Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 91 of 105
Found at i:16172063 original size:15 final size:16
Alignment explanation
Indices: 16172039--16172076 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16172029 AGAAATGTTA
*
16172039 GAGAAAGCTAGA-AAG
1 GAGAAAGCTAAAGAAG
*
16172054 GAGAAGGCTAAAGAAG
1 GAGAAAGCTAAAGAAG
16172070 GAGAAAG
1 GAGAAAG
16172077 ATGAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.53, C:0.05, G:0.37, T:0.05
Consensus pattern (16 bp):
GAGAAAGCTAAAGAAG
Found at i:16176971 original size:8 final size:8
Alignment explanation
Indices: 16176951--16177000 Score: 66
Period size: 8 Copynumber: 6.0 Consensus size: 8
16176941 ATACTATGCT
16176951 TGAAAAAA
1 TGAAAAAA
16176959 T-AAAAAA
1 TGAAAAAA
16176966 TGAAAAAAA
1 TG-AAAAAA
16176975 TGAAAAATGA
1 TGAAAAA--A
16176985 TGAAAAAA
1 TGAAAAAA
16176993 TGAAAAAA
1 TGAAAAAA
16177001 AAAAAAGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.18
8 15 0.39
9 8 0.21
10 8 0.21
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (8 bp):
TGAAAAAA
Found at i:16176994 original size:27 final size:27
Alignment explanation
Indices: 16176960--16177018 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
16176950 TTGAAAAAAT
16176960 AAAAAATGAAAAAAATGAAAAA-TG-ATG
1 AAAAAATGAAAAAAA--AAAAAGTGAATG
16176987 AAAAAATGAAAAAAAAAAAAGTGAATG
1 AAAAAATGAAAAAAAAAAAAGTGAATG
16177014 AAAAA
1 AAAAA
16177019 TAAGGACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.17
26 2 0.07
27 23 0.77
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.12
Consensus pattern (27 bp):
AAAAAATGAAAAAAAAAAAAGTGAATG
Found at i:16177002 original size:10 final size:9
Alignment explanation
Indices: 16176960--16177001 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
16176950 TTGAAAAAAT
16176960 AAAAAATGA
1 AAAAAATGA
16176969 AAAAAATGA
1 AAAAAATGA
*
16176978 AAAATGATG-
1 AAAA-AATGA
16176987 AAAAAATGA
1 AAAAAATGA
16176996 AAAAAA
1 AAAAAA
16177002 AAAAAGTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 3 0.10
9 23 0.79
10 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:16178086 original size:43 final size:42
Alignment explanation
Indices: 16178033--16178292 Score: 299
Period size: 43 Copynumber: 6.1 Consensus size: 42
16178023 ATGATTGTCA
16178033 AGGAGCAATTTATTTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
16178076 AGGAGTAATTTACTTTTTT-AAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
16178118 AGGAGCAATTTACTTTTTCAAAAGTCGTGGTGTCTCTATTTAG
1 AGGAGCAATTTATTTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * * **
16178161 AGGAACAATTTA-CTTTCCAAAGTCGCAGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
16178202 AGGAGCAATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
16178244 AGGAGCCATTTATGTTTCTCAAAGTCATTGAGCCTCTGCTTAG
1 AGGAGCAATTTAT-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
16178287 AGGAGC
1 AGGAGC
16178293 TTTGGTCAAA
Statistics
Matches: 187, Mismatches: 25, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
41 35 0.19
42 72 0.39
43 74 0.40
44 6 0.03
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:16178110 original size:42 final size:42
Alignment explanation
Indices: 16178033--16178292 Score: 267
Period size: 42 Copynumber: 6.1 Consensus size: 42
16178023 ATGATTGTCA
16178033 AGGAGCAATTTA-TTTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTT--AAAGTCGTGGTGCCTCTGTTTAG
*
16178076 AGGAGTAATTTACTTTTTTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTTAAAGTCGTGGTGCCTCTGTTTAG
* * *
16178118 AGGAGCAATTTACTTTTTCAAAAGTCGTGGTGTCTCTATTTAG
1 AGGAGCAATTTACTTTTT-TAAAGTCGTGGTGCCTCTGTTTAG
* ** **
16178161 AGGAACAATTTAC-TTTCCAAAGTCGCAGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTTAAAGTCGTGGTGCCTCTGTTTAG
* * * *
16178202 AGGAGCAATTTA-TTTTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTTT-AAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
16178244 AGGAGCCATTTA-TGTTTCTCAAAGTCATTGAGCCTCTGCTTAG
1 AGGAGCAATTTACT-TTT-TTAAAGTCGTGGTGCCTCTGTTTAG
16178287 AGGAGC
1 AGGAGC
16178293 TTTGGTCAAA
Statistics
Matches: 186, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
41 33 0.18
42 73 0.39
43 73 0.39
44 7 0.04
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTTTAAAGTCGTGGTGCCTCTGTTTAG
Found at i:16178176 original size:85 final size:84
Alignment explanation
Indices: 16178033--16178223 Score: 292
Period size: 85 Copynumber: 2.3 Consensus size: 84
16178023 ATGATTGTCA
* ** **
16178033 AGGAGCAATTTATTTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTTTAAA
1 AGGAGCAATTTATTTTTTCAAAAGTCGTGGTGCCTCTATTTAGAGGAACAATTTAC-TTTCCAAA
**
16178098 GTCGTGGTGCCTCTGTTTAG
65 GTCGCAGTGCCTCTGTTTAG
* *
16178118 AGGAGCAATTTACTTTTTCAAAAGTCGTGGTGTCTCTATTTAGAGGAACAATTTACTTTCCAAAG
1 AGGAGCAATTTATTTTTTCAAAAGTCGTGGTGCCTCTATTTAGAGGAACAATTTACTTTCCAAAG
16178183 TCGCAGTGCCTCTGTTTAG
66 TCGCAGTGCCTCTGTTTAG
16178202 AGGAGCAATTTATTTTTTCAAA
1 AGGAGCAATTTATTTTTTCAAA
16178224 GTTGTTGAGC
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 45 0.47
85 51 0.53
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (84 bp):
AGGAGCAATTTATTTTTTCAAAAGTCGTGGTGCCTCTATTTAGAGGAACAATTTACTTTCCAAAG
TCGCAGTGCCTCTGTTTAG
Found at i:16178287 original size:126 final size:126
Alignment explanation
Indices: 16178048--16178290 Score: 303
Period size: 126 Copynumber: 1.9 Consensus size: 126
16178038 CAATTTATTT
** * *
16178048 TTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTTTAAAGTCGTGGTGCCTCTG
1 TTTCAAAAGTCGCAGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTTAAAGTCGTGGAGCCTCTG
* * * * *
16178113 TTTAGAGGAGCAATTTACTTTTTCAAAAGTCGTGGTGTCTCTATTTAGAGGAACAATTTAC
66 ATTAGAGGAGCAATTTACTTTTTCAAAAGTCATGGAGCCTCTACTTAGAGGAACAATTTAC
* * *
16178174 TTTCCAAAGTCGCAGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTTCAAAGTTGTTGAGCCTCT
1 TTTCAAAAGTCGCAGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTT-AAAGTCGTGGAGCCTCT
* * *
16178238 GATTAGAGGAGCCATTTA-TGTTTCTC-AAAGTCATTGAGCCTCTGCTTAGAGGA
65 GATTAGAGGAGCAATTTACT-TTT-TCAAAAGTCATGGAGCCTCTACTTAGAGGA
16178291 GCTTTGGTCA
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
125 7 0.07
126 90 0.91
127 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (126 bp):
TTTCAAAAGTCGCAGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTTAAAGTCGTGGAGCCTCTG
ATTAGAGGAGCAATTTACTTTTTCAAAAGTCATGGAGCCTCTACTTAGAGGAACAATTTAC
Found at i:16178323 original size:18 final size:18
Alignment explanation
Indices: 16178300--16178339 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
16178290 AGCTTTGGTC
16178300 AAAAAAATA-AAAAAACA
1 AAAAAAATATAAAAAACA
16178317 AAAAAAATATAAAAAACA
1 AAAAAAATATAAAAAACA
16178335 AAAAA
1 AAAAA
16178340 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (18 bp):
AAAAAAATATAAAAAACA
Found at i:16184385 original size:52 final size:52
Alignment explanation
Indices: 16184318--16184448 Score: 145
Period size: 52 Copynumber: 2.5 Consensus size: 52
16184308 CCTATTTATA
* *
16184318 TCCTCTTAGAATTCTTCTCCTGTAAGTAAAACTTGCCTATTAAGAATCCCTT
1 TCCTCTTAGAATTCTTCTCCTGCAAGTAAAACTTACCTATTAAGAATCCCTT
* * * * * **
16184370 TCCTTTTAGAATTCTTCTCTTGCAAGTCAAATTTACTTATTAAGAATCTTTT
1 TCCTCTTAGAATTCTTCTCCTGCAAGTAAAACTTACCTATTAAGAATCCCTT
* * **
16184422 TTCTCTTGGAATTCTTCTTTTGCAAGT
1 TCCTCTTAGAATTCTTCTCCTGCAAGT
16184449 CTTCTTGTCC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (52 bp):
TCCTCTTAGAATTCTTCTCCTGCAAGTAAAACTTACCTATTAAGAATCCCTT
Found at i:16184490 original size:11 final size:11
Alignment explanation
Indices: 16184474--16184505 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16184464 GCAATATTTG
16184474 ACAAATCTCTA
1 ACAAATCTCTA
*
16184485 ACAAATCTCAA
1 ACAAATCTCTA
16184496 ACAAATCTCT
1 ACAAATCTCT
16184506 TATGAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:16185542 original size:12 final size:14
Alignment explanation
Indices: 16185505--16185551 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 14
16185495 AAAAATTATT
16185505 TTTAATTA-AT-TA
1 TTTAATTATATATA
16185517 TTTAATTATATATA
1 TTTAATTATATATA
16185531 TTTAATT-T-TATA
1 TTTAATTATATATA
16185543 TTTATATTA
1 TTTA-ATTA
16185552 AAAATGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 16 0.52
13 6 0.19
14 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAATTATATATA
Found at i:16190105 original size:20 final size:22
Alignment explanation
Indices: 16190077--16190116 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
16190067 GAACCAACTG
*
16190077 TTGAGAGAGA-GAA-AAAAAAA
1 TTGAAAGAGATGAAGAAAAAAA
16190097 TTGAAAGAGATGAAGAAAAA
1 TTGAAAGAGATGAAGAAAAA
16190117 GAAGACACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 3 0.18
22 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (22 bp):
TTGAAAGAGATGAAGAAAAAAA
Found at i:16190274 original size:2 final size:2
Alignment explanation
Indices: 16190255--16190313 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
16190245 AGCAATGCAA
* *
16190255 TC TC TT TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16190297 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
16190314 GTTTCGTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:16194149 original size:12 final size:12
Alignment explanation
Indices: 16194134--16194160 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16194124 TAATAATTAG
16194134 ATCATAATTATA
1 ATCATAATTATA
16194146 ATCATAATTATA
1 ATCATAATTATA
16194158 ATC
1 ATC
16194161 TTAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (12 bp):
ATCATAATTATA
Found at i:16194562 original size:23 final size:23
Alignment explanation
Indices: 16194527--16194570 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
16194517 CTCGATTCGA
*
16194527 TTTAAAATTAATA-AAATATTATT
1 TTTAAAATAAATATAAA-ATTATT
*
16194550 TTTAATATAAATATAAAATTA
1 TTTAAAATAAATATAAAATTA
16194571 AATATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAAATAAATATAAAATTATT
Found at i:16197076 original size:9 final size:10
Alignment explanation
Indices: 16197064--16197117 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
16197054 TTTCTTCTTT
16197064 TGTATT-TTA
1 TGTATTATTA
16197073 TGTATT-TTA
1 TGTATTATTA
16197082 T-TATTTATTA
1 TGTA-TTATTA
16197092 T-TATTATTA
1 TGTATTATTA
16197101 TGTATTAATATA
1 TGTATT-AT-TA
16197113 TGTAT
1 TGTAT
16197118 ATCTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 10 0.25
11 2 0.05
12 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (10 bp):
TGTATTATTA
Found at i:16197088 original size:16 final size:16
Alignment explanation
Indices: 16197069--16197199 Score: 73
Period size: 16 Copynumber: 8.1 Consensus size: 16
16197059 TCTTTTGTAT
16197069 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
16197085 TTTATTATTATTATTA
1 TTTATTATTATTATTA
*
16197101 TGTATTAATATATGTA-TA
1 TTTATT-AT-TAT-TATTA
*
16197119 TCT-TTATTTATTTATTTA
1 TTTATTA-TTA-TTA-TTA
* *
16197137 TTTATT-TTGTTAATA
1 TTTATTATTATTATTA
16197152 TTTA-TATATATT-TTA
1 TTTATTAT-TATTATTA
16197167 TTTA-TA-TAGTTATATA
1 TTTATTATTA-TTAT-TA
16197183 TTTATTATTA-TATTA
1 TTTATTATTATTATTA
16197198 TT
1 TT
16197200 ATTTTTTTTG
Statistics
Matches: 92, Mismatches: 7, Indels: 33
0.70 0.05 0.25
Matches are distributed among these distances:
13 2 0.02
14 3 0.03
15 24 0.26
16 36 0.39
17 10 0.11
18 13 0.14
19 4 0.04
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:16197130 original size:4 final size:4
Alignment explanation
Indices: 16197121--16197188 Score: 52
Period size: 4 Copynumber: 17.5 Consensus size: 4
16197111 TATGTATATC
* * *
16197121 TTTA TTTA TTTA TTTA TTTA TTT- TGTTA -ATA TTTA TATA TAT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
* * *
16197167 TTTA TATA GTTA TATA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TT
16197189 ATTATATTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
3 5 0.10
4 45 0.90
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:16197830 original size:21 final size:20
Alignment explanation
Indices: 16197780--16197830 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
16197770 GACGAACCTC
16197780 CGACGAA-ATTTTTCAGATT
1 CGACGAACATTTTTCAGATT
*
16197799 CTGAC-ACCATTTTTCAGAATT
1 C-GACGAACATTTTTCAG-ATT
16197820 CGACGAACATT
1 CGACGAACATT
16197831 CAATCGGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
20 15 0.58
21 9 0.35
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (20 bp):
CGACGAACATTTTTCAGATT
Found at i:16198193 original size:20 final size:19
Alignment explanation
Indices: 16198159--16198214 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
16198149 CTCCAGGTTT
**
16198159 TTTTTTTTAAATTTTTTAA
1 TTTTTTTTATTTTTTTTAA
**
16198178 TTTTCTTTTATTTTTTATTTG
1 TTTT-TTTTATTTTTT-TTAA
16198199 TTTTTTTTATTTTTTT
1 TTTTTTTTATTTTTTT
16198215 ATTTATTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 20 0.65
21 6 0.19
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTTTATTTTTTTTAA
Found at i:16198202 original size:21 final size:21
Alignment explanation
Indices: 16198178--16198218 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16198168 AATTTTTTAA
16198178 TTTTCTTTTA-TTTTTTATTTG
1 TTTT-TTTTATTTTTTTATTTG
16198199 TTTTTTTTATTTTTTTATTT
1 TTTTTTTTATTTTTTTATTT
16198219 ATTAGATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.85
Consensus pattern (21 bp):
TTTTTTTTATTTTTTTATTTG
