Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 88 of 100
Found at i:17704620 original size:31 final size:31
Alignment explanation
Indices: 17704582--17704640 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
17704572 GAATAGAAAA
* *
17704582 ATTTGAATCATTTCATATTCATATTATTTAG
1 ATTTGAATCATTTCAAAATCATATTATTTAG
**
17704613 ATTTGAATTTTTTCAAAATCATATTATT
1 ATTTGAATCATTTCAAAATCATATTATT
17704641 GACTTGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (31 bp):
ATTTGAATCATTTCAAAATCATATTATTTAG
Found at i:17718400 original size:41 final size:42
Alignment explanation
Indices: 17718343--17718427 Score: 120
Period size: 41 Copynumber: 2.0 Consensus size: 42
17718333 TTCTCCAAAT
* *
17718343 TAATATCAAATCAATCTAGAATATTACT-GAAATATTACTAGAA
1 TAATATC-AATCAATCTAAAATATTACTAG-AATACTACTAGAA
17718386 TAATATC-ATCAATCTAAAATATTACTAGAATACTACTAGAA
1 TAATATCAATCAATCTAAAATATTACTAGAATACTACTAGAA
17718427 T
1 T
17718428 GTCATTGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 31 0.79
42 1 0.03
43 7 0.18
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (42 bp):
TAATATCAATCAATCTAAAATATTACTAGAATACTACTAGAA
Found at i:17722974 original size:14 final size:12
Alignment explanation
Indices: 17722951--17722990 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
17722941 AAAAATGATG
17722951 AAAAAAAGAAAGA
1 AAAAAAAGAAA-A
17722964 AAAACAAAGAAAA
1 AAAA-AAAGAAAA
17722977 AAAAAAGAGAAAA
1 AAAAAA-AGAAAA
17722990 A
1 A
17722991 TGAAAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 16 0.64
14 7 0.28
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:17722989 original size:13 final size:13
Alignment explanation
Indices: 17722951--17723000 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
17722941 AAAAATGATG
17722951 AAAAAAAGA-AAGA
1 AAAAAAAGAGAA-A
*
17722964 AAAACAA-AGAAA
1 AAAAAAAGAGAAA
17722976 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
**
17722989 AATGAAAGAGAA
1 AAAAAAAGAGAA
17723001 GTTAATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.26
13 23 0.74
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:17724333 original size:55 final size:55
Alignment explanation
Indices: 17724269--17724625 Score: 271
Period size: 55 Copynumber: 6.5 Consensus size: 55
17724259 AATCCTAGTT
* * * *
17724269 TTTGATCTTGGCTCAATCCAGATCATTTTTTAGACTTATAGCTTAGTCTCGATTA
1 TTTGATCTTGGCTCAGTCTAGATCATTTTTTAGACTTATAGCTCAGTCTCGATCA
* * *
17724324 TTTGATCTTGGCTCAGTCTAGATAATTTTTCAGACTTATGGCTCAGTC-CTGATCA
1 TTTGATCTTGGCTCAGTCTAGATCATTTTTTAGACTTATAGCTCAGTCTC-GATCA
** *
17724379 TTCAATCTTGGCTCAGTGC-AGATCATTTTTCTAG-CTTATAGCTCAGTC-CTAGTCA
1 TTTGATCTTGGCTCAGT-CTAGATCATTTTT-TAGACTTATAGCTCAGTCTCGA-TCA
* * * * * * **
17724434 TCTGATCTTAGCTTAGTCTAGATCATTTTCCTA-ACTTATAGTTCAATCTCGATTG
1 TTTGATCTTGGCTCAGTCTAGATCATTTT-TTAGACTTATAGCTCAGTCTCGATCA
* * * * * * * *
17724489 TTCGATCTTGGATCAATCCAAATCATTTTTCT-GACTTATGGCTCAGTTTCGGTCA
1 TTTGATCTTGGCTCAGTCTAGATCATTTTT-TAGACTTATAGCTCAGTCTCGATCA
**** * * *
17724544 GCCAATCTTGGCTCAGTCTA-AGTCATTTTCTT-GACTTGTGGCTTAGTCTCGATCA
1 TTTGATCTTGGCTCAGTCTAGA-TCATTTT-TTAGACTTATAGCTCAGTCTCGATCA
* *
17724599 TTTGATCTTGGTTCAATCTAGATCATT
1 TTTGATCTTGGCTCAGTCTAGATCATT
17724626 CTATTTTTTT
Statistics
Matches: 233, Mismatches: 56, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
54 4 0.02
55 222 0.95
56 7 0.03
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (55 bp):
TTTGATCTTGGCTCAGTCTAGATCATTTTTTAGACTTATAGCTCAGTCTCGATCA
Found at i:17724607 original size:165 final size:164
Alignment explanation
Indices: 17724269--17724625 Score: 359
Period size: 165 Copynumber: 2.2 Consensus size: 164
17724259 AATCCTAGTT
* * * * *
17724269 TTTGATCTTGGCTCAATCCAGATCATTTTTTAGACTTATAGCTTAGTCTCGATTATTTGATCTTG
1 TTTGATCTT-GCTTAATCTAGATCATTTTCTAGACTTATAGCTTAATCTCGATTATTCGATCTTG
* * * * **
17724334 GCTCAGTCTAGATAATTTTTCAGACTTATGGCTCAGTCCTGATCATTCAATCTTGGCTCAGTGCA
65 GATCAATCCAAATAATTTTTCAGACTTATGGCTCAGTCCTGATCAGCCAATCTTGGCTCAGTGCA
*
17724399 GATCATTTTTCTAGCTTATAGCTCAGTCCTAGTCA
130 GATCATTTTTCTAGCTTATAGCTCAGTCCGAGTCA
* * *
17724434 TCTGATCTTAGCTTAGTCTAGATCATTTTCCTA-ACTTATAG-TTCAATCTCGATTGTTCGATCT
1 TTTGATCTT-GCTTAATCTAGATCATTTT-CTAGACTTATAGCTT-AATCTCGATTATTCGATCT
* * * *
17724497 TGGATCAATCCAAATCATTTTTCTGACTTATGGCTCAGT-TTCGGTCAGCCAATCTTGGCTCAGT
63 TGGATCAATCCAAATAATTTTTCAGACTTATGGCTCAGTCCT-GATCAGCCAATCTTGGCTCAGT
* * * *
17724561 -CTA-AGTCA-TTTTCTTGACTTGTGGCTTAGTCTCGA-TCA
127 GC-AGA-TCATTTTTCTAG-CTTATAGCTCAGTC-CGAGTCA
*
17724599 TTTGATCTTGGTTCAATCTAGATCATT
1 TTTGATCTTGCTT-AATCTAGATCATT
17724626 CTATTTTTTT
Statistics
Matches: 157, Mismatches: 27, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
164 15 0.10
165 138 0.88
166 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (164 bp):
TTTGATCTTGCTTAATCTAGATCATTTTCTAGACTTATAGCTTAATCTCGATTATTCGATCTTGG
ATCAATCCAAATAATTTTTCAGACTTATGGCTCAGTCCTGATCAGCCAATCTTGGCTCAGTGCAG
ATCATTTTTCTAGCTTATAGCTCAGTCCGAGTCA
Found at i:17724909 original size:15 final size:16
Alignment explanation
Indices: 17724881--17725092 Score: 138
Period size: 15 Copynumber: 13.4 Consensus size: 16
17724871 TTAGTAGTAA
* *
17724881 ATTACTATAGTATATT
1 ATTATTATATTATATT
*
17724897 -TTATTATACTATATT
1 ATTATTATATTATATT
*
17724912 -GTATTATATTATATT
1 ATTATTATATTATATT
* *
17724927 GTTATCATATTATATT
1 ATTATTATATTATATT
* *
17724943 ATT-TTATTTTATGTT
1 ATTATTATATTATATT
17724958 ATTATTATTATTATTATT
1 ATTATTA-TATTA-TATT
*
17724976 ATTATTATAGTATATT
1 ATTATTATATTATATT
*
17724992 -TT-TGTA-A-TATAGT
1 ATTAT-TATATTATATT
* ** *
17725005 -GTATGGTATTGTATT
1 ATTATTATATTATATT
* *
17725020 A-TATTATGTTTTATT
1 ATTATTATATTATATT
17725035 ATTATTATAGTTATATT
1 ATTATTATA-TTATATT
17725052 ATTATTATTATTATTATT
1 ATTATTA-TATTA-TATT
17725070 ATTATTATTATTATTATT
1 ATTATTA-TATTA-TATT
17725088 -TTATT
1 ATTATT
17725093 TTCTTTCCTT
Statistics
Matches: 158, Mismatches: 25, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
13 6 0.04
14 4 0.03
15 57 0.36
16 28 0.18
17 29 0.18
18 34 0.22
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (16 bp):
ATTATTATATTATATT
Found at i:17724916 original size:5 final size:5
Alignment explanation
Indices: 17724886--17725083 Score: 103
Period size: 5 Copynumber: 37.6 Consensus size: 5
17724876 AGTAAATTAC
* * * * * *
17724886 TATAG TATAT TTTAT TATAC TATAT TGTAT TATAT TATAT TGTTAT CATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T-ATAT TATAT
* * * *
17724937 TATAT TATTT TATTT TATGT TATTAT TATTAT TATTAT TATTAT TATAG
1 TATAT TATAT TATAT TATAT TA-TAT TA-TAT TA-TAT TA-TAT TATAT
* * * * ** * * *
17724986 TATAT T-T-T TGTAA TATAG TGTAT GGTAT TGTAT TATAT TATGT TTTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
17725034 TATTAT TATAGT TATAT TATTAT TATTAT TATTAT TATTAT TATTAT TAT
1 TA-TAT TATA-T TATAT TA-TAT TA-TAT TA-TAT TA-TAT TA-TAT TAT
17725084 TATTTTATTT
Statistics
Matches: 158, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
3 2 0.01
4 2 0.01
5 90 0.57
6 64 0.41
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:17724962 original size:3 final size:3
Alignment explanation
Indices: 17724913--17725092 Score: 118
Period size: 3 Copynumber: 62.3 Consensus size: 3
17724903 TACTATATTG
* *
17724913 TAT TA- TAT TA- TAT TGT TAT CA- TAT TA- TAT TAT T-T TAT T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
17724954 TGT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAG TA- TAT TTT TGT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
17725000 ATAGT GTAT GGTAT T-G TAT TA- TAT TAT GTTT TAT TAT TAT TA- TAGT
1 -TA-T -TAT --TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T
17725046 TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17725092 T
1 T
17725093 TTCTTTCCTT
Statistics
Matches: 142, Mismatches: 16, Indels: 38
0.72 0.08 0.19
Matches are distributed among these distances:
2 25 0.18
3 104 0.73
4 6 0.04
5 7 0.05
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:17726223 original size:45 final size:45
Alignment explanation
Indices: 17726140--17726225 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 45
17726130 AATTTTCAAA
* * *
17726140 TAAATTTATGAATTCTACCAAACTATTAGAGCATTTTCATAGATT
1 TAAATTTATGAATTCCACCAAACTATTAGAGAAATTTCATAGATT
17726185 TAAATTTTATGGAA-TCCACCAAACTATTAG-GAAATTTCATA
1 TAAA-TTTAT-GAATTCCACCAAACTATTAGAGAAATTTCATA
17726226 AATAAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 13 0.36
46 20 0.56
47 3 0.08
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (45 bp):
TAAATTTATGAATTCCACCAAACTATTAGAGAAATTTCATAGATT
Found at i:17729490 original size:46 final size:46
Alignment explanation
Indices: 17729438--17729528 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
17729428 ACATGTCGAT
17729438 TGACAATCTAGATAGTGTAGTCATAAGCATGACATTTAAATAAGAG
1 TGACAATCTAGATAGTGTAGTCATAAGCATGACATTTAAATAAGAG
17729484 TGACAATCTAGATAGTGTAGTCATAAGCATGACATTTAAATAAGA
1 TGACAATCTAGATAGTGTAGTCATAAGCATGACATTTAAATAAGA
17729529 TCCATTATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (46 bp):
TGACAATCTAGATAGTGTAGTCATAAGCATGACATTTAAATAAGAG
Found at i:17738164 original size:3 final size:3
Alignment explanation
Indices: 17738156--17738201 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
17738146 TGTGTCACAT
17738156 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17738202 GAGAAATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17738877 original size:3 final size:3
Alignment explanation
Indices: 17738862--17738967 Score: 135
Period size: 3 Copynumber: 36.0 Consensus size: 3
17738852 CTTTGCCTAG
* * * * * *
17738862 TTA TTA TT- GTA TTA TTA CTA TTA CTA TTA TTA CTA TTA TTA CTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
