Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 47 of 59
Found at i:17000753 original size:14 final size:13
Alignment explanation
Indices: 17000730--17000823 Score: 61
Period size: 14 Copynumber: 6.8 Consensus size: 13
17000720 TAATACTCAA
17000730 ATATTTATTTCAATT
1 ATATTTATTT--ATT
17000745 ATA-TTATTTATT
1 ATATTTATTTATT
17000757 ATATTTATTTATTT
1 ATATTTATTTA-TT
*
17000771 ATTTTTCATTTTATT
1 ATATTT-A-TTTATT
*
17000786 ATTATCATTATTTTTT
1 A-TAT--TTATTTATT
17000802 ATATTT-TTATATT
1 ATATTTATT-TATT
17000815 -T-TTTATTTA
1 ATATTTATTTA
17000824 AAAAATATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
11 5 0.08
12 11 0.17
13 12 0.18
14 13 0.20
15 10 0.15
16 12 0.18
17 1 0.02
18 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTATTTATT
Found at i:17000755 original size:4 final size:4
Alignment explanation
Indices: 17000731--17000774 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
17000721 AATACTCAAA
*
17000731 TATT TATT TCAAT TATAT TATT TATT ATATT TATT TATT TATT T
1 TATT TATT T-ATT TAT-T TATT TATT -TATT TATT TATT TATT T
17000775 TTCATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 24 0.69
5 11 0.31
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:17000759 original size:12 final size:12
Alignment explanation
Indices: 17000742--17000811 Score: 55
Period size: 13 Copynumber: 6.2 Consensus size: 12
17000732 ATTTATTTCA
17000742 ATTATATTATTT
1 ATTATATTATTT
17000754 ATTATATTTATTT
1 ATTATA-TTATTT
17000767 ATT-TATT-TTT
1 ATTATATTATTT
17000777 CA-T-T-TTA-TT
1 -ATTATATTATTT
17000786 ATTATCATTATTT
1 ATTAT-ATTATTT
*
17000799 TTTATATT-TTT
1 ATTATATTATTT
17000810 AT
1 AT
17000812 ATTTTTTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
8 1 0.02
9 5 0.10
10 6 0.12
11 7 0.15
12 14 0.29
13 15 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTATATTATTT
Found at i:17001052 original size:16 final size:15
Alignment explanation
Indices: 17001031--17001093 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 15
17001021 AGACTATGCA
17001031 TTTTTACCATTATTAT
1 TTTTTA-CATTATTAT
*
17001047 TTTTT--ATTATTTT
1 TTTTTACATTATTAT
*
17001060 TTTTTACTATCATTAT
1 TTTTTAC-ATTATTAT
*
17001076 TTTTT-TATT-TTAT
1 TTTTTACATTATTAT
17001089 TTTTT
1 TTTTT
17001094 GATTTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 21 0.54
14 2 0.05
16 16 0.41
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTACATTATTAT
Found at i:17001057 original size:13 final size:13
Alignment explanation
Indices: 17001039--17001093 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
17001029 CATTTTTACC
17001039 ATTATTATTTTTT
1 ATTATTATTTTTT
*
17001052 ATTATTTTTTTTT
1 ATTATTATTTTTT
17001065 ACTATCATTATTTTTTT
1 A-T-T-ATTA-TTTTTT
17001082 ATT-TTATTTTTT
1 ATTATTATTTTTT
17001094 GATTTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 6 0.17
13 16 0.44
14 1 0.03
15 2 0.06
16 4 0.11
17 7 0.19
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTATTATTTTTT
Found at i:17001074 original size:29 final size:29
Alignment explanation
Indices: 17001031--17001093 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
17001021 AGACTATGCA
* *
17001031 TTTTTACCATTATTA-TTTTTTATTATTTT
1 TTTTTACCATCATTATTTTTTTATT-TTAT
*
17001060 TTTTTACTATCATTATTTTTTTATTTTAT
1 TTTTTACCATCATTATTTTTTTATTTTAT
17001089 TTTTT
1 TTTTT
17001094 GATTTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTACCATCATTATTTTTTTATTTTAT
Found at i:17001614 original size:33 final size:33
Alignment explanation
Indices: 17001561--17001644 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
17001551 CGGCGCCCCT
* * *
17001561 CTCCTCTCAGATCTCACCCTTCTGTCGGCCTCA
1 CTCCCCTCAAATCTCACCCTTCCGTCGGCCTCA
* * *
17001594 CTCCCCTCAAATCTCTCCCTTCCGTCGGTCTCT
1 CTCCCCTCAAATCTCACCCTTCCGTCGGCCTCA
*
17001627 CTCCTCC-CAGATCTCACC
1 CTCC-CCTCAAATCTCACC
17001645 GGCTTCCTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 40 0.95
34 2 0.05
ACGTcount: A:0.12, C:0.49, G:0.10, T:0.30
Consensus pattern (33 bp):
CTCCCCTCAAATCTCACCCTTCCGTCGGCCTCA
Found at i:17002031 original size:17 final size:16
Alignment explanation
Indices: 17002009--17002052 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 16
17001999 ATTTTTTTTA
17002009 TTTTTTATTTATTTATT
1 TTTTTTATTTA-TTATT
17002026 TTTTTTATTTATTATT
1 TTTTTTATTTATTATT
17002042 TTATTTTATTT
1 TT-TTTTATTT
17002053 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTATTTATTATT
Found at i:17002031 original size:24 final size:26
Alignment explanation
Indices: 17001999--17002064 Score: 100
Period size: 24 Copynumber: 2.6 Consensus size: 26
17001989 AGCCATCCCG
*
17001999 ATTTTTTTTATTTTTTA-TTTA-TTT
1 ATTTTTTTTATTTATTATTTTATTTT
17002023 ATTTTTTTTATTTATTATTTTATTTT
1 ATTTTTTTTATTTATTATTTTATTTT
17002049 ATTTTTTTTAATTTAT
1 ATTTTTTTT-ATTTAT
17002065 GTGTCTACAG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 16 0.42
25 4 0.11
26 12 0.32
27 6 0.16
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (26 bp):
ATTTTTTTTATTTATTATTTTATTTT
Found at i:17005134 original size:27 final size:27
Alignment explanation
Indices: 17005104--17005163 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
17005094 GACGGAGGCA
17005104 CCAGCAGAACCAACAACTGTTGAGCCG
1 CCAGCAGAACCAACAACTGTTGAGCCG
17005131 CCAGCAGAACCAACAACTGTTGAGCCG
1 CCAGCAGAACCAACAACTGTTGAGCCG
17005158 CCAGCA
1 CCAGCA
17005164 CCATAAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.35, G:0.22, T:0.10
Consensus pattern (27 bp):
CCAGCAGAACCAACAACTGTTGAGCCG
Found at i:17006403 original size:62 final size:62
Alignment explanation
Indices: 17006336--17006505 Score: 252
Period size: 62 Copynumber: 2.7 Consensus size: 62
17006326 TTTCCTAGTA
**
17006336 AAGCTTTAACCAGTTAACTGTCTTGCTTAACTGATTAAAGAGTTTCTATTTTCCACCACTTC
1 AAGCTTTAACCAGTTAACAATCTTGCTTAACTGATTAAAGAGTTTCTATTTTCCACCACTTC
*
17006398 AAGCTTTAACCAGTTAACAATCTTGCTTAACTGATTAAAGAGTTTCTGTTTTCCACCACTTC
1 AAGCTTTAACCAGTTAACAATCTTGCTTAACTGATTAAAGAGTTTCTATTTTCCACCACTTC
* * * *
17006460 AAGCTTTTAACCAATTAACAATACTT-CTTAACCGGTTAGAGAGTTT
1 AAGC-TTTAACCAGTTAACAAT-CTTGCTTAACTGATTAAAGAGTTT
17006506 TTGCCAAACA
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
62 63 0.64
63 33 0.33
64 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (62 bp):
AAGCTTTAACCAGTTAACAATCTTGCTTAACTGATTAAAGAGTTTCTATTTTCCACCACTTC
Found at i:17008456 original size:39 final size:39
Alignment explanation
Indices: 17008403--17008482 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
17008393 TTTACAGGTA
* *
17008403 AACAATATAAATAATTTCTAAACTT-ATCCATTTTATATT
1 AACAACATAAATAATGTCTAAA-TTAATCCATTTTATATT
* * *
17008442 AACAACATAGATAATGTCTAAATTAATCTATTTTATTTT
1 AACAACATAAATAATGTCTAAATTAATCCATTTTATATT
17008481 AA
1 AA
17008483 ATGTTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (39 bp):
AACAACATAAATAATGTCTAAATTAATCCATTTTATATT
Found at i:17008491 original size:12 final size:12
Alignment explanation
Indices: 17008474--17008514 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
17008464 TTAATCTATT
*
17008474 TTATTTTAAATG
1 TTATTTTAATTG
*
17008486 TTA-TTTAATTT
1 TTATTTTAATTG
17008497 TTATTTTAATTG
1 TTATTTTAATTG
17008509 -TATTTT
1 TTATTTT
17008515 TACTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATTTTAATTG
Found at i:17009228 original size:252 final size:251
Alignment explanation
Indices: 17008626--17009510 Score: 618
Period size: 252 Copynumber: 3.5 Consensus size: 251
17008616 CACGTTTACA
* * * * * *** * *
17008626 TCAATATTTTGACAATACTTGTTCCAC-CTTTATAATATTTTACATTAATTCTTATTGCTTAATA
1 TCAATATTTTGACAATGCTTGCTCAACTCTTTATAATATTTTACGTTACTT-TTACCACTTTACA
* * * * * * * **
17008690 TTAAGGTTTTTCAACTACTAACTT-TCACAATAAATTTTTTTATCCTTACTATTATTCATTTATA
65 TCAAAGTGTTTCAACTACTAA-TTATCACTAT-AATTATTTAATTCTTACTATTATTCATACATA
* * * * * * * * * * * * *
17008754 CATTAAAATTTGTAAGTCGTAAGATACTTTAAACTTGAAAATAA-AAATAAAAATATTTAA-TTT
128 AATTAAAATTTATAAGCCATAAAAAACTATAAAATCGAGAATAACAAGT-TAAATGTTTAATTTT
* * * * *
17008817 CACCAAAAATTATGTTTATTTGACGTAATTGA-TTTATTACGTTAAATC-TCGCAAATTTATG
192 C-TCAAAAATTATGTTTATTTGACATAATTGACTTT-TTACGTTAAATCTTAG-ATATTTAAG
* * * * ** * * *
17008878 TCAGTATTTTGACAATGCTTGCTCCACTCTTTCTAATTTTTTGTGTTACTTTTACTATTTTACGT
1 TCAATATTTTGACAATGCTTGCTCAACTCTTTATAATATTTTACGTTACTTTTACCACTTTACAT
* * * *
17008943 CAAAGTGTTTCAACTACTAATTTTCACTATAATTATTT-TTATCTTTACTGTTATTCATACGTAG
66 CAAAGTGTTTCAACTACTAATTATCACTATAATTATTTAAT-TC-TTACTATTATTCATACATA-
* * * *
17009007 AA-TATAATTTGTAAGCCATAAAATAACT-TAAACTCGAGAATAACAATTTAAATGTTTAATTTT
128 AATTAAAATTTATAAGCCATAAAA-AACTATAAAATCGAGAATAACAAGTTAAATGTTTAATTTT
* *
17009070 TTCAAAAATTATGTTTATTTGACATAATTGACTTTTTACATTAAATCTTAGATATTTAAG
192 CTCAAAAATTATGTTTATTTGACATAATTGACTTTTTACGTTAAATCTTAGATATTTAAG
* * *
17009130 TCATTATTTTGACAATTCTCT-TTCAAC-CTTTATAATATTTTACGTT-CATTCTTACCACTTTA
1 TCAATATTTTGACAATGCT-TGCTCAACTCTTTATAATATTTTACGTTAC-TT-TTACCACTTTA
* * *
17009192 CATCAACA-T-TTTGCAACTATTAATTAAT-ATTATAATTATTTAATTCTTACTATTATTCATCC
63 CATCAA-AGTGTTT-CAACTACTAATT-ATCACTATAATTATTTAATTCTTACTATTATTCATAC
** * * *
17009254 ATAAATTAAAATTTATAAGCTGTAAAACACTATAAAATTGAGAATAAGAAGTTAAATGTTTAATT
125 ATAAATTAAAATTTATAAGCCATAAAAAACTATAAAATCGAGAATAACAAGTTAAATGTTTAATT
* * * * * * * * *
17009319 TTCTGAAGAATTATGTTTATTTAACATAATTGGCTTGTTGCGTTAAATCTTACATATGTACG
190 TTCTCAAAAATTATGTTTATTTGACATAATTGACTTTTTACGTTAAATCTTAGATATTTAAG
* * *
17009381 TCAATATTTTGACAATGCTTGCT-ACAC-CTTTATAAT-TTTTCATGTTAATTTTTACTACTTTA
1 TCAATATTTTGACAATGCTTGCTCA-ACTCTTTATAATATTTT-ACGTT-ACTTTTACCACTTTA
** * * * *
17009443 TGTC-AAG-GTTT----TTC-AATT-TCA-TATAATTATTTTTATCCTTACTATTATTCATGCAT
63 CATCAAAGTGTTTCAACTACTAATTATCACTATAATTA-TTTAATTCTTACTATTATTCATACAT
*
17009499 ATATTAAAATTT
127 AAATTAAAATTT
17009511 GTACGTTGTA
Statistics
Matches: 509, Mismatches: 96, Indels: 65
0.76 0.14 0.10
Matches are distributed among these distances:
242 9 0.02
243 35 0.07
244 4 0.01
245 1 0.00
249 1 0.00
250 17 0.03
251 188 0.37
252 218 0.43
253 36 0.07
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (251 bp):
TCAATATTTTGACAATGCTTGCTCAACTCTTTATAATATTTTACGTTACTTTTACCACTTTACAT
CAAAGTGTTTCAACTACTAATTATCACTATAATTATTTAATTCTTACTATTATTCATACATAAAT
TAAAATTTATAAGCCATAAAAAACTATAAAATCGAGAATAACAAGTTAAATGTTTAATTTTCTCA
AAAATTATGTTTATTTGACATAATTGACTTTTTACGTTAAATCTTAGATATTTAAG
Found at i:17013310 original size:28 final size:27
Alignment explanation
Indices: 17013274--17013326 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
17013264 ATATCCTGGT
*
17013274 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
17013301 GGTGGTAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
17013327 ATACTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:17013416 original size:20 final size:20
Alignment explanation
Indices: 17013371--17013409 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17013361 CTTCTAAACC
*
17013371 TCAAATCATACTCTAATAAG
1 TCAAATCATACTCCAATAAG
*
17013391 TCAAATTATACTCCAATAA