Found at i:16198203 original size:12 final size:12
Alignment explanation
Indices: 16198156--16198221 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
16198146 CCGCTCCAGG
16198156 TTTTTTTTTTTAAA
1 TTTTTTTTTTT--A
* *
16198170 TTTTTTAATTTTC
1 TTTTTT-TTTTTA
*
16198183 TTTTATTTTTTA
1 TTTTTTTTTTTA
16198195 TTTGTTTTTTTTA
1 TTT-TTTTTTTTA
*
16198208 TTTTTTTATTTA
1 TTTTTTTTTTTA
16198220 TT
1 TT
16198222 AGATTAGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
12 17 0.40
13 16 0.37
14 6 0.14
15 4 0.09
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:16198264 original size:17 final size:16
Alignment explanation
Indices: 16198230--16198269 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
16198220 TTAGATTAGG
*
16198230 TTTATTTAATATTCTT
1 TTTATTTAATATTATT
*
16198246 TTTATCTTAATTTTATT
1 TTTAT-TTAATATTATT
16198263 TTTATTT
1 TTTATTT
16198270 CTGTTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTAATATTATT
Found at i:16198300 original size:16 final size:16
Alignment explanation
Indices: 16198274--16198320 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
16198264 TTATTTCTGT
*
16198274 TTTACTTTTTTTTTTTA
1 TTTA-TTTTTTTTATTA
16198291 TTTATTTTTTTTATTA
1 TTTATTTTTTTTATTA
16198307 TTCTATTTTTTTTA
1 TT-TATTTTTTTTA
16198321 AATAAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTTTATTA
Found at i:16198493 original size:57 final size:57
Alignment explanation
Indices: 16198323--16198841 Score: 679
Period size: 57 Copynumber: 8.9 Consensus size: 57
16198313 TTTTTTTAAA
16198323 TAAAAATCAAAATTTTCAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTTC--AAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
* *
16198384 TAAAAATAAA-TTTCAAAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTCTCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAATA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
*
16198443 TAAAAATAAATTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
16198500 TAATAAT-AAGTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
16198557 TAATAAT-AAGTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCT
1 TAAAAATAAATTTTC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
16198614 TAAAAATAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
16198671 TAAAAATAAATTTCCAAAGAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
** * * *
16198728 TGGAAATCAAAGTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCATTTTTCCT
1 TAAAAAT-AAATTTTC--AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
16198788 TAAAAATAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTACCAATTTT
1 TAAAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
16198842 TCCCACACAA
Statistics
Matches: 415, Mismatches: 31, Indels: 28
0.88 0.07 0.06
Matches are distributed among these distances:
56 13 0.03
57 275 0.66
58 15 0.04
59 50 0.12
60 55 0.13
61 7 0.02
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (57 bp):
TAAAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:16198511 original size:30 final size:30
Alignment explanation
Indices: 16198477--16198568 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
16198467 TTTTGAGAAA
16198477 AAGTTGAAAGTATCAATTTTCCTTAATAAT
1 AAGTTGAAAGTATCAATTTTCCTTAATAAT
* * * * *
16198507 AAGTTTCAAA--A-AAATATTT--TTGAGAAA
1 AAG-TTGAAAGTATCAAT-TTTCCTTAATAAT
16198534 AAGTTGAAAGTATCAATTTTCCTTAATAAT
1 AAGTTGAAAGTATCAATTTTCCTTAATAAT
16198564 AAGTT
1 AAGTT
16198569 TCAAAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
26 5 0.11
27 8 0.18
28 7 0.16
29 7 0.16
30 13 0.29
31 5 0.11
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (30 bp):
AAGTTGAAAGTATCAATTTTCCTTAATAAT
Found at i:16198552 original size:27 final size:27
Alignment explanation
Indices: 16198465--16198553 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
16198455 TTCAAAAAAT
16198465 ATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTTGAGAAAAAGTTGAAAGTATCA
* * **
16198492 ATTTTCCTTA-ATAATAAGTTTCAAA--AAAA
1 ATTTT--TGAGA-AA-AAG-TTGAAAGTATCA
16198521 TATTTTTGAGAAAAAGTTGAAAGTATCA
1 -ATTTTTGAGAAAAAGTTGAAAGTATCA
16198549 ATTTT
1 ATTTT
16198554 CCTTAATAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 18
0.63 0.11 0.25
Matches are distributed among these distances:
26 5 0.11
27 13 0.29
28 7 0.16
29 7 0.16
30 8 0.18
31 5 0.11
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (27 bp):
ATTTTTGAGAAAAAGTTGAAAGTATCA
Found at i:16198583 original size:30 final size:30
Alignment explanation
Indices: 16198492--16198583 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
16198482 GAAAGTATCA
16198492 ATTTTCCTTAATAATAAGTTTCAAAAAAAT
1 ATTTTCCTTAATAATAAGTTTCAAAAAAAT
* * **
16198522 ATTTT--TGAGA-AA-AAG-TT-GAAAGTAT
1 ATTTTCCTTA-ATAATAAGTTTCAAAAAAAT
16198547 CAATTTTCCTTAATAATAAGTTTCAAAAAAAT
1 --ATTTTCCTTAATAATAAGTTTCAAAAAAAT
16198579 ATTTT
1 ATTTT
16198584 TGAGGAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 18
0.63 0.11 0.25
Matches are distributed among these distances:
25 5 0.11
26 2 0.04
27 8 0.18
28 5 0.11
29 5 0.11
30 13 0.29
31 2 0.04
32 5 0.11
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (30 bp):
ATTTTCCTTAATAATAAGTTTCAAAAAAAT
Found at i:16198622 original size:171 final size:170
Alignment explanation
Indices: 16198336--16198841 Score: 755
Period size: 171 Copynumber: 2.9 Consensus size: 170
16198326 AAATCAAAAT
*
16198336 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAA
1 TTTC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAGTTTCAAA
* *
16198401 AAAA-AGGTTTTTTGAGGAAAAGTTGAAAGTCTCAATTTTCCTTAAAAATAAATTTTCAAAAAAT
64 AAAATA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAT
* * * *
16198465 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAATAATAAG
126 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
*
16198510 TTTCAAAAAAATATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCCTTAATAATAAGTTTCAAA
1 TTTCAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAGTTTCAAA
*
16198574 AAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTAAAAATAAATTTCCAAAAAATATT
64 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAATATT
*
16198639 TTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
129 TTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* * *
16198681 TTTCCAAAGAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAA
1 TTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT--AAGTTTC-A
* *
16198746 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCATTTTTCCTTAAAAATAAATTTCCAAAAAATA
62 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAATA
*
16198811 TTTTTGGGGAAAAGTTGAAAGTACCAATTTT
127 TTTTTGGGGAAAAGTTGAAAGTATCAATTTT
16198842 TCCCACACAA
Statistics
Matches: 306, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
171 139 0.45
172 5 0.02
173 64 0.21
174 98 0.32
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (170 bp):
TTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAGTTTCAAAAA
AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAATATTTT
TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
Found at i:16204334 original size:15 final size:15
Alignment explanation
Indices: 16204314--16204358 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
16204304 CAGAAATGCT
*
16204314 AGAGAAAGCTAAAAG
1 AGAGAAAGCTAAAAA
*
16204329 AGAGAAGGCTAAAGAA
1 AGAGAAAGCTAAA-AA
*
16204345 AGAGAAAGGTAAAA
1 AGAGAAAGCTAAAA
16204359 TAATCTTGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.60, C:0.04, G:0.29, T:0.07
Consensus pattern (15 bp):
AGAGAAAGCTAAAAA
Found at i:16204357 original size:16 final size:18
Alignment explanation
Indices: 16204325--16204357 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16204315 GAGAAAGCTA
16204325 AAAGAGAGAAGGCTAAAG
1 AAAGAGAGAAGGCTAAAG
16204343 AAAGAGA-AAGG-TAAA
1 AAAGAGAGAAGGCTAAA
16204358 ATAATCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.61, C:0.03, G:0.30, T:0.06
Consensus pattern (18 bp):
AAAGAGAGAAGGCTAAAG
Found at i:16209235 original size:17 final size:18
Alignment explanation
Indices: 16209212--16209295 Score: 90
Period size: 17 Copynumber: 4.9 Consensus size: 18
16209202 AATACTATGC
16209212 TTGAAAAAAAT-AAAAAA
1 TTGAAAAAAATGAAAAAA
*
16209229 TT--AAAAAATTAAAAAA
1 TTGAAAAAAATGAAAAAA
16209245 -TGAAAAAAATGAAAAAA
1 TTGAAAAAAATGAAAAAA
*
16209262 TGATGAAAAAATTGAAAAAA
1 T--TGAAAAAAATGAAAAAA
16209282 -TGAAAAAAA-GAAAA
1 TTGAAAAAAATGAAAA
16209296 GAAAAAGTGA
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
15 8 0.14
16 11 0.19
17 23 0.40
20 16 0.28
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TTGAAAAAAATGAAAAAA
Found at i:16209269 original size:20 final size:20
Alignment explanation
Indices: 16209244--16209313 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
16209234 AAATTAAAAA
16209244 ATGAAAAAAATGAAAAAATG
1 ATGAAAAAAATGAAAAAATG
*
16209264 ATGAAAAAATTGAAAAAATG
1 ATGAAAAAAATGAAAAAATG
** * *
16209284 AAAAAAAGAAAAGAAAAAGTG
1 ATGAAAA-AAATGAAAAAATG
16209305 AATGAAAAA
1 -ATGAAAAA
16209314 GGAGGACTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 24 0.60
21 11 0.28
22 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (20 bp):
ATGAAAAAAATGAAAAAATG
Found at i:16209290 original size:9 final size:9
Alignment explanation
Indices: 16209213--16209295 Score: 79
Period size: 8 Copynumber: 9.7 Consensus size: 9
16209203 ATACTATGCT
16209213 TGAAAAAAA
1 TGAAAAAAA
16209222 T--AAAAAA
1 TGAAAAAAA
*
16209229 T-TAAAAAA
1 TGAAAAAAA
*
16209237 T-TAAAAAA
1 TGAAAAAAA
16209245 TGAAAAAAA
1 TGAAAAAAA
16209254 TGAAAAAATGA
1 TGAAAAAA--A
*
16209265 TGAAAAAAT
1 TGAAAAAAA
16209274 TG-AAAAAA
1 TGAAAAAAA
16209282 TGAAAAAAA
1 TGAAAAAAA
16209291 -GAAAA
1 TGAAAA
16209296 GAAAAAGTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
7 7 0.11
8 27 0.41
9 23 0.35
11 9 0.14
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.16
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:16210389 original size:41 final size:41
Alignment explanation
Indices: 16210318--16210649 Score: 475
Period size: 41 Copynumber: 8.0 Consensus size: 41
16210308 ATGATTGTCA
* * *
16210318 AGGAGTAATTTACTTTTCCAAAGTCATGGTGCCTCTGTTTAA
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16210360 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
16210401 AGGAGCAATTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16210443 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16210484 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGTCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16210526 AGGAGCAATTTACTTTCCAAAATCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16210567 AGAAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
16210608 AGGAGTAATTTATGTTTCTCAAAGTCATTGAGCCTCTGTTTA
1 AGGAGCAATTTA-CTTTC-CAAAGTCGTGGTGCCTCTGTTTA
16210650 TAAGAGCTTT
Statistics
Matches: 262, Mismatches: 24, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
41 150 0.57
42 92 0.35
43 20 0.08
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:16210460 original size:83 final size:83
Alignment explanation
Indices: 16210318--16210649 Score: 495
Period size: 83 Copynumber: 4.0 Consensus size: 83
16210308 ATGATTGTCA
* *
16210318 AGGAGTAATTTACTTTTCCAAAGTCATGGTGCCTCTGTTTAAAGGAGCAATTTACTTTCCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTACTTTCCAAAGT
*
16210383 CGTGGTGCCTCTATTTAG
66 CGTGGTGCCTCTGTTTAG
* * *
16210401 AGGAGCAATTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTCCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTACTTTCCAAAGT
16210466 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
* * *
16210484 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTACTTTCCAAAGT
16210549 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
* * * *
16210567 AGAAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTATGTTTCTCAAA
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTA-CTTTC-CAAA
* * *
16210631 GTCATTGAGCCTCTGTTTA
64 GTCGTGGTGCCTCTGTTTA
16210650 TAAGAGCTTT
Statistics
Matches: 227, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
82 38 0.17
83 170 0.75
84 19 0.08
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (83 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTACTTTCCAAAGT
CGTGGTGCCTCTGTTTAG
Found at i:16210478 original size:124 final size:123
Alignment explanation
Indices: 16210317--16210633 Score: 472
Period size: 124 Copynumber: 2.5 Consensus size: 123
16210307 CATGATTGTC
* * *
16210317 AAGGAGTAATTTACTTTTCCAAAGTCATGGTGCCTCTGTTTAAAGGAGCAATTTACTTTCCAAAG
1 AAGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG
* * *
16210382 TCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTA
65 TCGTGGTGCCTCTATTTAGAGGAGCAATTTAC-TTTCCAAAATCGTGGTGCCTCTGTTTA
16210442 AAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
1 AAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAG
* *
16210507 TCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTCCAAAATCGTGGTGCCTCTGTTTA
65 TCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAATCGTGGTGCCTCTGTTTA
* * * * *
16210566 GAGAAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTATGTTTCTCAAA
1 AAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTC-CAAA
16210631 GTC
64 GTC
16210634 ATTGAGCCTC
Statistics
Matches: 176, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
124 118 0.67
125 58 0.33
