Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 322 of 325
Found at i:101443436 original size:51 final size:49
Alignment explanation
Indices: 101443360--101443460 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 49
101443350 TTAGAAGTGC
101443360 ATGCATGATTTATTGGTCACCAGATACGGATAGAGTCCGTAGGACTTGCTA
1 ATGCATGATTTATTGGTCACCAGATACGGAT--AGTCCGTAGGACTTGCTA
* *
101443411 ATGCATGATTTATTGTTCACCAGATACGGATAGTCTGTAGGACTTGCTA
1 ATGCATGATTTATTGGTCACCAGATACGGATAGTCCGTAGGACTTGCTA
101443460 A
1 A
101443461 CTGATATTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 18 0.38
51 30 0.62
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (49 bp):
ATGCATGATTTATTGGTCACCAGATACGGATAGTCCGTAGGACTTGCTA
Found at i:101451502 original size:11 final size:12
Alignment explanation
Indices: 101451488--101451521 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
101451478 TTTAACTTTT
101451488 AAAAAATTATTA
1 AAAAAATTATTA
101451500 AAATAAATT-TTA
1 AAA-AAATTATTA
101451512 AAAAAATTAT
1 AAAAAATTAT
101451522 GTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.25
12 10 0.50
13 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:101452139 original size:32 final size:31
Alignment explanation
Indices: 101452071--101452140 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
101452061 TTTTTAAGTA
* *
101452071 TATATATCATTTTTTTAAATTTAGAAGGTAT
1 TATATATCACTTTTTTAAATTTAGAAGGCAT
*
101452102 T-TATATCACTTTTTTATATTGTA-AAGTGCAT
1 TATATATCACTTTTTTAAATT-TAGAAG-GCAT
101452133 TATATATC
1 TATATATC
101452141 TAGATTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 20 0.61
31 7 0.21
32 6 0.18
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (31 bp):
TATATATCACTTTTTTAAATTTAGAAGGCAT
Found at i:101462006 original size:33 final size:33
Alignment explanation
Indices: 101461964--101462029 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
101461954 CCAAATGATA
101461964 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
1 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
101461997 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
1 AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
101462030 TAATGCATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
AGTGTTAAAAGTAACATACTTTAGTCTCATTCT
Found at i:101463016 original size:26 final size:24
Alignment explanation
Indices: 101462982--101463030 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
101462972 TAAATAAAAA
* *
101462982 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
101463008 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
101463031 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:101464992 original size:24 final size:23
Alignment explanation
Indices: 101464942--101464992 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
101464932 ATCTCAATTT
*
101464942 TATTGATGAAAATTTAAATTTAT
1 TATTGATGAAAATTTAAATTTAA
* * *
101464965 TATTAGATTAAAATTTTATTTTAA
1 TATT-GATGAAAATTTAAATTTAA
101464989 TATT
1 TATT
101464993 TTTTATGCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
TATTGATGAAAATTTAAATTTAA
Found at i:101465730 original size:11 final size:12
Alignment explanation
Indices: 101465708--101465732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101465698 TTTCAATATT
101465708 ATTTTTTAAAAA
1 ATTTTTTAAAAA
101465720 ATTTTTTAAAAA
1 ATTTTTTAAAAA
101465732 A
1 A
101465733 GTTGATTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTTTAAAAA
Found at i:101467190 original size:25 final size:24
Alignment explanation
Indices: 101467134--101467192 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
101467124 TAAGTAGAAA
*
101467134 ATAAACAAATAATCATATTTATATT
1 ATAAA-AAATAATCATATTTATACT
* * *
101467159 CTCAAAAATATTCATATTTTATACT
1 ATAAAAAATAATCATA-TTTATACT
101467184 ATAAAAAAT
1 ATAAAAAAT
101467193 TTATTACAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAAAAATAATCATATTTATACT
Found at i:101468002 original size:17 final size:17
Alignment explanation
Indices: 101467970--101468002 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
101467960 TGCACATATT
101467970 AAATAAAATTTCATTTG
1 AAATAAAATTTCATTTG
101467987 AAATGAAAATTT-ATTT
1 AAAT-AAAATTTCATTT
101468003 CAACCAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAAAATTTCATTTG
Found at i:101472613 original size:21 final size:21
Alignment explanation
Indices: 101472589--101472651 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
101472579 CGGAAATCTG
101472589 TAAGGGTTAAAAAGAAGCTCA
1 TAAGGGTTAAAAAGAAGCTCA
* * ** * *
101472610 TAAGAGTTGAATGGAAACGCA
1 TAAGGGTTAAAAAGAAGCTCA
**
101472631 TAAGGGTTAAACTGAAGCTCA
1 TAAGGGTTAAAAAGAAGCTCA
101472652 AAAGAGCTTA
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (21 bp):
TAAGGGTTAAAAAGAAGCTCA
Found at i:101472684 original size:42 final size:42
Alignment explanation
Indices: 101472590--101472685 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
101472580 GGAAATCTGT
** * * *
101472590 AAGGGTTAAAAAGAAGCTCATAAGAGTTGAATGGAAACGCAT
1 AAGGGTTAAACTGAAGCTCAAAAGAGTTGAATGGAAACCCAG
101472632 AAGGGTTAAACTGAAGCTCAAAAGAGCTT-AA-GTGAAACCCAG
1 AAGGGTTAAACTGAAGCTCAAAAGAG-TTGAATG-GAAACCCAG
101472674 AAGGGTTAAACT
1 AAGGGTTAAACT
101472686 AAAACTCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.94
43 2 0.04
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (42 bp):
AAGGGTTAAACTGAAGCTCAAAAGAGTTGAATGGAAACCCAG
Found at i:101474608 original size:31 final size:29
Alignment explanation
Indices: 101474573--101474633 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
101474563 TTAATGATCG
101474573 AATTACATATCCCAAAATAATTTGTTGCCAA
1 AATTACA-A-CCCAAAATAATTTGTTGCCAA
* * *
101474604 AATTACAACTCAAGATAATTTGTTGTCAA
1 AATTACAACCCAAAATAATTTGTTGCCAA
101474633 A
1 A
101474634 TTTTACCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 1 0.04
31 7 0.26
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (29 bp):
AATTACAACCCAAAATAATTTGTTGCCAA
Found at i:101474624 original size:29 final size:31
Alignment explanation
Indices: 101474589--101474647 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
101474579 ATATCCCAAA
101474589 ATAATTTGTTGCCAAA-ATTA-CAACTCAAG
1 ATAATTTGTTGCCAAATATTACCAACTCAAG
* *
101474618 ATAATTTGTTGTCAAATTTTACCAACTCAA
1 ATAATTTGTTGCCAAATATTACCAACTCAA
101474648 ACATGACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 3 0.12
31 8 0.31
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (31 bp):
ATAATTTGTTGCCAAATATTACCAACTCAAG
Found at i:101476679 original size:3 final size:3
Alignment explanation
Indices: 101476671--101476695 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
101476661 ACATATGCAA
101476671 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
101476696 TAGGAAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:101479958 original size:10 final size:10
Alignment explanation
Indices: 101479943--101479967 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
101479933 TCAAGTTTTA
101479943 TTTTTTCTGT
1 TTTTTTCTGT
101479953 TTTTTTCTGT
1 TTTTTTCTGT
101479963 TTTTT
1 TTTTT
101479968 GTAGTGGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTTCTGT
Found at i:101485090 original size:26 final size:26
Alignment explanation
Indices: 101485056--101485213 Score: 93
Period size: 26 Copynumber: 6.2 Consensus size: 26
101485046 AATCTAACCC
101485056 TATATATTTATTATTATTATTATATA
1 TATATATTTATTATTATTATTATATA
* * *
101485082 TATATATTT-TATATTGTTATT-TGCTT
1 TATATATTTAT-TATTATTATTAT-ATA
* * *
101485108 TATTTAACCTTATTTTTA-TATTATATA
1 TATAT-A-TTTATTATTATTATTATATA
*
101485135 T-TATA-TAATTATT-TTATTATATA
1 TATATATTTATTATTATTATTATATA
*
101485158 T-TAT-TTACATTATTATTATTAT-TA
1 TATATATT-TATTATTATTATTATATA
*
101485182 TATTTACTTTATTATTTATATATTAT-TA
1 TATATA-TTTATTA-TTAT-TATTATATA
101485210 TATA
1 TATA
101485214 ATTATTTCAT
Statistics
Matches: 101, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
23 20 0.20
24 9 0.09
25 12 0.12
26 29 0.29
27 13 0.13
28 17 0.17
29 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (26 bp):
TATATATTTATTATTATTATTATATA
Found at i:101485155 original size:14 final size:14
Alignment explanation
Indices: 101485138--101485228 Score: 62
Period size: 14 Copynumber: 6.4 Consensus size: 14
101485128 TTATATATTA
101485138 TATAATTATTTTAT
1 TATAATTATTTTAT
101485152 TATATATTA-TTTA-
1 TATA-ATTATTTTAT
* *
101485165 CATTATTATTATTAT
1 TATAATTATT-TTAT
* *
101485180 TATATTTACTTTAT
1 TATAATTATTTTAT
*
101485194 TATTTATATATTATTA-
1 TA-TAAT-TATT-TTAT
*
101485210 TATAATTATTTCAT
1 TATAATTATTTTAT
101485224 TATAA
1 TATAA
101485229 ATATAAATTC
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
12 4 0.07
13 5 0.09
14 26 0.45
15 15 0.26
16 5 0.09
17 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TATAATTATTTTAT
Found at i:101485156 original size:23 final size:25
Alignment explanation
Indices: 101485126--101485227 Score: 101
Period size: 23 Copynumber: 4.3 Consensus size: 25
101485116 CTTATTTTTA
101485126 TATTATATATTATATA-ATTATT-T
1 TATTATATATTATATACATTATTAT