1 TCAAATCATACTCCAATAA
17013410 TTTAAATGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:17031907 original size:59 final size:59
Alignment explanation
Indices: 17031835--17031950 Score: 232
Period size: 59 Copynumber: 2.0 Consensus size: 59
17031825 GGGATGGGAG
17031835 GAAGAAAGGAGCTTGTCTTATAGAAATGGGTGATTTCCATACACAGTGATTTGGGGGCA
1 GAAGAAAGGAGCTTGTCTTATAGAAATGGGTGATTTCCATACACAGTGATTTGGGGGCA
17031894 GAAGAAAGGAGCTTGTCTTATAGAAATGGGTGATTTCCATACACAGTGATTTGGGGG
1 GAAGAAAGGAGCTTGTCTTATAGAAATGGGTGATTTCCATACACAGTGATTTGGGGG
17031951 AATTCTTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (59 bp):
GAAGAAAGGAGCTTGTCTTATAGAAATGGGTGATTTCCATACACAGTGATTTGGGGGCA
Found at i:17034619 original size:105 final size:105
Alignment explanation
Indices: 17034436--17034733 Score: 470
Period size: 105 Copynumber: 2.8 Consensus size: 105
17034426 CTTAGTCATG
* * * *
17034436 CAACAAAGATATGCAGTGAAGAACAAAACAACATCAAGGGTGAACAAGGGCAGTTTATATGACTA
1 CAACAAAGATATGCAGTGAAGAACAAAATAACATCAAGAGTGTACAAGGACAGTTTATATGACTA
** *
17034501 GTGGGAAGGTTAGCCCATCTACCACAGTTTATAGTATTTA
66 GTGGGAAGGTTAGCCCATCTACCACAAATCATAGTATTTA
* *
17034541 CAACAAAGATATGCAGTGAAGAACAAAATAGCATCAAGAGTGTACAAGGACAGTTTATATGACTG
1 CAACAAAGATATGCAGTGAAGAACAAAATAACATCAAGAGTGTACAAGGACAGTTTATATGACTA
**
17034606 GTGGGAACATTAGCCCATCTACCACAAATCATAGTATTTA
66 GTGGGAAGGTTAGCCCATCTACCACAAATCATAGTATTTA
* *
17034646 CAACGAAGTTATGCAGTGAAGAACAAAATAACATCAAGAGTGTACAAGGACAGTTTATATGACTA
1 CAACAAAGATATGCAGTGAAGAACAAAATAACATCAAGAGTGTACAAGGACAGTTTATATGACTA
*
17034711 GTGGGAAGGTTAGCTCATCTACC
66 GTGGGAAGGTTAGCCCATCTACC
17034734 GTTCTTCTGC
Statistics
Matches: 175, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 175 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (105 bp):
CAACAAAGATATGCAGTGAAGAACAAAATAACATCAAGAGTGTACAAGGACAGTTTATATGACTA
GTGGGAAGGTTAGCCCATCTACCACAAATCATAGTATTTA
Found at i:17035789 original size:18 final size:19
Alignment explanation
Indices: 17035754--17035791 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17035744 TGAGAGGAAG
17035754 AAAAATGGACTTATAAAGA
1 AAAAATGGACTTATAAAGA
17035773 AAAAGATGGA-TTA-AAAGA
1 AAAA-ATGGACTTATAAAGA
17035791 A
1 A
17035792 TGAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.18, T:0.18
Consensus pattern (19 bp):
AAAAATGGACTTATAAAGA
Found at i:17043815 original size:15 final size:15
Alignment explanation
Indices: 17043797--17043830 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17043787 ATAATTTTAT
* *
17043797 TTTTTATATTTATAA
1 TTTTTATAATTAAAA
17043812 TTTTTATAATTAAAA
1 TTTTTATAATTAAAA
17043827 TTTT
1 TTTT
17043831 AAGATAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATTAAAA
Found at i:17051765 original size:16 final size:16
Alignment explanation
Indices: 17051741--17051774 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17051731 GTAACAATAT
17051741 TTTGGCTTTTATTATG
1 TTTGGCTTTTATTATG
* *
17051757 TTTGTCTTTTGTTATG
1 TTTGGCTTTTATTATG
17051773 TT
1 TT
17051775 GGACAGTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.18, T:0.68
Consensus pattern (16 bp):
TTTGGCTTTTATTATG
Found at i:17054288 original size:45 final size:45
Alignment explanation
Indices: 17054219--17054321 Score: 188
Period size: 45 Copynumber: 2.3 Consensus size: 45
17054209 GCTTTCCCTG
*
17054219 GTGGGTGGGGTGGTGGTGGAAATGAAAGTGGCAGTGGTAGCGGCA
1 GTGGTTGGGGTGGTGGTGGAAATGAAAGTGGCAGTGGTAGCGGCA
*
17054264 GTGGTTGGGGTGGTGGTGGAAATGAAAGTGGCAGTGGTAGCGGCG
1 GTGGTTGGGGTGGTGGTGGAAATGAAAGTGGCAGTGGTAGCGGCA
17054309 GTGGTTGGGGTGG
1 GTGGTTGGGGTGG
17054322 CGACAACAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.17, C:0.06, G:0.55, T:0.22
Consensus pattern (45 bp):
GTGGTTGGGGTGGTGGTGGAAATGAAAGTGGCAGTGGTAGCGGCA
Found at i:17062227 original size:27 final size:26
Alignment explanation
Indices: 17062197--17062268 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
17062187 TTTAAATGCT
*
17062197 AATATGGAT-ATTTATTTTAATTTACAA
1 AATATTGATAATTTATTTTAATTT--AA
* *
17062224 AATATTAATAATTTATATTTCATTTAA
1 AATATTGATAATTTAT-TTTAATTTAA
17062251 AATATTGATAATTTATTT
1 AATATTGATAATTTATTT
17062269 ATTAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 2 0.05
27 24 0.62
28 6 0.15
29 7 0.18
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (26 bp):
AATATTGATAATTTATTTTAATTTAA
Found at i:17062335 original size:15 final size:16
Alignment explanation
Indices: 17062309--17062345 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17062299 ATTCTTTATT
17062309 TTAAAAATATTAA-AA
1 TTAAAAATATTAATAA
17062324 TATAAAAA-ATTAATAA
1 T-TAAAAATATTAATAA
17062340 TTAAAA
1 TTAAAA
17062346 TTTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAAATATTAATAA
Found at i:17063158 original size:14 final size:14
Alignment explanation
Indices: 17063139--17063169 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17063129 TTGACTACTT
17063139 ATTTTTGGCGACTA
1 ATTTTTGGCGACTA
*
17063153 ATTTTTGGCTACTA
1 ATTTTTGGCGACTA
17063167 ATT
1 ATT
17063170 ATTTTACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (14 bp):
ATTTTTGGCGACTA
Found at i:17069490 original size:73 final size:73
Alignment explanation
Indices: 17069366--17069605 Score: 345
Period size: 73 Copynumber: 3.3 Consensus size: 73
17069356 AGAATCATCT
* ** * * *
17069366 TGTGCACTCCCACACCACACAAAGTAATATGTCATCAGTGTGTGCACTCACATAGCACACCACCA
1 TGTGCACTCCCACACCGCAC-AAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTA
*
17069431 TCGCCGTCA
65 TCACCGTCA
* *
17069440 TGTGCACTCCCACACCGTACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
1 TGTGCACTCCCACACCGCACAAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
17069505 CACCGTCA
66 CACCGTCA
* * *
17069513 TGTGCACTCCCACACCACACAAGGCATATATCATCAGTGTGTCCACTCACACAGCACACCATTAT
1 TGTGCACTCCCACACCGCACAAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
*
17069578 CACCATCA
66 CACCGTCA
*
17069586 TGTGCACTTCCACACCGCAC
1 TGTGCACTCCCACACCGCAC
17069606 GCGCACGGTC
Statistics
Matches: 149, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 131 0.88
74 18 0.12
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.21
Consensus pattern (73 bp):
TGTGCACTCCCACACCGCACAAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
CACCGTCA
Found at i:17069506 original size:34 final size:34
Alignment explanation
Indices: 17069467--17069579 Score: 102
Period size: 34 Copynumber: 3.2 Consensus size: 34
17069457 TACATGGCAT
17069467 ATATCATCAGTGTGTGCACTCACACAGCACACCA
1 ATATCATCAGTGTGTGCACTCACACAGCACACCA
* * * * *
17069501 CTATCA-CCGTCATGTGCACTCCCACACCACACAAGGCA
1 ATATCATCAGT-GTGTGCACTCACACAGCACAC----CA
*
17069539 TATATCATCAGTGTGTCCACTCACACAGCACACCA
1 -ATATCATCAGTGTGTGCACTCACACAGCACACCA
*
17069574 TTATCA
1 ATATCA
17069580 CCATCATGTG
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
33 3 0.05
34 28 0.47
35 2 0.03
38 2 0.03
39 22 0.37
40 3 0.05
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.21
Consensus pattern (34 bp):
ATATCATCAGTGTGTGCACTCACACAGCACACCA
Found at i:17069560 original size:39 final size:38
Alignment explanation
Indices: 17069440--17069571 Score: 105
Period size: 39 Copynumber: 3.6 Consensus size: 38
17069430 ATCGCCGTCA
* ** *
17069440 TGTG-CACTCCCACACCGTACATGGCATATATCATCAG
1 TGTGTCACTCACACACCACACAAGGCATATATCATCAG
* * * *
17069477 TGTGTGCACTCACACAGCACACCA--C-TATCACCGTCA-
1 TGTGT-CACTCACACACCACACAAGGCATAT-ATCATCAG
*
17069513 TGTG-CACTCCCACACCACACAAGGCATATATCATCAG
1 TGTGTCACTCACACACCACACAAGGCATATATCATCAG
*
17069550 TGTGTCCACTCACACAGCACAC
1 TGTGT-CACTCACACACCACAC
17069572 CATTATCACC
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
34 15 0.21
36 13 0.18
37 17 0.24
39 26 0.37
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.20
Consensus pattern (38 bp):
TGTGTCACTCACACACCACACAAGGCATATATCATCAG
Found at i:17072993 original size:63 final size:63
Alignment explanation
Indices: 17072891--17073030 Score: 208
Period size: 63 Copynumber: 2.2 Consensus size: 63
17072881 AGGTAGATAA
* *
17072891 AGTCACGTAATGCCTACAAACAAGTCATGCAATGCTCAACAAATATTCAGTCTCATAATATTC
1 AGTCACGTAATGCCTACAAACAAGTCACGCAATGCTCAACAAATATTCAGTCACATAATATTC
* * * * *
17072954 AGTCACGTAATGCCTACAAATAAGTCACGTAATGGTCAACAAATATTCAGTCACGTAATATTT
1 AGTCACGTAATGCCTACAAACAAGTCACGCAATGCTCAACAAATATTCAGTCACATAATATTC
*
17073017 ATTCACGTAATGCC
1 AGTCACGTAATGCC
17073031 AAATAAACAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (63 bp):
AGTCACGTAATGCCTACAAACAAGTCACGCAATGCTCAACAAATATTCAGTCACATAATATTC
Found at i:17073008 original size:26 final size:25
Alignment explanation
Indices: 17072947--17073012 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 25
17072937 TCAGTCTCAT
*
17072947 AATATTCAGTCACGTAATGCCTACA
1 AATATTCAGTCACGTAATGCCAACA
*
17072972 AATA---AGTCACGTAATGGTCAACA
1 AATATTCAGTCACGTAAT-GCCAACA
17072995 AATATTCAGTCACGTAAT
1 AATATTCAGTCACGTAAT
17073013 ATTTATTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 11 0.31
23 9 0.26
25 4 0.11
26 11 0.31
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (25 bp):
AATATTCAGTCACGTAATGCCAACA
Found at i:17073337 original size:38 final size:38
Alignment explanation
Indices: 17073285--17073388 Score: 145
Period size: 38 Copynumber: 2.7 Consensus size: 38
17073275 TTGGATGGCA
* *
17073285 ATATAGACCTCGATGGCGTTGGAGAGCTAGACGGCAAG
1 ATATATACCCCGATGGCGTTGGAGAGCTAGACGGCAAG
* *
17073323 ATATATGCCCCGATGGTGTTGGAGAGCTAGACGGCAAG
1 ATATATACCCCGATGGCGTTGGAGAGCTAGACGGCAAG
* **
17073361 ATATGTACCCTAATGGCGTTGGAGAGCT
1 ATATATACCCCGATGGCGTTGGAGAGCT
17073389 GCACAGAGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (38 bp):
ATATATACCCCGATGGCGTTGGAGAGCTAGACGGCAAG
Found at i:17077567 original size:2 final size:2
Alignment explanation
Indices: 17077560--17077594 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17077550 GGAAGTTGTG
17077560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17077595 NCAAAATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17077652 original size:2 final size:2
Alignment explanation
Indices: 17077645--17077701 Score: 82
Period size: 2 Copynumber: 29.0 Consensus size: 2
17077635 TTGTGAAATA
17077645 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT -T AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
*
17077686 AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT
17077702 CAAAATACCA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17077715 original size:31 final size:33
Alignment explanation
Indices: 17077647--17077715 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
17077637 GTGAAATAAT
* ** *
17077647 ATATATATATATATATATATATACTATTATATA
1 ATATATATATATACATATATATACTAAAATACA
*
17077680 ATATATATATATACATATATAT-C-AAAATACC
1 ATATATATATATACATATATATACTAAAATACA
17077711 ATATA
1 ATATA
17077716 AAAAGAGACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 9 0.29
32 1 0.03
33 21 0.68
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATATATATATACATATATATACTAAAATACA
Found at i:17083839 original size:42 final size:42
Alignment explanation
Indices: 17083788--17083868 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
17083778 GTTGATTTGA
*
17083788 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
17083830 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
17083869 TTGCCTCCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:17084026 original size:82 final size:81
Alignment explanation
Indices: 17083924--17084175 Score: 360
Period size: 82 Copynumber: 3.1 Consensus size: 81
17083914 TCCGCCCAAG
* * * *
17083924 AGCTTGGAAGAGGAAGGAAGGGACTACTCTGTTGCTTCGTGATCTAGAGTGAAGTACACCTTTTG
1 AGCTTGGAAGAGGAAGGAAGGGACTGCTCCGTTGCTTCGTGATC-AGAGTGAAGTGCACCTCTTG
*
17083989 CCGAGTGAAGGGGGGGA
65 TCGAGTGAAGGGGGGGA
* * * *
17084006 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCATGATCCGGAGTGAAGTGCACCTCATG
1 AGCTTGGAAGAGGAAGGAAGGGACTGCTCCGTTGCTTCGTGAT-CAGAGTGAAGTGCACCTCTTG
17084071 TCGAGTGAAGGGGGGGA
65 TCGAGTGAAGGGGGGGA
* *
17084088 AGCTTGGAAGAGGAAGGAACGGACTGCTCCGTTGCTTCGTGATCCGAAGTGAAGTGCACCTCTTG
1 AGCTTGGAAGAGGAAGGAAGGGACTGCTCCGTTGCTTCGTGATCAG-AGTGAAGTGCACCTCTTG
17084153 TCGAGTGAAGTGGGGGGA
65 TCGAGTGAAG-GGGGGGA
*
17084171 TGCTT
1 AGCTT
17084176 CCTGATCTCC
Statistics
Matches: 152, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
81 2 0.01
82 138 0.91
83 12 0.08
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (81 bp):
AGCTTGGAAGAGGAAGGAAGGGACTGCTCCGTTGCTTCGTGATCAGAGTGAAGTGCACCTCTTGT
CGAGTGAAGGGGGGGA
Found at i:17084232 original size:3 final size:3
Alignment explanation
Indices: 17084220--17084282 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
17084210 GTCGTTGCAT
* *
17084220 ATG A-G ATG ATG ATG ATG -GG ATG ATG -TG CATG ATG ATG -GG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG -ATG ATG ATG ATG ATG
17084262 ATG -TG CATG ATG ATG ATG ATG
1 ATG ATG -ATG ATG ATG ATG ATG
17084283 GGATGGTGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
2 8 0.16
3 37 0.76
4 4 0.08
ACGTcount: A:0.29, C:0.03, G:0.38, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:17084255 original size:23 final size:23
Alignment explanation
Indices: 17084225--17084307 Score: 100
Period size: 20 Copynumber: 3.6 Consensus size: 23
17084215 TGCATATGAG
17084225 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
17084248 ---ATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
17084268 ATGATGATGATGATGGGATGGTGTGC
1 ---ATGATGATGATGGGATGATGTGC
*
17084294 ATGTTGATGATGGG
1 ATGATGATGATGGG
17084308 TATATGGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
20 20 0.38
23 13 0.25
26 19 0.37
ACGTcount: A:0.24, C:0.04, G:0.41, T:0.31
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:17084305 original size:26 final size:26
Alignment explanation
Indices: 17084224--17084282 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
17084214 TTGCATATGA
17084224 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
17084250 GATGATGGGATGATGTGCATGATGATG-AT
1 GATGAT--GATGATG-GGATGATG-TGCAT
17084279 GATG
1 GATG
17084283 GGATGGTGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.21
28 7 0.25
29 13 0.46
30 2 0.07
ACGTcount: A:0.27, C:0.03, G:0.39, T:0.31
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:17084420 original size:18 final size:18
Alignment explanation
Indices: 17084399--17084434 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17084389 ATTTTAGCAA
17084399 GATGACTTGTTTTAAGGG
1 GATGACTTGTTTTAAGGG
17084417 GATGACTTGTTTTAAGGG
1 GATGACTTGTTTTAAGGG
17084435 AAAAAGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.33, T:0.39
Consensus pattern (18 bp):
GATGACTTGTTTTAAGGG
Found at i:17087528 original size:42 final size:42
Alignment explanation
Indices: 17087463--17087546 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
17087453 GTCGATTTGA
17087463 ACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTG
1 ACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTG
* * *
17087505 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGTTG
1 ACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTG
17087547 CCTCCGTAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.25
Consensus pattern (42 bp):
ACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTG
Found at i:17087814 original size:82 final size:82
Alignment explanation
Indices: 17087599--17087850 Score: 432
Period size: 82 Copynumber: 3.1 Consensus size: 82
17087589 TTTGCCCAAG
*
17087599 AGCTTGGAAGAGGAGGGAAGGGACTGCTTCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
17087664 CCGAGTGAAGGGGGGCGA
66 CCGAGTGAAGGGGGG-GA
* *
17087682 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCATTGCTTCGTGATCCAGAGTGAAGTGCACCTCTTG
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
17087747 CCGAGTGAAGGGGGGGA
66 CCGAGTGAAGGGGGGGA
* * *
17087764 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGTTTCGTGATTCGGAGTGAAGTGCACCTCTTA
1 AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
17087829 CCGAGTGAAGGGGGGGA
66 CCGAGTGAAGGGGGGGA
*
17087846 TGCTT
1 AGCTT
17087851 CGTGATCTCC
Statistics
Matches: 160, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 83 0.52
83 77 0.48
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.21
Consensus pattern (82 bp):
AGCTTGGAAGAGGAGGGAAGGGACTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTCTTG
CCGAGTGAAGGGGGGGA
Found at i:17087935 original size:26 final size:26
Alignment explanation
Indices: 17087899--17087960 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
17087889 TTGCATATGA
17087899 GATGATGATGATGGGATGATATGCAT
1 GATGATGATGATGGGATGATATGCAT
* *
17087925 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATATGCAT
*
17087951 GTTGATGATG
1 GATGATGATG
17087961 CGTATATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATATGCAT
Found at i:17094072 original size:14 final size:15
Alignment explanation
Indices: 17094047--17094080 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17094037 ATACAATACC
17094047 TTGTTGGAGACTACA
1 TTGTTGGAGACTACA
17094062 TTGTT-GAGACTACA
1 TTGTTGGAGACTACA
*
17094076 ATGTT
1 TTGTT
17094081 ACGAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (15 bp):
TTGTTGGAGACTACA
Found at i:17094390 original size:26 final size:25
Alignment explanation
Indices: 17094347--17094416 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
17094337 TTGACTTGAA
*
17094347 TTAATTATGTTATATTTTGTATTATATT
1 TTAATTATATTA-ATTTTG-ATTAT-TT
* *
17094375 TTAGTTAT-TTAATTTTGATTGTTT
1 TTAATTATATTAATTTTGATTATTT
17094399 TTAATTATAATTAATTTT
1 TTAATTAT-ATTAATTTT
17094417 TCTTTTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 9 0.24
25 4 0.11
26 14 0.38
27 3 0.08
28 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (25 bp):
TTAATTATATTAATTTTGATTATTT
Found at i:17094441 original size:17 final size:18
Alignment explanation
Indices: 17094403--17094443 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17094393 TTGTTTTTAA
*
17094403 TTATAATTAATTTTTCTT
1 TTATAATTAACTTTTCTT
*
17094421 TTATAATTAGCTTTT-TT
1 TTATAATTAACTTTTCTT
17094438 TTATAA
1 TTATAA
17094444 CAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATAATTAACTTTTCTT
Found at i:17104587 original size:19 final size:19
Alignment explanation
Indices: 17104563--17104599 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17104553 CTTCTAAACT
17104563 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
17104582 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
17104600 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:17116376 original size:24 final size:25
Alignment explanation
Indices: 17116337--17116407 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
17116327 GGAGAAACTT
* *
17116337 AGAATATAAAAGAATAAAATATAGG
1 AGAATACAAAAAAATAAAATATAGG
*
17116362 AGAATA-AAAAAAATAGAAA-ATATG
1 AGAATACAAAAAAATA-AAATATAGG
*
17116386 ATAATACGAAATAAAATAAAAT
1 AGAATAC-AAA-AAAATAAAAT
17116408 TAATAATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 17 0.45
25 9 0.24
26 6 0.16
27 6 0.16
ACGTcount: A:0.68, C:0.01, G:0.11, T:0.20
Consensus pattern (25 bp):
AGAATACAAAAAAATAAAATATAGG
Found at i:17116424 original size:11 final size:11
Alignment explanation
Indices: 17116394--17116456 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
17116384 TGATAATACG
17116394 AAATAA-AATA
1 AAATAATAATA
*
17116404 AAATTAATAATT
1 AAA-TAATAATA
17116416 AAATAATAA-A
1 AAATAATAATA
* *
17116426 AAATGA-CA-A
1 AAATAATAATA
17116435 AAATAATAATA
1 AAATAATAATA
17116446 AAATAGATAAT
1 AAATA-ATAAT
17116457 TGCATTAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 7 0.17
10 9 0.21
11 15 0.36
12 11 0.26
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (11 bp):
AAATAATAATA
Found at i:17122839 original size:22 final size:22
Alignment explanation
Indices: 17122796--17122839 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17122786 CAGGCTTTTC
*
17122796 ATAATCTTCAAAACCAGGGGGT
1 ATAATCTTCAAAACCAGAGGGT
* *
17122818 ATAATCTTCAAAGCTAGAGGGT
1 ATAATCTTCAAAACCAGAGGGT
17122840 TATTTGACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (22 bp):
ATAATCTTCAAAACCAGAGGGT
Found at i:17123954 original size:19 final size:19
Alignment explanation
Indices: 17123930--17123967 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17123920 CCATTTAACT
*
17123930 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
17123949 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
17123968 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:17124078 original size:29 final size:28
Alignment explanation
Indices: 17124041--17124095 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
17124031 TTTCATCCAC
* *
17124041 AGATAAAATTTGAGATTTTGAGAGAATTT
1 AGATAAAATTTGACAATTTG-GAGAATTT
*
17124070 AGATCAAATTTGACAATTTGGAGAAT
1 AGATAAAATTTGACAATTTGGAGAAT
17124096 GGTAAGAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.35
Consensus pattern (28 bp):
AGATAAAATTTGACAATTTGGAGAATTT
Found at i:17130087 original size:2 final size:2
Alignment explanation
Indices: 17130080--17130115 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
17130070 CAATTTCAAT
* *
17130080 TA TA TA TA TA TA TA TA TA TA TA TT TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17130116 AAAGAAGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17131730 original size:20 final size:22
Alignment explanation
Indices: 17131692--17131732 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
17131682 TATTTAACTA
17131692 TTTATATTTTATGTATTATAAT
1 TTTATATTTTATGTATTATAAT
17131714 TTTATA-TTTAT-TATTATAA
1 TTTATATTTTATGTATTATAA
17131733 GTCTAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTATATTTTATGTATTATAAT
Found at i:17134503 original size:13 final size:12
Alignment explanation
Indices: 17134482--17134522 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
17134472 AGAATTGAAA
17134482 AAAAAAATAAAT