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (123 bp):
AAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
CGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAATCGTGGTGCCTCTGTTTA
Found at i:16210854 original size:3 final size:3
Alignment explanation
Indices: 16210846--16211017 Score: 58
Period size: 3 Copynumber: 55.3 Consensus size: 3
16210836 TTTTATCCTG
* * *
16210846 TAT TAT TAT TAT TAT T-T T-T TCT TCT TTT GTAT T-T TAT GTAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT
* *
16210889 TAT TATT TAT TAT TAT TAT TAT GTAT TAA TA- TAT GTA- TAT CTTT TATT
1 TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT -TAT TA-T
* * *
16210937 TATT TATT TAT T-T TTT TGT TAA TAT T-T ATAT GTAT T-T TATT TAT
1 TA-T TA-T TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TA-T TAT
16210981 ATAGT TAT ATATT TAT TAT TAT TA- TAT TAT TAT TAT T
1 -TA-T TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
16211018 TTTTGTAATA
Statistics
Matches: 137, Mismatches: 10, Indels: 44
0.72 0.05 0.23
Matches are distributed among these distances:
2 19 0.14
3 75 0.55
4 41 0.30
5 2 0.01
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16210897 original size:16 final size:16
Alignment explanation
Indices: 16210878--16211017 Score: 77
Period size: 16 Copynumber: 8.8 Consensus size: 16
16210868 TCTTTTGTAT
16210878 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
16210894 TTTATTATTATTATTA
1 TTTATTATTATTATTA
*
16210910 TGTATTAATATATGTA-TA
1 TTTATT-AT-TAT-TATTA
16210928 TCTT-TTATTTATTTATTTA
1 T-TTATTA-TTA-TTA-TTA
* *
16210947 TTT-TT-TTGTTAATA
1 TTTATTATTATTATTA
16210961 TTTA-TATGTATT-TTA
1 TTTATTAT-TATTATTA
16210976 TTTA-TA-TAGTTATATA
1 TTTATTATTA-TTAT-TA
16210992 TTTATTATTATTA-TA
1 TTTATTATTATTATTA
16211007 -TTATTATTATT
1 TTTATTATTATT
16211018 TTTTGTAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 36
0.71 0.04 0.25
Matches are distributed among these distances:
13 2 0.02
14 19 0.19
15 19 0.19
16 27 0.27
17 12 0.12
18 16 0.16
19 6 0.06
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:16210980 original size:45 final size:43
Alignment explanation
Indices: 16210875--16210999 Score: 107
Period size: 45 Copynumber: 2.9 Consensus size: 43
16210865 TCTTCTTTTG
* *
16210875 TATTT-TATGTATTTTA-TTATTTATTA-TTATTATTATGTAT
1 TATTTATATGTATTTTATTTATTTATTATTTATTTTTATGTAA
* * *
16210915 TA-ATATATGTATATCT-TTTATTTATTTATTTATTTTTTTGTTAA
1 TATTTATATGTAT-TTTATTTATTTA-TTATTTATTTTTATG-TAA
* *
16210959 TATTTATATGTATTTTATTTATATAGTTATATATTTATTAT
1 TATTTATATGTATTTTATTTATTTA-TTATTTATTT-TTAT
16211000 TATTATATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.02
40 9 0.14
41 9 0.14
42 3 0.05
43 9 0.14
44 6 0.09
45 25 0.38
46 3 0.05
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.66
Consensus pattern (43 bp):
TATTTATATGTATTTTATTTATTTATTATTTATTTTTATGTAA
Found at i:16211018 original size:45 final size:45
Alignment explanation
Indices: 16210875--16211019 Score: 130
Period size: 44 Copynumber: 3.4 Consensus size: 45
16210865 TCTTCTTTTG
16210875 TATT-TTATGTATTTTA-TTATTTATTAT-TA-TTATTATGTATTA
1 TATTATTATGTATTTTATTTATTTATTATATATTTATTAT-TATTA
* * * * *
16210917 -ATATATGTATATCTTTTATTTATTTATT-TAT-TTTTTTGTTAATA
1 TAT-TAT-TATGTATTTTATTTATTTATTATATATTTATTATTATTA
*
16210961 T-TTA-TATGTATTTTATTTATATAGTTATATATTTATTATTATTA
1 TATTATTATGTATTTTATTTATTTA-TTATATATTTATTATTATTA
16211005 TATTATTAT-TATTTT
1 TATTATTATGTATTTT
16211020 TTGTAATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
41 18 0.22
42 3 0.04
43 6 0.08
44 26 0.32
45 24 0.30
46 3 0.04
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (45 bp):
TATTATTATGTATTTTATTTATTTATTATATATTTATTATTATTA
Found at i:16211701 original size:20 final size:19
Alignment explanation
Indices: 16211672--16211710 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
16211662 GCTTTTAAAG
16211672 AGAAGGGAGAGAAAAAGAGA
1 AGAAGGGAGAG-AAAAGAGA
*
16211692 AGAAGTGAGAGAAAAGAGA
1 AGAAGGGAGAGAAAAGAGA
16211711 GGAGCTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (19 bp):
AGAAGGGAGAGAAAAGAGA
Found at i:16211985 original size:26 final size:24
Alignment explanation
Indices: 16211945--16212015 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 24
16211935 CCGCTCCAGG
16211945 TTTTT-TTTTCTTTTTTTTTTGAATTT
1 TTTTTATTTTC-TTTTTTTTT-AA-TT
*
16211971 TTTTTATTTTCTTTTATTTGTTTATT
1 TTTTTATTTTCTTTT-TTT-TTAATT
* *
16211997 TGTTTATTTTATTTTTTTT
1 TTTTTATTTTCTTTTTTTT
16212016 ATTTATTAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 1 0.03
25 3 0.08
26 24 0.62
27 9 0.23
28 2 0.05
ACGTcount: A:0.10, C:0.03, G:0.04, T:0.83
Consensus pattern (24 bp):
TTTTTATTTTCTTTTTTTTTAATT
Found at i:16212019 original size:22 final size:20
Alignment explanation
Indices: 16211946--16212118 Score: 80
Period size: 22 Copynumber: 8.1 Consensus size: 20
16211936 CGCTCCAGGT
*
16211946 TTTTTTTTCTTTTTTTTTTGAA
1 TTTTTTTTATTTTTTTTTT--A
*
16211968 TTTTTTTTA-TTTTCTTTTA
1 TTTTTTTTATTTTTTTTTTA
*
16211987 -TTTGTTTATTTGTTTATTTTA
1 TTTTTTTTATTT-TTT-TTTTA
***
16212008 TTTTTTTTATTTATTAGGTTA
1 TTTTTTTTATTT-TTTTTTTA
* * * *
16212029 GGTTTATTTAATATTCTTTTTA
1 --TTTTTTTTATTTTTTTTTTA
* *
16212051 TCTTAATTTTATTTTTATTTTTG
1 T-TT-TTTTTATTTTT-TTTTTA
* *
16212074 TTTTACTTTTCTTTATTTTTTA
1 TTTT--TTTTATTTTTTTTTTA
*
16212096 TTTTTATTTATTTTTTTATTA
1 TTTTT-TTTATTTTTTTTTTA
16212117 TT
1 TT
16212119 CTATTTTCTT
Statistics
Matches: 112, Mismatches: 27, Indels: 25
0.68 0.16 0.15
Matches are distributed among these distances:
18 7 0.06
19 3 0.03
20 4 0.04
21 32 0.29
22 43 0.38
23 23 0.21
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTTTTATTTTTTTTTTA
Found at i:16212020 original size:26 final size:25
Alignment explanation
Indices: 16211957--16212022 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
16211947 TTTTTTTCTT
* *
16211957 TTTTTTTTGAATT-TTTTTTATTTTC
1 TTTTTTTT-ATTTATTTTTTATTTTA
* *
16211982 TTTTATTTGTTTATTTGTTTATTTTA
1 TTTTTTTTATTTATTT-TTTATTTTA
16212008 TTTTTTTTATTTATT
1 TTTTTTTTATTTATT
16212023 AGGTTAGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 2 0.06
25 10 0.30
26 21 0.64
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (25 bp):
TTTTTTTTATTTATTTTTTATTTTA
Found at i:16212065 original size:17 final size:16
Alignment explanation
Indices: 16212031--16212070 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
16212021 TTAGGTTAGG
*
16212031 TTTATTTAATATTCTT
1 TTTATTTAATATTATT
*
16212047 TTTATCTTAATTTTATT
1 TTTAT-TTAATATTATT
16212064 TTTATTT
1 TTTATTT
16212071 TTGTTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTAATATTATT
Found at i:16212068 original size:6 final size:6
Alignment explanation
Indices: 16212057--16212125 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
16212047 TTTATCTTAA
* * * *
16212057 TTTTAT TTTTAT TTTT-G TTTTAC TTTTCT TTAT-T TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
16212103 TTATT-T TTTTAT TATTCTAT TTT
1 TT-TTAT TTTTAT T-TT-TAT TTT
16212126 CTTTAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
5 10 0.20
6 31 0.61
7 6 0.12
8 4 0.08
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:16212077 original size:17 final size:17
Alignment explanation
Indices: 16212057--16212111 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
16212047 TTTATCTTAA
16212057 TTTTATTTTTATTT-TT
1 TTTTATTTTTATTTATT
* *
16212073 GTTTTACTTTTCTTTATT
1 -TTTTATTTTTATTTATT
16212091 TTTTATTTTTATTTATT
1 TTTTATTTTTATTTATT
16212108 TTTT
1 TTTT
16212112 TATTATTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 31 0.94
18 2 0.06
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTATTTATT
Found at i:16212093 original size:28 final size:25
Alignment explanation
Indices: 16212057--16212125 Score: 52
Period size: 26 Copynumber: 2.6 Consensus size: 25
16212047 TTTATCTTAA
*
16212057 TTTTA-TTTTTATTTTTGTTTTACTTT
1 TTTTATTTTTTATTTTT-ATTTA-TTT
*
16212083 TCTT-TATTTTTTATTTTTATTTATTT
1 TTTTAT-TTT-TTATTTTTATTTATTT
*
16212109 TTTTATTATTCTATTTT
1 TTTTATT-TTTTATTTT
16212126 CTTTAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
26 16 0.47
27 10 0.29
28 8 0.24
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (25 bp):
TTTTATTTTTTATTTTTATTTATTT
Found at i:16212422 original size:57 final size:57
Alignment explanation
Indices: 16212146--16212771 Score: 825
Period size: 57 Copynumber: 10.8 Consensus size: 57
16212136 AAATCAAAAT
*
16212146 TTTCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTC-AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* * *
16212204 -TTAAAAAAAAAAGGTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
1 TTTCAAAAAAATA---TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
**
16212263 TTTCAAAAAAAGGGT-TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAA
1 TTTCAAAAAAA---TATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA
* *
16212323 GTTTCAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 -TTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* *
16212381 TTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG
1 TTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* * *
16212438 TTTCAAAAAAATATTTTT-GAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAA
1 TTTCAAAAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA
16212496 GTTTCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 -TTTCAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* *
16212554 TTTCCAAAAAATATTCTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* * **
16212611 TTTCCAAAGAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAA
1 TTTCAAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA
*
16212669 GTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 -TTTC-AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* * *
16212728 TTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTACCAATTTT
1 TTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
16212772 TCCCACACAA
Statistics
Matches: 505, Mismatches: 40, Indels: 47
0.85 0.07 0.08
Matches are distributed among these distances:
56 12 0.02
57 236 0.47
58 20 0.04
59 170 0.34
60 56 0.11
61 11 0.02
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (57 bp):
TTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
Found at i:16212513 original size:173 final size:174
Alignment explanation
Indices: 16212135--16212771 Score: 982
Period size: 173 Copynumber: 3.6 Consensus size: 174
16212125 TCTTTAAATA
*
16212135 AAAATCAAAATTTTCAAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 AAAATC-AAAGTTTCAAAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTAAAA
** * *
16212199 ATAAA-TTAAAAAAAAAAGGTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
64 ATAAATTTCCAAAAAATA---TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
16212262 ATTTCAAAAAAAGGGT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
125 ATTTCAAAAAAA---TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
16212314 GAAATCAAAGTTTC-AAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAATCAAAGTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
16212378 AAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCA
66 AAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCA
* *
16212443 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTG
131 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
16212487 AAAATCAAAGTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAATCAAAGTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
16212551 AAATTTCCAAAAAATATTCTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
66 AAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCA
*
16212616 AAAGAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTG
131 AAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTG
*
16212660 GAAATCAAAGTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAATCAAAGTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
16212725 AAATTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTACCAATTTT
66 AAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
16212772 TCCCACACAA
Statistics
Matches: 428, Mismatches: 24, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
172 2 0.00
173 209 0.49
174 95 0.22
175 50 0.12
177 50 0.12
178 17 0.04
179 5 0.01
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (174 bp):
AAAATCAAAGTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
AAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCA
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:16212523 original size:27 final size:27
Alignment explanation
Indices: 16212435--16212525 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 27
16212425 CCTTAAAAAT
16212435 AAGTTTCAAAAAAATATTTTTGAAGAA
1 AAGTTTCAAAAAAATATTTTTGAAGAA
* * * *
16212462 AAG-TTGAAAGTATCAATTTTTCTTGAAAATCA
1 AAGTTTCAAA--A-AAATATTT-TTGAAGA--A
*
16212494 AAGTTTCAAAAAAATATTTTTGAGGAA
1 AAGTTTCAAAAAAATATTTTTGAAGAA
16212521 AAGTT
1 AAGTT
16212526 GAAAGTATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
26 5 0.10
27 9 0.19
28 1 0.02
29 11 0.23
30 12 0.25
31 1 0.02
32 4 0.08
33 5 0.10
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.35
Consensus pattern (27 bp):
AAGTTTCAAAAAAATATTTTTGAAGAA
Found at i:16214314 original size:13 final size:14
Alignment explanation
Indices: 16214292--16214320 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16214282 TGCAAATATC
