Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 50 of 109
Found at i:16315415 original size:7 final size:7
Alignment explanation
Indices: 16315357--16315418 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
16315347 AATGGCTGGA
*
16315357 GTTTAAG
1 GTTTAGG
16315364 GTTTAAGG
1 GTTT-AGG
16315372 G-TTAGGG
1 GTTTA-GG
16315379 GTTTAGG
1 GTTTAGG
*
16315386 CTTTAGG
1 GTTTAGG
16315393 GTTTAGG
1 GTTTAGG
*
16315400 AG-TCAGG
1 -GTTTAGG
16315407 GTTTAGG
1 GTTTAGG
16315414 GTTTA
1 GTTTA
16315419 AATTAATTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
6 2 0.04
7 36 0.80
8 7 0.16
ACGTcount: A:0.19, C:0.03, G:0.39, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:16319205 original size:43 final size:44
Alignment explanation
Indices: 16319158--16319273 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 44
16319148 GAGAAGTGTT
* *
16319158 GCTAAAGGT-TTGTTCTATAGCGACGTTTTCG-GGGAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGACGTTTT-GTGGAAAAAGCGCC
*
16319201 GCTAAAGGTCCTGATCTATAGC-AGCG-TTTGTGGAAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGA-CGTTTTGTGGAAAAAGCGCC
*
16319244 GCTAAAGGTCTTGATCTATAGCGGCGTTTT
1 GCTAAAGGTCTTGATCTATAGCGACGTTTT
16319274 TAGTGGCGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
42 1 0.02
43 47 0.75
44 15 0.24
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (44 bp):
GCTAAAGGTCTTGATCTATAGCGACGTTTTGTGGAAAAAGCGCC
Found at i:16321780 original size:21 final size:22
Alignment explanation
Indices: 16321728--16321781 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
16321718 TATCTAGTTA
*
16321728 GTCTTGAGACAATTGCTTCTAG
1 GTCTTGAGACAAGTGCTTCTAG
* *
16321750 GTCTTCAGACAAGTGTCTT-T-T
1 GTCTTGAGACAAGTG-CTTCTAG
16321771 GTCTTGAGACA
1 GTCTTGAGACA
16321782 GAAGGACATC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 10 0.37
22 14 0.52
23 3 0.11
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (22 bp):
GTCTTGAGACAAGTGCTTCTAG
Found at i:16322705 original size:161 final size:161
Alignment explanation
Indices: 16322348--16322830 Score: 783
Period size: 161 Copynumber: 3.0 Consensus size: 161
16322338 GCTTTCTCAA
* *
16322348 ACGATCAATCATTTGTGTGTATGGATTTGAGTATATATATAAAGGTGGATCAACACTTTCAAATT
1 ACGATCAATCCTTTGTGTGTATGGATTTGAGTATGTATATAAAGGTGGATCAACACTTTCAAATT
* * *
16322413 GGCCTTTTATAGCTTTTTTGAGGAGCTCTTTGAGTTGACC-A-ACTGAAAACTTCATTGATTGTT
66 GGTCTTTTATAGCTTATTTGATGAGCTCTTTGAGTTGACCAACACTGAAAACTTCATTGATTGTT
*
16322476 GGTTAAA-ATTTTTTGGCAACTTGTACATTGG
131 GGTTAAAGA-TCTTTGGCAACTTGTACATTGG
* * * *
16322507 ACGATCAATCCCTCGTGTGTATGGATTTGAGTATGTATATGAAGGTAGATCAACACTTTCAAATT
1 ACGATCAATCCTTTGTGTGTATGGATTTGAGTATGTATATAAAGGTGGATCAACACTTTCAAATT
*
16322572 GGTCTTTTATAGCTTATTTGATGAGCTCTTTGAGTTAACCAACACTGAAAACTTCATTGATTGTT
66 GGTCTTTTATAGCTTATTTGATGAGCTCTTTGAGTTGACCAACACTGAAAACTTCATTGATTGTT
16322637 GGTTAAAGATCTTTGGCAACTTGTACATTGG
131 GGTTAAAGATCTTTGGCAACTTGTACATTGG
* * *
16322668 ACGGTCAATCCTTTGTGTGTATGGATTTGATTATGTATATAAATGTGGATCAACACTTTCAAATT
1 ACGATCAATCCTTTGTGTGTATGGATTTGAGTATGTATATAAAGGTGGATCAACACTTTCAAATT
* *
16322733 GGTCTTTTATAGCTTCTTTGATGAGCTCTTTGAGTTGACCAACACTGGAAACTTCATTGATTGTT
66 GGTCTTTTATAGCTTATTTGATGAGCTCTTTGAGTTGACCAACACTGAAAACTTCATTGATTGTT
*
16322798 GGTTAATGATCTTTGGCAACTTGTACATTGG
131 GGTTAAAGATCTTTGGCAACTTGTACATTGG
16322829 AC
1 AC
16322831 TTCTCACCAG
Statistics
Matches: 299, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
159 95 0.32
160 1 0.00
161 202 0.68
162 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (161 bp):
ACGATCAATCCTTTGTGTGTATGGATTTGAGTATGTATATAAAGGTGGATCAACACTTTCAAATT
GGTCTTTTATAGCTTATTTGATGAGCTCTTTGAGTTGACCAACACTGAAAACTTCATTGATTGTT
GGTTAAAGATCTTTGGCAACTTGTACATTGG
Found at i:16323492 original size:23 final size:23
Alignment explanation
Indices: 16323466--16323512 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
16323456 CTTATTGATA
16323466 GATGTCGCAAATTTTAGATTTAT
1 GATGTCGCAAATTTTAGATTTAT
16323489 GATGTCGCAAATTTTAGATTTAT
1 GATGTCGCAAATTTTAGATTTAT
16323512 G
1 G
16323513 TACAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (23 bp):
GATGTCGCAAATTTTAGATTTAT
Found at i:16325762 original size:21 final size:21
Alignment explanation
Indices: 16325738--16325778 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16325728 TGTTTAGAAT
* *
16325738 ATAATAAAAAATATTTTAATC
1 ATAAAAAAAAATAATTTAATC
16325759 ATAAAAAAAAATAATTTAAT
1 ATAAAAAAAAATAATTTAAT
16325779 TCCTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAAAAAAAAATAATTTAATC
Found at i:16326324 original size:21 final size:22
Alignment explanation
Indices: 16326300--16326340 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16326290 GCCATTGAAT
16326300 TAAAAAAT-ATTAATTTTTTAA
1 TAAAAAATAATTAATTTTTTAA
*
16326321 TAAAATATAATTAATTTTTT
1 TAAAAAATAATTAATTTTTT
16326341 CCAGGGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAAAAATAATTAATTTTTTAA
Found at i:16326415 original size:27 final size:27
Alignment explanation
Indices: 16326377--16326459 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
16326367 ATACAAAGTA
* *
16326377 GTGGCGCCTATCTCAGAGGCGCCAATG
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* * *
16326404 GTGGTGCCTATCTGACAGGCGCCATTA
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* *
16326431 GTTGTG-CTATGTTGAGAGGCGCCAATG
1 GTGGTGCCTAT-CTGAGAGGCGCCAATG
16326458 GT
1 GT
16326460 CTTATTTTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
26 4 0.09
27 41 0.91
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (27 bp):
GTGGTGCCTATCTGAGAGGCGCCAATG
Found at i:16330047 original size:18 final size:18
Alignment explanation
Indices: 16329993--16330041 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
16329983 TAGTTTCGTT
*
16329993 TCTGCCTCTGGCTCCGGC
1 TCTGGCTCTGGCTCCGGC
*
16330011 TCTAGCTCTGGCTCCGGC
1 TCTGGCTCTGGCTCCGGC
16330029 TCTGGCTCTGGCT
1 TCTGGCTCTGGCT
16330042 TTGGCTTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.02, C:0.39, G:0.29, T:0.31
Consensus pattern (18 bp):
TCTGGCTCTGGCTCCGGC
Found at i:16330051 original size:6 final size:6
Alignment explanation
Indices: 16329993--16330047 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
16329983 TAGTTTCGTT
* * * *
16329993 TCTGCC TCTGGC TCCGGC TCTAGC TCTGGC TCCGGC TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
*
16330041 TTTGGC T
1 TCTGGC T
16330048 TTGGTGCATG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.02, C:0.36, G:0.29, T:0.33
Consensus pattern (6 bp):
TCTGGC
Found at i:16331610 original size:15 final size:16
Alignment explanation
Indices: 16331590--16331628 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
16331580 ATAAAAAATC
16331590 ATATAAAAA-TACATT
1 ATATAAAAATTACATT
16331605 ATATAAAAATTACATT
1 ATATAAAAATTACATT
16331621 ATATAAAA
1 ATATAAAA
16331629 TTTAAATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:16331839 original size:60 final size:60
Alignment explanation
Indices: 16331746--16331867 Score: 201
Period size: 60 Copynumber: 2.0 Consensus size: 60
16331736 ATACTAAACT
* * *
16331746 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
16331806 AAACACAA-AATTTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAACAA-TTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
16331866 AA
1 AA
16331868 TATTCATACA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 2 0.03
60 56 0.97
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:16331886 original size:21 final size:22
Alignment explanation
Indices: 16331855--16331896 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
16331845 AATTAATTAT
16331855 AAAATAATTACAATATTCATAC
1 AAAATAATTACAATATTCATAC
16331877 AAAA-AATTACAATATTCATA
1 AAAATAATTACAATATTCATA
16331897 AATAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATTACAATATTCATAC
Found at i:16332209 original size:27 final size:27
Alignment explanation
Indices: 16332152--16332213 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
16332142 GGCATGCCAT
**
16332152 TGGCGCCTCCCTATGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACAATTAA
* *
16332179 TGGCGCCTCCCTATGAGGCTCAATTAG
1 TGGCGCCTCCCTATGAGGCACAATTAA
16332206 TGGCGCCT
1 TGGCGCCT
16332214 ACTTGACAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.16, C:0.31, G:0.26, T:0.27
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACAATTAA
Found at i:16332325 original size:20 final size:19
Alignment explanation
Indices: 16332299--16332342 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
16332289 TATTTAAATA
16332299 TTTAAAAATAA-TAATATTT
1 TTTAAAAA-AATTAATATTT
16332318 TATTAAAAAAATTAATATTT
1 T-TTAAAAAAATTAATATTT
16332338 TTTAA
1 TTTAA
16332343 TTCATTGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAAAAAATTAATATTT
Found at i:16333203 original size:13 final size:13
Alignment explanation
Indices: 16333158--16333210 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
16333148 ATTAAACCAA
*
16333158 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
16333171 ACTTTTCCATAA-C
1 ACTTTT-CAAAAGC
*
16333184 ACCTTTCAAAAGC
1 ACTTTTCAAAAGC
16333197 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
16333210 A
1 A
16333211 TTGCTAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 4 0.12
13 25 0.76
14 4 0.12
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:16337070 original size:38 final size:38
Alignment explanation
Indices: 16337028--16337130 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
16337018 GTATGGGTTT
* *
16337028 ATGCGGTTCATGTGCCATGATGCACTTCATGTGCCAGG
1 ATGCGCTTCATGTGCCAGGATGCACTTCATGTGCCAGG
* *
16337066 ATGCGCTTCATGTGCCAGGATGCGCTTCGTGTGCCAGG
1 ATGCGCTTCATGTGCCAGGATGCACTTCATGTGCCAGG
* * * * *
16337104 ATGCTCTTCGTGCGCTAGTATGCACTT
1 ATGCGCTTCATGTGCCAGGATGCACTT
16337131 TGTCTGCCAG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (38 bp):
ATGCGCTTCATGTGCCAGGATGCACTTCATGTGCCAGG
Found at i:16337115 original size:19 final size:19
Alignment explanation
Indices: 16337028--16337112 Score: 125
Period size: 19 Copynumber: 4.5 Consensus size: 19
16337018 GTATGGGTTT
* *
16337028 ATGCGGTTCATGTGCCATG
1 ATGCGCTTCATGTGCCAGG
*
16337047 ATGCACTTCATGTGCCAGG
1 ATGCGCTTCATGTGCCAGG
16337066 ATGCGCTTCATGTGCCAGG
1 ATGCGCTTCATGTGCCAGG
*
16337085 ATGCGCTTCGTGTGCCAGG
1 ATGCGCTTCATGTGCCAGG
*
16337104 ATGCTCTTC
1 ATGCGCTTC
16337113 GTGCGCTAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 60 1.00
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (19 bp):
ATGCGCTTCATGTGCCAGG
Found at i:16343088 original size:33 final size:32
Alignment explanation
Indices: 16343051--16343127 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
16343041 TGGCCCTACC
* * *
16343051 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTAG-AATGCCATAACCCAGCT
*
16343084 ATGGTCTTATCATTAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTAGAATGCCATAACCCAGCT
*
16343117 ATGGCCTTACA
1 ATGGTCTTACA
16343128 CATGTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.82
34 5 0.13
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATTAGAATGCCATAACCCAGCT
