Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 41 of 204
Found at i:14007982 original size:9 final size:9
Alignment explanation
Indices: 14007965--14008404 Score: 162
Period size: 9 Copynumber: 51.2 Consensus size: 9
14007955 TAAGTATAAT
*
14007965 TAAGCTATG
1 TAAGTTATG
14007974 TAAGTTATG
1 TAAGTTATG
14007983 T-A-TTATG
1 TAAGTTATG
14007990 TAAGTTAT-
1 TAAGTTATG
*
14007998 TTAG-TATG
1 TAAGTTATG
* *
14008006 AAAATTATG
1 TAAGTTATG
*
14008015 TAAGTTGTG
1 TAAGTTATG
14008024 T-A-TTATG
1 TAAGTTATG
*
14008031 -AA--AAT-
1 TAAGTTATG
* *
14008036 TATGCTATG
1 TAAGTTATG
14008045 TAAGTTATG
1 TAAGTTATG
* *
14008054 TAAGTCATA
1 TAAGTTATG
14008063 TAAGTTATG
1 TAAGTTATG
14008072 T-A-TTATG
1 TAAGTTATG
14008079 TAAGTTATG
1 TAAGTTATG
14008088 TAAGTTAT-
1 TAAGTTATG
*
14008096 TTA-TTATG
1 TAAGTTATG
* * *
14008104 AAAATTAAG
1 TAAGTTATG
14008113 TAAGTTATG
1 TAAGTTATG
*
14008122 TAATTTATG
1 TAAGTTATG
*
14008131 -AA-TAAT-
1 TAAGTTATG
***
14008137 TAAAAAAATG
1 T-AAGTTATG
14008147 TAAGTTATG
1 TAAGTTATG
14008156 TAAGTTATG
1 TAAGTTATG
*
14008165 TATA-ATAT-
1 TA-AGTTATG
**
14008173 TAA-TTAAC
1 TAAGTTATG
14008181 TAAGTTATG
1 TAAGTTATG
*
14008190 TAATTTATG
1 TAAGTTATG
14008199 TATA-TTAAT-
1 TA-AGTT-ATG
14008208 TAAGTTATG
1 TAAGTTATG
*
14008217 TAATTTATG
1 TAAGTTATG
*
14008226 TAGAATATTAATG
1 T--AA-GTT-ATG
14008239 TAAGTTATG
1 TAAGTTATG
*
14008248 TAATTTATG
1 TAAGTTATG
*
14008257 -AA-TAAT-
1 TAAGTTATG
***
14008263 TAAAAAATAG
1 TAAGTTAT-G
14008273 TAAGTTATG
1 TAAGTTATG
14008282 TAAG-T-TG
1 TAAGTTATG
14008289 TAAGTTATG
1 TAAGTTATG
14008298 TAAGTTATG
1 TAAGTTATG
*
14008307 TATA-ATAT-
1 TA-AGTTATG
14008315 TAA-TTAAT-
1 TAAGTT-ATG
14008323 TAAGTTATG
1 TAAGTTATG
*
14008332 TAATTTATG
1 TAAGTTATG
*
14008341 TATAATATTAATG
1 --TAA-GTT-ATG
14008354 TAAGTTATG
1 TAAGTTATG
*
14008363 TAATTTATG
1 TAAGTTATG
14008372 T-A--TAT-
1 TAAGTTATG
14008377 TAA-TTAAT-
1 TAAGTT-ATG
14008385 TAAGTTATG
1 TAAGTTATG
*
14008394 TAATTTATG
1 TAAGTTATG
14008403 TA
1 TA
14008405 TAATATTAAT
Statistics
Matches: 331, Mismatches: 53, Indels: 94
0.69 0.11 0.20
Matches are distributed among these distances:
5 1 0.00
6 7 0.02
7 44 0.13
8 50 0.15
9 193 0.58
10 15 0.05
11 10 0.03
12 4 0.01
13 7 0.02
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14007991 original size:16 final size:16
Alignment explanation
Indices: 14007970--14008089 Score: 87
Period size: 16 Copynumber: 7.9 Consensus size: 16
14007960 ATAATTAAGC
14007970 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
* *
14007986 TATGTAAGTTATTTAG
1 TATGTAAGTTATGTAT
14008002 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
14008011 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
14008027 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
14008041 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
14008059 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
14008075 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
14008090 AGTTATTTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
9 5 0.06
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 44 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:14008012 original size:25 final size:25
Alignment explanation
Indices: 14007984--14008138 Score: 136
Period size: 25 Copynumber: 6.2 Consensus size: 25
14007974 TAAGTTATGT
* *
14007984 ATTATGTAAGTTATTTAGTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
14008009 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
14008034 ATTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
14008057 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
14008082 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
14008107 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTATGT-A-TTATGAA-A
14008135 ATTA
1 ATTA
14008139 AAAAAATGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
22 3 0.03
23 13 0.12
25 72 0.69
26 4 0.04
27 7 0.07
28 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:14008116 original size:34 final size:34
Alignment explanation
Indices: 14008010--14008201 Score: 140
Period size: 34 Copynumber: 5.5 Consensus size: 34
14008000 AGTATGAAAA
*
14008010 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATGTATTATGAAAATTA----A-GTAAG
* * * *
14008049 TTATGTAAGTCATATAAGTTATG--TATTATGTAAG
1 TTATGTAAGTTATGT-A-TTATGAAAATTAAGTAAG
*
14008083 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTATGTATTATGAAAATTAAGTAAG
* * * * *
14008117 TTATGTAATTTATGAATAATTAAAA-AAATGTAAG
1 TTATGTAAGTTATGTATTATGAAAATTAA-GTAAG
* * *
14008151 TTATGTAAGTTATGTATAAT-ATTAATTAACTAAG
1 TTATGTAAGTTATGTATTATGA-AAATTAAGTAAG
*
14008185 TTATGTAATTTATGTAT
1 TTATGTAAGTTATGTAT
14008202 ATTAATTAAG
Statistics
Matches: 125, Mismatches: 21, Indels: 19
0.76 0.13 0.12
Matches are distributed among these distances:
32 5 0.04
33 4 0.03
34 92 0.74
35 2 0.02
39 16 0.13
40 1 0.01
41 5 0.04
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (34 bp):
TTATGTAAGTTATGTATTATGAAAATTAAGTAAG
Found at i:14008202 original size:34 final size:34
Alignment explanation
Indices: 14008073--14008284 Score: 162
Period size: 34 Copynumber: 6.5 Consensus size: 34
14008063 TAAGTTATGT
* * * * *
14008073 ATTATGTAAGTTATGTAAGTTATTTATTATGA-AA
1 ATTAAGTAAGTTATGTAATTTATGTATAAT-ATTA
* *
14008107 ATTAAGTAAGTTATGTAATTTATGAATAAT-TAA
1 ATTAAGTAAGTTATGTAATTTATGTATAATATTA
** *
14008140 AAAAATGTAAGTTATGTAAGTTATGTATAATATTA
1 ATTAA-GTAAGTTATGTAATTTATGTATAATATTA
*
14008175 ATTAACTAAGTTATGTAATTTATG--T-ATATTA
1 ATTAAGTAAGTTATGTAATTTATGTATAATATTA
*
14008206 A-T---TAAGTTATGTAATTTATGTAGAATATTA
1 ATTAAGTAAGTTATGTAATTTATGTATAATATTA
* *
14008236 A-T--GTAAGTTATGTAATTTATGAATAAT-TAA
1 ATTAAGTAAGTTATGTAATTTATGTATAATATTA
**
14008266 AAAATAGTAAGTTATGTAA
1 ATTA-AGTAAGTTATGTAA
14008285 GTTGTAAGTT
Statistics
Matches: 148, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
27 18 0.12
30 12 0.08
31 29 0.20
32 1 0.01
33 5 0.03
34 78 0.53
35 5 0.03
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAAGTAAGTTATGTAATTTATGTATAATATTA
Found at i:14008293 original size:16 final size:16
Alignment explanation
Indices: 14008272--14008303 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14008262 TTAAAAAATA
14008272 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
14008288 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
14008304 ATGTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:14008311 original size:142 final size:145
Alignment explanation
Indices: 14008145--14008408 Score: 446
Period size: 142 Copynumber: 1.8 Consensus size: 145
14008135 ATTAAAAAAA
14008145 TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATG-T-ATATTAAT
1 TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGATAATATTAAT
14008208 -TAAGTTATGTAATTTATGTAGAAT-ATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAT
66 GTAAGTTATGTAATTTATGTAGAATAATTAAT-TAAGTTATGTAATTTATGAATAATTAAAAAAT
14008271 AGTAAGTTATGTAAGT
130 AGTAAGTTATGTAAGT
*
14008287 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATG-ATAATATTAA
* * *
14008352 TGTAAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAAT
65 TGTAAGTTATGTAATTTATGTAGAATAATTAATTAAGTTATGTAATTTATGAATAAT
14008409 ATTAATGTAA
Statistics
Matches: 113, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
142 53 0.47
144 1 0.01
145 8 0.07
146 45 0.40
147 6 0.05
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (145 bp):
TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGATAATATTAAT
GTAAGTTATGTAATTTATGTAGAATAATTAATTAAGTTATGTAATTTATGAATAATTAAAAAATA
GTAAGTTATGTAAGT
Found at i:14008361 original size:22 final size:22
Alignment explanation
Indices: 14008329--14008436 Score: 97
Period size: 22 Copynumber: 5.1 Consensus size: 22
14008319 TAATTAAGTT
*
14008329 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
14008351 ATGTAAGTTATG--TAAT-TT-
1 ATGTAAGTTATGTATAATATTA
*
14008369 ATGTATA-TTAAT-TAATTAA-GTT-
1 ATGTA-AGTT-ATGT-A-TAATATTA
*
14008391 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
14008413 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
14008435 AT
1 AT
14008437 TAATTAAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
18 7 0.10
19 5 0.07
20 7 0.10
21 6 0.08
22 47 0.65
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:14008395 original size:62 final size:61
Alignment explanation
Indices: 14008094--14008470 Score: 357
Period size: 62 Copynumber: 6.3 Consensus size: 61
14008084 TATGTAAGTT
* * **
14008094 ATTTAT-TATGAAAATTAA-GTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGT
1 ATTTATGTAT-AATATTAATGTAAGTTATGTAA-TTATGTAT-ATT-AATTAAT-TAAGTTATGT
14008157 A
61 A
* *
14008158 AGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATG--TA-T-ATTAATTAAGTTATGTA
1 ATTTATGTATAATATTAA-T--GTAAGTTATGTAA-TTATGTATATTAATTAATTAAGTTATGTA
* * **
14008219 ATTTATGTAGAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAATAGTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTAA-TTATGTAT-ATTAATTAAT--TAAGTTATGTA
* *
