Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 46 of 290
Found at i:14918694 original size:23 final size:22
Alignment explanation
Indices: 14918643--14918697 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
14918633 TTTTCCATTT
* *
14918643 TCATATTTTATTCACATTTTTT
1 TCATATTTTATACACATTTTTG
14918665 TCTATATTTTATAC-CATTTTATGG
1 TC-ATATTTTATACACATTTT-T-G
14918689 TCATATTTT
1 TCATATTTT
14918698 CGGCTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 8 0.29
23 18 0.64
24 2 0.07
ACGTcount: A:0.24, C:0.13, G:0.04, T:0.60
Consensus pattern (22 bp):
TCATATTTTATACACATTTTTG
Found at i:14929807 original size:20 final size:21
Alignment explanation
Indices: 14929770--14929809 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
14929760 GAAAAATAAA
14929770 AAAAATAAAATTAAGAATTTGG
1 AAAAATAAAA-TAAGAATTTGG
14929792 AAAAATAAAA-AAGAATTT
1 AAAAATAAAATAAGAATTT
14929810 AAAGTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (21 bp):
AAAAATAAAATAAGAATTTGG
Found at i:14930577 original size:10 final size:10
Alignment explanation
Indices: 14930558--14930607 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
14930548 TGAAATTCTA
14930558 AAAGATAAAT
1 AAAGATAAAT
14930568 ACAA-ATAAAT
1 A-AAGATAAAT
14930578 AAAGATAAAT
1 AAAGATAAAT
14930588 AAAGATAAAT
1 AAAGATAAAT
14930598 GAAA-ATAAAT
1 -AAAGATAAAT
14930608 CCTAGAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14934155 original size:18 final size:19
Alignment explanation
Indices: 14934119--14934160 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
14934109 AAATTACAAA
14934119 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
14934138 AAAATTCAAAAT-ATTTTT
1 AAAATTCAAAATAATTTTT
14934156 AAAAT
1 AAAAT
14934161 ATTATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:14934177 original size:24 final size:24
Alignment explanation
Indices: 14934149--14934194 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
14934139 AAATTCAAAA
14934149 TATTTTTAAAATATTATAAAATTT
1 TATTTTTAAAATATTATAAAATTT
14934173 TATTTTTAAAATATTATAAAAT
1 TATTTTTAAAATATTATAAAAT
14934195 ATTTCTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTTTTAAAATATTATAAAATTT
Found at i:14936142 original size:3 final size:3
Alignment explanation
Indices: 14936136--14936171 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14936126 ATATCAAAAA
14936136 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14936172 CAAAACTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14939088 original size:31 final size:30
Alignment explanation
Indices: 14939046--14939106 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
14939036 AAAAATAATA
14939046 ATAAAATATACATAAATTTTAATACAATTT
1 ATAAAATATACATAAATTTTAATACAATTT
* *
14939076 ATAATAATATACATTAATTTTAATTCAATTT
1 ATAA-AATATACATAAATTTTAATACAATTT
14939107 TCATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (30 bp):
ATAAAATATACATAAATTTTAATACAATTT
Found at i:14953617 original size:27 final size:28
Alignment explanation
Indices: 14953587--14953639 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
14953577 ATAGTTATAT
14953587 CTAAATTTTAAAATTTA-AAA-AGTATGA
1 CTAAATTTT-AAATTTACAAAGAGTATGA
14953614 CTAAATTTTAAATTTACAAAGAGTAT
1 CTAAATTTTAAATTTACAAAGAGTAT
14953640 AGGGACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (28 bp):
CTAAATTTTAAATTTACAAAGAGTATGA
Found at i:14956724 original size:21 final size:21
Alignment explanation
Indices: 14956700--14956765 Score: 132
Period size: 21 Copynumber: 3.1 Consensus size: 21
14956690 TTGTTATTTT
14956700 TTTTAAATAGACTTAACATAA
1 TTTTAAATAGACTTAACATAA
14956721 TTTTAAATAGACTTAACATAA
1 TTTTAAATAGACTTAACATAA
14956742 TTTTAAATAGACTTAACATAA
1 TTTTAAATAGACTTAACATAA
14956763 TTT
1 TTT
14956766 GTTATTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (21 bp):
TTTTAAATAGACTTAACATAA
Found at i:14956798 original size:21 final size:21
Alignment explanation
Indices: 14956774--14956819 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
14956764 TTGTTATTTT
14956774 TTTTAAATAGACTTAACATAA
1 TTTTAAATAGACTTAACATAA
14956795 TTTTAAATAGACTTAACATAA
1 TTTTAAATAGACTTAACATAA
14956816 TTTT
1 TTTT
14956820 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (21 bp):
TTTTAAATAGACTTAACATAA
Found at i:14956852 original size:53 final size:53
Alignment explanation
Indices: 14956721--14956831 Score: 197
Period size: 53 Copynumber: 2.1 Consensus size: 53
14956711 CTTAACATAA
14956721 TTTTAAATAGACTTAACATAATTTTAAATAGACTTAACATAATTTGTTATTTT
1 TTTTAAATAGACTTAACATAATTTTAAATAGACTTAACATAATTTGTTATTTT
*
14956774 TTTTAAATAGACTTAACATAATTTTAAATAGACTTAACATAATTT-TTTTTTAT
1 TTTTAAATAGACTTAACATAATTTTAAATAGACTTAACATAATTTGTTATTT-T
14956827 TTTTA
1 TTTTA
14956832 CATGACTAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 5 0.09
53 51 0.91
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (53 bp):
TTTTAAATAGACTTAACATAATTTTAAATAGACTTAACATAATTTGTTATTTT
Found at i:14958266 original size:19 final size:19
Alignment explanation
Indices: 14958242--14958285 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14958232 ACTAAACCAT
*
14958242 TTTAAAATTTAAAGAATAA
1 TTTAAAATCTAAAGAATAA
*
14958261 TTTAAAATCTAAATAATAA
1 TTTAAAATCTAAAGAATAA
14958280 TTTAAA
1 TTTAAA
14958286 TATGTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTTAAAATCTAAAGAATAA
Found at i:14968145 original size:6 final size:6
Alignment explanation
Indices: 14968134--14968164 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
14968124 GCTTTTTTAT
14968134 TTAATA TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA TTAATA T
14968165 AAAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:14968173 original size:18 final size:17
Alignment explanation
Indices: 14968132--14968173 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
14968122 GGGCTTTTTT
*
14968132 ATTTAATATTAATATTA
1 ATTTAATATTAATATAA
14968149 ATATTAATATTAATATAAA
1 AT-TTAATATTAATAT-AA
14968168 ATTTAA
1 ATTTAA
14968174 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAATATTAATATAA
Found at i:14968249 original size:9 final size:9
Alignment explanation
Indices: 14968227--14968260 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
14968217 ATATATATTT
*
14968227 AAAATTTTAA
1 AAAATTTT-G
14968237 AAAATTTTG
1 AAAATTTTG
14968246 AAAATTTTG
1 AAAATTTTG
14968255 AAAATT
1 AAAATT
14968261 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (9 bp):
AAAATTTTG
Found at i:14970356 original size:292 final size:291
Alignment explanation
Indices: 14969833--14970379 Score: 898
Period size: 292 Copynumber: 1.9 Consensus size: 291
14969823 CTTAGAAAAT
** * * *
14969833 TCATTCTTGATTCTTACAATGCAAGGTATTCATCAAAATGCGGTAATTCTTTTGGCCATAGACAA
1 TCATTCTCAATTCTTACAATGCAAGGCATTCAGCAAAATGCGATAATTCTTTTGGCCATAGACAA
* *
14969898 ATCCCTCTTCTTCCAATCCTTGAGCAATTCAAAAGCATCATTACTCTTCCCTTCACTACACAACT
66 ATCCCTCTTCTTCCAATCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCACTACACAACT
* *
14969963 CTTCCAATACGGTCTTATAAGTCAATAAATACAGCGCCATTGAGTGTTCCAACATATCATAAACA
131 CTTCCAATACGGTCTTATAAGTCAACAAATACAGCGCCATTGAATGTTCCAACATATCATAAACA
* * *
14970028 ATATCAATAGCATCATCAAGCCTTTGCTCCATTGCAAGGCTACAAATCAGAATCATATAAACAAG
196 ACATCAACAGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCATATAAACAAG
14970093 AACTACTTAGTTTTTGGACCATAGAGACCAG
261 AACTACTTAGTTTTTGGACCATAGAGACCAG
*
14970124 TCATTCTCAATTCTTACAATGCAAGGCATTCAGCAAAATGCGATAATTCTTTTGGCCCATGGACA
1 TCATTCTCAATTCTTACAATGCAAGGCATTCAGCAAAATGCGATAATTCTTTTGG-CCATAGACA
* *
14970189 AATCCCTCTTCTTCCACTCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCCCTACACAAC
65 AATCCCTCTTCTTCCAATCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCACTACACAAC
* * *
14970254 TCTTCCAATACTGTCTTATAAGTCAACAAATCCGGCGCCATTGAAT-TCTCCAACATATCATAAA
130 TCTTCCAATACGGTCTTATAAGTCAACAAATACAGCGCCATTGAATGT-TCCAACATATCATAAA
*
14970318 CAACATCAACGGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCATATAA
194 CAACATCAACAGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCATATAA
14970380 GCACTCCCTT
Statistics
Matches: 235, Mismatches: 19, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
291 51 0.22
292 184 0.78
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (291 bp):
TCATTCTCAATTCTTACAATGCAAGGCATTCAGCAAAATGCGATAATTCTTTTGGCCATAGACAA
ATCCCTCTTCTTCCAATCCTCGAGCAATTCAAAAGCATCATTACTCTTCCCTCCACTACACAACT
CTTCCAATACGGTCTTATAAGTCAACAAATACAGCGCCATTGAATGTTCCAACATATCATAAACA