1 AAAAAAATAAAT
17134494 AAAAATAATAATAT
1 AAAAA-AATAA-AT
17134508 AAAAAAATAAA-
1 AAAAAAATAAAT
17134519 AAAA
1 AAAA
17134523 GAAACTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 10 0.37
14 7 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAAATAAAT
Found at i:17139860 original size:118 final size:118
Alignment explanation
Indices: 17139617--17140097 Score: 549
Period size: 118 Copynumber: 4.1 Consensus size: 118
17139607 GGAACAAATT
* * * * * *
17139617 AGCGTGTCACGCCAAGTATCTGGTTCCATTTAGCGTGTCACCACAA-TTGGGGCGTTCTGTGTCA
1 AGCGTGTCACACCAAGTATCTGGTTCCACTCAGCGTGTCACCACAAGATGGGACGTGCTGTGTCA
* * * * * *
17139681 CCCCACAATACAGCAAAAAGTCAGCAG-GTCACTAGAGAAATCTGTATGCATTC
66 CCCCACAATACAGCAAGAAGTCAGC-GTGTCACCACAGAAATCTGCAAGCACTC
* *
17139734 AGCGTGTCACACCAAGTATCTGGTTCCACTCAACGTGTCACCACAAGATGGGACGTGCCGTGTCA
1 AGCGTGTCACACCAAGTATCTGGTTCCACTCAGCGTGTCACCACAAGATGGGACGTGCTGTGTCA
* * *
17139799 CCCCACAATACAACAAGAAGTTAGCGTGTCACCACAGAAATTTGCAAGCACTC
66 CCCCACAATACAGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCAAGCACTC
* * * *
17139852 AGCGTGTCA-AGCCAAGTATCTGGTTCCATTCAGCGTGTCACCATAAGATGGGGCGTGCTGTGTG
1 AGCGTGTCACA-CCAAGTATCTGGTTCCACTCAGCGTGTCACCACAAGATGGGACGTGCTGTGTC
* * *
17139916 ACCCCACAAATACTGCAAGAAGTCAGCGTGTCACCACATAAATCTGCATA-CACTT
65 ACCCCAC-AATACAGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCA-AGCACTC
* ** * * *
17139971 AGCGTGTCACGCCAACAATCTGGTTCCACTCAGCATGTCACAACAAGATGAGGA-GTGTTGTGTC
1 AGCGTGTCACACCAAGTATCTGGTTCCACTCAGCGTGTCACCACAAGATG-GGACGTGCTGTGTC
* * * * * *
17140035 ACCCAACAATACTGCAAGAAGTTAGCGTGTCACCACAAAAATCTGCATGTACTC
65 ACCCCACAATACAGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCAAGCACTC
*
17140089 AACGTGTCA
1 AGCGTGTCA
17140098 GCTTAACATA
Statistics
Matches: 310, Mismatches: 46, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
117 44 0.14
118 168 0.54
119 95 0.31
120 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (118 bp):
AGCGTGTCACACCAAGTATCTGGTTCCACTCAGCGTGTCACCACAAGATGGGACGTGCTGTGTCA
CCCCACAATACAGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCAAGCACTC
Found at i:17140036 original size:237 final size:235
Alignment explanation
Indices: 17139617--17140097 Score: 635
Period size: 237 Copynumber: 2.0 Consensus size: 235
17139607 GGAACAAATT
* * * *
17139617 AGCGTGTCACGCCAAGTATCTGGTTCCATTTAGCGTGTCACCACAATTGGGGCGTTCTGTGTCAC
1 AGCGTGTCAAGCCAAGTATCTGGTTCCATTCAGCGTGTCACCACAAATGGGGCGTGCTGTGTCAC
* * * *
17139682 CCCACAATACAGCAAAAAGTCAGCAGGTCACTAGAGAAATCTGTATGCATTCAGCGTGTCACACC
66 CCCACAATACAGCAAAAAGTCAGCAGGTCACCACAGAAATCTGCATACATTCAGCGTGTCACACC
** * * *
17139747 AAGTATCTGGTTCCACTCAACGTGTCACCACAAGATGGGACGTGCCGTGTCACCCCACAATACAA
131 AACAATCTGGTTCCACTCAACATGTCACAACAAGATGGGACGTGCCGTGTCACCCAACAATACAA
* *
17139812 CAAGAAGTTAGCGTGTCACCACAGAAATTTGCAAGCACTC
196 CAAGAAGTTAGCGTGTCACCACAAAAATCTGCAAGCACTC
* *
17139852 AGCGTGTCAAGCCAAGTATCTGGTTCCATTCAGCGTGTCACCATAAGATGGGGCGTGCTGTGTGA
1 AGCGTGTCAAGCCAAGTATCTGGTTCCATTCAGCGTGTCACCACAA-ATGGGGCGTGCTGTGTCA
* * *
17139917 CCCCACAAATACTGCAAGAAGTCAGC-GTGTCACCACATAAATCTGCATACACTT-AGCGTGTCA
65 CCCCAC-AATACAGCAAAAAGTCAGCAG-GTCACCACAGAAATCTGCATACA-TTCAGCGTGTCA
* * **
17139980 CGCCAACAATCTGGTTCCACTCAGCATGTCACAACAAGATGAGGA-GTGTTGTGTCACCCAACAA
127 CACCAACAATCTGGTTCCACTCAACATGTCACAACAAGATG-GGACGTGCCGTGTCACCCAACAA
** * *
17140044 TACTGCAAGAAGTTAGCGTGTCACCACAAAAATCTGCATGTACTC
191 TACAACAAGAAGTTAGCGTGTCACCACAAAAATCTGCAAGCACTC
*
17140089 AACGTGTCA
1 AGCGTGTCA
17140098 GCTTAACATA
Statistics
Matches: 212, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
235 43 0.20
236 22 0.10
237 142 0.67
238 5 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (235 bp):
AGCGTGTCAAGCCAAGTATCTGGTTCCATTCAGCGTGTCACCACAAATGGGGCGTGCTGTGTCAC
CCCACAATACAGCAAAAAGTCAGCAGGTCACCACAGAAATCTGCATACATTCAGCGTGTCACACC
AACAATCTGGTTCCACTCAACATGTCACAACAAGATGGGACGTGCCGTGTCACCCAACAATACAA
CAAGAAGTTAGCGTGTCACCACAAAAATCTGCAAGCACTC
Found at i:17143713 original size:32 final size:31
Alignment explanation
Indices: 17143627--17143737 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
17143617 AAACAACAAT
*
17143627 AATGTGGTAACACGCCATGCATATGACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
17143658 AATATGGTAACACACCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
17143689 AATGTGGTAAGCACGCCATGCATATAACGTAA
1 AATGTGGTAA-CACGCCATGCATATAACGTAA
*
17143721 AATGTTGTAACACGCCA
1 AATGTGGTAACACGCCA
17143738 ACGCTCGCCA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
31 44 0.60
32 29 0.40
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (31 bp):
AATGTGGTAACACGCCATGCATATAACGTAA
Found at i:17144190 original size:63 final size:63
Alignment explanation
Indices: 17144084--17144207 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 63
17144074 ACCACAGCCC
* * *
17144084 GATGATGATGGTGCTCAACAGAGAGTTGACAGAGCTTATACAGTTCAGAGAGTTGACAGAGCT
1 GATGACGATGGTGCTCAACAGAGAGTTGACAGAGATTAGACAGTTCAGAGAGTTGACAGAGCT
* * * * *
17144147 GATGACGATGGTGCTCAATAGAGAGTTGGCAGA-ATTGAGACAGTTTAGGGAGTTGAGAGAG
1 GATGACGATGGTGCTCAACAGAGAGTTGACAGAGATT-AGACAGTTCAGAGAGTTGACAGAG
17144208 AAAGATGAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.31, C:0.11, G:0.34, T:0.23
Consensus pattern (63 bp):
GATGACGATGGTGCTCAACAGAGAGTTGACAGAGATTAGACAGTTCAGAGAGTTGACAGAGCT
Found at i:17157451 original size:76 final size:76
Alignment explanation
Indices: 17157271--17157440 Score: 279
Period size: 76 Copynumber: 2.2 Consensus size: 76
17157261 TGCAAGCCAG
* * *
17157271 AAATATTTGGAGTTTTTATAGAGCTATTTGATCTTAATTGTCAATAAATTTTGTCTAAGTACTTG
1 AAATATTAGGAGTTTTTATAGAGCTATTTGATCTTAATTTTCAATAAATTTTGTCTAAATACTTG
17157336 AATATTAATTT
66 AATATTAATTT
*
17157347 AAATATTCA-GAGTTTTTATAGAGCTATTTGATCTTAATTTTCAATAAATTTTGTCTAAATTCTT
1 AAATATT-AGGAGTTTTTATAGAGCTATTTGATCTTAATTTTCAATAAATTTTGTCTAAATACTT
*
17157411 GAATTTTAATTT
65 GAATATTAATTT
17157423 AAATATTAGGAGTTTTTA
1 AAATATTAGGAGTTTTTA
17157441 ACTGTCTATT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
75 1 0.01
76 86 0.99
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (76 bp):
AAATATTAGGAGTTTTTATAGAGCTATTTGATCTTAATTTTCAATAAATTTTGTCTAAATACTTG
AATATTAATTT
Found at i:17158285 original size:48 final size:50
Alignment explanation
Indices: 17158196--17158297 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 50
17158186 GGGGGGGGAC
*
17158196 ATTTTTAAAAATATTTATTTTTTAAATATATTTTATCAATGGCCC-CTTCAAA
1 ATTTTTAAAAATATTTATTTATT-AATATA-TTTATCAATGGCCCAC-TCAAA
* *
17158248 ATTTTTAAAATTATTTATTTATT-ATATA-TTATTAATGGCCCACTCAAA
1 ATTTTTAAAAATATTTATTTATTAATATATTTATCAATGGCCCACTCAAA
17158296 AT
1 AT
17158298 AAATTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 19 0.41
49 1 0.02
50 5 0.11
52 21 0.46
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (50 bp):
ATTTTTAAAAATATTTATTTATTAATATATTTATCAATGGCCCACTCAAA
Found at i:17165782 original size:37 final size:37
Alignment explanation
Indices: 17165741--17165932 Score: 115
Period size: 37 Copynumber: 5.2 Consensus size: 37
17165731 ATAGATGGCT
*
17165741 ATTTCTTACCGCTTGTATGAAATTATGATAGAAGGGG
1 ATTTCCTACCGCTTGTATGAAATTATGATAGAAGGGG
* * * * *
17165778 ATTTCCCACCG-TT-TCTGAGAATTTATAATAGATGGGT
1 ATTTCCTACCGCTTGTATGA-AA-TTATGATAGAAGGGG
* * * ** *
17165815 ATTTCCTACCCCTTGTATAAAATTACGGCAGAGGGGG
1 ATTTCCTACCGCTTGTATGAAATTATGATAGAAGGGG
* * *
17165852 ATTTCCTACTGCTT-T-TGAGATTTATGATAGATAGGTG
1 ATTTCCTACCGCTTGTATGA-AATTATGATAGA-AGGGG
* * * * * *
17165889 -TTACCTACCACATGTATGAAATTACGGTAGATGGGG
1 ATTTCCTACCGCTTGTATGAAATTATGATAGAAGGGG
*
17165925 ATATCCTA
1 ATTTCCTA
17165933 TAGCTTTTGA
Statistics
Matches: 110, Mismatches: 36, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
35 6 0.05
36 25 0.23
37 69 0.63
38 7 0.06
39 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (37 bp):
ATTTCCTACCGCTTGTATGAAATTATGATAGAAGGGG
Found at i:17165852 original size:74 final size:74
Alignment explanation
Indices: 17165729--17165969 Score: 252
Period size: 74 Copynumber: 3.3 Consensus size: 74
17165719 CTACCACTTC
* * * * * * *
17165729 TAATAGATGGCTATTTCTTACCGCTTGTATGAAATTATGATAGAAGGGGATTTCCCACCG-TTTC
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACAGCTTT-
17165793 TGAGAATTTA
65 TGAGAATTTA
* * * * *
17165803 TAATAGATGGGTATTTCCTACCCCTTGTATAAAATTACGGCAGAGGGGGATTTCCTACTGCTTTT
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACAGCTTTT
17165868 GAG-ATTTA
66 GAGAATTTA
* * * * * * * *
17165876 TGATAGATAGGTGTTACCTACCACATGTATGAAATTACGGTAGATGGGGATATCCTATAGCTTTT
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACAGCTTTT
*
17165941 GAGAAATTA
66 GAGAATTTA
* *
17165950 CAATAGATGGGTGTTTCCTA
1 TAATAGATGGGTATTTCCTA
17165970 TTGCTCATGT
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
73 61 0.44
74 74 0.54
75 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (74 bp):
TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACAGCTTTT
GAGAATTTA
Found at i:17165905 original size:73 final size:73
Alignment explanation
Indices: 17165774--17165944 Score: 193
Period size: 73 Copynumber: 2.3 Consensus size: 73
17165764 TATGATAGAA
* * * * * *
17165774 GGGGATTTCCCACCG-TTTCTGAGAATTTATAATAGATGGGTATTTCCTACCCCTTGTATAAAAT
1 GGGGATTTCCTACTGCTTT-TGAG-ATTTATAATAGATAGGTATTACCTACCACATGTATAAAAT
17165838 TACGGCAGAG
64 TACGGCAGAG
* * *
17165848 GGGGATTTCCTACTGCTTTTGAGATTTATGATAGATAGGTGTTACCTACCACATGTATGAAATTA
1 GGGGATTTCCTACTGCTTTTGAGATTTATAATAGATAGGTATTACCTACCACATGTATAAAATTA
* *
17165913 CGGTAGAT
66 CGGCAGAG
*
17165921 GGGGATATCCTA-TAGCTTTTGAGA
1 GGGGATTTCCTACT-GCTTTTGAGA
17165945 AATTACAATA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
72 1 0.01
73 62 0.75
74 17 0.20
75 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (73 bp):
GGGGATTTCCTACTGCTTTTGAGATTTATAATAGATAGGTATTACCTACCACATGTATAAAATTA
CGGCAGAG
Found at i:17170799 original size:23 final size:24
Alignment explanation
Indices: 17170743--17170804 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 24
17170733 TTTTTCATTG
17170743 TCTTTCTTGTCTTTTCTCTCTACTT
1 TCTTTCTT-TCTTTTCTCTCTACTT
* *
17170768 TATCT-TTTCTTCTT-TCTCT-CTT
1 TCTTTCTTTCTT-TTCTCTCTACTT
*
17170790 TCTTTCTTTCCTTTC
1 TCTTTCTTTCTTTTC
17170805 CTTTCCTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
22 8 0.28
23 14 0.48
24 4 0.14
25 3 0.10
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.66
Consensus pattern (24 bp):
TCTTTCTTTCTTTTCTCTCTACTT
Found at i:17183008 original size:159 final size:159
Alignment explanation
Indices: 17182719--17183033 Score: 612
Period size: 159 Copynumber: 2.0 Consensus size: 159
17182709 ATTACTGTTA
17182719 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
1 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
17182784 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
66 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
* *
17182849 TTTAAACAAATCAGGTATGTTAATATTTG
131 TTTAAACAAATCAGGTACGTCAATATTTG