14008284 A-GT-TG--TAA-GTT-ATGTAAGTTATGT-A-TA---ATATTAATTAATTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTAATTATGTATATTAATTAATTAAGTTATGTA
14008334 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTAA-TTATGTATATTAATTAATTAAGTTATGTA
*
14008396 ATTTATGTATAATATTAATGTAAGTTATGT-A-TA---ATATTAATTAATTAAGTGATGTA
1 ATTTATGTATAATATTAATGTAAGTTATGTAATTATGTATATTAATTAATTAAGTTATGTA
14008452 ATTTATGTATAATATTAAT
1 ATTTATGTATAATATTAAT
14008471 TAATTAATTA
Statistics
Matches: 271, Mismatches: 18, Indels: 56
0.79 0.05 0.16
Matches are distributed among these distances:
50 12 0.04
51 1 0.00
52 10 0.04
53 2 0.01
54 3 0.01
55 2 0.01
56 56 0.21
57 1 0.00
58 19 0.07
59 17 0.06
60 4 0.01
61 31 0.11
62 58 0.21
63 6 0.02
64 14 0.05
65 16 0.06
66 1 0.00
68 18 0.07
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (61 bp):
ATTTATGTATAATATTAATGTAAGTTATGTAATTATGTATATTAATTAATTAAGTTATGTA
Found at i:14008458 original size:34 final size:34
Alignment explanation
Indices: 14008413--14008477 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
14008403 TATAATATTA
14008413 ATGTAAGTTATGTATAATATTAATTAATTAAGTG
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTG
*
14008447 ATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAA
14008478 TTAAGTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (34 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTG
Found at i:14009108 original size:45 final size:39
Alignment explanation
Indices: 14009057--14009177 Score: 127
Period size: 38 Copynumber: 3.0 Consensus size: 39
14009047 AGCTAATTTT
14009057 TATTTAAGTAATGTAATATATATATAAATTTTAAGTAATGTAATA
1 TATTTAAGTAATGT-A-A-AT-TATAAATTTT-AGTAA-GTAATA
* *
14009102 TATTTAAGTAATGTAAGTTATAACTTTTAGTAAGTAATA
1 TATTTAAGTAATGTAAATTATAAATTTTAGTAAGTAATA
** * *
14009141 TATTTAAGTAAT-TATGTAATATATTTTAGTAAGTAAT
1 TATTTAAGTAATGTAAATTATAAATTTTAGTAAGTAAT
14009178 GTAAGTAATG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
38 21 0.30
39 18 0.26
40 5 0.07
41 9 0.13
42 1 0.01
43 1 0.01
44 1 0.01
45 14 0.20
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (39 bp):
TATTTAAGTAATGTAAATTATAAATTTTAGTAAGTAATA
Found at i:14009159 original size:21 final size:21
Alignment explanation
Indices: 14009094--14009181 Score: 69
Period size: 22 Copynumber: 4.3 Consensus size: 21
14009084 ATTTTAAGTA
14009094 ATGTAATATATTTAAGTAATGT
1 ATGTAATATATTTAAGTAAT-T
* * *
14009116 AAGTTATA-ACTTTTAGT-A--
1 ATGTAATATA-TTTAAGTAATT
14009134 A-GTAATATATTTAAGTAATT
1 ATGTAATATATTTAAGTAATT
* *
14009154 ATGTAATATATTTTAGTAAGTA
1 ATGTAATATATTTAAGTAA-TT
14009176 ATGTAA
1 ATGTAA
14009182 GTAATGTAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
17 11 0.21
18 3 0.06
20 1 0.02
21 18 0.35
22 19 0.37
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.44
Consensus pattern (21 bp):
ATGTAATATATTTAAGTAATT
Found at i:14011886 original size:16 final size:16
Alignment explanation
Indices: 14011832--14011891 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
14011822 ATCGTTGAAA
*
14011832 CCCTAAACCCTAAAT-
1 CCCTAACCCCTAAATC
*
14011847 CCATAACCCCCT-AA-C
1 CCCTAA-CCCCTAAATC
* *
14011862 CCCTTACCCTTAAATC
1 CCCTAACCCCTAAATC
14011878 CCCTAACCCCTAAA
1 CCCTAACCCCTAAA
14011892 GCATAACCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
14 4 0.12
15 13 0.38
16 17 0.50
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (16 bp):
CCCTAACCCCTAAATC
Found at i:14012512 original size:2 final size:2
Alignment explanation
Indices: 14012507--14012545 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14012497 ACCTATTATT
14012507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14012546 CTATTAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14013225 original size:15 final size:16
Alignment explanation
Indices: 14013205--14013243 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
14013195 ATCGTTGAAA
14013205 CCCTAAATCTC-AAAC
1 CCCTAAATCTCTAAAC
* *
14013220 CCCTAAACCTCTAACC
1 CCCTAAATCTCTAAAC
14013236 CCCTAAAT
1 CCCTAAAT
14013244 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.21
Consensus pattern (16 bp):
CCCTAAATCTCTAAAC
Found at i:14013981 original size:82 final size:82
Alignment explanation
Indices: 14013743--14013989 Score: 293
Period size: 82 Copynumber: 3.0 Consensus size: 82
14013733 TTTTGTTACT
** * * * *
14013743 ATTAGCGGCGCTTC-GGCAAAAATGCCGCTAAAGG-TAAATGCATTAGCGGCGCTTAGCTACAAA
1 ATTAGCGGCGC-TCAGATAAAAATGCCGCTAAAGGCCAGA-GCATTAGCGGCGCTTAGATAAAAA
* *
14013806 CGCCGCTAAAGACAAGAGA
64 CGCCGCTAAAGGCCAGAGA
* * * * * *
14013825 ATTCGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCC-GAGCATTAGCGGCGCTTATATAAAAAC
1 ATTAGCGGCGCTCAGATAAAAATGCCGCTAAAG-GCCAGAGCATTAGCGGCGCTTAGATAAAAAC
*
14013889 GCCGCCAAAGGCCAGAGA
65 GCCGCTAAAGGCCAGAGA
*
14013907 ATTAGCGGCGCTCAGATAAAAATGCCGCTAAAGGCCAGAGAATTAGCGGCGCTTAGATAAAAACG
1 ATTAGCGGCGCTCAGATAAAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTAGATAAAAACG
*
14013972 CCGCTAAAGGCCAAAGA
66 CCGCTAAAGGCCAGAGA
14013989 A
1 A
14013990 AATCGCAAAA
Statistics
Matches: 138, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
81 4 0.03
82 133 0.96
83 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (82 bp):
ATTAGCGGCGCTCAGATAAAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTAGATAAAAACG
CCGCTAAAGGCCAGAGA
Found at i:14013983 original size:41 final size:41
Alignment explanation
Indices: 14013743--14013989 Score: 264
Period size: 41 Copynumber: 6.0 Consensus size: 41
14013733 TTTTGTTACT
* ** * * * *
14013743 ATTAGCGGCGCTTCGGCAAAAATGCCGCTAAAGG-TAAATGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGA-GA
* * * *
14013784 ATTAGCGGCGCTTAGCTACAAACGCCGCTAAAGACAAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
* * * * * *
14013825 ATTCGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCC-GAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG-GCCAGAGA
* *
14013866 ATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
* *
14013907 ATTAGCGGCGCTCAGATAAAAATGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
*
14013948 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAAAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
14013989 A
1 A
14013990 AATCGCAAAA
Statistics
Matches: 171, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
40 2 0.01
41 166 0.97
42 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
Found at i:14014111 original size:40 final size:40
Alignment explanation
Indices: 14014043--14014135 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
14014033 TTATATAAAA
* **
14014043 CGCCGCTAATTC-CTATTTTTAGCGGCGCTTCTGG-GAAAT
1 CGCCGCTAATGCTCTACCTTTAGCGGCGCTT-TGGCGAAAT
* * *
14014082 CGCCGCTGATGCTCTACCTTTAGCTGCGCTTTGGCTAAAT
1 CGCCGCTAATGCTCTACCTTTAGCGGCGCTTTGGCGAAAT
14014122 CGCCGCTAATGCTC
1 CGCCGCTAATGCTC
14014136 GCTTTTTTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 13 0.29
40 32 0.71
ACGTcount: A:0.16, C:0.30, G:0.23, T:0.31
Consensus pattern (40 bp):
CGCCGCTAATGCTCTACCTTTAGCGGCGCTTTGGCGAAAT
Found at i:14016435 original size:16 final size:16
Alignment explanation
Indices: 14016414--14016449 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
14016404 TATTGATATC
14016414 TGATCTAAATCAAAGT
1 TGATCTAAATCAAAGT
14016430 TGATCTAAATCAAAGT
1 TGATCTAAATCAAAGT
14016446 TGAT
1 TGAT
14016450 ATATATGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (16 bp):
TGATCTAAATCAAAGT
Found at i:14016999 original size:26 final size:25
Alignment explanation
Indices: 14016970--14017037 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
14016960 AATAAATATA
*
14016970 TATTTTTTAATTTTAAAATACTTTTT
1 TATTTTTTAATTTTAAAATA-ATTTT
*
14016996 TATTTTTTATTTTTAAAATAATTTT
1 TATTTTTTAATTTTAAAATAATTTT
* *
14017021 TAATGTTT-ATTTTAAAA
1 TATTTTTTAATTTTAAAA
14017038 ATGGGCCAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 8 0.22
25 10 0.27
26 19 0.51
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (25 bp):
TATTTTTTAATTTTAAAATAATTTT
Found at i:14017039 original size:25 final size:25
Alignment explanation
Indices: 14016979--14017037 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
14016969 ATATTTTTTA
* * *
14016979 ATTTTAAAATACTTTTTTATTTTTT
1 ATTTTAAAATACATTTTTAATGTTT
14017004 ATTTTTAAAATA-ATTTTTAATGTTT
1 A-TTTTAAAATACATTTTTAATGTTT
14017029 ATTTTAAAA
1 ATTTTAAAA
14017038 ATGGGCCAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.27
25 12 0.40
26 10 0.33
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTAAAATACATTTTTAATGTTT
Found at i:14018204 original size:31 final size:32
Alignment explanation
Indices: 14018145--14018206 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
14018135 TCATTTGGAC
*
14018145 TCTTTTTTAAAATATTGATGATCAAATTTAAT
1 TCTTTATTAAAATATTGATGATCAAATTTAAT
*
14018177 TCTTTATTAAAA-ATTGA-GAGTCGAATTTAA
1 TCTTTATTAAAATATTGATGA-TCAAATTTAA
14018207 CTTTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 14 0.52
32 11 0.41
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (32 bp):
TCTTTATTAAAATATTGATGATCAAATTTAAT
Found at i:14021652 original size:23 final size:23