Found at i:16351147 original size:4 final size:4
Alignment explanation
Indices: 16351138--16351166 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
16351128 TGTCAAGTAC
16351138 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
16351167 TATATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:16352139 original size:19 final size:20
Alignment explanation
Indices: 16352112--16352162 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
16352102 AATTATTAAT
16352112 ATTTATTTATAAA-ATT-TA
1 ATTTATTTATAAAGATTATA
*
16352130 ATTATATTTA-AAAGATTATT
1 ATT-TATTTATAAAGATTATA
16352150 ATTTATTTATAAA
1 ATTTATTTATAAA
16352163 TCTTCCATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.21
19 15 0.54
20 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTATTTATAAAGATTATA
Found at i:16361761 original size:40 final size:40
Alignment explanation
Indices: 16361686--16361761 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
16361676 ATAAAAAATC
* * *
16361686 GAGCATTAGCGGCGATTTAGCCAAAGCGTCACTAAAGGTA
1 GAGCATCAGCGGCGATTTACCCAAAGCGCCACTAAAGGTA
*
16361726 GAGCATCAGCGGCGATTT-CCCAGAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTTACCCA-AAGCGCCACTAAA
16361762 AATAGGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.10
40 28 0.90
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTTACCCAAAGCGCCACTAAAGGTA
Found at i:16361896 original size:41 final size:41
Alignment explanation
Indices: 16361837--16362058 Score: 270
Period size: 41 Copynumber: 5.4 Consensus size: 41
16361827 ATTTTTTAAA
* *
16361837 CCTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATACTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
** *
16361877 ATATTTAGCGGCGTTTTTATCTCAGCGCCGCTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
*
16361919 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * *
16361959 ATCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * * **
16362001 CCTTTAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCAT-TTA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTC-TCTGG
16362042 CCTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTTT
16362059 GCCGAAGCGC
Statistics
Matches: 155, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.01
41 148 0.95
42 5 0.03
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
Found at i:16361974 original size:82 final size:82
Alignment explanation
Indices: 16361837--16362058 Score: 338
Period size: 82 Copynumber: 2.7 Consensus size: 82
16361827 ATTTTTTAAA
* * *
16361837 CCTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATACTCGGATATTTAGCGGCGTTTTTATCTCAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTCAG
*
16361902 CGCCGCTAATTCTCTGG
66 CGCCACTAATTCTCTGG
*
16361919 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTCAG
16361984 CGCCACTAATTCTCTGG
66 CGCCACTAATTCTCTGG
* * ** *
16362001 CCTTTAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCAT-TTACCTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCGGATCTTTAGCGGCGTTTTT
16362059 GCCGAAGCGC
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
82 128 0.99
83 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTCAG
CGCCACTAATTCTCTGG
Found at i:16362067 original size:123 final size:123
Alignment explanation
Indices: 16361838--16362075 Score: 300
Period size: 123 Copynumber: 1.9 Consensus size: 123
16361828 TTTTTTAAAC
* * * * *
16361838 CTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATACTCGGATATTTAGCGGCGTTTTTATCTCAGC
1 CTTTAGCAGCGTTTTTATCTAAGCGCCACTAATACTCGGACATTTAGCGGCGTTTGTAGCTAAGC
* * * *
16361903 GCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
66 GCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGAT
* * * *
16361961 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATTCTCTGG-CCTTTAGCGGCGTTTGTAGCTAAG
1 CTTTAGCAGCGTTTTTATCTAAGCGCCACTAATACTC-GGACATTTAGCGGCGTTTGTAGCTAAG
* * *
16362025 CGCCGCTAATGCAT-TTACCTTTAGCGGCGTTTTTGCCGAAGCGCCGTTAAT
65 CGCCGCTAATGC-TCTGACCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
16362076 AGTAACAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
123 94 0.97
124 3 0.03
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.34
Consensus pattern (123 bp):
CTTTAGCAGCGTTTTTATCTAAGCGCCACTAATACTCGGACATTTAGCGGCGTTTGTAGCTAAGC
GCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGAT
Found at i:16362216 original size:2 final size:2
Alignment explanation
Indices: 16362209--16362236 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16362199 AGAGAAGTCG
16362209 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16362237 ACAGCTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16367465 original size:21 final size:21
Alignment explanation
Indices: 16367440--16367501 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
16367430 CAATTTAAAA
*
16367440 CAGAGGCAGCAGCGAGGGAAG
1 CAGAGGCAGCAGCGAGAGAAG
* *
16367461 CAGAGGCTGCAGCAAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
16367482 CAGAGGCCGCAGCGAGAGAA
1 CAGAGGCAGCAGCGAGAGAA
16367502 ACAGCGAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.35, C:0.21, G:0.42, T:0.02
Consensus pattern (21 bp):
CAGAGGCAGCAGCGAGAGAAG
Found at i:16368114 original size:42 final size:42
Alignment explanation
Indices: 16368067--16368233 Score: 235
Period size: 43 Copynumber: 3.9 Consensus size: 42
16368057 TCTTTAGCGG
*
16368067 AAGCGCCGCTAAAGAACATGATCATTAGGGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTCCT
* * *
16368109 AAGCGCTGCTAAAGAACATGATCATTAACGGCATTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGC-GTTTTTTCCT
* *
16368152 AAGCGCTGCTAAAGAACATGATCATTAGCGACGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCG-TTTTTTCCT
* * *
16368195 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTT
16368234 TTCTGTAAGC
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
42 35 0.32
43 76 0.68
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTCCT
Found at i:16368161 original size:43 final size:42
Alignment explanation
Indices: 16368067--16368253 Score: 230
Period size: 43 Copynumber: 4.3 Consensus size: 42
16368057 TCTTTAGCGG
* *
16368067 AAGCGCCGCTAAAGAACATGATCATTAGGGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCTTTTTTTCCT
* *
16368109 AAGCGCTGCTAAAGAACATGATCATTAACGGCATTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGC-TTTTTTTCCT
* *
16368152 AAGCGCTGCTAAAGAACATGATCATTAGCGACGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGC-TTTTTTTCCT
* * * *
16368195 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCGTTTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGC--TTTTTTTC-CT
*
16368240 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
16368254 TTAGCGACGT
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.23
43 76 0.60
44 8 0.06
45 14 0.11
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCATTAGCGGCTTTTTTTCCT
Found at i:16368232 original size:85 final size:85
Alignment explanation
Indices: 16368067--16368233 Score: 239
Period size: 85 Copynumber: 2.0 Consensus size: 85
16368057 TCTTTAGCGG
* * * *
16368067 AAGCGCCGCTAAAGAACATGATCATTAGGGGCGTTTTTTCCTAAGCGCTGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCATTAGCGACGTTTTTTCCTAAGCGCCGCTAAAGAACATGACC
*
16368132 ATTAACGGCATTTTTTTCCT
66 ATTAACGGCAGTTTTTTCCT
*
16368152 AAGCGCTGCTAAAGAACATGATCATTAGCGACGTTTTTTTCCTAAGCGCCGCTAAAGAACATGAC
1 AAGCGCCGCTAAAGAACATGATCATTAGCGACG-TTTTTTCCTAAGCGCCGCTAAAGAACATGAC
*
16368217 CTTTAGA-GGC-GTTTTTT
65 CATTA-ACGGCAGTTTTTT
16368234 TTCTGTAAGC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
85 36 0.49
86 36 0.49
87 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCATTAGCGACGTTTTTTCCTAAGCGCCGCTAAAGAACATGACC
ATTAACGGCAGTTTTTTCCT
Found at i:16371386 original size:28 final size:28
Alignment explanation
Indices: 16371349--16371403 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
16371339 AAGATAGTCA
**
16371349 TTGGCAGACATTTGACCTAAAATAGCCT
1 TTGGCAGACATTCCACCTAAAATAGCCT
* *
16371377 TTGGCGGACATTCCACCTAAGATAGCC
1 TTGGCAGACATTCCACCTAAAATAGCC
16371404 CGTGACAGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (28 bp):
TTGGCAGACATTCCACCTAAAATAGCCT
Found at i:16372941 original size:6 final size:6
Alignment explanation
Indices: 16372930--16372970 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
16372920 TTTCTCAAAA
* *
16372930 AAATGG AAATGG AAATGG AAATAG AAATGA AAATGAG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAAT
16372971 ATTTCATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:16378251 original size:9 final size:9
Alignment explanation
Indices: 16378234--16378270 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16378224 TGAGTTTTCG
16378234 AATTCGAAT
1 AATTCGAAT
*
16378243 AACTCGAAT
1 AATTCGAAT
16378252 AATTCGAAT
1 AATTCGAAT
16378261 AATTCGAAT
1 AATTCGAAT
16378270 A
1 A
16378271 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16379176 original size:5 final size:5
Alignment explanation
Indices: 16379166--16379191 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16379156 CTCGAAAATT
16379166 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
16379192 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:16386174 original size:43 final size:43
Alignment explanation
Indices: 16386071--16386175 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
16386061 TAAGAATTTG
* * * * *
16386071 TGTAAGACCATGTCTAGGACATTGGCATCGATATGTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATACGAGATTACA
* **
16386114 TGTAAGACCATGGCTGGGTTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATACGAGATTACA
*
16386157 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
16386176 TATGACATTG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATACGAGATTACA
Found at i:16387006 original size:36 final size:36
Alignment explanation
Indices: 16386959--16387033 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
16386949 TATTTTAAAG
*
16386959 AGAAACAAACGGGAATATTATTTGAATCCCGTACTA
1 AGAAACAAACGGGAATATCATTTGAATCCCGTACTA
16386995 AGAAACAAACGGGAATATCATTTGAATCCCGTACTA
1 AGAAACAAACGGGAATATCATTTGAATCCCGTACTA
16387031 AGA
1 AGA
16387034 GATAATTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (36 bp):
AGAAACAAACGGGAATATCATTTGAATCCCGTACTA
Found at i:16387649 original size:9 final size:9
Alignment explanation
Indices: 16387631--16387661 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16387621 TTTGGTTAAA
16387631 AATTAACCG
1 AATTAACCG
*
16387640 AATTACCCG
1 AATTAACCG
16387649 AATTAACCG
1 AATTAACCG
16387658 AATT
1 AATT
16387662 GAATTACTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:16388196 original size:16 final size:16
Alignment explanation
Indices: 16388188--16388244 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
16388178 ATTGGATTAT
* *
16388188 AGGTGTATTGGATTAG
1 AGGTGTAATGGAATAG
*
16388204 AGGTGTAATGAAATAG
1 AGGTGTAATGGAATAG
16388220 AGGTGTAATGGAATAG
1 AGGTGTAATGGAATAG
16388236 AGGTGTAAT
1 AGGTGTAAT
16388245 AGCAAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (16 bp):