*
101485149 TATTATATATTATTTACATTATTAT
1 TATTATATATTATATACATTATTAT
* *
101485174 TATTAT-TA-TATTTACTTTATTAT
1 TATTATATATTATATACATTATTAT
101485197 T-TATATATTATTATATA-ATTATT-T
1 TAT-TATA-TATTATATACATTATTAT
*
101485221 CATTATA
1 TATTATA
101485228 AATATAAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
22 1 0.01
23 33 0.49
24 13 0.19
25 15 0.22
26 5 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTATATATTATATACATTATTAT
Found at i:101485160 original size:30 final size:30
Alignment explanation
Indices: 101485124--101485345 Score: 76
Period size: 30 Copynumber: 7.5 Consensus size: 30
101485114 ACCTTATTTT
101485124 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATATAATTATTTTATTA
* *
101485154 TATA-T-TAT-TTACATTATTATTATTATTA
1 TATATTATATATTATATAATTATT-TTATTA
* * *
101485182 TAT-TTACTTTATTAT-TTA-TATATTATTA
1 TATATTA-TATATTATATAATTATTTTATTA
*
101485210 TATAATTATTTCATTATA-AATATAAATTCTT-TTA
1 TAT-ATTATAT-ATTATATAAT-T--ATT-TTATTA
* * * * *
101485244 CATATTTTAAATTTTATACATTATTTTACTA
1 TATATTATATATTATATA-ATTATTTTATTA
** * *
101485275 -A-ACCAATATATTTTAT-ATT-TTTTATAA
1 TATA-TTATATATTATATAATTATTTTATTA
* * *
101485302 T-TATTAT-TCTTATAAATATTTTTTTATTA
1 TATATTATATATTATATA-ATTATTTTATTA
101485331 TATATTATATTATTA
1 TATATTATA-TATTA
101485346 AATATCACAT
Statistics
Matches: 140, Mismatches: 26, Indels: 50
0.65 0.12 0.23
Matches are distributed among these distances:
26 5 0.04
27 19 0.14
28 29 0.21
29 16 0.11
30 36 0.26
31 8 0.06
32 10 0.07
33 6 0.04
34 9 0.06
35 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (30 bp):
TATATTATATATTATATAATTATTTTATTA
Found at i:101485162 original size:3 final size:3
Alignment explanation
Indices: 101485117--101485219 Score: 58
Period size: 3 Copynumber: 34.7 Consensus size: 3
101485107 TTATTTAACC
* *
101485117 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
101485161 TT- TACA TTA TTA TTA TTA TTA -TA TTTA CT- TTA TTA TTTA TATA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA T-TA TTA
*
101485207 TTA -TA TAA TTA TT
1 TTA TTA TTA TTA TT
101485220 TCATTATAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
2 12 0.16
3 50 0.65
4 15 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:101485192 original size:28 final size:26
Alignment explanation
Indices: 101485056--101485226 Score: 114
Period size: 28 Copynumber: 6.6 Consensus size: 26
101485046 AATCTAACCC
101485056 TATA-TATTTATTATTATTATTA-TA
1 TATATTATTTATTATTATTATTATTA
*
101485080 TATA-TATATT-TTA-TATTGTTATT-
1 TATATTAT-TTATTATTATTATTATTA
* *
101485103 TGCT-TTATTTAACCTTATTTTTA-TATTA
1 T-ATATTATTT-A--TTATTATTATTATTA
*
101485131 TATATTA--TATAATTATT-TTATTA
1 TATATTATTTATTATTATTATTATTA
101485154 TATATTATTTACATTATTATTATTATTA
1 TATATTATTT--ATTATTATTATTATTA
101485182 TAT-TTACTTTATTATTTATATATTATTA
1 TATATTA-TTTATTA-TTAT-TATTATTA
101485210 TATAATTATTTCATTAT
1 TAT-ATTATTT-ATTAT
101485227 AAATATAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 41
0.70 0.05 0.25
Matches are distributed among these distances:
23 28 0.24
24 15 0.13
25 4 0.03
26 5 0.04
27 23 0.20
28 30 0.26
29 4 0.03
30 7 0.06
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (26 bp):
TATATTATTTATTATTATTATTATTA
Found at i:101485256 original size:19 final size:19
Alignment explanation
Indices: 101485232--101485271 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
101485222 ATTATAAATA
*
101485232 TAAATTCTTTTACA-TATTT
1 TAAATT-TTATACATTATTT
101485251 TAAATTTTATACATTATTT
1 TAAATTTTATACATTATTT
101485270 TA
1 TA
101485272 CTAAACCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAATTTTATACATTATTT
Found at i:101485348 original size:30 final size:29
Alignment explanation
Indices: 101485292--101485350 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
101485282 ATATTTTATA
*
101485292 TTTTTTATAATTATTATTCTTATAAATAT
1 TTTTTTATAATTATTATTATTATAAATAT
*
101485321 TTTTTTATTATATATTA-TATTATTAAATAT
1 TTTTTTATAAT-TATTATTATTA-TAAATAT
101485351 CACATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTTATAATTATTATTATTATAAATAT
Found at i:101487166 original size:13 final size:13
Alignment explanation
Indices: 101487148--101487172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101487138 AGTATATTAA
101487148 TAAAATATTAAAG
1 TAAAATATTAAAG
101487161 TAAAATATTAAA
1 TAAAATATTAAA
101487173 ATATAAAATT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAAAATATTAAAG
Found at i:101491213 original size:23 final size:23
Alignment explanation
Indices: 101491145--101491215 Score: 87
Period size: 21 Copynumber: 3.3 Consensus size: 23
101491135 CCTGATCAGT
** *
101491145 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
101491167 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
101491187 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
101491210 ATACGA
1 ATACGA
101491216 AACATAAAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.02
21 34 0.81
22 1 0.02
23 6 0.14
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:101491227 original size:23 final size:23
Alignment explanation
Indices: 101491145--101491231 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
101491135 CCTGATCAGT
*
101491145 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
101491167 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
101491187 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
101491210 ATACGAAACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
101491232 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:101493251 original size:14 final size:13
Alignment explanation
Indices: 101493227--101493261 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
101493217 TTTATCTAAA
*
101493227 TATTTTAAAAAAT
1 TATTTTTAAAAAT
101493240 TACTTTTTAAAAAT
1 TA-TTTTTAAAAAT
101493254 TATTTTTA
1 TATTTTTA
101493262 GTGAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTTTTAAAAAT
Found at i:101496671 original size:39 final size:39
Alignment explanation
Indices: 101496612--101496751 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
101496602 ATCGTGATCT
* * *
101496612 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
101496651 GATGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
101496690 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
101496729 GAAGCACGAAGGTTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
101496752 TCATCAGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:101496733 original size:21 final size:21
Alignment explanation
Indices: 101496630--101496735 Score: 93
Period size: 21 Copynumber: 5.3 Consensus size: 21
101496620 AAGTCTAGCT
*
101496630 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
* *
101496651 GATGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
*
101496669 GAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
*
101496690 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
101496708 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
101496729 GAAGCAC
1 GAAGCAC
101496736 GAAGGTTAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
18 15 0.23
19 14 0.21
20 15 0.23
21 22 0.33
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:101501024 original size:4 final size:4
Alignment explanation
Indices: 101501015--101501065 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
101501005 AACAATCTTA
101501015 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
101501063 TAT
1 TAT
101501066 ATTGAACTCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:101505843 original size:5 final size:5
Alignment explanation
Indices: 101505833--101505857 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
101505823 TAAAAAATGT
101505833 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
101505858 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:101505867 original size:25 final size:26
Alignment explanation
Indices: 101505839--101505903 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
101505829 ATGTATAAAA
* **
101505839 TAAAATAAAATAAAATA-AATATTTT
1 TAAAATAAAATAAAAAATAATATGGT
*
101505864 TAAAA-AAATTAAAAAATAATATGGT
1 TAAAATAAAATAAAAAATAATATGGT
101505889 TAAACATAAAATAAA
1 TAAA-ATAAAATAAA
101505904 CTTAGATTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 9 0.28
25 15 0.47
26 1 0.03
27 7 0.22
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (26 bp):
TAAAATAAAATAAAAAATAATATGGT
Found at i:101509936 original size:25 final size:25
Alignment explanation
Indices: 101509908--101509958 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
101509898 CTAGGTAAGG
101509908 TTCCTTCTCCTTCTTCCGTTCTTCA
1 TTCCTTCTCCTTCTTCCGTTCTTCA
* *
101509933 TTCCTTTTCTTTCTTCCGTTCTTCA
1 TTCCTTCTCCTTCTTCCGTTCTTCA
101509958 T
1 T
101509959 ATTCTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.04, C:0.35, G:0.04, T:0.57
Consensus pattern (25 bp):
TTCCTTCTCCTTCTTCCGTTCTTCA
Found at i:101512063 original size:12 final size:11
Alignment explanation
Indices: 101512029--101512064 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