17738909 TTA -TA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17738956 TTA TTA TTA TTA
1 TTA TTA TTA TTA
17738968 AAAAAGGTTA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
2 3 0.03
3 85 0.97
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:17739916 original size:15 final size:16
Alignment explanation
Indices: 17739896--17739936 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
17739886 TTTATTTTTC
17739896 TATTTACATTTT-ATT
1 TATTTACATTTTCATT
* *
17739911 TATTTATATTTTCTTT
1 TATTTACATTTTCATT
17739927 TATTT-CATTT
1 TATTTACATTT
17739937 ATTATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTACATTTTCATT
Found at i:17739943 original size:3 final size:3
Alignment explanation
Indices: 17739935--17739982 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
17739925 TTTATTTCAT
17739935 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17739983 CTACTACTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17739987 original size:3 final size:3
Alignment explanation
Indices: 17739981--17740057 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
17739971 TTATTATTAT
17739981 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
17740029 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
17740058 TTATTATTAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:17740088 original size:3 final size:3
Alignment explanation
Indices: 17740082--17740107 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17740072 ATCGTTGCTA
17740082 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
17740108 TTATCTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:17743955 original size:27 final size:27
Alignment explanation
Indices: 17743925--17743977 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
17743915 CACATGTAAC
* *
17743925 TGCCATAATGGGAATATGGGTTACTCT
1 TGCCATAATGAGAATATGGGTCACTCT
17743952 TGCCATAATGAGAATATGGGTCACTC
1 TGCCATAATGAGAATATGGGTCACTC
17743978 CATAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (27 bp):
TGCCATAATGAGAATATGGGTCACTCT
Found at i:17744774 original size:16 final size:15
Alignment explanation
Indices: 17744755--17744791 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
17744745 CTTGAAAAGT
17744755 AATGAAAAGGAAAAAA
1 AATGAAAA-GAAAAAA
*
17744771 AATGAAGAGAAAAAA
1 AATGAAAAGAAAAAA
17744786 AATGAA
1 AATGAA
17744792 GAAAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (15 bp):
AATGAAAAGAAAAAA
Found at i:17744784 original size:15 final size:15
Alignment explanation
Indices: 17744764--17744798 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
17744754 TAATGAAAAG
17744764 GAAAAAAAATGAAGA
1 GAAAAAAAATGAAGA
17744779 GAAAAAAAATGAAGA
1 GAAAAAAAATGAAGA
17744794 -AAAAA
1 GAAAAA
17744799 TTGATGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (15 bp):
GAAAAAAAATGAAGA
Found at i:17744911 original size:10 final size:10
Alignment explanation
Indices: 17744896--17744928 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
17744886 ATCTTTTCTT
17744896 TCATAACTTC
1 TCATAACTTC
17744906 TCATAACTTC
1 TCATAACTTC
17744916 TCATAACTTC
1 TCATAACTTC
17744926 TCA
1 TCA
17744929 CCCTAGCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (10 bp):
TCATAACTTC
Found at i:17746138 original size:46 final size:45
Alignment explanation
Indices: 17746087--17746202 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 45
17746077 AAAAGAACTC
*
17746087 TTTGAATAAGAATCTTTAAAATTTGGGAT-AGAAATTCCTAAAATAT
1 TTTGAATAAGAATCTTTGAAATTTGGGATGAGAAA-TCCTAAAA-AT
* * *
17746133 TTTGAATATGAATCCTTGAAATTTGGGATGTGAAATCCTAAAAAT
1 TTTGAATAAGAATCTTTGAAATTTGGGATGAGAAATCCTAAAAAT
* *
17746178 TTTCAAATGAGAATCTTTGAAATTT
1 TTT-GAATAAGAATCTTTGAAATTT
17746203 TGGTTATGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 5 0.08
46 51 0.85
47 4 0.07
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.38
Consensus pattern (45 bp):
TTTGAATAAGAATCTTTGAAATTTGGGATGAGAAATCCTAAAAAT
Found at i:17746177 original size:23 final size:22
Alignment explanation
Indices: 17746104--17746179 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
17746094 AAGAATCTTT
*
17746104 AAAATTTGGGATAGAAATTCCTA
1 AAAATTTGGGATTGAAA-TCCTA
* * *
17746127 AAATATTTTGAATATG-AATCCTT
1 AAA-ATTTGGGAT-TGAAATCCTA
*
17746150 GAAATTTGGGATGTGAAATCCTA
1 AAAATTTGGGAT-TGAAATCCTA
17746173 AAAATTT
1 AAAATTT
17746180 TCAAATGAGA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
22 9 0.22
23 21 0.52
24 9 0.22
25 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.36
Consensus pattern (22 bp):
AAAATTTGGGATTGAAATCCTA
Found at i:17746316 original size:24 final size:23
Alignment explanation
Indices: 17746288--17746336 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
17746278 AATCTTTAAC
**
17746288 TTTTGAATGTGAATCTCTAAAATT
1 TTTTGAATAAGAATCT-TAAAATT
*
17746312 TTTTGAATAAGAATCTTTAAATT
1 TTTTGAATAAGAATCTTAAAATT
17746335 TT
1 TT
17746337 GGAGATGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (23 bp):
TTTTGAATAAGAATCTTAAAATT
Found at i:17746327 original size:45 final size:44
Alignment explanation
Indices: 17746241--17746337 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 44
17746231 GTTAATTTTG
* *
17746241 AAATTTTCAATGCGAATCTCTAACTTTTTTAAATAAAAATCTTT
1 AAATTTTGAATGCGAATCTCTAAATTTTTTAAATAAAAATCTTT
* * * *
17746285 AACTTTTGAATGTGAATCTCTAAAATTTTTTGAATAAGAATCTTT
1 AAATTTTGAATGCGAATCTCT-AAATTTTTTAAATAAAAATCTTT
17746330 AAATTTTG
1 AAATTTTG
17746338 GAGATGAGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.44
Consensus pattern (44 bp):
AAATTTTGAATGCGAATCTCTAAATTTTTTAAATAAAAATCTTT
Found at i:17746333 original size:23 final size:23
Alignment explanation
Indices: 17746254--17746336 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 23
17746244 TTTTCAATGC
* * *
17746254 GAATCTCTAACTTTTTTAAATAA
1 GAATCTTTAAATTTTTTGAATAA
* * **
17746277 AAATCTTT-AA-CTTTTGAATGT
1 GAATCTTTAAATTTTTTGAATAA
*
17746298 GAATCTCTAAAATTTTTTGAATAA
1 GAATCT-TTAAATTTTTTGAATAA
17746322 GAATCTTTAAATTTT
1 GAATCTTTAAATTTT
17746337 GGAGATGAGC
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
21 12 0.27
22 2 0.05
23 16 0.36
24 14 0.32
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (23 bp):
GAATCTTTAAATTTTTTGAATAA
Found at i:17746498 original size:18 final size:17
Alignment explanation
Indices: 17746448--17746513 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
17746438 ACAATGATGA
* * *
17746448 AAATTCTCACGAACGTG
1 AAATTCTTACAAACTTG
17746465 AAATTCTTACAAACTTG
1 AAATTCTTACAAACTTG
*
17746482 AAACTCTTACGAAACTTG
1 AAATTCTTAC-AAACTTG
*
17746500 GAATTCTTACAAAC
1 AAATTCTTACAAAC
17746514 CTTTGTGACT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 27 0.64
18 15 0.36
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (17 bp):
AAATTCTTACAAACTTG
Found at i:17746971 original size:66 final size:66
Alignment explanation
Indices: 17746901--17747128 Score: 153
Period size: 66 Copynumber: 3.4 Consensus size: 66
17746891 CTAACTCGCA
* * * *
17746901 GTTCAATCTCAGTCGCTCAATTTTGATCTCAGA-TCGATCCAGATCCTTTTA-TTTTTTTGACTC
1 GTTCAATCCCAGTCACTCAATTTTGATCTCA-ACTCGATCCAAATCATTTTACTTTTTTT-ACTC
17746964 ATG
64 ATG
* * * * * * * *
17746967 GTTCAATCCCTGTAACTCAATTTCGATCTCAACTTGGTTCAAATAATTTTATTTTTTTTAAC-C-
1 GTTCAATCCCAGTCACTCAATTTTGATCTCAACTCGATCCAAATCATTTTACTTTTTTT-ACTCA
17747030 TG
65 TG
* * * * *
17747032 CGATTCAATCCCAGTCACTC-TTTTTCGATCCCAACTC-AGTCTAGATTATTTTACTTTTTTTAC
1 -G-TTCAATCCCAGTCACTCAATTTT-GATCTCAACTCGA-TCCAAATCATTTTACTTTTTTTAC
*
17747095 TTATG
62 TCATG
* * * *
17747100 GTTCGATCTCGGTCGCTCAATTTTGATCT
1 GTTCAATCCCAGTCACTCAATTTTGATCT
17747129 TGGTTCAATC
Statistics
Matches: 122, Mismatches: 31, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
65 3 0.02
66 62 0.51
67 55 0.45
68 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (66 bp):
GTTCAATCCCAGTCACTCAATTTTGATCTCAACTCGATCCAAATCATTTTACTTTTTTTACTCAT
G
Found at i:17747671 original size:3 final size:3
Alignment explanation
Indices: 17747663--17747707 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
17747653 GCTTTGGCCA
17747663 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17747708 CCAAAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17747984 original size:3 final size:3
Alignment explanation
Indices: 17747976--17748037 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
17747966 GAAGAGAAAG
17747976 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
17748024 TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TA
17748038 TTATTATTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:17749123 original size:3 final size:3
Alignment explanation
Indices: 17749117--17749160 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
17749107 ATTATTGCTA
* * *
17749117 TTG TTG TTG TTG TTG TTG TTG TTG TCG TCG TCG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
17749161 TTATCTTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.07, G:0.32, T:0.61
Consensus pattern (3 bp):
TTG
Found at i:17752032 original size:19 final size:19
Alignment explanation
Indices: 17752005--17752041 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17751995 AAATTAATTA
* *
17752005 AAATTAATAAATTTTTATT
1 AAATAAATAAATATTTATT
17752024 AAATAAATAAATATTTAT
1 AAATAAATAAATATTTAT
17752042 ATATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAAATAAATATTTATT
Found at i:17752059 original size:51 final size:52
Alignment explanation
Indices: 17751965--17752068 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
17751955 ATAAATAATT
* *
17751965 TTTTTATTAAATAATATAAATTATTATTTTAAATTAATTAAAATTAA-TAAA
1 TTTTTATTAAATAATATAAATTATTATTATAAATTAATGAAAATTAATTAAA
* *
