Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold478
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: 38178
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Found at i:3789 original size:33 final size:33
Alignment explanation
Indices: 3747--3814 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
3737 ATAGTCACCT
3747 TATTGAGCTGTCTATAATCAATACACATTCTCA
1 TATTGAGCTGTCTATAATCAATACACATTCTCA
*
3780 TATTGAGCTGTCTATAATCAATGCACATTCTCA
1 TATTGAGCTGTCTATAATCAATACACATTCTCA
3813 TA
1 TA
3815 GTTCCATCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (33 bp):
TATTGAGCTGTCTATAATCAATACACATTCTCA
Found at i:4483 original size:38 final size:39
Alignment explanation
Indices: 4432--4507 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 39
4422 TCTAATCCAC
4432 AACTCAATAGACTCAACAGGTAAAGTCTTACT-ATTACA
1 AACTCAATAGACTCAACAGGTAAAGTCTTACTAATTACA
4470 AACTCAATAGACTCAACAGGTAAAGTCTTACTAATTAC
1 AACTCAATAGACTCAACAGGTAAAGTCTTACTAATTAC
4508 TAATGTCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 32 0.86
39 5 0.14
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (39 bp):
AACTCAATAGACTCAACAGGTAAAGTCTTACTAATTACA
Found at i:6264 original size:39 final size:40
Alignment explanation
Indices: 6169--6430 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
6159 TTGAATGATG
*
6169 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
6207 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
6248 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
6287 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
6326 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
6365 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
6404 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
6431 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:14207 original size:39 final size:40
Alignment explanation
Indices: 14112--14334 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
14102 TTGAATGATG
* *
14112 TCCGGGCTAAGTCCTGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
14150 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
14191 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
14230 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
14269 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
14308 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
14335 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 92 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:14256 original size:78 final size:80
Alignment explanation
Indices: 14112--14334 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
14102 TTGAATGATG
* * * * * *
14112 TCCGGGCTAAGTCCTGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
14174 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
14191 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
14252 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
14269 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
14334 G
66 G
14335 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
78 45 0.36
79 57 0.46
80 22 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:14356 original size:79 final size:79
Alignment explanation
Indices: 14164--14367 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
14154 GGACTAAGAT
** * *
14164 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
14227 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
14242 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
14306 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
14322 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
14368 TACGTGATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 47 0.43
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:18224 original size:15 final size:16
Alignment explanation
Indices: 18204--18241 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18194 AATCTAAACA
*
18204 CATTCAAA-TTAATTT
1 CATTCAAACATAATTT
*
18219 CATTCAAACATATTTT
1 CATTCAAACATAATTT
18235 CATTCAA
1 CATTCAA
18242 TTTATTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (16 bp):
CATTCAAACATAATTT
Found at i:18247 original size:15 final size:15
Alignment explanation
Indices: 18204--18247 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18194 AATCTAAACA
*
18204 CATTCAAATTAATTT
1 CATTCAAATTATTTT
*
18219 CATTCAAACATATTTT
1 CATTCAAA-TTATTTT
*
18235 CATTCAATTTATT
1 CATTCAAATTATT
18248 CCAAAAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (15 bp):
CATTCAAATTATTTT
Found at i:23447 original size:48 final size:47