17182878 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
1 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
17182943 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
66 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
17183008 TTTAAACAAATCAGGTACGTCAATAT
131 TTTAAACAAATCAGGTACGTCAATAT
17183034 AACACAACCA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (159 bp):
TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
TTTAAACAAATCAGGTACGTCAATATTTG
Found at i:17191452 original size:38 final size:39
Alignment explanation
Indices: 17191398--17191568 Score: 205
Period size: 38 Copynumber: 4.5 Consensus size: 39
17191388 AGAAAAGTTT
17191398 TGCTTGATCCTT-AAAAGGCATTTTGGTTGTAAAGGTTG
1 TGCTTGATCCTTAAAAAGGCATTTTGGTTGTAAAGGTTG
* * *
17191436 TGCTTGAT-CTTAAAAAGTCGTTTTGGTTGTGAAGGTTG
1 TGCTTGATCCTTAAAAAGGCATTTTGGTTGTAAAGGTTG
17191474 TGCTTGATCCTTAAAAGGTAGTG-ATTTTGGTTG---AGGTTG
1 TGCTTGATCCTTAAAA---AG-GCATTTTGGTTGTAAAGGTTG
*
17191513 TACTTGATCCTT-AAAAGGCATTTTGGTTGTAAAGGTTG
1 TGCTTGATCCTTAAAAAGGCATTTTGGTTGTAAAGGTTG
*
17191551 TACTTGATCC-TAAAAAGG
1 TGCTTGATCCTTAAAAAGG
17191569 TAGTGACTTT
Statistics
Matches: 116, Mismatches: 6, Indels: 22
0.81 0.04 0.15
Matches are distributed among these distances:
34 1 0.01
35 12 0.10
37 4 0.03
38 64 0.55
39 24 0.21
42 11 0.09
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (39 bp):
TGCTTGATCCTTAAAAAGGCATTTTGGTTGTAAAGGTTG
Found at i:17191529 original size:77 final size:77
Alignment explanation
Indices: 17191398--17191612 Score: 251
Period size: 77 Copynumber: 2.8 Consensus size: 77
17191388 AGAAAAGTTT
* * *
17191398 TGCTTGATCCTTAAAA-G--G-CATTTTGGTTGTAAAGGTTGTGCTTGAT-CTTAAAAAGTCGTT
1 TGCTTGATCCTTAAAAGGTAGTGATTTTGGTTG---AGGTTGTGCTTGATCCTT-AAAAGGCATT
*
17191458 TTGGTTGTGAAGGTTG
62 TTGGTTGTAAAGGTTG
*
17191474 TGCTTGATCCTTAAAAGGTAGTGATTTTGGTTGAGGTTGTACTTGATCCTTAAAAGGCATTTTGG
1 TGCTTGATCCTTAAAAGGTAGTGATTTTGGTTGAGGTTGTGCTTGATCCTTAAAAGGCATTTTGG
17191539 TTGTAAAGGTTG
66 TTGTAAAGGTTG
* * * * * *
17191551 TACTTGATCCTAAAAAGGTAGTGACTTTGGTCGAGATTATGCTTGATCCTATAAAAGGCATT
1 TGCTTGATCCTTAAAAGGTAGTGATTTTGGTTGAGGTTGTGCTTGATCCT-TAAAAGGCATT
17191613 CAGCTATAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
76 16 0.13
77 80 0.66
78 14 0.12
79 1 0.01
80 10 0.08
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.39
Consensus pattern (77 bp):
TGCTTGATCCTTAAAAGGTAGTGATTTTGGTTGAGGTTGTGCTTGATCCTTAAAAGGCATTTTGG
TTGTAAAGGTTG
Found at i:17191626 original size:115 final size:115
Alignment explanation
Indices: 17191400--17191626 Score: 248
Period size: 115 Copynumber: 2.0 Consensus size: 115
17191390 AAAAGTTTTG
* * *
17191400 CTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTGCTTGATCTTAAAAAGTCGTTTTGGTTG
1 CTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGTAGTTTTGGTTG
* * * * * ** * **
17191465 TGAAGGTTGTGCTTGATCCTTAAAAGGTAGTGATTTTGGTTGAGGTTGTA
66 CGAAGATTATGCTTGATCCTTAAAAGGCAGTCATGCTGATAAAGGTTGTA
17191515 CTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGGTAGTGACTTTG
1 CTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAA-GTAGT---TTTG
*
17191580 G-T-CG-AGATTATGCTTGATCCTATAAAAGGCATTCA-GCT-ATAAAGGTT
62 GTTGCGAAGATTATGCTTGATCCT-TAAAAGGCAGTCATGCTGATAAAGGTT
17191627 ATGCCTGATC
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
115 56 0.60
116 20 0.22
117 11 0.12
118 1 0.01
119 5 0.05
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (115 bp):
CTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGTAGTTTTGGTTG
CGAAGATTATGCTTGATCCTTAAAAGGCAGTCATGCTGATAAAGGTTGTA
Found at i:17191636 original size:77 final size:77
Alignment explanation
Indices: 17191467--17191636 Score: 207
Period size: 77 Copynumber: 2.2 Consensus size: 77
17191457 TTTGGTTGTG
* * * * *
17191467 AAGGTTGTGCTTGATCCTTAAAAGGTAGTGATTTTGGTTGAGGTTGTACTTGATCCTTAAAAGGC
1 AAGGTTGTGCTTGATCCTAAAAAGGTAGTGACTTTGGTCGAGATTATACTTGATCCTTAAAAGGC
** * *
17191532 ATTTTGGTTGTA
66 ATTTCAGCTATA
* *
17191544 AAGGTTGTACTTGATCCTAAAAAGGTAGTGACTTTGGTCGAGATTATGCTTGATCCTATAAAAGG
1 AAGGTTGTGCTTGATCCTAAAAAGGTAGTGACTTTGGTCGAGATTATACTTGATCCT-TAAAAGG
17191609 CA-TTCAGCTATA
65 CATTTCAGCTATA
* *
17191621 AAGGTTATGCCTGATC
1 AAGGTTGTGCTTGATC
17191637 TCATGTTAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
77 69 0.88
78 9 0.12
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (77 bp):
AAGGTTGTGCTTGATCCTAAAAAGGTAGTGACTTTGGTCGAGATTATACTTGATCCTTAAAAGGC
ATTTCAGCTATA
Found at i:17195336 original size:74 final size:73
Alignment explanation
Indices: 17195240--17195397 Score: 190
Period size: 74 Copynumber: 2.2 Consensus size: 73
17195230 ATTTCTTGCA
* * * * * **
17195240 ACTTTTGACAGTTTACAGTAGATAGGTATTTCTTACCGCTTATATGAAATTATAGTAGAGGGGAA
1 ACTTTTGAGAATTTACAATAGATAGGTATTTCCTACCACTTATATGAAATTATAGTAGAGAAG-A
17195305 TTTCCTACC
65 TTTCCTACC
** * * * *
17195314 GTTTTTGAGAATTTACAATAGATGGGTATTTCCTACTACTTGTATGAAATTATGGTAGAGAAGAT
1 ACTTTTGAGAATTTACAATAGATAGGTATTTCCTACCACTTATATGAAATTATAGTAGAGAAGAT
17195379 TTCCTACC
66 TTCCTACC
17195387 ACTTTTGAGAA
1 ACTTTTGAGAA
17195398 ATAATGGTAG
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
73 19 0.28
74 50 0.72
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (73 bp):
ACTTTTGAGAATTTACAATAGATAGGTATTTCCTACCACTTATATGAAATTATAGTAGAGAAGAT
TTCCTACC
Found at i:17195345 original size:37 final size:37
Alignment explanation
Indices: 17195242--17195349 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 37
17195232 TTCTTGCAAC
* * *
17195242 TTTTGACAGTTTACAGTAGATAGGTATTTCTTACCGCT
1 TTTTGA-AATTTACAGTAGATGGGTATTTCCTACCGCT
* * * *
17195280 TATATGAAA-TTATAGTAGAGGGGAATTTCCTACCG-T
1 T-TTTGAAATTTACAGTAGATGGGTATTTCCTACCGCT
*
17195316 TTTTGAGAATTTACAATAGATGGGTATTTCCTAC
1 TTTTGA-AATTTACAGTAGATGGGTATTTCCTAC
17195350 TACTTGTATG
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
35 4 0.07
36 4 0.07
37 41 0.75
38 2 0.04
39 4 0.07
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (37 bp):
TTTTGAAATTTACAGTAGATGGGTATTTCCTACCGCT
Found at i:17195385 original size:36 final size:36
Alignment explanation
Indices: 17195341--17195409 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
17195331 ATAGATGGGT
* *
17195341 ATTTCCTACTACTTGT-ATGAAATTATGGTAGAGAAG
1 ATTTCCTACCACTTGTGA-GAAATAATGGTAGAGAAG
*
17195377 ATTTCCTACCACTTTTGAGAAATAATGGTAGAG
1 ATTTCCTACCACTTGTGAGAAATAATGGTAGAG
17195410 GGGGATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 28 0.97
37 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (36 bp):
ATTTCCTACCACTTGTGAGAAATAATGGTAGAGAAG
Found at i:17195566 original size:37 final size:37
Alignment explanation
Indices: 17195519--17195616 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 37
17195509 CTTACAATCG
* * * *
17195519 ATGGGGATTTCCTACCGCTTCTAAGCATTTACAG-TAA
1 ATGGAGATTTCCTACCACTTCTAAGAAATTA-AGATAA
* * * *
17195556 ATGGATATTTCTTACCACTTTTAAGAAATTATGATAA
1 ATGGAGATTTCCTACCACTTCTAAGAAATTAAGATAA
*
17195593 ATGGGGATTTCCTACCACTTCTAA
1 ATGGAGATTTCCTACCACTTCTAA
17195617 TAGATGGGTA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
36 1 0.02
37 47 0.98
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGGAGATTTCCTACCACTTCTAAGAAATTAAGATAA
Found at i:17195781 original size:73 final size:73
Alignment explanation
Indices: 17195614--17195854 Score: 254
Period size: 74 Copynumber: 3.3 Consensus size: 73
17195604 CTACCACTTC
* * * * * *
17195614 TAATAGATGGGTATTTCTTACCGCTTGTATGAAATTATGATAAAAGGGGATTTCCCAC--CGTTT
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACTAC-TTT
17195677 CTGAGAATTTA
65 -TGAG-ATTTA
* * *
17195688 TAATAGATGGGTATTTCCTACCCCTTGTATGAAATTACGGCAGAGGGGGATTTCCTACTACTTTT
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACTACTTTT
17195753 GAGATTTA
66 GAGATTTA
* * * * * * *
17195761 TGATAGATAGGTATTACCTACTACATGTATGAAATTACGGTAGATGGGGATATCCTA-TAGCTTT
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACTA-CTTT
*
17195825 TGAGAAATTA
65 TGAG-ATTTA
*
17195835 CAATAGATGGGTATTTCCTA
1 TAATAGATGGGTATTTCCTA
17195855 TTGCTCATGT
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
72 2 0.01
73 61 0.43
74 74 0.52
75 3 0.02
76 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (73 bp):
TAATAGATGGGTATTTCCTACCACTTGTATGAAATTACGGTAGAAGGGGATTTCCTACTACTTTT
GAGATTTA
Found at i:17196631 original size:15 final size:16
Alignment explanation
Indices: 17196611--17196641 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
17196601 ATGACAAGTG
17196611 AAATAAGTTGA-ATTA
1 AAATAAGTTGATATTA
17196626 AAATAAGTTGATATTA
1 AAATAAGTTGATATTA
17196642 TTTTTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (16 bp):
AAATAAGTTGATATTA
Found at i:17201256 original size:18 final size:19
Alignment explanation
Indices: 17201217--17201259 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17201207 TTAATATTTT
17201217 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
*
17201236 AATATTATTTTATT-CTAA
1 AATATTATTTTATTAATAA
17201254 AATATT
1 AATATT
17201260 CTACTTGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:17209425 original size:27 final size:28
Alignment explanation
Indices: 17209368--17209425 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
17209358 GGAAAAATGT
*
17209368 CCTGGTGGTGGAAAATTACAATTTTGCC
1 CCTGGTGGTGGAAAATTACAATTTTGAC
*
17209396 CCTGG-GGTGGTAAAATTACCATTTT-AC
1 CCTGGTGGTGG-AAAATTACAATTTTGAC
17209423 CCT
1 CCT
17209426 TTTTCTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACAATTTTGAC
Found at i:17209496 original size:20 final size:20
Alignment explanation
Indices: 17209479--17209516 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17209469 CCTCAAATCT
17209479 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
*
17209499 TACTCTAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
17209517 GGAGCCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:17211736 original size:11 final size:11
Alignment explanation
Indices: 17211720--17211745 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17211710 TTTGCAGCTC
17211720 TGATCTGGAAT
1 TGATCTGGAAT
17211731 TGATCTGGAAT
1 TGATCTGGAAT
17211742 TGAT
1 TGAT
17211746 TTGTTGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (11 bp):
TGATCTGGAAT
Found at i:17214449 original size:1 final size:1
Alignment explanation
Indices: 17214443--17214467 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17214433 AGGTGAGTAA
17214443 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
17214468 TGAAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:17214796 original size:159 final size:159
Alignment explanation
Indices: 17214507--17214821 Score: 612
Period size: 159 Copynumber: 2.0 Consensus size: 159
17214497 ATTACTGTTA
17214507 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
1 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
17214572 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
66 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
* *