17752016 TTTTTATTAAATAA-ATAAA-TATTTATATATATATTTATGAAAATTAATTAAA
1 TTTTTATTAAATAATATAAATTA-TTAT-TATAAATTAATGAAAATTAATTAAA
17752068 T
1 T
17752069 ATACAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 2 0.04
50 9 0.20
51 30 0.65
52 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (52 bp):
TTTTTATTAAATAATATAAATTATTATTATAAATTAATGAAAATTAATTAAA
Found at i:17752186 original size:11 final size:12
Alignment explanation
Indices: 17752156--17752240 Score: 57
Period size: 12 Copynumber: 7.0 Consensus size: 12
17752146 ATTAAATATT
17752156 TATAAAAATAAA
1 TATAAAAATAAA
17752168 TATAAAAATAAA
1 TATAAAAATAAA
* **
17752180 T-TTAAAATATC
1 TATAAAAATAAA
* **
17752191 TATTAAATATATG
1 TA-TAAAAATAAA
*
17752204 TACAAAAATAAA
1 TATAAAAATAAA
17752216 TATAATATAA-AAA
1 TATAA-A-AATAAA
*
17752229 TTTAAAAATAAA
1 TATAAAAATAAA
17752241 AAGCACTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
11 10 0.18
12 27 0.48
13 17 0.30
14 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (12 bp):
TATAAAAATAAA
Found at i:17752637 original size:24 final size:22
Alignment explanation
Indices: 17752593--17752644 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
17752583 AAATTAAATT
*
17752593 AAATT-AATTTATTTTTATTAA
1 AAATTAAATTTATTATTATTAA
17752614 TCAAATTAAATTTATTAATT-TTAA
1 --AAATTAAATTTATT-ATTATTAA
17752638 AAATTAA
1 AAATTAA
17752645 TTCATCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.27
23 5 0.19
24 12 0.46
25 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATTAAATTTATTATTATTAA
Found at i:17756200 original size:4 final size:4
Alignment explanation
Indices: 17756185--17756215 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
17756175 AAAGGTTACG
*
17756185 TAAT TGAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
17756216 GGCTATTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:17757118 original size:3 final size:3
Alignment explanation
Indices: 17757110--17757165 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
17757100 TGTGTCACAC
17757110 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17757158 ATA ATA AT
1 ATA ATA AT
17757166 TAGAGGAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17757650 original size:14 final size:15
Alignment explanation
Indices: 17757625--17757656 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17757615 AGTGATCAAC
17757625 TTAAATAATATATAA
1 TTAAATAATATATAA
17757640 TTAAA-AATATATAA
1 TTAAATAATATATAA
17757654 TTA
1 TTA
17757657 TTGATTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAATAATATATAA
Found at i:17757957 original size:2 final size:2
Alignment explanation
Indices: 17757950--17757979 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17757940 TAAGTAGATC
*
17757950 CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17757980 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:17758661 original size:20 final size:21
Alignment explanation
Indices: 17758631--17758672 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
17758621 TTTTATATTT
17758631 TTTTAATTTCAAAAATAAAAA
1 TTTTAATTTCAAAAATAAAAA
**
17758652 TTTT-ATTTCACTAATAAAAA
1 TTTTAATTTCAAAAATAAAAA
17758672 T
1 T
17758673 GTTACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTAATTTCAAAAATAAAAA
Found at i:17761313 original size:58 final size:58
Alignment explanation
Indices: 17761263--17761886 Score: 768
Period size: 58 Copynumber: 10.7 Consensus size: 58
17761253 ATAAAATTCA
* *
17761263 AAAAAAATATTTTTGAGGAAAACTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
** *
17761321 -AAAAAAGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
17761378 AAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTCGAAAATCAAAGTTTTC
1 -AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAAT-AAA-TTTTC
*
17761440 -AAAAAATATTTTTG-GCAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
17761497 AAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
17761556 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
17761614 AAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTC
1 AAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC
* * *
17761675 -AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAGTTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAA-TTTTC
* * * * *
17761733 -AAAAAATATTTTTG-GAAAAAAATTAAAAGTATCAATTTTCCTTAAAGATAAATTTTC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*** * * *
17761790 --AAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGACAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*** * *
17761846 --AAAGGGATTTTTGAGGAAAAATTAAAAGTATCAATTTTTCT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
17761887 CGAAATTAAA
Statistics
Matches: 510, Mismatches: 38, Indels: 38
0.87 0.06 0.06
Matches are distributed among these distances:
56 85 0.17
57 70 0.14
58 145 0.28
59 102 0.20
60 96 0.19
61 7 0.01
62 5 0.01
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:17761475 original size:176 final size:170
Alignment explanation
Indices: 17761264--17761886 Score: 776
Period size: 176 Copynumber: 3.6 Consensus size: 170
17761254 TAAAATTCAA
* *
17761264 AAAAAATATTTTTGAGGAAAACTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
*
17761329 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTT
66 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAAATA-TTTTT
17761394 GAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAAGTTTTC
129 GAGGAAAAGTTGAAAGTATCAATTTTCTT--AAAAT-AAA-TTTTC
*
17761440 AAAAAATATTTTTG-GCAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAA
* *
17761504 GTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTT
64 G-GTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTT
*
17761569 TGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTA
128 TGAGGAAAAGTTGAAAGTATCAA-TTTTCTT-AAAATAAA-TTTTC
* *
17761615 AAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAAA
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAA
** * *
17761680 ATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAGTTTTC-AAAAAATATT
63 AGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAA-TTTTCAAAAAAATATT
* * *
17761743 TTTG-GAAAAAAATTAAAAGTATCAATTTTCCTTAAAGATAAATTTTC
126 TTTGAG-GAAAAGTTGAAAGTATCAATTTT-CTTAAA-ATAAATTTTC
*** * * * *
17761790 -AAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGACAAATTTTC--AAAGGG
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
*
17761852 ATTTTTGAGGAAAAA-TTAAAAGTATCAATTTTTCT
66 -TTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCT
17761887 CGAAATTAAA
Statistics
Matches: 398, Mismatches: 33, Indels: 37
0.85 0.07 0.08
Matches are distributed among these distances:
169 3 0.01
170 19 0.05
171 17 0.04
172 40 0.10
174 3 0.01
175 34 0.09
176 155 0.39
177 73 0.18
178 54 0.14
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (170 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGA
GGAAAAGTTGAAAGTATCAATTTTCTTAAAATAAATTTTC
Found at i:17761547 original size:118 final size:115
Alignment explanation
Indices: 17761263--17761886 Score: 796
Period size: 118 Copynumber: 5.4 Consensus size: 115
17761253 ATAAAATTCA
* *
17761263 AAAAAAATATTTTTGAGGAAAACTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAG
1 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAT
*
17761328 GTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
66 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
17761378 AAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTCGAAAATCAAAGTTTTCAA
1 -AAAAAAATA-TTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTT-AAAAAT-AAA-TTTTCAA
17761442 AAAATATTTTTG-GCAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
61 AAAATATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
17761497 AAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAA-TATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAA
* *
17761562 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
64 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
17761614 AAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAA
1 AAAAAAAT--ATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAA
* *
17761679 AATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAGTTTTC
63 AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAA-TTTTC
* * * * **
17761733 -AAAAAATATTTTTG-GAAAAAAATTAAAAGTATCAATTTTCCTTAAAGATAAATTTTC-AAAGG
1 AAAAAAATATTTTTGAG-GAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
* * * * *
17761795 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGACAAATTTTC
65 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*** *
17761846 --AAAGGGATTTTTGAGGAAAAATTAAAAGTATCAATTTTTCT
1 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCT
17761887 CGAAATTAAA
Statistics
Matches: 452, Mismatches: 39, Indels: 38
0.85 0.07 0.07
Matches are distributed among these distances:
112 34 0.08
113 6 0.01
114 35 0.08
115 12 0.03
116 57 0.13
117 100 0.22
118 134 0.30
119 74 0.16
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (115 bp):
AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAT
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:17765294 original size:11 final size:12
Alignment explanation
Indices: 17765280--17765332 Score: 81
Period size: 12 Copynumber: 4.3 Consensus size: 12
17765270 ACAATGGATG
17765280 AAAAATGAGAAA
1 AAAAATGAGAAA
17765292 AAAAGATGATGAAA
1 AAAA-ATGA-GAAA
17765306 AAAAAT-AGAAA
1 AAAAATGAGAAA
17765317 AAAAATGAGAAA
1 AAAAATGAGAAA
17765329 AAAA
1 AAAA
17765333 GAAGAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.26
12 14 0.37
13 6 0.16
14 8 0.21
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
AAAAATGAGAAA
Found at i:17765303 original size:23 final size:22