Alignment explanation
Indices: 23370--23643 Score: 172
Period size: 48 Copynumber: 5.7 Consensus size: 47
23360 ATGGATCCAC
* * * * * *
23370 ATGCCGATGCCATATCCCATATATGGTCTTATA-AGAAGTCTCATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACACAGAA--CACATATCA
* *
23418 GTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAC-AGAACACATATCA
* * * *
23466 ACGCCAATGCCATGTCCCAGACAAGGTCTTACACTGGCACACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAC-AGAACACATATCA
* *** *** * * *
23514 ACGTTGATGCCATGTTTGAGACAGGGTCTTACACTGGTACACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAC-AGAACACATATCA
* * * * **** *
23562 ACGCCGATGCCATGTCTCAGACATGGTCTTACTCTAGCTTTCATCTCGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAC-AGAACACATATC-A
* * *
23611 ATACCGATGCCATGTCCCAGATATGGTCTTACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
23644 TGAGATCTCA
Statistics
Matches: 186, Mismatches: 37, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
48 154 0.83
49 29 0.16
50 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACACAGAACACATATCA
Found at i:26282 original size:42 final size:44
Alignment explanation
Indices: 26176--26289 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
26166 TGTGTTTTCA
* *
26176 TGTAAGACCACGTCTGGGACGTTGACATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
* * * *
26220 TGTAAGACCATGTCTGGGACATCGGCATCGTCTT-TGATTT-TG
1 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
*
26262 TGTAAGACCACGTCTAGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
26290 TGTATGAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 26 0.43
43 6 0.10
44 29 0.48
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
Found at i:27068 original size:27 final size:27
Alignment explanation
Indices: 27038--27106 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
27028 AGAGCATAAG
** *
27038 TGGGCCAAAGCCCATCACATTATCATT
1 TGGGCCAAAGCCCATCACAGAATCAAT
* * *
27065 TGGGTCACAGCCCATAACAGAATCAAT
1 TGGGCCAAAGCCCATCACAGAATCAAT
*
27092 TGGGCC-TAGCCCATC
1 TGGGCCAAAGCCCATC
27107 TCAGTAACAA
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TGGGCCAAAGCCCATCACAGAATCAAT
Found at i:27457 original size:27 final size:27
Alignment explanation
Indices: 27387--27477 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
27377 AATATAATCA
* *
27387 GCACACAGCCA-TGGTAAATAT-ATAG
1 GCACAAAGCCATTGGTAAATATGATTG
* * *
27412 GCACAAAGTCATCGATAAATATGATTG
1 GCACAAAGCCATTGGTAAATATGATTG
* * *
27439 GCACATAGCCATTGGTAAATACGATTT
1 GCACAAAGCCATTGGTAAATATGATTG
27466 GCACAAAGCCAT
1 GCACAAAGCCAT
27478 AATCAACATA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 9 0.17
26 8 0.15
27 35 0.67
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
GCACAAAGCCATTGGTAAATATGATTG
Found at i:27497 original size:22 final size:23
Alignment explanation
Indices: 27466--27526 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
27456 AATACGATTT
*
27466 GCACAAAGCCATAATCAA-CATA
1 GCACAGAGCCATAATCAAGCATA
* ** *
27488 GCACAGAGCCAT-ATTAAGGTTG
1 GCACAGAGCCATAATCAAGCATA
27510 GCACAGAGCCATAATCA
1 GCACAGAGCCATAATCA
27527 GATTAAGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 4 0.13
22 24 0.77
23 3 0.10
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (23 bp):
GCACAGAGCCATAATCAAGCATA
Found at i:27906 original size:27 final size:27
Alignment explanation
Indices: 27876--27937 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
27866 CAAAACAGTC
*
27876 ATTTTACCCTACAAAGGTATTTCGATA
1 ATTTTACACTACAAAGGTATTTCGATA
*
27903 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAAGGTATTTCGATA
27930 ATTTTACA
1 ATTTTACA
27938 AACCGGGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAAGGTATTTCGATA
Found at i:27951 original size:54 final size:53
Alignment explanation
Indices: 27891--28207 Score: 311
Period size: 54 Copynumber: 5.9 Consensus size: 53
27881 ACCCTACAAA
* *
27891 GGTATTTCGATAATTTTACACTAC-AAGGGTATTTCGATAATTTTACAAACCGG
1 GGTATTTCGATAATTTTACAAT-CTGAGGGTATTTCGATAATTTTACAAACCGG
* * * *
27944 GGATATTTCGGTAATTTTACAAACTGGGGGTACTTC-AGTAATTTTACAAACCGGG
1 GG-TATTTCGATAATTTTACAATCTGAGGGTATTTCGA-TAATTTTACAAACC-GG
* * * *
27999 GGTATTTTGATAATTTTACAATCTGAGAGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAACCG-G
* ** *
28053 GGTATTTC-AGTAATTTTACAATCTAAGGGTATTTTAATAATTTTACAAACTAGG
1 GGTATTTCGA-TAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAAC-CGG
* * * * *
28107 GGTATTT-TAGTAATTTTACAATCTGAGGGTATTTTGGTAATTTTACAAACTGA
1 GGTATTTCGA-TAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAACCGG
* * * *