ACATCAACAGCATCATCAAGCCTTTGCTCCATTGCAAGACTACAAATCAGAATCATATAAACAAG
AACTACTTAGTTTTTGGACCATAGAGACCAG
Found at i:14975429 original size:21 final size:20
Alignment explanation
Indices: 14975394--14975434 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14975384 AATATTGTTG
*
14975394 AAAAATTTATTTTTTCTTTA
1 AAAAATTTATATTTTCTTTA
*
14975414 AAAAATTTATAATTTTTTTTA
1 AAAAATTTAT-ATTTTCTTTA
14975435 TATTACTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
AAAAATTTATATTTTCTTTA
Found at i:14976034 original size:26 final size:27
Alignment explanation
Indices: 14976000--14976052 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
14975990 ACAATTACAA
14976000 AACCATAAAACTCAAAAT-AATCTAAAC
1 AACCATAAAACTCAAAATGAATC-AAAC
* *
14976027 AACC-TAAAATTTAAAATGAATCAAAC
1 AACCATAAAACTCAAAATGAATCAAAC
14976053 TCAAAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (27 bp):
AACCATAAAACTCAAAATGAATCAAAC
Found at i:14979551 original size:25 final size:24
Alignment explanation
Indices: 14979505--14979557 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
14979495 ACATACCGTA
14979505 GCTCTTTATGAGCGCTCCGATATAG
1 GCTCTTTATGAGCGCTCCGATAT-G
* *
14979530 GCTCTTTGTGAGC-TTCCTGATATG
1 GCTCTTTATGAGCGCTCC-GATATG
14979554 GCTC
1 GCTC
14979558 GCTTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCGCTCCGATATG
Found at i:14981749 original size:18 final size:19
Alignment explanation
Indices: 14981715--14981750 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14981705 TAGCTACGAA
14981715 ATCAAAACAATTAAAATTC
1 ATCAAAACAATTAAAATTC
*
14981734 ATCAATACAA-TAAAATT
1 ATCAAAACAATTAAAATT
14981751 GAAATATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (19 bp):
ATCAAAACAATTAAAATTC
Found at i:14981847 original size:20 final size:20
Alignment explanation
Indices: 14981812--14981849 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14981802 AAACTGAGAC
14981812 TAATTTTTATTCTTCATATT
1 TAATTTTTATTCTTCATATT
14981832 TAATCTTTTATT-TTCATA
1 TAAT-TTTTATTCTTCATA
14981850 CTAATTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (20 bp):
TAATTTTTATTCTTCATATT
Found at i:14987276 original size:28 final size:28
Alignment explanation
Indices: 14987245--14987331 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 28
14987235 TTTGTTCTAT
*
14987245 TATACTTTAATTATTATTATATAATATA
1 TATACTTTAATTATTATAATATAATATA
*
14987273 TATACATTTACATTATTA-AGATAAAATAT-
1 TATAC-TTTA-ATTATTATA-ATATAATATA
*
14987302 TTTAACTTTAATTATTATAATATAAGTATA
1 TAT-ACTTTAATTATTATAATATAA-TATA
14987332 ATTACTACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
28 17 0.35
29 14 0.29
30 17 0.35
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (28 bp):
TATACTTTAATTATTATAATATAATATA
Found at i:14987301 original size:30 final size:28
Alignment explanation
Indices: 14987245--14987318 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 28
14987235 TTTGTTCTAT
** *
14987245 TATACTTTAATTATTATTATATAATATA
1 TATACTTTAATTATTAAGATAAAATATA
14987273 TATACATTTACATTATTAAGATAAAATAT-
1 TATAC-TTTA-ATTATTAAGATAAAATATA
*
14987302 TTTAACTTTAATTATTA
1 TAT-ACTTTAATTATTA
14987319 TAATATAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 12 0.31
29 10 0.26
30 17 0.44
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.50
Consensus pattern (28 bp):
TATACTTTAATTATTAAGATAAAATATA
Found at i:14990675 original size:15 final size:15
Alignment explanation
Indices: 14990655--14990685 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14990645 AAAAATACTT
14990655 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
14990670 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
14990685 G
1 G
14990686 ATTTTCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GTTGAAAATTGTATG
Found at i:14993491 original size:36 final size:36
Alignment explanation
Indices: 14993451--14993535 Score: 170
Period size: 36 Copynumber: 2.4 Consensus size: 36
14993441 AGGGGCCTGG
14993451 AACGGCGTCGTTTTAGGCCTTGCACTTAAGCACTGA
1 AACGGCGTCGTTTTAGGCCTTGCACTTAAGCACTGA
14993487 AACGGCGTCGTTTTAGGCCTTGCACTTAAGCACTGA
1 AACGGCGTCGTTTTAGGCCTTGCACTTAAGCACTGA
14993523 AACGGCGTCGTTT
1 AACGGCGTCGTTT
14993536 AGGTGCCGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (36 bp):
AACGGCGTCGTTTTAGGCCTTGCACTTAAGCACTGA
Found at i:14993910 original size:3 final size:3
Alignment explanation
Indices: 14993890--14994201 Score: 82
Period size: 3 Copynumber: 103.0 Consensus size: 3
14993880 TTAATTTTGC
* * *
14993890 TAT TAT TAC TGT TA- TAT TAT TGT TACT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * *
14993935 TAT TAT TGT TAT GTA- CAT T-T TAT T-T ATAC TAT TCT TAA TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * * *
14993979 TAT TA- TAT GTAT TAT CAT TAT TAT AAA TAT TAG TAT ATAT TTT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
14994025 TAT ACAT GTA- TAT ATACT CT-T TAT ATAT GGTAT TAT TTT TAA CAT TAT
1 TAT -TAT -TAT TAT -TA-T -TAT TAT -TAT --TAT TAT TAT TAT TAT TAT
* * * *
14994073 TA- TATT TAC TAT CA- TATT TAT TAT TTT TAA TA- TAT TAT TATT TAT
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * *
14994118 TAT T-T TAT T-T TCCT TAT CTCAT TAT T-T TAT CA- TAT T-T TCT T-T
1 TAT TAT TAT TAT T-AT TAT -T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
14994160 T-T GTAT TTT TAC TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14994202 GTAATAATGT
Statistics
Matches: 223, Mismatches: 53, Indels: 66
0.65 0.15 0.19
Matches are distributed among these distances:
2 28 0.13
3 157 0.70
4 31 0.14
5 7 0.03
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:14994313 original size:8 final size:8
Alignment explanation
Indices: 14994271--14994327 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
14994261 TTTATTATGT
14994271 TATTTTAA
1 TATTTTAA
*
14994279 TATCTTTAT
1 TAT-TTTAA
**
14994288 TATATTTGC
1 TAT-TTTAA
14994297 T-TTTT-A
1 TATTTTAA
14994303 TATTTTAA
1 TATTTTAA
14994311 TATTTTAA
1 TATTTTAA
14994319 TATTTTAA
1 TATTTTAA
14994327 T
1 T
14994328 TATCATGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
6 1 0.02
7 7 0.17
8 22 0.54
9 11 0.27
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:14994481 original size:22 final size:23
Alignment explanation
Indices: 14994442--14994514 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 23
14994432 TCTTAATATT
*
14994442 TATATATTA-TGTAAATATTCTA
1 TATATATTATTGTATATATTCTA
14994464 -ATAT-TATATTGTATATA-TCTA
1 TATATAT-TATTGTATATATTCTA
* * *
14994485 TATATATTTTTGTATATATTATG
1 TATATATTATTGTATATATTCTA
14994508 TATATAT
1 TATATAT
14994515 GTTTTCAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 1 0.02
21 10 0.24
22 21 0.50
23 10 0.24
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATATTATTGTATATATTCTA
Found at i:14994492 original size:19 final size:19
Alignment explanation
Indices: 14994436--14994492 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
14994426 TTTTATTCTT
*
14994436 AATATTTATATAT-TATGTA
1 AATATCTATATATAT-TGTA
14994455 AATATTCTAATATTATATTGTA
1 AATA-TCT-ATA-TATATTGTA
*
14994477 TATATCTATATATATT
1 AATATCTATATATATT
14994493 TTTGTATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 10 0.31
20 5 0.16
21 6 0.19
22 10 0.31
23 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (19 bp):
AATATCTATATATATTGTA
Found at i:14994567 original size:25 final size:24
Alignment explanation
Indices: 14994539--14994613 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 24
14994529 ATTTTACGTA
14994539 TATTATTATGTATATATTTTAATAT
1 TATTATTATGTATAT-TTTTAATAT
* * *
14994564 TATTA-GATATACATCTTTT-ATAT
1 TATTATTATGTATAT-TTTTAATAT
*
14994587 TATT-TTATGTATATTTCTAATAT
1 TATTATTATGTATATTTTTAATAT
14994610 TATT
1 TATT
14994614 GTATATTTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 3 0.08
23 22 0.55
24 10 0.25
25 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTATTATGTATATTTTTAATAT
Found at i:14994725 original size:9 final size:9
Alignment explanation
Indices: 14994711--14994740 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
14994701 TCATTTCTAA
14994711 TATATATAT
1 TATATATAT
14994720 TATATATAT
1 TATATATAT
*
14994729 TTTATATAT
1 TATATATAT
14994738 TAT
1 TAT
14994741 GTATGTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATATATAT
Found at i:14998042 original size:25 final size:25
Alignment explanation
Indices: 14998014--14998061 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