Alignment explanation
Indices: 14021626--14021694 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
14021616 GGACTCACCA
14021626 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
14021649 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
14021672 CAGCTTG-ATAGAGCTTACCGTTT
1 CAGCTTGTAT-GAGCTTACCGTTT
14021695 ATTAGCTCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 3 0.08
23 35 0.90
24 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:14028446 original size:23 final size:23
Alignment explanation
Indices: 14028420--14028488 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
14028410 GGACTCACCA
14028420 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
14028443 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
14028466 CAGCTTG-ATAGAGCTTACCGTTT
1 CAGCTTGTAT-GAGCTTACCGTTT
14028489 ATTAGCTCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 3 0.08
23 35 0.90
24 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:14033679 original size:21 final size:22
Alignment explanation
Indices: 14033614--14033680 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
14033604 AAAATATTTT
*
14033614 AAAAA-AATTTT-AAAATCCATA
1 AAAAATAATTTTGAAAAT-TATA
** **
14033635 AATTATAATTTTTTAAATTATA
1 AAAAATAATTTTGAAAATTATA
14033657 AAAAATAATTTTGAAAATT-TA
1 AAAAATAATTTTGAAAATTATA
14033678 AAA
1 AAA
14033681 GAAATCATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 8 0.22
22 24 0.67
23 4 0.11
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAAATAATTTTGAAAATTATA
Found at i:14035533 original size:15 final size:17
Alignment explanation
Indices: 14035503--14035535 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
14035493 TTGAAATAAA
14035503 AAAATTAATCTTAATAT
1 AAAATTAATCTTAATAT
14035520 AAAA-TAAT-TTAATAT
1 AAAATTAATCTTAATAT
14035535 A
1 A
14035536 TTTGATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTAATCTTAATAT
Found at i:14041135 original size:15 final size:16
Alignment explanation
Indices: 14041110--14041150 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
14041100 ATTAAAAGTC
*
14041110 TAAAAATATATATTTAA
1 TAAAAATATAT-TTGAA
*
14041127 TAAAAATATATTTGAT
1 TAAAAATATATTTGAA
14041143 TAAAAATA
1 TAAAAATA
14041151 AAAAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TAAAAATATATTTGAA
Found at i:14051559 original size:21 final size:20
Alignment explanation
Indices: 14051520--14051561 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
14051510 TTAATTTTAC
14051520 TCATATTTTAAATATAAATT
1 TCATATTTTAAATATAAATT
14051540 TCAT-TTTTAAACTCATAAATT
1 TCATATTTTAAA-T-ATAAATT
14051561 T
1 T
14051562 TTTTTTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TCATATTTTAAATATAAATT
Found at i:14051565 original size:19 final size:18
Alignment explanation
Indices: 14051525--14051566 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
14051515 TTTACTCATA
14051525 TTTTAAATATAAATTTCAT
1 TTTTAAATATAAATTT-AT
14051544 TTTTAAACTCATAAATTT-T
1 TTTTAAA-T-ATAAATTTAT
14051563 TTTT
1 TTTT
14051567 TCTCAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAATATAAATTTAT
Found at i:14060598 original size:17 final size:17
Alignment explanation
Indices: 14060559--14060601 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14060549 GAAAAAATTC
*
14060559 AATTTAATGAATTAAAA
1 AATTTAATTAATTAAAA
*
14060576 ATTTTAATTAA-TAAACA
1 AATTTAATTAATTAAA-A
14060593 AATTTAATT
1 AATTTAATT
14060602 TAGACTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTAATTAATTAAAA
Found at i:14071830 original size:59 final size:59
Alignment explanation
Indices: 14071738--14071851 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
14071728 ATATACATAT
* *
14071738 TTTTGTTTTAGTTATATTTATTGTAATCACTAACGTTATTGAAATTTAATACTCCTTCG
1 TTTTGTTTTAGTAATATTTATTGTAATCACTAACATTATTGAAATTTAATACTCCTTCG
* * *
14071797 TTTTGTTTTAGTAATTTTTATTGTAATCACTAACATTGTTTAAATTTAATACTCC
1 TTTTGTTTTAGTAATATTTATTGTAATCACTAACATTATTGAAATTTAATACTCC
14071852 ATTAAATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (59 bp):
TTTTGTTTTAGTAATATTTATTGTAATCACTAACATTATTGAAATTTAATACTCCTTCG
Found at i:14072829 original size:18 final size:20
Alignment explanation
Indices: 14072792--14072835 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
14072782 AAAATAAATA
*
14072792 TTTAAATAATTATTTTTATT
1 TTTAAATAATTATTTGTATT
14072812 TTTAAAT-ATT-TTTGTATT
1 TTTAAATAATTATTTGTATT
14072830 TTTAAA
1 TTTAAA
14072836 AAGTAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.57
19 3 0.13
20 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTAAATAATTATTTGTATT
Found at i:14085041 original size:55 final size:58
Alignment explanation
Indices: 14084948--14085069 Score: 144
Period size: 55 Copynumber: 2.2 Consensus size: 58
14084938 AAAAGAATTG
* * * *
14084948 GGTGTCACTAGTATGTCAAGTGGCATCGGTAAATATTTTTAAAA-A-ATATT-TTTTT
1 GGTGTCACTAGTATGTCAAGCGACATAGGTAAATATTTTTAAAATATATATTCTTTTA
* *
14085003 GGTGTCACTAGTATGTCAGGCGACACTAGTTAAA-ATTTTTAAAATATATATTCTTTTA
1 GGTGTCACTAGTATGTCAAGCGACA-TAGGTAAATATTTTTAAAATATATATTCTTTTA
*
14085061 AGTGTCACT
1 GGTGTCACT
14085070 GTTGTGTCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
55 32 0.57
56 7 0.12
57 5 0.09
58 12 0.21
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (58 bp):
GGTGTCACTAGTATGTCAAGCGACATAGGTAAATATTTTTAAAATATATATTCTTTTA
Found at i:14088498 original size:29 final size:29
Alignment explanation
Indices: 14088442--14088504 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
14088432 TTTGATCATT
* *
14088442 CAACTATGAAAAGTTGCAAAATGATCACC
1 CAACCATGAAAAGTTACAAAATGATCACC
* *
14088471 TAACCATGAAAAGTTACAAGAT-AGTCACC
1 CAACCATGAAAAGTTACAAAATGA-TCACC
14088500 CAACC
1 CAACC
14088505 GTTCAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (29 bp):
CAACCATGAAAAGTTACAAAATGATCACC
Found at i:14089293 original size:14 final size:14
Alignment explanation
Indices: 14089260--14089294 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
14089250 GTTAGCATTT
14089260 AATT-AATTTTTTA
1 AATTAAATTTTTTA
14089273 AATTTAAATTTTTTA
1 AA-TTAAATTTTTTA
14089288 AATTAAA
1 AATTAAA
14089295 AATCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 7 0.35
15 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTAAATTTTTTA
Found at i:14089326 original size:10 final size:10
Alignment explanation
Indices: 14089313--14089346 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
14089303 AAATTATTAA
14089313 AAATATTTTT
1 AAATATTTTT
14089323 AAATATTTTT
1 AAATATTTTT
14089333 AAATATTTTT
1 AAATATTTTT
14089343 AAAT
1 AAAT
14089347 TTTAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AAATATTTTT
Found at i:14089326 original size:20 final size:20
Alignment explanation
Indices: 14089303--14089356 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
14089293 AAAATCATTA
14089303 AAATTATTAAAAATATTTTT
1 AAATTATTAAAAATATTTTT
**
14089323 AAA-TATTTTTAAATATTTTT
1 AAATTA-TTAAAAATATTTTT
14089343 AAATT-TTAATAAAT
1 AAATTATTAA-AAAT
14089357 TAATTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.15
20 22 0.81
21 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTATTAAAAATATTTTT
Found at i:14091126 original size:49 final size:49
Alignment explanation
Indices: 14091054--14091188 Score: 146
Period size: 49 Copynumber: 2.8 Consensus size: 49
14091044 ACTTGAACCC
* * * *
14091054 GTGACCGCAAAGTCACTGTCAACTAGGG-TCCCGAGTTATACTTCAACTT
1 GTGACCGCAAAATCACCGTCAACT-GGGAGCCCGAGTTATACTTCAACAT
* *
14091103 GTGACCGCAAAATCGCCGTCAACTGGGAGCCCTAGTTATACTTCAACAT
1 GTGACCGCAAAATCACCGTCAACTGGGAGCCCGAGTTATACTTCAACAT
** * * * *
14091152 GTGACCATATAACCACCGTGAACTGGGAGCCTGAGTT
1 GTGACCGCAAAATCACCGTCAACTGGGAGCCCGAGTT
14091189 GAAATGTGAT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 3 0.04
49 68 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (49 bp):
GTGACCGCAAAATCACCGTCAACTGGGAGCCCGAGTTATACTTCAACAT
Found at i:14104426 original size:11 final size:11
Alignment explanation
Indices: 14104409--14104438 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14104399 TTTTATTTTT
14104409 TAATTTTAAAA
1 TAATTTTAAAA
*
14104420 TACTTTTAAAA
1 TAATTTTAAAA
14104431 TAATTTTA
1 TAATTTTA
14104439 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:14116131 original size:19 final size:19
Alignment explanation
Indices: 14116099--14116140 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14116089 TTTTCTCAAC
14116099 AAAA-ATTTAAAAAAAATT
1 AAAATATTTAAAAAAAATT
*
14116117 AAAATATTTATAAAAAATT
1 AAAATATTTAAAAAAAATT
*
14116136 TAAAT
1 AAAAT
14116141 CATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATTTAAAAAAAATT
Found at i:14121212 original size:2 final size:2
Alignment explanation
Indices: 14121205--14121253 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14121195 TATACCAGTG
14121205 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14121247 TA TA TA T
1 TA TA TA T
14121254 TAAAATGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14131149 original size:25 final size:26
Alignment explanation