17214637 TTTAAACAAATCAGGTATGTTAATATTTG
131 TTTAAACAAATCAGGTACGTCAATATTTG
17214666 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
1 TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
17214731 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
66 AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
17214796 TTTAAACAAATCAGGTACGTCAATAT
131 TTTAAACAAATCAGGTACGTCAATAT
17214822 AACACAACCA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (159 bp):
TAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTATAT
AGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAATCA
TTTAAACAAATCAGGTACGTCAATATTTG
Found at i:17222457 original size:38 final size:38
Alignment explanation
Indices: 17222406--17222649 Score: 207
Period size: 38 Copynumber: 6.4 Consensus size: 38
17222396 AAAGGTAGAG
17222406 AGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAA
1 AGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAA
* * *
17222444 AGGTTGTGCTTGAT-CTTAAAAAGTCATTTTGGTTGTGA
1 AGGTTGTGCTTGATCCTT-AAAAGGCATATTGGTTGTAA
* * *
17222482 AGGTTATGCTTGATCCTAAAAAGGTAGTGATTTTGGTTG---
1 AGGTTGTGCTTGATCCTTAAAAGGCA-T-A--TTGGTTGTAA
*
17222521 AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAA
1 AGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAA
* * * *
17222559 AGGTTGTACTTGATCCTAAAAAGGTAGTGACTTTGTTG---
1 AGGTTGTGCTTGATCCTTAAAAGGCA-T-A-TTGGTTGTAA
* ** *
17222597 AGGTTATGCTTGATCCTATAAAAGGCAT-TCAGTTATAA
1 AGGTTGTGCTTGATCCT-TAAAAGGCATATTGGTTGTAA
*
17222635 AGGTTATGCTTGATC
1 AGGTTGTGCTTGATC
17222650 TCATGTTAAA
Statistics
Matches: 166, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
35 11 0.07
37 3 0.02
38 105 0.63
39 34 0.20
41 6 0.04
42 7 0.04
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (38 bp):
AGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAA
Found at i:17222549 original size:77 final size:76
Alignment explanation
Indices: 17222444--17222649 Score: 290
Period size: 77 Copynumber: 2.7 Consensus size: 76
17222434 TTGGTTGTAA
* *
17222444 AGGTTGTGCTTGAT-CTTAAAAAGTCATTTTGGTTGTGAAGGTTATGCTTGATCCTAAAAAGGTA
1 AGGTTGTGCTTGATCCTT-AAAAGGCATTTTGGTTGTAAAGGTTATGCTTGATCCTAAAAAGGTA
*
17222508 GTGATTTTGGTTG
65 GTGACTTT-GTTG
* *
17222521 AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGGTAG
1 AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTATGCTTGATCCTAAAAAGGTAG
17222586 TGACTTTGTTG
66 TGACTTTGTTG
* ** *
17222597 AGGTTATGCTTGATCCTATAAAAGGCA-TTCAGTTATAAAGGTTATGCTTGATC
1 AGGTTGTGCTTGATCCT-TAAAAGGCATTTTGGTTGTAAAGGTTATGCTTGATC
17222650 TCATGTTAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
76 41 0.35
77 72 0.62
78 3 0.03
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (76 bp):
AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTATGCTTGATCCTAAAAAGGTAG
TGACTTTGTTG
Found at i:17222607 original size:115 final size:116
Alignment explanation
Indices: 17222405--17222621 Score: 323
Period size: 115 Copynumber: 1.9 Consensus size: 116
17222395 AAAAGGTAGA
* *
17222405 GAGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAAAGGTTGTGCTTGATCTTAAAAAGTCA
1 GAGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGTCA
* ***
17222470 TTTTGGTTGTGAAGGTTATGCTTGATCCTA-AAAAGGTAGTGATTTTGGTT
66 GTGACGTTGTGAAGGTTATGCTTGATCCTATAAAAGGTAGTGATTTTGGTT
*
17222520 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGGT-
1 GAGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAAAGGTTGTACTTGATCCTAAAAA-GTC
*
17222584 AGTGACTTTGTTG-AGGTTATGCTTGATCCTATAAAAGG
65 AGTGACGTTG-TGAAGGTTATGCTTGATCCTATAAAAGG
17222622 CATTCAGTTA
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
115 81 0.89
116 10 0.11
ACGTcount: A:0.26, C:0.10, G:0.27, T:0.38
Consensus pattern (116 bp):
GAGGTTGTGCTTGATCCTTAAAAGGCATATTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGTCA
GTGACGTTGTGAAGGTTATGCTTGATCCTATAAAAGGTAGTGATTTTGGTT
Found at i:17229120 original size:19 final size:19
Alignment explanation
Indices: 17229096--17229133 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17229086 CCATTTGACT
*
17229096 TATTGGAGTATTATTTGAG
1 TATTGGAGTATGATTTGAG
17229115 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
17229134 GTTGAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:17237157 original size:37 final size:37
Alignment explanation
Indices: 17237110--17237207 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
17237100 ATTACAGTAG
* * * * *
17237110 ATGGGGATTTCCTACCGCTTCTAAGCATTTACGATAA
1 ATGGAGATTTCTTACCACTTCTAAGAAATTACGATAA
* * *
17237147 ATGGATATTTCTTACCACTTTTAAGAAATTATGATAA
1 ATGGAGATTTCTTACCACTTCTAAGAAATTACGATAA
*
17237184 ATGGGGATTTCTTACCACTTCTAA
1 ATGGAGATTTCTTACCACTTCTAA
17237208 TAGATGGCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGGAGATTTCTTACCACTTCTAAGAAATTACGATAA
Found at i:17237258 original size:37 final size:36
Alignment explanation
Indices: 17237217--17237408 Score: 129
Period size: 37 Copynumber: 5.2 Consensus size: 36
17237207 ATAGATGGCT
*
17237217 ATTTCTTACCGCTTGTATGAAATTATGATAGAAGGGG
1 ATTTCCTACCGCTT-TATGAAATTATGATAGAAGGGG
* * * * *
17237254 ATTTCCCACCG-TTTCTGAGAATTTATAATAGATGGGT
1 ATTTCCTACCGCTTTATGA-AA-TTATGATAGAAGGGG
* ** *
17237291 ATTTCCTACCCCTTGTATGAAATTATGGCAGAGGGGG
1 ATTTCCTACCGCTT-TATGAAATTATGATAGAAGGGG
* * *
17237328 ATTTCCTACTGCTTT-TGAGATTTATGATAGATAGGTG
1 ATTTCCTACCGCTTTATGA-AATTATGATAGA-AGGGG
* * * * *
17237365 -TTACCTACCACATCTATGAAATTATGGTAGATGGGG
1 ATTTCCTACCGC-TTTATGAAATTATGATAGAAGGGG
*
17237401 ATATCCTA
1 ATTTCCTA
17237409 TAGCTTTTGA
Statistics
Matches: 115, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
35 7 0.06
36 25 0.22
37 72 0.63
38 7 0.06
39 4 0.03
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (36 bp):
ATTTCCTACCGCTTTATGAAATTATGATAGAAGGGG
Found at i:17237312 original size:74 final size:74
Alignment explanation
Indices: 17237205--17237445 Score: 270
Period size: 74 Copynumber: 3.3 Consensus size: 74
17237195 TTACCACTTC
* * * * * *
17237205 TAATAGATGGCTATTTCTTACCGCTTGTATGAAATTATGATAGAAGGGGATTTCCCACCG-TTTC
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTATGGTAGAAGGGGATTTCCTACAGCTTT-
17237269 TGAGAATTTA
65 TGAGAATTTA
* * * *
17237279 TAATAGATGGGTATTTCCTACCCCTTGTATGAAATTATGGCAGAGGGGGATTTCCTACTGCTTTT
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTATGGTAGAAGGGGATTTCCTACAGCTTTT
17237344 GAG-ATTTA
66 GAGAATTTA
* * * * * * * * *
17237352 TGATAGATAGGTGTTACCTACCACATCTATGAAATTATGGTAGATGGGGATATCCTATAGCTTTT
1 TAATAGATGGGTATTTCCTACCACTTGTATGAAATTATGGTAGAAGGGGATTTCCTACAGCTTTT
*
17237417 GAGAAATTA
66 GAGAATTTA
*
17237426 CAATAGATGGGTATTTCCTA
1 TAATAGATGGGTATTTCCTA
17237446 TTGCTCATGT
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
73 61 0.44
74 75 0.54
75 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (74 bp):
TAATAGATGGGTATTTCCTACCACTTGTATGAAATTATGGTAGAAGGGGATTTCCTACAGCTTTT
GAGAATTTA
Found at i:17237383 original size:73 final size:73
Alignment explanation
Indices: 17237232--17237445 Score: 216
Period size: 73 Copynumber: 2.9 Consensus size: 73
17237222 TTACCGCTTG
* * * * *
17237232 TATGAAATTATGATAGAAGGGGATTTCCCACCG-TTTCTGAGAATTTATAATAGATGGGTATTTC
1 TATGAAATTATGGTAGAAGGGGATTTCCTACTGCTTT-TGAG-ATTTATAATAGATAGGTATTAC
* * *
17237296 CTACCCCTTG
64 CTACCACATC
* * * *
17237306 TATGAAATTATGGCAGAGGGGGATTTCCTACTGCTTTTGAGATTTATGATAGATAGGTGTTACCT
1 TATGAAATTATGGTAGAAGGGGATTTCCTACTGCTTTTGAGATTTATAATAGATAGGTATTACCT
17237371 ACCACATC
66 ACCACATC
* * * * * *
17237379 TATGAAATTATGGTAGATGGGGATATCCTA-TAGCTTTTGAGAAATTACAATAGATGGGTATTTC
1 TATGAAATTATGGTAGAAGGGGATTTCCTACT-GCTTTTGAG-ATTTATAATAGATAGGTATTAC
17237443 CTA
64 CTA
17237446 TTGCTCATGT
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
72 1 0.01
73 61 0.53
74 51 0.44
75 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (73 bp):
TATGAAATTATGGTAGAAGGGGATTTCCTACTGCTTTTGAGATTTATAATAGATAGGTATTACCT
ACCACATC
Found at i:17238221 original size:15 final size:16
Alignment explanation
Indices: 17238201--17238231 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
17238191 ATGACAAGTG
17238201 AAATAAGTTGA-ATTA
1 AAATAAGTTGATATTA
17238216 AAATAAGTTGATATTA
1 AAATAAGTTGATATTA
17238232 TTTTTCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (16 bp):
AAATAAGTTGATATTA
Found at i:17238249 original size:14 final size:14
Alignment explanation
Indices: 17238230--17238256 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17238220 AAGTTGATAT
17238230 TATTTTTCTAATAA
1 TATTTTTCTAATAA
17238244 TATTTTTCTAATA
1 TATTTTTCTAATA
17238257 TCAAAAGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTTCTAATAA
Found at i:17240357 original size:13 final size:13
Alignment explanation
Indices: 17240339--17240365 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17240329 GTACAGGAGA
17240339 CATACATGTGTAC
1 CATACATGTGTAC
17240352 CATACATGTGTAC
1 CATACATGTGTAC
17240365 C
1 C
17240366 CTCTTTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (13 bp):
CATACATGTGTAC
Found at i:17242152 original size:143 final size:143
Alignment explanation
Indices: 17241894--17242182 Score: 499
Period size: 143 Copynumber: 2.0 Consensus size: 143
17241884 CATTATAAAG
* *
17241894 CTTGATTTGAACTAGTCAAATTAATTTCAAATTTAAAATAACCATTGGACAAATGCATTTAAATA
1 CTTGACTTGAACTAGTCAAACTAATTTCAAATTTAAAATAACCATTGGACAAATGCATTTAAATA
*
17241959 TGCATATCATACAAAAACATTAAACACGAATTTTGATGCAAAACAATATAAAAGACTTATTTTCT
66 TGCATATCATACAAAAACATTAAACACGAATTTTGATGCAAAACAATATAAAAGACTTATTTTCC
*
17242024 TATTCTTAAAACA
131 GATTCTTAAAACA
*
17242037 CTTGACTTGAACTAGTCAGACTAATTTCAAATTTAAAATAACCATTGGACAAATGCATTTAAATA
1 CTTGACTTGAACTAGTCAAACTAATTTCAAATTTAAAATAACCATTGGACAAATGCATTTAAATA
*
17242102 TGCATATCATACAAAAACA-TAAAGCATGAATTTTGATGCAAAACAATATAAAAGACTTATTTTC
66 TGCATATCATACAAAAACATTAAA-CACGAATTTTGATGCAAAACAATATAAAAGACTTATTTTC
*
17242166 CGGTTCTTAAAACA
130 CGATTCTTAAAACA
17242180 CTT
1 CTT
17242183 TTCTCTCTTT
Statistics
Matches: 138, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
142 4 0.03
143 134 0.97
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTGACTTGAACTAGTCAAACTAATTTCAAATTTAAAATAACCATTGGACAAATGCATTTAAATA
TGCATATCATACAAAAACATTAAACACGAATTTTGATGCAAAACAATATAAAAGACTTATTTTCC
GATTCTTAAAACA
Found at i:17242361 original size:23 final size:22
Alignment explanation
Indices: 17242305--17242360 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
17242295 TTTTTCATTA
17242305 TCTTTCTTGTCTTTTCTCTCTAC
1 TCTTTCTT-TCTTTTCTCTCTAC
* * *
17242328 TCTATCTTT-TCTTCTTTCT-C
1 TCTTTCTTTCTTTTCTCTCTAC
17242348 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
17242361 CCTTTCCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 9 0.33
21 10 0.37
22 1 0.04
23 7 0.26
ACGTcount: A:0.04, C:0.29, G:0.02, T:0.66
Consensus pattern (22 bp):
TCTTTCTTTCTTTTCTCTCTAC
Found at i:17246601 original size:159 final size:159
Alignment explanation
Indices: 17246312--17246782 Score: 906
Period size: 159 Copynumber: 3.0 Consensus size: 159