14998004 GTAAAATGGG
14998014 TTTAAAATAAAGT-ATATAAAATAAT
1 TTTAAAAT-AAGTAATATAAAATAAT
*
14998039 TTTAAAATAAGTAATATATAATA
1 TTTAAAATAAGTAATATAAAATA
14998062 GTTAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
TTTAAAATAAGTAATATAAAATAAT
Found at i:14998221 original size:21 final size:20
Alignment explanation
Indices: 14998195--14998246 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
14998185 TGAAATACAT
*
14998195 AATATACAATAACTTAAAATA
1 AATATA-AATAAATTAAAATA
*
14998216 TATATAAA-AAATTAAAATA
1 AATATAAATAAATTAAAATA
14998235 AATATATAATAA
1 AATATA-AATAA
14998247 TTTTTGAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.58
20 4 0.15
21 7 0.27
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AATATAAATAAATTAAAATA
Found at i:15008157 original size:15 final size:16
Alignment explanation
Indices: 15008137--15008171 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15008127 TTATGATAAT
15008137 AATTAAA-TTTATTTC
1 AATTAAATTTTATTTC
*
15008152 AATTAAATTTTATTTT
1 AATTAAATTTTATTTC
15008168 AATT
1 AATT
15008172 TTATATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTAAATTTTATTTC
Found at i:15014381 original size:30 final size:30
Alignment explanation
Indices: 15014346--15014444 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 30
15014336 TATAATTTAT
15014346 ATTTTTATAATTTTTAAAGGATTAAATTAA
1 ATTTTTATAATTTTTAAAGGATTAAATTAA
*
15014376 ATTTTTATCATTTTTAGAA-GATT-AATCTAA
1 ATTTTTATAATTTTTA-AAGGATTAAAT-TAA
* * * *
15014406 TATTTTTTTTATTATTTTAAGAGATTAAAGTATA
1 -ATTTTTATAATT-TTTAAAG-GATTAAATTA-A
15014440 ATTTT
1 ATTTT
15014445 ACTTTTACTA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
29 3 0.05
30 22 0.39
31 14 0.25
32 3 0.05
33 11 0.20
34 3 0.05
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAGGATTAAATTAA
Found at i:15018753 original size:19 final size:19
Alignment explanation
Indices: 15018731--15018782 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
15018721 TTCGAGTTTT
*
15018731 AAGTAAGTTTTCATGTATC
1 AAGTAATTTTTCATGTATC
*
15018750 AAGTAATTTTTTCATGTATT
1 AAGTAA-TTTTTCATGTATC
*
15018770 AATTAATTTTTCA
1 AAGTAATTTTTCA
15018783 ATGTTTTACG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (19 bp):
AAGTAATTTTTCATGTATC
Found at i:15023793 original size:30 final size:30
Alignment explanation
Indices: 15023757--15023813 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
15023747 GCTAATGCTG
15023757 GATATTTATCAGATCCACATAAAGGTCAAT
1 GATATTTATCAGATCCACATAAAGGTCAAT
*
15023787 GATATTTATCGGATCCACATAAAGGTC
1 GATATTTATCAGATCCACATAAAGGTC
15023814 GATCTCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (30 bp):
GATATTTATCAGATCCACATAAAGGTCAAT
Found at i:15025244 original size:15 final size:17
Alignment explanation
Indices: 15025216--15025257 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
15025206 TAAATCTTTA
15025216 AAAATTTATAAAAAT-AT
1 AAAA-TTATAAAAATAAT
*
15025233 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
15025249 AAAATTATA
1 AAAATTATA
15025258 TTTTAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:15029731 original size:28 final size:28
Alignment explanation
Indices: 15029700--15029755 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15029690 ATCTGTTAAG
15029700 CTAATTAAATTGTAACAAAACGGTACGT
1 CTAATTAAATTGTAACAAAACGGTACGT
15029728 CTAATTAAATTGTAACAAAACGGTACGT
1 CTAATTAAATTGTAACAAAACGGTACGT
15029756 TTTGAGGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (28 bp):
CTAATTAAATTGTAACAAAACGGTACGT
Found at i:15041141 original size:30 final size:30
Alignment explanation
Indices: 15041107--15041180 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
15041097 TGGCTCCCCT
15041107 AAAATTATAAAGATTCGATTTAATTTTTTA
1 AAAATTATAAAGATTCGATTTAATTTTTTA
15041137 AAAATTATAAAGATTCGATTTAATTTTTTA
1 AAAATTATAAAGATTCGATTTAATTTTTTA
15041167 AAAATTATAAAGAT
1 AAAATTATAAAGAT
15041181 ATAGGCTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (30 bp):
AAAATTATAAAGATTCGATTTAATTTTTTA
Found at i:15041360 original size:32 final size:32
Alignment explanation
Indices: 15041322--15041385 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
15041312 ATTAGTAAAG
15041322 ATAAAATTATATTTAGGCCTCTTGAAAATGAA
1 ATAAAATTATATTTAGGCCTCTTGAAAATGAA
15041354 ATAAAATTATATTTAGGCCTCTTGAAAATGAA
1 ATAAAATTATATTTAGGCCTCTTGAAAATGAA
15041386 TTTTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (32 bp):
ATAAAATTATATTTAGGCCTCTTGAAAATGAA
Found at i:15041731 original size:30 final size:31
Alignment explanation
Indices: 15041695--15041762 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
15041685 TTTTTTTCCT
* *
15041695 AATTTGGTTCTTGAGTTTGG-TTC-ATGGTTC
1 AATTTGGTACTTGAATTTGGCTTCAAT-GTTC
*
15041725 ACTTTGGTACTTGAATTTGGCTTCAATGTTC
1 AATTTGGTACTTGAATTTGGCTTCAATGTTC
15041756 AATTTGG
1 AATTTGG
15041763 CACCTAGATC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 17 0.53
31 13 0.41
32 2 0.06
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (31 bp):
AATTTGGTACTTGAATTTGGCTTCAATGTTC
Found at i:15044231 original size:15 final size:15
Alignment explanation
Indices: 15044207--15044244 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
15044197 TAATTTGAAA
*
15044207 TTTATTTTTTTAT-T
1 TTTATTTTTTTGTAT
15044221 TTTATTTTTTTGTAT
1 TTTATTTTTTTGTAT
15044236 TTTATTTTT
1 TTTATTTTT
15044245 AGAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (15 bp):
TTTATTTTTTTGTAT
Found at i:15045544 original size:11 final size:11
Alignment explanation
Indices: 15045528--15045552 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15045518 TATGTATAAT
15045528 ATAAATAATTA
1 ATAAATAATTA
15045539 ATAAATAATTA
1 ATAAATAATTA
15045550 ATA
1 ATA
15045553 TATTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAAATAATTA
Found at i:15046530 original size:36 final size:36
Alignment explanation
Indices: 15046469--15046570 Score: 107
Period size: 39 Copynumber: 2.8 Consensus size: 36
15046459 ATACAATCCT
* *
15046469 CTGCCCTGC-CCACCACTATCACCATCATACAAAAAG
1 CTGCCCT-CTCCACCACCACCACCATCATACAAAAAG
* * * *
15046505 CTGCCCTCTCCATCATCACCGCCATCACTATACAATAAG
1 CTGCCCTCTCCACCACCACCACCAT--C-ATACAAAAAG
15046544 CTGCCCTCTCCACCACCACCACCATCA
1 CTGCCCTCTCCACCACCACCACCATCA
15046571 CCATCATCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.02
36 19 0.36
37 1 0.02
38 1 0.02
39 31 0.58
ACGTcount: A:0.28, C:0.46, G:0.07, T:0.19
Consensus pattern (36 bp):
CTGCCCTCTCCACCACCACCACCATCATACAAAAAG
Found at i:15046547 original size:39 final size:39
Alignment explanation
Indices: 15046495--15046571 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
15046485 TATCACCATC
* * *
15046495 ATACAAAAAGCTGCCCTCTCCATCATCACCGCCATCACT
1 ATACAAAAAGCTGCCCTCTCCACCACCACCACCATCACT
*
15046534 ATACAATAAGCTGCCCTCTCCACCACCACCACCATCAC
1 ATACAAAAAGCTGCCCTCTCCACCACCACCACCATCAC
15046572 CATCATCACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.31, C:0.44, G:0.06, T:0.18
Consensus pattern (39 bp):
ATACAAAAAGCTGCCCTCTCCACCACCACCACCATCACT
Found at i:15052323 original size:56 final size:57
Alignment explanation
Indices: 15052178--15052323 Score: 251
Period size: 56 Copynumber: 2.6 Consensus size: 57
15052168 GGATAAATTT
* *
15052178 TCAGCTTTTAATATTAGTATAATAGTAACTCT-ATCCCTCAATATTTATTTAATTTG
1 TCAGCTTTTAAGATTAGTATAATAGTAACTCTAATCCCTCAATATTTATTTAACTTG
15052234 TCAGCTTTTAAGATTAGTATAATAGTAACTCTAAT-CCTCAATATTTATTTAACTTG
1 TCAGCTTTTAAGATTAGTATAATAGTAACTCTAATCCCTCAATATTTATTTAACTTG
*
15052290 TCAGCTTTTAAGATTAGTATAATAGTAATTCTAA
1 TCAGCTTTTAAGATTAGTATAATAGTAACTCTAA
15052324 CTCTCAACAT
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
56 84 0.98
57 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (57 bp):
TCAGCTTTTAAGATTAGTATAATAGTAACTCTAATCCCTCAATATTTATTTAACTTG
Found at i:15052423 original size:12 final size:11
Alignment explanation
Indices: 15052403--15052427 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15052393 TAGTATAATA
15052403 TAATTTTTTTG
1 TAATTTTTTTG
15052414 TAATTTTTTTG
1 TAATTTTTTTG
15052425 TAA
1 TAA
15052428 CATTGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TAATTTTTTTG
Found at i:15061958 original size:8 final size:8
Alignment explanation
Indices: 15061945--15062012 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
15061935 AGACTAAATA
15061945 AAATAATT
1 AAATAATT
15061953 AAATAATT
1 AAATAATT
15061961 AAATATCTTATT
1 AAATA----ATT