Indices: 14131112--14131161 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
14131102 TAAAAGAATA
14131112 TTAACAAAGT-AAAGTGACTAAATTTC
1 TTAACAAAGTAAAAG-GACTAAATTTC
*
14131138 TTAAGAAA-TAAAAGGACTAAATTT
1 TTAACAAAGTAAAAGGACTAAATTT
14131162 TAAATATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (26 bp):
TTAACAAAGTAAAAGGACTAAATTTC
Found at i:14132326 original size:32 final size:32
Alignment explanation
Indices: 14132290--14132401 Score: 102
Period size: 34 Copynumber: 3.4 Consensus size: 32
14132280 AAATAGGTTA
14132290 AATTTATTTTATTCCTTAAGTTATAAATTTGG
1 AATTTATTTTATTCCTTAAGTTATAAATTTGG
* * * * *
14132322 AATTTAGTTTATATAT-TTTTATTTTTAAATAGGTT-A
1 AATTTA-TTT-TAT-TCCTTAAGTTATAAAT---TTGG
14132358 AATTTATTTTATTCCTTAAGTTATAAATTTGG
1 AATTTATTTTATTCCTTAAGTTATAAATTTGG
*
14132390 AATTTAGTTTAT
1 AATTTATTTTAT
14132402 ATATTTTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
31 2 0.03
32 17 0.28
33 4 0.07
34 26 0.43
35 4 0.07
36 6 0.10
37 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (32 bp):
AATTTATTTTATTCCTTAAGTTATAAATTTGG
Found at i:14132356 original size:68 final size:68
Alignment explanation
Indices: 14132276--14132416 Score: 282
Period size: 68 Copynumber: 2.1 Consensus size: 68
14132266 GAGACTGTAA
14132276 TTTTAAATAGGTTAAATTTATTTTATTCCTTAAGTTATAAATTTGGAATTTAGTTTATATATTTT
1 TTTTAAATAGGTTAAATTTATTTTATTCCTTAAGTTATAAATTTGGAATTTAGTTTATATATTTT
14132341 TAT
66 TAT
14132344 TTTTAAATAGGTTAAATTTATTTTATTCCTTAAGTTATAAATTTGGAATTTAGTTTATATATTTT
1 TTTTAAATAGGTTAAATTTATTTTATTCCTTAAGTTATAAATTTGGAATTTAGTTTATATATTTT
14132409 TAT
66 TAT
14132412 TTTTA
1 TTTTA
14132417 GGAATTTAGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 73 1.00
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.57
Consensus pattern (68 bp):
TTTTAAATAGGTTAAATTTATTTTATTCCTTAAGTTATAAATTTGGAATTTAGTTTATATATTTT
TAT
Found at i:14132435 original size:29 final size:31
Alignment explanation
Indices: 14132388--14132455 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
14132378 TTATAAATTT
14132388 GGAATTTAGTTTATATATTTTT-A-TTTTTA
1 GGAATTTAGTTTATATATTTTTCAGTTTTTA
*
14132417 GGAATTTAGTCTT-TTTATTTTTCAGTTTTTA
1 GGAATTTAGT-TTATATATTTTTCAGTTTTTA
*
14132448 -AAATTTAG
1 GGAATTTAG
14132456 GTCTAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 18 0.53
30 10 0.29
31 6 0.18
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (31 bp):
GGAATTTAGTTTATATATTTTTCAGTTTTTA
Found at i:14134551 original size:3 final size:3
Alignment explanation
Indices: 14134545--14134585 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14134535 AACGTTTATT
14134545 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
14134586 TTGTGAGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:14139071 original size:22 final size:22
Alignment explanation
Indices: 14139046--14139088 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14139036 TTAAAAATAA
14139046 TATTT-ATATTATTTTAATTTAG
1 TATTTAATATT-TTTTAATTTAG
*
14139068 TATTTAATATTTTTTTATTTA
1 TATTTAATATTTTTTAATTTA
14139089 TTAGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTTAATATTTTTTAATTTAG
Found at i:14144683 original size:2 final size:2
Alignment explanation
Indices: 14144678--14144722 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
14144668 GTTCATTCAG
14144678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14144720 TA T
1 TA T
14144723 TCTCTCGTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14145653 original size:11 final size:11
Alignment explanation
Indices: 14145633--14145689 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
14145623 ATATCCAACT
*
14145633 AATAACAACAA
1 AATAATAACAA
*
14145644 AATAGTAACAA
1 AATAATAACAA
* * *
14145655 TATAATAGCGA
1 AATAATAACAA
*
14145666 AATGATAACAA
1 AATAATAACAA
14145677 AATAATAA-AA
1 AATAATAACAA
14145687 AAT
1 AAT
14145690 CAACGACAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
10 5 0.14
11 30 0.86
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (11 bp):
AATAATAACAA
Found at i:14154275 original size:198 final size:187
Alignment explanation
Indices: 14153840--14154361 Score: 659
Period size: 198 Copynumber: 2.7 Consensus size: 187
14153830 CTGGTGAATG
* * * ** * *
14153840 CTTTACATATGATCAACAATGCTTTAAGTCTCTTGAACAAGCTAATAAATTACTATAGATTGGAG
1 CTTTATATAAGATCAAGAATGCTTTAAGGATCTTGAACAAGCTAATAAAGTAC--TAGGTTGGAG
* *
14153905 ATACAATTTAGTTTCCATGCTACAGAATGAAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAA
64 ATACAA-TTAGTTTCCATGATATAGAATGAAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAA
* *
14153970 ATCCCATAAAGCATAACCACAAATTCGAAGTAGTTTCAACCTCTAAAATTCCGGACAGTC
128 ATCCCATAAACCATAACCACAAATTCGAAGTAGTTTCAACCTCTAAAATTCCAGACAGTC
* * * *
14154030 CTTTATATAAGATCAAGAATGCTTGAAGGTTCTTGAACAAACTAATAAAGAACTAGGTTGGAGAT
1 CTTTATATAAGATCAAGAATGCTTTAAGGATCTTGAACAAGCTAATAAAGTACTAGGTTGGAGAT
*
14154095 ACCAATTAGTTTCCATGGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
66 A-CAATTAGTTTCCAT-GATATAGAATGAAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
* * * *
14154160 TTCCATATTGCATACCAATCTAACCGCAAATTC-AGAGTAGTTTCAACCTTTAAAATTCCAGAGA
129 TCCCATA----A-ACC-A--TAACCACAAATTCGA-AGTAGTTTCAACCTCTAAAATTCCAGACA
14154224 GTC
185 GTC
*
14154227 CATTTATATAAGATCAAGAATGCTTTAAGGATCTTGAACAGGCTAATAAAGTACTAGGTTGGAGA
1 C-TTTATATAAGATCAAGAATGCTTTAAGGATCTTGAACAAGCTAATAAAGTACTAGGTTGGAGA
** * *
14154292 TAACAATTAGTTTCCACTGATATAGAATGGGATTTAATTTCACAAAGGGCAAAGAGTGCAACAAA
65 T-ACAATTAGTTTCCA-TGATATAGAATGAAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAA
14154357 ATCCC
128 ATCCC
14154362 GAACACATAA
Statistics
Matches: 289, Mismatches: 29, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
188 23 0.08
189 54 0.19
190 44 0.15
193 1 0.00
194 2 0.01
195 1 0.00
196 1 0.00
197 42 0.15
198 119 0.41
199 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (187 bp):
CTTTATATAAGATCAAGAATGCTTTAAGGATCTTGAACAAGCTAATAAAGTACTAGGTTGGAGAT
ACAATTAGTTTCCATGATATAGAATGAAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAATC
CCATAAACCATAACCACAAATTCGAAGTAGTTTCAACCTCTAAAATTCCAGACAGTC
Found at i:14163718 original size:15 final size:15
Alignment explanation
Indices: 14163694--14163726 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14163684 ACCACCAAGG
*
14163694 CCACCGCCATACATT
1 CCACCACCATACATT
14163709 CCACCACCATACATT
1 CCACCACCATACATT
14163724 CCA
1 CCA
14163727 GAGTTCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.48, G:0.03, T:0.18
Consensus pattern (15 bp):
CCACCACCATACATT
Found at i:14167132 original size:25 final size:23
Alignment explanation
Indices: 14167055--14167143 Score: 110
Period size: 22 Copynumber: 3.9 Consensus size: 23
14167045 TGCACAAATA
*
14167055 AACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAACGTGCTAT
* *
14167078 -ACAGAGAGCACAAATGTGCTA-
1 AACAGAGAGCACTAACGTGCTAT
*
14167099 AACAGAGAGCACTGACGTGCTAGT
1 AACAGAGAGCACTAACGTGCTA-T
14167123 AATCAGAGAGCACTAACGTGC
1 AA-CAGAGAGCACTAACGTGC
14167144 CAATAATCAG
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
22 37 0.66
24 2 0.04
25 17 0.30
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (23 bp):
AACAGAGAGCACTAACGTGCTAT
Found at i:14167150 original size:25 final size:24
Alignment explanation
Indices: 14167051--14167154 Score: 90
Period size: 22 Copynumber: 4.4 Consensus size: 24
14167041 ATTATGCACA
*
14167051 AATAAACAGAGAGCACTAAAGTGC
1 AATAAACAGAGAGCACTAACGTGC
* * *
14167075 --TATACAGAGAGCACAAATGTGC
1 AATAAACAGAGAGCACTAACGTGC
*
14167097 --TAAACAGAGAGCACTGACGTGC
1 AATAAACAGAGAGCACTAACGTGC
* *
14167119 TAGTAATCAGAGAGCACTAACGTGCC
1 -AATAAACAGAGAGCACTAACGTG-C
*
14167145 AATAATCAGA
1 AATAAACAGA
14167155 AAGCGCGCTA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
22 37 0.56
25 28 0.42
26 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (24 bp):
AATAAACAGAGAGCACTAACGTGC
Found at i:14169486 original size:31 final size:31
Alignment explanation
Indices: 14169441--14169499 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
14169431 AATATTTATA
* *
14169441 GGAAATATATATAATATA-TTCATAAATATTT
1 GGAAAGATAAATAATATATTTC-TAAATATTT
14169472 GGAAAGATAAATAATATATTTCTAAATA
1 GGAAAGATAAATAATATATTTCTAAATA
14169500 GAGGTGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.37
Consensus pattern (31 bp):
GGAAAGATAAATAATATATTTCTAAATATTT
Found at i:14170176 original size:30 final size:29
Alignment explanation
Indices: 14170128--14170214 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 29
14170118 CAGGTCTATT
14170128 TTTAAATATATACCTAAAAGATATCCAATATA
1 TTTAAATAT-T-CCTAAAAGATATCC-ATATA
* *
14170160 TTTAAATATTCCTAAAAGATAATATCTTATA
1 TTTAAATATTCCTAAAAGAT-AT-CCATATA
*
14170191 -ATAATATATTCCTAAAAGATATCC
1 TTTAA-ATATTCCTAAAAGATATCC
14170215 TCGGATAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
29 1 0.02
30 15 0.31
31 22 0.46
32 10 0.21
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (29 bp):
TTTAAATATTCCTAAAAGATATCCATATA
Found at i:14170524 original size:26 final size:26
Alignment explanation