16214292 TTTTGAAAGATTTT
1 TTTTGAAAGATTTT
16214306 TTTTG-AAGATTTT
1 TTTTGAAAGATTTT
16214319 TT
1 TT
16214321 GATACTGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (14 bp):
TTTTGAAAGATTTT
Found at i:16215620 original size:35 final size:35
Alignment explanation
Indices: 16215574--16215643 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16215564 GGAGTTTCTC
16215574 CTTTATTCCCTAATACTATCAAAGTCAAGGCCTAA
1 CTTTATTCCCTAATACTATCAAAGTCAAGGCCTAA
16215609 CTTTATTCCCTAATACTATCAAAGTCAAGGCCTAA
1 CTTTATTCCCTAATACTATCAAAGTCAAGGCCTAA
16215644 AAAAAATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (35 bp):
CTTTATTCCCTAATACTATCAAAGTCAAGGCCTAA
Found at i:16221754 original size:15 final size:16
Alignment explanation
Indices: 16221736--16221765 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16221726 TAAAAAATCA
16221736 TAAATTAAT-TAATTT
1 TAAATTAATATAATTT
16221751 TAAATTAATATAATT
1 TAAATTAATATAATT
16221766 ATTTATTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTAATATAATTT
Found at i:16227614 original size:16 final size:16
Alignment explanation
Indices: 16227581--16227611 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16227571 GAGATTAGAT
16227581 TAAAATTTATATATAA
1 TAAAATTTATATATAA
16227597 TAAAATTTATA-ATAA
1 TAAAATTTATATATAA
16227612 ATATTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATTTATATATAA
Found at i:16230339 original size:8 final size:8
Alignment explanation
Indices: 16230321--16230353 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
16230311 TACTTAATTA
16230321 TTTTTTA-
1 TTTTTTAT
16230328 TTTTTTAT
1 TTTTTTAT
16230336 TTTTTTAT
1 TTTTTTAT
16230344 TTTTTTAT
1 TTTTTTAT
16230352 TT
1 TT
16230354 AAAACTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:16232818 original size:21 final size:21
Alignment explanation
Indices: 16232792--16233090 Score: 164
Period size: 21 Copynumber: 14.3 Consensus size: 21
16232782 AAATTTAAAC
* *
16232792 TATCAAAGGTTGTCACAAA-TA
1 TATCAAAAGTTATCA-AAATTA
16232813 TATCAAAAGTTATCAAAATTA
1 TATCAAAAGTTATCAAAATTA
* * * *
16232834 TATTAAAAAAG-TACCAAATTTG
1 TA-T-CAAAAGTTATCAAAATTA
* *
16232856 TATCAATAGTTATCAAAGTTA
1 TATCAAAAGTTATCAAAATTA
* *
16232877 TATTCAAGA-TTA-CATAAATTC
1 TA-TCAAAAGTTATCA-AAATTA
*
16232898 TATCAAAAGTTATTAAAATTA
1 TATCAAAAGTTATCAAAATTA
* *
16232919 TATC-AGA-TTGTCAAAATTA
1 TATCAAAAGTTATCAAAATTA
*
16232938 TATCATAAA-TTATCAAAATTG
1 TATCA-AAAGTTATCAAAATTA
* * *
16232959 TGTTAAAAGTTATCAAAATTT
1 TATCAAAAGTTATCAAAATTA
* * **
16232980 TATCATAAGTTACCAAAACAA
1 TATCAAAAGTTATCAAAATTA
* * *
16233001 TATTAAAAATTATCAAAATTG
1 TATCAAAAGTTATCAAAATTA
* * * * *
16233022 TACCAAATGTTACCAAATTTT
1 TATCAAAAGTTATCAAAATTA
* * * *
16233043 TATTAAAGGTAATCAAAATTC
1 TATCAAAAGTTATCAAAATTA
* * *
16233064 TAACAATAGTTGTC-AAATTA
1 TATCAAAAGTTATCAAAATTA
16233084 TATCAAA
1 TATCAAA
16233091 GGTATTCAAA
Statistics
Matches: 204, Mismatches: 63, Indels: 23
0.70 0.22 0.08
Matches are distributed among these distances:
19 14 0.07
20 29 0.14
21 139 0.68
22 17 0.08
23 5 0.02
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (21 bp):
TATCAAAAGTTATCAAAATTA
Found at i:16233165 original size:11 final size:11
Alignment explanation
Indices: 16233125--16233179 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
16233115 AAATATCATC
*
16233125 AAATTTTTCAA
1 AAATTTATCAA
16233136 AAATTGTAT-AA
1 AAATT-TATCAA
*
16233147 AAAATTATCAA
1 AAATTTATCAA
*
16233158 AAATTTATCTA
1 AAATTTATCAA
*
16233169 AGA-TTATCAA
1 AAATTTATCAA
16233179 A
1 A
16233180 TTATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
10 10 0.28
11 24 0.67
12 2 0.06
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (11 bp):
AAATTTATCAA
Found at i:16233174 original size:21 final size:22
Alignment explanation
Indices: 16233132--16233179 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
16233122 ATCAAATTTT
16233132 TCAAAAATTGTATAAAAAATTA
1 TCAAAAATTGTATAAAAAATTA
** *
16233154 TCAAAAATT-TATCTAAGATTA
1 TCAAAAATTGTATAAAAAATTA
16233175 TCAAA
1 TCAAA
16233180 TTATATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (22 bp):
TCAAAAATTGTATAAAAAATTA
Found at i:16233210 original size:26 final size:26
Alignment explanation
Indices: 16233178--16233228 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
16233168 AAGATTATCA
*
16233178 AATTATATTAAAGGCTATCAAAATTC
1 AATTATATAAAAGGCTATCAAAATTC
* *
16233204 AATTATATAAAATGTTATCAAAATT
1 AATTATATAAAAGGCTATCAAAATT
16233229 ATATCAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (26 bp):
AATTATATAAAAGGCTATCAAAATTC
Found at i:16233915 original size:21 final size:23
Alignment explanation
Indices: 16233875--16233938 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
16233865 ATTCAATTAT
* *
16233875 ATATAATATAACTAATAAATTTT-
1 ATATAAAATAA-TAAAAAATTTTA
16233898 ATATAAAA-AATAAAAAATTTTA
1 ATATAAAATAATAAAAAATTTTA
*
16233920 ATCTAAAATAATAAAAAAT
1 ATATAAAATAATAAAAAAT
16233939 AAAAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 10 0.28
22 9 0.25
23 17 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
ATATAAAATAATAAAAAATTTTA
Found at i:16233935 original size:22 final size:21
Alignment explanation
Indices: 16233869--16233936 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
16233859 TATATAATTC
* *
16233869 AATTATATATAATATAACTAATA
1 AATTTTATATAAAATAA-TAA-A
16233892 AATTTTATATAAAA-AATAAAA
1 AATTTTATATAAAATAAT-AAA
*
16233913 AATTTTAATCTAAAATAATAAA
1 AATTTT-ATATAAAATAATAAA
16233935 AA
1 AA
16233937 ATAAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 8 0.21
22 16 0.41
23 15 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTTTATATAAAATAATAAA
Found at i:16236459 original size:19 final size:19
Alignment explanation
Indices: 16236437--16236474 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16236427 AATATCACAA
16236437 TTTTT-TTA-AAAAGTATTT
1 TTTTTATTATAAAA-TATTT
16236455 TTTTTATTATAAAATATTT
1 TTTTTATTATAAAATATTT
16236474 T
1 T
16236475 ATCACCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTATTATAAAATATTT
Found at i:16236996 original size:29 final size:29
Alignment explanation
Indices: 16236964--16237087 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
16236954 TTACGGTATG
*
16236964 GAAGGTTTAGGGTTTTGATTTTAGAGTTT
1 GAAGGTTTAGGGTTTTGATTTAAGAGTTT
* * * *
16236993 GAAGATTTTAGGATTTCGATTTTAA-AATTT
1 GAAG-GTTTAGGGTTTTGA-TTTAAGAGTTT
* *
16237023 G-AGGTTTTGGGTTTTGATTTAAGGGTTT
1 GAAGGTTTAGGGTTTTGATTTAAGAGTTT
* * *
16237051 GGA-TTTTAGGGGTTTGGATTTAAGAGTTT
1 GAAGGTTTA-GGGTTTTGATTTAAGAGTTT
*
16237080 AAAGGTTT
1 GAAGGTTT
16237088 GGGAATTTGA
Statistics
Matches: 71, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
27 5 0.07
28 17 0.24
29 26 0.37
30 19 0.27
31 4 0.06
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (29 bp):
GAAGGTTTAGGGTTTTGATTTAAGAGTTT
Found at i:16237050 original size:14 final size:14
Alignment explanation
Indices: 16237031--16237079 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
16237021 TTGAGGTTTT
*
16237031 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
*
16237045 GGGTTTGGATTTTAG
1 GGGTTTGGA-TTTAA
16237060 GGGTTTGGATTTAA
1 GGGTTTGGATTTAA
*
16237074 GAGTTT
1 GGGTTT
16237080 AAAGGTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:16237058 original size:15 final size:15
Alignment explanation
Indices: 16237031--16237198 Score: 69
Period size: 16 Copynumber: 10.9 Consensus size: 15
16237021 TTGAGGTTTT
*
16237031 GGGTTTTGA-TTTAA
1 GGGTTTGGATTTTAA
*
16237045 GGGTTTGGATTTTAG
1 GGGTTTGGATTTTAA
16237060 GGGTTTGGA-TTTAA
1 GGGTTTGGATTTTAA
* ** *
16237074 GAGTTTAAAGGTTT--
1 GGGTTTGGA-TTTTAA
* *
16237088 GGGAATTTGAATTTTATG
1 GGG--TTTGGATTTTA-A
16237106 GGGCTTTGGATTTTAA
1 GGG-TTTGGATTTTAA
* *
16237122 GGGTTTCAGATTTTAG
1 GGGTTT-GGATTTTAA
*
16237138 GGGCTTGGA-TTTAA
1 GGGTTTGGATTTTAA
* *
16237152 GAGATTTTGGATTTTAG
1 G-G-GTTTGGATTTTAA
*
16237169 GGGTTTCAGATTTT-A
1 GGGTTT-GGATTTTAA
*
16237184 GGATTTTGGATTTTA
1 GG-GTTTGGATTTTA
16237199 GGAGTTTTAG
Statistics
Matches: 114, Mismatches: 25, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
14 25 0.22
15 33 0.29
16 38 0.33
17 15 0.13
18 3 0.03
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.45
Consensus pattern (15 bp):
GGGTTTGGATTTTAA
Found at i:16237086 original size:58 final size:56
Alignment explanation
Indices: 16236965--16237136 Score: 141
Period size: 58 Copynumber: 2.9 Consensus size: 56
16236955 TACGGTATGG
* * * *
16236965 AAGGTTTAGGGTTTTGATTTTAGAGTTTGAAGATTTTAGGATTTCGATTTTAAAATTT
1 AAGGTTTTGGGTTTTGATTTAAGGGTTTG--GATTTTAGGGTTTCGATTTTAAAATTT
* * *
16237023 GAGGTTTTGGGTTTTGATTTAAGGGTTTGGATTTTAGGGGTTTGGA-TTTAAGAGTTT
1 AAGGTTTTGGGTTTTGATTTAAGGGTTTGGATTTTA-GGGTTTCGATTTTAA-AATTT
* *
16237080 AAAGG-TTTGGGAATTTGAATTTTATGGGGCTTTGGATTTTAAGGGTTTCAGATTTTA
1 -AAGGTTTTGGG-TTTTG-A-TTTA-AGGG-TTTGGATTTT-AGGGTTTC-GATTTTA
16237137 GGGGCTTGGA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
56 12 0.13
57 17 0.18
58 32 0.35
59 1 0.01
60 4 0.04
61 3 0.03
62 16 0.17
63 3 0.03
64 4 0.04
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (56 bp):
AAGGTTTTGGGTTTTGATTTAAGGGTTTGGATTTTAGGGTTTCGATTTTAAAATTT
Found at i:16237148 original size:31 final size:32
Alignment explanation
Indices: 16237098--16237171 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
16237088 GGGAATTTGA
*
16237098 ATTTTATGGGGCTTTGGATTTTAAG-GGTTTCAG
1 ATTTTA-GGGGCTTTGGA-TTTAAGAGATTTCAG
**
16237131 ATTTTAGGGGC-TTGGATTTAAGAGATTTTGG
1 ATTTTAGGGGCTTTGGATTTAAGAGATTTCAG
16237162 ATTTTAGGGG
1 ATTTTAGGGG
16237172 TTTCAGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 6 0.16
31 20 0.54
32 5 0.14
33 6 0.16
ACGTcount: A:0.20, C:0.04, G:0.32, T:0.43
Consensus pattern (32 bp):
ATTTTAGGGGCTTTGGATTTAAGAGATTTCAG
Found at i:16237189 original size:31 final size:31
Alignment explanation
Indices: 16237130--16237205 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
16237120 AAGGGTTTCA
* *
16237130 GATTTTAGGGGCTTGGATTTAAGAGATTTTG
1 GATTTTAGGGGTTTAGATTTAAGAGATTTTG
*
16237161 GATTTTAGGGGTTTCAGATTTTAG-GATTTTG
1 GATTTTAGGGGTTT-AGATTTAAGAGATTTTG
*
16237192 GATTTTAGGAGTTT
1 GATTTTAGGGGTTT
16237206 TAGAAACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 33 0.82
32 7 0.17
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (31 bp):
GATTTTAGGGGTTTAGATTTAAGAGATTTTG
Found at i:16238282 original size:16 final size:17
Alignment explanation
Indices: 16238261--16238292 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16238251 GATAGACTGT
16238261 GTTTG-TCTTTTTTTTG
1 GTTTGTTCTTTTTTTTG
16238277 GTTTGTTCTTTTTTTT
1 GTTTGTTCTTTTTTTT
16238293 TTTGTATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.78
Consensus pattern (17 bp):
GTTTGTTCTTTTTTTTG
Found at i:16238658 original size:13 final size:13
Alignment explanation
Indices: 16238640--16238665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16238630 CCACCTTACT
16238640 TTTTATTTTTTTA
1 TTTTATTTTTTTA
16238653 TTTTATTTTTTTA
1 TTTTATTTTTTTA
16238666 AAATAATTAT
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:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:16238680 original size:17 final size:18
Alignment explanation
Indices: 16238655--16238690 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16238645 TTTTTTTATT
16238655 TTAT-TTTTTTAAAATAA
1 TTATATTTTTTAAAATAA
16238672 TTATATTTTTTAAAATAA
1 TTATATTTTTTAAAATAA
16238690 T
1 T
16238691 AATAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTTTTTAAAATAA
Found at i:16239049 original size:110 final size:109
Alignment explanation
Indices: 16238868--16239493 Score: 591
Period size: 110 Copynumber: 5.7 Consensus size: 109
16238858 GGATGATACT
* * * * * * * *
16238868 GTAAGTCAAAAAATAATA-AATCGATCGAGATAACACTGTGAATC-AAATTTCTGTCTGAAGGTC
1 GTAAGTCGAAAGATAA-AGAATCGATCGGGATAACACCGCGAATCGAAA-TTATGCCTGGAGGTC
* * * *
16238931 TTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGAGATAACATC
64 TTAAAAATCATG-TCGGAGGTCTTACAGAATCGACTGAGATAACACC
* * * *
16238978 GTGAGTCAAAAGATAAAGAATAGATCGGGATAACATCGCGAATCGAAATTATGCCTGGAGGTCTT
1 GTAAGTCGAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCTGGAGGTCTT
* * * *
16239043 AAAAATCATGTCTGGAGGTCTTACTGAATCAACTGGGATAACACT
66 AAAAATCATGTC-GGAGGTCTTACAGAATCGACTGAGATAACACC
* * * * *
16239088 GCAAGTCGAAAGATAAGGAATCGATAGGGATAACACCACGAATCGAAATTATG-TTCGGAGGTCT
1 GTAAGTCGAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCT-GGAGGTCT
* * *
16239152 TAAAAATCATGTCCAGAGGTCTTACAAAAGCGACTGAGATAACACC
65 TAAAAATCATGT-CGGAGGTCTTACAGAATCGACTGAGATAACACC
* * * * * * *
16239198 GTAAATTGAAAGAT-AAGAAATCGATCAGGATAACACCGCGAATCGAAATTATACCCGAAAGTCT
1 GTAAGTCGAAAGATAAAG-AATCGATCGGGATAACACCGCGAATCGAAATTATGCCTGGAGGTCT
* ** * * *
16239262 TAAAAATCATGCCTAAAGGTCTTATAGAATCGACTGAGTTAACATC
65 TAAAAATCATGTC-GGAGGTCTTACAGAATCGACTGAGATAACACC
* * * * *
16239308 GCAAGTCGAAAGATAAAAAATCGATCAGGATAACATCACGAATCGAAATTATG-CTCGGAGGTCT
1 GTAAGTCGAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCT-GGAGGTCT
* * * * *
16239372 TAGAAATCATGTCCGAAAGTTTTATAGAATCGACT-AGGATAACACC
65 TAAAAATCATGT-CGGAGGTCTTACAGAATCGACTGA-GATAACACC
* * * * * *
16239418 GT-AGTCAAAAGATAAAGAATCGATCGAGATAACACTGCGAATCAAAATTATACCCGGAGGTCTT
1 GTAAGTCGAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCTGGAGGTCTT
16239482 AAAAATCATGTC