28160 GGTATATT-GGTAATTTTACAATCCGATGGTATTTCGGTAATTTTACAA
1 GGTAT-TTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAA
28208 TTCGAGGTCT
Statistics
Matches: 222, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
53 47 0.21
54 170 0.77
55 5 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (53 bp):
GGTATTTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAACCGG
Found at i:28011 original size:81 final size:80
Alignment explanation
Indices: 27891--28207 Score: 318
Period size: 81 Copynumber: 3.9 Consensus size: 80
27881 ACCCTACAAA
* * *
27891 GGTATTTC-GATAATTTTACACTA-CAAGGGTATTTCGATAATTTTACAAACCGGGGATATTTCG
1 GGTATTTCAG-TAATTTTACA-AACCAGGGGTATTTTGATAATTTTACAAACCGGGG-TATTTCG
*
27954 GTAATTTTACAAACTGGG
63 GTAATTTTACAAACTGAG
* * * * *
27972 GGTACTTCAGTAATTTTACAAACCGGGGGTATTTTGATAATTTTACAATCTGAGAGTATTTCGGT
1 GGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCG-GGGTATTTCGGT
28037 AATTTTACAAA-TCGAG
65 AATTTTACAAACT-GAG
* * * * * **
28053 GGTATTTCAGTAATTTTACAATCTAAGGGTATTTTAATAATTTTACAAACTAGGGGTATTTTAGT
1 GGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAAC-CGGGGTATTTCGGT
*
28118 AATTTTACAATCTGAG
65 AATTTTACAAACTGAG
** * * * * * *
28134 GGTATTTTGGTAATTTTACAAA-CTGAGGTATATTGGTAATTTTACAATCCGATGGTATTTCGGT
1 GGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCG-GGGTATTTCGGT
28198 AATTTTACAA
65 AATTTTACAA
28208 TTCGAGGTCT
Statistics
Matches: 193, Mismatches: 36, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
79 1 0.01
80 40 0.21
81 147 0.76
82 5 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (80 bp):
GGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCGGGGTATTTCGGTA
ATTTTACAAACTGAG
Found at i:28208 original size:27 final size:27
Alignment explanation
Indices: 27891--28214 Score: 280
Period size: 27 Copynumber: 12.0 Consensus size: 27
27881 ACCCTACAAA
* * * *
27891 GGTATTTCGATAATTTTACACTACAAG
1 GGTATTTCGGTAATTTTACAATCCGAG
* *
27918 GGTATTTCGATAATTTTACAAACCG-G
1 GGTATTTCGGTAATTTTACAATCCGAG
* * *
27944 GGATATTTCGGTAATTTTACAAACTGGG
1 GG-TATTTCGGTAATTTTACAATCCGAG
* * * *
27972 GGTACTTCAGTAATTTTACAAACCGGG
1 GGTATTTCGGTAATTTTACAATCCGAG
* * *
27999 GGTATTTTGATAATTTTACAATCTGAG
1 GGTATTTCGGTAATTTTACAATCCGAG
*
28026 AGTATTTCGGTAATTTTACAAAT-CGAG
1 GGTATTTCGGTAATTTTAC-AATCCGAG
* **
28053 GGTATTTCAGTAATTTTACAATCTAAG
1 GGTATTTCGGTAATTTTACAATCCGAG
*** * *
28080 GGTATTTTAATAATTTTACAA-ACTAGG
1 GGTATTTCGGTAATTTTACAATCCGA-G
** *
28107 GGTATTTTAGTAATTTTACAATCTGAG
1 GGTATTTCGGTAATTTTACAATCCGAG
* * *
28134 GGTATTTTGGTAATTTTACAAACTGA-
1 GGTATTTCGGTAATTTTACAATCCGAG
*
28160 GGTATATT-GGTAATTTTACAATCCGAT
1 GGTAT-TTCGGTAATTTTACAATCCGAG
*
28187 GGTATTTCGGTAATTTTACAATTCGAG
1 GGTATTTCGGTAATTTTACAATCCGAG
28214 G
1 G
28215 TCTTAGCTAC
Statistics
Matches: 249, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
26 30 0.12
27 212 0.85
28 7 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAATCCGAG
Found at i:30420 original size:27 final size:27
Alignment explanation
Indices: 30389--30566 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30379 TAAATTGTAC
30389 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30416 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30442 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30470 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30498 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30525 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30552 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30567 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30503 original size:82 final size:81
Alignment explanation
Indices: 30390--30545 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30380 AAATTGTACA
* *
30390 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30454 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30471 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30536 TGCGAGTTGA
65 TGCGAATTGA
30546 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30557 original size:82 final size:81
Alignment explanation
Indices: 30386--30566 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30376 GATTAAATTG
* *
30386 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30451 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30467 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30531 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30549 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30567 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Done.