15061973 AAA-ATATT
1 AAATA-ATT
*
15061981 AAATAAAT
1 AAATAATT
15061989 -AATAATT
1 AAATAATT
**
15061996 ATCTAATT
1 AAATAATT
15062004 AAATAATT
1 AAATAATT
15062012 A
1 A
15062013 TAAAATATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.12
8 34 0.71
9 1 0.02
11 1 0.02
12 6 0.12
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (8 bp):
AAATAATT
Found at i:15062003 original size:43 final size:39
Alignment explanation
Indices: 15061939--15062020 Score: 101
Period size: 43 Copynumber: 2.0 Consensus size: 39
15061929 ATATATAGAC
*
15061939 TAAATAAAATAATTAAATAATTAAATATCTTATTAAAATAT
1 TAAATAAAATAATTAAATAATTAAATA-ATTA-TAAAATAT
**
15061980 TAAATAAATAATAATTATCTAATTAAATAATTATAAAATAT
1 TAAAT-AA-AATAATTAAATAATTAAATAATTATAAAATAT
15062021 CACCAACATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 13 0.36
42 5 0.14
43 18 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (39 bp):
TAAATAAAATAATTAAATAATTAAATAATTATAAAATAT
Found at i:15065780 original size:30 final size:30
Alignment explanation
Indices: 15065741--15065797 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15065731 TTTTATAAAT
15065741 AATTAATATTT-AT-TACTTAAAAATATTCAA
1 AATTAATATTTCATATA-TT-AAAATATTCAA
*
15065771 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
15065798 ATTAAGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTCAA
Found at i:15065850 original size:3 final size:3
Alignment explanation
Indices: 15065842--15065871 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
15065832 TTACTAAAAT
15065842 ATA ATA ATA ATA ATA ATA ATA ATA ACTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA AT
15065872 TTTAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15066302 original size:28 final size:28
Alignment explanation
Indices: 15066262--15066316 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
15066252 ACCAAAATGG
15066262 TACATCCAAGCAAGTGGAGGGTGGTGCT
1 TACATCCAAGCAAGTGGAGGGTGGTGCT
15066290 TACATCCAAGCAAGTGGAGGGTGGTGC
1 TACATCCAAGCAAGTGGAGGGTGGTGC
15066317 ATAGGTAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.36, T:0.20
Consensus pattern (28 bp):
TACATCCAAGCAAGTGGAGGGTGGTGCT
Found at i:15068853 original size:14 final size:14
Alignment explanation
Indices: 15068834--15068868 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15068824 GACATTTTTT
*
15068834 TTCTAATGATACAA
1 TTCTAACGATACAA
*
15068848 TTCTAACGATACTA
1 TTCTAACGATACAA
15068862 TTCTAAC
1 TTCTAAC
15068869 ATGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGATACAA
Found at i:15069661 original size:8 final size:8
Alignment explanation
Indices: 15069648--15069679 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
15069638 AGATTAATTG
15069648 CAACATTA
1 CAACATTA
15069656 CAACATTA
1 CAACATTA
*
15069664 CAATATTA
1 CAACATTA
15069672 CAACATTA
1 CAACATTA
15069680 AAACTTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (8 bp):
CAACATTA
Found at i:15069774 original size:62 final size:62
Alignment explanation
Indices: 15069695--15069819 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
15069685 TCGAACAAAC
* * *
15069695 TTTGTAATATAAATTAAATACATTATAACATTAAAACTTGGAATAAACTTCGTAATATAAAT
1 TTTGCAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTCGTAATATAAAT
* *
15069757 TTTGCAATATAAATTAAATATATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 TTTGCAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTCGTAATATAAAT
15069819 T
1 T
15069820 AGATACATTG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (62 bp):
TTTGCAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTCGTAATATAAAT
Found at i:15073775 original size:27 final size:27
Alignment explanation
Indices: 15073737--15073796 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
15073727 GCTGCTTATT
15073737 GATAGGGGTCACCAGTGCCGCCTATCA
1 GATAGGGGTCACCAGTGCCGCCTATCA
* * *
15073764 GATAGGGGTCACCGGTGTCGCCTATTA
1 GATAGGGGTCACCAGTGCCGCCTATCA
15073791 GATAGG
1 GATAGG
15073797 CACCATACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (27 bp):
GATAGGGGTCACCAGTGCCGCCTATCA
Found at i:15074054 original size:17 final size:19
Alignment explanation
Indices: 15074027--15074064 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15074017 AATTTATATA
15074027 TATTGTGAAATAAT-TTTT
1 TATTGTGAAATAATGTTTT
15074045 TATT-TGAAATAATGTTTT
1 TATTGTGAAATAATGTTTT
15074063 TA
1 TA
15074065 ATTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (19 bp):
TATTGTGAAATAATGTTTT
Found at i:15074468 original size:17 final size:17
Alignment explanation
Indices: 15074442--15074479 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15074432 GGGTGGAAAT
*
15074442 TAAATTATTTGTG-ACAA
1 TAAATCATTT-TGAACAA
15074459 TAAATCATTTTGAACAA
1 TAAATCATTTTGAACAA
15074476 TAAA
1 TAAA
15074480 AGATAGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (17 bp):
TAAATCATTTTGAACAA
Found at i:15074640 original size:15 final size:16
Alignment explanation
Indices: 15074615--15074644 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15074605 CCCCACCTTT
15074615 TTTTAAATTTTATATA
1 TTTTAAATTTTATATA
15074631 TTTT-AATTTTATAT
1 TTTTAAATTTTATAT
15074645 TTTATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATTTTATATA
Found at i:15074646 original size:22 final size:21
Alignment explanation
Indices: 15074615--15074655 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
15074605 CCCCACCTTT
15074615 TTTTAAATTTTATATATTTTAA
1 TTTTAAATTTTATAT-TTTTAA
*
15074637 TTTTATATTTTATATTTTT
1 TTTTAAATTTTATATTTTT
15074656 CATAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAAATTTTATATTTTTAA
Found at i:15074655 original size:15 final size:15
Alignment explanation
Indices: 15074615--15074672 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
15074605 CCCCACCTTT
*
15074615 TTTTAAATTTTATATA
1 TTTTATATTTT-TATA
15074631 TTTTA-A-TTTTATA
1 TTTTATATTTTTATA
15074644 TTTTATATTTTTCATA
1 TTTTATATTTTT-ATA
*
15074660 ATTTAT-TTTTTAT
1 TTTTATATTTTTAT
15074673 TTCATAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 10 0.26
16 13 0.34
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATATTTTTATA
Found at i:15077941 original size:14 final size:14
Alignment explanation
Indices: 15077896--15077943 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
15077886 TTAAATCATG
*
15077896 AAAACTATAAAATA
1 AAAAATATAAAATA
**
15077910 TAAAAATATAAAGCA
1 -AAAAATATAAAATA
*
15077925 AAATATATAAAATA
1 AAAAATATAAAATA
15077939 AAAAA
1 AAAAA
15077944 AGTAAATGTG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAAATATAAAATA
Found at i:15079379 original size:23 final size:22
Alignment explanation
Indices: 15079349--15079391 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
15079339 AATCATTATA
15079349 CTTTTA-TTTTCAAGATTTTAGT
1 CTTTTATTTTTC-AGATTTTAGT
15079371 CTTTCTATTTTTCAGATTTTA
1 CTTT-TATTTTTCAGATTTTA
15079392 AAATTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (22 bp):
CTTTTATTTTTCAGATTTTAGT
Found at i:15079587 original size:26 final size:26
Alignment explanation
Indices: 15079556--15079634 Score: 158
Period size: 26 Copynumber: 3.0 Consensus size: 26
15079546 ATTATAAAAC
15079556 TTAAATTTTGAAATCTAAAAGTTGAA
1 TTAAATTTTGAAATCTAAAAGTTGAA
15079582 TTAAATTTTGAAATCTAAAAGTTGAA
1 TTAAATTTTGAAATCTAAAAGTTGAA
15079608 TTAAATTTTGAAATCTAAAAGTTGAA
1 TTAAATTTTGAAATCTAAAAGTTGAA
15079634 T
1 T
15079635 AGATTAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (26 bp):
TTAAATTTTGAAATCTAAAAGTTGAA
Found at i:15079632 original size:14 final size:14
Alignment explanation
Indices: 15079563--15079633 Score: 78
Period size: 14 Copynumber: 5.4 Consensus size: 14
15079553 AACTTAAATT
15079563 TTGAAATCTAAAAG
1 TTGAAATCTAAAAG
**
15079577 TTG-AAT-TAAATT
1 TTGAAATCTAAAAG
15079589 TTGAAATCTAAAAG
1 TTGAAATCTAAAAG
**
15079603 TTG-AAT-TAAATT
1 TTGAAATCTAAAAG
15079615 TTGAAATCTAAAAG
1 TTGAAATCTAAAAG
15079629 TTGAA
1 TTGAA
15079634 TAGATTAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
12 14 0.31
13 12 0.27
14 19 0.42
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (14 bp):
TTGAAATCTAAAAG
Found at i:15079669 original size:14 final size:14
Alignment explanation
Indices: 15079648--15079679 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15079638 TTAAATTTTT
15079648 AAAA-ATAAAAATA
1 AAAATATAAAAATA
15079661 AAAATATAAAAATA
1 AAAATATAAAAATA
15079675 AAAAT
1 AAAAT
15079680 TTATTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATATAAAAATA
Found at i:15080222 original size:29 final size:27
Alignment explanation
Indices: 15080169--15080231 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
15080159 ACTTAAAATT
* *
15080169 TTTTTAATATATTTCAAAATTTTAATAAA
1 TTTTAAATATATTTCAAAATATT-A-AAA
15080198 TTTTAAATATATTT-AAATATATTAAAA
1 TTTTAAATATATTTCAAA-ATATTAAAA
15080225 TTTTAAA
1 TTTTAAA
15080232 ATTTATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 10 0.32
28 4 0.13
29 17 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTAAATATATTTCAAAATATTAAAA
Found at i:15080230 original size:8 final size:8
Alignment explanation
Indices: 15080179--15080235 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
15080169 TTTTTAATAT
*
15080179 ATTTCAAA
1 ATTTTAAA
15080187 ATTTTAATAA
1 ATTTT-A-AA
15080197 ATTTTAAA
1 ATTTTAAA
15080205 TATATTTAAA
1 -AT-TTTAAA
*
15080215 TATATTAAA
1 -ATTTTAAA
15080224 ATTTTAAA
1 ATTTTAAA
15080232 ATTT
1 ATTT
15080236 ATTATACTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 17 0.40
9 9 0.21
10 16 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (8 bp):
ATTTTAAA
Found at i:15080283 original size:18 final size:18
Alignment explanation
Indices: 15080169--15080283 Score: 61
Period size: 18 Copynumber: 6.0 Consensus size: 18
15080159 ACTTAAAATT
* *
15080169 TTTTTAATATATTTCAAAA
1 TTTTAAATATA-TTAAAAA
* * *
15080188 TTTTAATAAATTTTAAATA
1 TTTTAA-ATATATTAAAAA
15080207 TATTTAAATATATT-AAAA
1 T-TTTAAATATATTAAAAA
*
15080225 TTTTAAAATTTATTATACTAAA
1 TTTT-AAATATATTA-A--AAA
* * * *
15080247 TTTTTTAATTTTTTTAAAA
1 -TTTTAAATATATTAAAAA
15080266 TTTTAAATATATTAAAAA
1 TTTTAAATATATTAAAAA
15080284 ATATTTTTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
17 3 0.04
18 26 0.36
19 19 0.26
20 9 0.12
21 1 0.01
22 10 0.14
23 4 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTAAATATATTAAAAA
Found at i:15080350 original size:13 final size:13
Alignment explanation
Indices: 15080332--15080357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15080322 TATATTAAAA
15080332 TTTTAAAAAATAT
1 TTTTAAAAAATAT
15080345 TTTTAAAAAATAT
1 TTTTAAAAAATAT
15080358 ATTGAATATA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:15080416 original size:70 final size:68
Alignment explanation
Indices: 15080342--15080481 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 68
15080332 TTTTAAAAAA
* * *
15080342 TATTTTTAAAAAATATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAAT
1 TATTTTTAAAAAATATATTAAAAATATTAAAATATT-AAATTGGTTATACTTAATA-TTTTTAAT
15080407 ATATT
64 ATATT
*
15080412 TATTTTTTAAAAATATATTAAAAATATTAAAATATTAAATTGGTTATACTTAATATTTTTAATAT
1 TATTTTTAAAAAATATATTAAAAATATTAAAATATTAAATTGGTTATACTTAATATTTTTAATAT
15080477 ATT
66 ATT
15080480 TA
1 TA
15080482 AAATTTTAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
68 15 0.23
69 19 0.29
70 32 0.48
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (68 bp):
TATTTTTAAAAAATATATTAAAAATATTAAAATATTAAATTGGTTATACTTAATATTTTTAATAT
ATT
Found at i:15080475 original size:9 final size:9
Alignment explanation
Indices: 15080461--15080530 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
15080451 TTGGTTATAC
15080461 TTAATATTT
1 TTAATATTT
*
15080470 TTAATATAT
1 TTAATATTT
*
15080479 TTAA-AATT
1 TTAATATTT
15080487 TTAATATATT
1 TTAATAT-TT
* *
15080497 TAAATTTTT
1 TTAATATTT
15080506 TTAAGT-TTT
1 TTAA-TATTT
*
15080515 TTAAAATTT
1 TTAATATTT
*
15080524 TAAATAT
1 TTAATAT
15080531 ATTAGAATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
8 6 0.13
9 33 0.70
10 8 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (9 bp):
TTAATATTT
Found at i:15080489 original size:69 final size:70
Alignment explanation
Indices: 15080345--15080490 Score: 215
Period size: 69 Copynumber: 2.1 Consensus size: 70
15080335 TAAAAAATAT
* * *
15080345 TTTTAAAAAATATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAATATA
1 TTTT-AAAAATATATTAAAAATATTAAAATATTAAAATTGGTTATACTTAATATTTTTTAATATA
**
15080410 TTTATT
65 TTTAAA
15080416 TTTTAAAAATATATTAAAAATATTAAAATATT-AAATTGGTTATACTTAATA-TTTTTAATATAT
1 TTTTAAAAATATATTAAAAATATTAAAATATTAAAATTGGTTATACTTAATATTTTTTAATATAT
15080479 TTAAAA
66 TT-AAA
15080485 TTTTAA
1 TTTTAA
15080491 TATATTTAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
68 14 0.20
69 26 0.38
70 25 0.36
71 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (70 bp):
TTTTAAAAATATATTAAAAATATTAAAATATTAAAATTGGTTATACTTAATATTTTTTAATATAT
TTAAA
Found at i:15080503 original size:16 final size:17
Alignment explanation
Indices: 15080468--15080533 Score: 71
Period size: 17 Copynumber: 3.7 Consensus size: 17
15080458 TACTTAATAT
15080468 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
*
15080485 TTTTAATATATTTAAATTT
1 TTTTAATATATTTAAA--A
*
15080504 TTTTAAGT-TTTTTAAAA
1 TTTTAA-TATATTTAAAA
15080521 TTTTAAATATATT
1 TTTT-AATATATT
15080534 AGAATTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 21 0.52
18 5 0.12
19 13 0.32
20 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTAATATATTTAAAA
Found at i:15080649 original size:19 final size:21
Alignment explanation
Indices: 15080610--15080649 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15080600 ACTTTTAAAA
15080610 TTAATTATACTTAACAATTTT
1 TTAATTATACTTAACAATTTT
*
15080631 TTAA-TATATTTAA-AATTTT
1 TTAATTATACTTAACAATTTT
15080650 AGAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTATACTTAACAATTTT
Found at i:15085600 original size:29 final size:30
Alignment explanation
Indices: 15085568--15085637 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
15085558 AAATCAAAAT
*
15085568 TTCATGTATAAAATT-ATACAAAATCATAG
1 TTCATGTATAAAATTAATACAAAACCATAG
* * * **
15085597 TTCATATGTACAATTACATATTAAACCATAG
1 TTCATGTATAAAATTA-ATACAAAACCATAG
15085628 TTCATGTATA
1 TTCATGTATA
15085638 GTTTTGGGAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
29 12 0.39
31 19 0.61
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (30 bp):
TTCATGTATAAAATTAATACAAAACCATAG
Found at i:15087346 original size:23 final size:24
Alignment explanation
Indices: 15087319--15087371 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
15087309 ATAAATAGTA
15087319 ATAGTGTTAGAA-ATATACTATAT-
1 ATAGTGTTAGAAGATATAC-ATATG
*
15087342 ATAGTGTTTGAAGTATATACATATG
1 ATAGTGTTAGAAG-ATATACATATG
15087367 ATAGT
1 ATAGT
15087372 AAAAAAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 11 0.42
24 4 0.15
25 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.40
Consensus pattern (24 bp):
ATAGTGTTAGAAGATATACATATG
Found at i:15087827 original size:26 final size:25
Alignment explanation
Indices: 15087798--15087852 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
15087788 AAATATGCAT
*
15087798 ACAATATTACAAA-ATATATATAACTA
1 ACAATATTA-AAATATATACATAAC-A
15087824 ACAATATTAAAATATATACATAACA
1 ACAATATTAAAATATATACATAACA
15087849 ACAA
1 ACAA
15087853 AAGTATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (25 bp):
ACAATATTAAAATATATACATAACA
Found at i:15089512 original size:3 final size:3
Alignment explanation
Indices: 15089504--15089626 Score: 99
Period size: 3 Copynumber: 41.7 Consensus size: 3
15089494 GAGAAAAATA
* * * * * *
15089504 AAT AAT AAT GAT AAA AAT AAT AAT AAT GAC AAT AGT AA- AGAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * * * *
15089549 AAT AGT AAT AAT AAT GAT AAT AAT GAT AAT AA- AAA AAC AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
15089595 AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15089627 ATTGATGAAT
Statistics
Matches: 93, Mismatches: 23, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
2 5 0.05
3 87 0.94
4 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:15094734 original size:15 final size:17
Alignment explanation
Indices: 15094714--15094771 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
15094704 AAGGTTTTCT
15094714 TATTGATGATA-T-CGA
1 TATTGATGATAGTACGA
*
15094729 TATTGATAATAGTGACGA
1 TATTGATGATAGT-ACGA
* *
15094747 TATTGATGCTAGTAACGC
1 TATTGATGATAGT-ACGA
15094765 TATTGAT
1 TATTGAT
15094772 TGTGACCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 10 0.29
16 1 0.03
18 24 0.69
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (17 bp):
TATTGATGATAGTACGA
Found at i:15098360 original size:12 final size:12
Alignment explanation
Indices: 15098343--15098377 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
15098333 GAAACCCTAG
15098343 TATATAAATATA