66 AAAAATCATGTC
16239494 CGAAAGTATT
Statistics
Matches: 421, Mismatches: 82, Indels: 28
0.79 0.15 0.05
Matches are distributed among these distances:
108 1 0.00
109 69 0.16
110 344 0.82
111 7 0.02
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (109 bp):
GTAAGTCGAAAGATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCTGGAGGTCTT
AAAAATCATGTCGGAGGTCTTACAGAATCGACTGAGATAACACC
Found at i:16239057 original size:22 final size:22
Alignment explanation
Indices: 16239023--16239065 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16239013 TCGCGAATCG
*
16239023 AAATTATGCCTGGAGGTCTTAA
1 AAATCATGCCTGGAGGTCTTAA
*
16239045 AAATCATGTCTGGAGGTCTTA
1 AAATCATGCCTGGAGGTCTTA
16239066 CTGAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (22 bp):
AAATCATGCCTGGAGGTCTTAA
Found at i:16239268 original size:220 final size:217
Alignment explanation
Indices: 16238926--16239510 Score: 714
Period size: 220 Copynumber: 2.7 Consensus size: 217
16238916 TTCTGTCTGA
* * *
16238926 AGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGAGATAACATCGTGAGTCAAAAGA
1 AGGTCTTAGAAATCATG-TCCGAGGTCTTACAAAATCGACTGAGATAACACCGT-AGTCAAAAGA
* * * *
16238991 TAAAGAATAGATCGGGATAACATCGCGAATCGAAATTATGCCTGGAGGTCTTAAAAATCATGTCT
64 TAAAGAATCGATC-GGATAACACCGCGAATCGAAATTATACCCGGAGGTCTTAAAAATCATGTCT
** * **
16239056 GGAGGTCTTACT-GAATCAACTGGGATAACA-CTGCAAGTCGAAAGATAAGGAATCGAT-AGGGA
128 AAAGGTCTTA-TAGAATCAACTGAGATAACATC-GCAAGTCGAAAGATAAAAAATCGATCA-GGA
*
16239118 TAACACCACGAATCGAAATTATGTTCGG
190 TAACACCACGAATCGAAATTATGCTCGG
* * * **
16239146 AGGTCTTAAAAATCATGTCCAGAGGTCTTACAAAAGCGACTGAGATAACACCGTAAATTGAAAGA
1 AGGTCTTAGAAATCATGTCC-GAGGTCTTACAAAATCGACTGAGATAACACCGT-AGTCAAAAGA
* * *
16239211 T-AAGAAATCGATCAGGATAACACCGCGAATCGAAATTATACCCGAAAGTCTTAAAAATCATGCC
64 TAAAG-AATCGATC-GGATAACACCGCGAATCGAAATTATACCCGGAGGTCTTAAAAATCATGTC
* *
16239275 TAAAGGTCTTATAGAATCGACTGAGTTAACATCGCAAGTCGAAAGATAAAAAATCGATCAGGATA
127 TAAAGGTCTTATAGAATCAACTGAGATAACATCGCAAGTCGAAAGATAAAAAATCGATCAGGATA
*
16239340 ACATCACGAATCGAAATTATGCTCGG
192 ACACCACGAATCGAAATTATGCTCGG
* * * *
16239366 AGGTCTTAGAAATCATGTCCGAAAGTTTTATAGAATCGACT-AGGATAACACCGTAGTCAAAAGA
1 AGGTCTTAGAAATCATGTCCG-AGGTCTTACAAAATCGACTGA-GATAACACCGTAGTCAAAAGA
* *
16239430 TAAAGAATCGATCGAGATAACACTGCGAATCAAAATTATACCCGGAGGTCTTAAAAATCATGTCC
64 TAAAGAATCGATCG-GATAACACCGCGAATCGAAATTATACCCGGAGGTCTTAAAAATCATGT-C
* *
16239495 GAAA-GTATTATAGAAT
127 TAAAGGTCTTATAGAAT
16239511 TATGCTAGGA
Statistics
Matches: 313, Mismatches: 42, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
218 1 0.00
219 78 0.25
220 232 0.74
221 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (217 bp):
AGGTCTTAGAAATCATGTCCGAGGTCTTACAAAATCGACTGAGATAACACCGTAGTCAAAAGATA
AAGAATCGATCGGATAACACCGCGAATCGAAATTATACCCGGAGGTCTTAAAAATCATGTCTAAA
GGTCTTATAGAATCAACTGAGATAACATCGCAAGTCGAAAGATAAAAAATCGATCAGGATAACAC
CACGAATCGAAATTATGCTCGG
Found at i:16239534 original size:21 final size:21
Alignment explanation
Indices: 16239508--16239548 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16239498 AGTATTATAG
16239508 AATTATG-CTAGGAGGTCTTAA
1 AATTATGTC-AGGAGGTCTTAA
*
16239529 AATTATGTCCGGAGGTCTTA
1 AATTATGTCAGGAGGTCTTA
16239549 TAGAATCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (21 bp):
AATTATGTCAGGAGGTCTTAA
Found at i:16239565 original size:153 final size:153
Alignment explanation
Indices: 16239354--16239663 Score: 417
Period size: 153 Copynumber: 2.0 Consensus size: 153
16239344 CACGAATCGA
* *
16239354 AATTATGCTCGGAGGTCTTAGAAATCATGTCCGAAAGTTTTATAGAATCGACTAGGATAACACCG
1 AATTATGCTAGGAGGTCTTAGAAATCATGTCCGAAAGTCTTATAGAATCGACTAGGATAACACCG
* * *
16239419 TAGTCAAAAGATAAAGAATCGATCGAGATAACACTGCG-AATCAAAATTATACCCGGAGGTCTTA
66 CAGTCAAAAGATAAAGAATCGATCGAGATAACA-T-CGAAATCAAAATTATACCCGAAAGTCTTA
*
16239483 AAAATCATGTCCGAAAGTATTATAG
129 AAAATCATGCCCGAAAGTATTATAG
* * * * *
16239508 AATTATGCTAGGAGGTCTTA-AAATTATGTCCGGAGGTCTTATAGAATCGACTGGGATAATACCG
1 AATTATGCTAGGAGGTCTTAGAAATCATGTCCGAAAGTCTTATAGAATCGACTAGGATAACACCG
* * * * *
16239572 CAGTCGAAAGATAAAGAATCGATTGGGATAACATCGTAAATCAAAATTATACTCGAAAGTCTTAG
66 CAGTCAAAAGATAAAGAATCGATCGAGATAACATCG-AAATCAAAATTATACCCGAAAGTCTTAA
* *
16239637 AAATCATGCCCGAAGGTCTTATAG
130 AAATCATGCCCGAAAGTATTATAG
16239661 AAT
1 AAT
16239664 CGACTGTGAT
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
151 2 0.01
152 1 0.01
153 114 0.84
154 19 0.14
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (153 bp):
AATTATGCTAGGAGGTCTTAGAAATCATGTCCGAAAGTCTTATAGAATCGACTAGGATAACACCG
CAGTCAAAAGATAAAGAATCGATCGAGATAACATCGAAATCAAAATTATACCCGAAAGTCTTAAA
AATCATGCCCGAAAGTATTATAG
Found at i:16239698 original size:109 final size:110
Alignment explanation
Indices: 16239508--16240402 Score: 901
Period size: 109 Copynumber: 8.2 Consensus size: 110
16239498 AGTATTATAG
* * * * * * *
16239508 AATTATGCTAGGAGGTCTTA-AAATTATGTCCGGAGGTCTTATAGAATCGACTGGGATAATACCG
1 AATTATACTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATCG
* * *
16239572 C-AGTCGAAAGATAAAGAATCGATTGGGATAACATCGTAAATCAA
66 CAAGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
* * * * * * *
16239616 AATTATACTCGAAAGTCTTAGAAATCATGCCCGAAGGTCTTATAGAATCGACTGTGATAACACCA
1 AATTATACTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATCG
* * * *
16239681 CAAGTCAAAAGAT-AAGAAATCGATCGAGATAACACCATGAATCGA
66 CAAGTCGAAAGATAAAG-AATCGATCGAGATAACATCGTGAATCAA
** * * * *
16239726 AATTATAC-CTGGAGGTCTTAGAAATCATGTTCGGAGGTCTTACAAAATTGATTGGGATAACATT
1 AATTATACTC-GGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATC
* *
16239790 G-AAGTCGAAAGATAAAGAATCGATCAAGATAACATCGTGAATCGA
65 GCAAGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
* * * * *
16239835 AATTATACCCGGAGGTCTTAAAAATCATGCCTGGAGGTCTTACAGAATCGACTGAGATAACATTG
1 AATTATACTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATCG
* *
16239900 C-AGTCGAAAGATAAAGAATCGATTGAGATAACATCGTGAATCGA
66 CAAGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
* * * * * *
16239944 AATTATGC-CTGGAGGTCTTAGAAATCATACACGGAGCTCTTACAGAATCGACTGGGATAATACC
1 AATTATACTC-GGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATC
* * * * * *
16240008 TCAAGTCAAAAAATAAAAAATCGATCGAGATAACAACGTGAATCGA
65 GCAAGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
* * * * *
16240054 AATTATACCCGGAGATCTTAGAAATCATACCCGGAGGTCTTACAAAATCGACTAGGATAACAT--
1 AATTATACTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATCG
* * * ***
16240117 CATAGTCGAAAGATAAGGAATCGATTGGGATAACATCACAAATCAA
66 CA-AGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
* * * * * *
16240163 AATTATGCTTGGAGGTCTTAGAAATTATGTCCGGAGGTCTTACAAAATCGA-TTGGATAACATCG
1 AATTATACTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATCG
* * * * * * *
16240227 CAAGTCAAAAAAATAAAAAATCGATCGGGATAACACCTTAAATCAA
66 CAAGTC-GAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
* * * * * *
16240273 AATTATACTCGGAGGTCTTAAAAATCATGCTCAGAGATCTTACAGAATCGATTGCGATAACATCG
1 AATTATACTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATCG
* * * * *
16240338 TAAGTCGAAAGATAAGGAATTGATCGGGATAACATCGCGAATCAA
66 CAAGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
** *
16240383 AATTATGTTCAGAGGTCTTA
1 AATTATACTCGGAGGTCTTA
16240403 CAGAATCGAC
Statistics
Matches: 653, Mismatches: 119, Indels: 28
0.82 0.15 0.04
Matches are distributed among these distances:
108 29 0.04
109 308 0.47
110 299 0.46
111 17 0.03
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (110 bp):
AATTATACTCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACATCG
CAAGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAA
Found at i:16239753 original size:263 final size:263
Alignment explanation
Indices: 16239278--16239755 Score: 683
Period size: 262 Copynumber: 1.8 Consensus size: 263
16239268 TCATGCCTAA
* *
16239278 AGGTCTTATAGAATCGACTGAGTTAACATCGCAAGTCGAAAGATAAAAAATCGATCAGGATAACA
1 AGGTCTTATAGAATCGACTGAGATAACACCGCAAGTCGAAAGATAAAAAATCGATCAGGATAACA
* * * * * * *
16239343 TCACGAATCGAAATTATGCTCGGAGGTCTTAGAAATCATGTCCGAAAGTTTTATAGAATCGACTA
66 TCACAAATCAAAATTATACTCGAAAGTCTTAGAAATCATGCCCGAAAGTCTTATAGAATCGACTA
** **
16239408 GGATAACACCGTAGTCAAAAGATAAAGAATCGATCGAGATAACACTGCGAATCAAAATTATACCC
131 GGATAACACCCAAGTCAAAAGATAAAGAATCGATCGAGATAACACCACGAATCAAAATTATACCC
16239473 GGAGGTCTTAAAAATCATGTCCGAAAGTATTATAGAATTATGCTAGGAGGTCTTAAAATTATGTC
196 GGAGGTCTTAAAAATCATGTCCGAAAGTATTATAGAATTATGCTAGGAGGTCTTAAAATTATGTC
16239538 CGG
261 CGG
* * * **
16239541 AGGTCTTATAGAATCGACTGGGATAATACCGC-AGTCGAAAGATAAAGAATCGATTGGGATAACA
1 AGGTCTTATAGAATCGACTGAGATAACACCGCAAGTCGAAAGATAAAAAATCGATCAGGATAACA
** *
16239605 TCGTAAATCAAAATTATACTCGAAAGTCTTAGAAATCATGCCCGAAGGTCTTATAGAATCGACT-
66 TCACAAATCAAAATTATACTCGAAAGTCTTAGAAATCATGCCCGAAAGTCTTATAGAATCGACTA
* *
16239669 GTGATAACACCACAAGTCAAAAGAT-AAGAAATCGATCGAGATAACACCATGAATCGAAATTATA
131 G-GATAACACC-CAAGTCAAAAGATAAAG-AATCGATCGAGATAACACCACGAATCAAAATTATA
* *
16239733 CCTGGAGGTCTTAGAAATCATGT
193 CCCGGAGGTCTTAAAAATCATGT
16239756 TCGGAGGTCT
Statistics
Matches: 187, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
261 1 0.01
262 95 0.51
263 91 0.49
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (263 bp):
AGGTCTTATAGAATCGACTGAGATAACACCGCAAGTCGAAAGATAAAAAATCGATCAGGATAACA
TCACAAATCAAAATTATACTCGAAAGTCTTAGAAATCATGCCCGAAAGTCTTATAGAATCGACTA
GGATAACACCCAAGTCAAAAGATAAAGAATCGATCGAGATAACACCACGAATCAAAATTATACCC
GGAGGTCTTAAAAATCATGTCCGAAAGTATTATAGAATTATGCTAGGAGGTCTTAAAATTATGTC
CGG
Found at i:16239823 original size:219 final size:218
Alignment explanation
Indices: 16239508--16240389 Score: 918
Period size: 219 Copynumber: 4.0 Consensus size: 218
16239498 AGTATTATAG
* * * *
16239508 AATTATG-CTAGGAGGTCTTA-AAATTATGTCCGGAGGTCTTATAGAATCGACTGGGATAATACC
1 AATTATGCCT-GGAGGTCTTAGAAATCATGTCCGGAGGTCTTACAAAATCGACTGGGATAACACC
* * * * * * * *
16239571 GCAGTCGAAAGATAAAGAATCGATTGGGATAACATCGTAAATCAAAATTATACTCGAAAGTCTTA
65 GAAGTCAAAAAATAAAAAATCGATCGAGATAACATCGTAAATCAAAATTATACCCGGAAGTCTTA
* * * *
16239636 GAAATCATGCCCGAAGGTCTTATAGAATCGACTGTGATAACACCACAAGTCAAAAGATAAGAAAT
130 AAAATCATGCCCGAAGGTCTTACAGAATCGACTG-GATAACATCACAAGTCGAAAGATAAGAAAT
*
16239701 CGATCGAGATAACACCATGAATCGA
194 CGATCGAGATAACATCATGAATCGA
* * * * **
16239726 AATTATACCTGGAGGTCTTAGAAATCATGTTCGGAGGTCTTACAAAATTGATTGGGATAACATTG
1 AATTATGCCTGGAGGTCTTAGAAATCATGTCCGGAGGTCTTACAAAATCGACTGGGATAACACCG
* * * * * * *
16239791 AAGTCGAAAGATAAAGAATCGATCAAGATAACATCGTGAATCGAAATTATACCCGGAGGTCTTAA
66 AAGTCAAAAAATAAAAAATCGATCGAGATAACATCGTAAATCAAAATTATACCCGGAAGTCTTAA
* * **
16239856 AAATCATGCCTGGAGGTCTTACAGAATCGACTGAGATAACATTGC-AGTCGAAAGATAA-AGAAT
131 AAATCATGCCCGAAGGTCTTACAGAATCGACTG-GATAACATCACAAGTCGAAAGATAAGA-AAT
* *
16239919 CGATTGAGATAACATCGTGAATCGA
194 CGATCGAGATAACATCATGAATCGA
* * * *
16239944 AATTATGCCTGGAGGTCTTAGAAATCAT-ACACGGAGCTCTTACAGAATCGACTGGGATAATACC
1 AATTATGCCTGGAGGTCTTAGAAATCATGTC-CGGAGGTCTTACAAAATCGACTGGGATAACACC
* * * *
16240008 TCAAGTCAAAAAATAAAAAATCGATCGAGATAACAACGTGAATCGAAATTATACCCGG-AGATCT
65 -GAAGTCAAAAAATAAAAAATCGATCGAGATAACATCGTAAATCAAAATTATACCCGGAAG-TCT
* * * * * *
16240072 TAGAAATCATACCCGGAGGTCTTACAAAATCGACTAGGATAACATCA-TAGTCGAAAGATAAGGA
128 TAAAAATCATGCCCGAAGGTCTTACAGAATCGACT-GGATAACATCACAAGTCGAAAGATAAGAA
* * ** *
16240136 ATCGATTGGGATAACATCACAAATCAA
192 ATCGATCGAGATAACATCATGAATCGA
* * * *
16240163 AATTATGCTTGGAGGTCTTAGAAATTATGTCCGGAGGTCTTACAAAATCGA-TTGGATAACATCG
1 AATTATGCCTGGAGGTCTTAGAAATCATGTCCGGAGGTCTTACAAAATCGACTGGGATAACACCG
* * * * *
16240227 CAAGTCAAAAAAATAAAAAATCGATCGGGATAACACCTTAAATCAAAATTATACTCGGAGGTCTT
66 -AAGTC-AAAAAATAAAAAATCGATCGAGATAACATCGTAAATCAAAATTATACCCGGAAGTCTT
* * * ** *
16240292 AAAAATCATGCTC-AGAGATCTTACAGAATCGATTGCGATAACATCGTAAGTCGAAAGATAAGGA
129 AAAAATCATGCCCGA-AGGTCTTACAGAATCGACTG-GATAACATCACAAGTCGAAAGATAAGAA
* * ** *
16240356 ATTGATCGGGATAACATCGCGAATCAA
192 ATCGATCGAGATAACATCATGAATCGA
16240383 AATTATG
1 AATTATG
16240390 TTCAGAGGTC
Statistics
Matches: 559, Mismatches: 89, Indels: 30
0.82 0.13 0.04
Matches are distributed among these distances:
217 1 0.00
218 122 0.22
219 387 0.69
220 49 0.09
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (218 bp):
AATTATGCCTGGAGGTCTTAGAAATCATGTCCGGAGGTCTTACAAAATCGACTGGGATAACACCG
AAGTCAAAAAATAAAAAATCGATCGAGATAACATCGTAAATCAAAATTATACCCGGAAGTCTTAA
AAATCATGCCCGAAGGTCTTACAGAATCGACTGGATAACATCACAAGTCGAAAGATAAGAAATCG
ATCGAGATAACATCATGAATCGA
Found at i:16240083 original size:22 final size:22
Alignment explanation
Indices: 16240052--16240095 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16240042 AACGTGAATC
*
16240052 GAAATTATACCCGGAGATCTTA
1 GAAATCATACCCGGAGATCTTA
*
16240074 GAAATCATACCCGGAGGTCTTA
1 GAAATCATACCCGGAGATCTTA
16240096 CAAAATCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (22 bp):
GAAATCATACCCGGAGATCTTA
Found at i:16240140 original size:328 final size:327
Alignment explanation
Indices: 16239518--16240334 Score: 1021
Period size: 328 Copynumber: 2.5 Consensus size: 327
16239508 AATTATGCTA
* * *
16239518 GGAGGTCTT-AAAATTATGTCCGGAGGTCTTATAGAATCGACTGGGATAATACCGCAGTCGAAAG
1 GGAGGTCTTAAAAATTATGTCCGGAGGTCTTACAGAATCGACT-GGATAACATCGCAGTCGAAAG
* * *
16239582 ATAAAGAATCGATTGGGATAACATCGTAAATCAAAATTATACTCGAAAGTCTTAGAAATCATGCC
65 ATAAAGAATCGATTGGGATAACATCGTAAATCAAAATTATACTCGGAGGTCTTAGAAATCATGCA
* * * * * *
16239647 CGAAGGTCTTATAGAATCGACTGTGATAACACCACAAGTCAAAAGATAAGAAATCGATCGAGATA