Alignment explanation
Indices: 17765276--17765362 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 22
17765266 ATCAACAATG
17765276 GATGAAAAATGAGAAAAAAAGAT
1 GATGAAAAATGAGAAAAAAA-AT
17765299 GATGAAAAAAAAT-AGAAAAAAAAT
1 GATG---AAAAATGAGAAAAAAAAT
* *
17765323 GA-GAAAAA-AAGAAGAAAAAT
1 GATGAAAAATGAGAAAAAAAAT
**
17765343 TTTGAGAAAATGA-AAAAAAA
1 GATGA-AAAATGAGAAAAAAA
17765363 GATATTCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
20 15 0.29
21 2 0.04
22 10 0.19
23 6 0.12
24 4 0.08
25 9 0.17
26 6 0.12
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (22 bp):
GATGAAAAATGAGAAAAAAAAT
Found at i:17765338 original size:11 final size:11
Alignment explanation
Indices: 17765280--17765341 Score: 63
Period size: 11 Copynumber: 5.2 Consensus size: 11
17765270 ACAATGGATG
17765280 AAAAATGAGAAA
1 AAAAAT-AGAAA
17765292 AAAAGATGATGAAA
1 AAAA-AT-A-GAAA
17765306 AAAAATAGAAA
1 AAAAATAGAAA
17765317 AAAAATGAGAAA
1 AAAAAT-AGAAA
17765329 AAAAGA-AGAAA
1 AAAA-ATAGAAA
17765340 AA
1 AA
17765342 TTTTGAGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
11 17 0.37
12 14 0.30
13 7 0.15
14 8 0.17
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAAATAGAAA
Found at i:17766988 original size:41 final size:41
Alignment explanation
Indices: 17766931--17767098 Score: 282
Period size: 41 Copynumber: 4.1 Consensus size: 41
17766921 GATTGTCAAT
*
17766931 GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
17766972 GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
17767013 GAGCAATTTACTTTTAAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
17767054 GAGCAATTTACTTTCCAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
17767095 GAGC
1 GAGC
17767099 TTTGAAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:17767255 original size:14 final size:14
Alignment explanation
Indices: 17767218--17767257 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17767208 CAAAATTAAA
*
17767218 AAAAAAAAAAAAGC
1 AAAAAAAAATAAGC
* *
17767232 AAAACAAAATAGGC
1 AAAAAAAAATAAGC
17767246 AAAAAAAAATAA
1 AAAAAAAAATAA
17767258 TCCAGTTGAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.05
Consensus pattern (14 bp):
AAAAAAAAATAAGC
Found at i:17769566 original size:18 final size:20
Alignment explanation
Indices: 17769539--17769578 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
17769529 CTGGTTTAAA
17769539 TTTCACTTTT-GTTTTTTAT
1 TTTCACTTTTAGTTTTTTAT
*
17769558 TTTCA-TTTTATTTTTTTAT
1 TTTCACTTTTAGTTTTTTAT
17769577 TT
1 TT
17769579 CCTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTCACTTTTAGTTTTTTAT
Found at i:17769671 original size:59 final size:58
Alignment explanation
Indices: 17769576--17770064 Score: 549
Period size: 59 Copynumber: 8.4 Consensus size: 58
17769566 TATTTTTTTA
* * *
17769576 TTTCCTT-TAAATAAA-ATTCAAAAAAATTATTTTTGAGGAAAAATTGAAAGTATCAAT
1 TTTCCTTAAAAATAAATTTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * *
17769633 TTTTCTTAAAAATAAATTTTCAAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTCCTTAAAAATAAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* ** *
17769692 TTTTCTTAAAAAATAAATTTTCAAAAAAAGGTTTTTGAAGAAAAGTTGAAAGTATCAAT
1 TTTCCTT-AAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
** * * *
17769751 TTTCCTCGAAAATCAAAGTTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAAT
1 TTTCCTTAAAAAT-AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * *
17769810 TTTCCTTAAAAATAAATTTTCTAAAAAATATTTTTGGGGATAAGTTGAAAGTATCAAT
1 TTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * * *
17769868 TTTTCTTAAAAATAAATTTTTTAAAAAAA-AGATTCTGACGAAAAGTTGAAAGTATCAAT
1 TTTCCTTAAAAATAAA-TTTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAAT
* ** * * * *
17769927 TTTTCTCGAAATTAAAGTTTTC-AAAAAATATTTTTGGGGAAAAGTTAAAATTATCAAT
1 TTTCCTTAAAAATAAA-TTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * ***
17769985 TTTCCTTGAAGATAAATTTTC--AAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
*
17770041 TTTCCTTAAAGATAAATTTTCAAA
1 TTTCCTTAAAAATAAATTTTCAAA
17770065 GGGATTTTTG
Statistics
Matches: 368, Mismatches: 54, Indels: 19
0.83 0.12 0.04
Matches are distributed among these distances:
56 49 0.13
57 11 0.03
58 111 0.30
59 176 0.48
60 21 0.06
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (58 bp):
TTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:17769838 original size:16 final size:17
Alignment explanation
Indices: 17769807--17769839 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17769797 TGAAAGTATC
*
17769807 AATTTTCCTTAAAAATA
1 AATTTTCCTAAAAAATA
17769824 AATTTT-CTAAAAAATA
1 AATTTTCCTAAAAAATA
17769840 TTTTTGGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTTTCCTAAAAAATA
Found at i:17769855 original size:117 final size:115
Alignment explanation
Indices: 17769596--17770099 Score: 550
Period size: 117 Copynumber: 4.3 Consensus size: 115
17769586 ATAAAATTCA
* * *
17769596 AAAAAATTATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-CAAAAA
* *
17769661 AAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAATTTTC
64 AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTC
* ** *
17769714 AAAAAA-AGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAA
1 AAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCCAAAA
* *
17769778 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
63 AAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * **
17769831 TAAAAAATATTTTTGGGGATAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTAAAAAA
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCCAAAAAA
* * * * ** *
17769896 AAGATTCTGACGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
65 AA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
* * * * * ***
17769949 AAAAAATATTTTTGGGGAAAAGTTAAAATTATCAATTTTCCTTGAAGATAAATTTT-C-AAAGGG
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCCAAAAAAA
*
17770012 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTC
66 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*** * *
17770062 -AAAGGGATTTTTGAGGAAAAATT-AACATTATCAATTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAA-AGTATCAATTTT
17770100 TTTCGAAATT
Statistics
Matches: 326, Mismatches: 52, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
111 2 0.01
112 30 0.09
113 5 0.02
114 36 0.11
115 4 0.01
116 14 0.04
117 135 0.41
118 92 0.28
119 8 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (115 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCCAAAAAAA
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:17770839 original size:2 final size:2
Alignment explanation
Indices: 17770834--17770868 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17770824 TATATATATA
*
17770834 TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17770869 CTGAGGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:17771837 original size:20 final size:20
Alignment explanation
Indices: 17771809--17771858 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
17771799 TAAAGAAAAG
17771809 AATGATTCTTGGTAA-TTTTTT
1 AATGATTCTT-G-AAGTTTTTT
17771830 AA-GATTCTTGAAGTTTTTT
1 AATGATTCTTGAAGTTTTTT
17771849 AATGATTCTT
1 AATGATTCTT
17771859 AATCATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 14 0.52
21 2 0.07
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (20 bp):
AATGATTCTTGAAGTTTTTT
Found at i:17773331 original size:16 final size:16
Alignment explanation
Indices: 17773298--17773335 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17773288 GAATATTTAG
*
17773298 TTAATTTAATTTTTGT
1 TTAATTTAATTTTGGT
17773314 TTAAGTTTAA-TTTGGT
1 TTAA-TTTAATTTTGGT
17773330 TTAATT
1 TTAATT
17773336 GCATGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (16 bp):
TTAATTTAATTTTGGT
Found at i:17776864 original size:10 final size:10
Alignment explanation
Indices: 17776841--17776880 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
17776831 TGGGGGAAAG
17776841 AAATTTTGTTC
1 AAATTTT-TTC
17776852 AAATTTTTTC
1 AAATTTTTTC
17776862 AAATTTTTTC
1 AAATTTTTTC
17776872 AAATTTTTT
1 AAATTTTTT
17776881 ATTTTGAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (10 bp):
AAATTTTTTC
Found at i:17781054 original size:5 final size:5
Alignment explanation
Indices: 17781044--17781071 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17781034 TATAAGAAAG
17781044 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
17781072 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:17783203 original size:21 final size:22
Alignment explanation
Indices: 17783179--17783225 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
17783169 AAAATTAATG
* *
17783179 AATTCATTAAT-AATATTTTAT
1 AATTCATAAATAAATATTTTAA
17783200 AATT-ATAAATAAATATTTTAA
1 AATTCATAAATAAATATTTTAA
17783221 AATTC
1 AATTC
17783226 TTCAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTCATAAATAAATATTTTAA
Found at i:17786623 original size:84 final size:82
Alignment explanation
Indices: 17786474--17786775 Score: 306
Period size: 76 Copynumber: 3.7 Consensus size: 82
17786464 TCCTTTAATT
* **
17786474 TATAAAAAGATTATTT-AAGGTATTTTTATACAAAAAAAAACCTTAAATAATCTTTTTATAAAAA
1 TATAAAAAGATTATTTAAAGAT-TTTTTATAC--AAAAATGCCTTAAATAATCTTTTTATAAAAA
17786538 TATTAACCTCAAATCCTAAAA
63 TATTAACCTCAAA-CCTAAAA
*
17786559 TATAAAAAGATTTTTTAAAGCATTTTTTATACAAAAATGCCTTAAATAAT-TTATTTATAAAAAT
1 TATAAAAAGATTATTTAAAG-ATTTTTTATACAAAAATGCCTTAAATAATCTT-TTTATAAAAAT
17786623 A-T----T--AACCTAAAA
64 ATTAACCTCAAACCTAAAA
* *
17786635 TATAAAAAGATTATTT-AAGATGTTTCTACATA-AAAAATGCCTTAAATAATCCTTTTATAAAAA
1 TATAAAAAGATTATTTAAAGAT-TTT-T-TATACAAAAATGCCTTAAATAATCTTTTTATAAAAA
*
17786698 TATTAACC-CTAAA-CTAAAC
63 TATTAACCTC-AAACCTAAAA
* * * * *
