAGCAGATCTTGTCTCCGTATTTGAAGCGGAGGAGATCTCAAATAGCAGATCTTGTCTTCCT
GTATTTGGCAGCGGAGAATCA
Found at i:42899 original size:136 final size:130
Alignment explanation
Indices: 42456--42935 Score: 628
Period size: 127 Copynumber: 3.7 Consensus size: 130
42446 TGCATGGAGT
*
42456 AGATCGAAGATGGTGAATCTTATCTTCCTTAATACAGTGGAAGAAGCAGATTTAAGCCATT-GTC
1 AGATCAAAGAT-GTGAATCTTATCTTCC--AATACAGTGG-AGAAGCAGATTTAAGCCATTAGTC
*
42520 CTATCACCCTATGCAAGTAGTGGAG-AGGTTAAA-ATTGCAGATTCTGTCACCCTAAGCAGTAGT
62 CTATCACCCTAAGCAAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
42583 GGATC
127 GG-TC
* * *
42588 AGATCCAAGATGTGAATCTTAT-TTCCACTTAC-G-GGAGAAGCAAAAATTTAAGCCATTAGTCC
1 AGATCAAAGATGTGAATCTTATCTTCCA-ATACAGTGGAGAAGC--AGATTTAAGCCATTAGTCC
*
42650 T-TCA-CCTAAG-TAGTAGTGGAGTAGG-T-AAGATTGCAGGATTCTGTCACCCTAAGCAGTAGT
63 TATCACCCTAAGCAAGTAGTGGAGTAGGTTAAAGATTGCA-GATTCTGTCACCCTAAGCAGTAGT
*
42710 GATC
127 GGTC
42714 AGATCAAAGATGGTGAATCTTATCTTCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTA
1 AGATCAAAGAT-GTGAATCTTATCTTCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTA
42779 TCAACCCTAAGCAAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCCACCCTAAGCAGTAGTG
65 TC-ACCCTAAGCAAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGT-CACCCTAAGCAGTAGTG
42844 GTGCCC
128 GT---C
* *
42850 AGATCAAAGATG-GAATCATATTCTTCCCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCAAAGATGTGAATCTTA-TCTT-CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
42914 ATCACCCTAAGC-A-TAGTGGAGT
64 ATCACCCTAAGCAAGTAGTGGAGT
42936 GAGTCAAAAC
Statistics
Matches: 312, Mismatches: 13, Indels: 45
0.84 0.04 0.12
Matches are distributed among these distances:
125 2 0.01
126 35 0.11
127 68 0.22
128 26 0.08
129 17 0.05
130 10 0.03
131 25 0.08
132 19 0.06
133 36 0.12
134 8 0.03
135 14 0.04
136 52 0.17
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (130 bp):
AGATCAAAGATGTGAATCTTATCTTCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTAT
CACCCTAAGCAAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGTC
Found at i:44808 original size:27 final size:26
Alignment explanation
Indices: 44742--44810 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
44732 TTAGTAATTA
*
44742 TTTGTTTTGTTTTATTGTATTTTTTT
1 TTTGTTTTGTTTTTTTGTATTTTTTT
* *
44768 ATTCTTTTGTTTTTTTGCTATTTTTTT
1 TTTGTTTTGTTTTTTTG-TATTTTTTT
*
44795 TTTGTTGTGTTTTTTT
1 TTTGTTTTGTTTTTTT
44811 TTGATGTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.06, C:0.03, G:0.12, T:0.80
Consensus pattern (26 bp):
TTTGTTTTGTTTTTTTGTATTTTTTT
Found at i:44864 original size:13 final size:13
Alignment explanation
Indices: 44846--44878 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
44836 TTATATGTTC
44846 ATTATTATTTATT
1 ATTATTATTTATT
44859 ATTATTATTTATT
1 ATTATTATTTATT
*
44872 TTTATTA
1 ATTATTA
44879 ACTGTGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTATTTATT
Done.