130 CGGAGATCTTACAGAATCGACTGCGATAACACCACAAGTCAAAAAATAAAAAATCGATCGAGATA
* * * *** *
16239712 ACACCATGAATCGAAATTATACCTGGAGGTCTTAGAAATCATGTTCGGAGGTCTTACAAAATTGA
195 ACAACATGAATCGAAATTATACCCGGAGATCTTAGAAATCATACCCGGAGGTCTTACAAAATCGA
* * * *** *
16239777 TTGGGATAACATTGAAGTCGAAAGATAAAGAATCGATCAAGATAACATCGTGAATCGAAATTATA
260 CTAGGATAACATTCAAGTCGAAAGATAAAGAATCGATCAAGATAACATCACAAATCAAAATTATA
16239842 CCC
325 CCC
* *
16239845 GGAGGTCTTAAAAATCATG-CCTGGAGGTCTTACAGAATCGACTGAGATAACATTGCAGTCGAAA
1 GGAGGTCTTAAAAATTATGTCC-GGAGGTCTTACAGAATCGACTG-GATAACATCGCAGTCGAAA
* * * * *
16239909 GATAAAGAATCGATTGAGATAACATCGTGAATCGAAATTATGC-CTGGAGGTCTTAGAAATCATA
64 GATAAAGAATCGATTGGGATAACATCGTAAATCAAAATTATACTC-GGAGGTCTTAGAAATCATG
* * * *
16239973 CACGGAGCTCTTACAGAATCGACTGGGATAATACCTCAAGTCAAAAAATAAAAAATCGATCGAGA
128 CACGGAGATCTTACAGAATCGACTGCGATAACACCACAAGTCAAAAAATAAAAAATCGATCGAGA
*
16240038 TAACAACGTGAATCGAAATTATACCCGGAGATCTTAGAAATCATACCCGGAGGTCTTACAAAATC
193 TAACAACATGAATCGAAATTATACCCGGAGATCTTAGAAATCATACCCGGAGGTCTTACAAAATC
* ***
16240103 GACTAGGATAACA-TCATAGTCGAAAGATAAGGAATCGATTGGGATAACATCACAAATCAAAATT
258 GACTAGGATAACATTCA-AGTCGAAAGATAAAGAATCGATCAAGATAACATCACAAATCAAAATT
* **
16240167 ATGCTT
322 ATACCC
* * * *
16240173 GGAGGTCTTAGAAATTATGTCCGGAGGTCTTACAAAATCGATTGGATAACATCGCAAGTCAAAAA
1 GGAGGTCTTAAAAATTATGTCCGGAGGTCTTACAGAATCGACTGGATAACATCGC-AGTC-GAAA
* * * * * *
16240238 AATAAAAAATCGATCGGGATAACACCTTAAATCAAAATTATACTCGGAGGTCTTAAAAATCATGC
64 GATAAAGAATCGATTGGGATAACATCGTAAATCAAAATTATACTCGGAGGTCTTAGAAATCATGC
* * *
16240303 TCAGAGATCTTACAGAATCGATTGCGATAACA
129 ACGGAGATCTTACAGAATCGACTGCGATAACA
16240335 TCGTAAGTCG
Statistics
Matches: 415, Mismatches: 66, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
327 25 0.06
328 306 0.74
329 83 0.20
330 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.24
Consensus pattern (327 bp):
GGAGGTCTTAAAAATTATGTCCGGAGGTCTTACAGAATCGACTGGATAACATCGCAGTCGAAAGA
TAAAGAATCGATTGGGATAACATCGTAAATCAAAATTATACTCGGAGGTCTTAGAAATCATGCAC
GGAGATCTTACAGAATCGACTGCGATAACACCACAAGTCAAAAAATAAAAAATCGATCGAGATAA
CAACATGAATCGAAATTATACCCGGAGATCTTAGAAATCATACCCGGAGGTCTTACAAAATCGAC
TAGGATAACATTCAAGTCGAAAGATAAAGAATCGATCAAGATAACATCACAAATCAAAATTATAC
CC
Found at i:16240576 original size:87 final size:87
Alignment explanation
Indices: 16240293--16240562 Score: 389
Period size: 87 Copynumber: 3.1 Consensus size: 87
16240283 GGAGGTCTTA
* * * *
16240293 AAAATCATGCTCAGAGATCTTACAGAATCGATTGCGATAACATCGTAAGTCGAAAGATAAGGAAT
1 AAAATTATGCTCAGAGGTCTTACAGAATCGACTG-GATAACATCGTAAGTCGAAAGATAAAGAAT
* *
16240358 TGATCGGGATAACATCGCGAATC
65 CGATCGAGATAACATCGCGAATC
* *
16240381 AAAATTATGTTCAGAGGTCTTACAGAATCGACTAGGATAACATCGT-AGTCGAAAGATAAAAAAT
1 AAAATTATGCTCAGAGGTCTTACAGAATCGACT-GGATAACATCGTAAGTCGAAAGATAAAGAAT
*
16240445 CGATCGAGATAACATCGCGAACC
65 CGATCGAGATAACATCGCGAATC
* * *
16240468 AAAATTATGCTCGGAGGTCTTACAGAATCGACTGGATAATATCGTAAGTCAAAAGATAAAGAATC
1 AAAATTATGCTCAGAGGTCTTACAGAATCGACTGGATAACATCGTAAGTCGAAAGATAAAGAATC
* *
16240533 GATCGAGATAACACCCCGAATC
66 GATCGAGATAACATCGCGAATC
16240555 AAAATTAT
1 AAAATTAT
16240563 ACCCAAAAGT
Statistics
Matches: 163, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
86 11 0.07
87 111 0.68
88 40 0.25
89 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (87 bp):
AAAATTATGCTCAGAGGTCTTACAGAATCGACTGGATAACATCGTAAGTCGAAAGATAAAGAATC
GATCGAGATAACATCGCGAATC
Found at i:16240652 original size:196 final size:196
Alignment explanation
Indices: 16240394--16240847 Score: 578
Period size: 196 Copynumber: 2.3 Consensus size: 196
16240384 ATTATGTTCA
* ** * *
16240394 GAGGTCTTACAGAATCGACTAGGATAACATCGTAGTCGAAAGATAAAAAATCGATCGAGATAACA
1 GAGGTCTTACAGAATCGACTAGGATAACACCAAAGTCGAAAGATAAAGAATCAATCGAGATAACA
* * * *
16240459 TCGCGAACCAAAATTATGCTCGGAGGTCTTACAGAATCGACT-GGATAATA-TCGTAAGTCAAAA
66 TCGCGAACCAAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACACT-GCAAGTCAAAA
*
16240522 GATAA-AGAATCGATCGAGATAACACCCCGAATCA-AAATTATACCCA-AAAGTCTTAGAAATCA
130 -ATAAGA-AATCGATCGAGATAACACCCCGAAT-AGAAATCATACCCAGAAA-TCTTAGAAATCA
16240584 TGCTCG
191 TGCTCG
* * * *
16240590 GAGGTCTTACAGAATCGATTACGAGAACACCAAAGTCGAAAGATAAAGAATCAATTGAGATAACA
1 GAGGTCTTACAGAATCGACTAGGATAACACCAAAGTCGAAAGATAAAGAATCAATCGAGATAACA
* * * *
16240655 TCGCGAATCGAAATTATGCCCGGAGGTCTTACAAAATCTACTGGGATAACACTGCAAGTTAAAAA
66 TCGCGAACCAAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAA
* * *
16240720 TAAGAAATCGATCGAGATAACACCGCGAATAGAAATCATGCCCAGAAATTTTAGAAATCATGCTC
131 TAAGAAATCGATCGAGATAACACCCCGAATAGAAATCATACCCAGAAATCTTAGAAATCATGCTC
16240785 G
196 G
* * * * *
16240786 AAGATCTTACAGAATCGACTAGGATAATACCACAA-TCGAAAGATAAAGAATCGATCGGGATA
1 GAGGTCTTACAGAATCGACTAGGATAACACCA-AAGTCGAAAGATAAAGAATCAATCGAGATA
16240848 GCACCGTGAA
Statistics
Matches: 222, Mismatches: 30, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
195 1 0.00
196 198 0.89
197 22 0.10
198 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (196 bp):
GAGGTCTTACAGAATCGACTAGGATAACACCAAAGTCGAAAGATAAAGAATCAATCGAGATAACA
TCGCGAACCAAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAA
TAAGAAATCGATCGAGATAACACCCCGAATAGAAATCATACCCAGAAATCTTAGAAATCATGCTC
G
Found at i:16240685 original size:109 final size:109
Alignment explanation
Indices: 16240469--16240671 Score: 273
Period size: 109 Copynumber: 1.9 Consensus size: 109
16240459 TCGCGAACCA
* * * * ** *
16240469 AAATTATGCTCGGAGGTCTTACAGAATCGACTGGATAATATCGTAAGTCAAAAGATAAAGAATCG
1 AAATCATGCTCGGAGGTCTTACAGAATCGACTCGAGAACATCCAAAGTCAAAAGATAAAGAATCA
16240534 ATCGAGATAACACCCCGAATCAAAATTATACCCAAAAGTCTTAG
66 ATCGAGATAACACCCCGAATCAAAATTATACCCAAAAGTCTTAG
* *
16240578 AAATCATGCTCGGAGGTCTTACAGAATCGATTACGAGAACA-CCAAAGTCGAAAGATAAAGAATC
1 AAATCATGCTCGGAGGTCTTACAGAATCGACT-CGAGAACATCCAAAGTCAAAAGATAAAGAATC
* * * *
16240642 AATTGAGATAACATCGCGAATCGAAATTAT
65 AATCGAGATAACACCCCGAATCAAAATTAT
16240672 GCCCGGAGGT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
109 75 0.94
110 5 0.06
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (109 bp):
AAATCATGCTCGGAGGTCTTACAGAATCGACTCGAGAACATCCAAAGTCAAAAGATAAAGAATCA
ATCGAGATAACACCCCGAATCAAAATTATACCCAAAAGTCTTAG
Found at i:16240706 original size:87 final size:86
Alignment explanation
Indices: 16240575--16240762 Score: 200
Period size: 87 Copynumber: 2.2 Consensus size: 86
16240565 CCAAAAGTCT
* * * *
16240575 TAGAAATCATGCTCGGAGGTCTTACAGAATCGATTACGAGAACAC-CAAAGTCGAAAGATAA-AG
1 TAGAAATCATGCCCGGAGGTCTTACAAAATCGACTACGAGAACACGC-AAGT-GAAAAATAAGA-
* *
16240638 AATCAATTGAGATAACATCGCGAA
63 AATCAATCGAGATAACACCGCGAA
* * * ** * *
16240662 TCGAAATTATGCCCGGAGGTCTTACAAAATCTACTGGGATAACACTGCAAGTTAAAAATAAGAAA
1 TAGAAATCATGCCCGGAGGTCTTACAAAATCGACTACGAGAACAC-GCAAGTGAAAAATAAGAAA
*
16240727 TCGATCGAGATAACACCGCGAA
65 TCAATCGAGATAACACCGCGAA
16240749 TAGAAATCATGCCC
1 TAGAAATCATGCCC
16240763 AGAAATTTTA
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
87 76 0.93
88 5 0.06
89 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (86 bp):
TAGAAATCATGCCCGGAGGTCTTACAAAATCGACTACGAGAACACGCAAGTGAAAAATAAGAAAT
CAATCGAGATAACACCGCGAA
Found at i:16240730 original size:283 final size:285
Alignment explanation
Indices: 16240184--16240748 Score: 726
Period size: 283 Copynumber: 2.0 Consensus size: 285
16240174 GAGGTCTTAG
*
16240184 AAATTATGTCCGGAGGTCTTACAAAATCGATTGGATAACATCGCAAGTCAAAAAAATAAAAAATC
1 AAATTATGTCCGGAGGTCTTACAAAATCGACTGGATAACATCGCAAGTCAAAAAAATAAAAAATC
* ** * ** *
16240249 GATCGGGATAACACCTTAAATCAAAATTATACTCGGAGGTCTTAAAAATCATGCTCAGAGATCTT
66 GATCGAGATAACACCCCAAATCAAAATTATACCCAAAAGTCTTAAAAATCATGCTCAGAGATCTT
* * ** * ** *
16240314 ACAGAATCGATTGCGATAACATCGTAAGTCGAAAGATAAGGAATTGATCGGGATAACATCGCGAA
131 ACAGAATCGATTACGAGAACATCCAAAGTCGAAAGATAAAGAATCAATCGAGATAACATCGCGAA
** * * *
16240379 TCAAAATTATGTTCAGAGGTCTTACAGAATCGACTAGGATAACATCGTAGTCGAAAGATAAAAAA
196 TCAAAATTATGCCCAGAGGTCTTACAAAATCGACTAGGATAACATCGAAGTCGAAAAATAAAAAA
*
16240444 TCGATCGAGATAACATCGCGAACCA
261 TCGATCGAGATAACACCGCGAACCA
* * * * *
16240469 AAATTATG-CTCGGAGGTCTTACAGAATCGACTGGATAATATCGTAAGTC-AAAAGATAAAGAAT
1 AAATTATGTC-CGGAGGTCTTACAAAATCGACTGGATAACATCGCAAGTCAAAAAAATAAAAAAT
* * * *
16240532 CGATCGAGATAACACCCCGAATCAAAATTATACCCAAAAGTCTTAGAAATCATGCTCGGAGGTCT
65 CGATCGAGATAACACCCCAAATCAAAATTATACCCAAAAGTCTTAAAAATCATGCTCAGAGATCT
*
16240597 TACAGAATCGATTACGAGAACA-CCAAAGTCGAAAGATAAAGAATCAATTGAGATAACATCGCGA
130 TACAGAATCGATTACGAGAACATCCAAAGTCGAAAGATAAAGAATCAATCGAGATAACATCGCGA
* * * * * *
16240661 ATCGAAATTATGCCCGGAGGTCTTACAAAATCTACTGGGATAACA-CTGCAAGT-TAAAAATAAG
195 ATCAAAATTATGCCCAGAGGTCTTACAAAATCGACTAGGATAACATC-G-AAGTCGAAAAATAAA
16240724 AAATCGATCGAGATAACACCGCGAA
258 AAATCGATCGAGATAACACCGCGAA
16240749 TAGAAATCAT
Statistics
Matches: 239, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
282 1 0.00
283 105 0.44
284 90 0.38
285 43 0.18
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (285 bp):
AAATTATGTCCGGAGGTCTTACAAAATCGACTGGATAACATCGCAAGTCAAAAAAATAAAAAATC
GATCGAGATAACACCCCAAATCAAAATTATACCCAAAAGTCTTAAAAATCATGCTCAGAGATCTT
ACAGAATCGATTACGAGAACATCCAAAGTCGAAAGATAAAGAATCAATCGAGATAACATCGCGAA
TCAAAATTATGCCCAGAGGTCTTACAAAATCGACTAGGATAACATCGAAGTCGAAAAATAAAAAA
TCGATCGAGATAACACCGCGAACCA
Found at i:16240993 original size:110 final size:110
Alignment explanation
Indices: 16240678--16241108 Score: 345
Period size: 110 Copynumber: 3.9 Consensus size: 110
16240668 TTATGCCCGG
* * *
16240678 AGGTCTTACAAAATCTACTGGGATAACACTGCAAGT-TAAAAAT-AAGAAATCGATCGAGATAAC
1 AGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAAATAAAG-AATCAATCGAGATAAC
* * * * *
16240741 ACCGCGAATAGAAATCATGCCCAGA-AATTTTAGAAATC--ATGCTCGA
65 ACCGCGAATCGAAATCATGCCCGGAGGA-CTTAGAAATCTTAT-CT-AA
* * * * ** * * * * *
16240787 AGATCTTACAGAATCGACTAGGATAATACCACAA-TCGAAAGATAAAGAATCGATCGGGATAGCA
1 AGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAAATAAAGAATCAATCGAGATAACA
* * * * *
16240851 CCGTGAATTGAAATAATACCCGGAAGGTCTTAGAAATCTTATCTAA
66 CCGCGAATCGAAATCATGCCCGG-AGGACTTAGAAATCTTATCTAA
* * *
16240897 AGGTTTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAAAATAAGGAATCAAT-GAAATAAC
1 AGGTCTTACAAAATCGACTGGGATAACACTGCAAGTC-AAAAAATAAAGAATCAATCGAGATAAC
* ** * *
16240961 ACCGTGAATCGAAATCATGCCCGGAGGACTTAGAAATCTTGCCCAG
65 ACCGCGAATCGAAATCATGCCCGGAGGACTTAGAAATCTTATCTAA
* * * * * * * *
16241007 AGGTCTTACAGAATTGATTGTGACAACACTGCAAGTCAAAAAATAAAGAATCGATTGGGATAACA
1 AGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAAATAAAGAATCAATCGAGATAACA
* * * * * *
16241072 TCGCGAATCAAAATTATGCCTGGAAGTCTTAGAAATC
66 CCGCGAATCGAAATCATGCCCGGAGGACTTAGAAATC
16241109 AAAATCTTTT
Statistics
Matches: 254, Mismatches: 59, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
108 1 0.00
109 81 0.32
110 126 0.50
111 30 0.12
112 16 0.06
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (110 bp):
AGGTCTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAAATAAAGAATCAATCGAGATAACA
CCGCGAATCGAAATCATGCCCGGAGGACTTAGAAATCTTATCTAA
Found at i:16241003 original size:22 final size:22
Alignment explanation
Indices: 16240971--16241014 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16240961 ACCGTGAATC
*
16240971 GAAATCATGCCCGGAGGACTTA
1 GAAATCATGCCCAGAGGACTTA
* *
16240993 GAAATCTTGCCCAGAGGTCTTA
1 GAAATCATGCCCAGAGGACTTA
16241015 CAGAATTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (22 bp):
GAAATCATGCCCAGAGGACTTA
Found at i:16241103 original size:220 final size:219
Alignment explanation
Indices: 16240678--16241108 Score: 494
Period size: 220 Copynumber: 2.0 Consensus size: 219
16240668 TTATGCCCGG
* * * *
16240678 AGGTCTTACAAAATCTACTGGGATAACACTGCAAGTTAAAAATAAGAAATCGATCGAGATAACAC
1 AGGTCTTACAAAATCGACTGGGATAACACTGCAAGTAAAAAATAAGAAATCAATCGAAATAACAC
* *
16240743 CGCGAATAGAAATCATGCCCAGAAATTTTAGAAATCATGCTCGAAGATCTTACAGAATCGACTAG
66 CGCGAATAGAAATCATGCCCAGAAATCTTAGAAATCATGCCCGAAGATCTTACAGAATCGACTAG
* * * * * * **
16240808 GATAATACCACAATCGAAAGATAAAGAATCGATCGGGATAGCACCGTGAATTGAAATAATACCCG
131 GACAACACCACAATCAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCAAAATAATACCCG
16240873 GAAGGTCTTAGAAATCTTATCTAA
196 GAAGGTCTTAGAAATCTTATCTAA
* *
16240897 AGGTTTTACAAAATCGACTGGGATAACACTGCAAGTCAAAAAAATAAGGAATCAAT-GAAATAAC
1 AGGTCTTACAAAATCGACTGGGATAACACTGCAAGT--AAAAAATAAGAAATCAATCGAAATAAC
* * * * * * *
16240961 ACCGTGAATCGAAATCATGCCCGGAGGA-CTTAGAAATCTTGCCC-AGAGGTCTTACAGAATTGA
64 ACCGCGAATAGAAATCATGCCCAGA-AATCTTAGAAATCATGCCCGA-AGATCTTACAGAATCGA
* ** * * *
16241024 -TTGTGACAACACTGCAAGTCAAAAAATAAAGAATCGATTGGGATAACATCGCGAATCAAAATTA
127 CTAG-GACAACACCACAA-TCAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCAAAATAA
* *
16241088 TGCCTGGAA-GTCTTAGAAATC
190 TACCCGGAAGGTCTTAGAAATC
16241109 AAAATCTTTT
Statistics
Matches: 175, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
219 37 0.21
220 78 0.45
221 60 0.34
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (219 bp):
AGGTCTTACAAAATCGACTGGGATAACACTGCAAGTAAAAAATAAGAAATCAATCGAAATAACAC
CGCGAATAGAAATCATGCCCAGAAATCTTAGAAATCATGCCCGAAGATCTTACAGAATCGACTAG
GACAACACCACAATCAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCAAAATAATACCCG
GAAGGTCTTAGAAATCTTATCTAA
Found at i:16241300 original size:41 final size:40
Alignment explanation
Indices: 16241255--16241352 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 40
16241245 AAAAGTTTTA
* * *
16241255 AAATCTTGATTGAAATTGGTTCCTCTTAAACAGAAGCTTTG