17786717 TATAAAAAGATTATTTAAGGGATTTTCTGTACAAAAACGTCTTAAATAATCTTTTTATA
1 TATAAAAAGATTATTTAA-AGATTTTTTATACAAAAATGCCTTAAATAATCTTTTTATA
17786776 TTTTTATAAA
Statistics
Matches: 184, Mismatches: 15, Indels: 39
0.77 0.06 0.16
Matches are distributed among these distances:
74 2 0.01
75 6 0.03
76 53 0.29
77 7 0.04
79 1 0.01
81 2 0.01
82 45 0.24
83 9 0.05
84 31 0.17
85 15 0.08
86 12 0.07
87 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (82 bp):
TATAAAAAGATTATTTAAAGATTTTTTATACAAAAATGCCTTAAATAATCTTTTTATAAAAATAT
TAACCTCAAACCTAAAA
Found at i:17786742 original size:158 final size:160
Alignment explanation
Indices: 17786474--17786775 Score: 416
Period size: 158 Copynumber: 1.9 Consensus size: 160
17786464 TCCTTTAATT
* *
17786474 TATAAAAAGATTATTTAAGGTATTTTTATACAAAAAAAAACCTTAAATAATCTTTTTATAAAAAT
1 TATAAAAAGATTATTTAAGGTATGTTTATACAAAAAAAAACCTTAAATAATCCTTTTATAAAAAT
* * *
17786539 ATTAACCTCAAATCCTAAAATATAAAAAGATTTTTTAAAGCATTTTTTATACAAAAATGCCTTAA
66 ATTAACCTCAAA-CCTAAAATATAAAAAGATTATTTAAAGCATTTTCTATACAAAAACGCCTTAA
17786604 ATAAT-TTATTTATAAAAATATTAACCTAAAA
130 ATAATCTT-TTTATAAAAATATTAACCTAAAA
* **
17786635 TATAAAAAGATTATTTAA-G-ATGTTTCTACATAAAAAATGCCTTAAATAATCCTTTTATAAAAA
1 TATAAAAAGATTATTTAAGGTATGTTTATACA-AAAAAAAACCTTAAATAATCCTTTTATAAAAA
* * * * *
17786698 TATTAACC-CTAAA-CTAAACTATAAAAAGATTATTTAAGGGATTTTCTGTACAAAAACGTCTTA
65 TATTAACCTC-AAACCTAAAATATAAAAAGATTATTTAAAGCATTTTCTATACAAAAACGCCTTA
17786761 AATAATCTTTTTATA
129 AATAATCTTTTTATA
17786776 TTTTTATAAA
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
158 54 0.43
159 12 0.10
160 41 0.33
161 18 0.14
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (160 bp):
TATAAAAAGATTATTTAAGGTATGTTTATACAAAAAAAAACCTTAAATAATCCTTTTATAAAAAT
ATTAACCTCAAACCTAAAATATAAAAAGATTATTTAAAGCATTTTCTATACAAAAACGCCTTAAA
TAATCTTTTTATAAAAATATTAACCTAAAA
Found at i:17789976 original size:17 final size:17
Alignment explanation
Indices: 17789956--17789990 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17789946 TTGGGGCTTA
17789956 ATTTATGATTTAT-TTAT
1 ATTTAT-ATTTATATTAT
17789973 ATTTATATTTATATTAT
1 ATTTATATTTATATTAT
17789990 A
1 A
17789991 AGTAGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTATATTTATATTAT
Found at i:17804119 original size:14 final size:15
Alignment explanation
Indices: 17804089--17804122 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17804079 TTATGGATAA
*
17804089 AAAAATTTATAAGAG
1 AAAAATTTATAAAAG
17804104 AAAAATTT-TAAAAG
1 AAAAATTTATAAAAG
17804118 AAAAA
1 AAAAA
17804123 AGATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
AAAAATTTATAAAAG
Found at i:17805946 original size:22 final size:20
Alignment explanation
Indices: 17805905--17805979 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 20
17805895 TAACAAATAA
17805905 AAAATCATAAAAATAATTTT
1 AAAATCATAAAAATAATTTT
17805925 AAAAT-ATAAAAATAAGAGTTTT
1 AAAATCATAAAAAT-A-A-TTTT
*
17805947 AAATATTCAAAAAAAT-ATTTT
1 AAA-A-TCATAAAAATAATTTT
*
17805968 AACA-CATAAAAA
1 AAAATCATAAAAA
17805980 AAGATAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
18 7 0.15
19 8 0.17
20 7 0.15
21 7 0.15
22 8 0.17
23 1 0.02
24 1 0.02
25 7 0.15
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATCATAAAAATAATTTT
Found at i:17805967 original size:21 final size:20
Alignment explanation
Indices: 17805913--17805981 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
17805903 AAAAAATCAT
17805913 AAAAATAATTTTAAAATATAA
1 AAAAAT-ATTTTAAAATATAA
*
17805934 AAATAAGAGTTTT-AAATATTCAA
1 AAA-AATA-TTTTAAAATA-T-AA
* *
17805957 AAAAATATTTTAACACATAA
1 AAAAATATTTTAAAATATAA
17805977 AAAAA
1 AAAAA
17805982 GATAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
20 7 0.18
21 14 0.36
22 13 0.33
23 5 0.13
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAATATTTTAAAATATAA
Found at i:17811783 original size:3 final size:3
Alignment explanation
Indices: 17811775--17811814 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
17811765 TGGCTTCCTT
*
17811775 TTC TTC TTC TTC TTC TTC TTC TTC TTC -CC TTC TTGC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC T
17811815 AACGTAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 29 0.88
4 3 0.09
ACGTcount: A:0.00, C:0.35, G:0.03, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:17814370 original size:22 final size:22
Alignment explanation
Indices: 17814345--17814388 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17814335 TAAATCTTCC
*
17814345 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
17814367 TTAATTCTAGAGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
17814389 AAATATACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAT
Found at i:17818247 original size:22 final size:22
Alignment explanation
Indices: 17818219--17818262 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17818209 CTAAATCTTC
*
17818219 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17818241 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17818263 TAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:17819127 original size:7 final size:8
Alignment explanation
Indices: 17819111--17819136 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
17819101 TCTTAATATT
17819111 AAAAGAAA
1 AAAAGAAA
17819119 AAAAGAAA
1 AAAAGAAA
17819127 AAAAGAAA
1 AAAAGAAA
17819135 AA
1 AA
17819137 GCATCCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:17819835 original size:15 final size:16
Alignment explanation
Indices: 17819815--17819848 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17819805 AAATCTTTTT
*
17819815 AAATAAAAA-AATTAA
1 AAATAAAAACAAATAA
17819830 AAATAAAAACAAATAA
1 AAATAAAAACAAATAA
17819846 AAA
1 AAA
17819849 ATGGACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATAAAAACAAATAA
Found at i:17822120 original size:34 final size:34
Alignment explanation
Indices: 17822077--17822144 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
17822067 CACCTTATGA
17822077 CATCCTTTGATCACTTCTTGAACTTGATCTGGAG
1 CATCCTTTGATCACTTCTTGAACTTGATCTGGAG
*
17822111 CATCCTTTGATCACTTTTTGAACTTGATCTGGAG
1 CATCCTTTGATCACTTCTTGAACTTGATCTGGAG
17822145 TATTGGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (34 bp):
CATCCTTTGATCACTTCTTGAACTTGATCTGGAG
Found at i:17825023 original size:15 final size:15
Alignment explanation
Indices: 17825003--17825034 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17824993 AAGTTTTTAT
17825003 TGCTGCTATTGCCTA
1 TGCTGCTATTGCCTA
17825018 TGCTGCTATTGCCTA
1 TGCTGCTATTGCCTA
17825033 TG
1 TG
17825035 TTTTTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (15 bp):
TGCTGCTATTGCCTA
Found at i:17825487 original size:2 final size:2
Alignment explanation
Indices: 17825480--17825508 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17825470 TGATGACCCC
17825480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17825509 GGGTTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17827022 original size:34 final size:34
Alignment explanation
Indices: 17826950--17827022 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
17826940 TTCACTTTCG
* * * **
17826950 AAAATGCATTTTTGAGAAGTGTTATGAGTTCTTG
1 AAAATGCATTTTCGAGAAATGTTATAAGTTCTCC
* *
17826984 AAAATTCATTTTCGAGAAATGTTATAATTTCTCC
1 AAAATGCATTTTCGAGAAATGTTATAAGTTCTCC
17827018 AAAAT
1 AAAAT
17827023 AGTGAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.40
Consensus pattern (34 bp):
AAAATGCATTTTCGAGAAATGTTATAAGTTCTCC
Found at i:17830766 original size:21 final size:21
Alignment explanation
Indices: 17830742--17830781 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17830732 AATTAAAAAG
17830742 AAAAGAG-GAAGAACAAGAGCT
1 AAAAGAGAG-AGAACAAGAGCT
17830763 AAAAGAGAGAGAACAAGAG
1 AAAAGAGAGAGAACAAGAG
17830782 TATTTTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.07, G:0.30, T:0.03
Consensus pattern (21 bp):
AAAAGAGAGAGAACAAGAGCT
Found at i:17831382 original size:13 final size:14
Alignment explanation
Indices: 17831364--17831392 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17831354 CAAATAGGTC
17831364 CTATTGACTA-TGA
1 CTATTGACTATTGA
17831377 CTATTGACTATTGA
1 CTATTGACTATTGA
17831391 CT
1 CT
17831393 TTTGTCTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (14 bp):
CTATTGACTATTGA
Found at i:17831384 original size:7 final size:7
Alignment explanation
Indices: 17831364--17831392 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17831354 CAAATAGGTC
17831364 CTATTGA
1 CTATTGA
17831371 CTA-TGA
1 CTATTGA
17831377 CTATTGA
1 CTATTGA
17831384 CTATTGA
1 CTATTGA
17831391 CT
1 CT
17831393 TTTGTCTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (7 bp):
CTATTGA
Found at i:17833726 original size:64 final size:63
Alignment explanation
Indices: 17833655--17833855 Score: 192
Period size: 64 Copynumber: 3.2 Consensus size: 63
17833645 TTAACAAAAT
*
17833655 ATTATTAAAGGCGTTTTTGACTAAAATTGCCTTCAATAATCCCTTATAAAAATTTACTTAGTGG
1 ATTATTAAAGGCGTTTTTGACTAAAATCGCCTTCAATAATCCCTTATAAAAATTTA-TTAGTGG
* * * * * * * * * *
17833719 ATTATTAAAGGCGTTTTAGGCCAAAAACGCCTCCAAGAATCCATT-TCAAATTTTTTGTA-TGG
1 ATTATTAAAGGCGTTTTTGACTAAAATCGCCTTCAATAATCCCTTATAAAAATTTAT-TAGTGG
** * * *
17833781 ATTATTAAAGGTATTTTTTA-TCACAATCGCCTTCAATAATCCCTCATAAAAATTTATTGAGTGG
1 ATTATTAAAGGCGTTTTTGACT-AAAATCGCCTTCAATAATCCCTTATAAAAATTTATT-AGTGG
17833845 ATTATTGAAAG
1 ATTATT-AAAG
17833856 CTCTTTCGAT
Statistics
Matches: 105, Mismatches: 26, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
62 37 0.35
63 18 0.17
64 46 0.44
65 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (63 bp):
ATTATTAAAGGCGTTTTTGACTAAAATCGCCTTCAATAATCCCTTATAAAAATTTATTAGTGG
Found at i:17833882 original size:126 final size:126
Alignment explanation