101512019 GCCTGCAATG
*
101512029 CAACAGGAAAC
1 CAACAGCAAAC
101512040 CAACAGCAAAC
1 CAACAGCAAAC
101512051 CAACAGACAAAC
1 CAACAG-CAAAC
101512063 CA
1 CA
101512065 GCATCCAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.56, C:0.33, G:0.11, T:0.00
Consensus pattern (11 bp):
CAACAGCAAAC
Found at i:101512267 original size:22 final size:22
Alignment explanation
Indices: 101512242--101512283 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
101512232 AGCTTTAGTC
*
101512242 ATGTATTAGTGGGAGCAGTTAT
1 ATGTATTAGTAGGAGCAGTTAT
101512264 ATGTATTAGTAGGAGCAGTT
1 ATGTATTAGTAGGAGCAGTT
101512284 TTACATTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.36
Consensus pattern (22 bp):
ATGTATTAGTAGGAGCAGTTAT
Found at i:101512599 original size:18 final size:20
Alignment explanation
Indices: 101512576--101512618 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
101512566 TTCAAACACC
101512576 AGAAAAGTAAAT-ATTTT-T
1 AGAAAAGTAAATCATTTTCT
101512594 AGAAAAGTAAATCATTTTCT
1 AGAAAAGTAAATCATTTTCT
101512614 AGAAA
1 AGAAA
101512619 TTATTTTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.52
19 5 0.22
20 6 0.26
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.33
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCT
Found at i:101520974 original size:16 final size:16
Alignment explanation
Indices: 101520955--101521005 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
101520945 GTTGGGTTAG
101520955 TTTCAAGTTCGAGTCA
1 TTTCAAGTTCGAGTCA
* * *
101520971 TTTCGAGTTTGAATCA
1 TTTCAAGTTCGAGTCA
*
101520987 TTTCATGTTCGAGTCA
1 TTTCAAGTTCGAGTCA
101521003 TTT
1 TTT
101521006 AGGTTTGGTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.45
Consensus pattern (16 bp):
TTTCAAGTTCGAGTCA
Found at i:101521212 original size:19 final size:18
Alignment explanation
Indices: 101521166--101521222 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
101521156 TTAATTTTAA
101521166 AATAAAATTATATTAAAGTG
1 AATAAAATTAT-TTAAA-TG
101521186 AA-ACAAATTATTTAAATG
1 AATA-AAATTATTTAAATG
101521204 AGATAAAATTATTATAAAT
1 A-ATAAAATTATT-TAAAT
101521223 TTAATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.09
19 15 0.45
20 15 0.45
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (18 bp):
AATAAAATTATTTAAATG
Found at i:101525042 original size:80 final size:80
Alignment explanation
Indices: 101524907--101525146 Score: 408
Period size: 80 Copynumber: 3.0 Consensus size: 80
101524897 AAGAGAAATG
101524907 GACTCCTGGAGAGGTAAAGGACTTCAATTATATGCTAATATATCTATTTATATTTTAAGATTGAG
1 GACTCCTGGAGAGGTAAAGGACTTCAA-TATATGCTAATATATCTATTTATATTTTAAGATTGAG
101524972 TTAGAATCACTAGATC
65 TTAGAATCACTAGATC
101524988 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATATATCTATTTATATTTTAAGATTGAGT
1 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATATATCTATTTATATTTTAAGATTGAGT
101525053 TAGAATCACTAGATC
66 TAGAATCACTAGATC
* * * **
101525068 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATACATATATATATATACTAAGATTGAGT
1 GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATATATCTATTTATATTTTAAGATTGAGT
* *
101525133 TAGGATTACTAGAT
66 TAGAATCACTAGAT
101525147 TTCAAGTAGC
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 125 0.82
81 27 0.18
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (80 bp):
GACTCCTGGAGAGGTAAAGGACTTCAATATATGCTAATATATCTATTTATATTTTAAGATTGAGT
TAGAATCACTAGATC
Found at i:101532591 original size:33 final size:33
Alignment explanation
Indices: 101532549--101532614 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
101532539 CTCCCTCATA
*
101532549 TTTTTTTGGTATGCTCTCATAAATTTTGGCATG
1 TTTTTTTGGTATGCTCTCATAAACTTTGGCATG
*
101532582 TTTTTTTGGTATGTTCTCATAAACTTTGGCATG
1 TTTTTTTGGTATGCTCTCATAAACTTTGGCATG
101532615 CTTTCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (33 bp):
TTTTTTTGGTATGCTCTCATAAACTTTGGCATG
Found at i:101536174 original size:31 final size:32
Alignment explanation
Indices: 101536136--101536215 Score: 153
Period size: 31 Copynumber: 2.5 Consensus size: 32
101536126 TATAAAATCA
101536136 AATGGAGTAATTTCTTGCACTTTTAT-CCACT
1 AATGGAGTAATTTCTTGCACTTTTATCCCACT
101536167 AATGGAGTAATTTCTTGCACTTTTATCCCACT
1 AATGGAGTAATTTCTTGCACTTTTATCCCACT
101536199 AATGGAGTAATTTCTTG
1 AATGGAGTAATTTCTTG
101536216 AAAAAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 26 0.54
32 22 0.46
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (32 bp):
AATGGAGTAATTTCTTGCACTTTTATCCCACT
Found at i:101536573 original size:19 final size:20
Alignment explanation
Indices: 101536549--101536588 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
101536539 GACTTCAGTC
101536549 TGCAGAACAAAG-AATCATA
1 TGCAGAACAAAGCAATCATA
*
101536568 TGCAGACCAAAGCAATCATA
1 TGCAGAACAAAGCAATCATA
101536588 T
1 T
101536589 TCTACCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (20 bp):
TGCAGAACAAAGCAATCATA
Found at i:101540147 original size:38 final size:38
Alignment explanation
Indices: 101540096--101540170 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
101540086 ACAAGGCATT
101540096 ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAAA
1 ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAAA
*
101540134 ACCTAAACCAATCTCAAGTCACCGAGACTCAATTCAA
1 ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAA
101540171 TCTTAAAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.43, C:0.32, G:0.07, T:0.19
Consensus pattern (38 bp):
ACCTAAACCAATCTCAAGTCACCGAAACTCAATTCAAA
Found at i:101541533 original size:47 final size:46
Alignment explanation
Indices: 101541459--101541722 Score: 207
Period size: 47 Copynumber: 5.7 Consensus size: 46
101541449 TGGGTAAGGT
*
101541459 GCCGATGCTATGTCCCAGACATAGTCTTACACTGGCACACATCTCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCACACATCTCAA
* *
101541506 GTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCAC-A-CATCTC-AA
* ** *
101541554 GCCGATG-CATGTCCCAGACATGTCTTACACTGACTTACGA-CTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCACAC-ATCTC-AA
* * * ** * *
101541600 GCTGAT-ACATGTCCCAGACATGTCTTACACTAGTTCTCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCACACATCTCAA
* * * * ***
101541645 TGCCGATGCCATGTCCTAGACATTGTCTTACACTGGCTCTCATAATGTG
1 -GCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCACACAT-CTCAA
101541694 GCCGATG-CATGTCCCAGACATGTCTTACA
1 GCCGATGCCATGTCCCAGACATGTCTTACA
101541723 TTAGCTCACA
Statistics
Matches: 176, Mismatches: 29, Indels: 25
0.77 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 65 0.37
47 76 0.43
48 31 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCACACATCTCAA
Found at i:101541720 original size:140 final size:140
Alignment explanation
Indices: 101541468--101541722 Score: 370
Period size: 140 Copynumber: 1.8 Consensus size: 140
101541458 TGCCGATGCT
* *
101541468 ATGTCCCAGACATAGTCTTACACTGGCACACATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
1 ATGTCCCAGACATAGTCTTACACTAGCACACATCTCAAGCCGATGCCATGTCCCAGACATGGTCT
*
101541533 TACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGACTCG
66 TACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGACTCG
101541598 AGGCTGATAC
131 AGGCTGATAC
** * * * *
101541608 ATGTCCCAGACAT-GTCTTACACTAGTTCTCGTCTCAATGCCGATGCCATGTCCTAGACATTGTC
1 ATGTCCCAGACATAGTCTTACACTAGCACACATCTCAA-GCCGATGCCATGTCCCAGACATGGTC
* * *
101541672 TTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACA
65 TTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACA
101541723 TTAGCTCACA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
139 19 0.19
140 81 0.80
141 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (140 bp):
ATGTCCCAGACATAGTCTTACACTAGCACACATCTCAAGCCGATGCCATGTCCCAGACATGGTCT
TACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGACTCG
AGGCTGATAC
Found at i:101543705 original size:29 final size:24
Alignment explanation
Indices: 101543644--101543691 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
101543634 AAAAGTTGTG
101543644 CTAAAACTTAACTTTGTTCCCAAT
1 CTAAAACTTAACTTTGTTCCCAAT
101543668 CTAAAACTTAACTTTGTTCCCAAT
1 CTAAAACTTAACTTTGTTCCCAAT
101543692 GCCTATTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (24 bp):
CTAAAACTTAACTTTGTTCCCAAT
Found at i:101548492 original size:47 final size:47
Alignment explanation
Indices: 101548423--101548684 Score: 227
Period size: 46 Copynumber: 5.6 Consensus size: 47
101548413 CCGATACTAA
*
101548423 GTCCCAGACATAGTCTTACACTGGCTCA-TATCTC-AAGTCGATGCCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCACTATCTCGAAGCCGATG-CAT
* * * * *
101548470 GTCCCAGACATGGTCTTACACTGACT-ATTATCCCGTAGCCGATGTAT
1 GTCCCAGACAT-GTCTTACACTGGCTCACTATCTCGAAGCCGATGCAT
* * * *
101548517 GTCCCAGACATGTCTTACACTGACTTACGA-CTCGAGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTGGCTCACTATCTCGAAGCCGATGCAT
* * *
101548563 GTCCCAGACATGTCTTACACTAGCTC-TTATCTC-AATACCGATGCCAT
1 GTCCCAGACATGTCTTACACTGGCTCACTATCTCGAA-GCCGATG-CAT
* * * *
101548610 GTCCCAGATATGGTCTTACACTGGCTCTCATAATGT-G--GCCGATTCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCAC-T-ATCTCGAAGCCGATGCAT