17246302 TAAATTACTG
*
17246312 TTATAGTAGATCTTGAATTAGTATAAATTATTAGAAATAAATTTTATCATAATATCTAAAATCTA
1 TTATAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTA
*
17246377 TATAGTAAAATTTAATCAATATCTTGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAA
66 TATAGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAA
17246442 TCATTTAAACAAATCAGGTACGTCAATAT
131 TCATTTAAACAAATCAGGTACGTCAATAT
17246471 TTATAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTA
1 TTATAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTA
*
17246536 TATAGTAAAATTTAATCAATGTCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAA
66 TATAGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAA
17246601 TCATTTAAACAAATCAGGTACGTCAATAT
131 TCATTTAAACAAATCAGGTACGTCAATAT
*
17246630 TTATAGTAGATCTTGAATTAGTATAAATTATTATAAGTAAATTTTATCATAATATCTAAAATCTA
1 TTATAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTA
17246695 TATAGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAA
66 TATAGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAA
17246760 TCATTTAAACAAATCAGGTACGT
131 TCATTTAAACAAATCAGGTACGT
17246783 AAATCATAAC
Statistics
Matches: 307, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 307 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (159 bp):
TTATAGTAGATCTTGAATTAGTATAAATTATTATAAATAAATTTTATCATAATATCTAAAATCTA
TATAGTAAAATTTAATCAATATCATGAACAGTGAAAAGCTTATCATAATTTCTTAATAAAAACAA
TCATTTAAACAAATCAGGTACGTCAATAT
Found at i:17252503 original size:35 final size:35
Alignment explanation
Indices: 17252462--17252531 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
17252452 ACAAATAAAA
17252462 AAAAGTAAGAGCTTAATTAATAATTTAGTTATAGT
1 AAAAGTAAGAGCTTAATTAATAATTTAGTTATAGT
17252497 AAAAGTAAGAGCTTAATTAATAATTTAGTTATAGT
1 AAAAGTAAGAGCTTAATTAATAATTTAGTTATAGT
17252532 TTAAAAGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (35 bp):
AAAAGTAAGAGCTTAATTAATAATTTAGTTATAGT
Found at i:17254733 original size:38 final size:38
Alignment explanation
Indices: 17254691--17254899 Score: 216
Period size: 38 Copynumber: 5.4 Consensus size: 38
17254681 AAAGGTAGAG
*
17254691 AGGTTGTGTTTGATCCTTAAAAGGCATTTTGGTTGTAA
1 AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAA
* * *
17254729 AGGTTGTACTAGAT-CTTAAAAAGGTAGTGATTTTGGTTG---
1 AGGTTGTGCTTGATCCTT-AAAA-G--G-CATTTTGGTTGTAA
*
17254768 AGGTTGTGCTTGATCTTTAAAAGGCATTTTGGTTGTAA
1 AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAA
* *
17254806 AGGTTGTGCTTGATCCTAAAAAGGTAGTGATTTTGGTTG---
1 AGGTTGTGCTTGATCCTTAAAA-G--G-CATTTTGGTTGTAA
17254845 AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAA
1 AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAA
*
17254883 AGGTTGTACTTGATCCT
1 AGGTTGTGCTTGATCCT
17254900 AGAAAGGTAG
Statistics
Matches: 141, Mismatches: 14, Indels: 32
0.75 0.07 0.17
Matches are distributed among these distances:
35 20 0.14
36 2 0.01
37 3 0.02
38 53 0.38
39 39 0.28
40 2 0.01
41 2 0.01
42 20 0.14
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (38 bp):
AGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAA
Found at i:17254783 original size:39 final size:39
Alignment explanation
Indices: 17254729--17254936 Score: 200
Period size: 39 Copynumber: 5.4 Consensus size: 39
17254719 TTGGTTGTAA
* *
17254729 AGGTTGTACTAGATCTTAAAAAGGTAGTGATTTTGGTTG
1 AGGTTGTGCTTGATCTTAAAAAGGTAGTGATTTTGGTTG
* *
17254768 AGGTTGTGCTTGATCTTTAAAA-G--G-CATTTTGGTTG
1 AGGTTGTGCTTGATCTTAAAAAGGTAGTGATTTTGGTTG
*
17254803 TAAAGGTTGTGCTTGATCCTAAAAAGGTAGTGATTTTGGTTG
1 ---AGGTTGTGCTTGATCTTAAAAAGGTAGTGATTTTGGTTG
*
17254845 AGGTTGTGCTTGATCCTT-AAAA-G--G-CATTTTGGTTG
1 AGGTTGTGCTTGAT-CTTAAAAAGGTAGTGATTTTGGTTG
* * * *
17254880 TAAAGGTTGTACTTGATCCTAGAAAGGTAGTGACTTTGGTTG
1 ---AGGTTGTGCTTGATCTTAAAAAGGTAGTGATTTTGGTTG
17254922 AGGTTGTGCTTGATC
1 AGGTTGTGCTTGATC
17254937 CAAAAAAAAG
Statistics
Matches: 138, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
35 20 0.14
36 2 0.01
37 2 0.01
38 38 0.28
39 53 0.38
40 2 0.01
41 2 0.01
42 19 0.14
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.39
Consensus pattern (39 bp):
AGGTTGTGCTTGATCTTAAAAAGGTAGTGATTTTGGTTG
Found at i:17254937 original size:39 final size:37
Alignment explanation
Indices: 17254690--17254942 Score: 191
Period size: 38 Copynumber: 6.6 Consensus size: 37
17254680 AAAAGGTAGA
* *
17254690 GAGGTTGTGTTTGATCCTTAAAAGGCA-T--TTTGGTT
1 GAGGTTGTGCTTGATCC-TAAAAGGTAGTGATTTGGTT
* * *
17254725 GTAAAGGTTGTACTAGATCTTAAAAAGGTAGTGATTTTGGTT
1 G---AGGTTGTGCTTGATCCT-AAAAGGTAGTGA-TTTGGTT
* *
17254767 GAGGTTGTGCTTGATCTTTAAAAGGCA-T--TTTGGTT
1 GAGGTTGTGCTTGATC-CTAAAAGGTAGTGATTTGGTT
17254802 GTAAAGGTTGTGCTTGATCCTAAAAAGGTAGTGATTTTGGTT
1 G---AGGTTGTGCTTGATCCT-AAAAGGTAGTGA-TTTGGTT
*
17254844 GAGGTTGTGCTTGATCCTTAAAAGGCA-T--TTTGGTT
1 GAGGTTGTGCTTGATCC-TAAAAGGTAGTGATTTGGTT
*
17254879 GTAAAGGTTGTACTTGATCCTAGAAAGGTAGTGACTTTGGTT
1 G---AGGTTGTGCTTGATCCTA-AAAGGTAGTGA-TTTGGTT
*
17254921 GAGGTTGTGCTTGATCCAAAAA
1 GAGGTTGTGCTTGATCCTAAAA
17254943 AAAGCATTCA
Statistics
Matches: 177, Mismatches: 15, Indels: 49
0.73 0.06 0.20
Matches are distributed among these distances:
35 17 0.10
37 4 0.02
38 67 0.38
39 62 0.35
40 3 0.02
42 24 0.14
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (37 bp):
GAGGTTGTGCTTGATCCTAAAAGGTAGTGATTTGGTT
Found at i:17254964 original size:77 final size:77
Alignment explanation
Indices: 17254690--17254937 Score: 433
Period size: 77 Copynumber: 3.2 Consensus size: 77
17254680 AAAAGGTAGA
* * *
17254690 GAGGTTGTGTTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTAGATCTTAAAAAGGTA
1 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGGTA
17254755 GTGATTTTGGTT
66 GTGATTTTGGTT
* *
17254767 GAGGTTGTGCTTGATCTTTAAAAGGCATTTTGGTTGTAAAGGTTGTGCTTGATCCTAAAAAGGTA
1 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGGTA
17254832 GTGATTTTGGTT
66 GTGATTTTGGTT
*
17254844 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAGAAAGGTA
1 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGGTA
*
17254909 GTGACTTTGGTT
66 GTGATTTTGGTT
17254921 GAGGTTGTGCTTGATCC
1 GAGGTTGTGCTTGATCC
17254938 AAAAAAAAGC
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 162 1.00
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.39
Consensus pattern (77 bp):
GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAAAAAGGTA
GTGATTTTGGTT
Found at i:17254974 original size:154 final size:154
Alignment explanation
Indices: 17254690--17254974 Score: 410
Period size: 154 Copynumber: 1.9 Consensus size: 154
17254680 AAAAGGTAGA
* *
17254690 GAGGTTGTGTTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTAGATCTTAAAAAGGTA
1 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTAGATCCTAAAAAGGTA
* *** * **** * * *
17254755 GTGATTTTGGTTGAGGTTGTGCTTGATCTTTAAAAGGCATTTTGGTTGTAAAGGTTGTGCTTGAT
66 GTGACTTTGGTTGAGGTTGTGCTTGATCAAAAAAAAGCATTTCAACTATAAAGGTTATGCCTGAT
17254820 CCTAAAAAGGTAGTGATTTTGGTT
131 CCTAAAAAGGTAGTGATTTTGGTT
* *
17254844 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTTGATCCTAGAAAGGTA
1 GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTAGATCCTAAAAAGGTA
17254909 GTGACTTTGGTTGAGGTTGTGCTTGATCCAAAAAAAAGCA-TTCAACTATAAAGGTTATGCCTGA
66 GTGACTTTGGTTGAGGTTGTGCTTGAT-CAAAAAAAAGCATTTCAACTATAAAGGTTATGCCTGA
17254973 TC
130 TC
17254975 TCATGTTAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
154 106 0.93
155 8 0.07
ACGTcount: A:0.26, C:0.10, G:0.27, T:0.37
Consensus pattern (154 bp):
GAGGTTGTGCTTGATCCTTAAAAGGCATTTTGGTTGTAAAGGTTGTACTAGATCCTAAAAAGGTA
GTGACTTTGGTTGAGGTTGTGCTTGATCAAAAAAAAGCATTTCAACTATAAAGGTTATGCCTGAT
CCTAAAAAGGTAGTGATTTTGGTT
Found at i:17258022 original size:39 final size:39
Alignment explanation
Indices: 17257968--17258049 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
17257958 CTCTACCCGC
17257968 CGGCTCTCTCTCCCTTCTCTCTATTCACTCCGACGTCGT
1 CGGCTCTCTCTCCCTTCTCTCTATTCACTCCGACGTCGT
*
17258007 CGGCTCTCTCTCCCTTCTCTCTATTCCCTCCGACGTCGT
1 CGGCTCTCTCTCCCTTCTCTCTATTCACTCCGACGTCGT
17258046 CGGC
1 CGGC
17258050 GTCGCACCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.06, C:0.45, G:0.15, T:0.34
Consensus pattern (39 bp):
CGGCTCTCTCTCCCTTCTCTCTATTCACTCCGACGTCGT
Found at i:17268627 original size:25 final size:25
Alignment explanation
Indices: 17268598--17268647 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
17268588 GGCATAAGAA
17268598 AGAAAAACTTACAAAAAAGTTATGC
1 AGAAAAACTTACAAAAAAGTTATGC
17268623 AGAAAAACTTACAAAAAAGTTATGC
1 AGAAAAACTTACAAAAAAGTTATGC
17268648 TCGACAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (25 bp):
AGAAAAACTTACAAAAAAGTTATGC
Found at i:17268992 original size:16 final size:15
Alignment explanation
Indices: 17268961--17268994 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
17268951 GTTTGTAGAG
*
17268961 TTATTTTATTATTTA
1 TTATTTTATTAATTA
17268976 TTATTTATATTAATTA
1 TTATTT-TATTAATTA
17268992 TTA
1 TTA
17268995 AACAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTATTAATTA
Found at i:17289628 original size:20 final size:19
Alignment explanation
Indices: 17289603--17289642 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17289593 AAAGCAAAGG
17289603 TGCAAGAATCATAAATTTCC
1 TGCAAGAATC-TAAATTTCC
* *
17289623 TGCAAGGATCTGAATTTCC
1 TGCAAGAATCTAAATTTCC
17289642 T
1 T
17289643 TGGAGGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (19 bp):
TGCAAGAATCTAAATTTCC
Found at i:17291893 original size:251 final size:250
Alignment explanation
Indices: 17291148--17292412 Score: 1211
Period size: 251 Copynumber: 5.0 Consensus size: 250
17291138 ATTTAAATGT
* * ** * * * *
17291148 TTTATTTGATATAATTGATTTGTTATATTAAATCTCACACATTTTCGTCAATATTTTTATC--TT
1 TTTATTTGACATAATTGACTTGTTACGTTAAATCTCACACATTTACATCAATACTTTGA-CAATT
* * * * * * ** * ***
17291211 TTTTTTTCA-TCTTTATAATTTTTTACATTAATTCTTACGGCTTTATGTTAAGGTTTTTCAACTA
65 CTTTCTTCACT-TTTATAATGTTTTATATTAATTCTTATGGTTTTACATCAAAACTTTTCAACTA
* * * * *
17291275 CTAATTTTCACCATAATTATTTTTATCTTTACTATTATTCATGCATAGATTAAAATTGATAAACC
129 CTAATTTTCACCATAATTCTTTATA-CCTTACTATTATTCATGCATAGATTAAAATTGGTAAGCC
* * * ** *
17291340 GTAAAATACTTTAAATTCAAGAATAAAAATTTAAATGTTTTATTTCGTAAAAAATTATA
193 GTAAAACACTTTAAACTCAAGAATAAAAATTTAAATGTTTAATTTC-CCAAAAATTATG
* * * ** * * *
17291399 TTTATTT-ATTATAATTGACTTGTTATGTTAAAACTCTTACATTTACATCAATATTTTAATAATT
1 TTTATTTGA-CATAATTGACTTGTTACGTTAAATCTCACACATTTACATCAATACTTTGACAATT
* * * * *
17291463 CTTT-TTCCTCTTTTATAATTTTTTATATTAATTCTCACT-GTTTTACAT-AAAATTTTTCAAGT
65 CTTTCTT-CACTTTTATAATGTTTTATATTAATTCTTA-TGGTTTTACATCAAAACTTTTCAACT
* * * * * *
17291525 ATTAATTTT---CATCATT-TTTAT-CTTTACTATTATTCATTCATACATTAAAATTTGTAAGCC
128 ACTAATTTTCACCATAATTCTTTATACCTTACTATTATTCATGCATAGATTAAAATTGGTAAGCC
* * *
17291585 ATAAAACACTTTAAACTCAAGAATAAAAATTTAAATATTTACTTTCCTCAAAAATTATG
193 GTAAAACACTTTAAACTCAAGAATAAAAATTTAAATGTTTAATTTCC-CAAAAATTATG
* ** *
17291644 TTTGTTTGACATAATTGACTTGTTACGTTAAATCTCACACATTTATGTTAATACTTTGACAATTC