AGGTGTAATGGAATAG
Found at i:16392346 original size:40 final size:41
Alignment explanation
Indices: 16392302--16392431 Score: 144
Period size: 40 Copynumber: 3.3 Consensus size: 41
16392292 CGTTTAGACA
*
16392302 AAAAACGCCACTAAAAATCAAGCATTAAG-GGCGCTTTTCT-
1 AAAAACGCCGCTAAAAATCAAGCATTAAGCGGCGCTTTT-TG
* ** *
16392342 AAAAACGTCGCTAAAGGTCGAGCATT-AGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAAATCAAGCATTAAGCGGCGCTTTTTG
* *
16392382 GAAAACGCCGCTAAAAAT-AAGCATT-AGCGGCGTTTTTTG
1 AAAAACGCCGCTAAAAATCAAGCATTAAGCGGCGCTTTTTG
*
16392421 AAAAGCGCCGC
1 AAAAACGCCGC
16392432 AACAAGCCTA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.41
40 44 0.59
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCAAGCATTAAGCGGCGCTTTTTG
Found at i:16392529 original size:41 final size:41
Alignment explanation
Indices: 16392472--16392751 Score: 551
Period size: 41 Copynumber: 6.8 Consensus size: 41
16392462 TGAGTTTTTG
*
16392472 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
16392513 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
16392554 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
16392595 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
16392636 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
16392677 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
16392718 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCT
1 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCT
16392752 TAGCGGCGTT
Statistics
Matches: 238, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 238 1.00
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
Found at i:16392691 original size:123 final size:123
Alignment explanation
Indices: 16392472--16392877 Score: 633
Period size: 123 Copynumber: 3.4 Consensus size: 123
16392462 TGAGTTTTTG
16392472 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAT
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAT
16392537 AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
66 AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
*
16392595 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAT
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAT
16392660 AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
66 AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
* *
16392718 GGGCCTTTAGCGGCGTTTTTGAATAA-----GC----GC-C--G-C-TTAGCGGCGTTTTTGAAG
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAT
* * **
16392769 AAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCATCGCTAATGCTC
66 AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
* *
16392827 AGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAG
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAG
16392878 NNNNNNNNNN
Statistics
Matches: 260, Mismatches: 9, Indels: 28
0.88 0.03 0.09
Matches are distributed among these distances:
109 94 0.36
110 1 0.00
111 1 0.00
113 1 0.00
114 4 0.02
118 4 0.02
119 1 0.00
121 1 0.00
122 1 0.00
123 152 0.58
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.29
Consensus pattern (123 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAT
AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
Found at i:16392762 original size:27 final size:27
Alignment explanation
Indices: 16392724--16392778 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
16392714 GCTCGGGCCT
*
16392724 TTAGCGGCGTTTTTGAATAAGCGCCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGC
16392751 TTAGCGGCGTTTTTGAAGAAGCGCCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGC
16392778 T
1 T
16392779 AATGCTCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (27 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGC
Found at i:16392792 original size:68 final size:68
Alignment explanation
Indices: 16392683--16392813 Score: 235
Period size: 68 Copynumber: 1.9 Consensus size: 68
16392673 GCTCGGGCCT
* * *
16392683 TTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCGC
16392748 CGC
66 CGC
16392751 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGC
16392814 ATCGCTAATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (68 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCGC
CGC
Found at i:16392808 original size:41 final size:41
Alignment explanation
Indices: 16392751--16392877 Score: 218
Period size: 41 Copynumber: 3.1 Consensus size: 41
16392741 TAAGCGCCGC
16392751 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCT
** *
16392792 TTAGCGGCGTTTTTGAAGAAGCATCGCTAATGCTCAGACCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCT
*
16392833 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCT
16392874 TTAG
1 TTAG
16392878 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCT
Found at i:16392834 original size:109 final size:109
Alignment explanation
Indices: 16392642--16392860 Score: 366
Period size: 109 Copynumber: 2.0 Consensus size: 109
16392632 GCTCGGGCCT
* * * *
16392642 TTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAC
* * *
16392707 CGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGC
66 CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
*
16392751 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAC
16392816 CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
66 CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
16392860 T
1 T
16392861 AATGCTCGGG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 102 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (109 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAC
CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
Found at i:16392872 original size:150 final size:150
Alignment explanation
Indices: 16392601--16392877 Score: 482
Period size: 150 Copynumber: 1.8 Consensus size: 150
16392591 GCTCGGGCCT
* * * *
16392601 TTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGC
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAC
* * *
16392666 CGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGGGCCTTTAGCGG
66 CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGG
16392731 CGTTTTTGAATAAGCGCCGC
131 CGTTTTTGAATAAGCGCCGC
*
16392751 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAC
16392816 CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAG
66 CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAG
16392878 NNNNNNNNNN
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 119 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (150 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAAGAAGCAC
CGCTAATGCTCAGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGG
CGTTTTTGAATAAGCGCCGC
Found at i:16394454 original size:30 final size:30
Alignment explanation
Indices: 16394401--16394457 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16394391 CTGCAGAAGA
* * **
16394401 AGAAGAAACAGCTGTTGTTGAACAAGAACG
1 AGAAGAAACAACTGTCGCCGAACAAGAACG
16394431 AGAAGAAACAACTGTCGCCGAACAAGA
1 AGAAGAAACAACTGTCGCCGAACAAGA
16394458 GTCTGTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.12
Consensus pattern (30 bp):
AGAAGAAACAACTGTCGCCGAACAAGAACG
Found at i:16401059 original size:18 final size:18
Alignment explanation
Indices: 16401036--16401095 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
16401026 ATGTAATTCT
16401036 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
16401054 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
16401071 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
16401089 AATGTAA
1 AATGTAA
16401096 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:16401343 original size:43 final size:43
Alignment explanation
Indices: 16401295--16401457 Score: 254
Period size: 43 Copynumber: 3.8 Consensus size: 43
16401285 AAGTCATGTT
* *
16401295 TTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTA
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
* * *
16401338 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTTCTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
*
16401381 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
* *
16401424 TTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAG
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
16401458 TTAGCGACGC
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 109 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
Found at i:16404739 original size:25 final size:26
Alignment explanation
Indices: 16404711--16404781 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
16404701 ATATATCAGG
16404711 AAGC-TCCTGA-TATATGGCTATTTGT
1 AAGCTTCCTGATTA-ATGGCTATTTGT
* * *
16404736 AAGCTTCCCGATTAAAGGCTCTTTGT
1 AAGCTTCCTGATTAATGGCTATTTGT
16404762 AAGCTTCCTGATTAATGGCT
1 AAGCTTCCTGATTAATGGCT
16404782 CTCCGGAGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.10
26 33 0.85
27 2 0.05
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
AAGCTTCCTGATTAATGGCTATTTGT
Found at i:16404843 original size:73 final size:73
Alignment explanation
Indices: 16404763--16404902 Score: 192
Period size: 73 Copynumber: 1.9 Consensus size: 73
16404753 GCTCTTTGTA
* * * *
16404763 AGCTTCCTGATTAATGGCTCTCCGGAGCTTCCCGATA-TGGCTCGCTTGAACTTCCTAATATATG
1 AGCTTCCTGATTAATGGCTCTCCAGAGCTACCCGATATTGGCTCACATGAACTTCCTAA-ATATG
16404827 GCTATCCGG
65 GCTATCCGG
* * * *
16404836 AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCACATGAGCTTCCTAAATGTGG
1 AGCTTCCTGATTAATGGCTCTCCAGAGCTACCCGATATTGGCTCACATGAACTTCCTAAATATGG
16404901 CT
66 CT
16404903 CTTATGAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 40 0.69
74 18 0.31
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.32
Consensus pattern (73 bp):
AGCTTCCTGATTAATGGCTCTCCAGAGCTACCCGATATTGGCTCACATGAACTTCCTAAATATGG
CTATCCGG
Found at i:16404852 original size:25 final size:25
Alignment explanation
Indices: 16404763--16404856 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
16404753 GCTCTTTGTA
16404763 AGCTTCCTGATTAATGGCTCTCCGG
1 AGCTTCCTGATTAATGGCTCTCCGG
* * **
16404788 AGCTTCCCGA-T-ATGGCTCGCTTG
1 AGCTTCCTGATTAATGGCTCTCCGG
* * *
16404811 AACTTCCT-AATATATGGCTATCCGG
1 AGCTTCCTGATTA-ATGGCTCTCCGG
16404836 AGCTTCCTGATTAATGGCTCT
1 AGCTTCCTGATTAATGGCTCT
16404857 TCAGAGCTAC
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
22 1 0.02
23 16 0.31
24 1 0.02
25 31 0.60
26 3 0.06
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (25 bp):
AGCTTCCTGATTAATGGCTCTCCGG
Found at i:16404863 original size:25 final size:25
Alignment explanation
Indices: 16404737--16404864 Score: 86
Period size: 25 Copynumber: 5.2 Consensus size: 25
16404727 GCTATTTGTA
* * * *
16404737 AGCTTCCCGATTAAAGGCTCTTTGTA
1 AGCTTCCTGATTAATGGCTCTTCG-G
*
16404763 AGCTTCCTGATTAATGGCTCTCCGG
1 AGCTTCCTGATTAATGGCTCTTCGG
*
16404788 AGCTTCCCGA-T-ATGGCTCGCTT--G
1 AGCTTCCTGATTAATGGCT--CTTCGG
* * * *
16404811 AACTTCCT-AATATATGGCTATCCGG
1 AGCTTCCTGATTA-ATGGCTCTTCGG
*
16404836 AGCTTCCTGATTAATGGCTCTTCAG
1 AGCTTCCTGATTAATGGCTCTTCGG
16404861 AGCT
1 AGCT
16404865 ACCCGTTATT
Statistics
Matches: 78, Mismatches: 16, Indels: 17