*
101548657 GTCCCAGACATGTCTTACACTAGCTCAC
1 GTCCCAGACATGTCTTACACTGGCTCAC
101548685 ACTCAAATGA
Statistics
Matches: 176, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 74 0.42
47 70 0.40
48 26 0.15
50 1 0.01
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GTCCCAGACATGTCTTACACTGGCTCACTATCTCGAAGCCGATGCAT
Found at i:101548541 original size:46 final size:47
Alignment explanation
Indices: 101548423--101548677 Score: 195
Period size: 47 Copynumber: 5.5 Consensus size: 47
101548413 CCGATACTAA
* * * * *
101548423 GTCCCAGACATAGTCTTACACTGGCTCA-TATCTC-AAGTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGACT-ATTATCCCGTAGCCGATG-CAT
*
101548470 GTCCCAGACATGGTCTTACACTGACTATTATCCCGTAGCCGATGTAT
1 GTCCCAGACATGGTCTTACACTGACTATTATCCCGTAGCCGATGCAT
** *
101548517 GTCCCAGACAT-GTCTTACACTGACTTACGA-CTCG-AGGCCGATGCAT
1 GTCCCAGACATGGTCTTACACTGAC-TATTATCCCGTA-GCCGATGCAT
* **
101548563 GTCCCAGACAT-GTCTTACACT-AGCTCTTATCTCAATA-CCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGA-CTATTATC-CCGTAGCCGATG-CAT
* * * * *** * *
101548610 GTCCCAGATATGGTCTTACACTGGCTCTCATAATGTGGCCGATTCAT
1 GTCCCAGACATGGTCTTACACTGACTATTATCCCGTAGCCGATGCAT
101548657 GTCCCAGACAT-GTCTTACACT
1 GTCCCAGACATGGTCTTACACT
101548678 AGCTCACACT
Statistics
Matches: 170, Mismatches: 26, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
45 4 0.02
46 65 0.38
47 72 0.42
48 29 0.17
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GTCCCAGACATGGTCTTACACTGACTATTATCCCGTAGCCGATGCAT
Found at i:101548660 original size:94 final size:92
Alignment explanation
Indices: 101548461--101548682 Score: 254
Period size: 94 Copynumber: 2.4 Consensus size: 92
101548451 TATCTCAAGT
* ** *
101548461 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATTATCCCGTAGCCGATGTATGTCCCAGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTTATCCAATAGCCGATGCATGTCCCAGA
*
101548525 CATGTCTTACACTGACTTACGACTCGAGGC
63 CATGTCTTACACTGACTTACGAATCGAGGC
*
101548555 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAATA-CCGATGCCATGTCCCAGAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATC-CAATAGCCGATG-CATGTCCCAGAC
* * *
101548619 ATGGTCTTACACTGGCTCT-CATAAT-GTGGC
64 AT-GTCTTACACTGACT-TAC-GAATCGAGGC
*
101548649 CGATTCATGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
101548683 ACACTCAAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
92 23 0.21
93 30 0.27
94 56 0.50
95 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCCAATAGCCGATGCATGTCCCAGACAT
GTCTTACACTGACTTACGAATCGAGGC
Found at i:101548675 original size:140 final size:140
Alignment explanation
Indices: 101548423--101548677 Score: 372
Period size: 140 Copynumber: 1.8 Consensus size: 140
101548413 CCGATACTAA
*
101548423 GTCCCAGACATAGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTA
1 GTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTA
* **
101548488 CACTGACTATTATCCCGTAGCCGATGTATGTCCCAGACATGTCTTACACTGACTTACGACTCGAG
66 CACTGACTATCATAACGTAGCCGATGTATGTCCCAGACATGTCTTACACTGACTTACGACTCGAG
101548553 GCCGATGCAT
131 GCCGATGCAT
* *
101548563 GTCCCAGACAT-GTCTTACACTAGCTCTTATCTCAA-TACCGATGCCATGTCCCAGATATGGTCT
1 GTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGT--CGATGCCATGTCCCAGACATGGTCT
* * * *
101548626 TACACTGGCTCTCATAATGTGGCCGAT-TCATGTCCCAGACATGTCTTACACT
64 TACACTGACTATCATAACGTAGCCGATGT-ATGTCCCAGACATGTCTTACACT
101548678 AGCTCACACT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
138 1 0.01
139 23 0.23
140 78 0.76
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
GTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTA
CACTGACTATCATAACGTAGCCGATGTATGTCCCAGACATGTCTTACACTGACTTACGACTCGAG
GCCGATGCAT
Found at i:101549078 original size:30 final size:30
Alignment explanation
Indices: 101549021--101549078 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
101549011 AAATTCACAT
* *
101549021 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
*
101549051 CTTTGGCAAAATGACCATTTTATCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
101549079 TGCTCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:101564919 original size:772 final size:772
Alignment explanation
Indices: 101563437--101564968 Score: 2609
Period size: 772 Copynumber: 2.0 Consensus size: 772
101563427 CACTATCGAT
*
101563437 ATATAAGTATATTGTGTCACATACACTTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
1 ATATAAGTATATTGTGTCACATACACCTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
* *
101563502 CATAATTGACGTATACATCATTTTTTGATACGTCAGTGGCACCGACGTGTAATATGGTAGGGATA
66 CATAATTGACGTATACATCATTGTTTGATACGTCAGTGGCACCGACGTGTAATATGGTAAGGATA
*
101563567 GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAGAAACAGAGAAATATGGTGCTTGTGTA
131 GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAAAAACAGAGAAATATGGTGCTTGTGTA
* *
101563632 AAAAAAATAAGCTTAATGAAAGTACTAAAATAAGCCAAGTCATACTAACCGGAGGGTGGTGGTGC
196 AAAAAAATAAGCTTAATGAAAGCACTAAAATAAGCCAAGTCATACTAACCAGAGGGTGGTGGTGC
* *
101563697 GACCATCGGTGCCTTTTCTTACGTTGGTGTTGATGATGGACTCACATTGATAGTTACTCTAGACC
261 GACCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACATTGATAGTTACTCTAGACC
* * *
101563762 TTGGATTCATAAGTTCTCATTGTGGTCTCCTTGTATGATGTTGCCTACCCCTCGTCTCCTCCGAT
326 TTGGATTCATAAGTGCTCATTGTGGTCTCCTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGAT
*
101563827 TGTAGATATGGCTTACCATGGTGTCTAAACCATTTCATGTACTCCGGATGGCAGGCTAATTCCCG
391 TGTAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCCG
101563892 AGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGTC
456 AGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGTC
* *
101563957 CATGGAATGTAACCCAATTTTCATTAGTTCTCCCTCGCTAGTCTATATTATGCAGATCTTTGATG
521 CATGGAATGCAACCCAATTTTCATTAGTTCTCCCTCGCTAGTCGATATTATGCAGATCTTTGATG
* * * *
101564022 TCTTGGGGTGCCGATAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAGATTCGTA
586 TATTGGGGTGCCAACAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAAATTCGTA
* **
101564087 CATCTCCACCGTAGCGTACACTACCAATGACATTTTTATATGCCAGATATTGGGATTCACTAAGA
651 CATCTCCACCGTAGCGTACACTACCAAAGACACATTTATATGCCAGATATTGGGATTCACTAAGA
*
101564152 ATTCAGACAGGATGCATGCTTGAATTTTCAAATCGGAGTATGACACATTTATGTTCC
716 ATTCAGACAGGATGCATGCTTGAATTCTCAAATCGGAGTATGACACATTTATGTTCC
* *
101564209 ATATAAGTATATTGTGTCCCATACACCTATGGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
1 ATATAAGTATATTGTGTCACATACACCTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
* * * *
101564274 CATGATTGATGTATACATCATTGTTTGATACGTCAGTGGCATCGATGTGTAATATGGTAAGGATA
66 CATAATTGACGTATACATCATTGTTTGATACGTCAGTGGCACCGACGTGTAATATGGTAAGGATA
*
101564339 GATGTGGTGGTCCAAAAATAATACCTAGATACAGTGTAAAAACAGAGAAATATGGTGCTTGTGTA
131 GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAAAAACAGAGAAATATGGTGCTTGTGTA
* * * *
101564404 AAAAAAATGAGCTTAATGAAAGCATTAAAATAAGTCAAGTCATACTGACCAGAGGGTGGTGGTGC
196 AAAAAAATAAGCTTAATGAAAGCACTAAAATAAGCCAAGTCATACTAACCAGAGGGTGGTGGTGC
* *
101564469 -AGCCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACCTTGATAGTTGCTCTAGAC
261 GA-CCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACATTGATAGTTACTCTAGAC
* *
101564533 CTTGGATTCGTAGGTGCTCATTGTGGTCTCCTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGA
325 CTTGGATTCATAAGTGCTCATTGTGGTCTCCTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGA
101564598 TTGTAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCC
390 TTGTAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCC
* * * *
101564663 GAGCGATAATGGATTCGCAATTAGGTATAAAGTCGAACCTATGGTTCTATATGTTGATATATTGT
455 GAGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGT
* **
101564728 GCATGGAATGCAACCCAATTTTTTTTAGTTCTCCCTCGCTAGTCGATATTATGCAGATCTTTGAT
520 CCATGGAATGCAACCCAATTTTCATTAGTTCTCCCTCGCTAGTCGATATTATGCAGATCTTTGAT
*
101564793 GTATTGGGGTGCCAACAGAATCGTTTGCCTAAACTTGAACTGCCACGTAACTCTATCAAA-TCTG
585 GTATTGGGGTGCCAACAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAAATTC-G
*
101564857 TACATCTCCACCGTAGCGTACACTACCAAAGACACATTTATGTGCCAGATATTGGGATTCACTAA
649 TACATCTCCACCGTAGCGTACACTACCAAAGACACATTTATATGCCAGATATTGGGATTCACTAA
*
101564922 GAATTCAGACATGATGCATGCTTGAATTCTCAAATCGGAGTATGACA
714 GAATTCAGACAGGATGCATGCTTGAATTCTCAAATCGGAGTATGACA
101564969 TCCATTCAAA
Statistics
Matches: 711, Mismatches: 47, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
771 3 0.00
772 708 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (772 bp):
ATATAAGTATATTGTGTCACATACACCTATAGCAGAAAATACGAAATTCTTATTGGTGCCGCAAA
CATAATTGACGTATACATCATTGTTTGATACGTCAGTGGCACCGACGTGTAATATGGTAAGGATA
GATGTGGTGGTCCAAAAATAATACCTAGATACACTGTAAAAACAGAGAAATATGGTGCTTGTGTA
AAAAAAATAAGCTTAATGAAAGCACTAAAATAAGCCAAGTCATACTAACCAGAGGGTGGTGGTGC
GACCATCGGCGCCTCTTCTTACGTTGGTGTTGATGATGGACTCACATTGATAGTTACTCTAGACC
TTGGATTCATAAGTGCTCATTGTGGTCTCCTTGTATGACGTTGCCTACCCCTCGCCTCCTCCGAT
TGTAGATATGGCTTACCATGGTGTCTAAACCATATCATGTACTCCGGATGGCAGGCTAATTCCCG
AGCGATAATAGATCCACAATTAGGTATAAAGTCGAACCTATGGTTCCATATGTTGATATATTGTC
CATGGAATGCAACCCAATTTTCATTAGTTCTCCCTCGCTAGTCGATATTATGCAGATCTTTGATG