Indices: 17833683--17833925 Score: 330
Period size: 126 Copynumber: 1.9 Consensus size: 126
17833673 GACTAAAATT
* * * *
17833683 GCCTTCAATAATCCCTTATAAAAATTTACTTAGTGGATTATTAAAGGCGTTTTAGGCCAAAAACG
1 GCCTTCAATAATCCCTCATAAAAATTTACTTAGTGGATTATTAAAGGCGTTTTAGACAAAAAACA
* *
17833748 CCTCCAAGAATCCATTTCAAATTTTTTGTATGGATTATTAAAGGTATTTTTTATCACAATC
66 CCTCCAAGAATCCATTCCAAATTTTTTCTATGGATTATTAAAGGTATTTTTTATCACAATC
* *
17833809 GCCTTCAATAATCCCTCATAAAAATTTA-TTGAGTGGATTATTGAAA-GC-TCTTTCGATAAAAA
1 GCCTTCAATAATCCCTCATAAAAATTTACTT-AGTGGATTATT-AAAGGCGT-TTTAGACAAAAA
* * * *
17833871 ACACCTTCAAGAATTCATTCCAAATTTTTTCTATGGATTATTGAAGGTTTTTTTT
63 ACACCTCCAAGAATCCATTCCAAATTTTTTCTATGGATTATTAAAGGTATTTTTT
17833926 GCTAAAAAAT
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
125 3 0.03
126 96 0.94
127 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (126 bp):
GCCTTCAATAATCCCTCATAAAAATTTACTTAGTGGATTATTAAAGGCGTTTTAGACAAAAAACA
CCTCCAAGAATCCATTCCAAATTTTTTCTATGGATTATTAAAGGTATTTTTTATCACAATC
Found at i:17838112 original size:15 final size:16
Alignment explanation
Indices: 17838085--17838116 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17838075 ACTTTTCCTC
17838085 AAAAATTTATTTTTTA
1 AAAAATTTATTTTTTA
17838101 AAAAATTT-TTTTTTA
1 AAAAATTTATTTTTTA
17838116 A
1 A
17838117 GGAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAAAATTTATTTTTTA
Found at i:17838148 original size:60 final size:58
Alignment explanation
Indices: 17838001--17838150 Score: 189
Period size: 60 Copynumber: 2.5 Consensus size: 58
17837991 TTGTGTAGGA
* *
17838001 AAAATTGATACTTTCAACTTTTCCCTAAAAA-TATTCTTTTGAAATTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATTATTCTTTTAAAATTTTAATTTTAAGG
*
17838059 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATT-TTTTAAAAAATTTT-TTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-TTATTCTTTT--AAAATTTTAATTTTAAGG
*
17838119 AAAATTGATACTTTCAACTTTTTTCCAAAAAT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAT
17838151 ATATATATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
58 29 0.35
59 6 0.07
60 35 0.43
61 12 0.15
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATTATTCTTTTAAAATTTTAATTTTAAGG
Found at i:17838212 original size:25 final size:25
Alignment explanation
Indices: 17838183--17838253 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 25
17838173 AAGAAAATAG
*
17838183 AATAATAAAACAAAATAAAAGT-GAA
1 AATAATAAAA-AAAATAAAAGTAAAA
*
17838208 AATAAATAAAAAAAAGAAAAGTAAAA
1 AAT-AATAAAAAAAATAAAAGTAAAA
*
17838234 AAAAATAAAAATAAAATAAA
1 AATAAT-AAAA-AAAATAAA
17838254 GATAAAAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 16 0.42
26 15 0.39
27 7 0.18
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.14
Consensus pattern (25 bp):
AATAATAAAAAAAATAAAAGTAAAA
Found at i:17838233 original size:41 final size:42
Alignment explanation
Indices: 17838170--17838253 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 42
17838160 TTTATTTTTT
* *
17838170 ATAAAGAAAATAGAATAATAAAACAAAATAAAAGTGAAAATAA
1 ATAAAGAAAATAGAATAATAAAAAAAAATAAAAAT-AAAATAA
17838213 ATAAA-AAAA-AGAA-AAGTAAAAAAAAATAAAAATAAAATAA
1 ATAAAGAAAATAGAATAA-TAAAAAAAAATAAAAATAAAATAA
17838253 A
1 A
17838254 GATAAAAGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
40 10 0.26
41 19 0.50
42 4 0.11
43 5 0.13
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.14
Consensus pattern (42 bp):
ATAAAGAAAATAGAATAATAAAAAAAAATAAAAATAAAATAA
Found at i:17838234 original size:16 final size:16
Alignment explanation
Indices: 17838211--17838249 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
17838201 AAGTGAAAAT
17838211 AAAT-AAAAAAAAGAA
1 AAATAAAAAAAAAGAA
* *
17838226 AAGTAAAAAAAAATAA
1 AAATAAAAAAAAAGAA
17838242 AAATAAAA
1 AAATAAAA
17838250 TAAAGATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (16 bp):
AAATAAAAAAAAAGAA
Found at i:17838250 original size:5 final size:5
Alignment explanation
Indices: 17838186--17838260 Score: 64
Period size: 5 Copynumber: 14.4 Consensus size: 5
17838176 AAAATAGAAT
* *
17838186 AATAA AACAA AATAA AAGTGAA AAT-A AATAA AA-AA AAGAA AAGTAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AA-TAA
*
17838232 AAAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AAT-AA AATAA AATAA A-ATAA AA
17838261 GGAATATTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
4 8 0.14
5 30 0.52
6 16 0.28
7 4 0.07
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (5 bp):
AATAA
Found at i:17838260 original size:16 final size:16
Alignment explanation
Indices: 17838194--17838260 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
17838184 ATAATAAAAC
17838194 AAAATAAAAGTGAAA-AT
1 AAAATAAAA-T-AAAGAT
*
17838211 -AAATAAAAAAAAGA-
1 AAAATAAAATAAAGAT
* *
17838225 AAAGTAAAA-AAAAAT
1 AAAATAAAATAAAGAT
17838240 AAAAATAAAATAAAGAT
1 -AAAATAAAATAAAGAT
17838257 AAAA
1 AAAA
17838261 GGAATATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 7 0.17
15 8 0.20
16 20 0.50
17 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAATAAAATAAAGAT
Found at i:17838260 original size:25 final size:25
Alignment explanation
Indices: 17838186--17838260 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 25
17838176 AAAATAGAAT
*
17838186 AATAAAACAAAATAAA-AGTGAAAATA
1 AATAAAAAAAAATAAAGA-T-AAAATA
*
17838212 AATAAAAAAAAGA-AAAG-TAAAAAAA
1 AATAAAAAAAA-ATAAAGAT-AAAATA
17838237 AATAAAAATAAAATAAAGATAAAA
1 AATAAAAA-AAAATAAAGATAAAA
17838261 GGAATATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
25 15 0.37
26 24 0.59
27 2 0.05
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (25 bp):
AATAAAAAAAAATAAAGATAAAATA
Found at i:17839205 original size:17 final size:18
Alignment explanation
Indices: 17839183--17839216 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17839173 TAAATCAGAT
17839183 AAATAAA-AAAAATTAAC
1 AAATAAATAAAAATTAAC
*
17839200 AAATAAATTAAAATTAA
1 AAATAAATAAAAATTAA
17839217 ATAACAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAAATTAAC
Found at i:17839219 original size:45 final size:43
Alignment explanation
Indices: 17839133--17839227 Score: 102
Period size: 45 Copynumber: 2.2 Consensus size: 43
17839123 AATTTTCAGC
* *
17839133 CAGATAAATCAAAAAAATAAAAGAAAAAATTAAACGAAAATAAA
1 CAGATAAATAAAAAAAATAAAAGAAAAAATTAAAAGAAAAT-AA
* * **
17839177 TCAGATAAATAAAAAAAATTAACA-AATAAATTAAAATTAAATAA
1 -CAGATAAATAAAAAAAA-TAAAAGAAAAAATTAAAAGAAAATAA
17839221 CAGATAA
1 CAGATAA
17839228 TTACATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 7 0.16
44 2 0.05
45 30 0.70
46 4 0.09
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.19
Consensus pattern (43 bp):
CAGATAAATAAAAAAAATAAAAGAAAAAATTAAAAGAAAATAA
Found at i:17839229 original size:21 final size:21
Alignment explanation
Indices: 17839160--17839230 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
17839150 TAAAAGAAAA
* *
17839160 AATTAAACGAAAATAAATCAGAT
1 AATTAAA-AAAAATTAA-CAGAT
* *
17839183 AAATAAAAAAAATTAACAAAT
1 AATTAAAAAAAATTAACAGAT
*
17839204 AAATTAAAATTAAA-TAACAGAT
1 -AATTAAAA-AAAATTAACAGAT
17839226 AATTA
1 AATTA
17839231 CATAAATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 9 0.23
22 21 0.54
23 9 0.23
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.24
Consensus pattern (21 bp):
AATTAAAAAAAATTAACAGAT
Found at i:17839433 original size:20 final size:19
Alignment explanation
Indices: 17839357--17839440 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 19
17839347 ATATACATAT
*
17839357 ATAAAATAATAAAATTAAAA
1 ATAAAATAA-AAAAATAAAA
17839377 ATAAAATAAAATAAATAAAA
1 ATAAAATAAAA-AAATAAAA
17839397 ATGTAAAATACAAAAAATAAAA
1 A--TAAAATA-AAAAAATAAAA
*
17839419 ATAAAATGAAGAAAA-AAAA
1 ATAAAAT-AAAAAAATAAAA
17839438 ATA
1 ATA
17839441 TAGACTTACC
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.16
20 28 0.49
21 1 0.02
22 16 0.28
23 3 0.05
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (19 bp):
ATAAAATAAAAAAATAAAA
Found at i:17839674 original size:43 final size:43
Alignment explanation
Indices: 17839613--17839840 Score: 126
Period size: 41 Copynumber: 5.4 Consensus size: 43
17839603 TTTGATCAAA
** * *
17839613 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAAAGGCTCAATGACTTTGAGAAAAATAAATG
** ** * * *
17839656 GCTCCTCTAATTAAAGGCTCAACAACTTTAAAAAAAATAAATT
1 GCTCCTCTAAACAAAGGCTCAATGACTTTGAGAAAAATAAATG
* * * *
17839699 GCTCCTCTAAACAGAGGCACCATGACTTTGAG--AAGTAAACT-
1 GCTCCTCTAAACAAAGGCTCAATGACTTTGAGAAAAATAAA-TG
* * * * * * * *
17839740 GCTCTTTTAAACAGAGGCACCACGACTTTG-G-AAAGTAAATT
1 GCTCCTCTAAACAAAGGCTCAATGACTTTGAGAAAAATAAATG
* * * * * *
17839781 GTTCCTCTAAACAGAGGCACCATGACTTTGA-AAAAGTAAATT
1 GCTCCTCTAAACAAAGGCTCAATGACTTTGAGAAAAATAAATG
* *
17839823 ACTCCTCTAAACAGAGGC
1 GCTCCTCTAAACAAAGGC
17839841 ACCACAACTT
Statistics
Matches: 151, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
40 2 0.01
41 66 0.44
42 27 0.18
43 56 0.37
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (43 bp):
GCTCCTCTAAACAAAGGCTCAATGACTTTGAGAAAAATAAATG
Found at i:17839751 original size:41 final size:42
Alignment explanation
Indices: 17839693--17839870 Score: 261
Period size: 41 Copynumber: 4.3 Consensus size: 42
17839683 TTAAAAAAAA
*
17839693 TAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAG-AAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAG
* * *
17839734 TAAACTGCTCTTTTAAACAGAGGCACCACGACTTTG-GAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAG
* * *
17839775 TAAATTGTTCCTCTAAACAGAGGCACCATGACTTTGAAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAG
* *
17839817 TAAATTACTCCTCTAAACAGAGGCACCACAACTTTGAGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAG
17839859 TAAATTGCTCCT
1 TAAATTGCTCCT
17839871 TGACAATCAT