0.70 0.14 0.15
Matches are distributed among these distances:
22 1 0.01
23 15 0.19
24 1 0.01
25 38 0.49
26 23 0.29
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
AGCTTCCTGATTAATGGCTCTTCGG
Found at i:16410195 original size:14 final size:15
Alignment explanation
Indices: 16410176--16410208 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16410166 AATTAATAAC
*
16410176 AAAAATAAAGT-ATA
1 AAAAATAAACTGATA
16410190 AAAAATAAACTGATA
1 AAAAATAAACTGATA
16410205 AAAA
1 AAAA
16410209 TAATATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (15 bp):
AAAAATAAACTGATA
Found at i:16410855 original size:26 final size:26
Alignment explanation
Indices: 16410820--16410883 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
16410810 AGCTATGGTT
16410820 TTAC-TAAGTCTTTGAATCACTAACA
1 TTACATAAGTCTTTGAATCACTAACA
16410845 TTACATAAGTCTTTGAATCACTAACA
1 TTACATAAGTCTTTGAATCACTAACA
*
16410871 TTAAATAAGTCTT
1 TTACATAAGTCTT
16410884 GAAATTAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (26 bp):
TTACATAAGTCTTTGAATCACTAACA
Found at i:16413615 original size:25 final size:25
Alignment explanation
Indices: 16413578--16413644 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
16413568 TACAAATCAT
* *
16413578 ATCTTAACGTATCATATCATATTGA
1 ATCTTAACATATCATATCATATCGA
* * *
16413603 ATCTTAGCATATCATGTTATATCGA
1 ATCTTAACATATCATATCATATCGA
* *
16413628 ATCATAACATAACATAT
1 ATCTTAACATATCATAT
16413645 TTTATCATAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (25 bp):
ATCTTAACATATCATATCATATCGA
Found at i:16419550 original size:20 final size:19
Alignment explanation
Indices: 16419516--16419568 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
16419506 GATAATTACA
*
16419516 TTTTATTTTTCTCTTCTCT
1 TTTTATTTTTCTCTTCTAT
*
16419535 TTTTACTTTTTGTCTTCTATT
1 TTTTA-TTTTTCTCTTCTA-T
16419556 TTATTATTTTTCT
1 TT-TTATTTTTCT
16419569 ACAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 5 0.18
20 11 0.39
21 9 0.32
22 3 0.11
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATTTTTCTCTTCTAT
Found at i:16419557 original size:19 final size:19
Alignment explanation
Indices: 16419514--16419560 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
16419504 ATGATAATTA
16419514 CATTTTATTTTTCTCTTCT
1 CATTTTATTTTTCTCTTCT
* *
16419533 CTTTTTACTTTTTGTCTTCT
1 CATTTTA-TTTTTCTCTTCT
16419553 -ATTTTATT
1 CATTTTATT
16419561 ATTTTTCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 11 0.46
20 11 0.46
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (19 bp):
CATTTTATTTTTCTCTTCT
Found at i:16419641 original size:17 final size:17
Alignment explanation
Indices: 16419621--16419663 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16419611 ACTTTGATGA
**
16419621 TTTTTTTTCTTTTCTTC
1 TTTTTTTTCTTTTAATC
* *
16419638 TTTTTTATATTTTAATC
1 TTTTTTTTCTTTTAATC
16419655 TTTTTTTTC
1 TTTTTTTTC
16419664 ATTAGAACTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCTTTTAATC
Found at i:16420054 original size:45 final size:45
Alignment explanation
Indices: 16419990--16420077 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
16419980 GGTAAGAAAT
*
16419990 ATTCTAGTTCGGGAAATTAAAGAACTCGGAAATAAATGAGTACAG
1 ATTCTAGTTCGGGAAATTAAAGAACTCAGAAATAAATGAGTACAG
16420035 ATTCTAGTTCGGGAAATTAAAGAACTCAGAAATAAATGAGTAC
1 ATTCTAGTTCGGGAAATTAAAGAACTCAGAAATAAATGAGTAC
16420078 CGTTAGTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.25
Consensus pattern (45 bp):
ATTCTAGTTCGGGAAATTAAAGAACTCAGAAATAAATGAGTACAG
Found at i:16425398 original size:25 final size:24
Alignment explanation
Indices: 16425370--16425416 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
16425360 CTTTCTTTTT
16425370 CTTTTTCTTATTCATTAT-TTTATTA
1 CTTTTTCTT-TT-ATTATATTTATTA
*
16425395 CTTTTTGTTTTATTATATTTAT
1 CTTTTTCTTTTATTATATTTAT
16425417 ATAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (24 bp):
CTTTTTCTTTTATTATATTTATTA
Found at i:16431243 original size:26 final size:26
Alignment explanation
Indices: 16431214--16431265 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16431204 TTAAAAATCT
*
16431214 TTTAAAATAAAAAAAATTACACAAAA
1 TTTAAAATAAAAAAAATTACAAAAAA
* * *
16431240 TTTACAATAAATATAATTACAAAAAA
1 TTTAAAATAAAAAAAATTACAAAAAA
16431266 GTTATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (26 bp):
TTTAAAATAAAAAAAATTACAAAAAA
Found at i:16431295 original size:19 final size:19
Alignment explanation
Indices: 16431254--16431325 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 19
16431244 CAATAAATAT
16431254 AATTACAAAAAAGTTATTTAAA
1 AATTACAAAAAAG--A-TTAAA
*
16431276 AATTACAAAAATGATTAAA
1 AATTACAAAAAAGATTAAA
* * *
16431295 AATAGAAAAAAAAGAGTATAA
1 AAT-TACAAAAAAGATTA-AA
16431316 AATTACAAAA
1 AATTACAAAA
16431326 TTACAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 8 0.20
20 16 0.39
21 5 0.12
22 12 0.29
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (19 bp):
AATTACAAAAAAGATTAAA
Found at i:16431566 original size:19 final size:17
Alignment explanation
Indices: 16431542--16431603 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 17
16431532 AATGTTCGTA
16431542 ATTTTTAAATAATTTTTGT
1 ATTTTTAAAT--TTTTTGT
16431561 ATTTTTTTAAATTTTTTGT
1 A--TTTTTAAATTTTTTGT
16431580 AAATTTTTAAATTTTTT-T
1 --ATTTTTAAATTTTTTGT
16431598 ATTTTT
1 ATTTTT
16431604 TTAGGTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
16 6 0.15
18 1 0.03
19 22 0.56
21 10 0.26
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTTTAAATTTTTTGT
Found at i:16431574 original size:10 final size:10
Alignment explanation
Indices: 16431561--16431606 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 10
16431551 TAATTTTTGT
16431561 ATTTTTTTAA
1 ATTTTTTTAA
16431571 ATTTTTTGTAA
1 ATTTTTT-TAA
16431582 A--TTTTTAA
1 ATTTTTTTAA
16431590 ATTTTTTT--
1 ATTTTTTTAA
16431598 ATTTTTTTA
1 ATTTTTTTA
16431607 GGTTTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 12 0.38
9 4 0.12
10 12 0.38
11 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:16431605 original size:19 final size:18
Alignment explanation
Indices: 16431552--16431606 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 18
16431542 ATTTTTAAAT
*
16431552 AATTTTTGTATTTTTTTA
1 AATTTTTTTATTTTTTTA
**
16431570 AATTTTTTGTAAATTTTTA
1 AATTTTTT-TATTTTTTTA
16431589 AATTTTTTTATTTTTTTA
1 AATTTTTTTATTTTTTTA
16431607 GGTTTTTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (18 bp):
AATTTTTTTATTTTTTTA
Found at i:16435425 original size:14 final size:14
Alignment explanation
Indices: 16435406--16435467 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
16435396 ATTAACCATA
*
16435406 AAATAAATTAAGAG
1 AAATAAAATAAGAG
*
16435420 AAATAAAAATAAG-C
1 AAAT-AAAATAAGAG
*
16435434 AAATAAAATAA-AT
1 AAATAAAATAAGAG
16435447 AAAT-AAATAACGAG
1 AAATAAAATAA-GAG
16435461 AAATAAA
1 AAATAAA
16435468 CAAACGAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 6 0.15
13 11 0.28
14 13 0.33
15 9 0.23
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (14 bp):
AAATAAAATAAGAG
Found at i:16438443 original size:12 final size:12
Alignment explanation
Indices: 16438408--16438445 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
16438398 TGAATTATGC
16438408 TTTATAAATATT
1 TTTATAAATATT
*
16438420 TGTTAGAAATATT
1 T-TTATAAATATT
16438433 TTTATAAATATT
1 TTTATAAATATT
16438445 T
1 T
16438446 ACAGAGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (12 bp):
TTTATAAATATT
Found at i:16443553 original size:186 final size:186
Alignment explanation
Indices: 16443239--16443615 Score: 745
Period size: 186 Copynumber: 2.0 Consensus size: 186
16443229 GGGAAAAAAA
16443239 GGAATCTTGAAATCTTGGAGTAGTTAGGGTAAGAAATTTGTAGCAAATAAGTAGGAGATACAGTT
1 GGAATCTTGAAATCTTGGAGTAGTTAGGGTAAGAAATTTGTAGCAAATAAGTAGGAGATACAGTT
16443304 CAATCTGGTTGATGTTAGAAAAGATTGTTAGCTCCTTAATTGAAGGAGATGAACTGAGATTTTTT
66 CAATCTGGTTGATGTTAGAAAAGATTGTTAGCTCCTTAATTGAAGGAGATGAACTGAGATTTTTT
16443369 AACCTTGGCAACCTTTCTTTTGTAGATTTTCAAAACTATCTCCAAAACCATTCTGT
131 AACCTTGGCAACCTTTCTTTTGTAGATTTTCAAAACTATCTCCAAAACCATTCTGT
16443425 GGAATCTTGAAATCTTGGAGTAGTTAGGGTAAGAAATTTGTAGCAAATAAGTAGGAGATACAGTT
1 GGAATCTTGAAATCTTGGAGTAGTTAGGGTAAGAAATTTGTAGCAAATAAGTAGGAGATACAGTT
*
16443490 CAATCTGGTTGATGTTAGAAAAGATTGTTAGTTCCTTAATTGAAGGAGATGAACTGAGATTTTTT
66 CAATCTGGTTGATGTTAGAAAAGATTGTTAGCTCCTTAATTGAAGGAGATGAACTGAGATTTTTT
16443555 AACCTTGGCAACCTTTCTTTTGTAGATTTTCAAAACTATCTCCAAAACCATTCTGT
131 AACCTTGGCAACCTTTCTTTTGTAGATTTTCAAAACTATCTCCAAAACCATTCTGT
16443611 GGAAT
1 GGAAT
16443616 ATTGCTACTG
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 190 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (186 bp):
GGAATCTTGAAATCTTGGAGTAGTTAGGGTAAGAAATTTGTAGCAAATAAGTAGGAGATACAGTT
CAATCTGGTTGATGTTAGAAAAGATTGTTAGCTCCTTAATTGAAGGAGATGAACTGAGATTTTTT
AACCTTGGCAACCTTTCTTTTGTAGATTTTCAAAACTATCTCCAAAACCATTCTGT
Found at i:16446526 original size:31 final size:31
Alignment explanation
Indices: 16446491--16446594 Score: 75
Period size: 31 Copynumber: 3.2 Consensus size: 31
16446481 TGAAAATGTT
16446491 AAAATTAATATTTTTAAACTCTGAAAGATAA
1 AAAATTAATATTTTTAAACTCTGAAAGATAA
* *** * *
16446522 AAAATTGAAAAAATAATTTTAGTTTTTGAAA-ATATT
1 AAAATT-----AATATTTTTAAACTCTGAAAGATA-A
* *
16446558 AAAATTAAAATTTTTAAACTCTGAAAGACAA
1 AAAATTAATATTTTTAAACTCTGAAAGATAA
16446589 AAAATT
1 AAAATT
16446595 GAAAAAATCT
Statistics
Matches: 52, Mismatches: 14, Indels: 14
0.65 0.17 0.17
Matches are distributed among these distances:
31 26 0.50
32 2 0.04
35 3 0.06
36 21 0.40
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (31 bp):
AAAATTAATATTTTTAAACTCTGAAAGATAA
Found at i:16446541 original size:67 final size:67
Alignment explanation
Indices: 16446462--16446602 Score: 246
Period size: 67 Copynumber: 2.1 Consensus size: 67
16446452 TTCAGATTTT
* * *
16446462 AAAAAATAATTTTAATTTTTGAAAATGTTAAAATTAATATTTTTAAACTCTGAAAGATAAAAAAT
1 AAAAAATAATTTTAATTTTTGAAAATATTAAAATTAAAATTTTTAAACTCTGAAAGACAAAAAAT
16446527 TG
66 TG
*
16446529 AAAAAATAATTTTAGTTTTTGAAAATATTAAAATTAAAATTTTTAAACTCTGAAAGACAAAAAAT
1 AAAAAATAATTTTAATTTTTGAAAATATTAAAATTAAAATTTTTAAACTCTGAAAGACAAAAAAT
16446594 TG
66 TG
16446596 AAAAAAT
1 AAAAAAT
16446603 CTTATGCTCC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (67 bp):
AAAAAATAATTTTAATTTTTGAAAATATTAAAATTAAAATTTTTAAACTCTGAAAGACAAAAAAT
TG
Found at i:16446964 original size:24 final size:24
Alignment explanation
Indices: 16446932--16446980 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
16446922 ATATAAATAA
*
16446932 AAAATAAAAA-AACAAAACATTTTT
1 AAAAGAAAAATAA-AAAACATTTTT
*
16446956 AAAAGAAAAATAAAAAATATTTTT
1 AAAAGAAAAATAAAAAACATTTTT
16446980 A
1 A
16446981 TAAACCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAGAAAAATAAAAAACATTTTT
Found at i:16449330 original size:30 final size:30
Alignment explanation
Indices: 16449296--16449354 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
16449286 GCCACTCCAC
16449296 TATACATACACGTAATGTTTTCAAACTGAG
1 TATACATACACGTAATGTTTTCAAACTGAG
16449326 TATACATACACGTAATGTTTTCAAACTGA
1 TATACATACACGTAATGTTTTCAAACTGA