1 AAATCTTGATTAAAAATGGTTCCTCTTAAACAG-AGATTTG
* *
16241296 AAATCTTGATTAAAAATGGTTCCTTTTAAACAGAGATTTT
1 AAATCTTGATTAAAAATGGTTCCTCTTAAACAGAGATTTG
16241336 AAATTCTTGATTAAAAA
1 AAA-TCTTGATTAAAAA
16241353 CAAGGCTCTG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 8 0.16
41 43 0.84
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (40 bp):
AAATCTTGATTAAAAATGGTTCCTCTTAAACAGAGATTTG
Found at i:16241672 original size:15 final size:17
Alignment explanation
Indices: 16241634--16241670 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
16241624 GGGAGGATTG
16241634 TATTTGTCTTTTTTTTT
1 TATTTGTCTTTTTTTTT
16241651 TATTTGT-TTTTTTTTT
1 TATTTGTCTTTTTTTTT
16241667 TATT
1 TATT
16241671 GTATTCTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.84
Consensus pattern (17 bp):
TATTTGTCTTTTTTTTT
Found at i:16242060 original size:18 final size:17
Alignment explanation
Indices: 16242035--16242074 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
16242025 TTTTTATTTT
16242035 TTATTTTTTAAAAATAA
1 TTATTTTTTAAAAATAA
* *
16242052 TTATATTTTTTAAAATTA
1 TTAT-TTTTTAAAAATAA
16242070 TTATT
1 TTATT
16242075 ATTATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTTTTAAAAATAA
Found at i:16242437 original size:88 final size:88
Alignment explanation
Indices: 16242315--16242512 Score: 270
Period size: 88 Copynumber: 2.2 Consensus size: 88
16242305 GAAGGTCTTA
* * * * *
16242315 GAAATCATACCCGAAGATCTTATAGAATCAATTGGGATAACATCGTAAGTCGAAAGATAAAGAAT
1 GAAATCATGCCCGGAGATCTTACAGAATCAATTGGGATAACACCGTAAGTCAAAAGATAAAGAAT
* *
16242380 CGATCGGGATAACTCCATGAATC
66 CGATCGGGATAACACCACGAATC
* * * *
16242403 GAAATCATGCTCGGAGGTCTTACAGAATTAATTGGGATAATACCGTAAGTCAAAAGATAAAGAAT
1 GAAATCATGCCCGGAGATCTTACAGAATCAATTGGGATAACACCGTAAGTCAAAAGATAAAGAAT
* *
16242468 CGATGGGGATAACACCGCGAATC
66 CGATCGGGATAACACCACGAATC
*
16242491 GAAATTATGCCCGGAGATCTTA
1 GAAATCATGCCCGGAGATCTTA
16242513 AAAATCATGC
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 94 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (88 bp):
GAAATCATGCCCGGAGATCTTACAGAATCAATTGGGATAACACCGTAAGTCAAAAGATAAAGAAT
CGATCGGGATAACACCACGAATC
Found at i:16242533 original size:110 final size:110
Alignment explanation
Indices: 16242404--16242739 Score: 422
Period size: 110 Copynumber: 3.0 Consensus size: 110
16242394 CCATGAATCG
* ** * * * *
16242404 AAATCATGCTCGGAGGTCTTACAGAATTAATTGGGATAATACCGTAAGTCAAAAGATAAAGAATC
1 AAATCATGCTCAGAGGTCTTACAGAATCGACTGAGATAATATCGTAAGTCGAAAGATAAAGAATC
** **
16242469 GATGGGGATAACACCGCGAATCGAAATTATGCCC-GGAGATCTTAA
66 GATCAGGATAACACCGCGAATCGAAATTATGCCCAAAAG-TCTTAA
* *
16242514 AAATCATGCTCAGAGGTCTTACAGAATCGACTGAGATAACATCGTAAGTTGAAAGATAAAGAATC
1 AAATCATGCTCAGAGGTCTTACAGAATCGACTGAGATAATATCGTAAGTCGAAAGATAAAGAATC
* * * *
16242579 GATCAAGATAACACCGTGAATCGAAATTATACCCAAAAGTTTTAA
66 GATCAGGATAACACCGCGAATCGAAATTATGCCCAAAAGTCTTAA
* * * *
16242624 AAATCATGCCCAAAGGTCTTACAGAATCGACTGAGATAATATTGCAAGTCGAAAGATAAAGAATC
1 AAATCATGCTCAGAGGTCTTACAGAATCGACTGAGATAATATCGTAAGTCGAAAGATAAAGAATC
* * * *
16242689 GATCAGGATAACATCGCGAATCAAAATTATGCTCAGAAGTCTTACA
66 GATCAGGATAACACCGCGAATCGAAATTATGCCCAAAAGTCTTA-A
16242735 AAATC
1 AAATC
16242740 GACTAGGATA
Statistics
Matches: 193, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
110 185 0.96
111 8 0.04
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (110 bp):
AAATCATGCTCAGAGGTCTTACAGAATCGACTGAGATAATATCGTAAGTCGAAAGATAAAGAATC
GATCAGGATAACACCGCGAATCGAAATTATGCCCAAAAGTCTTAA
Found at i:16242802 original size:87 final size:88
Alignment explanation
Indices: 16242639--16242805 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 88
16242629 ATGCCCAAAG
* * ** * *
16242639 GTCTTACAGAATCGACTGAGATAATATTGCAAGTCGAAAGATAAAGAATCGATCAGGATAACATC
1 GTCTTACAAAATCGACTGAGATAACACCGCAAGTCGAAAGATAAAGAATCAATCAGGATAACACC
*
16242704 GCGAATCAAAATTATGCTCAGAA
66 GCAAATCAAAATTATGCTCAGAA
16242727 GTCTTACAAAATCGACT-AGGATAACACCGC-AGTCGAAAGATAAAGAATCAATC-GGAATAACA
1 GTCTTACAAAATCGACTGA-GATAACACCGCAAGTCGAAAGATAAAGAATCAATCAGG-ATAACA
*
16242789 CCGCAAATTAAAATTAT
64 CCGCAAATCAAAATTAT
16242806 ACCCGGAGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 2 0.03
87 43 0.62
88 24 0.35
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (88 bp):
GTCTTACAAAATCGACTGAGATAACACCGCAAGTCGAAAGATAAAGAATCAATCAGGATAACACC
GCAAATCAAAATTATGCTCAGAA
Found at i:16242818 original size:87 final size:88
Alignment explanation
Indices: 16242623--16242819 Score: 220
Period size: 87 Copynumber: 2.2 Consensus size: 88
16242613 AAAAGTTTTA
* * * * * **
16242623 AAAATCATGCCCAAAGGTCTTACAGAATCGACTGAGATAATATTGCAAGTCGAAAGATAAAGAAT
1 AAAATTATACCCAGAGGTCTTACAAAATCGACTGAGATAACACCGCAAGTCGAAAGATAAAGAAT
* * *
16242688 CGATCAGGATAACATCGCGAATC
66 CAATCAGGATAACACCGCAAATC
* * *
16242711 AAAATTATGCTCAGAAGTCTTACAAAATCGACT-AGGATAACACCGC-AGTCGAAAGATAAAGAA
1 AAAATTATACCCAGAGGTCTTACAAAATCGACTGA-GATAACACCGCAAGTCGAAAGATAAAGAA
*
16242774 TCAATC-GGAATAACACCGCAAATT
65 TCAATCAGG-ATAACACCGCAAATC
*
16242798 AAAATTATACCCGGAGGTCTTA
1 AAAATTATACCCAGAGGTCTTA
16242820 GAAATCATGC
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
86 2 0.02
87 53 0.58
88 36 0.40
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (88 bp):
AAAATTATACCCAGAGGTCTTACAAAATCGACTGAGATAACACCGCAAGTCGAAAGATAAAGAAT
CAATCAGGATAACACCGCAAATC
Found at i:16242983 original size:22 final size:22
Alignment explanation
Indices: 16242952--16242995 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16242942 ATCGCGAATC
* * *
16242952 AAAATTATGCTCGGAGGTCTTA
1 AAAATCATGCTCGAAAGTCTTA
16242974 AAAATCATGCTCGAAAGTCTTA
1 AAAATCATGCTCGAAAGTCTTA
16242996 TAGAATCGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (22 bp):
AAAATCATGCTCGAAAGTCTTA
Found at i:16243083 original size:110 final size:109
Alignment explanation
Indices: 16242884--16243083 Score: 242
Period size: 110 Copynumber: 1.8 Consensus size: 109
16242874 TCCAGAGGTT
* * * * * *
16242884 TTATAGAATCGACTAGGATAATACCATAGTCGAAAGATAAAGAATCGATCGGGATAACATCGCGA
1 TTATAGAATCGACTAGGATAACACCATAGTCAAAAGATAAAGAATCAATCGAGATAACACCACGA
*
16242949 ATCAAAATTATGCTCGGAGGTCTTAAAAATCATGCTCGAAAGTC
66 ATCAAAATTATGCTCGGAGATCTTAAAAATCATGCTCGAAAGTC
* * *
16242993 TTATAGAATCGACT-GTGATAACACCGTAAGTCAAAAGATAAGGAATCAATCGAGATAACACCAT
1 TTATAGAATCGACTAG-GATAACACCAT-AGTCAAAAGATAAAGAATCAATCGAGATAACACCAC
** *
16243057 GAATTGAAATTATG-TCCGGATATCTTA
64 GAATCAAAATTATGCT-CGGAGATCTTA
16243084 CAGAATCGAC
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
108 1 0.01
109 24 0.32
110 50 0.67
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (109 bp):
TTATAGAATCGACTAGGATAACACCATAGTCAAAAGATAAAGAATCAATCGAGATAACACCACGA
ATCAAAATTATGCTCGGAGATCTTAAAAATCATGCTCGAAAGTC
Found at i:16243156 original size:87 final size:88
Alignment explanation
Indices: 16242991--16243156 Score: 217
Period size: 87 Copynumber: 1.9 Consensus size: 88
16242981 TGCTCGAAAG
* * **
16242991 TCTTATAGAATCGACTGTGATAACACCGTAAGTCAAAAGATAAGGAATCAATCGAGATAACACCA
1 TCTTACAGAATCGACTGTGATAACACCGTAAGTCAAAAAATAAAAAATCAATCGAGATAACACCA
* **
16243056 TGAATTGAAATTATGTCCGGATA
66 CGAATCAAAATTATGTCCGGATA
* * * * *
16243079 TCTTACAGAATCGACTGTGATAACATCGT-AGTCAAAAAATAAAAAATCGATTGAGATAACATCG
1 TCTTACAGAATCGACTGTGATAACACCGTAAGTCAAAAAATAAAAAATCAATCGAGATAACACCA
16243143 CGAATCAAAATTAT
66 CGAATCAAAATTAT
16243157 ACCTAAAGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 39 0.59
88 27 0.41
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (88 bp):
TCTTACAGAATCGACTGTGATAACACCGTAAGTCAAAAAATAAAAAATCAATCGAGATAACACCA
CGAATCAAAATTATGTCCGGATA
Found at i:16243226 original size:109 final size:109
Alignment explanation
Indices: 16243079--16243609 Score: 526
Period size: 109 Copynumber: 4.8 Consensus size: 109
16243069 TGTCCGGATA
* * * *
16243079 TCTTACAGAATCGACTGTGATAACATCGTAGTCAAAAAATAAAAAATCGATTGAGATAACATCGC
1 TCTTACAGAATCGACTGGGATAACATCGCAGTCAAAAAATAAAAAATTGATCGAGATAACATCGC
* * * * *
16243144 GAATCAAAATTATACCTAAAGGTCTTAAAAATTATGCTTGGAGA
66 GAATCAAAATTATACCTGAAGGTCTTAAAAATCATACTCGGAGG
* * * * *
16243188 TGTTACAGAATCAACTGGGATAACACCGCAGTCGAAAAACAAAAAATTGATCGAGATAACATCGC
1 TCTTACAGAATCGACTGGGATAACATCGCAGTCAAAAAATAAAAAATTGATCGAGATAACATCGC
* * * * * * *
16243253 GAATCAAAATTATGCCCGGAGATCATAAAAATCATACACGGAGC
66 GAATCAAAATTATACCTGAAGGTCTTAAAAATCATACTCGGAGG
* * * * *
16243297 TCTTACAGAATCGACTGGGATAACACCTCAAGTCAAAAAATAAAAAATTGATCGGGATAATACCG
1 TCTTACAGAATCGACTGGGATAACATCGC-AGTCAAAAAATAAAAAATTGATCGAGATAACATCG
* * * *
16243362 TGAATCGAAATTATGCCCGGAA-GTCTTAAAAATCATACTCGGAGG
65 CGAATCAAAATTAT-ACCTGAAGGTCTTAAAAATCATACTCGGAGG
* * ** * * ** *
16243407 TCTTACAGAATCGACTAGAATAACATTACAGTCGAAAGATAAGGAATCGATC-AGGATAACATCG
1 TCTTACAGAATCGACTGGGATAACATCGCAGTCAAAAAATAAAAAATTGATCGA-GATAACATCG
** * * *
16243471 TAAATCAAAATTATACCTGGAGGTCTTAAAAATTATACCCGGAGG
65 CGAATCAAAATTATACCTGAAGGTCTTAAAAATCATACTCGGAGG
* * * *
16243516 TCTTACAAAATCGATTGGGATAACATCGCAAGTCAAAAAATTAAAAAATTGATCGGGATAACATA
1 TCTTACAGAATCGACTGGGATAACATCGC-AGTCAAAAAA-TAAAAAATTGATCGAGATAACATC
** * * *
16243581 TAGAATCAAAATTATGCCCGGAGGTCTTA
64 GCGAATCAAAATTATACCTGAAGGTCTTA
16243610 CATAATCGAT
Statistics
Matches: 340, Mismatches: 75, Indels: 12
0.80 0.18 0.03
Matches are distributed among these distances:
108 4 0.01
109 197 0.58
110 93 0.27
111 46 0.14
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (109 bp):
TCTTACAGAATCGACTGGGATAACATCGCAGTCAAAAAATAAAAAATTGATCGAGATAACATCGC
GAATCAAAATTATACCTGAAGGTCTTAAAAATCATACTCGGAGG
Found at i:16243375 original size:219 final size:218
Alignment explanation
Indices: 16243079--16243596 Score: 565
Period size: 219 Copynumber: 2.4 Consensus size: 218
16243069 TGTCCGGATA
* * * * * *
16243079 TCTTACAGAATCGACTGTGATAACA-TCGTAGTCAAAAAATAAAAAATCGATTGAGATAACATCG
1 TCTTACAGAATCGACTGGGATAACACTC-AAGTCAAAAAATAAAAAATTGATCGGGATAACACCG
* * * * * * *
16243143 CGAATCAAAATTAT-ACCTAAAGGTCTTAAAAATTATGCTTGGAGATGTTACAGAATCAACTGGG
65 CGAATCAAAATTATGACCGAAA-GTCTTAAAAATCATACTCGGAGATCTTACAGAATCAACTAGA
* * * *
16243207 ATAACACCGCAGTCGAAAAACAAAAAATTGATC-GAGATAACATCGCGAATCAAAATTATGCCCG
129 ATAACACCACAGTCGAAAAACAAAAAATCGATCAG-GATAACATCGCAAATCAAAATTATACCCG
16243271 GAGATCATAAAAATCATACACGGAGC
193 GAGATCATAAAAATCATACACGGAGC
*
16243297 TCTTACAGAATCGACTGGGATAACACCTCAAGTCAAAAAATAAAAAATTGATCGGGATAATACCG
1 TCTTACAGAATCGACTGGGATAACA-CTCAAGTCAAAAAATAAAAAATTGATCGGGATAACACCG
* * * * * *
16243362 TGAATCGAAATTATGCCCGGAAGTCTTAAAAATCATACTCGGAGGTCTTACAGAATCGACTAGAA
65 CGAATCAAAATTATGACCGAAAGTCTTAAAAATCATACTCGGAGATCTTACAGAATCAACTAGAA
** * * ** * *
16243427 TAACATTACAGTCGAAAGATAAGGAATCGATCAGGATAACATCGTAAATCAAAATTATACCTGGA
130 TAACACCACAGTCGAAAAACAAAAAATCGATCAGGATAACATCGCAAATCAAAATTATACCCGGA
* * * * *
16243492 GGTCTTAAAAATTATACCCGGAGG
195 GATCATAAAAATCATACACGGAGC
* * * **
16243516 TCTTACAAAATCGATTGGGATAACATCGCAAGTCAAAAAATTAAAAAATTGATCGGGATAACATA
1 TCTTACAGAATCGACTGGGATAACA-CTCAAGTCAAAAAA-TAAAAAATTGATCGGGATAACACC
**
16243581 TAGAATCAAAATTATG
64 GCGAATCAAAATTATG
16243597 CCCGGAGGTC
Statistics
Matches: 248, Mismatches: 47, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
218 24 0.10
219 183 0.74
220 41 0.17
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (218 bp):
TCTTACAGAATCGACTGGGATAACACTCAAGTCAAAAAATAAAAAATTGATCGGGATAACACCGC
GAATCAAAATTATGACCGAAAGTCTTAAAAATCATACTCGGAGATCTTACAGAATCAACTAGAAT
AACACCACAGTCGAAAAACAAAAAATCGATCAGGATAACATCGCAAATCAAAATTATACCCGGAG
ATCATAAAAATCATACACGGAGC
Found at i:16243504 original size:22 final size:23
Alignment explanation
Indices: 16243476--16243526 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
16243466 CATCGTAAAT
*
16243476 CAAAATTATACCTGGAGGTCTTA
1 CAAAATTATACCCGGAGGTCTTA
16243499 -AAAATTATACCCGGAGGTCTTA
1 CAAAATTATACCCGGAGGTCTTA
16243521 CAAAAT
1 CAAAAT
16243527 CGATTGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (23 bp):
CAAAATTATACCCGGAGGTCTTA
Found at i:16243705 original size:88 final size:88
Alignment explanation
Indices: 16243510--16243878 Score: 406
Period size: 88 Copynumber: 4.2 Consensus size: 88
16243500 AAATTATACC
* * * ** * *
16243510 CGGAGGTCTTACAAAATCGATTGGGATAACATCGCAAGTCAAAAAATTAAAAAATTGATCGGGAT
1 CGGAGGTCTTACAAAATCGATTGAGATAACATCGTAAGTCAAAAGA-TAAGGAATCGATCGAGAT
* **
16243575 AACAT-ATAGAATCAAAATTATGCC
65 AACATCACA-AATCAAAATTATGTT
* * * *
16243599 CGGAGGTCTTACATAATCGATTGAGATAACATCGTAAGTCGAAATATAAGGAATCGATTGAGATA
1 CGGAGGTCTTACAAAATCGATTGAGATAACATCGTAAGTCAAAAGATAAGGAATCGATCGAGATA
*
16243664 ACATCGCAAATCAAAATTATGTT
66 ACATCACAAATCAAAATTATGTT
* * * * *
16243687 CGGAGGTCTTACAAAATCGACT-ATGATAACATCG-CAGTCGAAAGATAATGAATCGATCGGGAT
1 CGGAGGTCTTACAAAATCGATTGA-GATAACATCGTAAGTCAAAAGATAAGGAATCGATCGAGAT
*
16243750 AACATCACGAATCAAAATTATGTT
65 AACATCACAAATCAAAATTATGTT
* * * * *
16243774 CGAAGGTCTTACAGAATCGATTGGGATAACACCATAAGTCAAAAGATAAGGAATCGATCGAGATA
1 CGGAGGTCTTACAAAATCGATTGAGATAACATCGTAAGTCAAAAGATAAGGAATCGATCGAGATA
* * *
16243839 ACACCGCGAATCAAAATTATGCTT
66 ACATCACAAATCAAAATTATG-TT
16243863 -GGAGGTCTTA-AAAATC
1 CGGAGGTCTTACAAAATC
16243879 ATGTTTGGAG
Statistics
Matches: 238, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
87 79 0.33
88 115 0.48
89 44 0.18
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (88 bp):
CGGAGGTCTTACAAAATCGATTGAGATAACATCGTAAGTCAAAAGATAAGGAATCGATCGAGATA
ACATCACAAATCAAAATTATGTT
Found at i:16243794 original size:175 final size:178