1 TTTATTTGACATAATTGACTTGTTACGTTAAATCTCACACATTTACATCAATACTTTGACAATTC
** * * * *
17291709 TTAT-TTCACTTTCGTAGTGTTTTATGTCAATTCTTATGGTTTTACATCAAGACTTTTCAACTAC
66 TT-TCTTCACTTTTATAATGTTTTATATTAATTCTTATGGTTTTACATCAAAACTTTTCAACTAC
* * *
17291773 TAATTTTCACCATAATTCTTTATAGCCTTACTATTATTAATGCATAGGTTAAAA-TGGTAAGCCA
130 TAATTTTCACCATAATTCTTTATA-CCTTACTATTATTCATGCATAGATTAAAATTGGTAAGCCG
* * *
17291837 TACAATACTTTAAACTCAAGAATAAAAATTTAAATGTTTAATTTTCCCATAAATTATG
194 TAAAACACTTTAAACTCAAGAATAAAAATTTAAATGTTTAA-TTTCCCAAAAATTATG
* * * *
17291895 TTTATTTGAAATAATTGACTTGTTACATTAAATCCCACACATTTACATCAATATTTTGACAATTC
1 TTTATTTGACATAATTGACTTGTTACGTTAAATCTCACACATTTACATCAATACTTTGACAATTC
* * * * * *
17291960 TTTCTCCACTTTTATAATTTTTTATATTAATTCTTATTGTTTTACGTCAAAACTTTTCAACAATT
66 TTTCTTCACTTTTATAATGTTTTATATTAATTCTTATGGTTTTACATCAAAACTTTTCAACTACT
* * * * *
17292025 AATTTTCACCATAATTATCTTTAT--CTTAACCATTATTCATTCATAGATTGAAATTTGTAAGTC
131 AATTTTCACCATAA-T-TCTTTATACCTT-ACTATTATTCATGCATAGATTAAAATTGGTAAGCC
* *
17292088 GTAAAACACTTTAAACTTC-ACAATAAAAATTTAAATGTTTAATTTTCTCAAAAAATTATG
193 GTAAAACACTTTAAAC-TCAAGAATAAAAATTTAAATGTTTAA-TTTC-CCAAAAATTATG
*
17292148 TTTATTTGACATATTTGACATAATTGACTTGTTACGTTAAATCTCACACATTTACAGTTAATACT
1 -----TT----TATTTGACATAATTGACTTGTTACGTTAAATCTCACACATTTACA-TCAATACT
* * * * *
17292213 TTGACAA-TCTTTGTTCTA-TATTTATAATGTTTTATATTAATTCTTACGATTTTACATTAAGAC
56 TTGACAATTCTTTCTTC-ACT-TTTATAATGTTTTATATTAATTCTTATGGTTTTACATCAAAAC
* *
17292276 TTTTCAACTACTAAATTTT-ACCATAATTCTTTATATCCTTACAATTATTCATGTATAGATTAAA
119 TTTTCAACTACT-AATTTTCACCATAATTCTTTATA-CCTTACTATTATTCATGCATAGATTAAA
* ** * *
17292340 ATTGCTAAGCCGTAAAACACTTTAAACTTGAGAATAAAAATTTAAGTATTTAATTTCCCATAAAA
182 ATTGGTAAGCCGTAAAACACTTTAAACTCAAGAATAAAAATTTAAATGTTTAATTTCCCA-AAAA
17292405 TTATG
246 TTATG
17292410 TTT
1 TTT
17292413 TAAATTATCT
Statistics
Matches: 837, Mismatches: 134, Indels: 84
0.79 0.13 0.08
Matches are distributed among these distances:
244 1 0.00
245 167 0.20
246 23 0.03
247 4 0.00
248 6 0.01
249 6 0.01
250 10 0.01
251 268 0.32
252 113 0.14
253 21 0.03
257 2 0.00
258 2 0.00
261 9 0.01
262 65 0.08
263 131 0.16
264 9 0.01
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.45
Consensus pattern (250 bp):
TTTATTTGACATAATTGACTTGTTACGTTAAATCTCACACATTTACATCAATACTTTGACAATTC
TTTCTTCACTTTTATAATGTTTTATATTAATTCTTATGGTTTTACATCAAAACTTTTCAACTACT
AATTTTCACCATAATTCTTTATACCTTACTATTATTCATGCATAGATTAAAATTGGTAAGCCGTA
AAACACTTTAAACTCAAGAATAAAAATTTAAATGTTTAATTTCCCAAAAATTATG
Found at i:17293595 original size:72 final size:72
Alignment explanation
Indices: 17293474--17293611 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
17293464 AGGACGCCCC
* * * * * *
17293474 TGCCAGTACCAAGCAAACACTATAGTGCCAAACGTGAAAATCGCGTCTGGCAACGTAGTGGGAGG
1 TGCCAGCACCAAACAAACACTACAGTGCCAAACGCGAAAATCGCATCTGGCAAAGTAGTGGGAGG
17293539 ATGCCTT
66 ATGCCTT
* *
17293546 TGCCAGCACCAAACAACCACTACAGTGCCAGACGCGAAAATCGCATCTGGCAAAGTAGTGGGAGG
1 TGCCAGCACCAAACAAACACTACAGTGCCAAACGCGAAAATCGCATCTGGCAAAGTAGTGGGAGG
17293611 A
66 A
17293612 CACCCTGCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.33, C:0.25, G:0.26, T:0.16
Consensus pattern (72 bp):
TGCCAGCACCAAACAAACACTACAGTGCCAAACGCGAAAATCGCATCTGGCAAAGTAGTGGGAGG
ATGCCTT
Found at i:17294790 original size:14 final size:14
Alignment explanation
Indices: 17294750--17294801 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
17294740 TGTGAGTCAT
*
17294750 AAAAATTATAAT-A
1 AAAAATAATAATAA
*
17294763 ATAAATAATGAATAA
1 AAAAATAAT-AATAA
17294778 AAAAATAATAATAA
1 AAAAATAATAATAA
*
17294792 AAATATAATA
1 AAAAATAATA
17294802 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 7 0.21
14 17 0.52
15 9 0.27
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAAATAATAATAA
Found at i:17295621 original size:16 final size:17
Alignment explanation
Indices: 17295584--17295622 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
17295574 AGCATAGCGT
*
17295584 ATATATATTGCATCATAC
1 ATAT-TATTGCATCATAA
17295602 ATATTATTGCAT-ATAA
1 ATATTATTGCATCATAA
17295618 ATATT
1 ATATT
17295623 TCTGTTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (17 bp):
ATATTATTGCATCATAA
Found at i:17307690 original size:39 final size:37
Alignment explanation
Indices: 17307609--17307897 Score: 366
Period size: 37 Copynumber: 7.7 Consensus size: 37
17307599 AAAGGTTGCT
* *
17307609 TTGCCTCAGTTTTGAGGAGTTCATTTTCAAAGTCTCG
1 TTGCCTCAATTTTGAGGAGTTCATTTTCAAAGTTTCG
* * *
17307646 TTGCCTCAATTTTAAGGAGTTCACTTTTAAAAAGTCTCG
1 TTGCCTCAATTTTGAGGAGTTCA-TTTT-CAAAGTTTCG
** *
17307685 TTGCCTCAGCTTTGAGGAGTTCATTTTTTTAAAGTTTCG
1 TTGCCTCAATTTTGAGGAGTTCA--TTTTCAAAGTTTCG
*
17307724 TTGCCTCATTTTTGAGGAGTTCATTTTTCAAAGTTTCG
1 TTGCCTCAATTTTGAGGAGTTCA-TTTTCAAAGTTTCG
17307762 TTGCCTCAATTTTGAGGAGTTCATTTTCAAAGTTTCG
1 TTGCCTCAATTTTGAGGAGTTCATTTTCAAAGTTTCG
* *
17307799 TTGCCTCAGTTTTGTGGA-TTCATTTTCAAAGTTTCG
1 TTGCCTCAATTTTGAGGAGTTCATTTTCAAAGTTTCG
* *
17307835 TTGCCTC-ATCTTTGAGGAGTTCATTTTAAAAGTTTCA
1 TTGCCTCAAT-TTTGAGGAGTTCATTTTCAAAGTTTCG
** *
17307872 TTGCCTCAGCTTTGAAGAGTTCATTT
1 TTGCCTCAATTTTGAGGAGTTCATTT
17307898 AAAATAAAAA
Statistics
Matches: 224, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
35 1 0.00
36 32 0.14
37 89 0.40
38 40 0.18
39 58 0.26
40 4 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.44
Consensus pattern (37 bp):
TTGCCTCAATTTTGAGGAGTTCATTTTCAAAGTTTCG
Found at i:17307849 original size:73 final size:74
Alignment explanation
Indices: 17307609--17307894 Score: 369
Period size: 73 Copynumber: 3.8 Consensus size: 74
17307599 AAAGGTTGCT
* * *
17307609 TTGCCTCAGTTTTGAGGAGTTCATTTTCAAAGTCTCGTTGCCTCAATTTTAAGGAGTTCACTTTT
1 TTGCCTCA-TTTTGAGGAGTTCATTTTCAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCACTTTT
* *
17307674 AAAAAGTCTCG
65 -CAAAGTTTCG
* * * *
17307685 TTGCCTCAGCTTTGAGGAGTTCATTTTTTTAAAGTTTCGTTGCCTCATTTTTGAGGAGTTCATTT
1 TTGCCTCA-TTTTGAGGAGTTCA--TTTTCAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCACTT
17307750 TTCAAAGTTTCG
63 TTCAAAGTTTCG
*
17307762 TTGCCTCAATTTTGAGGAGTTCATTTTCAAAGTTTCGTTGCCTCAGTTTTGTGGA-TTCA-TTTT
1 TTGCCTC-ATTTTGAGGAGTTCATTTTCAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCACTTTT
17307825 CAAAGTTTCG
65 CAAAGTTTCG
* * * *
17307835 TTGCCTCATCTTTGAGGAGTTCATTTTAAAAGTTTCATTGCCTCAGCTTTGAAGAGTTCA
1 TTGCCTCAT-TTTGAGGAGTTCATTTTCAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCA
17307895 TTTAAAATAA
Statistics
Matches: 188, Mismatches: 17, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
72 2 0.01
73 61 0.32
74 8 0.04
75 29 0.15
76 22 0.12
77 28 0.15
78 38 0.20
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (74 bp):
TTGCCTCATTTTGAGGAGTTCATTTTCAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCACTTTTC
AAAGTTTCG
Found at i:17308236 original size:72 final size:72
Alignment explanation
Indices: 17308116--17308262 Score: 204
Period size: 72 Copynumber: 2.0 Consensus size: 72
17308106 GTACTGGCAG
* * * * * *
17308116 GGATGCCCCTGCCAGTACCAAGCAAACACTATAGTGCCAGACGTGAAAATTGCATCTGGCAACGT
1 GGATGCCCCTGCCAGCACCAAACAAACACTACAGTGCCAGACGCGAAAATCGCATCTGGCAAAGT
17308181 AGTGGGA
66 AGTGGGA
* * **
17308188 GGATGCCTCTGCCAGCACCAAACAACCACTACAGTGCCAGACGCGAAAATCGTGTCTGGCAAAGT
1 GGATGCCCCTGCCAGCACCAAACAAACACTACAGTGCCAGACGCGAAAATCGCATCTGGCAAAGT
17308253 AGTGGGA
66 AGTGGGA
17308260 GGA
1 GGA
17308263 CACCCTGCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.27, T:0.16
Consensus pattern (72 bp):
GGATGCCCCTGCCAGCACCAAACAAACACTACAGTGCCAGACGCGAAAATCGCATCTGGCAAAGT
AGTGGGA
Found at i:17309315 original size:16 final size:16
Alignment explanation
Indices: 17309294--17309324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17309284 AGTTTTTTTA
17309294 AAATAAATATGTAAAT
1 AAATAAATATGTAAAT
*
17309310 AAATAAATATTTAAA
1 AAATAAATATGTAAA
17309325 AATTTAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATAAATATGTAAAT
Found at i:17309445 original size:27 final size:26
Alignment explanation
Indices: 17309407--17309459 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
17309397 TGTGAGTCAT
*
17309407 AAAAATTATAATA-ATAAATAATGAATA
1 AAAAATAATAATAGA-AAATAAT-AATA
17309434 AAAAATAATAATAGAAAATAATAATA
1 AAAAATAATAATAGAAAATAATAATA
17309460 TAGCTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 19 0.79
28 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAAATAATAATAGAAAATAATAATA
Found at i:17309451 original size:13 final size:12
Alignment explanation
Indices: 17309405--17309459 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 12
17309395 TTTGTGAGTC
*
17309405 ATAAAAATTATA
1 ATAAAAATAATA
17309417 ATAATAAATAATGA
1 ATAA-AAATAAT-A
17309431 ATAAAAAATAATA
1 AT-AAAAATAATA
17309444 ATAGAAAATAATA
1 ATA-AAAATAATA
17309457 ATA
1 ATA
17309460 TAGCTTTACA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 5 0.13
13 21 0.55
14 10 0.26
15 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:17309867 original size:18 final size:19
Alignment explanation
Indices: 17309825--17309878 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 19
17309815 CATGATATTA
17309825 AATAAATAAAA-AAATAA-
1 AATAAATAAAATAAATAAT
*
17309842 AATAAATATAATAAATAAT
1 AATAAATAAAATAAATAAT
*
17309861 AAT-AATAAAATAACTAAT
1 AATAAATAAAATAAATAAT
17309879 TTAAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.31
18 19 0.59
19 3 0.09
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAATAAAATAAATAAT
Found at i:17312528 original size:27 final size:27
Alignment explanation
Indices: 17312492--17312578 Score: 156
Period size: 27 Copynumber: 3.2 Consensus size: 27
17312482 ATGCTTATGG
*
17312492 TGCTGACGGCTCAACAGTTGTTGGTTC
1 TGCTGGCGGCTCAACAGTTGTTGGTTC
*
17312519 TGCTGGCGGCTCAACAGTAGTTGGTTC
1 TGCTGGCGGCTCAACAGTTGTTGGTTC
17312546 TGCTGGCGGCTCAACAGTTGTTGGTTC
1 TGCTGGCGGCTCAACAGTTGTTGGTTC
17312573 TGCTGG
1 TGCTGG
17312579 TGCCTCCGTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.13, C:0.22, G:0.33, T:0.32
Consensus pattern (27 bp):
TGCTGGCGGCTCAACAGTTGTTGGTTC
Found at i:17331387 original size:34 final size:34
Alignment explanation
Indices: 17331340--17331405 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
17331330 CTCGAGATGG
* *
17331340 GTATTAAAAATCTTATTCGAATATCAAACCTTGA
1 GTATTAAAAATCTTATTCAAATACCAAACCTTGA
*
17331374 GTATTAAAGATCTTATTCAAATACCAAACCTT
1 GTATTAAAAATCTTATTCAAATACCAAACCTT
17331406 ATATTATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.35
Consensus pattern (34 bp):
GTATTAAAAATCTTATTCAAATACCAAACCTTGA
Found at i:17333221 original size:15 final size:15
Alignment explanation
Indices: 17333201--17333239 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
17333191 CCTCATCCTT
17333201 GTCGTCATCGTCATC
1 GTCGTCATCGTCATC
* *
17333216 GTCGTCCTCGTCCTC
1 GTCGTCATCGTCATC
*
17333231 GTCATCATC
1 GTCGTCATC
17333240 TTCAACCACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.10, C:0.38, G:0.18, T:0.33
Consensus pattern (15 bp):
GTCGTCATCGTCATC
Done.