Indices: 14170494--14170551 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14170484 TGGCCCATTT
* * * * *
14170494 AAAATAAACATTAAAATATTATTTTC
1 AAAATAAAAAATAAAAAAATATTTTA
14170520 AAAATAAAAAATAAAAAAATATTTTA
1 AAAATAAAAAATAAAAAAATATTTTA
14170546 AAAATA
1 AAAATA
14170552 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAATAAAAAATAAAAAAATATTTTA
Found at i:14170560 original size:10 final size:11
Alignment explanation
Indices: 14170534--14170559 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14170524 TAAAAAATAA
14170534 AAAAATATTTT
1 AAAAATATTTT
14170545 AAAAATATTTT
1 AAAAATATTTT
14170556 AAAA
1 AAAA
14170560 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:14170565 original size:37 final size:40
Alignment explanation
Indices: 14170504--14170583 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 40
14170494 AAAATAAACA
14170504 TTAAAATATTATTTTCAAAATAAAAAATAAAAAAATAT-T
1 TTAAAATATTATTTTCAAAATAAAAAATAAAAAAATATAT
* *
14170543 TTAAAA-A-TATTTT-AAAATTAAAAATTAAAAATATATAT
1 TTAAAATATTATTTTCAAAA-TAAAAAATAAAAAAATATAT
14170581 TTA
1 TTA
14170584 TTATATTCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
36 4 0.11
37 22 0.59
38 5 0.14
39 6 0.16
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (40 bp):
TTAAAATATTATTTTCAAAATAAAAAATAAAAAAATATAT
Found at i:14170684 original size:13 final size:13
Alignment explanation
Indices: 14170666--14170690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14170656 TTTTTGCCCA
14170666 GGCCTATATTTTG
1 GGCCTATATTTTG
14170679 GGCCTATATTTT
1 GGCCTATATTTT
14170691 TACCCGAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (13 bp):
GGCCTATATTTTG
Found at i:14172790 original size:26 final size:27
Alignment explanation
Indices: 14172761--14172820 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 27
14172751 AATATTGAAT
14172761 TTAAATTATAAATTAGGTTT-G-ATAT-A
1 TTAAATTATAAATTA--TTTGGAATATAA
14172787 TT-AATTA-AAATTATTTGGAATATAA
1 TTAAATTATAAATTATTTGGAATATAA
14172812 TTAAATTAT
1 TTAAATTAT
14172821 TTGATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
22 3 0.10
23 1 0.03
24 10 0.34
25 8 0.28
26 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (27 bp):
TTAAATTATAAATTATTTGGAATATAA
Found at i:14172830 original size:22 final size:22
Alignment explanation
Indices: 14172769--14172833 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 22
14172759 ATTTAAATTA
*
14172769 TAAATTAGGTTTGATATAT-TAAT
1 TAAATTA--TTTGATAAATATAAT
*
14172792 TAAAATTATTTG--GAATATAAT
1 T-AAATTATTTGATAAATATAAT
14172813 TAAATTATTTGATAAATATAA
1 TAAATTATTTGATAAATATAA
14172834 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 12 0.34
21 5 0.14
22 11 0.31
23 1 0.03
24 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
TAAATTATTTGATAAATATAAT
Found at i:14195488 original size:22 final size:22
Alignment explanation
Indices: 14195447--14195488 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14195437 GACATTTTTT
* *
14195447 TAATGTGATACGTGTTTTTATC
1 TAATGTGATACATGTATTTATC
*
14195469 TAATGTGGTACATGTATTTA
1 TAATGTGATACATGTATTTA
14195489 GTAAAAACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (22 bp):
TAATGTGATACATGTATTTATC
Found at i:14195966 original size:24 final size:25
Alignment explanation
Indices: 14195929--14195979 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
14195919 TTTCAATAAT
*
14195929 AAATATGTATTACTATATATAA-ATA
1 AAATATGTAATACTATA-ATAATATA
*
14195954 AAATATG-AATACTTTAATAATATA
1 AAATATGTAATACTATAATAATATA
14195978 AA
1 AA
14195980 CATACATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
AAATATGTAATACTATAATAATATA
Found at i:14198403 original size:133 final size:133
Alignment explanation
Indices: 14198237--14198479 Score: 389
Period size: 133 Copynumber: 1.8 Consensus size: 133
14198227 AGCAACTACT
* * *
14198237 GTAGAAATCTTCATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTGCCT
1 GTAGAAATCTACATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTACAT
*
14198302 TACATTGAACATGCATATGGAATAGGG-CATATTGAGCTCATCACTCTCACTCATCACTTTCATC
66 TACATTAAACATGCATATGGAAT-GGGACATATTGAGCTCATCACTCTCACTCATCACTTTCATC
14198366 CACC
130 CACC
* * *
14198370 GTAGAAATCTACATCTAGGATGAGGAGGGCTAGCCAAAAGCTGTTTTTGTGATTTCAAATTACAT
1 GTAGAAATCTACATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTACAT
* *
14198435 TACATTAAACATGCATATGTAATGGGACATGTTGAGCTCATCACT
66 TACATTAAACATGCATATGGAATGGGACATATTGAGCTCATCACT
14198480 TTCAGCCATC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
132 3 0.03
133 97 0.97
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (133 bp):
GTAGAAATCTACATCTAGGATGAGGAAGGCTAGCCAAAAGCTGTTTTTGGGATTCCAAATTACAT
TACATTAAACATGCATATGGAATGGGACATATTGAGCTCATCACTCTCACTCATCACTTTCATCC
ACC
Found at i:14200666 original size:48 final size:48
Alignment explanation
Indices: 14200570--14200670 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
14200560 GAGGCAACAA
* * *
14200570 AGGGAAAGAGAAGAGGAAGAGAGAGAGCAAAGGAGGCGTGAAGTAGAG
1 AGGGAAAGAGAAGAGGAAGAGAGAGAACAAAGAAGGCGTGAAGAAGAG
* * *
14200618 AGGGAAAGGGAGGA-GAAGGAGAGAGAACAAAGAAGGCTTG-AGAAAGAG
1 AGGGAAAGAGAAGAGGAA-GAGAGAGAACAAAGAAGGCGTGAAG-AAGAG
14200666 AGGGA
1 AGGGA
14200671 GCGAATTAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 5 0.11
48 40 0.89
ACGTcount: A:0.47, C:0.04, G:0.46, T:0.04
Consensus pattern (48 bp):
AGGGAAAGAGAAGAGGAAGAGAGAGAACAAAGAAGGCGTGAAGAAGAG
Found at i:14201907 original size:31 final size:31
Alignment explanation
Indices: 14201872--14201933 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
14201862 TGTTAAAGTT
14201872 AACTTGTATAATTGACTCTGGAATAGTTTAC
1 AACTTGTATAATTGACTCTGGAATAGTTTAC
14201903 AACTTGTATAATTGACTCTGGAATAGTTTAC
1 AACTTGTATAATTGACTCTGGAATAGTTTAC
14201934 TCAGTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (31 bp):
AACTTGTATAATTGACTCTGGAATAGTTTAC
Found at i:14209145 original size:35 final size:35
Alignment explanation
Indices: 14209099--14209169 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
14209089 ACCGTTGAAT
14209099 TACAGCCCGAACTAGTTAATATTTGAAATTGATTC
1 TACAGCCCGAACTAGTTAATATTTGAAATTGATTC
14209134 TACAGCCCGAACTAGTTAATATTTGAAATTGATTC
1 TACAGCCCGAACTAGTTAATATTTGAAATTGATTC
14209169 T
1 T
14209170 TTCTTATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (35 bp):
TACAGCCCGAACTAGTTAATATTTGAAATTGATTC
Found at i:14226258 original size:29 final size:31
Alignment explanation
Indices: 14226194--14226261 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
14226184 AATATTCCAC
*
14226194 ATAAA-ATTACAAAATTATTTTAATTTTGAA
1 ATAAATATTAAAAAATTATTTTAATTTTGAA
14226224 AT-AATATTAAAAAA-TATTTTTAA-TTT-AA
1 ATAAATATTAAAAAATTA-TTTTAATTTTGAA
14226252 ATAAATATTA
1 ATAAATATTA
14226262 TTTTATACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 4 0.12
29 14 0.41
30 16 0.47
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAAATATTAAAAAATTATTTTAATTTTGAA
Found at i:14230453 original size:28 final size:29
Alignment explanation
Indices: 14230421--14230479 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
14230411 ATTAAAATTT
14230421 ATTTTATAT-ATAATATTATA-TATTTAAA
1 ATTTTAT-TGATAATATTATATTATTTAAA
* *
14230449 ATTTTATTGATCATATTTTATTATTTAAA
1 ATTTTATTGATAATATTATATTATTTAAA
14230478 AT
1 AT
14230480 ATAGTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 1 0.04
28 16 0.59
29 10 0.37
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
ATTTTATTGATAATATTATATTATTTAAA
Found at i:14236685 original size:10 final size:10
Alignment explanation
Indices: 14236663--14236710 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
14236653 GTATGTGATA
14236663 AATTTAT-TG
1 AATTTATATG
14236672 AATTTATATG
1 AATTTATATG
*
14236682 AATTGA-ATTG
1 AATTTATA-TG
14236692 AATTTATATG
1 AATTTATATG
*
14236702 AATTGATAT
1 AATTTATAT
14236711 TGGATATTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 24 0.73
11 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (10 bp):
AATTTATATG
Found at i:14236693 original size:20 final size:21
Alignment explanation
Indices: 14236667--14236712 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
14236657 GTGATAAATT
14236667 TATTGAATTTATATGAATTGA
1 TATTGAATTTATATGAATTGA
14236688 -ATTGAATTTATATGAATTGA
1 TATTGAATTTATATGAATTGA
14236708 TATTG
1 TATTG
14236713 GATATTGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (21 bp):
TATTGAATTTATATGAATTGA
Found at i:14238954 original size:37 final size:37
Alignment explanation
Indices: 14238893--14239122 Score: 320
Period size: 37 Copynumber: 6.0 Consensus size: 37
14238883 TACGTATGAT
*
14238893 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
14238928 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
14238965 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
14239002 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
14239039 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
14239082 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
14239122 C
1 C
14239123 GAAGCTATCA
Statistics
Matches: 178, Mismatches: 6, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