1 TATATAAATATA
15098355 TATATAAATATA
1 TATATAAATATA
*
15098367 TATATACATAT
1 TATATAAATAT
15098378 TCTCTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAAATATA
Found at i:15101812 original size:27 final size:27
Alignment explanation
Indices: 15101773--15101825 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
15101763 GAACTCTATT
*
15101773 TGTAAAATCACCGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* *
15101800 TGTAAAATTACCGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
15101826 TGGTAGAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:15102882 original size:40 final size:40
Alignment explanation
Indices: 15102810--15102984 Score: 255
Period size: 40 Copynumber: 4.4 Consensus size: 40
15102800 TTCTAACGCA
* * *
15102810 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TAT
*
15102849 AGCCTGCGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
**
15102889 AGCCTGCGGGTCTTTAAGCTTGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* *
15102929 AGCCTGCGGGTCTTTAAGCCCGGATACACTACCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
15102969 AGCCTGCGGGTCTTTA
1 AGCCTGCGGGTCTTTA
15102985 TACCCAGATA
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.13
40 107 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:15110679 original size:40 final size:40
Alignment explanation
Indices: 15110606--15110780 Score: 273
Period size: 40 Copynumber: 4.4 Consensus size: 40
15110596 TTCTAGCGCA
* *
15110606 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGCATGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCAT-AT
* * *
15110645 AGCCTGCAGGTCTTTATGCTCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
15110685 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
15110725 AGCCTGCGGGTCTTTAAGCCCGGATACACTTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
15110765 AGCCTGCGGGTCTTTA
1 AGCCTGCGGGTCTTTA
15110781 TACCATAATA
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.12
40 110 0.88
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:15112911 original size:22 final size:22
Alignment explanation
Indices: 15112872--15112914 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15112862 CTGTAATATT
* *
15112872 TACGGTCTTTAGCTATTCTGTC
1 TACGGTCTTGAGCCATTCTGTC
*
15112894 TACGGTGTTGAGCCATTCTGT
1 TACGGTCTTGAGCCATTCTGT
15112915 TGACTTAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (22 bp):
TACGGTCTTGAGCCATTCTGTC
Found at i:15114665 original size:12 final size:13
Alignment explanation
Indices: 15114630--15114659 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15114620 TTGGTTAATT
15114630 TAGGAATTTACTA
1 TAGGAATTTACTA
15114643 TAGGAATTTACTA
1 TAGGAATTTACTA
15114656 -AGGA
1 TAGGA
15114660 TGTTACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (13 bp):
TAGGAATTTACTA
Found at i:15120578 original size:29 final size:27
Alignment explanation
Indices: 15120545--15120606 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
15120535 ACTAATAAAT
15120545 GTACCAACTTGAAAAAAAAAGTAGTTTAG
1 GTACCAACTTGAAAAAAAAA-T-GTTTAG
**
15120574 GTACC-ACTTGTGAAAAAAATGTTTAG
1 GTACCAACTTGAAAAAAAAATGTTTAG
*
15120600 ATACCAA
1 GTACCAA
15120607 AATAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.34
27 2 0.07
28 12 0.41
29 5 0.17
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (27 bp):
GTACCAACTTGAAAAAAAAATGTTTAG
Found at i:15121000 original size:8 final size:9
Alignment explanation
Indices: 15120950--15121001 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
15120940 ATTTTTTAAA
15120950 TATAATTTT
1 TATAATTTT
15120959 TATAATTTT
1 TATAATTTT
15120968 TATAA--TT
1 TATAATTTT
*
15120975 T-TACTTTT
1 TATAATTTT
15120983 TATAATTTT
1 TATAATTTT
15120992 T-TAATTTT
1 TATAATTTT
15121000 TA
1 TA
15121002 AAAAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
8 11 0.30
9 21 0.57
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TATAATTTT
Found at i:15121001 original size:24 final size:23
Alignment explanation
Indices: 15120938--15120999 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
15120928 AGTAATTAAT
* *
15120938 TAATTTTTTAAATATAATTTTTA
1 TAATTTTTTAATTTTAATTTTTA
*
15120961 TAATTTTTATAATTTTACTTTTTA
1 TAATTTTT-TAATTTTAATTTTTA
15120985 TAATTTTTTAATTTT
1 TAATTTTTTAATTTT
15121000 TAAAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 15 0.43
24 20 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TAATTTTTTAATTTTAATTTTTA
Found at i:15122470 original size:18 final size:18
Alignment explanation
Indices: 15122447--15122491 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
15122437 TTGAAGATAT
15122447 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
15122465 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
15122483 -GCTATTGAT
1 CGATATTGAT
15122492 TGTGACCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.36
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:15126359 original size:35 final size:35
Alignment explanation
Indices: 15126291--15126398 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
15126281 AATCAATTAG
* * * ** *
15126291 ATACAAATTTGGGCCTGAGCCCATCACATATACAT
1 ATACATATTCGGGCCTAAGCCCATCTTAAATACAT
* * * * *
15126326 ATGCATATTCGGGCCTAAGCCTATTTTAGATACAG
1 ATACATATTCGGGCCTAAGCCCATCTTAAATACAT
*
15126361 ATACATATTTGGGCCTAAGCCCATCTTAAATACAT
1 ATACATATTCGGGCCTAAGCCCATCTTAAATACAT
15126396 ATA
1 ATA
15126399 TAGATATACA
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (35 bp):
ATACATATTCGGGCCTAAGCCCATCTTAAATACAT
Found at i:15128141 original size:87 final size:87
Alignment explanation
Indices: 15127995--15128169 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
15127985 CAAATATTTA
15127995 TCATACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
1 TCATACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
15128060 TTTTATTTCATAACTGCAAAGG
66 TTTTATTTCATAACTGCAAAGG
15128082 TCATACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
1 TCATACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
15128147 TTTTATTTCATAACTGCAAAGG
66 TTTTATTTCATAACTGCAAAGG
15128169 T
1 T
15128170 AAACATCTCA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (87 bp):
TCATACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGG
TTTTATTTCATAACTGCAAAGG
Found at i:15128188 original size:87 final size:87
Alignment explanation
Indices: 15127999--15128189 Score: 323
Period size: 87 Copynumber: 2.2 Consensus size: 87
15127989 TATTTATCAT
*
15127999 ACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTT
1 ACAATTCAGAGAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTT
*
15128064 ATTTCATAACTGCAAAGGTCAT
66 ATTTCATAACTGCAAAGGTCAA
*
15128086 ACAATTCAGATAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTT
1 ACAATTCAGAGAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTT
15128151 ATTTCATAACTGCAAAGGT-AA
66 ATTTCATAACTGCAAAGGTCAA
15128172 AC-ATCTCAGAAGAATAAT
1 ACAAT-TCAG-AGAATAAT
15128190 GAATACAAAA
Statistics
Matches: 100, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
85 2 0.02
86 7 0.07
87 91 0.91
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (87 bp):
ACAATTCAGAGAATAATAACAAGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTT
ATTTCATAACTGCAAAGGTCAA
Found at i:15137646 original size:16 final size:17
Alignment explanation
Indices: 15137608--15137646 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
15137598 TAAGTAAATA
15137608 ATATT-ATATTATAATT
1 ATATTAATATTATAATT
15137624 ATATTAATATTATAA-T
1 ATATTAATATTATAATT
15137640 ATATTAA
1 ATATTAA
15137647 GTGAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAATATTATAATT
Found at i:15138936 original size:19 final size:19
Alignment explanation
Indices: 15138909--15138945 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15138899 TGGGTGTATA
*
15138909 CTCAACGTACGGTTTGTTT
1 CTCAACGTACGATTTGTTT
*
15138928 CTCAGCGTACGATTTGTT
1 CTCAACGTACGATTTGTT
15138946 CCCATGCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (19 bp):
CTCAACGTACGATTTGTTT
Found at i:15144393 original size:22 final size:23
Alignment explanation
Indices: 15144341--15144398 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
15144331 CGGTTTATTC
*
15144341 GCATACCTACTGGAAGTTCATCT
1 GCATATCTACTGGAAGTTCATCT
* *
15144364 ACAAATCTACTGG-AGATT-ATCT
1 GCATATCTACTGGAAG-TTCATCT
15144386 GCATATCTACTGG
1 GCATATCTACTGG