TATTGGGGTGCCAACAGAATCGTTTGCCTAAACCTGAACTGCCACGTAACTCTATCAAATTCGTA
CATCTCCACCGTAGCGTACACTACCAAAGACACATTTATATGCCAGATATTGGGATTCACTAAGA
ATTCAGACAGGATGCATGCTTGAATTCTCAAATCGGAGTATGACACATTTATGTTCC
Found at i:101571895 original size:39 final size:39
Alignment explanation
Indices: 101571852--101571989 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 39
101571842 ATTCACTTTA
* * * *
101571852 AAGCAAACATCACATTACACATATACTCACATAACATTT
1 AAGCAAATATCACAATACTCATATAATCACATAACATTT
** *
101571891 AAGCATTTATCACAATACTCATATAATTACATAAC-TTT
1 AAGCAAATATCACAATACTCATATAATCACATAACATTT
* * * *
101571929 CAAGCACATATCGCAATACTTATATAATCACATAACATTC
1 -AAGCAAATATCACAATACTCATATAATCACATAACATTT
* *
101571969 AAGCATATATCGCAATACTCA
1 AAGCAAATATCACAATACTCA
101571990 AAAACATGTT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 3 0.04
39 77 0.94
40 2 0.02
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCAAATATCACAATACTCATATAATCACATAACATTT
Found at i:101573944 original size:12 final size:12
Alignment explanation
Indices: 101573927--101573965 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
101573917 AATATTTTTG
101573927 TTTTTTATTTAA
1 TTTTTTATTTAA
*
101573939 TTTTTTCTTCTAA
1 TTTTTTATT-TAA
101573952 TTTTTTATTTAA
1 TTTTTTATTTAA
101573964 TT
1 TT
101573966 ACTTCTAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTTATTTAA
Found at i:101579716 original size:46 final size:44
Alignment explanation
Indices: 101579656--101579770 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
101579646 ACAGGACAGA
* *
101579656 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
101579702 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
101579746 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
101579771 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:101579751 original size:44 final size:45
Alignment explanation
Indices: 101579656--101579789 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
101579646 ACAGGACAGA
* *
101579656 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
101579702 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
101579746 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
101579790 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:101582491 original size:21 final size:22
Alignment explanation
Indices: 101582462--101582537 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 22
101582452 TGTTTGGCCC
* *
101582462 ATTTCTTTT-TTTCTTTTTATG
1 ATTTATTTTATTTATTTTTATG
*
101582483 ATTTATTTTATTTATTTTTATT
1 ATTTATTTTATTTATTTTTATG
* * *
101582505 ATATTCATTATATTTAGTTTTATT
1 AT-TT-ATTTTATTTATTTTTATG
101582529 ATTTTATTT
1 A-TTTATTT
101582538 ATTATTATCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 8 0.18
22 12 0.27
23 5 0.11
24 19 0.42
25 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (22 bp):
ATTTATTTTATTTATTTTTATG
Found at i:101582495 original size:9 final size:9
Alignment explanation
Indices: 101582483--101582545 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
101582473 TCTTTTTATG
101582483 ATTTATTTT
1 ATTTATTTT
101582492 ATTTA--TT
1 ATTTATTTT
*
101582499 -TTTATTAT
1 ATTTATTTT
* *
101582507 ATTCATTAT
1 ATTTATTTT
101582516 ATTTAGTTTT
1 ATTTA-TTTT
101582526 A-TTATTTT
1 ATTTATTTT
101582534 ATTTATTATT
1 ATTTATT-TT
101582544 AT
1 AT
101582546 CCTTACTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
6 4 0.09
7 2 0.05
8 6 0.14
9 24 0.55
10 8 0.18
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
ATTTATTTT
Found at i:101582539 original size:24 final size:24
Alignment explanation
Indices: 101582476--101582539 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
101582466 CTTTTTTTCT
* *
101582476 TTTTATGA-TTTATTT-TATTTAT
1 TTTTATTATTTTATTTATATTTAG
*
101582498 TTTTATTATATTCA-TTATATTTAG
1 TTTTATTAT-TTTATTTATATTTAG
101582522 TTTTATTATTTTATTTAT
1 TTTTATTATTTTATTTAT
101582540 TATTATCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 7 0.21
23 5 0.15
24 22 0.65
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (24 bp):
TTTTATTATTTTATTTATATTTAG
Found at i:101589576 original size:45 final size:45
Alignment explanation
Indices: 101589527--101589616 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
101589517 GAAGAATTAA
101589527 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
1 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
* *
101589572 AATATTAATTTATTTATAGCCTTAATTCAATGTACAACCATAATC
1 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
101589617 TAAATAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.40
Consensus pattern (45 bp):
AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
Found at i:101590186 original size:6 final size:6
Alignment explanation
Indices: 101590175--101590216 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
101590165 ATATATGATG
* * *
101590175 AGATTT AGATTT AGATTT AGATTT AAATTT AAATTT AAATTT
1 AGATTT AGATTT AGATTT AGATTT AGATTT AGATTT AGATTT
101590217 TTATTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (6 bp):
AGATTT
Found at i:101596014 original size:24 final size:24
Alignment explanation
Indices: 101595986--101596036 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
101595976 CTTCTGTGTT
** *
101595986 AAAATCAAGGACTTTTATGAGTAA
1 AAAATCAACCACTTTTATAAGTAA
*
101596010 AAAATCAACCACTTTTGTAAGTAA
1 AAAATCAACCACTTTTATAAGTAA
101596034 AAA
1 AAA
101596037 TTATAGGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (24 bp):
AAAATCAACCACTTTTATAAGTAA
Found at i:101598305 original size:22 final size:21
Alignment explanation
Indices: 101598275--101598339 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
101598265 TACAAATTAA
101598275 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
101598297 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
101598318 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
101598337 ATC
1 ATC
101598340 GAAGATTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 18 0.45
21 10 0.25
22 12 0.30
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:101598327 original size:19 final size:19
Alignment explanation
Indices: 101598292--101598389 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
101598282 AGATTACAAG
101598292 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
101598313 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
101598332 ATCATATCGAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
101598349 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
101598368 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
101598387 ATC
1 ATC
101598390 CTTAAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.21
19 47 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:101598355 original size:36 final size:37
Alignment explanation
Indices: 101598303--101598389 Score: 131
Period size: 36 Copynumber: 2.3 Consensus size: 37
101598293 TCATATCTTC
101598303 AAGATTGCATATCATATCTAAGATTGCATATCATATCG
1 AAGATTG-ATATCATATCTAAGATTGCATATCATATCG
* *
101598341 AAGATTG-TATCATATCTAATATTGCATATCATATCT
1 AAGATTGATATCATATCTAAGATTGCATATCATATCG
101598377 AAGATTGCATATC
1 AAGATTG-ATATC
101598390 CTTAAAGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 34 0.76
38 11 0.24
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAGATTGCATATCATATCG
Found at i:101610601 original size:19 final size:20
Alignment explanation
Indices: 101610569--101610607 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
101610559 TACCTATTTA
101610569 GCCAATTAAAAAAAAAGGGG
1 GCCAATTAAAAAAAAAGGGG
101610589 GCCAATT-AAAAAAAAGGGG
1 GCCAATTAAAAAAAAAGGGG
101610608 CATATATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.54, C:0.10, G:0.26, T:0.10
Consensus pattern (20 bp):
GCCAATTAAAAAAAAAGGGG
Found at i:101620151 original size:17 final size:17
Alignment explanation
Indices: 101620126--101620159 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101620116 GAAAAGTGGG
101620126 AAATATTGGTTGATTTT
1 AAATATTGGTTGATTTT
* *
101620143 AAATTTTGGTTTATTTT
1 AAATATTGGTTGATTTT
101620160 CCTTTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (17 bp):
AAATATTGGTTGATTTT
Found at i:101620873 original size:15 final size:15
Alignment explanation
Indices: 101620850--101620879 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101620840 AAAATTATAA
101620850 CGAAAATAATAAAAT
1 CGAAAATAATAAAAT
*
101620865 CGAAGATAATAAAAT
1 CGAAAATAATAAAAT
101620880 TCAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (15 bp):
CGAAAATAATAAAAT
Found at i:101620930 original size:14 final size:14
Alignment explanation
Indices: 101620905--101620959 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
101620895 AAAAAAATAA
101620905 TTGAAGATTGAAATT
1 TTGAAGATTGAAA-T
*
101620920 TTGAA-ATTGAAAA
1 TTGAAGATTGAAAT
* *
101620933 TTGAACATTTAAAT
1 TTGAAGATTGAAAT
101620947 TTGAAGATTGAAA
1 TTGAAGATTGAAA
101620960 ATATAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 5 0.15
14 24 0.71
15 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (14 bp):