16449355 CTTGGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (30 bp):
TATACATACACGTAATGTTTTCAAACTGAG
Found at i:16458175 original size:114 final size:110
Alignment explanation
Indices: 16457857--16458175 Score: 356
Period size: 111 Copynumber: 2.8 Consensus size: 110
16457847 AGTCAAGAGT
* * * *
16457857 GCCGCAAAAGTCTTAAGCAAACGATGTCGTTTTCTTTTAGCTTTAGAGAAATTAGTGGCGC--TT
1 GCCGCAAAAGTTTTAAGCAAACGA--ACGTTTTTTTTTAGCTTTAGAGACATTAGTGGCGCTTTT
* * *
16457920 ATCAGGAAACGCCGCAAAAGTCAAGCATTAGCGGTGCTTTCTCAAAAGC
64 AT-A-AAAACGCCGCAAAAGTCAAGCATTAGCGGTGCTTTCACAAAAGA
* *
16457969 GCCACAAAAGTTTTAAGCAAACG-ACGTTGTTTTTTTCAGCTTTAGAGACATTAGTGGCGCTTTC
1 GCCGCAAAAGTTTTAAGCAAACGAACGTT-TTTTTTT-AGCTTTAGAGACATTAGTGGCGCTTTT
** * * *
16458033 CGAAAAACGCTGCAAAAGTCAAGAATTAGCGGTGCTTTCACAATAGA
64 ATAAAAACGCCGCAAAAGTCAAGCATTAGCGGTGCTTTCACAAAAGA
* * *
16458080 GCCGCAAAATTTTTAAGCAAACGACAACGTTTTTTTGTTGAGTTTTAGACACATTAGTGGCGCTT
1 GCCGCAAAAGTTTTAAGCAAACG--AACGTTTTTTT-TT-AGCTTTAGAGACATTAGTGGCGCTT
* *
16458145 TTATAAAAACGCCGCAGAATTCAAGCATTAG
62 TTATAAAAACGCCGCAAAAGTCAAGCATTAG
16458176 GAAGCACCGC
Statistics
Matches: 173, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
109 4 0.02
110 6 0.03
111 81 0.47
112 22 0.13
113 6 0.03
114 54 0.31
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (110 bp):
GCCGCAAAAGTTTTAAGCAAACGAACGTTTTTTTTTAGCTTTAGAGACATTAGTGGCGCTTTTAT
AAAAACGCCGCAAAAGTCAAGCATTAGCGGTGCTTTCACAAAAGA
Found at i:16458256 original size:102 final size:101
Alignment explanation
Indices: 16458081--16458277 Score: 254
Period size: 102 Copynumber: 1.9 Consensus size: 101
16458071 CACAATAGAG
* * *
16458081 CCGCAAAATTTTTAAGCAAACGACAACGTTTTTTTGTTGAGTTTTAGACACATTAGTGGCGCTTT
1 CCGCAAAAATTTTAAGCAAACGACAACGTTTTTTTGTTGAGCTTTAGACACATTAGGGGCGCTTT
* * * *
16458146 TATAAAAACGCCGCAGAATTCAAGCATTAGGAAGCA
66 TAAAAAAACACCGCAAAAGTCAAGCATTAGGAAGCA
** * *
16458182 CCGCAAAAAATTTTAAGCAAACGGA-GTCGTTTTTTTGTTGAGCTTTAGAGACATTAGGGGTGC-
1 CCGC-AAAAATTTTAAGCAAAC-GACAACGTTTTTTTGTTGAGCTTTAGACACATTAGGGGCGCT
16458245 TTTACAAAAAACACCGCAAAAGTCAAGCATTAG
64 TTTA-AAAAAACACCGCAAAAGTCAAGCATTAG
16458278 CGGCGGTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
101 8 0.10
102 72 0.88
103 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (101 bp):
CCGCAAAAATTTTAAGCAAACGACAACGTTTTTTTGTTGAGCTTTAGACACATTAGGGGCGCTTT
TAAAAAAACACCGCAAAAGTCAAGCATTAGGAAGCA
Found at i:16458375 original size:15 final size:14
Alignment explanation
Indices: 16458349--16458389 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
16458339 CTTTAGACGC
16458349 ATTAGTGGTTTAGGG
1 ATTA-TGGTTTAGGG
16458364 ATTATGGATTTAGGG
1 ATTATGG-TTTAGGG
*
16458379 GTTATGGTTTA
1 ATTATGGTTTA
16458390 TTGTTTATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (14 bp):
ATTATGGTTTAGGG
Found at i:16458460 original size:39 final size:39
Alignment explanation
Indices: 16458412--16458498 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
16458402 TAAGGGTTGA
*
16458412 GGTTTAAGGTTTATAATTTATATATGTTCTATGATTTAG
1 GGTTTAAGGTTTATAATTTATATATATTCTATGATTTAG
*
16458451 GGTTTAAGGTTTATAGTTTATATATATTCTATGATTTAG
1 GGTTTAAGGTTTATAATTTATATATATTCTATGATTTAG
16458490 GGTTTAAGG
1 GGTTTAAGG
16458499 AATATGGGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (39 bp):
GGTTTAAGGTTTATAATTTATATATATTCTATGATTTAG
Found at i:16458504 original size:21 final size:21
Alignment explanation
Indices: 16458480--16458537 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
16458470 ATATATATTC
*
16458480 TATGATTTAGGGTTTAAGGAA
1 TATGGTTTAGGGTTTAAGGAA
* * *
16458501 TATGGGTTAGGGGTTTAGGGAT
1 TATGGTTTA-GGGTTTAAGGAA
16458523 TATGGTTTAAGGGTT
1 TATGGTTT-AGGGTT
16458538 AGGGTTTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 7 0.23
22 22 0.73
23 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGGAA
Found at i:16458514 original size:7 final size:7
Alignment explanation
Indices: 16458504--16458584 Score: 63
Period size: 7 Copynumber: 11.3 Consensus size: 7
16458494 TAAGGAATAT
16458504 GGGTTAG
1 GGGTTAG
16458511 GGGTTTAG
1 GGG-TTAG
* *
16458519 GGATTAT
1 GGGTTAG
* *
16458526 GGTTTAA
1 GGGTTAG
16458533 GGGTTAG
1 GGGTTAG
* *
16458540 GGTTTAA
1 GGGTTAG
*
16458547 GGCTTAG
1 GGGTTAG
*
16458554 GTGTTAG
1 GGGTTAG
*
16458561 GGGTTAA
1 GGGTTAG
16458568 GGGTTAG
1 GGGTTAG
16458575 GGGTTTAG
1 GGG-TTAG
16458583 GG
1 GG
16458585 TTTATAGTTA
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
7 45 0.79
8 12 0.21
ACGTcount: A:0.19, C:0.01, G:0.46, T:0.35
Consensus pattern (7 bp):
GGGTTAG
Found at i:16458517 original size:22 final size:22
Alignment explanation
Indices: 16458488--16458537 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
16458478 TCTATGATTT
16458488 AGGGTTTAAGGAATATGGGTTA
1 AGGGTTTAAGGAATATGGGTTA
* * * *
16458510 GGGGTTTAGGGATTATGGTTTA
1 AGGGTTTAAGGAATATGGGTTA
16458532 AGGGTT
1 AGGGTT
16458538 AGGGTTTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (22 bp):
AGGGTTTAAGGAATATGGGTTA
Found at i:16458586 original size:21 final size:21
Alignment explanation
Indices: 16458486--16458584 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
16458476 ATTCTATGAT
* * * *
16458486 TTAGGGTTTAAGGAATATGGG
1 TTAGGGGTTAGGGATTAAGGG
* *
16458507 TTAGGGGTTTAGGGATTATGGT
1 TTAGGGG-TTAGGGATTAAGGG
* * *
16458529 TTAAGGGTTAGGGTTTAAGGC
1 TTAGGGGTTAGGGATTAAGGG
* *
16458550 TTAGGTGTTAGGGGTTAAGGG
1 TTAGGGGTTAGGGATTAAGGG
16458571 TTAGGGGTTTAGGG
1 TTAGGGG-TTAGGG
16458585 TTTATAGTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
21 40 0.63
22 23 0.37
ACGTcount: A:0.21, C:0.01, G:0.42, T:0.35
Consensus pattern (21 bp):
TTAGGGGTTAGGGATTAAGGG
Found at i:16458646 original size:7 final size:7
Alignment explanation
Indices: 16458633--16458671 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
16458623 ATGGGTTAAG
16458633 GGTTTAT
1 GGTTTAT
*
16458640 GGATTAT
1 GGTTTAT
*
16458647 GGTTTGT
1 GGTTTAT
16458654 GGTTTAT
1 GGTTTAT
*
16458661 GGTTTAA
1 GGTTTAT
16458668 GGTT
1 GGTT
16458672 GGGGATTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.51
Consensus pattern (7 bp):
GGTTTAT
Found at i:16458707 original size:14 final size:14
Alignment explanation
Indices: 16458684--16458713 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16458674 GGATTATGGT
*
16458684 TTAAGTGTTAGGGG
1 TTAAGGGTTAGGGG
16458698 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
16458712 TT
1 TT
16458714 TATGATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:16458996 original size:45 final size:45
Alignment explanation
Indices: 16458946--16459031 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
16458936 CTTCACAGAG
* * *
16458946 TTAAATTCCTAATTTGAAGTTTTAGAAAAATACAAACACTACGGA
1 TTAAATTCCTAATATAAAATTTTAGAAAAATACAAACACTACGGA
* * *
16458991 TTAAATTCCTACTATAAAATTTTTGAAAAATACAAGCACTA
1 TTAAATTCCTAATATAAAATTTTAGAAAAATACAAACACTA
16459032 TAAATCAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (45 bp):
TTAAATTCCTAATATAAAATTTTAGAAAAATACAAACACTACGGA
Found at i:16460232 original size:31 final size:31
Alignment explanation
Indices: 16460194--16460273 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
16460184 AAGGTTTTTA
* *
16460194 ATTGGTTTTTGCAGCTAAGATGGTACATTCT
1 ATTGGTTTTTGCTGCTAAGATGGCACATTCT
* *
16460225 ATTGGTTTTTACTGCTAAGATGGCACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGCACATTCT
*
16460256 ATTGTTTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
16460274 ATCAACCATG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGCACATTCT
Found at i:16461115 original size:87 final size:87
Alignment explanation
Indices: 16460921--16461124 Score: 329
Period size: 87 Copynumber: 2.3 Consensus size: 87
16460911 ACTCAACTTA
16460921 AAGCAGAGACAACATCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCTAGCTACAACTT
1 AAGCAGAGACAACATCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCTAGCTACAACTT
* *
16460986 AAAGCAGATGCAACAGCGAGGG
66 AAAGCAGATGCAACAACGAGAG
* **
16461008 AAGCAGAGGCAGTATCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCTAGCTACAACTT
1 AAGCAGAGACAACATCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCTAGCTACAACTT
*
16461073 AAAGCAGATGCAGCAACGAGAG
66 AAAGCAGATGCAACAACGAGAG
*
16461095 AAGCAGAGACAACAGT-GAGAGAAGCAGAGG
1 AAGCAGAGACAACA-TCGAGAGAAGCTGAGG
16461125 CTGCAGCGAG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 105 0.99
88 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.27, T:0.13
Consensus pattern (87 bp):
AAGCAGAGACAACATCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGAACTCTAGCTACAACTT
AAAGCAGATGCAACAACGAGAG
Found at i:16461139 original size:21 final size:21
Alignment explanation
Indices: 16461074--16461144 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
16461064 CTACAACTTA
* *
16461074 AAGCAGATGCAGCAACGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* * *
16461095 AAGCAGAGACAACAGTGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
16461116 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
*
16461137 AAGTAGAG
1 AAGCAGAG
16461145 TAGAGCAGAA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.38, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:16461523 original size:43 final size:43
Alignment explanation
Indices: 16461488--16461783 Score: 380
Period size: 43 Copynumber: 6.9 Consensus size: 43
16461478 CGTTTATAAA
* * *
16461488 AAAAGCGCCACTAAAAGTCATGATCTATAACGGCGTTTGTAGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* *
16461531 AGAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTATGGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * *
16461574 AGAAGCGCTGCTAAAAGTCATGATCTACAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * *
16461617 TACAA-CGCCGCTAAAAGTCATGATCTGTAACGGCGTTTGTGGG
1 -AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * * * *
16461660 AACAGCGCTGCTAGAAGTTATGATCTATAACGG-GATTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCG-TTTGTGGG
16461703 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
* * * *
16461746 AACAGCGCCGCTAAAAGTCATGACCTTTAGCGGAGTTT
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
16461784 ATTTCTAAAA
Statistics
Matches: 221, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
42 3 0.01
43 214 0.97
44 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGG
Found at i:16476972 original size:11 final size:11
Alignment explanation
Indices: 16476958--16477050 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
16476948 ATATTCAAAT
16476958 AATAATAATAA
1 AATAATAATAA
**
16476969 AATAATAGCAA
1 AATAATAATAA
* * *
16476980 TATAATTATGA
1 AATAATAATAA
*** *
16476991 AATGGCAACAA
1 AATAATAATAA
*
16477002 AACAATAAT-A
1 AATAATAATAA
* *
16477012 AATAAAAAGAA
1 AATAATAATAA
*
16477023 AATAACAATAA
1 AATAATAATAA
16477034 AATAATAATAA
1 AATAATAATAA
16477045 TAATAA
1 -AATAA
16477051 ATAAGAAAAA
Statistics
Matches: 55, Mismatches: 25, Indels: 3
0.66 0.30 0.04
Matches are distributed among these distances:
10 7 0.13
11 43 0.78
12 5 0.09
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (11 bp):
AATAATAATAA