15144399 TGGTATATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (23 bp):
GCATATCTACTGGAAGTTCATCT
Found at i:15145474 original size:100 final size:95
Alignment explanation
Indices: 15145370--15145651 Score: 293
Period size: 100 Copynumber: 2.9 Consensus size: 95
15145360 AAAATATTTC
*
15145370 TTTTAACATAACGATATATAAAAATATATATTTCAATTATATAATTACATATTTATTATTTTATT
1 TTTTAACATAATGATATATAAAAATATATATTT-AATTATATAATTACATATTTATTATTTT-TT
**
15145435 TATACAAATAATGGAAG-TATTAATTAAAAAAATAT
64 TATA-AAATAAAAG-AGTTATTAATT--AAAAATAT
* *
15145470 TTTTAACATAATGATATATATAAAATGTATATTTTATTATATAATTACATATTTATTA--TTTTT
1 TTTTAACATAATGATATATA-AAAATATATATTTAATTATATAATTACATATTTATTATTTTTTT
*
15145533 AT-AAATAAAAGAGTTATTAATTTAAAATAT
65 ATAAAATAAAAGAGTTATTAATTAAAAATAT
* * * * * *
15145563 ATTTAACATAATGATTTATGTAAAAAATATATATTTTGATTAAATAAGTACATGTTTATTATTTT
1 TTTTAACATAATGA--TATAT-AAAAATATATA-TTTAATTATATAATTACATATTTATTATTTT
* *
15145628 GTTTATATAAATAAATGATTTATT
62 -TTTATA-AAATAAAAGAGTTATT
15145652 GTAACACCCT
Statistics
Matches: 156, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
93 20 0.13
94 2 0.01
95 28 0.18
96 24 0.15
97 5 0.03
98 4 0.03
99 5 0.03
100 42 0.27
101 26 0.17
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (95 bp):
TTTTAACATAATGATATATAAAAATATATATTTAATTATATAATTACATATTTATTATTTTTTTA
TAAAATAAAAGAGTTATTAATTAAAAATAT
Found at i:15145637 original size:28 final size:29
Alignment explanation
Indices: 15145594--15145651 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
15145584 AAAAAATATA
* *
15145594 TATTTTGATTAAATAAGTACATG-TTTAT
1 TATTTTGATTAAATAAATAAATGATTTAT
* *
15145622 TATTTTGTTTATATAAATAAATGATTTAT
1 TATTTTGATTAAATAAATAAATGATTTAT
15145651 T
1 T
15145652 GTAACACCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (29 bp):
TATTTTGATTAAATAAATAAATGATTTAT
Found at i:15151218 original size:32 final size:32
Alignment explanation
Indices: 15151163--15151336 Score: 165
Period size: 32 Copynumber: 5.3 Consensus size: 32
15151153 AAATGGCACA
* *
15151163 ACTTGAAAAGGTTATGTACACTTTGTGTGTAC
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAC
*
15151195 ACTTGGAAAA-GTTAGGTATACTTTGTGTATAC
1 ACTT-GAAAAGGTTAGGTATACTTTGTGTGTAC
**
15151227 -CATATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 AC-T-TGAAAAGGTTAGGTATACTTTGTGTGTAC
* *
15151260 ACTTGGAAAGGTTAGGTATACTTTGTGTATAC
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAC
** * *
15151292 -CATATGAAAAGGAAATGTATACTTTGTGCGTACC
1 AC-T-TGAAAAGGTTAGGTATACTTTGTGTGTA-C
*
15151326 ACTTGGAAAGG
1 ACTTGAAAAGG
15151337 AATGTACACC
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
31 2 0.02
32 55 0.47
33 55 0.47
34 3 0.03
35 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (32 bp):
ACTTGAAAAGGTTAGGTATACTTTGTGTGTAC
Found at i:15151235 original size:65 final size:65
Alignment explanation
Indices: 15151166--15151334 Score: 275
Period size: 65 Copynumber: 2.6 Consensus size: 65
15151156 TGGCACAACT
** *
15151166 TGAAAAGGTTATGTACACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
* *
15151231 TGAAAAGGAAAGGTATACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
*
15151296 TGAAAAGGAAATGTATACTTTGTGCGTACCACTTGGAAA
1 TGAAAAGGAAATGTATACTTTGTGTGTA-CACTTGGAAA
15151335 GGAATGTACA
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
65 86 0.90
66 10 0.10
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (65 bp):
TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
Found at i:15151337 original size:33 final size:33
Alignment explanation
Indices: 15151182--15151338 Score: 169
Period size: 33 Copynumber: 4.8 Consensus size: 33
15151172 GGTTATGTAC
* **
15151182 ACTTTGTGTGTA-CACTTGGAAAAGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* *
15151214 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
**
15151247 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* * *
15151279 ACTTTGTGTATACCA-TATGAAAAGGAAATGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
*
15151312 ACTTTGTGCGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
15151339 TGTACACCTC
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
32 39 0.38
33 62 0.61
34 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:15151366 original size:65 final size:65
Alignment explanation
Indices: 15151182--15151374 Score: 176
Period size: 65 Copynumber: 3.0 Consensus size: 65
15151172 GGTTATGTAC
* * * * ** * *
15151182 ACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
* * * ** * * *
15151247 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTAT
1 ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
* *
15151312 ACTTTGTGCGTACCACTTGGAAAGG-AATGTACACCTCGAGTGTATAAC-T-GGAAAATGAAAGG
1 ACTTTGTGCGTA-CACTTGGAAAGGTAAGGTACA-CT-GAGTGTATAACATAGGAAAAGGAAAGG
15151374 T
63 T
15151375 CCGTCGGGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 90 0.80
66 15 0.13
67 8 0.07
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (65 bp):
ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
Found at i:15158267 original size:33 final size:33
Alignment explanation
Indices: 15158225--15158291 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
15158215 TTCCGAAAGG
15158225 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
1 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
15158258 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
1 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
15158291 A
1 A
15158292 AACCGAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (33 bp):
ATAATCTTTTGATCTCATTATGAAAAGGAATGT
Found at i:15158372 original size:33 final size:33
Alignment explanation
Indices: 15158335--15158513 Score: 152
Period size: 33 Copynumber: 5.5 Consensus size: 33
15158325 TACCCAAATA
* * * *
15158335 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
* *
15158368 GTA-CATTTCG-AAAGGTTAGGTATACTTTGTGT
1 GTACCACTT-GAAAAGGTAAGGTATACTTTGTGT
* *
15158400 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTATACTTTGTGT
* * *
15158433 GGA-CACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
* * * *
15158465 ATACCA-TATGAAAAGGAAATGTATATTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTATACTTTGTGT
*
15158498 GTACCACTTGGAAAGG
1 GTACCACTTGAAAAGG
15158514 AATGTACACC
Statistics
Matches: 117, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
32 53 0.45
33 63 0.54
34 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
Found at i:15158385 original size:32 final size:31
Alignment explanation
Indices: 15158346--15158501 Score: 132
Period size: 32 Copynumber: 4.8 Consensus size: 31
15158336 TACAACTTGA
* *
15158346 AAAGGTTATGTACACTTTGTGTGTACATTTCG
1 AAAGGTTAGGTATACTTTGTGTGTACATTT-G
* *
15158378 AAAGGTTAGGTATACTTTGTGTATACCATATG
1 AAAGGTTAGGTATACTTTGTGTGTA-CATTTG
** * *
15158410 AAAAGGAAAGGTATACTTTGTGTGGACACTTGG
1 -AAAGGTTAGGTATACTTTGTGTGTACA-TTTG
* *
15158443 AAAGGTTAGGTATACTTTGTGTATACCATATG
1 AAAGGTTAGGTATACTTTGTGTGTA-CATTTG
** * *
15158475 AAAAGGAAATGTATATTTTGTGTGTAC
1 -AAAGGTTAGGTATACTTTGTGTGTAC
15158502 CACTTGGAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
32 49 0.50
33 49 0.50
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (31 bp):
AAAGGTTAGGTATACTTTGTGTGTACATTTG
Found at i:15158412 original size:65 final size:65
Alignment explanation
Indices: 15158343--15158513 Score: 252
Period size: 65 Copynumber: 2.6 Consensus size: 65
15158333 TAGTACAACT
** * *
15158343 TGAAAAGGTTATGTACACTTTGTGTGTACATTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
* * *
15158408 TGAAAAGGAAAGGTATACTTTGTGTGGACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
* *
15158473 TGAAAAGGAAATGTATATTTTGTGTGTACCACTTGGAAAGG
1 TGAAAAGGAAATGTATACTTTGTGTGTA-CACTTCGAAAGG
15158514 AATGTACACC
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 83 0.87
66 12 0.13
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (65 bp):
TGAAAAGGAAATGTATACTTTGTGTGTACACTTCGAAAGGTTAGGTATACTTTGTGTATACCATA
Found at i:15159874 original size:35 final size:34
Alignment explanation
Indices: 15159806--15159898 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 34
15159796 AAAACATTGA
*
15159806 TAATCCAATCGAAACACACGATATGCTCATAAGAGC
1 TAATCC-ATCGAAACACACCA-ATGCTCATAAGAGC
* * *
15159842 TAATCCATCCGAAACAGACCAATGCTTATAAGAGT
1 TAATCCAT-CGAAACACACCAATGCTCATAAGAGC
15159877 TAATCCATTCGAAACACACCAA
1 TAATCCA-TCGAAACACACCAA
15159899 AACATAGAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