TTGAAGATTGAAAT
Found at i:101620936 original size:28 final size:27
Alignment explanation
Indices: 101620903--101621005 Score: 91
Period size: 28 Copynumber: 3.7 Consensus size: 27
101620893 TTAAAAAAAT
101620903 AATTGAAGATTGAAATTTTGAAATTGAA
1 AATTGAAGATTGAAA-TTTGAAATTGAA
* *
101620931 AATTGAACATTTAAATTTGAAGATTGAA
1 AATTGAAGATTGAAATTTGAA-ATTGAA
* * *
101620959 AATAT-AAAATTGGAAATTGGAGATTGAA
1 AAT-TGAAGATT-GAAATTTGAAATTGAA
* *
101620987 GATTGAGGATTGAGAATTT
1 AATTGAAGATTGA-AATTT
101621006 AGGAAGGAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
27 9 0.15
28 43 0.72
29 8 0.13
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.34
Consensus pattern (27 bp):
AATTGAAGATTGAAATTTGAAATTGAA
Found at i:101620966 original size:21 final size:20
Alignment explanation
Indices: 101620903--101621006 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 20
101620893 TTAAAAAAAT
*
101620903 AATTGAAGATTGAAATTTTGA
1 AATTGAAGATTGAAAATTT-A
* *
101620924 AATTGAAAATTGAACATTTA
1 AATTGAAGATTGAAAATTTA
*
101620944 AATTTGAAGATTGAAAATATAA
1 AA-TTGAAGATTGAAAAT-TTA
* * *
101620966 AATTGGAA-ATTGGAGATTGA
1 AATT-GAAGATTGAAAATTTA
* *
101620986 AGATTGAGGATTGAGAATTTA
1 A-ATTGAAGATTGAAAATTTA
101621007 GGAAGGAAGA
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
20 8 0.12
21 49 0.77
22 7 0.11
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.34
Consensus pattern (20 bp):
AATTGAAGATTGAAAATTTA
Found at i:101626626 original size:6 final size:6
Alignment explanation
Indices: 101626615--101626644 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
101626605 TCCATTTCTC
*
101626615 CATTTT CATTTT TATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT
101626645 GGAGAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (6 bp):
CATTTT
Found at i:101626633 original size:69 final size:70
Alignment explanation
Indices: 101626560--101626689 Score: 174
Period size: 69 Copynumber: 1.9 Consensus size: 70
101626550 TTCAAGTCAT
* *
101626560 TTTTCTTTTTCTTTTTCGAGAAAACCA-AATTCACTTCCAAATGATTC-CATTTCTCCATTTTCA
1 TTTTCATTTTCATTTTCGAGAAAACCATAA-TCACTTCCAAATGATTCACATTTCTCCATTTTCA
101626623 TTTTTA
65 TTTTTA
* * * * *
101626629 TTTTCATTTTCATTTTGGAGAAAACTATAATCATTTCCAAATGTTTCATATTTCTCCATTT
1 TTTTCATTTTCATTTTCGAGAAAACCATAATCACTTCCAAATGATTCACATTTCTCCATTT
101626690 CACAATTTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
69 38 0.73
70 14 0.27
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.49
Consensus pattern (70 bp):
TTTTCATTTTCATTTTCGAGAAAACCATAATCACTTCCAAATGATTCACATTTCTCCATTTTCAT
TTTTA
Found at i:101631226 original size:47 final size:47
Alignment explanation
Indices: 101631172--101631365 Score: 264
Period size: 47 Copynumber: 4.1 Consensus size: 47
101631162 TTAGGATTTT
** *
101631172 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
101631219 ATGTGATGAATGTGAACATGCATGTAT-ATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGA-GATAAGGCCGAATGGCCA
* * *
101631266 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * * *
101631313 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
101631360 ATGTGA
1 ATGTGA
101631366 AATATGTATG
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 130 0.99
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:101631272 original size:22 final size:22
Alignment explanation
Indices: 101631247--101631319 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
101631237 TGCATGTATA
101631247 TGATAAGGCCGAATGGCCAATG
1 TGATAAGGCCGAATGGCCAATG
* *
101631269 TGATGAATGTG-AGCAT-G-CATATG
1 TGAT-AA-G-GCCGAATGGCCA-ATG
101631292 TGTGATAAGGCCGAATGGCCAATG
1 --TGATAAGGCCGAATGGCCAATG
101631316 TGAT
1 TGAT
101631320 GAATATGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
22 11 0.29
23 10 0.26
24 10 0.26
25 7 0.18
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (22 bp):
TGATAAGGCCGAATGGCCAATG
Found at i:101631274 original size:25 final size:25
Alignment explanation
Indices: 101631246--101631321 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 25
101631236 ATGCATGTAT
101631246 ATGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
* * *
101631271 ATGA-ATGTG-AGCAT-G-CATATGTG
1 ATGATAAG-GCCGAATGGCCA-ATGTG
101631294 -TGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
101631318 ATGA
1 ATGA
101631322 ATATGAACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.16
23 11 0.29
24 11 0.29
25 10 0.26
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (25 bp):
ATGATAAGGCCGAATGGCCAATGTG
Found at i:101631401 original size:48 final size:48
Alignment explanation
Indices: 101631323--101631469 Score: 233
Period size: 48 Copynumber: 3.0 Consensus size: 48
101631313 ATGTGATGAA
*
101631323 TATGA-ACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGACATGC--ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
*
101631372 TATGAGACATGCATATGTGGTAAAACCGAATGGCTAGTGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
* *
101631420 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
101631468 TA
1 TA
101631470 GGCGATGTGC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
48 81 0.88
49 5 0.05
50 6 0.07
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (48 bp):
TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
Found at i:101631724 original size:37 final size:37
Alignment explanation
Indices: 101631616--101631724 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
101631606 GGAAATATAT
*
101631616 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
101631653 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
101631690 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
101631725 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:101648738 original size:43 final size:43
Alignment explanation
Indices: 101648690--101648774 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
101648680 ATTAGACTGT
101648690 ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAAA
1 ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAAA
*
101648733 ATAAAATTTATAACTAAATTTATCATTCTACCAGTTAAAAAA
1 ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAA
101648775 GTGTCGCACC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (43 bp):
ATAAAATTTATAACTAAATTTATCATTCTACCAATTAAAAAAA
Found at i:101658463 original size:25 final size:25
Alignment explanation
Indices: 101658435--101658482 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
101658425 GTCATTTAAT
*
101658435 TTTAATTTTAAATAGTTT-TAAAAAA
1 TTTAACTTTAAATA-TTTATAAAAAA
*
101658460 TTTAGCTTTAAATATTTATAAAA
1 TTTAACTTTAAATATTTATAAAA
101658483 TTTGCCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTAACTTTAAATATTTATAAAAAA
Found at i:101660045 original size:14 final size:14
Alignment explanation
Indices: 101660026--101660052 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101660016 TCATTTGACT
101660026 GAATTAACCGAATA
1 GAATTAACCGAATA
101660040 GAATTAACCGAAT
1 GAATTAACCGAAT
101660053 TAAAAATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (14 bp):
GAATTAACCGAATA
Found at i:101676304 original size:32 final size:32
Alignment explanation
Indices: 101676267--101676331 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
101676257 AATGCTTACC
101676267 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
101676299 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
101676331 A
1 A
101676332 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:101685637 original size:67 final size:67
Alignment explanation
Indices: 101685559--101685686 Score: 213
Period size: 67 Copynumber: 1.9 Consensus size: 67
101685549 GCTTTTGGGC
* *
101685559 CAATTTTTGGCTTGAGAGAAGTA-TTTTTTTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTTATC
1 CAATTTTTGGCTTGAGAG-AGTACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTTATC
101685623 GGT
65 GGT
*
101685626 CAATTTTTGGCTTGAGAGAGTACTCTTTCTCTCAAAAAGCATCTTGTTTAGGAATGCTTTT
1 CAATTTTTGGCTTGAGAGAGTACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTT
101685687 GTCCCAAAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 4 0.07
67 53 0.93
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (67 bp):
CAATTTTTGGCTTGAGAGAGTACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTTATCG
GT
Found at i:101685889 original size:28 final size:28
Alignment explanation
Indices: 101685869--101685925 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
101685859 TTGTGTACTT
* *
101685869 AGACTAAGCAATAGATAATTGCATGCAG
1 AGACTAAGCAATAGATAATTGTATACAG
* *
101685897 AGAGTAAGCAATAGATAATTGTATGCAG
1 AGACTAAGCAATAGATAATTGTATACAG
101685925 A
1 A
101685926 CTCTTTACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (28 bp):
AGACTAAGCAATAGATAATTGTATACAG
Found at i:101688675 original size:22 final size:21
Alignment explanation
Indices: 101688633--101688675 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
101688623 AAGTTGTAAT
**
101688633 TAAAATTTTATACCTATAAAA
1 TAAAATTTTATAAATATAAAA
101688654 TAAAATTTTATATAATATAAAA