Found at i:16477034 original size:17 final size:17
Alignment explanation
Indices: 16477012--16477059 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
16477002 AACAATAATA
16477012 AATAAAAAGAAAATAAC
1 AATAAAAAGAAAATAAC
* *
16477029 AATAAAATA-ATAATAAT
1 AATAAAA-AGAAAATAAC
16477046 AATAAATAAGAAAA
1 AATAAA-AAGAAAA
16477060 AAAAAAGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (17 bp):
AATAAAAAGAAAATAAC
Found at i:16477405 original size:24 final size:24
Alignment explanation
Indices: 16477385--16477430 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16477375 TTTTTTCTTT
16477385 ATTTTTAACTAAAACCCTTTCCCC
1 ATTTTTAACTAAAACCCTTTCCCC
*
16477409 ATTTTTAACTGAAACCCTTTCC
1 ATTTTTAACTAAAACCCTTTCC
16477431 TTCTTTAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.39
Consensus pattern (24 bp):
ATTTTTAACTAAAACCCTTTCCCC
Found at i:16480786 original size:25 final size:25
Alignment explanation
Indices: 16480728--16480775 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
16480718 AATATTTTTG
16480728 TAATTAAA-T-TATTAATAAATATC
1 TAATTAAATTATATTAATAAATATC
16480751 TAATTAAATTATATTAATATAATAT
1 TAATTAAATTATATTAATA-AATAT
16480776 TTTATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.36
24 1 0.05
25 8 0.36
26 5 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATTAAATTATATTAATAAATATC
Found at i:16487058 original size:6 final size:6
Alignment explanation
Indices: 16487047--16487086 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
16487037 CCCTCTGTTC
16487047 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTTCT CCC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCC-TCT CCC
16487087 ATTTGTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCTCT
Found at i:16501132 original size:17 final size:16
Alignment explanation
Indices: 16501107--16501141 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16501097 AGGTAAAGAA
16501107 ATAATATA-AAACTTT
1 ATAATATATAAACTTT
*
16501122 ATAATATATAATCTTT
1 ATAATATATAAACTTT
16501138 ATAA
1 ATAA
16501142 AAATTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAATATATAAACTTT
Found at i:16505049 original size:18 final size:18
Alignment explanation
Indices: 16505022--16505066 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
16505012 AGACAAATTG
*
16505022 TGCGAGCCCATATAGGTA
1 TGCGAACCCATATAGGTA
* **
16505040 TGCGAACCCATGTATTTA
1 TGCGAACCCATATAGGTA
16505058 TGCGAACCC
1 TGCGAACCC
16505067 TATCAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (18 bp):
TGCGAACCCATATAGGTA
Found at i:16506051 original size:61 final size:58
Alignment explanation
Indices: 16505985--16506098 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 58
16505975 TGATTATCTC
* * * *
16505985 AATATTAAGTTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTACTTTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATAGATTT
16506046 AATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 AATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
16506099 TTAAAGTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.45
59 1 0.02
60 1 0.02
61 25 0.51
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.50
Consensus pattern (58 bp):
AATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAGATTT
Found at i:16506111 original size:58 final size:60
Alignment explanation
Indices: 16505985--16506118 Score: 168
Period size: 58 Copynumber: 2.2 Consensus size: 60
16505975 TGATTATCTC
* * * *
16505985 AATATTAAGTTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTACTTTAATAGATTT
1 AATATTAAGTTTAATCTAATATTTATCTTGTAGATAAGTATTATATTAATTTAATA-ATTA
*
16506046 AATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAAT-ATTA
1 AATATTAAGTTTAATCTAATATTTATCTTGTAGATAAGTATTATATTAATTTAATAATTA
16506102 AAGTAATTAAGTTTAAT
1 AA-T-ATTAAGTTTAAT
16506119 AATAGTTGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.49
59 1 0.02
60 1 0.02
61 25 0.38
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (60 bp):
AATATTAAGTTTAATCTAATATTTATCTTGTAGATAAGTATTATATTAATTTAATAATTA
Found at i:16506218 original size:14 final size:15
Alignment explanation
Indices: 16506201--16506247 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
16506191 AGTTGTACAG
*
16506201 AGAAAAT-TTTCTGA
1 AGAAAATATTTCAGA
*
16506215 AGAAATTATTTCAGA
1 AGAAAATATTTCAGA
* *
16506230 AGAAATTATTTTAGA
1 AGAAAATATTTCAGA
16506245 AGA
1 AGA
16506248 TTTCTAGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (15 bp):
AGAAAATATTTCAGA
Found at i:16506231 original size:15 final size:15
Alignment explanation
Indices: 16506208--16506247 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
16506198 CAGAGAAAAT
*
16506208 TTTCTGAAGAAATTA
1 TTTCAGAAGAAATTA
16506223 TTTCAGAAGAAATTA
1 TTTCAGAAGAAATTA
*
16506238 TTTTAGAAGA
1 TTTCAGAAGA
16506248 TTTCTAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (15 bp):
TTTCAGAAGAAATTA
Found at i:16526044 original size:92 final size:94
Alignment explanation
Indices: 16525888--16526123 Score: 252
Period size: 93 Copynumber: 2.6 Consensus size: 94
16525878 TTAAGGGTGT
** ** *
16525888 AAAAAG-CCCTCAAACTTTTTCAAAAAAAAAAAAATTAAG-CCCT--TGCTCTTTTTATGCACTC
1 AAAAAGACCCTCAAACTTTTTC--AAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTATGCACTC
* *
16525949 AA-TTAGATACTTGAACTTTT-AAAATATATC
64 AATTTAGATACTT-AAATTTTCAAAATACATC
* * * * *
16525979 AAAAAGGCTCTCAAACTTTTTCAGAAAAAGCAATTAAGCCCC-CCTTTTTTTTTTTTGCACTCAA
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTATGCACTCAA
* * *
16526043 TTTGGGTACTTAAATTTTCAAAATGCATC
66 TTTAGATACTTAAATTTTCAAAATACATC
*
16526072 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCTATTAAGCCCCTACTTTTTTT
1 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTT
16526124 CACTCAATTG
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
90 13 0.11
91 9 0.08
92 36 0.30
93 54 0.45
94 8 0.07
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (94 bp):
AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTATGCACTCAA
TTTAGATACTTAAATTTTCAAAATACATC
Found at i:16526360 original size:30 final size:29
Alignment explanation
Indices: 16526294--16526357 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
16526284 AATTTTAATT
16526294 AAAAAATTTAAAAATTTATTAAAAATTAG
1 AAAAAATTTAAAAATTTATTAAAAATTAG
* * *
16526323 AAAAAATTGTAAAATTTTA-TAAAAATCAT
1 AAAAAATT-TAAAAATTTATTAAAAATTAG
16526352 AAAAAA
1 AAAAAA
16526358 ATTACATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAATTTAAAAATTTATTAAAAATTAG
Found at i:16526597 original size:20 final size:20
Alignment explanation
Indices: 16526569--16526661 Score: 50
Period size: 20 Copynumber: 4.7 Consensus size: 20
16526559 GAATTTTATA
16526569 TTTCTTTACATTTTTTATAAT
1 TTTC-TTACATTTTTTATAAT
* * *
16526590 TTTCTTACGACTTTATA-AAA
1 TTTCTTAC-ATTTTTTATAAT
* *
16526610 TTTCATA-ATTTTTTCT-AT
1 TTTCTTACATTTTTTATAAT
* *
16526628 GTTTC-TATATATTTTATAAT
1 -TTTCTTACATTTTTTATAAT
*
16526648 TTTTTTACAATTTT
1 TTTCTTAC-ATTTT
16526662 AATGGTTTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
18 8 0.15
19 14 0.27
20 16 0.31
21 14 0.27
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTCTTACATTTTTTATAAT
Found at i:16526622 original size:38 final size:36
Alignment explanation
Indices: 16526538--16526622 Score: 82
Period size: 38 Copynumber: 2.2 Consensus size: 36
16526528 TTTTGGTATG
* *
16526538 ATAATTTTTATAATTTTTTATGAATTTTATATTTCT
1 ATAATTTTTATAATTTTTTACGAATTTTAAATTTCT
* *
16526574 TTACATTTTTTATAATTTTCTTACGACTTTATAAAATTTC-
1 ATA-A-TTTTTATAATTTT-TTACGAATTT-T-AAATTTCT
16526614 ATAATTTTT
1 ATAATTTTT
16526623 TCTATGTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
36 2 0.05
37 1 0.03
38 18 0.46
39 9 0.23
40 3 0.08
41 6 0.15
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (36 bp):
ATAATTTTTATAATTTTTTACGAATTTTAAATTTCT
Found at i:16526682 original size:12 final size:12
Alignment explanation
Indices: 16526667--16526692 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16526657 ATTTTAATGG
16526667 TTTTTATAATTT
1 TTTTTATAATTT
16526679 TTTTTATAATTT
1 TTTTTATAATTT
16526691 TT
1 TT
16526693 ATTCTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:16529255 original size:15 final size:15
Alignment explanation
Indices: 16529237--16529265 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16529227 AATGTAAACA
16529237 AATTTGAAAATGAAG
1 AATTTGAAAATGAAG
16529252 AATTTGAAAATGAA
1 AATTTGAAAATGAA
16529266 TAATAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (15 bp):
AATTTGAAAATGAAG
Found at i:16529566 original size:23 final size:22
Alignment explanation
Indices: 16529538--16529601 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
16529528 TTAAATCTCG
*
16529538 AAGATTACAAAATCATATTTTCT
1 AAGATTAC-AAATCATATCTTCT
* *
16529561 AAGATTGCATATCATATCTTCT
1 AAGATTACAAATCATATCTTCT
* *
16529583 AAGATTGCATATCATATCT
1 AAGATTACAAATCATATCT
16529602 AAGATTGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 31 0.82
23 7 0.18
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (22 bp):
AAGATTACAAATCATATCTTCT
Found at i:16529576 original size:22 final size:21
Alignment explanation
Indices: 16529549--16529614 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 21
16529539 AGATTACAAA
16529549 ATCATATTTTCTAAGATTGCAT
1 ATCATA-TTTCTAAGATTGCAT
16529571 ATCATATCTTCTAAGATTGCAT
1 ATCATAT-TTCTAAGATTGCAT
16529593 ATCATA--TCTAAGATTGCAT
1 ATCATATTTCTAAGATTGCAT
16529612 ATC
1 ATC
16529615 CTTGAAGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.37
21 1 0.02
22 26 0.60
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (21 bp):
ATCATATTTCTAAGATTGCAT
Found at i:16530349 original size:131 final size:132
Alignment explanation
Indices: 16530081--16530476 Score: 595
Period size: 131 Copynumber: 3.0 Consensus size: 132
16530071 AATAAGGCTA
* * * * *
16530081 GTGGTTTAAATCTGCTTCCCTACTACTTCGGGAAGATAAGACTTGCCGTCTTTGATCTGTTCCAC
1 GTGGCTTAAATCTTCTTCCCTACTACTTCGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCAC
*
16530146 TACTGCTTAGAGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTT-AGGGAGATAGGA
66 TACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTG-TTCAGGGAGATAGGA
16530210 CTG
130 CTG
* *
16530213 GTGGCTTAAATCTTCTTCCCTACTACTTTGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCTAC
1 GTGGCTTAAATCTTCTTCCCTACTACTTCGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCAC
16530278 TACTGC-TAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGTTCAGGGAGATAGGAC
66 TACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGTTCAGGGAGATAGGAC
16530342 TG
131 TG
* *
16530344 GTGGCTTAAATCTTCTT-CCTACTA-TCTCGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCA
1 GTGGCTTAAATCTTCTTCCCTACTACT-TCGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCA
* * * * * *
16530407 CTACTGCTTAGGAAGACAGGATCTACAATTTTCAATC-ACTCCACTACTGCTCAGGGAGATAGAA
65 CTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGTTCAGGGAGATAGGA
16530471 CTG
130 CTG
16530474 GTG
1 GTG
16530477 TTTTCGATCT
Statistics
Matches: 243, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