35 9 0.05
36 4 0.02
37 122 0.69
39 2 0.01
40 4 0.02
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 30 0.17
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:14239092 original size:46 final size:46
Alignment explanation
Indices: 14239039--14239261 Score: 266
Period size: 52 Copynumber: 4.6 Consensus size: 46
14239029 TAAGTGTAGC
* *
14239039 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * *
14239085 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
14239131 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
14239183 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
14239235 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
14239262 AGTACTCAAA
Statistics
Matches: 162, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
46 69 0.43
49 1 0.01
50 1 0.01
51 3 0.02
52 88 0.54
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
Found at i:14239158 original size:52 final size:52
Alignment explanation
Indices: 14239082--14239255 Score: 267
Period size: 52 Copynumber: 3.3 Consensus size: 52
14239072 TAGCTAAAGC
* * *
14239082 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
14239135 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* ** *
14239187 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
14239239 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
14239256 ATCAGAAGTA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
52 94 0.84
53 18 0.16
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:14239227 original size:98 final size:98
Alignment explanation
Indices: 14239038--14239261 Score: 253
Period size: 98 Copynumber: 2.3 Consensus size: 98
14239028 ATAAGTGTAG
* * * *
14239038 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGCCAC
*
14239103 TTGATCAGATAAGTATAGCCGAAGCTATCA-CTTA
66 TTGATCAGATAAGTATAGCCGAAGCTA-AAGC-TA
* * *
14239137 TCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT-CCAC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGCCAC
* * *
14239200 TTG-TCACTTGATCAG-ATAAG-TGTAGCTAAAGCTA
66 TTGATCA---GATAAGTAT-AGCCGAAGCTAAAGCTA
14239234 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
14239262 AGTACTCAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
96 3 0.03
97 17 0.16
98 70 0.66
99 16 0.15
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGCCAC
TTGATCAGATAAGTATAGCCGAAGCTAAAGCTA
Found at i:14242737 original size:4 final size:4
Alignment explanation
Indices: 14242728--14242767 Score: 64
Period size: 4 Copynumber: 10.0 Consensus size: 4
14242718 AAAAGTATTA
14242728 AAAG AAAG AATA- AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AA-AG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
14242768 CCATACGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 1 0.03
4 32 0.94
5 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:14248127 original size:18 final size:18
Alignment explanation
Indices: 14248105--14248177 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
14248095 TAAAAAATGG
*
14248105 AAAAAATTATAAATTTATT
1 AAAATATTA-AAATTTATT
14248124 AAAATATTAAAATTTATT
1 AAAATATTAAAATTTATT
* *
14248142 AAAATAATATAAAATTGA-A
1 AAAAT-AT-TAAAATTTATT
14248161 AAAATATTAAAAATTTA
1 AAAATATT-AAAATTTA
14248178 AAAAGTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 1 0.02
18 23 0.49
19 15 0.32
20 8 0.17
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (18 bp):
AAAATATTAAAATTTATT
Found at i:14248128 original size:10 final size:10
Alignment explanation
Indices: 14248110--14248146 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14248100 AATGGAAAAA
14248110 ATTATAAATTT
1 ATTA-AAATTT
14248121 ATTAAAA--T
1 ATTAAAATTT
14248129 ATTAAAATTT
1 ATTAAAATTT
14248139 ATTAAAAT
1 ATTAAAAT
14248147 AATATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.33
10 12 0.50
11 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTAAAATTT
Found at i:14248166 original size:19 final size:18
Alignment explanation
Indices: 14248142--14248195 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
14248132 AAAATTTATT
14248142 AAAATAATATAAAATTGAA
1 AAAATAATA-AAAATTGAA
* *
14248161 AAAATATTAAAAATTTAA
1 AAAATAATAAAAATTGAA
*
14248179 AAAGT-AT-AAAATTGAA
1 AAAATAATAAAAATTGAA
14248195 A
1 A
14248196 TATATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 9 0.30
17 1 0.03
18 12 0.40
19 8 0.27
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
AAAATAATAAAAATTGAA
Found at i:14248192 original size:34 final size:37
Alignment explanation
Indices: 14248124--14248195 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 37
14248114 TAAATTTATT
*
14248124 AAAATATTAAAATTTATTAAAATAATATAAAATTGAA
1 AAAATATTAAAATATATTAAAATAATATAAAATTGAA
*
14248161 AAAATATTAAAA-AT-TTAAAA-AGTATAAAATTGAA
1 AAAATATTAAAATATATTAAAATAATATAAAATTGAA
14248195 A
1 A
14248196 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 14 0.42
35 6 0.18
36 1 0.03
37 12 0.36
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (37 bp):
AAAATATTAAAATATATTAAAATAATATAAAATTGAA
Found at i:14248202 original size:2 final size:2
Alignment explanation
Indices: 14248195--14248251 Score: 96
Period size: 2 Copynumber: 27.5 Consensus size: 2
14248185 TAAAATTGAA
14248195 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14248237 AT AT AGT AT AGT AT A
1 AT AT A-T AT A-T AT A
14248252 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 49 0.92
3 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14248203 original size:17 final size:15
Alignment explanation
Indices: 14248147--14248201 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
14248137 TTATTAAAAT
14248147 AATATAAAATTGAAAA
1 AATATAAAATTG-AAA
*
14248163 AATATTAAAAATTTAAA
1 AATA-T-AAAATTGAAA
14248180 AAGTATAAAATTGAAA
1 AA-TATAAAATTGAAA
*
14248196 TATATA
1 AATATA
14248202 TATATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 4 0.12
16 14 0.42
17 7 0.21
18 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (15 bp):
AATATAAAATTGAAA
Found at i:14248721 original size:14 final size:17
Alignment explanation
Indices: 14248698--14248733 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
14248688 TTTTTTATAC
14248698 TTTTTGAAAA-TTCT-A
1 TTTTTGAAAATTTCTAA
14248713 TTTTT-AAAATTTCTAA
1 TTTTTGAAAATTTCTAA
14248729 TTTTT
1 TTTTT
14248734 TTTTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 9 0.47
16 6 0.32
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTGAAAATTTCTAA
Found at i:14249314 original size:18 final size:18
Alignment explanation
Indices: 14249293--14249327 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14249283 ATTCAAATCC
*
14249293 ATTTTTATCAATTCTCTA
1 ATTTCTATCAATTCTCTA
14249311 ATTTCTATCAATTCTCT
1 ATTTCTATCAATTCTCT
14249328 CAAATGTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTCTATCAATTCTCTA
Found at i:14256711 original size:57 final size:58
Alignment explanation
Indices: 14256634--14256745 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
14256624 TACATGTCAT
** * *
14256634 TTTCATTTTGGTTTTGGAGAAAACCACATTAATTTCCAAATGATTC-CATTTCTCTAG
1 TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTCTCTAG
* * *
14256691 TTTCATTTTCATTTTCGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTC
1 TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTCTC
14256746 CATTTTCACC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 39 0.83
58 8 0.17
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.44
Consensus pattern (58 bp):
TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTCTCTAG
Found at i:14258284 original size:2 final size:2
Alignment explanation
Indices: 14258277--14258333 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
14258267 AAACATTGTT
14258277 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14258319 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
14258334 TAAGCTTAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14259267 original size:41 final size:41
Alignment explanation
Indices: 14259198--14259347 Score: 203
Period size: 41 Copynumber: 3.6 Consensus size: 41
14259188 TTAATTTAAA
* * *
14259198 CAGATTCACTGGCACTTCA-CCTGTTAGGCTTATAGCCTAATT
1 CAGA-TCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATT
* *
14259240 CAGTTCACAGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
14259281 CAGATCACCGACACTTAGCCTGCTAGGCTTATAGCTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
14259322 CAGATCACCGGCACTTAGCCCGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
14259348 ATGTAAAGTC
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 93 0.96
42 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:14259995 original size:2 final size:2
Alignment explanation
Indices: 14259988--14260067 Score: 51
Period size: 2 Copynumber: 41.5 Consensus size: 2
14259978 ATTCAAAAAC
* * * *
14259988 TA TA TA TA TA TA TA TA TA CA CA TA TG TA TA TA TA T- TC TA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * * *
14260030 T- TA TG TA TA TA -A T- TA TA AA TA TA TA TA CA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14260068 TCATACCTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
1 4 0.07
2 54 0.90
3 2 0.03
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:14261827 original size:26 final size:26
Alignment explanation
Indices: 14261798--14261870 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
14261788 CCTATTATAT
14261798 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * * *
14261824 GGCTCTTTGTGGGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
14261850 GGCTCTTC-AGAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
14261871 ATGGCTCGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 10 0.26
26 29 0.74
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.34
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:14261949 original size:25 final size:26
Alignment explanation
Indices: 14261885--14261952 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
14261875 CTCGCTTAAA
* * *
14261885 CTTCCCGATATATGACT-ATCTAGAG
1 CTTCCCGTTATATGGCTCATATAGAG
*
14261910 CTTCCCGTTACATGGCTCATAT-GAG
1 CTTCCCGTTATATGGCTCATATAGAG
14261935 CTTCCCGTTATATGGCTC
1 CTTCCCGTTATATGGCTC
14261953 GAGAGTATGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 34 0.92
26 3 0.08
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.34
Consensus pattern (26 bp):
CTTCCCGTTATATGGCTCATATAGAG
Found at i:14271402 original size:23 final size:23
Alignment explanation
Indices: 14271351--14271426 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
14271341 CCTGATCAGT
* *
14271351 ATACGACACA-TAAGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
14271371 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
*
14271394 ATACGACACACGAGGTGCTTGAA
1 ATACGACACACGAGGTGCCTGAA
*
14271417 ATATGACACA
1 ATACGACACA
14271427 TAAAGTGTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.19
21 8 0.17
23 30 0.64
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:14279541 original size:5 final size:6
Alignment explanation
Indices: 14279530--14279558 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14279520 AGGCTGGGGC
14279530 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
14279559 AAATCTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:14282738 original size:148 final size:149
Alignment explanation
Indices: 14282476--14282769 Score: 493
Period size: 148 Copynumber: 2.0 Consensus size: 149
14282466 ACTTTAGTAT
**
14282476 TTTTATTTTAATAAAAACCAATAAAAATATGCATATAATAGGATTTGAACTCATGCTAATTAAAT
1 TTTTATTTTAATAAAAACCAATAAAAATATGCATATAATAGGAGCTGAACTCATGCTAATTAAAT
14282541 TAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAAT
66 TAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAAT
*
14282606 CACTATGCACAATTTAGTC
131 CACTACGCACAATTTAGTC
* *
14282625 TTTTAGTTTTAATAAAAACCAAT-AAAA-ATGCATATAATTGGAGCTGAATTCATGCTAATTAAA
1 TTTTA-TTTTAATAAAAACCAATAAAAATATGCATATAATAGGAGCTGAACTCATGCTAATTAAA
*
14282688 TTAATAAGATCTTAAATTTACCATTCAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAA
65 TTAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAA
* *
14282753 TTACTACGCACGATTTA
130 TCACTACGCACAATTTA
14282770 TTACTTTCTC
Statistics
Matches: 136, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
148 110 0.81
149 9 0.07
150 17 0.12
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (149 bp):
TTTTATTTTAATAAAAACCAATAAAAATATGCATATAATAGGAGCTGAACTCATGCTAATTAAAT
TAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAAT
CACTACGCACAATTTAGTC
Found at i:14285806 original size:32 final size:30
Alignment explanation
Indices: 14285769--14285843 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 30
14285759 ATACATGAAG
* *
14285769 TTTGATTTAATAATTATATACGAAATTTTGAT
1 TTTGATTTAATAA-TATATAAGAAAATTT-AT
*
14285801 TTTGATTTCAATTATATATAAGAAAATTTAT
1 TTTGATTT-AATAATATATAAGAAAATTTAT
*
14285832 TCTTTATTTAAT
1 T-TTGATTTAAT
14285844 TATAAACATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 6 0.16
32 27 0.73
33 4 0.11
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (30 bp):
TTTGATTTAATAATATATAAGAAAATTTAT
Found at i:14290333 original size:22 final size:24
Alignment explanation
Indices: 14290294--14290351 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 24
14290284 GAAAAACAAC
* * *
14290294 AAAAATATAACAACAAAA-CAGT-
1 AAAAAAATAGCAACAAAATAAGTA
* *
14290316 AAAAAAATAGCAAGAAAATAATTA
1 AAAAAAATAGCAACAAAATAAGTA
14290340 AAAAAAATAGCA
1 AAAAAAATAGCA
14290352 GCCTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 15 0.52
23 2 0.07
24 12 0.41
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.14
Consensus pattern (24 bp):
AAAAAAATAGCAACAAAATAAGTA
Found at i:14295289 original size:22 final size:22
Alignment explanation
Indices: 14295248--14295289 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14295238 TTAAAAAAGA
* *
14295248 CATAATTATTCAACTGATATCT
1 CATAACTATTCAACTAATATCT
*
14295270 CATAACTATTCAAGTAATAT
1 CATAACTATTCAACTAATAT
14295290 TATTTGTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (22 bp):
CATAACTATTCAACTAATATCT
Found at i:14299326 original size:16 final size:16
Alignment explanation
Indices: 14299305--14299349 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
14299295 ATATCAATTT
*
14299305 TAAATATAATAAA-GGA
1 TAAATA-AATAAATGAA
14299321 TAAATAAATAAATGAA
1 TAAATAAATAAATGAA
14299337 TAAATAAATAAAT
1 TAAATAAATAAAT
14299350 TTTATAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
TAAATAAATAAATGAA
Found at i:14299329 original size:4 final size:4
Alignment explanation
Indices: 14299320--14299349 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
14299310 ATAATAAAGG
*
14299320 ATAA ATAA ATAA ATGA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
14299350 TTTATAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:14304975 original size:12 final size:11
Alignment explanation
Indices: 14304949--14305015 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
14304939 ATTTTTTAAA
*
14304949 TTTT-AAATTT
1 TTTTAAAATAT
14304959 TTTTAAAATACT
1 TTTTAAAATA-T
14304971 TTTTAAAAT-T
1 TTTTAAAATAT
* *
14304981 TTTT---TTAA
1 TTTTAAAATAT
14304989 TTTTAAAATAT
1 TTTTAAAATAT
14305000 TTTTAAAATACT
1 TTTTAAAATA-T
14305012 TTTT
1 TTTT
14305016 TTAATTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
10 9 0.20
11 16 0.36
12 15 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:14304987 original size:41 final size:41
Alignment explanation
Indices: 14304919--14305042 Score: 162
Period size: 40 Copynumber: 3.0 Consensus size: 41
14304909 ATTTTTTTAA
* *
14304919 TTTTAAAATACTTTTATTAAA-TTTTTTAAATTTT-AAATTT
1 TTTTAAAATACTTTT-TTAAATTTTTTTTAATTTTAAAATAT
*
14304959 TTTTAAAATACTTTTTAAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
*
14305000 TTTTAAAATACTTTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTAAAATAC-TTTTTTAAATTTT-TTTTAA-TTTTAAAATA
14305043 AAATTTTGGT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
39 4 0.05
40 27 0.36
41 16 0.22
42 11 0.15
43 6 0.08
44 10 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
Found at i:14304993 original size:30 final size:30
Alignment explanation
Indices: 14304959--14305023 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 30
14304949 TTTTAAATTT
14304959 TTTTAAAATACTTTTTAAAAT-TTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATATTTTTTTAA
14304989 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATA-TTTTTTTAA
14305020 TTTT
1 TTTT
14305024 TATTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 10 0.30
30 10 0.30
31 13 0.39
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATATTTTTTTAA
Found at i:14307591 original size:16 final size:15
Alignment explanation
Indices: 14307570--14307617 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
14307560 GAAATAAAAC
14307570 CAATAACAATGAATAA
1 CAATAACAAT-AATAA
*
14307586 CAATAACGATAATAA
1 CAATAACAATAATAA
*
14307601 CATTAA-AATAATGAA
1 CAATAACAATAAT-AA
14307616 CA
1 CA
14307618 CAGTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 5 0.18
15 14 0.50
16 9 0.32
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
CAATAACAATAATAA
Found at i:14309289 original size:132 final size:132
Alignment explanation
Indices: 14309069--14309606 Score: 986
Period size: 132 Copynumber: 4.1 Consensus size: 132
14309059 CGTTATTGTT
* *
14309069 GATCTGCTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTCAACCTACTCCACTACTGTTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
*
14309134 GGGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
14309199 TC
131 TC
* * *
14309201 GATCTGCTCCACTACTTCTTAGGGTGACAGAATCTGCAATCTTCATCCTACTCCACTACTGCATA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
*
14309266 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
14309331 TC
131 TC
*
14309333 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATATTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
14309398 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
14309463 TC
131 TC
14309465 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