Alignment explanation
Indices: 16243510--16243878 Score: 498
Period size: 175 Copynumber: 2.1 Consensus size: 178
16243500 AAATTATACC
* * *
16243510 CGGAGGTCTTACAAAATCGATTGGGATAACATCGCAAGTCAAAAAATTAAAAAATTGATCGGGAT
1 CGGAGGTCTTACAAAATCGACTAGGATAACATCGCAAGTCAAAAAATTAAAAAATCGATCGGGAT
* * * * *
16243575 AACATATAGAATCAAAATTATGCCCGGAGGTCTTACATAATCGATTGAGATAACATCGTAAGTCG
66 AACATATAGAATCAAAATTATGCCCGAAGGTCTTACAGAATCGATTGAGATAACACCATAAGTCA
* * *
16243640 AAATATAAGGAATCGATTGAGATAACATCGCAAATCAAAATTATG-TT
131 AAAGATAAGGAATCGATCGAGATAACACCGCAAATCAAAATTATGCTT
* * * **
16243687 CGGAGGTCTTACAAAATCGACTATGATAACATCGC-AGTCGAAAGA-TAATGAATCGATCGGGAT
1 CGGAGGTCTTACAAAATCGACTAGGATAACATCGCAAGTCAAAAAATTAAAAAATCGATCGGGAT
* ** *
16243750 AACATCA-CGAATCAAAATTATGTTCGAAGGTCTTACAGAATCGATTGGGATAACACCATAAGTC
66 AACAT-ATAGAATCAAAATTATGCCCGAAGGTCTTACAGAATCGATTGAGATAACACCATAAGTC
*
16243814 AAAAGATAAGGAATCGATCGAGATAACACCGCGAATCAAAATTATGCTT
130 AAAAGATAAGGAATCGATCGAGATAACACCGCAAATCAAAATTATGCTT
16243863 -GGAGGTCTTA-AAAATC
1 CGGAGGTCTTACAAAATC
16243879 ATGTTTGGAG
Statistics
Matches: 169, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
174 6 0.04
175 120 0.71
176 11 0.07
177 32 0.19
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (178 bp):
CGGAGGTCTTACAAAATCGACTAGGATAACATCGCAAGTCAAAAAATTAAAAAATCGATCGGGAT
AACATATAGAATCAAAATTATGCCCGAAGGTCTTACAGAATCGATTGAGATAACACCATAAGTCA
AAAGATAAGGAATCGATCGAGATAACACCGCAAATCAAAATTATGCTT
Found at i:16243886 original size:22 final size:22
Alignment explanation
Indices: 16243851--16243894 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16243841 ACCGCGAATC
*
16243851 AAAATTATGCTTGGAGGTCTTA
1 AAAATCATGCTTGGAGGTCTTA
*
16243873 AAAATCATGTTTGGAGGTCTTA
1 AAAATCATGCTTGGAGGTCTTA
16243895 CAGAATCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (22 bp):
AAAATCATGCTTGGAGGTCTTA
Found at i:16244090 original size:109 final size:109
Alignment explanation
Indices: 16243763--16244090 Score: 422
Period size: 109 Copynumber: 3.0 Consensus size: 109
16243753 ATCACGAATC
* * * *
16243763 AAAATTATGTTCGAAGGTCTTACAGAATCGATTGGGATAACACCATAAGTCAAAAGATAAGGAAT
1 AAAATCATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCA-AAGTCGAAAGATAAGGAAT
***
16243828 CGATCGAGATAACACCGCGAATCAAAATTATGCTTGGAGGTCTTA
65 CGATCGAGATAACACCGCGAATCAAAATTATGCCCAGAGGTCTTA
* * * * * *
16243873 AAAATCATGTTTGGAGGTCTTACAGAATCAACTGGGAGAACACCACAGTCGAAAGATAAGGAATC
1 AAAATCATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCAAAGTCGAAAGATAAGGAATC
* * **
16243938 GATCGAGATAACACCGCGAATCAAAATTATACCCAAAAATCTTA
66 GATCGAGATAACACCGCGAATCAAAATTATGCCCAGAGGTCTTA
* * * *
16243982 GAAATCATGCTCGGAGGTCTTATAGAATCGATTGCGATAACATCAAAGTCGAAAGATAAGGAATC
1 AAAATCATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCAAAGTCGAAAGATAAGGAATC
* * **
16244047 GATCGAGATAACATCGTGAATTGAAATTATGCCCAGAGGTCTTA
66 GATCGAGATAACACCGCGAATCAAAATTATGCCCAGAGGTCTTA
16244091 CAGAATCGAT
Statistics
Matches: 185, Mismatches: 33, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
109 146 0.79
110 39 0.21
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (109 bp):
AAAATCATGCTCGGAGGTCTTACAGAATCGATTGGGATAACACCAAAGTCGAAAGATAAGGAATC
GATCGAGATAACACCGCGAATCAAAATTATGCCCAGAGGTCTTA
Found at i:16244101 original size:87 final size:87
Alignment explanation
Indices: 16243995--16244234 Score: 302
Period size: 87 Copynumber: 2.7 Consensus size: 87
16243985 ATCATGCTCG
*
16243995 GAGGTCTTATAGAATCGATTGCGATAACATCAAAGTCGAAAGATAAGGAATCGATCGAGATAACA
1 GAGGTCTTACAGAATCGATTGCGATAACATCAAAGTCGAAAGATAAGGAATCGATCGAGATAACA
*
16244060 TCGTGAATTGAAATTATGCCCA
66 TCATGAATTGAAATTATGCCCA
* * * *
16244082 GAGGTCTTACAGAATCGATTGCAATAACACCAAAGTCGAAAGATAAAGAATCGATCGAGAAAACA
1 GAGGTCTTACAGAATCGATTGCGATAACATCAAAGTCGAAAGATAAGGAATCGATCGAGATAACA
** *
16244147 TCATGAATTGAAATTATGTTCG
66 TCATGAATTGAAATTATGCCCA
* * * * * * * *
16244169 GAGGTCTTACATAATTGACTGGGATAACATCGCAAGTCAAAAAATAAGAAATCGATC-AGGATAA
1 GAGGTCTTACAGAATCGATTGCGATAACATC-AAAGTCGAAAGATAAGGAATCGATCGA-GATAA
16244233 CA
64 CA
16244235 CCACGAATCA
Statistics
Matches: 130, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 104 0.80
88 26 0.20
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (87 bp):
GAGGTCTTACAGAATCGATTGCGATAACATCAAAGTCGAAAGATAAGGAATCGATCGAGATAACA
TCATGAATTGAAATTATGCCCA
Found at i:16244283 original size:22 final size:23
Alignment explanation
Indices: 16244243--16244294 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
16244233 CACCACGAAT
* * *
16244243 CAAAATCATGCCCGGAGATTTTA
1 CAAAATCATACCCGAAGATCTTA
*
16244266 -AAAATCATACTCGAAGATCTTA
1 CAAAATCATACCCGAAGATCTTA
16244288 CAAAATC
1 CAAAATC
16244295 GACTAGGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (23 bp):
CAAAATCATACCCGAAGATCTTA
Found at i:16244360 original size:393 final size:389
Alignment explanation
Indices: 16243588--16244559 Score: 1016
Period size: 393 Copynumber: 2.5 Consensus size: 389
16243578 ATATAGAATC
* * *
16243588 AAAATTATGCCCGGAGGTCTTACATAATCGATTGAGATAACATCGTAAGTCGAAATATAAGGAAT
1 AAAATCATGCCCGGAGGTCTTACAGAATCGATTG-GATAACATC--AAGTCGAAAAATAAGGAAT
** * ** *
16243653 CGATTGAGATAACATCGCAAATCAAAATTATGTTCGGAGGTCTTACAAAATCGACTATGATAACA
63 CGATTGAGATAACATCGTGAATCGAAATTATGCCCGGAGGTCTTACAGAATCGA-T-TGATAACA
* ** * * *
16243718 TCGCAGTCGAAAGATAATGAATCGATCGGGATAACATCACGAATCAAAATTATGTTCGAAGGTCT
126 CCAAAGTCGAAAGATAAAGAATCGATCGAGAAAACATCACGAATCAAAATTATGTTCGAAGGTCT
* * * * *
16243783 TACAGAATCGATTGGGATAACACCATAAGTCAAAAGATAAGGAATCGATCGAGATAACACCGCGA
191 TACAGAATCGACTGGGATAACACCACAAGTCAAAAAATAAGAAATCGATCGAGATAACACCACGA
* ** * ** * * * * *
16243848 ATCAAAATTATGCTTGGAGGTCTTAAAAATCATGTTTGGAGGTCTTACAGAATCAACTGGGAGAA
256 ATCAAAATCATGCCCGGAGATCTTAAAAATCATACTCGAAGATCTTACAAAATCAACTAGGAGAA
* *
16243913 CACCACAGTCGAAAGATAAGGAATCGATCGAGATAACACCGCGAATCAAAATTATACCCAAAAAT
321 CACCACAGTCGAAAGATAAAGAATCGATCGAGATAACACCGCAAATCAAAATTATACCCAAAAAT
16243978 CTTA
386 CTTA
* * * *
16243982 GAAATCATGCTCGGAGGTCTTATAGAATCGATTGCGATAACATCAAAGTCGAAAGATAAGGAATC
1 AAAATCATGCCCGGAGGTCTTACAGAATCGATTG-GATAACATC-AAGTCGAAAAATAAGGAATC
* * *
16244047 GATCGAGATAACATCGTGAATTGAAATTATGCCCAGAGGTCTTACAGAATCGATTGCAATAACAC
64 GATTGAGATAACATCGTGAATCGAAATTATGCCCGGAGGTCTTACAGAATCGATTG--ATAACAC
* ** *
16244112 CAAAGTCGAAAGATAAAGAATCGATCGAGAAAACATCATGAATTGAAATTATGTTCGGAGGTCTT
127 CAAAGTCGAAAGATAAAGAATCGATCGAGAAAACATCACGAATCAAAATTATGTTCGAAGGTCTT
* * * *
16244177 ACATAATTGACTGGGATAACATCGCAAGTCAAAAAATAAGAAATCGATC-AGGATAACACCACGA
192 ACAGAATCGACTGGGATAACACCACAAGTCAAAAAATAAGAAATCGATCGA-GATAACACCACGA
* * *
16244241 ATCAAAATCATGCCCGGAGATTTTAAAAATCATACTCGAAGATCTTACAAAATCGACTAGGATAA
256 ATCAAAATCATGCCCGGAGATCTTAAAAATCATACTCGAAGATCTTACAAAATCAACTAGGAGAA
* * * * ** *** ** **
16244306 CA-CAGCAGTCGAAAGATAAATAATCGATCGAGATAGCATCGTAAATTGAAATTATGTTCGGAGG
321 CACCA-CAGTCGAAAGATAAAGAATCGATCGAGATAACACCGCAAATCAAAATTATACCCAAAAA
16244370 TCTTA
385 TCTTA
* * * * *
16244375 AAAATCTTGCCCGGAGGTCTTACAGAATCGACTGGATAATACTGCAAGTCAAAAAAATAAGAAAT
1 AAAATCATGCCCGGAGGTCTTACAGAATCGATTGGATAACA-T-CAAGTC-GAAAAATAAGGAAT
* * * * * **
16244440 CAATTGAGATAACACCGTGAATCGAAATCATGCCCGGAGGTTTTACAGAATTGATTG-TAACAAT
63 CGATTGAGATAACATCGTGAATCGAAATTATGCCCGGAGGTCTTACAGAATCGATTGATAACACC
* * * * *
16244504 AGTGCAAGTCAAAAAATAAAGAATCGAT-TAGGATAACATCGCGAATCAAAATTATG
128 A----AAGTCGAAAGATAAAGAATCGATCGA-GAAAACATCACGAATCAAAATTATG
16244560 CCCGGATGTC
Statistics
Matches: 474, Mismatches: 92, Indels: 23
0.80 0.16 0.04
Matches are distributed among these distances:
391 8 0.02
392 10 0.02
393 315 0.66
394 100 0.21
395 41 0.09
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.23
Consensus pattern (389 bp):
AAAATCATGCCCGGAGGTCTTACAGAATCGATTGGATAACATCAAGTCGAAAAATAAGGAATCGA
TTGAGATAACATCGTGAATCGAAATTATGCCCGGAGGTCTTACAGAATCGATTGATAACACCAAA
GTCGAAAGATAAAGAATCGATCGAGAAAACATCACGAATCAAAATTATGTTCGAAGGTCTTACAG
AATCGACTGGGATAACACCACAAGTCAAAAAATAAGAAATCGATCGAGATAACACCACGAATCAA
AATCATGCCCGGAGATCTTAAAAATCATACTCGAAGATCTTACAAAATCAACTAGGAGAACACCA
CAGTCGAAAGATAAAGAATCGATCGAGATAACACCGCAAATCAAAATTATACCCAAAAATCTTA
Found at i:16244539 original size:88 final size:88
Alignment explanation
Indices: 16244375--16244572 Score: 231
Period size: 88 Copynumber: 2.2 Consensus size: 88
16244365 GGAGGTCTTA
* * *
16244375 AAAATCTTGCCCGGAGGTCTTACAGAATCGACTGGATAATACTGCAAGTCAAAAAAATAAGAAAT
1 AAAATCATGCCCGGAGGTCTTACAGAATCGACTGAACAATACTGCAAGTCAAAAAAATAAGAAAT
*
16244440 CAATTGAGATAACACCGTGAATC
66 CAATTGAGATAACACCGCGAATC
* * * * *
16244463 GAAATCATGCCCGGAGGTTTTACAGAATTGATTGTAACAATAGTGCAAGTC-AAAAAATAA-AGA
1 AAAATCATGCCCGGAGGTCTTACAGAATCGACTG-AACAATACTGCAAGTCAAAAAAATAAGA-A
* *
16244526 ATCGATT-AGGATAACATCGCGAATC
64 ATCAATTGA-GATAACACCGCGAATC
* *
16244551 AAAATTATGCCCGGATGTCTTA
1 AAAATCATGCCCGGAGGTCTTA
16244573 GAAATCAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
87 2 0.02
88 77 0.84
89 13 0.14
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (88 bp):
AAAATCATGCCCGGAGGTCTTACAGAATCGACTGAACAATACTGCAAGTCAAAAAAATAAGAAAT
CAATTGAGATAACACCGCGAATC
Found at i:16244760 original size:41 final size:40
Alignment explanation
Indices: 16244702--16244846 Score: 155
Period size: 41 Copynumber: 3.5 Consensus size: 40
16244692 TCTGAAGAAA
* * * *
16244702 GTTCCTTCTAAATAAAAGTTTTGAAATCTTGATTGAAATTG
1 GTTCCTT-TAAACAAAAGCTTTGAAATCTTGATTAAAAATG
16244743 GTTCCTCTTAAACAAAAGCTTTGAAATCTTGATTAAAAATG
1 GTTCCT-TTAAACAAAAGCTTTGAAATCTTGATTAAAAATG
* * * **
16244784 GTTCCTTTTAAACAGAGGCTTTGAATTCTTGATTAAAAACA
1 GTTCC-TTTAAACAAAAGCTTTGAAATCTTGATTAAAAATG
* *
16244825 GCTCCTCTTAAACACAAGCTTT
1 GTTCCT-TTAAACAAAAGCTTT
16244847 AAAACTTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.01
41 86 0.97
42 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (40 bp):
GTTCCTTTAAACAAAAGCTTTGAAATCTTGATTAAAAATG
Found at i:16251005 original size:15 final size:16
Alignment explanation
Indices: 16250938--16251047 Score: 91
Period size: 17 Copynumber: 6.8 Consensus size: 16
16250928 TTAGGATTTT
16250938 GGATTTTGGATTTAAAG
1 GGATTTTGGATTT-AAG
*
16250955 TGG-TTTTGGATTTTAG
1 -GGATTTTGGATTTAAG
* ** *
16250971 GGGTTTCAGATTTTAGG
1 GGATTTTGGA-TTTAAG
16250988 GGA-TTTGGATTTAAG
1 GGATTTTGGATTTAAG
*
16251003 GGATTTTGGATTTTA-
1 GGATTTTGGATTTAAG
* *
16251018 GGACTTTGGATTTTAG
1 GGATTTTGGATTTAAG
16251034 GAGATTTTGGATTT
1 G-GATTTTGGATTT
16251048 TAGAGCTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
15 24 0.32
16 22 0.29
17 27 0.36
18 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (16 bp):
GGATTTTGGATTTAAG
Found at i:16251044 original size:17 final size:16
Alignment explanation
Indices: 16250938--16251050 Score: 115
Period size: 16 Copynumber: 7.0 Consensus size: 16
16250928 TTAGGATTTT
*
16250938 GGATTTTGGATTTAAAG
1 GGATTTTGGATTT-TAG
16250955 TGG-TTTTGGATTTTAG
1 -GGATTTTGGATTTTAG
* **
16250971 GGGTTTCAGATTTTAGG
1 GGATTTTGGATTTTA-G
*
16250988 GGA-TTTGGATTTAAG
1 GGATTTTGGATTTTAG
16251003 GGATTTTGGATTTTA-
1 GGATTTTGGATTTTAG
*
16251018 GGACTTTGGATTTTAG
1 GGATTTTGGATTTTAG
16251034 GAGATTTTGGATTTTAG
1 G-GATTTTGGATTTTAG
16251051 AGCTTTTAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
15 20 0.25
16 31 0.39
17 27 0.34
18 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (16 bp):
GGATTTTGGATTTTAG
Found at i:16251485 original size:18 final size:17
Alignment explanation
Indices: 16251462--16251506 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
16251452 ATGCATCAAT
*
16251462 ATAAAAAAAATACTTAAA
1 ATAAAAAAAATA-ATAAA
*
16251480 ATAAAAAATAATAATAAT
1 ATAAAAAA-AATAATAAA
16251498 ATAAAAAAA
1 ATAAAAAAA
16251507 TTAGAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 19 0.79
19 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAAAAAAATAATAAA
Found at i:16252581 original size:8 final size:8
Alignment explanation
Indices: 16252568--16252619 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
16252558 GCCACCCTAC
16252568 TTTTTATT
1 TTTTTATT
16252576 TTTTTATT
1 TTTTTATT
*
16252584 TTTTTGTT
1 TTTTTATT
*
16252592 TTTGTATT
1 TTTTTATT
16252600 ATTTTT-TGT
1 -TTTTTAT-T
*
16252609 TTTTTGTT
1 TTTTTATT
16252617 TTT
1 TTT
16252620 ATATAATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
8 31 0.84
9 6 0.16
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:16254069 original size:12 final size:13
Alignment explanation
Indices: 16254042--16254089 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
16254032 TTATCATGAT
*
16254042 ATATGAAATGCAAA
1 ATATGAAA-ACAAA
16254056 ATAT-AAAACAAA
1 ATATGAAAACAAA
*
16254068 ATATGAAAAAAAA
1 ATATGAAAACAAA
*
16254081 ATTTGAAAA
1 ATATGAAAA
16254090 GGAAGAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 8 0.27
13 18 0.60
14 4 0.13
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (13 bp):
ATATGAAAACAAA
Found at i:16255947 original size:21 final size:23
Alignment explanation
Indices: 16255923--16255981 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
16255913 AGATTTTGAA
16255923 GATTTAGATTTTAAGGG-TTT-G
1 GATTTAGATTTTAAGGGTTTTAG
*
16255944 GATTTA-AGTTTTGAGGGTTTTAG
1 GATTTAGA-TTTTAAGGGTTTTAG
*
16255967 GATTT-GGTTTTAAGG
1 GATTTAGATTTTAAGG
16255982 TATGAAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.03
21 14 0.45
22 10 0.32
23 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (23 bp):
GATTTAGATTTTAAGGGTTTTAG
Done.