129 1 0.00
130 79 0.33
131 99 0.41
132 64 0.26
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
GTGGCTTAAATCTTCTTCCCTACTACTTCGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCAC
TACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGTTCAGGGAGATAGGAC
TG
Found at i:16530878 original size:88 final size:87
Alignment explanation
Indices: 16530416--16531316 Score: 847
Period size: 88 Copynumber: 10.2 Consensus size: 87
16530406 ACTACTGCTT
* * * * * * * *
16530416 AGGAAGACAGGATCTACAATTTTCAATC-ACTCCACTACTGCTCAGGGAGAT-AGAACTGGTGTT
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAG-GCT-GTATC
* * *
16530479 TTCGATCTGCTTCACTGCCAGTAC
64 TTCGATCTACTTCGCTGCCAATAC
* * * ** * ** * * ** *
16530503 AGGAAGATAAGATCTGCTGTTTTTAGTCTGCTCTGCTGCAAACTCAGGGAGGCAAGGCTGGTGTC
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC-TACTCAGGGAGATAAGGCT-GTATC
* * *
16530568 TTCGATCTGCTTCACTACCAATAC
64 TTCGATCTACTTCGCTGCCAATAC
* * ** * * * *
16530592 AGGAAGACAAGATCTACTATCTTCAGTCTGCTCCGCTACAACTCAGGGAGATAAGACTTGCTATC
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGC-TG-TATC
* * *
16530657 TTCGATCTGCTTCGCTGTCAGTAC
64 TTCGATCTACTTCGCTGCCAATAC
* * * * *
16530681 AGGAAGACAATATCTGTTCTTTTCAACCTACTCCACTGCTACTCAGGGAGAT-GGGACTTGCTAT
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGG-C-TG-TAT
*
16530745 CTTCGATCTACTTCGCTGCCAATAT
63 CTTCGATCTACTTCGCTGCCAATAC
* * * **
16530770 AGGAAGACAAGATCTGTTATTTTCAACATACTCCACTACTACCCAGGGAGATAAGGCTAGGGTCT
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGCT-GTATCT
16530835 TCGATCTACTTCGCTGCCAATAC
65 TCGATCTACTTCGCTGCCAATAC
* * ** * * *
16530858 AGGAAGATAATATCTATTATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGATATCT
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGCTG-TATCT
* *
16530923 TCAATCTACTTCACTGCCAATAC
65 TCGATCTACTTCGCTGCCAATAC
* * * * **
16530946 AGGAAGACAAGATCTGCTATTTTCAACCTATTCTACTGCTACTTAGAAAGATAAGGCTGGTATCT
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGCT-GTATCT
*
16531011 TCGATCTACTTCGCTGCCAATAT
65 TCGATCTACTTCGCTGCCAATAC
* * * * * *
16531034 AGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTG-AGGTC
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGCTGTA--TC
* * *
16531098 TCCGATCTACTTCGCTGTCAATAT
64 TTCGATCTACTTCGCTGCCAATAC
* * * * * * *
16531122 AGGAAGATAAGATCGGCTATTTTTAACCTACTCCACTACTGCTTAGAGAGACAAGGCTTGTATCT
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGC-TGTATCT
16531187 TCGATCTACTTCGCTGCCAATAC
65 TCGATCTACTTCGCTGCCAATAC
* * *
16531210 AGGAAGACAAGATTTGCTATTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTTGTATCT
1 AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGC-TGTATCT
* * *
16531275 TCGATCTACTTTGCTGTCAATAT
65 TCGATCTACTTCGCTGCCAATAC
16531298 AGGAAGACAAGATCTGCTA
1 AGGAAGACAAGATCTGCTA
16531317 CTGCCAATAC
Statistics
Matches: 682, Mismatches: 118, Indels: 27
0.82 0.14 0.03
Matches are distributed among these distances:
86 1 0.00
87 23 0.03
88 437 0.64
89 216 0.32
90 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (87 bp):
AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGGGAGATAAGGCTGTATCTT
CGATCTACTTCGCTGCCAATAC
Found at i:16531014 original size:176 final size:176
Alignment explanation
Indices: 16530415--16531316 Score: 941
Period size: 176 Copynumber: 5.1 Consensus size: 176
16530405 CACTACTGCT
* * * * * * * *
16530415 TAGGAAGACAGGATCTACAATTTTCAATC-ACTCCACTACTGCTCAGGGAGAT-AGAACTGGTGT
1 TAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGAGAGATAAG-GCTGGTAT
* * * * * * * * * ** * **
16530478 TTTCGATCTGCTTCACTGCCAGTACAGGAAGATAAGATCTGCTGTTTTTAGTCTGCTCTGCTGCA
65 CTTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGC-
** * * * * * *
16530543 AACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTACCAATA
129 TGCTCAGGGAGACAAGGCTGATATCTTCGATCTACTTCGCTGCCAATA
* * * ** * * * * * *
16530591 CAGGAAGACAAGATCTACTATCTTCAGTCTGCTCCGCTACAACTCAGGGAGATAAGACTTGCTAT
1 TAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGAGAGATAAGGC-TGGTAT
* * * *
16530656 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGACAATATCTGTTCTTTTCAACCTACTCCACTGCT
65 CTTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCT
* ** *
16530721 ACTCAGGGAGA-TGGGACTTGCTATCTTCGATCTACTTCGCTGCCAATA
130 GCTCAGGGAGACAAGG-C-TGATATCTTCGATCTACTTCGCTGCCAATA
* * * * *
16530769 TAGGAAGACAAGATCTGTTATTTTCAACATACTCCACTACTACCCAGGGAGATAAGGCTAGG-GT
1 TAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGAGAGATAAGGCT-GGTAT
* *
16530833 CTTCGATCTACTTCGCTGCCAATACAGGAAGATAATATCTATTATTTTCAACCTACTCCACTGCT
65 CTTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCT
* * * *
16530898 GCTTAGGGAGATAAGGCTGATATCTTCAATCTACTTCACTGCCAATA
130 GCTCAGGGAGACAAGGCTGATATCTTCGATCTACTTCGCTGCCAATA
* * * * * *
16530945 CAGGAAGACAAGATCTGCTATTTTCAACCTATTCTACTGCTACTTAGAAAGATAAGGCTGGTATC
1 TAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGAGAGATAAGGCTGGTATC
*
16531010 TTCGATCTACTTCGCTGCCAATATAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCTG
66 TTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCTG
* ** * *
16531075 CTCAAGGAGACAAGGCTGAGGTCTCCGATCTACTTCGCTGTCAATA
131 CTCAGGGAGACAAGGCTGATATCTTCGATCTACTTCGCTGCCAATA
* * * * * * *
16531121 TAGGAAGATAAGATCGGCTATTTTTAACCTACTCCACTACTGCTTAGAGAGACAAGGCTTGTATC
1 TAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGAGAGATAAGGCTGGTATC
* * * *
16531186 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATTTGCTATTTTCAACCTACTCCACTACTG
66 TTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCTG
* *
16531251 CTCAGGGAGACAAGGCTTG-TATCTTCGATCTACTTTGCTGTCAATA
131 CTCAGGGAGACAAGGC-TGATATCTTCGATCTACTTCGCTGCCAATA
16531297 TAGGAAGACAAGATCTGCTA
1 TAGGAAGACAAGATCTGCTA
16531317 CTGCCAATAC
Statistics
Matches: 611, Mismatches: 106, Indels: 18
0.83 0.14 0.02
Matches are distributed among these distances:
175 2 0.00
176 373 0.61
177 105 0.17
178 131 0.21
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (176 bp):
TAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTACTCAGAGAGATAAGGCTGGTATC
TTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCTG
CTCAGGGAGACAAGGCTGATATCTTCGATCTACTTCGCTGCCAATA
Found at i:16531051 original size:264 final size:263
Alignment explanation
Indices: 16530547--16531313 Score: 971
Period size: 264 Copynumber: 2.9 Consensus size: 263
16530537 GCTGCAAACT
* * * * *
16530547 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTACCAATACAGGAAGACAAGATCTACTAT
1 CAGGGAGACAAGGCTGG-GTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTACTAT
* ** * * ** * * * *
16530612 CTTCAGTCTGCTCCGCTACAACTCAGGGAGATAAGACTTGCTATCTTCGATCTGCTTCGCTGTCA
65 TTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTTG-TATCTTCGATCTACTTCGCTGCCA
* * * * *
16530677 GTACAGGAAGACAATATCTGTTCTTTTCAACCTACTCCACTGCTACTCAGGGAGAT-GGGACTTG
129 ATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGG-C-TG
*
16530741 CTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTATTTTCAACATACTCCAC
192 GTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTATTTTCAACATACTCCAC
16530806 TACTACC
257 TACTACC
* * *
16530813 CAGGGAGATAAGGCTAGGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAATATCTATTAT
1 CAGGGAGACAAGGCT-GGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTACTAT
* * *
16530878 TTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGC-TGATATCTTCAATCTACTTCACTGCCA
65 TTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTTG-TATCTTCGATCTACTTCGCTGCCA
* * * **
16530942 ATACAGGAAGACAAGATCTGCTATTTTCAACCTATTCTACTGCTACTTAGAAAGATAAGGCTGGT
129 ATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTGGT
* * *
16531007 ATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTG
194 ATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTATTTTCAACATACTCCACTA
* *
16531072 CTGCT
259 CTACC
* * * * **
16531077 CAAGGAGACAAGGCTGAGGTCTCCGATCTACTTCGCTGTCAATATAGGAAGATAAGATCGGCTAT
1 CAGGGAGACAAGGCTG-GGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTACTAT
* * *
16531142 TTTTAACCTACTCCACTACTGCTTAGAGAGACAAGGCTTGTATCTTCGATCTACTTCGCTGCCAA
65 TTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTTGTATCTTCGATCTACTTCGCTGCCAA
* * * * *
16531207 TACAGGAAGACAAGATTTGCTATTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTTGTA
130 TACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTGGTA
* *
16531272 TCTTCGATCTACTTTGCTGTCAATATAGGAAGACAAGATCTG
195 TCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTG
16531314 CTACTGCCAA
Statistics
Matches: 430, Mismatches: 67, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
263 1 0.00
264 272 0.63
265 72 0.17
266 83 0.19
267 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (263 bp):
CAGGGAGACAAGGCTGGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTACTATT
TTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTTGTATCTTCGATCTACTTCGCTGCCAAT
ACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTGGTAT
CTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTATTTTCAACATACTCCACTACT
ACC
Found at i:16531220 original size:44 final size:44
Alignment explanation
Indices: 16531170--16531308 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 44
16531160 CTGCTTAGAG
16531170 AGACAAGGCTTGTATCTTCGATCTACTTCGCTGCCAATACAGGA
1 AGACAAGGCTTGTATCTTCGATCTACTTCGCTGCCAATACAGGA
** * * * * * * *** *
16531214 AGACAAGATTTGCTATTTTCAACCTACTCCACTACTGCT-CAGGG
1 AGACAAGGCTTG-TATCTTCGATCTACTTCGCTGCCAATACAGGA
* * *
16531258 AGACAAGGCTTGTATCTTCGATCTACTTTGCTGTCAATATAGGA
1 AGACAAGGCTTGTATCTTCGATCTACTTCGCTGCCAATACAGGA
16531302 AGACAAG
1 AGACAAG
16531309 ATCTGCTACT
Statistics
Matches: 66, Mismatches: 27, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 15 0.23
44 34 0.52
45 17 0.26
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
AGACAAGGCTTGTATCTTCGATCTACTTCGCTGCCAATACAGGA
Found at i:16531454 original size:45 final size:45
Alignment explanation
Indices: 16531403--16531986 Score: 826
Period size: 45 Copynumber: 13.0 Consensus size: 45
16531393 ACAAGGCTTG
* * *
16531403 TATCTTCGATCTACTTTGCTGTCAATATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
*
16531448 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* *
16531493 TATCTTCGATCTACTTTGCTGCCAATACAGGAAAACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* *
16531538 TATCTTCGATCTACTTCTCTGCCAATACAGGAAGACAAGATTTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* *
16531583 TATCTTCGATTTACTTCGCTGCCAATACAGGAAGACAATATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
16531628 TATCTTCGATCTACTTTGATGCCAATATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
16531673 TATCTTCGATCTAATTCGCTGCCAATATAAGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * *
16531718 TATCTTCGATCTACTTTGCTACCAATATAGGAAGACAAGTTCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * *
16531763 TATCTTTGATCTACTTCGCTGCCGATAGAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *
16531808 TATCTTCAATCTACTTCGCTACCAATATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * * *