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 66 0.55
42 52 0.44
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (42 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAG
Found at i:17840906 original size:16 final size:15
Alignment explanation
Indices: 17840886--17840945 Score: 86
Period size: 14 Copynumber: 3.9 Consensus size: 15
17840876 ATTCACTTTT
17840886 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
17840901 TGTTTTTCATTTTTTTCA
1 --TTTTTCA-TTTTTTCA
17840919 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
17840934 -TTTTCATTTTTT
1 TTTTTCATTTTTT
17840946 TTTCAAGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.29
15 8 0.19
16 7 0.17
17 7 0.17
18 8 0.19
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:17840913 original size:6 final size:7
Alignment explanation
Indices: 17840886--17840944 Score: 57
Period size: 9 Copynumber: 7.7 Consensus size: 7
17840876 ATTCACTTTT
17840886 TTTTTCA
1 TTTTTCA
17840893 TTTTTTCA
1 -TTTTTCA
17840901 TGTTTTTCA
1 --TTTTTCA
17840910 TTTTTTTCA
1 --TTTTTCA
17840919 TTTTTCA
1 TTTTTCA
17840926 TTTTTTCA
1 -TTTTTCA
17840934 -TTTTCA
1 TTTTTCA
17840940 TTTTT
1 TTTTT
17840945 TTTTCAAGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
6 6 0.13
7 11 0.24
8 14 0.30
9 15 0.33
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:17840913 original size:7 final size:8
Alignment explanation
Indices: 17840885--17840945 Score: 83
Period size: 8 Copynumber: 7.8 Consensus size: 8
17840875 TATTCACTTT
17840885 TTTTTTCA
1 TTTTTTCA
17840893 TTTTTTCA
1 TTTTTTCA
17840901 TGTTTTTCA
1 T-TTTTTCA
17840910 TTTTTTTCA
1 -TTTTTTCA
17840919 -TTTTTCA
1 TTTTTTCA
17840926 TTTTTTCA
1 TTTTTTCA
17840934 --TTTTCA
1 TTTTTTCA
17840940 TTTTTT
1 TTTTTT
17840946 TTTCAAGCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.12
7 7 0.15
8 20 0.42
9 14 0.29
10 1 0.02
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:17840946 original size:9 final size:9
Alignment explanation
Indices: 17840884--17840937 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
17840874 TTATTCACTT
17840884 TTTTTTTCA
1 TTTTTTTCA
17840893 -TTTTTTCA
1 TTTTTTTCA
*
17840901 TGTTTTTCA
1 TTTTTTTCA
17840910 TTTTTTTCA
1 TTTTTTTCA
17840919 --TTTTTCA
1 TTTTTTTCA
17840926 -TTTTTTCA
1 TTTTTTTCA
17840934 TTTT
1 TTTT
17840938 CATTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
7 7 0.17
8 15 0.38
9 18 0.45
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:17840947 original size:16 final size:16
Alignment explanation
Indices: 17840886--17840946 Score: 83
Period size: 15 Copynumber: 3.9 Consensus size: 16
17840876 ATTCACTTTT
17840886 TTTTTCA-TTTTTTCA
1 TTTTTCATTTTTTTCA
17840901 TGTTTTTCATTTTTTTCA
1 --TTTTTCATTTTTTTCA
17840919 TTTTTCA-TTTTTTCA
1 TTTTTCATTTTTTTCA
17840934 -TTTTCATTTTTTT
1 TTTTTCATTTTTTT
17840947 TTCAAGCATA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.14
15 14 0.33
16 7 0.17
17 7 0.17
18 8 0.19
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:17840947 original size:25 final size:25
Alignment explanation
Indices: 17840884--17840950 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
17840874 TTATTCACTT
17840884 TTTTTTTCATTTTTTCATGTTTTTCA
1 TTTTTTTC-TTTTTTCATGTTTTTCA
*
17840910 TTTTTTTCATTTTTCAT-TTTTTCA
1 TTTTTTTCTTTTTTCATGTTTTTCA
17840934 TTTTCATTT-TTTTTTCA
1 TTTT--TTTCTTTTTTCA
17840951 AGCATAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.30
25 15 0.41
26 11 0.30
ACGTcount: A:0.12, C:0.12, G:0.01, T:0.75
Consensus pattern (25 bp):
TTTTTTTCTTTTTTCATGTTTTTCA
Found at i:17840948 original size:33 final size:33
Alignment explanation
Indices: 17840886--17840946 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
17840876 ATTCACTTTT
17840886 TTTTTCATTTTTTCATGTTTTTCATTTTTTTCA
1 TTTTTCATTTTTTCATGTTTTTCATTTTTTTCA
17840919 TTTTTCATTTTTTCA---TTTTCATTTTTTT
1 TTTTTCATTTTTTCATGTTTTTCATTTTTTT
17840947 TTCAAGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 13 0.46
33 15 0.54
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (33 bp):
TTTTTCATTTTTTCATGTTTTTCATTTTTTTCA
Found at i:17848186 original size:15 final size:16
Alignment explanation
Indices: 17848166--17848197 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17848156 TATTAAGTGT
17848166 AATGAATG-AAAATGC
1 AATGAATGAAAAATGC
17848181 AATGAATGAAAAATGC
1 AATGAATGAAAAATGC
17848197 A
1 A
17848198 TGTATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGAATGAAAAATGC
Found at i:17851370 original size:58 final size:57
Alignment explanation
Indices: 17851301--17851655 Score: 405
Period size: 58 Copynumber: 6.1 Consensus size: 57
17851291 GTTTTTGTGC
* * **
17851301 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAATTTTAATTTCG
1 AGGAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTGAAATTTTATTTTAA
17851359 AGGAAAATTGATACTTTCAACTTTTCCTAAAAA-ACCTTTTTTTGAAATTTTATTTTAA
1 AGGAAAATTGATACTTTCAACTTTTCCTAAAAATA--TTTTTTTGAAATTTTATTTTAA
* * **
17851417 AGGAAAATTGATACTTTCAAATTTTTCTCAAAAACCTTTTTTTGAAATTTTATTTTAA
1 AGGAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTTGAAATTTTATTTTAA
** *
17851475 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAA-TTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTTGAAATTTTATTTTAA
* * * * *
17851532 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-ATTTTTGAAAACTTTGATTTTCA
1 AGGAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTG-AAA-TTTTATTTTAA
* ** *
17851591 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTATTTTTA-TTTAA
1 AGGAAAATTGATACTTTCAACTTTT-CCTAAAAATAT-TTTTTTGAAATTTTATTTTAA
17851649 A-GAAAAT
1 AGGAAAAT
17851656 AGAATAATAA
Statistics
Matches: 263, Mismatches: 24, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
56 7 0.03
57 55 0.21
58 143 0.54
59 52 0.20
60 1 0.00
61 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (57 bp):
AGGAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTGAAATTTTATTTTAA
Found at i:17851439 original size:32 final size:32
Alignment explanation
Indices: 17851403--17851499 Score: 89
Period size: 32 Copynumber: 3.2 Consensus size: 32
17851393 CCTTTTTTTG
17851403 AAATTTTATTTTAAAGGAAAATTGATACTTTC
1 AAATTTTATTTTAAAGGAAAATTGATACTTTC
* * ** * *
17851435 AAATTTT-TCTCAAA--AACCTT--T-TTTTG
1 AAATTTTATTTTAAAGGAAAATTGATACTTTC
17851461 AAATTTTATTTTAAAGGAAAATTGATACTTTC
1 AAATTTTATTTTAAAGGAAAATTGATACTTTC
*
17851493 AACTTTT
1 AAATTTT
17851500 CCTCAAAAAC
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
26 10 0.22
27 6 0.13
29 8 0.17
31 6 0.13
32 16 0.35
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (32 bp):
AAATTTTATTTTAAAGGAAAATTGATACTTTC
Found at i:17851596 original size:174 final size:173
Alignment explanation
Indices: 17851301--17851624 Score: 447
Period size: 174 Copynumber: 1.9 Consensus size: 173
17851291 GTTTTTGTGC
* * *
17851301 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAATTTTAATTTCGAGGAAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAACATTCTTTTGAAATTTTAATTTCAAGAAAAA
* * *
17851366 TTGATACTTTCAACTTTTCCTAAAAAACCTTTTTTTGAAATTTTATTTTAAAGGAAAATTGATAC
66 TTGATACTTTCAACTTTTCCCAAAAAA-CTATTTTTGAAATTTGATTTTAAAGGAAAATTGATAC
* *
17851431 TTTCAAATTTTTCTCAAAAACCTTTTTTTGAAATTTTATTTTAA
130 TTTCAAATTTTCCCCAAAAACCTTTTTTTGAAATTTTATTTTAA
* * * *
17851475 AGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCTTTTTTTGAAA-TTTATTTTTAAGAAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCT-AAAAACATTCTTTTGAAATTTTAATTTCAAGAAAA
* *
17851538 ATTGATACTTTCAACTTTTCCCCAAAAA-TAATTTTTGAAAACTTTGATTTTCAAGGAAAATTGA
65 ATTGATACTTTCAACTTTTCCCAAAAAACT-ATTTTTG-AAA-TTTGATTTTAAAGGAAAATTGA
*
17851602 TACTTTCAACTTTTCCCCAAAAA
127 TACTTTCAAATTTTCCCCAAAAA
17851625 TATATTTTTT
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
171 1 0.01
172 6 0.05
173 44 0.34
174 80 0.61
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.42
Consensus pattern (173 bp):
AGGAAAATTGATACTTTCAACTTTTCCCTAAAAACATTCTTTTGAAATTTTAATTTCAAGAAAAA
TTGATACTTTCAACTTTTCCCAAAAAACTATTTTTGAAATTTGATTTTAAAGGAAAATTGATACT
TTCAAATTTTCCCCAAAAACCTTTTTTTGAAATTTTATTTTAA
Found at i:17851633 original size:116 final size:115
Alignment explanation
Indices: 17851304--17851624 Score: 466
Period size: 116 Copynumber: 2.8 Consensus size: 115
17851294 TTTGTGCAGG
* * *
17851304 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAATTTTAATTTCGAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGAAATTTTATTTTCAAGGAAAATTG
* *
17851369 ATACTTTCAACTTTTCCTAAAAAACCTTTTTTTGAAATTTTATTTTAAAGG
65 ATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGA
* * * *
17851420 AAAATTGATACTTTCAAATTTTTCTCAAAAACCT-TTTTTTGAAATTTTATTTTAAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAATTTTATTTTCAAGGAAAATT
*
17851484 GATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAA-TTTATTTTTAAGA
64 GATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGA
* *
17851535 AAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTGAAAACTTTGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG-AAA-TTTTATTTTCAAGGAAAATT
*
17851600 GATACTTTCAACTTTTCCCCAAAAA
64 GATACTTTCAACTTTTCCTCAAAAA
17851625 TATATTTTTT
Statistics
Matches: 183, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
113 1 0.01
114 6 0.03
115 42 0.23
116 131 0.72
117 2 0.01
118 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTTTATTTTCAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTAAAGA
Found at i:17851684 original size:17 final size:15
Alignment explanation
Indices: 17851663--17851742 Score: 63
Period size: 17 Copynumber: 5.0 Consensus size: 15
17851653 AATAGAATAA
17851663 TAAAACAAAATAAAAG
1 TAAAA-AAAATAAAAG
* *
17851679 TGAAAATAAATAAAAA
1 T-AAAAAAAATAAAAG
*
17851695 T-AAAAAAAGAAAAG