*
14309530 GGGTGATAGAACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
14309595 TC
131 TC
*
14309597 GATCTACTCC
1 GATCTGCTCC
14309607 GCTGCCAAAT
Statistics
Matches: 391, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 391 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
TC
Found at i:14309402 original size:44 final size:44
Alignment explanation
Indices: 14309339--14309540 Score: 153
Period size: 44 Copynumber: 4.6 Consensus size: 44
14309329 CTTCGATCTG
*
14309339 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATATTCAACCTA
1 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTA
* * * * *
14309383 CTCCACTACTGCTTAGGGTGATAGGA-CT--AATGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGTGACAGAATCTGCAAT--CTTCAACCTA
* * * * * * * * * * * *
14309426 CTTCTCCACTG-TATTGGGAAGATAAGATTC-ACCATCTTCGATCTG
1 CTCCACTACTGCT-TAGGG-TGA-CAGAATCTGCAATCTTCAACCTA
14309471 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTA
*
14309515 CTCCACTACTGCTTAGGGTGATAGAA
1 CTCCACTACTGCTTAGGGTGACAGAA
14309541 CTAATGGCTT
Statistics
Matches: 118, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 25 0.21
44 63 0.53
45 22 0.19
46 2 0.02
47 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTA
Found at i:14309641 original size:46 final size:46
Alignment explanation
Indices: 14309574--14309734 Score: 207
Period size: 46 Copynumber: 3.5 Consensus size: 46
14309564 CACTGTATTG
* * *
14309574 GGAAGATAAGAT-TCACCATCTTCGATCTACTCCGCTGCCAAATACA
1 GGAAGACAAGATCT-ACTATCTTCGATCTCCTCCGCTGCCAAATACA
**
14309620 GGAAGACAAGATCTACTATCTTCGATCTCCTCTACTGCCAAATACA
1 GGAAGACAAGATCTACTATCTTCGATCTCCTCCGCTGCCAAATACA
* * *
14309666 GGAAGACGAGATCTGCTATCTTCGATCCCCTTCCGCTGCCAAATACA
1 GGAAGACAAGATCTACTATCTTCGATCTCC-TCCGCTGCCAAATACA
* *
14309713 GGAAGACAATATCTGCTATCTT
1 GGAAGACAAGATCTACTATCTT
14309735 TATTGATTTG
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
46 66 0.65
47 35 0.35
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (46 bp):
GGAAGACAAGATCTACTATCTTCGATCTCCTCCGCTGCCAAATACA
Found at i:14309718 original size:47 final size:46
Alignment explanation
Indices: 14309591--14309734 Score: 216
Period size: 46 Copynumber: 3.1 Consensus size: 46
14309581 AAGATTCACC
* *
14309591 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** *
14309637 ATCTTCGATCTCCTCTACTGCCAAATACAGGAAGACGAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14309683 ATCTTCGATCCCCTTCCGCTGCCAAATACAGGAAGACAATATCTGCT
1 ATCTTCGATCTCC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
14309730 ATCTT
1 ATCTT
14309735 TATTGATTTG
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 53 0.61
47 34 0.39
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:14310967 original size:8 final size:8
Alignment explanation
Indices: 14310956--14310998 Score: 70
Period size: 8 Copynumber: 5.4 Consensus size: 8
14310946 CCATTTTTAC
14310956 TTTTTCAT
1 TTTTTCAT
14310964 TTTTTCA-
1 TTTTTCAT
14310971 TTTTTCAT
1 TTTTTCAT
14310979 TTTTTCATT
1 TTTTTCA-T
14310988 TTTTTCAT
1 TTTTTCAT
14310996 TTT
1 TTT
14310999 CATCATCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
8 18 0.55
9 8 0.24
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:14310974 original size:15 final size:15
Alignment explanation
Indices: 14310947--14310990 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
14310937 TTAGCCTCTC
*
14310947 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
14310961 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
14310976 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
14310991 TTCATTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 8 0.29
15 20 0.71
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:14310999 original size:23 final size:22
Alignment explanation
Indices: 14310947--14311001 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
14310937 TTAGCCTCTC
* *
14310947 CATTTTTACTTTTTCATTTTTT
1 CATTTTCATTTTTTCATTTTTT
14310969 CATTTTTCATTTTTTCATTTTTTT
1 CA-TTTTCATTTTTTCA-TTTTTT
14310993 CATTTTCAT
1 CATTTTCAT
14311002 CATCATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 19 0.66
24 8 0.28
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (22 bp):
CATTTTCATTTTTTCATTTTTT
Found at i:14311854 original size:11 final size:11
Alignment explanation
Indices: 14311838--14311870 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14311828 TTTGACTTTA
14311838 ATTTTTTTTTT
1 ATTTTTTTTTT
14311849 ATTTTTTTTTT
1 ATTTTTTTTTT
*
14311860 -TGTTTTTTTT
1 ATTTTTTTTTT
14311870 A
1 A
14311871 GTCTGAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (11 bp):
ATTTTTTTTTT
Found at i:14312576 original size:17 final size:18
Alignment explanation
Indices: 14312544--14312580 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14312534 ACTGCACAGT
14312544 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
14312562 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
14312579 AT
1 AT
14312581 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:14316640 original size:16 final size:15
Alignment explanation
Indices: 14316619--14316666 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
14316609 GAAATAAAAC
14316619 CAATAACAATGAATAA
1 CAATAACAAT-AATAA
*
14316635 CAATAACGATAATAA
1 CAATAACAATAATAA
*
14316650 CATTAA-AATAATGAA
1 CAATAACAATAAT-AA
14316665 CA
1 CA
14316667 CAGTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 5 0.18
15 14 0.50
16 9 0.32
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
CAATAACAATAATAA
Found at i:14321649 original size:7 final size:7
Alignment explanation
Indices: 14321637--14321662 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14321627 ATCACATTTA
14321637 TCACTTG
1 TCACTTG
14321644 TCACTTG
1 TCACTTG
14321651 TCACTTG
1 TCACTTG
14321658 TCACT
1 TCACT
14321663 GATCAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (7 bp):
TCACTTG
Found at i:14323494 original size:31 final size:30
Alignment explanation
Indices: 14323458--14323527 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
14323448 CGGCTTAGTA
* *
14323458 ACTAAAATGTTACAACATGTT-AACGTAATTG
1 ACTAAAATGTT--AACATGTTAAACATAAATG
*
14323489 ACTAAAATG-TAACATTTTAAACATAAATG
1 ACTAAAATGTTAACATGTTAAACATAAATG
14323518 ACTAAAATGT
1 ACTAAAATGT
14323528 AACCCGAGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 7 0.21
29 17 0.50
30 1 0.03
31 9 0.26
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.31
Consensus pattern (30 bp):
ACTAAAATGTTAACATGTTAAACATAAATG
Found at i:14325130 original size:21 final size:20
Alignment explanation
Indices: 14325102--14325142 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
14325092 TAAATTAAGA
14325102 GTTTTTTAATTTATTATTTT
1 GTTTTTTAATTTATTATTTT
*
14325122 GTTTATTTATTTTATTATTTT
1 GTTT-TTTAATTTATTATTTT
14325143 CCACATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
GTTTTTTAATTTATTATTTT
Found at i:14325964 original size:15 final size:15
Alignment explanation
Indices: 14325940--14325991 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
14325930 AATAATTCTA
*
14325940 TAAAATTAAAAATAT
1 TAAAAATAAAAATAT
14325955 TAAAAATAAAAATA-
1 TAAAAATAAAAATAT
*
14325969 AAAAAAGTAAAAATAT
1 TAAAAA-TAAAAATAT
14325985 TAAAAAT
1 TAAAAAT
14325992 TCAACAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 5 0.16
15 22 0.69
16 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
TAAAAATAAAAATAT
Found at i:14325965 original size:21 final size:21
Alignment explanation
Indices: 14325939--14325983 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14325929 TAATAATTCT
* * *
14325939 ATAAAATTAAAAATATTAAAA
1 ATAAAAATAAAAAAAGTAAAA
14325960 ATAAAAATAAAAAAAGTAAAA
1 ATAAAAATAAAAAAAGTAAAA
14325981 ATA
1 ATA
14325984 TTAAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAAAATAAAAAAAGTAAAA
Found at i:14326617 original size:25 final size:24
Alignment explanation
Indices: 14326589--14326636 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
14326579 AATCAAATCA
14326589 AATCTAATAAGATATAATTCCCTTC
1 AATCTAATAAGAT-TAATTCCCTTC
** *
14326614 AATCTTCTAAGATTAGTTCCCTT
1 AATCTAATAAGATTAATTCCCTT
14326637 ATTTACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (24 bp):
AATCTAATAAGATTAATTCCCTTC
Found at i:14327533 original size:22 final size:22
Alignment explanation
Indices: 14327503--14327545 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14327493 TTATTAAAAA
14327503 AAATCT-AAATCTAATAAAATTT
1 AAATCTAAAATCTAA-AAAATTT
*
14327525 AAATTTAAAATCTAAAAAATT
1 AAATCTAAAATCTAAAAAATT
14327546 CTGTTCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATCTAAAATCTAAAAAATTT
Found at i:14327870 original size:13 final size:13
Alignment explanation
Indices: 14327852--14327877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14327842 CATCAAACTC
14327852 AGTTCTGGAGCTT
1 AGTTCTGGAGCTT
14327865 AGTTCTGGAGCTT
1 AGTTCTGGAGCTT
14327878 TACTCTCATT
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:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (13 bp):
AGTTCTGGAGCTT
Done.