1 TAAAATTTTATA-AATATAAAA
101688676 GGAAAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATTTTATAAATATAAAA
Found at i:101689765 original size:24 final size:26
Alignment explanation
Indices: 101689732--101689783 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
101689722 TGGGGTGTAT
101689732 CTTCTCCTC-T-TATGGTAATTGAAG
1 CTTCTCCTCTTATATGGTAATTGAAG
*
101689756 CTTCTTCTCTTATATGGTAATTGAAG
1 CTTCTCCTCTTATATGGTAATTGAAG
101689782 CT
1 CT
101689784 AAATTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.32
25 1 0.04
26 16 0.64
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (26 bp):
CTTCTCCTCTTATATGGTAATTGAAG
Found at i:101690722 original size:48 final size:50
Alignment explanation
Indices: 101690586--101690776 Score: 219
Period size: 50 Copynumber: 3.9 Consensus size: 50
101690576 TATAAAATAT
* * * *
101690586 ATTCTTATGAATTTTTATAATTTGGATACTT-ACCATGTACGAGGATTCTT-
1 ATTCTTATGAACTTTTATAATTTGGTTA-TTCACCATGTAC-AAGAATCTTC
* * * **
101690636 ATTTTTATGACCTTTTATAATTTGGTTATTTATTATGTACAAGAATCTTC
1 ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGAATCTTC
* *
101690686 ATTCTTATGAA-TTTT-TAATTTGGTTATTCACCATGTACAAGGATTTTC
1 ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGAATCTTC
* *
101690734 ATTCTTATAAACTTTTATAATTTGGTTATTCACCGTGTACAAG
1 ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAG
101690777 GATCCTAGCC
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
48 38 0.32
49 17 0.14
50 65 0.54
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (50 bp):
ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGAATCTTC
Found at i:101690773 original size:98 final size:100
Alignment explanation
Indices: 101690586--101690776 Score: 255
Period size: 98 Copynumber: 1.9 Consensus size: 100
101690576 TATAAAATAT
* * * *
101690586 ATTCTTATGAATTTTTATAATTTGGATACTTACCATGTACGAGGATTCTTATTTTTATGACCTTT
1 ATTCTTATGAATTTTTATAATTTGGATACTTACCATGTACAAGGATTCTTATTCTTATAAACTTT
* **
101690651 TATAATTTGGTTATTTATTATGTACAAGAATCTTC
66 TATAATTTGGTTATTCACCATGTACAAGAATCTTC
*
101690686 ATTCTTATGAA-TTTT-TAATTTGGTTA-TTCACCATGTACAAGGATT-TTCATTCTTATAAACT
1 ATTCTTATGAATTTTTATAATTTGGATACTT-ACCATGTACAAGGATTCTT-ATTCTTATAAACT
*
101690747 TTTATAATTTGGTTATTCACCGTGTACAAG
64 TTTATAATTTGGTTATTCACCATGTACAAG
101690777 GATCCTAGCC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
97 4 0.05
98 61 0.76
99 4 0.05
100 11 0.14
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (100 bp):
ATTCTTATGAATTTTTATAATTTGGATACTTACCATGTACAAGGATTCTTATTCTTATAAACTTT
TATAATTTGGTTATTCACCATGTACAAGAATCTTC
Found at i:101700153 original size:22 final size:25
Alignment explanation
Indices: 101700110--101700171 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
101700100 GCACAAATTG
101700110 AAAAAATAAAATAAAATCAACCA-TT-A
1 AAAAAAT-AAA-AAAA-CAACCATTTGA
*
101700136 AAAAAATAAAAAAA-AACCATTTGT
1 AAAAAATAAAAAAACAACCATTTGA
101700160 AAAAAATAAAAA
1 AAAAAATAAAAA
101700172 TTTGAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.15
23 2 0.06
24 16 0.48
25 3 0.09
26 7 0.21
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAAAATAAAAAAACAACCATTTGA
Found at i:101700164 original size:17 final size:17
Alignment explanation
Indices: 101700142--101700189 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
101700132 ATTAAAAAAA
101700142 TAAAAAAAAACCATTTG
1 TAAAAAAAAACCATTTG
*
101700159 TAAAAAATAAA-AATTTG
1 TAAAAAA-AAACCATTTG
*
101700176 AAAAAATAAAACCA
1 TAAAAA-AAAACCA
101700190 CCACTTGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (17 bp):
TAAAAAAAAACCATTTG
Found at i:101700179 original size:16 final size:17
Alignment explanation
Indices: 101700154--101700186 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
101700144 AAAAAAAACC
101700154 ATTTGTAAAAAATAAAA
1 ATTTGTAAAAAATAAAA
101700171 ATTTG-AAAAAATAAAA
1 ATTTGTAAAAAATAAAA
101700187 CCACCACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (17 bp):
ATTTGTAAAAAATAAAA
Found at i:101701122 original size:31 final size:32
Alignment explanation
Indices: 101701069--101701148 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 32
101701059 CCCAAGAAGT
* * *
101701069 TTTAAGTACCAACTTA-AGAAAAAGTATCAAG
1 TTTAAGTACTAAATTAGAGAAAAAATATCAAG
*
101701100 TTTAAGTACTAAATTAGA-AAAAAATGTCAAG
1 TTTAAGTACTAAATTAGAGAAAAAATATCAAG
*
101701131 TTTACGTA-TCAAATTAGA
1 TTTAAGTACT-AAATTAGA
101701149 CTAGAAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.02
31 40 0.95
32 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (32 bp):
TTTAAGTACTAAATTAGAGAAAAAATATCAAG
Found at i:101701182 original size:91 final size:90
Alignment explanation
Indices: 101701015--101701204 Score: 229
Period size: 91 Copynumber: 2.1 Consensus size: 90
101701005 AAAAAATTAG
* * * *
101701015 GTACCAAATTAAAAAAAAGGTCAAGTTCAGGTATCAAATTAGACCCCAAGAAGTTTTAAGTACCA
1 GTACCAAATTAAAAAAAAGGTCAAGTTCACGTATCAAATTAGACCACAAAAAGTCTTAAGTACCA
*
101701080 ACTTAAGAAAAAGTATCAAGTTTAA
66 AATTAAGAAAAAGTATCAAGTTTAA
* * * * *
101701105 GTACTAAATTAGAAAAAAATGTCAAGTTTACGTATCAAATTAGACTAGAAAAAG-CTTAAGTACC
1 GTACCAAATTA-AAAAAAAGGTCAAGTTCACGTATCAAATTAGACCACAAAAAGTCTTAAGTACC
** * *
101701169 AAATTAAGAAAAAAAAGTTAAATTTAA
65 AAATTAAGAAAAAGTA-TCAAGTTTAA
101701196 GTACCAAAT
1 GTACCAAAT
101701205 ATTATATTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
90 32 0.39
91 51 0.61
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.25
Consensus pattern (90 bp):
GTACCAAATTAAAAAAAAGGTCAAGTTCACGTATCAAATTAGACCACAAAAAGTCTTAAGTACCA
AATTAAGAAAAAGTATCAAGTTTAA
Found at i:101702072 original size:17 final size:17
Alignment explanation
Indices: 101702050--101702098 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
101702040 TTAAATTTAC
*
101702050 TTATTTTTATTTAGTTT
1 TTATTTTTATTTAATTT
101702067 TTATTTTTATTTAATTT
1 TTATTTTTATTTAATTT
*
101702084 CTATTATTTATTTAA
1 TTATT-TTTATTTAA
101702099 GATTTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTTTATTTAATTT
Found at i:101705021 original size:42 final size:42
Alignment explanation
Indices: 101704962--101705053 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
101704952 CAAGTACGTA
101704962 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
1 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
101705004 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
1 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
101705046 CGAGGCGA
1 CGAGGCGA
101705054 AGCGAGACCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.30, C:0.24, G:0.37, T:0.09
Consensus pattern (42 bp):
CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
Found at i:101707904 original size:29 final size:30
Alignment explanation
Indices: 101707860--101707932 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
101707850 GGTTTATATG
* *
101707860 TTTATAATTTTAAAA-GATTAAATTA-AATT
1 TTTATCATTTTAAAAGGATTAAAGTATAA-T
*
101707889 TTTATCATTTTGAAAGGATTAAAGTATAAT
1 TTTATCATTTTAAAAGGATTAAAGTATAAT
101707919 TTTATCATTATTAA
1 TTTATCATT-TTAA
101707933 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.35
30 19 0.51
31 5 0.14
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTATCATTTTAAAAGGATTAAAGTATAAT
Found at i:101709008 original size:20 final size:21
Alignment explanation
Indices: 101708969--101709009 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
101708959 ATATTTTTTA
* *
101708969 AAAAATACAGTTATGCTATTT
1 AAAAATAAAGTAATGCTATTT
101708990 AAAAATAAAGTAATG-TATTT
1 AAAAATAAAGTAATGCTATTT
101709010 TTTTAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAAATAAAGTAATGCTATTT
Found at i:101711170 original size:44 final size:45
Alignment explanation
Indices: 101711084--101711175 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 45
101711074 ATCTCTTTCA
101711084 ACACTTTAAACTCGGTTGGTAGACTCACAGCCGCCACTTCTGGAG
1 ACACTTTAAACTCGGTTGGTAGACTCACAGCCGCCACTTCTGGAG
101711129 ACACTTTAAACTCGGTTGGTAG-CTCACAGCCGCCACTTCTGGAG
1 ACACTTTAAACTCGGTTGGTAGACTCACAGCCGCCACTTCTGGAG
101711173 ACA
1 ACA
101711176 AAGGGTTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 25 0.53
45 22 0.47
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
ACACTTTAAACTCGGTTGGTAGACTCACAGCCGCCACTTCTGGAG
Found at i:101711913 original size:20 final size:20
Alignment explanation
Indices: 101711885--101711997 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 20
101711875 ATTACAAAAT
*
101711885 AATTTAAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
* *
101711905 AATTCAAAATGACTTTT-AA
1 AATTCAAAATAATTTTTAAA
* *
101711924 AATTCATAAT-ATTTATAAA
1 AATTCAAAATAATTTTTAAA
*
101711943 AATTTCAAAATTCATATTTTAAA
1 AA-TTCAAAA-TAAT-TTTTAAA
*
101711966 AATT-ATAAA-AAATTTTAAA
1 AATTCA-AAATAATTTTTAAA
101711985 AGATTCTAAAATA
1 A-ATTC-AAAATA
101711998 TATATAAAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.05
19 23 0.32
20 24 0.33
21 5 0.07
22 9 0.12
23 8 0.11
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:101711944 original size:19 final size:18
Alignment explanation
Indices: 101711893--101711946 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