16531853 TATCTTTGATCTACTTCGCTGTCAGTATAGGAAGACAAGATCTAC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* *
16531898 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTAC
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* ** *
16531943 TATTTTTTATCTACTTCGCTGCTAATACAGGAAGACAAGATCTG
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
16531987 TTGTTTTCAC
Statistics
Matches: 480, Mismatches: 59, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 480 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
Found at i:16531511 original size:90 final size:90
Alignment explanation
Indices: 16530566--16531986 Score: 836
Period size: 90 Copynumber: 16.0 Consensus size: 90
16530556 AAGGCTGGTG
* * * * * *
16530566 TCTTCGATCTGCTTCACTACCAATACAGGAAGACAAGATCTACTATCTTC-AGTCTGCTCCGCT-
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCGCTG
* * *
16530629 ACAACT-CAGGGAGATAAGA-CTTGCTA
65 CCAA-TACAGGAAGACAAGATC-TGCTA
* * * * * * * * * * *
16530655 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGACAATATCTGTTCTTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * * ***
16530720 TACT-CAGGGAGATGGGA-CTTGCTA
66 CAATACAGGAAGACAAGATC-TGCTA
* * * * * *
16530744 TCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTATTTTC-AACATACTCCACT-
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATC-TACTTCGCTG
* * ** * * * **
16530807 ACTACCCAGGGAGATAAG-GCTAG-GG
65 CCAATACAGGAAGACAAGATCT-GCTA
* * ** * * * * *
16530832 TCTTCGATCTACTTCGCTGCCAATACAGGAAGATAATATCTATTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*** * * * * *
16530897 TGCT-TAGGGAGATAAG-GCTGATA
66 CAATACAGGAAGACAAGATCTGCTA
* * * * * *
16530920 TCTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTA-TTCTACTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-GCTG
* * * * * * *
16530984 CTACT-TAGAAAGATAAG-GCTGGTA
65 CCAATACAGGAAGACAAGATCTGCTA
* * * * * * * *
16531008 TCTTCGATCTACTTCGCTGCCAATATAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*** * ***
16531073 TGCT-CAAGG-AGACAAG-GCTGAGG
66 CAATAC-AGGAAGACAAGATCTGCTA
* * * * * * ** * * * *
16531096 TCTCCGATCTACTTCGCTGTCAATATAGGAAGATAAGATCGGCTATTTTTAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * *
16531161 TGC-TTAGA-G-AGACAAG-GCTTG-TA
66 --CAATACAGGAAGACAAGATC-TGCTA
* * * * * * *
16531184 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATTTGCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*** * *
16531249 TGCT-CAGGGAGACAAG-GCTTG-TA
66 CAATACAGGAAGACAAGATC-TGCTA
* * * * * * ** ** *
16531272 TCTTCGATCTACTTTGCTGTCAATATAGGAAGACAAGATCTGCTA-CTGCCA-ATAC-AGGAAGA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * * * *** * *
16531334 AAAGATCTGCTATCTTCGAGATCGGCTA
66 CAATA-CAG-GA-AGACAAGATCTGCTA
* ** * * * * * * * * *
16531362 TTTTTAACCTACTCCACTACTACT-CAGGGAGACAAG-GCTTG-TATCTTCGATCTACTTTGCTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCGCTG
* *
16531424 TCAATATAGGAAGACAAGATCTGCTA
65 CCAATACAGGAAGACAAGATCTGCTA
* *
16531450 TCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGATCTGCTATCTTCGATCTACTTTGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*
16531515 CAATACAGGAAAACAAGATCTGCTA
66 CAATACAGGAAGACAAGATCTGCTA
* * *
16531540 TCTTCGATCTACTTCTCTGCCAATACAGGAAGACAAGATTTGCTATCTTCGATTTACTTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*
16531605 CAATACAGGAAGACAATATCTGCTA
66 CAATACAGGAAGACAAGATCTGCTA
* * * *
16531630 TCTTCGATCTACTTTGATGCCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAATTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* *
16531695 CAATATAAGAAGACAAGATCTGCTA
66 CAATACAGGAAGACAAGATCTGCTA
* * * * *
16531720 TCTTCGATCTACTTTGCTACCAATATAGGAAGACAAGTTCTGCTATCTTTGATCTACTTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * *
16531785 CGATAGAGGAAGACAAGATCTGTTA
66 CAATACAGGAAGACAAGATCTGCTA
* * * * *
16531810 TCTTCAATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGT
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * *
16531875 CAGTATAGGAAGACAAGATCTACTA
66 CAATACAGGAAGACAAGATCTGCTA
* * * **
16531900 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATTTTTTATCTACTTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*
16531965 TAATACAGGAAGACAAGATCTG
66 CAATACAGGAAGACAAGATCTG
16531987 TTGTTTTCAC
Statistics
Matches: 1085, Mismatches: 215, Indels: 63
0.80 0.16 0.05
Matches are distributed among these distances:
86 4 0.00
87 10 0.01
88 423 0.39
89 176 0.16
90 467 0.43
91 5 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (90 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
CAATACAGGAAGACAAGATCTGCTA
Found at i:16531645 original size:135 final size:135
Alignment explanation
Indices: 16530566--16531986 Score: 879
Period size: 135 Copynumber: 10.6 Consensus size: 135
16530556 AAGGCTGGTG
* * * * * *
16530566 TCTTCGATCTGCTTCACTACCAATACAGGAAGACAAGATCTACTATCTTC-AGTCTGCTCCGCT-
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCGCTG
* * * * * * * *
16530629 ACAACT-CAGGGAGATAAGA-CTTGCTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGACAAT
65 CCAA-TATAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAG
* *
16530692 ATCTGTTC
128 ATCTGCTA
* * * * * * * * ***
16530700 TTTTCAACCTACTCCACTGCTACT-CAGGGAGATGGGA-CTTGCTATCTTCGATCTACTTCGCTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCGCTG
* * * * * * * ** * *
16530763 CCAATATAGGAAGACAAGATCTGTTATTTTC-AACATACTCCACT-ACTACCCAGGGAGATAAG-
65 CCAATATAGGAAGACAAGATCTGCTATCTTCGATC-TACTTCGCTGCCAATACAGGAAGACAAGA
* **
16530825 GCTAG-GG
129 TCT-GCTA
* * ** * * * * *
16530832 TCTTCGATCTACTTCGCTGCCAATACAGGAAGATAATATCTATTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*** * * * * * *
16530897 TGCT-TAGGGAGATAAG-GCTGATATCTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATC
66 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
16530960 TGCTA
131 TGCTA
* * * * * * * * * * *
16530965 TTTTCAACCTA-TTCTACTGCTACT-TAGAAAGATAAG-GCTGGTATCTTCGATCTACTTCGCTG
1 TCTTCGATCTACTTC-GCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTG
* * * * * * * ***
16531027 CCAATATAGGAAGACAATATCTGTTATTTTCAACCTACTCCACTGCTGCT-CAAGG-AGACAAG-
65 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATAC-AGGAAGACAAGA
* ***
16531089 GCTGAGG
129 TCTGCTA
* * * * * * ** * * * *
16531096 TCTCCGATCTACTTCGCTGTCAATATAGGAAGATAAGATCGGCTATTTTTAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*** *
16531161 TGCT-TA-GAGAGACAAG-GCTTG-TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
66 CAATATAGGA-AGACAAGATC-TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
*
16531222 TTTGCTA
129 TCTGCTA
* * * * * * *** * * *
16531229 TTTTCAACCTACTCCACTACTGCT-CAGGGAGACAAG-GCTTG-TATCTTCGATCTACTTTGCTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCGCTG
* * * * ** ** ** * * * *** *
16531291 TCAATATAGGAAGACAAGATCTGCTA-CTGCCA-ATAC-AGGAAGAAAAGATCTGCTATCTTCGA
65 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATA-CAG-GA-AGACAA
*
16531353 GATCGGCTA
127 GATCTGCTA
* ** * * * * * * * * *
16531362 TTTTTAACCTACTCCACTACTACT-CAGGGAGACAAG-GCTTG-TATCTTCGATCTACTTTGCTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCGCTG
* *
16531424 TCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGAT
65 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGAT
16531489 CTGCTA
130 CTGCTA
* * *
16531495 TCTTCGATCTACTTTGCTGCCAATACAGGAAAACAAGATCTGCTATCTTCGATCTACTTCTCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * * *
16531560 CAATACAGGAAGACAAGATTTGCTATCTTCGATTTACTTCGCTGCCAATACAGGAAGACAATATC
66 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
16531625 TGCTA
131 TGCTA
* * * *
16531630 TCTTCGATCTACTTTGATGCCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAATTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * * * *
16531695 CAATATAAGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTACCAATATAGGAAGACAAGTTC
66 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
16531760 TGCTA
131 TGCTA
* * * * * *
16531765 TCTTTGATCTACTTCGCTGCCGATAGAGGAAGACAAGATCTGTTATCTTCAATCTACTTCGCTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* * * *
16531830 CAATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGTCAGTATAGGAAGACAAGATC
66 CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
*
16531895 TACTA
131 TGCTA
* * * **
16531900 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATTTTTTATCTACTTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
* *
16531965 TAATACAGGAAGACAAGATCTG
66 CAATATAGGAAGACAAGATCTG
16531987 TTGTTTTCAC
Statistics
Matches: 972, Mismatches: 276, Indels: 77
0.73 0.21 0.06
Matches are distributed among these distances:
130 5 0.01
131 96 0.10
132 132 0.14
133 267 0.27
134 62 0.06
135 405 0.42
136 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (135 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
TGCTA
Found at i:16533361 original size:14 final size:15
Alignment explanation
Indices: 16533338--16533370 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16533328 ATCGACGCTT
16533338 TTCCAGATAAGG-CC
1 TTCCAGATAAGGTCC
*
16533352 TTCCATATAAGGTCC
1 TTCCAGATAAGGTCC
16533367 TTCC
1 TTCC
16533371 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (15 bp):
TTCCAGATAAGGTCC
Found at i:16534775 original size:18 final size:18
Alignment explanation
Indices: 16534737--16534781 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
16534727 TATATGATGC
16534737 AATGCAAAGCTAATGCATG
1 AATGCAAAGC-AATGCATG
16534756 AATGCAAAG-AATGCCATG
1 AATGCAAAGCAATG-CATG
16534774 AATGCAAA
1 AATGCAAA
16534782 AGAAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 12 0.48
19 9 0.36
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (18 bp):
AATGCAAAGCAATGCATG
Found at i:16537462 original size:36 final size:36
Alignment explanation
Indices: 16537422--16537497 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
16537412 TGAAACATAG
*
16537422 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
16537458 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
16537495 AAA
1 AAA
16537498 CGTATGTGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:16538073 original size:22 final size:21
Alignment explanation
Indices: 16538040--16538105 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
16538030 AGATTACAAA
16538040 ATCATATTTTCTAAGATTGCAT
1 ATCATA-TTTCTAAGATTGCAT
*
16538062 ATTATATCTTCTAAGATTGCAT
1 ATCATAT-TTCTAAGATTGCAT
16538084 ATCATA--TCTAAGATTGCAT
1 ATCATATTTCTAAGATTGCAT
16538103 ATC
1 ATC
16538106 CTTGAAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
19 16 0.39
21 1 0.02
22 24 0.59
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (21 bp):
ATCATATTTCTAAGATTGCAT
Found at i:16541333 original size:19 final size:19
Alignment explanation
Indices: 16541287--16541339 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
16541277 CATTTCACAA
*
16541287 TATATATCATATTTATTCAT
1 TATAT-TCATATTTATTCAC
*
16541307 TATTTTCATATTTATCTCAC
1 TATATTCATATTTAT-TCAC
16541327 TA-ATTCATTATTT
1 TATATTCA-TATTT
16541340 CCACATCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTCATATTTATTCAC
Done.