35 33 0.66
36 17 0.34
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (34 bp):
TAATCCATCGAAACACACCAATGCTCATAAGAGC
Found at i:15161294 original size:52 final size:51
Alignment explanation
Indices: 15161217--15161316 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 51
15161207 AATAAAAGAG
* *
15161217 TTATTAATTAAAAACATGAATTAAAAAGAAAATAAAATAAATTGAAAAAAAA
1 TTATTAATTAAAAACATAAAATAAAAAGAAAATAAAATAAATT-AAAAAAAA
** * *
15161269 TTATTAATTAAAAAC-TAAAAATAAAATTAAATTAAATTAAATTAAAAA
1 TTATTAATTAAAAACAT-AAAATAAAAAGAAAATAAAATAAATTAAAAA
15161317 TTTTATCACA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 6 0.15
52 35 0.85
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (51 bp):
TTATTAATTAAAAACATAAAATAAAAAGAAAATAAAATAAATTAAAAAAAA
Found at i:15164974 original size:19 final size:19
Alignment explanation
Indices: 15164950--15164988 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15164940 CTAAAATTTA
15164950 TATGCATACTACTAACCAT
1 TATGCATACTACTAACCAT
15164969 TATGCATACTACTAACCAT
1 TATGCATACTACTAACCAT
15164988 T
1 T
15164989 CAAACATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (19 bp):
TATGCATACTACTAACCAT
Found at i:15166423 original size:43 final size:41
Alignment explanation
Indices: 15166373--15166477 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
15166363 AATCCCAACA
* * * * * *
15166373 TCCCAGACATGGTCGTACATGCTATCACATATTGATGCCACTG
1 TCCCAGACATGGTCTTACACG-AATCAAATA-CGATGCCAATG
*
15166416 TCCCAGACAGGGTCTTACACGAATCAAATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAATCAAATACGATGCCAATG
*
15166457 TCCCAAACATGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
15166478 TAACCATTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 28 0.53
42 7 0.13
43 18 0.34
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAATCAAATACGATGCCAATG
Found at i:15168204 original size:9 final size:9
Alignment explanation
Indices: 15168190--15168214 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15168180 TATGTTAAGA
15168190 TTTAGTGTC
1 TTTAGTGTC
15168199 TTTAGTGTC
1 TTTAGTGTC
15168208 TTTAGTG
1 TTTAGTG
15168215 ATGTAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.24, T:0.56
Consensus pattern (9 bp):
TTTAGTGTC
Found at i:15168229 original size:14 final size:14
Alignment explanation
Indices: 15168210--15168239 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15168200 TTAGTGTCTT
15168210 TAGTGATGTAGTAA
1 TAGTGATGTAGTAA
15168224 TAGTGATGTAGTAA
1 TAGTGATGTAGTAA
15168238 TA
1 TA
15168240 TTGTCTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (14 bp):
TAGTGATGTAGTAA
Found at i:15183310 original size:2 final size:2
Alignment explanation
Indices: 15183303--15183327 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15183293 ATACTTTTAT
15183303 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15183328 CTTTAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15186385 original size:3 final size:3
Alignment explanation
Indices: 15186377--15186534 Score: 89
Period size: 3 Copynumber: 54.3 Consensus size: 3
15186367 GTTAATAAAG
* * *
15186377 ATA ATA ATA ATA TTA ATA GA-A GTA AAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15186422 ATA A-A TATA ATA ATA GTA AGGA AT- ATA ATA ATA ATA GTA ATA A-A
1 ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
15186466 ATA A-A A-A ATG ATG GTA GTA ATA A-A AAA ATA ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** *
15186511 ATG AGG ATA TTA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
15186535 AATCTAAATT
Statistics
Matches: 120, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
2 13 0.11
3 103 0.86
4 4 0.03
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15186423 original size:39 final size:39
Alignment explanation
Indices: 15186369--15186469 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 39
15186359 AACAATGCGT
**
15186369 TAATAA-AGATAATAAT-AATATTAATAGAAGTAA-AAATAA
1 TAATAATA-ATAATAATAAATA-TAATAATAGTAAGAAAT-A
*
15186408 TAATAATAATAATAATAAATATAATAATAGTAAGGAATA
1 TAATAATAATAATAATAAATATAATAATAGTAAGAAATA
*
15186447 TAATAATAATAGTAATAAA-ATAA
1 TAATAATAATAATAATAAATATAA
15186470 AAAATGATGG
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
38 4 0.07
39 43 0.78
40 8 0.15
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (39 bp):
TAATAATAATAATAATAAATATAATAATAGTAAGAAATA
Found at i:15186603 original size:24 final size:23
Alignment explanation
Indices: 15186555--15186604 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
15186545 TTTTCTTTTA
* *
15186555 AAATAAAATATGTAAAAGGATAT
1 AAATAAAATATGTAAAAAGAGAT
15186578 AAATAAAATAATG-AAAATAGAGAT
1 AAATAAAAT-ATGTAAAA-AGAGAT
15186602 AAA
1 AAA
15186605 GCACGCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (23 bp):
AAATAAAATATGTAAAAAGAGAT
Found at i:15186851 original size:3 final size:3
Alignment explanation
Indices: 15186845--15186974 Score: 69
Period size: 3 Copynumber: 44.7 Consensus size: 3
15186835 TAATAAGGGA
* * * *
15186845 AAT AAT AAC AAT AAT -AT AAT AAT AAT AAT AA- AGT AGT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
15186891 AGA- AAT AAC AAT AAT AGT AAA AAT -AT AAT AAT GAT AAT AAAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
15186936 AGT AA- AAG AA- AAT AAT AA- AATT AACT AAT -TT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AA
15186975 AGTAGCTAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
2 13 0.13
3 75 0.77
4 9 0.09
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:15190691 original size:23 final size:23
Alignment explanation
Indices: 15190665--15190709 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15190655 TGGGTATGTG
*
15190665 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
15190688 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
15190710 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:15191425 original size:45 final size:43
Alignment explanation
Indices: 15191362--15192077 Score: 277
Period size: 45 Copynumber: 15.9 Consensus size: 43
15191352 TTGTCGCCTT
* *
15191362 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTAGCT-ATCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-G-TGAT-TTC
* * *
15191407 AGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTGGTTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGTGATTTC
* * *
15191451 AATCTGCTCCACTGCAACTTTAGGAAGATAAGATTTGTCATGGT-
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGTGAT-TTC
* * * * * * * *
15191495 AGA-CTTGATCCGACCTACTACAACTTCAGAGG-TATAGGACTCGTCATTTTT
1 A-ATC-TG---C-TCC-ACTGCAACTTTAG-GGAGATAAGA-TTGTGA-TTTC
* * *
15191546 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTG-TCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-G-TGAT-TTC
* * * * * *
15191591 AGTTTGCTCCGCTGCAACTTTAGGAAGATAAGACTTGTAATTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGTGATTTC
* * * * *
15191635 AACCTGCTCCACTGCAACTTCAGAGAGATAAGGTT-TG-TTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGTGATTTC
* * * * *
15191676 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTAATTATAGCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TG---TGAT---TTC
* * ** * *
15191726 AATCTGTTCCACTGCAACTTCACAGAAATAAGATTCGCT-ATCTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-G-TGAT-TTC
* * * *
15191771 AGTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGTGATTTC
* * ** *
15191815 AA-CTTGCTCTACTGCAACTTCAGATAGATAAGGTT-TGCTATCTTC
1 AATC-TGCTCCACTGCAACTTTAGGGAGATAAGATTGTG--AT-TTC
* * * * * *
15191860 GATTTACTCCGCTGTAACTTCAGGGAGATAAGATATGCT-ATCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TG-TGAT-TTC
* * * *
15191905 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGTGATTTC
* * * * * * *
15191949 AACCTGCTCCATTGCAACTTCAGAGAGATAAGGTTTATAGCTTT-
1 AATCTGCTCCACTGCAACTTTAGGGAGATAA-GATTGT-GATTTC
* * *** *
15191993 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATCTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-GTGAT-TTC
* *
15192038 AGTCTGCTCCACTGCAACTTTAAGGAGATAAGACTTGTGA
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGTGA
15192078 ATTTACTGAT
Statistics
Matches: 512, Mismatches: 111, Indels: 96
0.71 0.15 0.13
Matches are distributed among these distances:
41 34 0.07
42 3 0.01
43 9 0.02
44 167 0.33
45 215 0.42
46 14 0.03
47 4 0.01
48 3 0.01
49 3 0.01
50 56 0.11
51 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGTGATTTC
Done.