101711883 ATAATTTAAA
101711893 ATAAT-TTTTAAAAATTC
1 ATAATATTTTAAAAATTC
*
101711910 AAAATGACTTTT-AAAATTC
1 ATAAT-A-TTTTAAAAATTC
101711929 ATAATATTTATAAAAATT
1 ATAATATTT-TAAAAATT
101711947 TCAAAATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 7 0.23
18 2 0.07
19 17 0.57
20 4 0.13
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATATTTTAAAAATTC
Found at i:101711982 original size:19 final size:20
Alignment explanation
Indices: 101711958--101711995 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
101711948 CAAAATTCAT
101711958 ATTTTAAAA-ATTATAAAAA
1 ATTTTAAAAGATTATAAAAA
*
101711977 ATTTTAAAAGATTCTAAAA
1 ATTTTAAAAGATTATAAAA
101711996 TATATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
ATTTTAAAAGATTATAAAAA
Found at i:101724884 original size:26 final size:25
Alignment explanation
Indices: 101724818--101724885 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
101724808 TTTTAAAATA
*
101724818 AAAATTCAAAAA-AAAACAATTTTT
1 AAAATTCAAAAATAAAACAATTATT
101724842 AAAATAT-AAAAAGTAAATA-AATTATT
1 AAAAT-TCAAAAA-TAAA-ACAATTATT
101724868 AAAATTCAAAATATAAAA
1 AAAATTCAAAA-ATAAAA
101724886 TATAAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
24 10 0.27
25 3 0.08
26 22 0.59
27 2 0.05
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (25 bp):
AAAATTCAAAAATAAAACAATTATT
Found at i:101724962 original size:23 final size:22
Alignment explanation
Indices: 101724918--101724962 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
101724908 GAAAAATGTT
* *
101724918 TTTTTAATTTCTATTTATTTAA
1 TTTTTAATTTCTATCTAATTAA
*
101724940 TTTTTAATTTTTTATCTAATTAA
1 TTTTTAA-TTTCTATCTAATTAA
101724963 ATATTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTAATTTCTATCTAATTAA
Found at i:101725666 original size:12 final size:12
Alignment explanation
Indices: 101725651--101725675 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101725641 TTTTAAACTT
101725651 TTTTTTAATTAA
1 TTTTTTAATTAA
101725663 TTTTTTAATTAA
1 TTTTTTAATTAA
101725675 T
1 T
101725676 AAATATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTAATTAA
Found at i:101725804 original size:13 final size:14
Alignment explanation
Indices: 101725786--101725818 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
101725776 TGTATTTTTC
101725786 TTTATATAT-AATA
1 TTTATATATAAATA
101725799 TTTATATATCAAATA
1 TTTATATAT-AAATA
101725814 TTTAT
1 TTTAT
101725819 TTCCTCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:101725891 original size:15 final size:15
Alignment explanation
Indices: 101725867--101725905 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
101725857 GGATTGAAAA
*
101725867 ATAAATATTATATAT
1 ATAAAAATTATATAT
*
101725882 ATAAAAATTATATTT
1 ATAAAAATTATATAT
101725897 ACTAAAAAT
1 A-TAAAAAT
101725906 AATGATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAAAATTATATAT
Found at i:101727704 original size:6 final size:6
Alignment explanation
Indices: 101727693--101727722 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
101727683 CTGCTAGCAT
101727693 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG
1 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG
101727723 CACACAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:101728269 original size:9 final size:10
Alignment explanation
Indices: 101728249--101728274 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
101728239 TCAATTTAAA
101728249 TTTTAAATTT
1 TTTTAAATTT
101728259 TTTTAAATTT
1 TTTTAAATTT
101728269 TTTTAA
1 TTTTAA
101728275 TCGAATCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:101740984 original size:17 final size:17
Alignment explanation
Indices: 101740957--101741001 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
101740947 TTTTATATAT
101740957 TTTTAAT-AATTTTAAA
1 TTTTAATAAATTTTAAA
**
101740973 TTTTAATAAATTTTTCA
1 TTTTAATAAATTTTAAA
101740990 TTTT-ATAAATTT
1 TTTTAATAAATTT
101741002 ATTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAATAAATTTTAAA
Found at i:101748263 original size:19 final size:19
Alignment explanation
Indices: 101748235--101748278 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
101748225 CAATTATTAT
101748235 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
* *
101748254 ATTTATATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
101748273 ATTTAA
1 ATTTAA
101748279 TAAATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:101749306 original size:28 final size:28
Alignment explanation
Indices: 101749254--101749312 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
101749244 TACTGAAATT
101749254 TTAAAAATTATAAGATAAAAATAATTATA
1 TTAAAAA-TATAAGATAAAAATAATTATA
*
101749283 TTAAAAA-ATAATATAAAATATAATTATA
1 TTAAAAATATAAGATAAAA-ATAATTATA
101749311 TT
1 TT
101749313 TGTAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 10 0.36
28 11 0.39
29 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (28 bp):
TTAAAAATATAAGATAAAAATAATTATA
Found at i:101749329 original size:28 final size:26
Alignment explanation
Indices: 101749268--101749331 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
101749258 AAATTATAAG
*
101749268 ATAAAAATAATTATATTAAAAAATAAT
1 ATAAATATAATTATATTAAAAAAT-AT
101749295 ATAAAATATAATTATATTTGTAAAAAAT-T
1 AT-AAATATAATTATA--T-TAAAAAATAT
101749324 ATAAATAT
1 ATAAATAT
101749332 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 2 0.06
28 18 0.56
29 3 0.09
30 1 0.03
31 8 0.25
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
ATAAATATAATTATATTAAAAAATAT
Found at i:101749743 original size:23 final size:23
Alignment explanation
Indices: 101749695--101749743 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
101749685 AAAATCAAAT
* * *
101749695 TTCAAGTTAATTGAATTGAGTTA
1 TTCAAGTCAATTGAATTAAGTAA
101749718 TTCAAGTCAACTTGAA-TAAGTAA
1 TTCAAGTCAA-TTGAATTAAGTAA
101749741 TTC
1 TTC
101749744 GAGTTCAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (23 bp):
TTCAAGTCAATTGAATTAAGTAA
Found at i:101749941 original size:19 final size:20
Alignment explanation
Indices: 101749917--101749955 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
101749907 AATTTTATAT
101749917 ATTTTTTAAAAAATT-TAAA
1 ATTTTTTAAAAAATTCTAAA
101749936 ATTTTTTAAAAAATTCTAAA
1 ATTTTTTAAAAAATTCTAAA
101749956 GAATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTTTAAAAAATTCTAAA
Found at i:101751428 original size:14 final size:14
Alignment explanation
Indices: 101751409--101751435 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101751399 ATTTATAAAA
101751409 ATTCTAAAAAAATT
1 ATTCTAAAAAAATT
101751423 ATTCTAAAAAAAT
1 ATTCTAAAAAAAT
101751436 ATAAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTCTAAAAAAATT
Found at i:101760128 original size:21 final size:21
Alignment explanation
Indices: 101760102--101760152 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
101760092 AGCGGTGGCG
*
101760102 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
101760123 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
101760144 GTGAGATTA
1 GTGAGATTA
101760153 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:101764072 original size:34 final size:34
Alignment explanation
Indices: 101764029--101764096 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
101764019 GTATACATAA
101764029 TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
1 TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
*
101764063 TGTCTGTATTACAAATCAACAAGGTGAAATTAAC
1 TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
101764097 GAAAAACAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (34 bp):
TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
Found at i:101770182 original size:15 final size:15
Alignment explanation
Indices: 101770162--101770190 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
101770152 AAAATTTTAT
101770162 AAAATTATAAAAATA
1 AAAATTATAAAAATA
101770177 AAAATTATAAAAAT
1 AAAATTATAAAAAT
101770191 TTTCCGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTATAAAAATA
Found at i:101774478 original size:68 final size:67
Alignment explanation
Indices: 101774406--101774555 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
101774396 CTTCATGTGT
* * * *
101774406 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
101774468 ATGTAG
62 ATGTAG
** * *
101774474 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
101774539 AG
66 AG
101774541 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
101774556 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:101774511 original size:64 final size:64
Alignment explanation
Indices: 101774430--101774613 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
101774420 AGACATTATG
* *
101774430 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
101774494 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
101774559 AA
63 AA
* * * *
101774561 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
101774614 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.