1 TAAAAAAAATAAAAG
*
17851709 TAAAACAAAAATAAAAA
1 T-AAA-AAAAATAAAAG
17851726 TAAAATAAAGATAAAAG
1 TAAAA-AAA-ATAAAAG
17851743 GAATATTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
14 11 0.22
15 1 0.02
16 18 0.36
17 20 0.40
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (15 bp):
TAAAAAAAATAAAAG
Found at i:17851700 original size:7 final size:6
Alignment explanation
Indices: 17851669--17851741 Score: 55
Period size: 6 Copynumber: 12.5 Consensus size: 6
17851659 ATAATAAAAC
* * * *
17851669 AAAATA AAAGTG AAAAT- -AAATA AAAATA AAAAAA GAAAAGT- AAAACA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAA-TA AAAATA
*
17851716 AAAATA AAAAT- AAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
17851742 GGAATATTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
4 4 0.08
5 5 0.10
6 39 0.75
7 4 0.08
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:17851724 original size:5 final size:5
Alignment explanation
Indices: 17851661--17851741 Score: 51
Period size: 5 Copynumber: 15.4 Consensus size: 5
17851651 AAAATAGAAT
*
17851661 AATAA AACAA AATAA AAGTGAA AAT-A AATAAA AATAA AA-AA AGA-AA
1 AATAA AATAA AATAA AA-T-AA AATAA AAT-AA AATAA AATAA A-ATAA
* *
17851707 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
17851742 GGAATATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
4 7 0.11
5 30 0.49
6 20 0.33
7 4 0.07
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:17851739 original size:11 final size:11
Alignment explanation
Indices: 17851651--17851741 Score: 66
Period size: 11 Copynumber: 8.4 Consensus size: 11
17851641 TTATTTAAAG
17851651 AAAATAGAATAAT
1 AAAATA-AA-AAT
*
17851664 AAAA-CAAAAT
1 AAAATAAAAAT
*
17851674 AAAAGTGAAAAT
1 AAAA-TAAAAAT
17851686 -AAATAAAAAT
1 AAAATAAAAAT
*
17851696 AAAA-AAAGA-
1 AAAATAAAAAT
*
17851705 AAAGTAAAACA-
1 AAAATAAAA-AT
17851716 AAAATAAAAAT
1 AAAATAAAAAT
*
17851727 AAAATAAAGAT
1 AAAATAAAAAT
17851738 AAAA
1 AAAA
17851742 GGAATATTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
9 3 0.05
10 21 0.33
11 31 0.48
12 5 0.08
13 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:17851772 original size:4 final size:4
Alignment explanation
Indices: 17851765--17851807 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
17851755 AACCTAATCT
* *
17851765 AATA AATA AAAA AATA AATA AACA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
17851808 TAAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:17851782 original size:12 final size:12
Alignment explanation
Indices: 17851765--17851815 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
17851755 AACCTAATCT
17851765 AATAAATAAAAA
1 AATAAATAAAAA
*
17851777 AATAAATAAACA
1 AATAAATAAAAA
*
17851789 AATAAATAAATA
1 AATAAATAAAAA
17851801 AATAAATTAAAAA
1 AATAAA-TAAAAA
17851814 AA
1 AA
17851816 AACTGGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
12 28 0.80
13 7 0.20
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:17852856 original size:39 final size:40
Alignment explanation
Indices: 17852792--17852901 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 40
17852782 CCTAAGATAA
* * * *
17852792 AAAATAATAATAGA-AGAAAAGAAAAAAT-ATATACATATAT
1 AAAATAATAATA-ATA-AAAATAAAAAATAAAATAAAAATAT
*
17852832 AAAATAATAATAATAAAAAT-AAAAATAAAATAAAAATGT
1 AAAATAATAATAATAAAAATAAAAAATAAAATAAAAATAT
*
17852871 AAAATACA-AAAAATAAAAAT-AAAAATAAAAT
1 AAAATA-ATAATAATAAAAATAAAAAATAAAAT
17852902 GAAGAAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
38 6 0.10
39 41 0.67
40 14 0.23
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (40 bp):
AAAATAATAATAATAAAAATAAAAAATAAAATAAAAATAT
Found at i:17852867 original size:6 final size:6
Alignment explanation
Indices: 17852837--17852900 Score: 67
Period size: 6 Copynumber: 10.2 Consensus size: 6
17852827 TATATAAAAT
* *
17852837 AATAAT AATAAA AATAAA AAT-AA AATAAA AATGTAAA ATACAAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA--TAAA A-A-TAAA AATAAA
17852888 AATAAA AATAAA A
1 AATAAA AATAAA A
17852901 TGAAGAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.10
6 34 0.68
7 1 0.02
8 9 0.18
9 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:17854837 original size:19 final size:19
Alignment explanation
Indices: 17854815--17854855 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17854805 TAGGTTTTCT
**
17854815 TTTTTCTTTTTGTTTTTAA
1 TTTTTCTTTTAATTTTTAA
*
17854834 TTTTTGTTTTAATTTTTAA
1 TTTTTCTTTTAATTTTTAA
17854853 TTT
1 TTT
17854856 ATTTATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTTAATTTTTAA
Found at i:17854888 original size:6 final size:6
Alignment explanation
Indices: 17854815--17854980 Score: 64
Period size: 6 Copynumber: 26.3 Consensus size: 6
17854805 TAGGTTTTCT
* * * * **
17854815 TTTTTC TTTTTG TTTTTAA TTTTTG TTTTAA TTTTTAA TTTATTTA TTTTGG
1 TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTT-A -TT-TTTA TTTTTA
* * * *
17854867 TGTTGA TTTTTA -TTTTA TTTTTTA TGTTTA CTTTTTA TTTTTA TGATATTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA -TTTTTA TTTTTA T--TTTTA
* * * * * * * * *
17854918 TTGTTG TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
17854966 TTGTTA TTTTATA TT
1 TTTTTA TTTT-TA TT
17854981 ATTACTAGTA
Statistics
Matches: 129, Mismatches: 21, Indels: 19
0.76 0.12 0.11
Matches are distributed among these distances:
5 5 0.04
6 91 0.71
7 22 0.17
8 8 0.06
9 3 0.02
ACGTcount: A:0.21, C:0.01, G:0.07, T:0.71
Consensus pattern (6 bp):
TTTTTA
Found at i:17854889 original size:13 final size:12
Alignment explanation
Indices: 17854873--17854907 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
17854863 TTGGTGTTGA
*
17854873 TTTTTATTTTAT
1 TTTTTATTTTAC
17854885 TTTTTATGTTTAC
1 TTTTTAT-TTTAC
17854898 TTTTTATTTT
1 TTTTTATTTT
17854908 TATGATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTAC
Found at i:17854930 original size:3 final size:3
Alignment explanation
Indices: 17854913--17854984 Score: 103
Period size: 3 Copynumber: 24.7 Consensus size: 3
17854903 ATTTTTATGA
* *
17854913 TAT TAT TGT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
17854961 TAT TAT TGT TAT T-T TA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
17854985 CTAGTAATAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 4 0.06
3 59 0.94
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17855209 original size:19 final size:19
Alignment explanation
Indices: 17855185--17855226 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
17855175 TTTGCTAAAA
17855185 AAATAAAATTAAAAAA-GAT
1 AAATAAAA-TAAAAAATGAT
17855204 AAATAAAATAAAAAATGAT
1 AAATAAAATAAAAAATGAT
17855223 AAAT
1 AAAT
17855227 TGTTTAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATAAAATAAAAAATGAT
Found at i:17856916 original size:16 final size:15
Alignment explanation
Indices: 17856891--17856920 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17856881 TAATTACTAA
17856891 CTCTATTTTGTTTTG
1 CTCTATTTTGTTTTG
17856906 CTCTCATTTTGTTTT
1 CTCT-ATTTTGTTTT
17856921 AATGATCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.17, G:0.10, T:0.67
Consensus pattern (15 bp):
CTCTATTTTGTTTTG
Found at i:17859482 original size:16 final size:14
Alignment explanation
Indices: 17859448--17859474 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17859438 CTTTTTCCCA
17859448 AAAATATTTTTTTG
1 AAAATATTTTTTTG
17859462 AAAATATTTTTTT
1 AAAATATTTTTTT
17859475 AGGAAAATTG
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:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
AAAATATTTTTTTG
Found at i:17859732 original size:58 final size:58
Alignment explanation
Indices: 17859573--17860194 Score: 724
Period size: 58 Copynumber: 10.5 Consensus size: 58
17859563 TTTTTAGAAT
* *
17859573 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATAC
1 TTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTT-ATTTTCAAGGAAAATTGATAC
** *
17859633 TTTCAACTTTT-CCTCAAAAAGCCTTTTTTGAAAA-TTTATTTTTAAGGAAAATTGATAC
1 TTTCAACTTTTCCCT-AAAAA-TATTTTTTGAAAATTTTATTTTCAAGGAAAATTGATAC
17859691 TTTCAAC-TTTCCCTAAAAATATTTTTTGAAAATTTTGATTTTCAAGGAAAATTGATAC
1 TTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTT-ATTTTCAAGGAAAATTGATAC
* * * * *
17859749 TTTCAACTTTTCCCAAAAAATCCTTTGTTTTTGAAAATTTATTTTTTTAAGAAAAATTGATAC
1 TTTCAACTTTTCCCTAAAAA---TAT-TTTTTGAAAATTT-TATTTTCAAGGAAAATTGATAC
*
17859812 TTTCAACTTTTCCCT-AAAATATTTTTTGAAAATTTTGATTTTCAAAGAAAATTGATAC
1 TTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTT-ATTTTCAAGGAAAATTGATAC
* *
17859870 TTTTAACTTTT-CCTCAAAAATCTTTTTTTGGAAAA-TTTACTTTT-AAGGAAAATTGATAC
1 TTTCAACTTTTCCCT-AAAAAT-ATTTTTT-GAAAATTTTA-TTTTCAAGGAAAATTGATAC
*
17859929 TTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATAC
1 TTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTT-ATTTTCAAGGAAAATTGATAC
*** * *
17859989 TTTCAACTTTT-CCTCAAAAGCCCTTTTTTGAAAA-TTTATTTTTAAGGAAAGTTGATAC
1 TTTCAACTTTTCCCT-AAAA-ATATTTTTTGAAAATTTTATTTTCAAGGAAAATTGATAC
* *
17860047 TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATAC
1 TTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTT-ATTTTCAAGGAAAATTGATAC
* * * * *
17860107 TTTCAACTTTT-CCTCAAAAATCTTTTTTTAAAAATTTATTTTTAAGAAAAATTGATAC
1 TTTCAACTTTTCCCT-AAAAATATTTTTTGAAAATTTTATTTTCAAGGAAAATTGATAC
* *
17860165 TTTCACCTTTTCCCCAAAAATATTTTTTGA
1 TTTCAACTTTTCCCTAAAAATATTTTTTGA
17860195 TTTTTATTTA
Statistics
Matches: 483, Mismatches: 49, Indels: 62
0.81 0.08 0.10
Matches are distributed among these distances:
56 11 0.02
57 15 0.03
58 187 0.39
59 94 0.19
60 119 0.25
61 5 0.01
62 6 0.01
63 45 0.09
64 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
TTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTTATTTTCAAGGAAAATTGATAC
Done.